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tRNAscan-SE Analysis of Aspergillus fumigatus

>> Main Overview >> tRNAs by Isotype >> tRNAs by Locus >> Secondary Structures >> tRNA Alignments >> FASTA Seqs >> Run Options/Stats >> Analysis Notes >> Genome DB >> Genome Seq

tRNAs Sorted by tRNA Isoacceptor Type plain text version [Ala] [Arg] [Asn] [Asp] [Cys] [Gln] [Glu] [Gly] [His] [Ile] [Leu] [Lys] [Met] [Phe] [Pro] [Ser] [Thr] [Trp] [Tyr] [Val] [Selenocysteine] [Possible pseudogene] [Undetermined] Sequence Name tRNA # tRNA Bounds tRNA Isotype Anticodon Upstream Region Downstream Region Intron Bounds Scores First-Pass Scanner Begin End Begin End Total (Cove) HMM 2' Str chr2 2 935026 935097 Ala AGC ccaacaaatc actttttttg 0 0 74.84 49.75 25.09 Both chr2 21 937016 936945 Ala AGC agcatcagtt ttttttgctt 0 0 74.84 49.75 25.09 Both chr2 22 934042 933971 Ala AGC ccatcaaaat actttttgtg 0 0 74.84 49.75 25.09 Both chr2 3 937478 937549 Ala AGC atcatctatt ttttttttaa 0 0 74.84 49.75 25.09 Both chr3 21 741446 741375 Ala AGC tcaacaagtt ctttttgtct 0 0 74.84 49.75 25.09 Both chr3 25 289763 289692 Ala AGC ttcaacaatt ttttttgaat 0 0 74.84 49.75 25.09 Both chr3 5 531049 531120 Ala AGC tccaccaact ttttttgcct 0 0 74.84 49.75 25.09 Both chr7 6 1156256 1156327 Ala AGC atcaacaaat ttttttgctt 0 0 74.84 49.75 25.09 Both chr5 27 2654429 2654358 Ala CGC tatcatcact tttcattttt 0 0 82.54 59.04 23.50 Both chr8 7 1422869 1422953 Ala CGC ccaataagac cttttttttc 1422905 1422917 71.56 49.36 22.20 Both chr5 4 1440602 1440673 Ala TGC acatcatatt agttttttgg 0 0 81.20 58.23 22.97 Both chr5 3 1440395 1440499 Ala TGC tgacacaaat ttttttgcca 1440432 1440463 58.41 41.36 17.05 Both chr2 6 2549759 2549860 Ala TGC accaacgaat atttttgatt 2549796 2549824 60.01 42.96 17.05 Both   chr2 25 87180 87109 Arg ACG acaacaacca ttttttaaaa 0 0 75.55 55.92 19.63 Both chr2 8 2993163 2993234 Arg ACG gtcatcagat tttttttttg 0 0 75.55 55.92 19.63 Both chr3 6 821186 821257 Arg ACG ccttcaataa aaattttttt 0 0 75.55 55.92 19.63 Both chr6 10 3587601 3587672 Arg ACG gtatcaacaa ctctttttgc 0 0 75.55 55.92 19.63 Both chr6 11 3438601 3438530 Arg ACG ccatcagcaa ttttttaaat 0 0 75.55 55.92 19.63 Both chr6 14 847831 847760 Arg ACG ccttcaagaa ttctttttgt 0 0 75.55 55.92 19.63 Both chr6 16 713999 713928 Arg ACG acgtcaacaa tcattttttt 0 0 75.55 55.92 19.63 Both chr7 7 994880 994809 Arg ACG caacaagctt tttttctttt 0 0 76.08 56.93 19.15 Both chr2 19 1651778 1651707 Arg ACG ttaacaactt atcttttaaa 0 0 76.87 55.92 20.95 Both chr3 9 2342082 2342153 Arg CCG gccatcaacc tttctttttt 0 0 65.23 37.86 27.37 Both chr3 10 2345014 2345085 Arg CCG tatagaatcg catctttttt 0 0 65.96 38.59 27.37 Both chr6 17 596224 596153 Arg CCT tgagcttact aattttttac 0 0 71.52 46.90 24.62 Both chr8 17 648049 647970 Arg CCT ggctacaaaa accttttttt 648013 648006 60.99 39.84 21.15 Both chr3 23 493923 493852 Arg TCG caagcaagtc tatccttttt 0 0 69.93 45.45 24.48 Both chr3 17 1149522 1149451 Arg TCG ccaatcacag cattttttta 0 0 75.02 55.19 19.83 Both chr7 2 114031 114102 Arg TCT tatatcagca tttctttttt 0 0 77.85 54.77 23.08 Both   chr3 26 179048 178975 Asn GTT caacaagcaa aattttttgt 0 0 79.12 57.63 21.49 Both chr5 15 3372970 3373059 Asn GTT acaataacaa acttcttttt 3373008 3373023 66.22 46.96 19.26 Both chr5 20 3373659 3373563 Asn GTT ccaatcagat tttttttgta 3373621 3373599 64.72 45.45 19.27 Both chr5 19 3374293 3374204 Asn GTT ttcaacattc gatttctttt 3374255 3374240 66.22 46.96 19.26 Both chr5 18 3374656 3374565 Asn GTT ccatctaatg tttttttggt 3374618 3374601 67.53 48.64 18.89 Both   chr8 5 1023658 1023746 Asp GTC ttccaacaga gatttctttt 1023695 1023711 57.72 36.43 21.29 Both chr2 20 1301538 1301452 Asp GTC ttaataaata atttttttct 1301501 1301487 57.47 36.17 21.30 Both chr8 6 1409471 1409558 Asp GTC cactaagaaa atttcctttt 1409508 1409523 57.73 36.43 21.30 Both chr1 12 2727249 2727336 Asp GTC tatatcccca aaattttttg 2727286 2727301 56.96 35.66 21.30 Both chr6 18 490809 490721 Asp GTC gcctaagaaa atttcttttt 490772 490756 58.49 37.20 21.29 Both chr1 1 766126 766213 Asp GTC atatctctca gatacatttt 766163 766178 57.73 36.44 21.29 Both chr1 32 767355 767268 Asp GTC tcaataaata aattattttc 767318 767303 57.73 36.44 21.29 Both chr3 20 900660 900573 Asp GTC cagcaagaaa atttcttttg 900623 900608 58.23 36.93 21.30 Both chr3 19 979297 979210 Asp GTC cttcaacaaa atttcttttt 979260 979245 56.95 35.66 21.29 Both   chr3 4 395422 395493 Cys GCA gtcccgacca gttttttacc 0 0 71.41 52.22 19.19 Both chr3 24 401933 401862 Cys GCA ccaaccaata tcttttttct 0 0 71.64 52.64 19.00 Both chr5 16 3703632 3703727 Cys GCA atcaacaaaa aattttttgt 3703668 3703691 58.99 37.73 21.26 Both   chr8 8 1428297 1428368 Gln CTG ccaacgagcg caccgatttc 0 0 63.14 39.59 23.55 Both chr1 29 2279068 2278997 Gln CTG taagtgacat ttggtttctc 0 0 64.64 42.46 22.18 Both chr1 9 2282077 2282148 Gln CTG aacaagagcg tacactttta 0 0 64.64 42.46 22.18 Both chr1 10 2282224 2282295 Gln CTG actgtgttcc ggaaagcctc 0 0 65.89 44.50 21.39 Both chr1 28 2280625 2280554 Gln CTG atagataatt tctttttttt 0 0 65.89 44.50 21.39 Both chr1 8 2281487 2281558 Gln CTG agcgtccttt ttctggcatc 0 0 65.89 44.50 21.39 Both chr8 14 1106893 1106808 Gln TTG aacagaaatc tcctttttcg 1106856 1106843 63.13 40.73 22.40 Both chr6 2 248352 248435 Gln TTG gacatcaatt tctttttctt 248389 248400 60.03 36.31 23.72 Both   chr5 12 3206972 3207043 Glu CTC aacaaagtcg gcagctatct 0 0 57.70 28.70 29.00 Both chr5 14 3207575 3207646 Glu CTC ttcaaccaag gaagcaattt 0 0 57.70 28.70 29.00 Both chr5 17 3575251 3575180 Glu CTC agcatcagaa taactttttt 0 0 57.70 28.70 29.00 Both chr5 21 3208796 3208725 Glu CTC tccaataaca gaagacaaat 0 0 57.70 28.70 29.00 Both chr5 22 3208340 3208269 Glu CTC ccgcaagtta cttaacaacg 0 0 57.70 28.70 29.00 Both chr5 34 1723131 1723060 Glu CTC tcagcaatcg tcccttcttt 0 0 57.70 28.70 29.00 Both chr5 5 1723332 1723403 Glu CTC ctcaacaaca ttccttcttt 0 0 57.70 28.70 29.00 Both chr1 20 4489501 4489430 Glu CTC gcaatgaaag ctcagttctt 0 0 62.13 32.94 29.19 Both chr1 3 1380646 1380717 Glu TTC catcaatcag ctcaattaaa 0 0 51.51 22.31 29.20 Both chr1 31 1387319 1387248 Glu TTC gccaacatcg tccatattta 0 0 51.51 22.31 29.20 Both chr1 4 1380814 1380885 Glu TTC ctgcaaataa cttatcttct 0 0 56.66 27.46 29.20 Both chr2 7 2619790 2619861 Glu TTC ctatcattgc tacaatcttt 0 0 65.66 35.74 29.92 Both   chr4 9 2307984 2307898 Gly CCC ccataacagc ctctttttgc 2307947 2307933 60.39 34.58 25.81 Both chr1 13 2907410 2907480 Gly GCC ttgcagttta tggaaaattc 0 0 66.83 40.56 26.27 Both chr1 7 1651256 1651326 Gly GCC acaacagcca tgtctctttc 0 0 66.83 40.56 26.27 Both chr2 23 465305 465235 Gly GCC ttaataagaa atcacttttc 0 0 66.83 40.56 26.27 Both chr3 13 3556767 3556837 Gly GCC accagttgaa tttgactttt 0 0 66.83 40.56 26.27 Both chr4 6 3650153 3650223 Gly GCC tcaagcaatg ttcattgttg 0 0 66.83 40.56 26.27 Both chr4 8 2409096 2409026 Gly GCC ataataacta ttctttcatt 0 0 66.83 40.56 26.27 Both chr5 33 1903658 1903588 Gly GCC ataacaacga tttttcccaa 0 0 66.83 40.56 26.27 Both chr5 35 321680 321610 Gly GCC tcaattggta ttacttttta 0 0 66.83 40.56 26.27 Both chr5 9 3086241 3086311 Gly GCC tcatatagta tgagaatttt 0 0 66.83 40.56 26.27 Both chr6 9 3477652 3477722 Gly GCC tcaacaacta ttcttttttt 0 0 66.83 40.56 26.27 Both chr8 16 665850 665780 Gly GCC ccaaggaaca ttaaaattga 0 0 66.83 40.56 26.27 Both chr1 19 4157779 4157850 Gly TCC cataacaaca tatctttttt 0 0 71.91 47.12 24.79 Both chr5 30 2561769 2561698 Gly TCC ttcatccaca tcatttcttt 0 0 71.91 47.12 24.79 Both chr7 4 220338 220409 Gly TCC ccacaagtca ttatttttcc 0 0 71.91 47.12 24.79 Both   chr5 8 2557308 2557378 His GTG cgatatcaaa atatcttatc 0 0 59.31 42.91 16.40 Both chr5 29 2565008 2564938 His GTG tcaaaaattc gtaatctgac 0 0 67.88 43.09 24.79 Both chr8 11 1618840 1618770 His GTG tcaacaatca caaattccag 0 0 67.88 43.09 24.79 Both chr4 5 3470061 3470144 His GTG atcaaatcaa accactggcg 3470098 3470109 54.03 34.70 19.33 Both   chr3 1 108846 108919 Ile AAT ctcaacaatt tttttttact 0 0 75.60 49.25 26.35 Both chr4 10 1817040 1816967 Ile AAT atcaacaact ttttttgttg 0 0 75.60 49.25 26.35 Both chr8 12 1434776 1434703 Ile AAT accaagaact ttttttttgc 0 0 75.60 49.25 26.35 Both chr3 11 2793260 2793333 Ile AAT tctccacaaa gttttttgga 0 0 76.01 50.32 25.69 Both chr3 12 2793697 2793770 Ile AAT atagggatta tttttttgaa 0 0 76.01 50.32 25.69 Both chr3 16 2792050 2791977 Ile AAT ctcccaaatg tatttttact 0 0 76.01 50.32 25.69 Both chr8 15 970558 970485 Ile AAT acatcaacct aatttttttt 0 0 76.01 50.32 25.69 Both chr4 12 913009 912922 Ile TAT caccaactac cgtttttttg 912971 912958 65.84 36.00 29.84 Both   chr3 7 2145343 2145455 Leu AAG agcatgtaat gatgcgtttt 2145382 2145409 57.90 38.07 19.83 Both chr2 16 2412140 2412028 Leu AAG acacaaccaa tttatttttt 2412101 2412074 57.12 37.29 19.83 Both chr5 28 2570024 2569912 Leu AAG aagtaatcaa tttatttttt 2569985 2569958 56.98 37.15 19.83 Both chr2 9 3830552 3830664 Leu AAG aatacatcaa gtaatctttt 3830591 3830618 58.39 38.56 19.83 Both chr2 13 4667163 4667051 Leu AAG cgccgtacaa tttttatctt 4667124 4667097 56.20 36.38 19.82 Both chr7 8 817375 817263 Leu AAG tgcatagtcg tttctttttt 817336 817309 59.66 39.84 19.82 Both chr4 7 3456679 3456566 Leu CAA cacccaaaat tgctttcttt 3456642 3456610 58.46 38.12 20.34 Both chr4 4 3456951 3457064 Leu CAA acacagtaat tattgtattt 3456988 3457020 58.46 38.12 20.34 Both chr6 12 3400535 3400425 Leu CAG attacctaat ttcattacaa 3400497 3400469 55.71 32.59 23.12 Both chr6 8 3401235 3401345 Leu CAG tgtgaagcat tattcttctt 3401273 3401301 52.62 29.49 23.13 Both chr2 10 4365818 4365928 Leu CAG tcacatcaaa tttcatgttt 4365856 4365884 57.01 34.62 22.39 Both chr7 13 87486 87376 Leu CAG gatcagttca ttcatcttct 87448 87420 55.20 32.08 23.12 Both chr5 25 2691226 2691096 Leu TAA tgactaaaga tcttttttgc 2691189 2691140 56.82 30.06 26.76 Both   Sequence Name tRNA # tRNA Bounds tRNA Isotype Anticodon Upstream Region Downstream Region Intron Bounds Scores First-Pass Scanner Begin End Begin End Total (Cove) HMM 2' Str chr7 10 632409 632337 Lys CTT taatccagtg tcattttttg 0 0 72.66 50.39 22.27 Both chr2 14 4182933 4182861 Lys CTT aacgagttcc ctttttttat 0 0 76.76 54.49 22.27 Both chr3 14 3583456 3583528 Lys CTT aacaagagca ttcttttttg 0 0 76.76 54.49 22.27 Both chr3 15 3571414 3571342 Lys CTT aacaagagca ttcctttttg 0 0 76.76 54.49 22.27 Both chr3 18 1149267 1149195 Lys CTT atatctccca tctctttttc 0 0 76.76 54.49 22.27 Both chr5 26 2687508 2687436 Lys CTT atgtcagctc tctttttttc 0 0 76.76 54.49 22.27 Both chr7 11 631929 631857 Lys CTT caaaacagcc gtcttttttg 0 0 76.76 54.49 22.27 Both chr7 9 632559 632487 Lys CTT taaagcggca ttcatttttg 0 0 76.76 54.49 22.27 Both chr5 1 883190 883272 Lys TTT aacaaataca gatttccttt 883228 883236 71.51 45.95 25.56 Both   chr5 31 2538536 2538465 Met CAT aagacaagcc tctgattctt 0 0 75.63 48.84 26.79 Both chr5 32 2538092 2538021 Met CAT cttaatccca tccgttttct 0 0 75.63 48.84 26.79 Both chr5 7 2535907 2535978 Met CAT atcaatccca tctgttttct 0 0 75.63 48.84 26.79 Both chr8 9 1674926 1674997 Met CAT atacaacaac tttgatttct 0 0 75.63 48.84 26.79 Both chr1 5 1461859 1461966 Met CAT tgcaacgatt ctttttgcat 1461897 1461930 72.25 49.09 23.16 Both chr8 10 1756466 1756578 Met CAT cataacaatt gttcttcttt 1756504 1756542 68.06 42.96 25.10 Both chr3 8 2210063 2210170 Met CAT cgctatagcc gttaggctag 2210101 2210134 72.89 49.73 23.16 Both chr2 12 4722232 4722338 Met CAT actcagcaat cgtttttttt 4722270 4722302 72.49 49.33 23.16 Both   chr3 2 115480 115567 Phe GAA attatcagat ttactttttt 115517 115531 68.72 46.44 22.28 Both chr5 24 3169547 3169460 Phe GAA tccatcaatt ttcgtttttg 3169510 3169496 72.33 46.25 26.08 Both chr5 23 3169866 3169779 Phe GAA cccgtaaatt gttttttgta 3169829 3169815 72.47 46.39 26.08 Both chr5 10 3171825 3171912 Phe GAA accatcaatt ttcgtttttt 3171862 3171876 72.33 46.25 26.08 Both chr5 11 3171999 3172086 Phe GAA atcactcact ttcttttttc 3172036 3172050 71.21 47.42 23.79 Both   chr1 14 3107447 3107536 Pro AGG accaacgatt gtatcttttt 3107483 3107500 65.92 41.11 24.81 Both chr6 7 3140471 3140558 Pro AGG taaaacagtt ctgacccttc 3140507 3140522 66.16 41.35 24.81 Both chr1 17 3802349 3802437 Pro AGG cttcatagtt aacaacatct 3802385 3802401 66.43 41.62 24.81 Both chr3 22 577205 577117 Pro AGG acagcacatt aaccttcact 577169 577153 67.07 42.25 24.82 Both chr4 13 722485 722398 Pro AGG atcatcgcaa gttccttttt 722449 722434 66.31 41.49 24.82 Both chr1 21 4333677 4333579 Pro CGG ataaatactt tcctatttta 4333641 4333614 54.28 24.91 29.37 Both chr7 5 689334 689419 Pro CGG cgaaaatatt acacgtttct 689370 689384 53.62 26.32 27.30 Both chr1 25 3698876 3698805 Pro TGG catatcaaat tttcaatttt 0 0 71.85 46.67 25.18 Both chr5 13 3207244 3207315 Pro TGG cataccaaac agtctttctt 0 0 71.85 46.67 25.18 Both   chr1 30 1609041 1608961 Ser AGA aataacttca tttctttttt 0 0 70.79 37.30 33.49 Both chr1 6 1609608 1609688 Ser AGA gcacacctaa tttctttttt 0 0 70.79 37.30 33.49 Both chr2 1 463802 463882 Ser AGA tataagctca tttttttgta 0 0 70.79 37.30 33.49 Both chr2 4 1301238 1301318 Ser AGA acatccattg acaatttctt 0 0 70.79 37.30 33.49 Both chr4 1 420996 421076 Ser AGA atcatcattt atctttttta 0 0 70.79 37.30 33.49 Both chr7 12 133143 133017 Ser CGA tgcacaaaca agttctctca 133106 133061 62.02 38.25 23.77 Both chr7 3 133533 133629 Ser CGA ccaacaacct gttttttttt 133570 133585 70.47 49.23 21.24 Both chr1 11 2426522 2426602 Ser GCT ttaggtatca tcacactcat 0 0 82.08 56.02 26.06 Both chr1 26 2425996 2425916 Ser GCT tccgtcttta tcccgttctt 0 0 82.08 56.02 26.06 Both chr1 27 2425454 2425374 Ser GCT cttatctatt ttccagcgag 0 0 82.08 56.02 26.06 Both chr6 4 874333 874413 Ser GCT agcaccattg tgcgcaatat 0 0 82.08 56.02 26.06 Both chr1 2 917096 917192 Ser TGA atcaacaaca tttctttttt 917133 917148 68.58 49.01 19.57 Both   chr2 24 143028 142956 Thr AGT caaccaatca tttttttgtc 0 0 84.01 58.08 25.93 Both chr3 3 163221 163293 Thr AGT tcttcaacga tttctttttc 0 0 84.01 58.08 25.93 Both chr4 2 2000974 2001046 Thr AGT atatctacca ctctttttgt 0 0 84.01 58.08 25.93 Both chr4 3 2410166 2410238 Thr AGT atatctgcca tttttttgcc 0 0 84.01 58.08 25.93 Both chr6 13 2164940 2164868 Thr AGT agcagcgaga ttttttttct 0 0 84.01 58.08 25.93 Both chr6 6 2165147 2165219 Thr AGT tatccaatca ttactttttg 0 0 84.01 58.08 25.93 Both chr2 11 4499991 4500062 Thr CGT tcccgtcgtg gtgatttttt 0 0 82.80 55.97 26.83 Both chr6 5 1574776 1574860 Thr CGT ctaacgaatt ttttttctat 1574812 1574824 71.97 50.48 21.49 Both chr4 11 1213130 1213043 Thr TGT atacacacat ttacaatgct 1213094 1213079 76.20 51.05 25.15 Both chr6 3 617113 617210 Thr TGT tcaagaaata tttctttttt 617150 617174 63.28 39.06 24.22 Both chr5 2 883581 883709 Thr TGT tcatgaaata cttcacattt 883619 883673 56.44 31.54 24.90 Eufind   chr2 17 1691252 1691180 Trp CCA atatacattt taccgtcttt 0 0 59.83 35.98 23.85 Both chr2 18 1690720 1690648 Trp CCA ctcaacagtt ctttcttttt 0 0 59.83 35.98 23.85 Both chr2 5 1691910 1691982 Trp CCA gccaccgaaa taccatcttt 0 0 59.83 35.98 23.85 Both   chr1 15 3759573 3759657 Tyr GTA accaacaaaa tgttatcttt 3759611 3759621 69.98 49.32 20.66 Both chr1 16 3760089 3760173 Tyr GTA gtgtcctaaa gtcaagagac 3760127 3760137 69.34 48.68 20.66 Both chr1 24 3760797 3760713 Tyr GTA atctcggaaa taagagatat 3760759 3760749 69.98 49.32 20.66 Both chr1 23 3761229 3761145 Tyr GTA catccttgaa ttaggacaac 3761191 3761181 69.34 48.68 20.66 Both chr1 22 3761792 3761708 Tyr GTA aacctacaaa ttaggggtta 3761754 3761744 69.34 48.68 20.66 Both   chr6 15 809379 809244 Undet ??? tccaataata ttatcttttt 0 0 39.26 25.55 13.71 Eufind   chr8 3 1011735 1011808 Val AAC tccaacaatt taattttttt 0 0 73.95 49.15 24.80 Both chr6 1 126214 126287 Val AAC gtgcaacaat tgttcttttt 0 0 75.17 49.02 26.15 Both chr7 1 103767 103840 Val AAC caacaagtaa cttgttctat 0 0 75.17 49.02 26.15 Both chr8 1 1009806 1009879 Val AAC ttcaacagtt cttgttgttc 0 0 75.17 49.02 26.15 Both chr8 13 1315335 1315262 Val AAC ctttaacaat ttctttcttt 0 0 75.17 49.02 26.15 Both chr8 4 1016439 1016512 Val AAC tttatcaatt ttgtcttttt 0 0 75.17 49.02 26.15 Both chr8 2 1010165 1010238 Val AAC cttaacagtt tcttttttct 0 0 76.83 50.67 26.16 Both chr2 15 3631928 3631830 Val CAC aacaagcaac gtttttttat 3631891 3631866 65.23 34.74 30.49 Both chr1 18 3909273 3909368 Val CAC ttcaacaagc ctttttgttt 3909310 3909332 62.98 32.95 30.03 Both chr5 6 2114322 2114394 Val TAC ttcaacaatg ttttttgcat 0 0 82.61 58.75 23.86 Both

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The Genomic tRNA Database is curated by Todd Lowe and Patricia Chan. Please email lowe@soe.ucsc.edu with any questions and comments. To submit corrections, please use our Bug and Request Tracking System.