# fasta34 tRNK.fasta bs_genome.fasta FASTA searches a protein or DNA sequence data bank version 3.4t25 Nov 12, 2004 Please cite: W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448 U00096, 76 nt vs bs_genome.fasta library opt E() < 20 0 0: 22 0 0: one = represents 1 library sequences 24 0 0: 26 0 0: 28 0 0: 30 0 0: 32 0 0: 34 1 1:* 36 3 1:*== 38 0 2: * 40 0 3: * 42 10 3:==*======= 44 4 4:===* 46 1 4:= * 48 6 4:===*== 50 2 3:==* 52 2 3:==* 54 2 3:==* 56 3 2:=*= 58 0 2: * 60 2 1:*= 62 2 1:*= 64 0 1:* 66 0 1:* 68 0 1:* 70 1 0:= 72 0 0: 74 1 0:= 76 1 0:= 78 0 0: 80 0 0: 82 0 0: 84 0 0: 86 0 0: 88 0 0: 90 0 0: 92 0 0: 94 0 0: 96 0 0: 98 0 0: 100 0 0: 102 0 0: 104 0 0: 106 0 0: 108 0 0: 110 0 0: 112 0 0: 114 0 0: 116 0 0: 118 0 0: >120 1 0:= 474432 residues in 21 sequences MLE_cen statistics: Lambda= 0.1636; K=0.006461 (cen=2) Kolmogorov-Smirnov statistic: 0.0924 (N=15) at 44 FASTA (3.47 Mar 2004) function [optimized, +5/-4 matrix (5:-4)] ktup: 6 join: 45, opt: 30, open/ext: -12/-4, width: 16 The best scores are: opt bits E(21) Z99104 Z99104 Bacillus subtilis complete genom (213080) [f] 326 84.2 1.6e-18 Z99105 Z99105 Bacillus subtilis complete genom (202768) [f] 77 25.4 0.78 Z99106 Z99106 Bacillus subtilis complete genom (195912) [f] 75 25.0 1.1 Z99120 Z99120 Bacillus subtilis complete genom (201059) [r] 72 24.3 1.7 Z99118 Z99118 Bacillus subtilis complete genom (200707) [r] 66 22.9 4.5 Z99124 Z99124 Bacillus subtilis complete genom (203901) [f] 66 22.9 4.5 Z99111 Z99111 Bacillus subtilis complete genom (191980) [r] 65 22.6 5.2 Z99112 Z99112 Bacillus subtilis complete genom (204263) [r] 64 22.4 6.1 Z99113 Z99113 Bacillus subtilis complete genom (207829) [r] 62 21.9 8.2 Z99112 Z99112 Bacillus subtilis complete genom (204263) [r] 62 21.9 8.2 Z99107 Z99107 Bacillus subtilis complete genom (202089) [r] 61 21.7 9.5 Z99120 Z99120 Bacillus subtilis complete genom (201059) [f] 61 21.7 9.5 Z99113 Z99113 Bacillus subtilis complete genom (207829) [f] 60 21.4 11 Z99114 Z99114 Bacillus subtilis complete genom (192961) [f] 60 21.4 11 Z99121 Z99121 Bacillus subtilis complete genom (194692) [r] 60 21.4 11 Z99117 Z99117 Bacillus subtilis complete genom (199173) [r] 59 21.2 13 Z99111 Z99111 Bacillus subtilis complete genom (191980) [f] 57 20.7 16 Z99107 Z99107 Bacillus subtilis complete genom (202089) [f] 57 20.7 16 Z99122 Z99122 Bacillus subtilis complete genom (200690) [r] 56 20.5 19 Z99105 Z99105 Bacillus subtilis complete genom (202768) [f] 56 20.5 19 Z99124 Z99124 Bacillus subtilis complete genom (203901) [f] 56 20.5 19 Z99109 Z99109 Bacillus subtilis complete genom (198743) [r] 55 20.3 21 Z99123 Z99123 Bacillus subtilis complete genom (201139) [f] 55 20.3 21 Z99104 Z99104 Bacillus subtilis complete genom (213080) [f] 55 20.3 21 Z99107 Z99107 Bacillus subtilis complete genom (202089) [r] 55 20.3 21 Z99121 Z99121 Bacillus subtilis complete genom (194692) [r] 55 20.3 21 Z99108 Z99108 Bacillus subtilis complete genom (197409) [r] 55 20.3 21 Z99110 Z99110 Bacillus subtilis complete genom (201241) [r] 54 20.0 23 Z99122 Z99122 Bacillus subtilis complete genom (200690) [f] 54 20.0 23 Z99122 Z99122 Bacillus subtilis complete genom (200690) [f] 52 19.5 28 >>Z99104 Z99104 Bacillus subtilis complete genome (secti (213080 nt) initn: 309 init1: 309 opt: 326 Z-score: 394.1 bits: 84.2 E(): 1.6e-18 banded Smith-Waterman score: 326; 92.105% identity (92.105% similar) in 76 nt overlap (1-76:11550-11625) 10 20 30 U00096 GGGGCTATAGCTCAGCTGGGAGAGCGCCTG ::::: ::::::::::::::::::::::: Z99104 AGTCCACTCAGGCCCACCATCTTATATAACGGGGCCTTAGCTCAGCTGGGAGAGCGCCTG 11520 11530 11540 11550 11560 11570 40 50 60 70 U00096 CTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCA :::::::::::::::::: ::::::::::::::: ::::::::: Z99104 CTTTGCACGCAGGAGGTCAGCGGTTCGATCCCGCTAGGCTCCACCAACGTGTTCTTTGAA 11580 11590 11600 11610 11620 11630 Z99104 AACTAGATAACAGTAGACATCACATTCAATTAGTAACACAAGATATCACATAGTGATTCT 11640 11650 11660 11670 11680 11690 >>Z99105 Z99105 Bacillus subtilis complete genome (secti (202768 nt) initn: 50 init1: 50 opt: 77 Z-score: 76.5 bits: 25.4 E(): 0.78 banded Smith-Waterman score: 77; 67.442% identity (67.442% similar) in 43 nt overlap (13-55:17298-17338) 10 20 30 40 U00096 GGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAG :::: :::: :: : :::: :::: Z99105 GAAGTATAAGGAATGGCTGCGGTCTGGAAACAGCCGGGAAAGAGAAATGTTTG--TGCAG 17270 17280 17290 17300 17310 17320 50 60 70 U00096 GAGGTCTGCGGTTCGATCCCGCATAGCTCCACCA :::::: :: : : Z99105 GAGGTCCGCAGATATTATCCGTTCGGCCCGTTTTTAGGGGCGCTTGTCAAAAAAGATTTT 17330 17340 17350 17360 17370 17380 >>Z99106 Z99106 Bacillus subtilis complete genome (secti (195912 nt) initn: 45 init1: 45 opt: 75 Z-score: 73.9 bits: 25.0 E(): 1.1 banded Smith-Waterman score: 75; 61.905% identity (61.905% similar) in 63 nt overlap (4-65:16312-16371) 10 20 30 U00096 GGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTT :: :: : ::::: : : :: : :: Z99106 GGCGTCAACGCTGTTTGCAAGCCGTTTGCCGCGATTGATCAGCATTGTCATTGCGGGATT 16290 16300 16310 16320 16330 16340 40 50 60 70 U00096 TGCACGCAGGAG-GTCTGCGGTTCGATCCCGCATAGCTCCACCA : ::: ::: ::::::::: ::: ::: Z99106 ---AAGCATGAGCATCTGCGGTTTGATTATGCAGCAGATCAGCAGAAATAAATTCGTGTC 16350 16360 16370 16380 16390 Z99106 ACCGACGACGGCGGGCACGATGGATTGGGCGAGGCTCGGCATTTTAATTTCCTTGCTGCT 16400 16410 16420 16430 16440 16450 >>Z99120 Z99120 Bacillus subtilis complete genome (secti (201059 nt) rev-comp initn: 71 init1: 71 opt: 72 Z-score: 70.1 bits: 24.3 E(): 1.7 banded Smith-Waterman score: 72; 74.074% identity (74.074% similar) in 27 nt overlap (51-25:17246-17272) 70 60 50 40 30 U0009- TGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTC : :::::: : : : :::: :::::: Z99120 GTGAAAGCGGTTCTTACCCATCCCGCTCAGGGAGACCTTCATCATCCAAAACAGGCGGAT 17220 17230 17240 17250 17260 17270 20 10 U0009- TCCCAGCTGAGCTATAGCCCC Z99120 GTGCCATTTTTTCATGAGAGAAAAGCGCTCGCATATGGTGAACAGACCAATATCCCCCAC 17280 17290 17300 17310 17320 17330 >>Z99118 Z99118 Bacillus subtilis complete genome (secti (200707 nt) rev-comp initn: 100 init1: 50 opt: 66 Z-score: 62.4 bits: 22.9 E(): 4.5 banded Smith-Waterman score: 66; 59.649% identity (59.649% similar) in 57 nt overlap (58-2:12847-12902) 70 60 50 40 30 U0009- TGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCA :: :: : : : : ::: :: : ::: Z99118 TGACCGTCACATGATATTCCTGACCCACATTCAAATCACCAATCGTCTG-ATGAATGGCA 12820 12830 12840 12850 12860 12870 20 10 U0009- GGCGCTCTCCCAGCTGAGCTATAGCCCC ::::::: : : ::: :: : : : Z99118 GGCGCTCCCGCCTCTGCTTTACACCACTCTATAATCAAATCATCAAGGGCTGACTCGACC 12880 12890 12900 12910 12920 12930 >>Z99124 Z99124 Bacillus subtilis complete genome (secti (203901 nt) initn: 45 init1: 45 opt: 66 Z-score: 62.4 bits: 22.9 E(): 4.5 banded Smith-Waterman score: 66; 75.000% identity (75.000% similar) in 24 nt overlap (52-75:11587-11610) 30 40 50 60 70 U00096 GAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCA : ::::::::: ::: : :::: Z99124 CTGATACTGTCTTGATTTCCTTTTATCATAGTTTCGATCCCAGATATCAACACCTTATAT 11560 11570 11580 11590 11600 11610 Z99124 TCACTTTCTAATAAAACAGCAGAAAAATCGCGAACGACGGCTTTCTTATTTTCCAACAAT 11620 11630 11640 11650 11660 11670 >>Z99111 Z99111 Bacillus subtilis complete genome (secti (191980 nt) rev-comp initn: 50 init1: 50 opt: 65 Z-score: 61.2 bits: 22.6 E(): 5.2 banded Smith-Waterman score: 65; 61.194% identity (61.194% similar) in 67 nt overlap (72-8:10081-10146) 70 60 50 U0009- TGGTGGAGCTATGCGGGATCGAACCGCAGACCTC : :::::::: :::: :::: : :: Z99111 CGCTGGAGAGGATTCCATATGGCGAATCCCGAAGCTATGC-GGATATTGCCGCTGCTGTC 10060 10070 10080 10090 10100 40 30 20 10 U0009- CTGCGTGC-AAAGCAG-GCGCTCTCCCAGCTGAGCTATAGCCCC :: : ::::: : :::: :: : : :::: Z99111 GGCAGTCCGAAAGCGGTGCGCGCTGTCGGGCAGGCTAATAAACGTAACGACCTGCCGATT 10110 10120 10130 10140 10150 10160 Z99111 TTTGTCCCGTGCCACAGAGTGATCGGCAAAAACAGTGCGTTAACAGGATACGCCGGAAGC 10170 10180 10190 10200 10210 10220 >>Z99112 Z99112 Bacillus subtilis complete genome (secti (204263 nt) rev-comp initn: 64 init1: 64 opt: 64 Z-score: 59.9 bits: 22.4 E(): 6.1 banded Smith-Waterman score: 64; 80.000% identity (80.000% similar) in 20 nt overlap (72-53:7016-7035) 70 60 50 U0009- TGGTGGAGCTATGCGGGATCGAACCGCAGACCTC :::::: : ::: :::::: Z99112 GAAAAAAGAAGAAGTCATTCCATTCATACAGGAGCTTTCCGGTTTCGAACATATCCTTGT 6990 7000 7010 7020 7030 7040 40 30 20 10 U0009- CTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCC Z99112 TGCCGGGCTGATGACAATGGCTCCGCTGACTGATGATCAAGATCAGATCAGAAGCTGTTT 7050 7060 7070 7080 7090 7100 >>Z99113 Z99113 Bacillus subtilis complete genome (secti (207829 nt) rev-comp initn: 55 init1: 55 opt: 62 Z-score: 57.3 bits: 21.9 E(): 8.2 banded Smith-Waterman score: 62; 87.500% identity (87.500% similar) in 16 nt overlap (25-10:18094-18109) 50 40 30 20 10 U0009- AACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCC :: ::::::::::: : Z99113 GGCTGCACATGGCCGGTAAATCACATGTTTGCGCTCCCAGCTGACCGCCTTGGCCATGCT 18070 18080 18090 18100 18110 18120 Z99113 TGGGCCTATCGTAATCAGCAATGGCATCAGCAGCAATTGATCCCATATCGGTCCTCACTG 18130 18140 18150 18160 18170 18180 >>Z99112 Z99112 Bacillus subtilis complete genome (secti (204263 nt) rev-comp initn: 50 init1: 50 opt: 62 Z-score: 57.3 bits: 21.9 E(): 8.2 banded Smith-Waterman score: 62; 60.465% identity (60.465% similar) in 43 nt overlap (68-26:20234-20276) 70 60 50 40 U0009- TGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGC :::::::::: : : : : : : :: Z99112 GATCATCATCGGCCAAGCAGCAGAATTTGACTATGCGGGAACACAAGCCTGTCTTGCTTT 20210 20220 20230 20240 20250 20260 30 20 10 U0009- GTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCC : ::: :::: Z99112 GAAAGAAGAAGGCTATGAAGTCATCCTTGTCAACTCAAACCCTGCAACGATCATGACAGA 20270 20280 20290 20300 20310 20320 76 residues in 1 query sequences 474432 residues in 21 library sequences Scomplib [34t25] start: Wed Oct 4 14:44:21 2006 done: Wed Oct 4 14:45:56 2006 Total Scan time: 0.050 Total Display time: 0.000 Function used was FASTA [version 3.4t25 Nov 12, 2004]