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# fasta34 tRNA.fasta bs_genome.fasta 6
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
474432 residues in 21 sequences
MLE_cen statistics: Lambda= 0.1722; K=0.008981 (cen=2)
Kolmogorov-Smirnov statistic: 0.1424 (N=15) at 50
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] 151 44.3 1.7e-06
Z99111 Z99111 Bacillus subtilis complete genom (191980) [f] 79 26.4 0.4
Z99120 Z99120 Bacillus subtilis complete genom (201059) [f] 69 23.9 2.2
Z99113 Z99113 Bacillus subtilis complete genom (207829) [r] 68 23.7 2.6
Z99108 Z99108 Bacillus subtilis complete genom (197409) [r] 67 23.4 3
>>Z99104 Z99104 Bacillus subtilis complete genome (secti (213080 nt)
initn: 65 init1: 65 opt: 151 Z-score: 178.4 bits: 44.3 E(): 1.7e-06
banded Smith-Waterman score: 151; 72.308% identity (72.308% similar) in 65 nt overlap (5-68:11466-11530)
10 20 30
U00096 TCCTCTGTAGTTCAG-TCGGTAGAACGGCGGACT
:::::: :::: : : :::: :: : ::
Z99104 ACTTTGTTCCTTGAATAAGTTAAGATGGGCCTGTAGCTCAGCTGGTTAGAGCGCACGCCT
11440 11450 11460 11470 11480 11490
40 50 60 70
U00096 GTTAATCCGTATGTCACTGGTTCGAGTCCAGTCAGAGGAGCCA
: ::: : : ::: ::::::::::::: ::::
Z99104 GATAAGCGTGAGGTCGGTGGTTCGAGTCCACTCAGGCCCACCATCTTATATAACGGGGCC
11500 11510 11520 11530 11540 11550
Z99104 TTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCAGCGGTTCGATCCCGCTA
11560 11570 11580 11590 11600 11610
>>Z99111 Z99111 Bacillus subtilis complete genome (secti (191980 nt)
initn: 70 init1: 45 opt: 79 Z-score: 81.8 bits: 26.4 E(): 0.4
banded Smith-Waterman score: 79; 77.143% identity (77.143% similar) in 35 nt overlap (5-36:4593-4627)
10 20 30
U00096 TCCTCTGT-AGTTCAGTCGGTAGAAC--GGCGGA
:::: ::::::::: :: ::: ::: ::
Z99111 ATTGGACGTTTATTGATGCGCTTTTTACAGCTGTCAGTTCAGTCAGTGTAACGGGGCTGA
4570 4580 4590 4600 4610 4620
40 50 60 70
U00096 CTGTTAATCCGTATGTCACTGGTTCGAGTCCAGTCAGAGGAGCCA
: :::
Z99111 CAGTTGTTGATACAGCTGATACATTCAGCACAATAGGGATTTTTATATTAGCATTTGTTC
4630 4640 4650 4660 4670 4680
>>Z99120 Z99120 Bacillus subtilis complete genome (secti (201059 nt)
initn: 63 init1: 63 opt: 69 Z-score: 68.3 bits: 23.9 E(): 2.2
banded Smith-Waterman score: 69; 70.000% identity (70.000% similar) in 30 nt overlap (29-58:3683-3712)
10 20 30 40 50
U00096 TCCTCTGTAGTTCAGTCGGTAGAACGGCGGACTGTTAATCCGTATGTCACTGGTTCGA
:: ::::::: : : : :: :::::::
Z99120 AACGCACCACCCGTCTTGTCGGGTCGTAATGGTCTGTTAAAGTGCCTCTTACCGGTTCGA
3660 3670 3680 3690 3700 3710
60 70
U00096 GTCCAGTCAGAGGAGCCA
Z99120 CCGGCACGTCGTAAAGACCGTTTATATCTAAAATCCGTCTTGCCGTTTCTGCCCCTGTAC
3720 3730 3740 3750 3760 3770
>>Z99113 Z99113 Bacillus subtilis complete genome (secti (207829 nt)
rev-comp initn: 68 init1: 68 opt: 68 Z-score: 67.0 bits: 23.7 E(): 2.6
banded Smith-Waterman score: 68; 84.211% identity (84.211% similar) in 19 nt overlap (21-3:14904-14922)
50 40 30 20 10
U0009- AGTGACATACGGATTAACAGTCCGCCGTTCTACCGACTGAACTACAGAGGA
::::::::: : ::::::
Z99113 ACAGGAATTTTGGGAACAGCTTAAAGCGGGTACCGACTGCATCACAGAGATTCCAAACTC
14880 14890 14900 14910 14920 14930
Z99113 ACGCTGGGAATGGAAAGAAAGCGATGGACTGGATTCACCTGCAGGCAAGCCGCTCTCGAA
14940 14950 14960 14970 14980 14990
>>Z99108 Z99108 Bacillus subtilis complete genome (secti (197409 nt)
rev-comp initn: 50 init1: 50 opt: 67 Z-score: 65.6 bits: 23.4 E(): 3
banded Smith-Waterman score: 67; 73.077% identity (73.077% similar) in 26 nt overlap (54-29:12622-12647)
70 60 50 40 30
U0009- TGGCTCCTCTGACTGGACTCGAACCAGTGACATACGGATTAACAGTCCGCCG
: :::::::::: ::: : ::: :
Z99108 GGCGTTGGCTTTAGAGGTTTCGAACATATCAGCAGTGACATAAGGAAGGAGAGTGCTGAG
12600 12610 12620 12630 12640 12650
20 10
U0009- TTCTACCGACTGAACTACAGAGGA
Z99108 ATAACCGGACAATTTCTTTTCTATTTCATCTGTTAGTGCAAATTCAATGTCGCCGATATT
12660 12670 12680 12690 12700 12710
76 residues in 1 query sequences
474432 residues in 21 library sequences
Scomplib [34t25]
start: Sat Nov 11 15:42:22 2006 done: Sat Nov 11 15:42:36 2006
Total Scan time: 0.060 Total Display time: 0.000
Function used was FASTA [version 3.4t25 Nov 12, 2004]