# fasta34 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 ECOLI, 77 nt vs bs_genome.fasta library 22587 residues in 1 sequences Altschul/Gish params: n0: 77 Lambda: 0.192 K: 0.177 H: 0.360 FASTA (3.47 Mar 2004) function [optimized, +5/-4 matrix (5:-4)] ktup: 3 join: 60, opt: 45, open/ext: -12/-4, width: 16 The best scores are: opt bits E(1) AL009126_GR|AL009126_GR Bacillus subtilis (str (4214630) [f] 326 93.6 1.1e-22 AL009126_GR|AL009126_GR Bacillus subtilis (str (4214630) [r] 60 19.9 1.2 AL009126_GR|AL009126_GR Bacillus subtilis (str (4214630) [f] 58 19.4 1.4 AL009126_GR|AL009126_GR Bacillus subtilis (str (4214630) [r] 54 18.3 1.9 >>AL009126_GR|AL009126_GR Bacillus subtilis (strain 168) (4214630 nt) initn: 326 init1: 326 opt: 326 Z-score: 444.8 bits: 93.6 E(): 1.1e-22 banded Smith-Waterman score: 326; 92.105% identity (92.105% similar) in 76 nt overlap (2-77:11463-11538) 10 20 30 ECOLI AGGCTTGTAGCTCAGGTGGTTAGAGCGCACC ::: :::::::::: :::::::::::::: AL0091 GGAACTTTGTTCCTTGAATAAGTTAAGATGGGCCTGTAGCTCAGCTGGTTAGAGCGCACG 11440 11450 11460 11470 11480 11490 40 50 60 70 ECOLI CCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCA ::::::::: :::::::::::::::: :::::::::::::: :::: AL0091 CCTGATAAGCGTGAGGTCGGTGGTTCGAGTCCACTCAGGCCCACCATCTTATATAACGGG 11500 11510 11520 11530 11540 11550 AL0091 GCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCAGCGGTTCGATCCCG 11560 11570 11580 11590 11600 11610 >>AL009126_GR|AL009126_GR Bacillus subtilis (strain 168) (4214630 nt) rev-comp initn: 57 init1: 57 opt: 60 Z-score: 46.6 bits: 19.9 E(): 1.2 banded Smith-Waterman score: 60; 72.727% identity (72.727% similar) in 33 nt overlap (76-46:12611-12643) 70 60 50 ECOLI- TGGTAG-GC-CTGAGTGGACTTGAACCACCG ::::: :: :::: :::::: : : :: AL0091 TAGGGCTAGCCTCAAGGTAAGAGTCTTGGAGGTAGAGCACTGATTGGACTAGGGGCCCCT 12590 12600 12610 12620 12630 12640 40 30 20 10 ECOLI- ACCTCACCCTTATCAGGGGTGCGCTCTAACCACCTGAGCTACAAGCCT ::: AL0091 ACCGGGTTACCGAATTCAGTCAAACTCCGAATGCCAATGACTTATCCTTGGGAGTCAGAC 12650 12660 12670 12680 12690 12700 >>AL009126_GR|AL009126_GR Bacillus subtilis (strain 168) (4214630 nt) initn: 58 init1: 58 opt: 58 Z-score: 43.6 bits: 19.4 E(): 1.4 banded Smith-Waterman score: 58; 82.353% identity (82.353% similar) in 17 nt overlap (34-50:11298-11314) 10 20 30 40 50 60 ECOLI CTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCC :::: :::::: :::: AL0091 TTAGGAGCCAGCCGCCGAAGGTGGGACAGATGATTGGGGTGAAGTCGTAACAAGGTAGCC 11270 11280 11290 11300 11310 11320 70 ECOLI ACTCAGGCCTACCA AL0091 GTATC 11330 >>AL009126_GR|AL009126_GR Bacillus subtilis (strain 168) (4214630 nt) rev-comp initn: 54 init1: 54 opt: 54 Z-score: 37.6 bits: 18.3 E(): 1.9 banded Smith-Waterman score: 54; 77.778% identity (77.778% similar) in 18 nt overlap (19-2:2399-2416) 50 40 30 20 10 ECOLI- GACCTCACCCTTATCAGGGGTGCGCTCTAACCACCTGAGCTACAAGCCT :::::: :: ::: ::: AL0091 ATCTAATCAGACAAACAGTATTTGCAGTGTCCACCTCAGAAACACGCCCTATCTTGACAG 2370 2380 2390 2400 2410 2420 AL0091 GTGTAAACTGGAAAGTGGAGCAAAGTGAATTATTATGCACTGCAACGGATAGCCACCGTC 2430 2440 2450 2460 2470 2480 77 residues in 1 query sequences 22587 residues in 1 library sequences Scomplib [34t25] start: Wed Sep 27 18:19:27 2006 done: Wed Sep 27 18:20:48 2006 Total Scan time: 0.030 Total Display time: 0.010 Function used was FASTA [version 3.4t25 Nov 12, 2004]