Документ взят из кэша поисковой машины. Адрес оригинального документа : http://kodomo.cmm.msu.ru/~lvserega/docs/Term3/Practice4/f35.txt Дата изменения: Tue Jan 22 20:09:56 2008 Дата индексирования: Sun Apr 13 03:27:59 2008 Кодировка:

fasta35 thrV.fasta pf_genome.fasta
FASTA searches a protein or DNA sequence data bank version 35.02 September 18, 2007
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: U00096, 76 nt
1>>>U00096 U00096.2 Escherichia coli K12 MG1655, comple 76 nt - 76 ntf35.txt
Library: pf_genome.fasta 1918246 residues in 173 sequences

opt E()
< 20 0 0:
22 0 0: one = represents 2 library sequences
24 0 0:
26 0 0:
28 0 0:
30 1 1:*
32 2 3:=*
34 0 7: *
36 14 15:=======*
38 52 25:============*=============
40 22 34:=========== *
42 42 42:====================*
44 61 46:======================*========
46 35 47:================== *
48 32 45:================ *
50 48 41:====================*===
52 30 36:=============== *
54 36 31:===============*==
56 22 26:=========== *
58 20 21:==========*
60 13 17:======= *
62 11 14:======*
64 16 11:=====*==
66 14 9:====*==
68 7 7:===*
70 4 5:==*
72 3 4:=*
74 3 3:=*
76 3 3:=*
78 3 2:*=
80 0 2:*
82 3 1:*=
84 1 1:*
86 1 1:*
88 0 1:*
90 0 0:
92 1 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 0 0:
1918246 residues in 173 sequences
Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.5390+/-0.0282; mu= 22.0921+/- 2.647
mean_var=67.3361+/-29.136, 0's: 0 Z-trim: 0 B-trim: 0 in 0/16
Lambda= 0.156297
Kolmogorov-Smirnov statistic: 0.0437 (N=26) at 44
Algorithm: FASTA (3.5 Sept 2006) [optimized]
Parameters: +5/-4 matrix (5:-4) ktup: 6
join: 45, opt: 30, open/ext: -12/-4, width: 16

The best scores are: opt bits E(173)
AE010257 AE009950 |AE010257| Pyrococcus furios (14506) [f] 149 41.9 3.6e-05
AE010241 AE009950 |AE010241| Pyrococcus furios (13004) [f] 138 39.3 0.00021
AE010198 AE009950 |AE010198| Pyrococcus furios (14484) [r] 133 38.3 0.00044
AE010148 AE009950 |AE010148| Pyrococcus furios (14913) [r] 96 29.9 0.14
AE010191 AE009950 |AE010191| Pyrococcus furios (10257) [f] 79 25.9 2.4
AE010263 AE009950 |AE010263| Pyrococcus furios (11081) [r] 78 25.7 2.7
AE010179 AE009950 |AE010179| Pyrococcus furios (13617) [r] 76 25.4 3.3
AE010244 AE009950 |AE010244| Pyrococcus furios (10692) [f] 76 25.2 3.7
AE010254 AE009950 |AE010254| Pyrococcus furios (13034) [f] 75 25.1 3.9
AE010209 AE009950 |AE010209| Pyrococcus furios (12355) [r] 72 24.4 6.4


>>AE010257 AE009950 |AE010257| Pyrococcus furiosus DSM 3 (14506 nt)
initn: 141 init1: 116 opt: 149 Z-score: 163.3 bits: 41.9 E(): 3.6e-05
banded Smith-Waterman score: 149; 78.8% identity (78.8% similar) in 52 nt overlap (19-69:9586-9637)

10 20 30 40
U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGG
: :::: ::::::: : ::::::::: :
AE0102 TTATTAAAAACATGGAGCCCCGGCCGGGCTTTGAACCCGGGACCTGCCGCTTACCAAGCG
9560 9570 9580 9590 9600 9610

50 60 70
U00096 TGCGCTCTACCA-ACTGAGCCATATCAGC
:::::::::: ::::::::
AE0102 GCCGCTCTACCAGGCTGAGCCACCGGGGCATTGTCGGAGTTTTCTCGCTCGAGAGGATAT
9620 9630 9640 9650 9660 9670

>>AE010241 AE009950 |AE010241| Pyrococcus furiosus DSM 3 (13004 nt)
initn: 77 init1: 77 opt: 138 Z-score: 150.4 bits: 39.3 E(): 0.00021
banded Smith-Waterman score: 138; 66.7% identity (66.7% similar) in 69 nt overlap (1-69:2275-2343)

10 20 30
U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGA
::: :: : ::: :: :::::: :::::
AE0102 CTGACCAGGCTGAGCTACGGGCCCACTTACTGGCGCCGCCGCCCGGATTCGAACCGGGGA
2250 2260 2270 2280 2290 2300

40 50 60 70
U00096 CCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAGC
:: : ::: :: :::::: :::: :: ::: :
AE0102 CCGCCGGATTAACAGTCCGGCGCTCCACCAGCTAAGCTACGGCGGCTCGCCCAAAAGATA
2310 2320 2330 2340 2350 2360

AE0102 TCCATTGCTATCAATTTATAAATGTTACGGTTCACTTTAAAACTCTTCGTGATAGAGGCA
2370 2380 2390 2400 2410 2420

>>AE010198 AE009950 |AE010198| Pyrococcus furiosus DSM 3 (14484 nt)
rev-comp initn: 134 init1: 109 opt: 133 Z-score: 143.8 bits: 38.3 E(): 0.00044
banded Smith-Waterman score: 133; 77.4% identity (77.4% similar) in 53 nt overlap (69-19:2463-2515)

70 60 50
U0009- GCTGATATGGCTCAG-TTGGT-AGAGCGCACCCTTGG
:::::::: :::: ::::::: : : ::
AE0101 AAATCCCGGCCGGGGCACCAAATGGGCCCGTGGCTCAGCCTGGTCAGAGCGCCCGCCTGA
2440 2450 2460 2470 2480 2490

40 30 20 10
U0009- TAAGGGTGAGGTCCCCAGTTCGACTCTGGGTATCAGCACCA
:::: : ::::::: ::::::
AE0101 TAAGCGGGAGGTCCGGGGTTCGAAGCCCCGCGGGCCCACCATAATTCTTCTAAAAACTTA
2500 2510 2520 2530 2540 2550

>>AE010148 AE009950 |AE010148| Pyrococcus furiosus DSM 3 (14913 nt)
rev-comp initn: 87 init1: 62 opt: 96 Z-score: 98.6 bits: 29.9 E(): 0.14
banded Smith-Waterman score: 96; 66.7% identity (66.7% similar) in 48 nt overlap (59-12:5872-5919)

70 60 50 40
U0009- GCTGATATGGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGT
: ::: :::: : : :::: :::::
AE0101 ATTTTCGGATGCGGGCCCGTAGCCTAGCAGGATAGGGCGCCGGCCTTCTAAGCCGGAGGT
5850 5860 5870 5880 5890 5900

30 20 10
U0009- CCCCAGTTCGACTCTGGGTATCAGCACCA
::: :::::: :: ::
AE0101 CCCGGGTTCGAATCCCGGCGGGCCCGCCAACTACTTTTGCTCTATTTTCAAGATATAGAA
5910 5920 5930 5940 5950 5960

>>AE010191 AE009950 |AE010191| Pyrococcus furiosus DSM 3 (10257 nt)
initn: 61 init1: 61 opt: 79 Z-score: 79.5 bits: 25.9 E(): 2.4
banded Smith-Waterman score: 79; 82.6% identity (82.6% similar) in 23 nt overlap (37-59:6095-6117)

10 20 30 40 50 60
U00096 TGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAG
::: ::: ::::::: ::::::
AE0101 AAGCATATGTGGGCCTGCGAGCGTGCTTCTCCTATCCATGGGTGCGATCTACCTTAGAAA
6070 6080 6090 6100 6110 6120

70
U00096 CCATATCAGC

AE0101 GCGTAATTATTCAACAGAAGTGTCCAGTAATGTATAAAAAGATAAAAACTGATTTATCAT
6130 6140 6150 6160 6170 6180

>>AE010263 AE009950 |AE010263| Pyrococcus furiosus DSM 3 (11081 nt)
rev-comp initn: 45 init1: 45 opt: 78 Z-score: 78.0 bits: 25.7 E(): 2.7
banded Smith-Waterman score: 78; 81.5% identity (81.5% similar) in 27 nt overlap (41-15:9943-9968)

70 60 50 40 30 20
U0009- TATGGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCCCCAGTTCGACTCTGGG
::::: : : :::::::: :: :::::
AE0102 TCGTTCTATCGTACTTCATGAATTTCTCCTTAAGGCTCATGTCCCCAG-TCCACTCTACA
9920 9930 9940 9950 9960 9970

10
U0009- TATCAGCACCA

AE0102 AGAGCTCTCGCAATTGCCATTCTTGCTGCTTCGGCTTGTCCCATGAATCCTCCGCCTTCT
9980 9990 10000 10010 10020 10030

>>AE010179 AE009950 |AE010179| Pyrococcus furiosus DSM 3 (13617 nt)
rev-comp initn: 53 init1: 53 opt: 76 Z-score: 74.6 bits: 25.4 E(): 3.3
banded Smith-Waterman score: 76; 64.3% identity (64.3% similar) in 56 nt overlap (66-14:12666-12721)

70 60 50
U0009- GCTGATATGGCTCAGTTGGTAGAGCGCACCC-TTG--GTA
:::: :: : :: : : ::: :: :::
AE0101 AATCCCGGTTATGTTGTAGGGTACGTCCCTCTCACTTTGAAGCCCTCCCCCAATGAAGTA
12640 12650 12660 12670 12680 12690

40 30 20 10
U0009- AGGGTGAGGTCCCCAGTTCGACTCTGGGTATCAGCACCA
:::::::: : : : ::::::
AE0101 TGGGTGAGGAGCATTGGCCCACTCTGATTCCGTCAAGTTAAGGTATGCAAGTGCTACTGA
12700 12710 12720 12730 12740 12750

>>AE010244 AE009950 |AE010244| Pyrococcus furiosus DSM 3 (10692 nt)
initn: 60 init1: 60 opt: 76 Z-score: 75.7 bits: 25.2 E(): 3.7
banded Smith-Waterman score: 76; 61.5% identity (61.5% similar) in 65 nt overlap (12-74:1821-1885)

10 20 30 40
U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTA
:: ::: :::::::::::: :: :
AE0102 TCAAATAGCAAAAGTAGTTTACAACAACCTCCTCGAGAGGAACTGGGGACCAATTCCAAA
1800 1810 1820 1830 1840 1850

50 60 70
U00096 -CCAAGGGTGCGCTCTACCAACTGAGCCAT-ATCAGC
::: :: : : :::: : : : :: ::::
AE0102 GCCATGGCCTGGATATACCGAGTACGGAATCATCAAGTACGAATACAACATTGCTAAAGC
1860 1870 1880 1890 1900 1910

AE0102 CAAGCAAATGTTACAAGAAGCAGGAGTTGATCCAAGTAAGTATTCAATAACCCTCATCTA
1920 1930 1940 1950 1960 1970

>>AE010254 AE009950 |AE010254| Pyrococcus furiosus DSM 3 (13034 nt)
initn: 96 init1: 66 opt: 75 Z-score: 73.6 bits: 25.1 E(): 3.9
banded Smith-Waterman score: 75; 69.2% identity (69.2% similar) in 39 nt overlap (5-43:6042-6077)

10 20 30
U00096 TGGTGCTGATACCCAGAGTCGAACTGGGGACCTC
::::: : :: : ::: : ::::::
AE0102 GCCGAGGAAAGTGGGAGAAATGCCACTATAGCTGAGA---AGTTTATAACAGAAGACCTC
6020 6030 6040 6050 6060

40 50 60 70
U00096 ACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAGC
: :::::::
AE0102 AGCCTTACCCCAGAAGAAGCTCTAAAGTATGGAGTTATTGAAGTCATAGCAAGAGATGTC
6070 6080 6090 6100 6110 6120

>>AE010209 AE009950 |AE010209| Pyrococcus furiosus DSM 3 (12355 nt)
rev-comp initn: 82 init1: 66 opt: 72 Z-score: 70.2 bits: 24.4 E(): 6.4
banded Smith-Waterman score: 72; 74.1% identity (74.1% similar) in 27 nt overlap (57-31:10258-10284)

70 60 50 40 30
U0009- GCTGATATGGCTCAGTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCC
:::::::: :::::: : :::: :
AE0102 TTCTTCATCAATGGGTGAGCTGAAGAGTTATAGAGCGCGCCCTTGCTCTCCGTGAAGAGA
10230 10240 10250 10260 10270 10280

20 10
U0009- CCAGTTCGACTCTGGGTATCAGCACCA

AE0102 ATTCCCTCTTGTCCAAAGGAGAAGTTTCTATCAAGAACGGCTATTCCCTTAACGCTCTCC
10290 10300 10310 10320 10330 10340




76 residues in 1 query sequences
1918246 residues in 173 library sequences
Scomplib [35.02]
start: Tue Jan 22 20:23:29 2008 done: Tue Jan 22 20:23:47 2008
Total Scan time: 1.020 Total Display time: 0.000

Function used was FASTA [version 35.02 September 18, 2007]