Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3231771
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 68836 characters in sequence are not A, C, G, or T
File 5 of 18
Found at i:643412 original size:2 final size:2
Alignment explanation
Indices: 643402--643430 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
643392 AATTATGAAA
643402 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
643431 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:646297 original size:17 final size:17
Alignment explanation
Indices: 646257--646355 Score: 65
Period size: 17 Copynumber: 6.4 Consensus size: 17
646247 ATGAATTTTT
*
646257 ATAATTCATGAATATCT
1 ATAATTCATGAATATCC
* * *
646274 GTTATTCATGAATCTCC
1 ATAATTCATGAATATCC
646291 ATAATTCAT-AATAT--
1 ATAATTCATGAATATCC
646305 ATAA---AT--AT-T-C
1 ATAATTCATGAATATCC
* *
646315 ATGATTCATGGATATCC
1 ATAATTCATGAATATCC
*
646332 ATAATTCATGAATATCT
1 ATAATTCATGAATATCC
646349 ATAATTC
1 ATAATTC
646356 TTAACACACA
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
9 1 0.02
10 5 0.08
11 2 0.03
13 2 0.03
14 4 0.06
15 2 0.03
16 5 0.08
17 42 0.67
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (17 bp):
ATAATTCATGAATATCC
Found at i:646322 original size:58 final size:58
Alignment explanation
Indices: 646235--646427 Score: 170
Period size: 58 Copynumber: 3.2 Consensus size: 58
646225 TCATATACGA
* * * ** * *
646235 AATTCATAATTTATGAATTTTTATAATTCATGAATATCTGTTATTCATGAATCTCCAT
1 AATTCATAATATATAAATATTTATAATTCATGAATATCCATAATTCATGAATATCCAT
* * * *
646293 AATTCATAATATATAAATATTCATGATTCATGGATATCCATAATTCATGAATATCTAT
1 AATTCATAATATATAAATATTTATAATTCATGAATATCCATAATTCATGAATATCCAT
* * * * *
646351 AATTCTTAACACACAAATATTTATAATTCATGAAAGTTCATGCCCATAATTCATGAATCTCCAT
1 AATTCATAATATATAAATATTTATAATTCATG-AA--T-AT--CCATAATTCATGAATATCCAT
*
646415 AATACATGAATAT
1 AATTCAT-AATAT
646428 CCATAATTCA
Statistics
Matches: 104, Mismatches: 24, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
58 73 0.70
59 1 0.01
61 1 0.01
62 2 0.02
64 24 0.23
65 3 0.03
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (58 bp):
AATTCATAATATATAAATATTTATAATTCATGAATATCCATAATTCATGAATATCCAT
Found at i:646416 original size:17 final size:17
Alignment explanation
Indices: 646394--646444 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
646384 AAGTTCATGC
646394 CCATAATTCATGAATCT
1 CCATAATTCATGAATCT
* *
646411 CCATAATACATGAATAT
1 CCATAATTCATGAATCT
646428 CCATAATTCATGAATCT
1 CCATAATTCATGAATCT
646445 TCAAATACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (17 bp):
CCATAATTCATGAATCT
Found at i:646924 original size:2 final size:2
Alignment explanation
Indices: 646917--646954 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
646907 TATGTTCATG
646917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
646955 CATTCAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:649984 original size:2 final size:2
Alignment explanation
Indices: 649977--650002 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
649967 TTTTAATGAT
649977 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
650003 CCTCAATAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:653355 original size:6 final size:6
Alignment explanation
Indices: 653346--653375 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
653336 AGCTTGAGCT
653346 TGACCC TGACCC TGACCC TGACCC TGACCC
1 TGACCC TGACCC TGACCC TGACCC TGACCC
653376 GCCTCTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
TGACCC
Found at i:654564 original size:21 final size:21
Alignment explanation
Indices: 654520--654565 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
654510 ATTTTAATTT
**
654520 TTTTAAATTGTAAAATTATTA
1 TTTTAAATTGTAAAATTAAAA
654541 TTTT-AATTGTAAAAATTAAAA
1 TTTTAAATTGT-AAAATTAAAA
654562 TTTT
1 TTTT
654566 TATTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTTAAATTGTAAAATTAAAA
Found at i:654578 original size:44 final size:44
Alignment explanation
Indices: 654477--654587 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 44
654467 GGTAAAATAA
* **
654477 ATTTATTTAAAAATTAGTT-TTTAAATTATTAAAATTTTAATTTTT
1 ATTTATTT-AAAATTA-TTATTTAAATTATAAAAATTAAAATTTTT
* * *
654522 -TTAAATTGTAAAATTATTATTTTAATTGTAAAAATTAAAATTTTT
1 ATT-TATT-TAAAATTATTATTTAAATTATAAAAATTAAAATTTTT
654567 ATTTATTTAAAATTA-TATTTA
1 ATTTATTTAAAATTATTATTTA
654588 TGCTGAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
43 5 0.09
44 12 0.22
45 34 0.63
46 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (44 bp):
ATTTATTTAAAATTATTATTTAAATTATAAAAATTAAAATTTTT
Found at i:654587 original size:16 final size:17
Alignment explanation
Indices: 654556--654588 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
654546 ATTGTAAAAA
*
654556 TTAAAATTTTTATTTAT
1 TTAAAATTTATATTTAT
654573 TTAAAA-TTATATTTAT
1 TTAAAATTTATATTTAT
654589 GCTGAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAAAATTTATATTTAT
Found at i:659412 original size:18 final size:18
Alignment explanation
Indices: 659385--659419 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
659375 TCTCTTTCTC
659385 TTTGTTTTCTTT-TTTTA
1 TTTGTTTTCTTTCTTTTA
659402 TTTGTTTTTCTTTCTTTT
1 TTTG-TTTTCTTTCTTTT
659420 CTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTGTTTTCTTTCTTTTA
Found at i:659435 original size:27 final size:27
Alignment explanation
Indices: 659379--659441 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
659369 AAACTCTCTC
* * *
659379 TTTCTCTTTGTTTTCTTTTTTTATTTG
1 TTTCTCTTTCTTTTCTTTTCTTATTCG
*
659406 TTTTTCTTTCTTTTCTCTTTCTT-TTCG
1 TTTCTCTTTCTTTTCT-TTTCTTATTCG
659433 TTTCTCTTT
1 TTTCTCTTT
659442 TTCTTTTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (27 bp):
TTTCTCTTTCTTTTCTTTTCTTATTCG
Found at i:661283 original size:26 final size:26
Alignment explanation
Indices: 661238--661288 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
661228 TATAGCATAA
*
661238 AATAAAGATAATTCAGAGATGCAAAC
1 AATAAAGATAATTCACAGATGCAAAC
*
661264 AATAAAGATAATATC-CAGATTCAAA
1 AATAAAGATAAT-TCACAGATGCAAA
661289 AAAGAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.22
Consensus pattern (26 bp):
AATAAAGATAATTCACAGATGCAAAC
Found at i:662228 original size:2 final size:2
Alignment explanation
Indices: 662221--662247 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
662211 CTTTAGTTTC
662221 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
662248 AACATACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:667391 original size:6 final size:6
Alignment explanation
Indices: 667380--667408 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
667370 GACTCAGAGC
667380 CCTCAG CCTCAG CCTCAG CCTCAG CCTCA
1 CCTCAG CCTCAG CCTCAG CCTCAG CCTCA
667409 TTTATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.52, G:0.14, T:0.17
Consensus pattern (6 bp):
CCTCAG
Found at i:670105 original size:13 final size:13
Alignment explanation
Indices: 670087--670111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670077 CAATTATTCA
670087 TGTATCGATACAT
1 TGTATCGATACAT
670100 TGTATCGATACA
1 TGTATCGATACA
670112 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:670186 original size:20 final size:20
Alignment explanation
Indices: 670161--670251 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 20
670151 TGCCAGTTTC
670161 ATGTATCGATACAATTGTGT
1 ATGTATCGATACAATTGTGT
* **
670181 ATGTATCGATA-AAATGAAT
1 ATGTATCGATACAATTGTGT
*
670200 ATGTATCGATACAA-AGCATG-
1 ATGTATCGATACAATTG--TGT
670220 ATGTATCGATAC-ATCTG-GAT
1 ATGTATCGATACAAT-TGTG-T
670240 ATGTATCGATAC
1 ATGTATCGATAC
670252 TTTCAAGGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
18 1 0.02
19 18 0.32
20 37 0.65
21 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTGTGT
Found at i:672728 original size:13 final size:13
Alignment explanation
Indices: 672710--672735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
672700 TAGTAACCCA
672710 TGTATCGATACAT
1 TGTATCGATACAT
672723 TGTATCGATACAT
1 TGTATCGATACAT
672736 CTGGGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:675814 original size:13 final size:13
Alignment explanation
Indices: 675796--675822 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
675786 ACATGCTGCT
675796 TTGTATCGATACA
1 TTGTATCGATACA
675809 TTGTATCGATACA
1 TTGTATCGATACA
675822 T
1 T
675823 GGACAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:675929 original size:33 final size:33
Alignment explanation
Indices: 675873--675939 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
675863 CTATCATTAT
*
675873 TTGTATCGATACATGGTACAATGTATGGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
675906 TTGTATCGATACATGAAG-A-AATGTATCGATACA
1 TTGTATCGATACATG--GTACAATGTATCGATACA
675939 T
1 T
675940 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCGATACA
Found at i:678465 original size:15 final size:15
Alignment explanation
Indices: 678432--678465 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
678422 GAGTCAACTT
*
678432 CATCATTATCATCAT
1 CATCATTATCATCAC
*
678447 CATCATTATCTTCAC
1 CATCATTATCATCAC
678462 CATC
1 CATC
678466 TTTGATGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (15 bp):
CATCATTATCATCAC
Found at i:680097 original size:13 final size:13
Alignment explanation
Indices: 680079--680103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
680069 CAATTATTCA
680079 TGTATCGATACAT
1 TGTATCGATACAT
680092 TGTATCGATACA
1 TGTATCGATACA
680104 AAGAGTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:680181 original size:19 final size:20
Alignment explanation
Indices: 680133--680188 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
680123 CTGCCAGTTT
*
680133 CATATATCGATACAATTATA
1 CATATATCGATACAATGATA
* *
680153 TATGTATCGATACAATGA-A
1 CATATATCGATACAATGATA
*
680172 CATATATCGATCCAATG
1 CATATATCGATACAATG
680189 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (20 bp):
CATATATCGATACAATGATA
Found at i:680362 original size:21 final size:22
Alignment explanation
Indices: 680327--680378 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
680317 GTTTTTACTT
680327 AAAAACATTTGATTTA-AAGCTC
1 AAAAACATTTGATTTATAA-CTC
680349 AAAAACATTT-ATTTATAACTC
1 AAAAACATTTGATTTATAACTC
*
680370 TAAAACATT
1 AAAAACATT
680379 AATTGATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAAACATTTGATTTATAACTC
Found at i:680907 original size:5 final size:5
Alignment explanation
Indices: 680897--680925 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
680887 AGTTTATACA
680897 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
680926 AACAATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:686884 original size:15 final size:15
Alignment explanation
Indices: 686845--686884 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
686835 TTATACTTTA
*
686845 TTATTTAAAATTTTT
1 TTATTTATAATTTTT
* *
686860 TTAGTAATAATTTTT
1 TTATTTATAATTTTT
686875 TTATTTATAA
1 TTATTTATAA
686885 GAAATATATG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATTTATAATTTTT
Found at i:688749 original size:21 final size:21
Alignment explanation
Indices: 688725--688782 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
688715 CCAATTTATT
**
688725 ATTTATTAAAATTTATTTTTA
1 ATTTATTAAAATTTAAATTTA
688746 ATTTACTT-AAATTTAAATTTA
1 ATTTA-TTAAAATTTAAATTTA
*
688767 AATT-TTAAAATATTAA
1 ATTTATTAAAAT-TTAA
688783 CATTAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.06
20 4 0.13
21 23 0.74
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTATTAAAATTTAAATTTA
Found at i:690269 original size:25 final size:24
Alignment explanation
Indices: 690224--690270 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
690214 TACTTTTATT
* *
690224 TAAAAATGTATTATAATTATAATG
1 TAAAAATGTATTAAAAATATAATG
690248 TAAAAATGTATTTAAAAATATAA
1 TAAAAATGTA-TTAAAAATATAA
690271 AAATTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
TAAAAATGTATTAAAAATATAATG
Found at i:690493 original size:20 final size:19
Alignment explanation
Indices: 690462--690532 Score: 90
Period size: 19 Copynumber: 3.6 Consensus size: 19
690452 AGTGAGAAAT
690462 TTTTTAAGAAAATTGATAG
1 TTTTTAAGAAAATTGATAG
690481 TTTTTAAGAAAAATTAAGA-AG
1 TTTTTAAG-AAAATT--GATAG
* *
690502 TTTTTAAGAAAATGGATTG
1 TTTTTAAGAAAATTGATAG
690521 TTTTTAAGAAAA
1 TTTTTAAGAAAA
690533 ATACGAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
18 2 0.04
19 21 0.46
20 11 0.24
21 10 0.22
22 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (19 bp):
TTTTTAAGAAAATTGATAG
Found at i:690543 original size:19 final size:19
Alignment explanation
Indices: 690462--690543 Score: 51
Period size: 19 Copynumber: 4.2 Consensus size: 19
690452 AGTGAGAAAT
* * * *
690462 TTTTTAAGAAAATTGATAG
1 TTTTTAAGAAAAATAAGAA
690481 TTTTTAAGAAAAATTAAGAA
1 TTTTTAAGAAAAA-TAAGAA
* *
690501 GTTTTTAAG-AAAAT-GGATTG
1 -TTTTTAAGAAAAATAAGA--A
*
690521 TTTTTAAGAAAAATACGAA
1 TTTTTAAGAAAAATAAGAA
690540 TTTT
1 TTTT
690544 AAAAAAGACG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.04
19 25 0.51
20 12 0.24
21 10 0.20
ACGTcount: A:0.44, C:0.01, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTTTAAGAAAAATAAGAA
Found at i:692066 original size:15 final size:17
Alignment explanation
Indices: 692025--692060 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
692015 AATTCAAAAC
692025 ATGAATAGTTATATATG
1 ATGAATAGTTATATATG
692042 ATGAATAGTTATATATG
1 ATGAATAGTTATATATG
692059 AT
1 AT
692061 TAAGTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
ATGAATAGTTATATATG
Found at i:692751 original size:22 final size:22
Alignment explanation
Indices: 692726--692780 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
692716 AAATTGCAAC
692726 ATAAAATA-AAATAAATAATTAT
1 ATAAAATATAAATAAAT-ATTAT
* * *
692748 ATAATATATAATTAAATTTTAT
1 ATAAAATATAAATAAATATTAT
692770 ATAAATATATA
1 ATAAA-ATATA
692781 CCATACAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAATATAAATAAATATTAT
Found at i:692763 original size:23 final size:23
Alignment explanation
Indices: 692737--692780 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
692727 TAAAATAAAA
692737 TAAATAATTATAT-AATATATAAT
1 TAAAT-ATTATATAAATATATAAT
*
692760 TAAATTTTATATAAATATATA
1 TAAATATTATATAAATATATA
692781 CCATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATATTATATAAATATATAAT
Found at i:695854 original size:11 final size:12
Alignment explanation
Indices: 695823--695855 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
695813 AATATGGTAC
*
695823 AATATAAAAATT
1 AATATAAATATT
695835 AATATAAATA-T
1 AATATAAATATT
695846 AATATAAATA
1 AATATAAATA
695856 CATAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATAAATATT
Found at i:696036 original size:11 final size:11
Alignment explanation
Indices: 696020--696044 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
696010 GAATTGTTAT
696020 ATAATATAAAC
1 ATAATATAAAC
696031 ATAATATAAAC
1 ATAATATAAAC
696042 ATA
1 ATA
696045 CATCTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATATAAAC
Found at i:696288 original size:33 final size:31
Alignment explanation
Indices: 696244--696316 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
696234 AATAATACAA
* *
696244 ATATAATATAAATATATAAATATATCAAAATTT
1 ATATAAAATAAAT-TATAAATATAT-AAAAATT
*
696277 ATATAAAATAAATTATTAATATATAAAAATT
1 ATATAAAATAAATTATAAATATATAAAAATT
696308 ATATAAAAT
1 ATATAAAAT
696317 TATAATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 15 0.41
32 10 0.27
33 12 0.32
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
ATATAAAATAAATTATAAATATATAAAAATT
Found at i:696789 original size:27 final size:24
Alignment explanation
Indices: 696744--696795 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
696734 TATTAAATTC
696744 AAATTACTATTTAAAAATAAAATA
1 AAATTACTATTTAAAAATAAAATA
* *
696768 AAATTATTATTTTAAAATAATAA-A
1 AAATTACTATTTAAAAATAA-AATA
696792 AAAT
1 AAAT
696796 AAAAATATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATTACTATTTAAAAATAAAATA
Found at i:696830 original size:51 final size:51
Alignment explanation
Indices: 696768--697402 Score: 601
Period size: 51 Copynumber: 12.5 Consensus size: 51
696758 AAATAAAATA
* * * * *
696768 AAATTATTATTTTAAAATAATAAAAAATAAAAATATGTTATATTAAATTTT
1 AAATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTT
* *
696819 AAATTACTATTTAAAAATAATAAAAA-T--ATATATTTTATATT--ATTTT
1 AAATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTT
* * *
696865 AAATTACTATTTAAAATTAATAAAAAATAAAAATACTTTATATTAAATCTT
1 AAATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTT
* * *
696916 ---GTACTATTT--AAA-AATAAAAATTAAATAAATATTTTATTTTAAATCTC
1 AAATTACTATTTAAAAATAATAAAAATT-AA-AAATATTTTATATTAAATCTT
* *
696963 AAATGACTATTTAAAAATTAATAAAAATTAAAAATATTTTATATT-AATCTC
1 AAATTACTATTTAAAAA-TAATAAAAATTAAAAATATTTTATATTAAATCTT
* ** *
697014 AAATTACCATTTAAAAATAATAAATTTTTTTAAAAAAATATTTTATATT-AATCCT
1 AAATTACTATTTAAAAATAATAAA---AATT--AAAAATATTTTATATTAAATCTT
* * **
697069 GAATTACTATTT-AAAA-AATAAAAATTTTAAAAAATATTTGATATTAAATCCA
1 AAATTACTATTTAAAAATAATAAAAA--TT-AAAAATATTTTATATTAAATCTT
** ** **
697121 AAATTACTATTTAAAAATAATAAATCTTTTTTAAATATTTTATATTAAAATCCC
1 AAATTACTATTTAAAAATAATAAA--AATTAAAAATATTTTATATT-AAATCTT
*
697175 AAATTACTATTTAAAAATAATAAAAATTAAAATATATTTTTTATATTAAATCCT
1 AAATTACTATTTAAAAATAATAAAAATTAAAA-ATA--TTTTATATTAAATCTT
* *
697229 AAATCATTATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTT
1 AAATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTT
* * * **
697280 GAACTACT-TTTTAAAATAAT-AAAA-TAAAATATATTTTATATTAAAATCCC
1 AAATTACTATTTAAAAATAATAAAAATTAAAA-ATATTTTATATT-AAATCTT
*
697330 AAATTACAATTTAAAAATAATAAAAATT-AAAA-ATTTTATATTAAATCTT
1 AAATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTT
*
697379 AAATTAGTATTT-AAAATAATAAAA
1 AAATTACTATTTAAAAATAATAAAA
697403 TATTTTATAT
Statistics
Matches: 490, Mismatches: 59, Indels: 73
0.79 0.09 0.12
Matches are distributed among these distances:
45 9 0.02
46 34 0.07
47 19 0.04
48 37 0.08
49 43 0.09
50 46 0.09
51 96 0.20
52 45 0.09
53 34 0.07
54 88 0.18
55 39 0.08
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (51 bp):
AAATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTT
Found at i:696883 original size:23 final size:23
Alignment explanation
Indices: 696814--696883 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
696804 GTTATATTAA
*
696814 ATTTTAAATTACTATTTAAAAAT
1 ATTTTAAATTACTATTTAAAATT
* ** * *
696837 AATAAAAATATA-TATTTTATATT
1 ATTTTAAAT-TACTATTTAAAATT
696860 ATTTTAAATTACTATTTAAAATT
1 ATTTTAAATTACTATTTAAAATT
696883 A
1 A
696884 ATAAAAAATA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
22 2 0.06
23 30 0.88
24 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTTAAATTACTATTTAAAATT
Found at i:696958 original size:47 final size:47
Alignment explanation
Indices: 696823--697009 Score: 136
Period size: 47 Copynumber: 3.9 Consensus size: 47
696813 AATTTTAAAT
* * * *
696823 TACTATTTAAAAATAAT-AAAAAT-ATATATTTTATATT--ATTTTAAAT
1 TACTATTTAAAAATAATAAAAAATAAAATACTTTATATTAAATCTT---G
*
696869 TACTATTTAAAATTAATAAAAAATAAAAATACTTTATATTAAATCTTG
1 TACTATTTAAAAATAATAAAAAAT-AAAATACTTTATATTAAATCTTG
* *
696917 TACTATTTAAAAATAA-AAATTAAAT-AAATATTTTATTTTAAATCTCAAATG
1 TACTATTTAAAAATAATAAA--AAATAAAATACTTTATATTAAATCT----TG
* *
696968 -ACTATTTAAAAATTAATAAAAATTAAAAATATTTTATATTAA
1 TACTATTTAAAAA-TAATAAAAAAT-AAAATACTTTATATTAA
697010 TCTCAAATTA
Statistics
Matches: 116, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
46 16 0.14
47 27 0.23
48 15 0.13
49 16 0.14
50 15 0.13
51 9 0.08
52 18 0.16
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (47 bp):
TACTATTTAAAAATAATAAAAAATAAAATACTTTATATTAAATCTTG
Found at i:697107 original size:106 final size:105
Alignment explanation
Indices: 696768--697402 Score: 509
Period size: 106 Copynumber: 6.2 Consensus size: 105
696758 AAATAAAATA
* * * ***
696768 AAATTATTATTTTAAAATAATAAAAAAT-AAAAATATGTTATATTAAATTTTAAATTACTATTTA
1 AAATTACTA-TTTAAAATAATAAAAATTAAAAAATATTTTATATTAAATCCAAAATTACTATTTA
* **
696832 AAAATAATAAA-------AATATATATTTTATATT--ATTTT
65 AAAATAATAAATTTTTTTAA-AAATATTTTATATTAAATCCT
* * *
696865 AAATTACTATTTAAAATTAATAAAAAAT-AAAAATACTTTATATTAAAT-C---TTGTACTATTT
1 AAATTACTATTTAAAA-TAATAAAAATTAAAAAATATTTTATATTAAATCCAAAAT-TACTATTT
* *
696925 AAAAATAA-AAA----TTAAATAAATATTTTATTTTAAAT-CT
64 AAAAATAATAAATTTTTTTAA-AAATATTTTATATTAAATCCT
* *
696962 CAAATGACTATTTAAAAATTAATAAAAATT-AAAAATATTTTATATT-AATCTC-AAATTACCAT
1 -AAATTACTATTT-AAAA-TAATAAAAATTAAAAAATATTTTATATTAAATC-CAAAATTACTAT
697024 TTAAAAATAATAAATTTTTTTAAAAAAATATTTTATATT-AATCCT
62 TTAAAAATAATAAATTTTTTT--AAAAATATTTTATATTAAATCCT
* *
697069 GAATTACTATTTAAAA-AATAAAAATTTTAAAAAATATTTGATATTAAATCCAAAATTACTATTT
1 AAATTACTATTTAAAATAATAAAAA--TTAAAAAATATTTTATATTAAATCCAAAATTACTATTT
*
697133 AAAAATAATAAATCTTTTTT--AAATATTTTATATTAAAATCCC
64 AAAAATAATAAAT-TTTTTTAAAAATATTTTATATT-AAATCCT
* * * *
697175 AAATTACTATTTAAAAATAATAAAAATTAAAATATATTTTTTATATTAAATCCTAAATCATTATT
1 AAATTACTATTT-AAAATAATAAAAATTAAAA-A-ATATTTTATATTAAATCCAAAATTACTATT
** *
697240 TAAAAATAATAAA---AATTAAAAATATTTTATATTAAATCTT
63 TAAAAATAATAAATTTTTTTAAAAATATTTTATATTAAATCCT
* * * * * *
697280 GAACTACTTTTTAAAATAAT-AAAA-TAAAATATATTTTATATTAAAATCCCAAATTACAATTTA
1 AAATTACTATTTAAAATAATAAAAATTAAAAAATATTTTATATT-AAATCCAAAATTACTATTTA
** *
697343 AAAATAATAAA---AATT-AAAA-ATTTTATATTAAATCTT
65 AAAATAATAAATTTTTTTAAAAATATTTTATATTAAATCCT
*
697379 AAATTAGTATTTAAAATAATAAAA
1 AAATTACTATTTAAAATAATAAAA
697403 TATTTTATAT
Statistics
Matches: 458, Mismatches: 43, Indels: 71
0.80 0.08 0.12
Matches are distributed among these distances:
93 4 0.01
94 16 0.03
96 22 0.05
97 38 0.08
98 16 0.03
99 63 0.14
100 19 0.04
101 46 0.10
102 9 0.02
103 12 0.03
104 24 0.05
105 20 0.04
106 67 0.15
107 48 0.10
108 54 0.12
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (105 bp):
AAATTACTATTTAAAATAATAAAAATTAAAAAATATTTTATATTAAATCCAAAATTACTATTTAA
AAATAATAAATTTTTTTAAAAATATTTTATATTAAATCCT
Found at i:697305 original size:42 final size:42
Alignment explanation
Indices: 697258--697489 Score: 173
Period size: 42 Copynumber: 5.2 Consensus size: 42
697248 ATAAAAATTA
* * *
697258 AAAATATTTTATATTAAATCTTGAACTACTTTTTAAAATAATAAAAT
1 AAAATATTTTATATTAAATCTTAAATTACTATTT--AA-AAT--AAT
** *
697305 AAAATATATTTTATATTAAAATCCCAAATTACAATTTAAAAATAAT
1 -AAA-ATATTTTATATT-AAATCTTAAATTACTATTT-AAAATAAT
*
697351 AAAAATTAAAAATTTTATATTAAATCTTAAATTAGTATTTAAAATAAT
1 -AAAA-T----ATTTTATATTAAATCTTAAATTACTATTTAAAATAAT
* *
697399 AAAATATTTTATATTAAAACTTCAATTACTATTT-AAATAATT
1 AAAATATTTTATATTAAATCTTAAATTACTATTTAAAATAA-T
** ** *
697441 AAAA-AAATTAGGTTAAATCTTGAATTACTATTTAAAATAAT
1 AAAATATTTTATATTAAATCTTAAATTACTATTTAAAATAAT
697482 AAAA-ATTT
1 AAAATATTT
697490 AAAAATATTT
Statistics
Matches: 154, Mismatches: 21, Indels: 25
0.77 0.10 0.12
Matches are distributed among these distances:
41 36 0.23
42 37 0.24
45 1 0.01
46 9 0.06
47 4 0.03
48 14 0.09
49 30 0.19
50 23 0.15
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (42 bp):
AAAATATTTTATATTAAATCTTAAATTACTATTTAAAATAAT
Found at i:697402 original size:41 final size:41
Alignment explanation
Indices: 697357--697489 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
697347 TAATAAAAAT
*
697357 TAAAAATTTTATATTAAATCTTAAATTAGTATTTAAAATAA
1 TAAAAATTTTATATTAAATCTTAAATTACTATTTAAAATAA
* *
697398 TAAAATATTTTATATTAAAACTTCAATTACTATTT-AAATAA
1 TAAAA-ATTTTATATTAAATCTTAAATTACTATTTAAAATAA
** ** *
697439 TTAAAAAAATTAGGTTAAATCTTGAATTACTATTTAAAATAA
1 -TAAAAATTTTATATTAAATCTTAAATTACTATTTAAAATAA
697481 TAAAAATTT
1 TAAAAATTT
697490 AAAAATATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 41 0.53
42 37 0.47
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (41 bp):
TAAAAATTTTATATTAAATCTTAAATTACTATTTAAAATAA
Found at i:698115 original size:2 final size:2
Alignment explanation
Indices: 698108--698140 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
698098 TAGTTAAAGT
698108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
698141 GCTGTTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:698621 original size:50 final size:50
Alignment explanation
Indices: 698546--698804 Score: 416
Period size: 50 Copynumber: 5.2 Consensus size: 50
698536 AGTTGTTGTC
*
698546 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
698596 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
698646 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
698696 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
* *
698746 ATTGTTGACAATTCTTCACCAACCTTTAACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
698796 ATTGTTGAC
1 ATTGTTGAC
698805 CCTAAGTATA
Statistics
Matches: 196, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
49 1 0.01
50 193 0.98
51 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:698719 original size:100 final size:100
Alignment explanation
Indices: 698546--698804 Score: 475
Period size: 100 Copynumber: 2.6 Consensus size: 100
698536 AGTTGTTGTC
* *
698546 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
698610 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
65 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
698646 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
698711 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
698746 ATTGTTGACAATTCTTCACCAACCTTTAACAATAGAGGGAGGTGGCCATAATTGTTGAC
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
698805 CCTAAGTATA
Statistics
Matches: 155, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
100 153 0.99
101 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (100 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:703277 original size:50 final size:50
Alignment explanation
Indices: 703202--703460 Score: 425
Period size: 50 Copynumber: 5.2 Consensus size: 50
703192 AGTTGTTGTC
*
703202 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
703252 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
703302 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
703352 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
703402 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
703452 ATTGTTGAC
1 ATTGTTGAC
703461 CCTAAGTATA
Statistics
Matches: 197, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
49 1 0.01
50 194 0.98
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:703375 original size:100 final size:100
Alignment explanation
Indices: 703202--703460 Score: 484
Period size: 100 Copynumber: 2.6 Consensus size: 100
703192 AGTTGTTGTC
* *
703202 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
703266 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
65 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
703302 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
703367 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
703402 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
703461 CCTAAGTATA
Statistics
Matches: 156, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
100 154 0.99
101 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (100 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:706046 original size:54 final size:54
Alignment explanation
Indices: 705975--706081 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
705965 GAAGAGCCAG
705975 GCACCACCAAAATGAAAGGACTGGCTACATAGTAAGGGCACAAAAGAGCCCATA
1 GCACCACCAAAATGAAAGGACTGGCTACATAGTAAGGGCACAAAAGAGCCCATA
706029 GCACCACCAAAATGAAAGGACTGGCTACATAGTAAGGGCACAAAAGAGCCCAT
1 GCACCACCAAAATGAAAGGACTGGCTACATAGTAAGGGCACAAAAGAGCCCAT
706082 TTTCCAGTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.42, C:0.24, G:0.22, T:0.11
Consensus pattern (54 bp):
GCACCACCAAAATGAAAGGACTGGCTACATAGTAAGGGCACAAAAGAGCCCATA
Found at i:709738 original size:19 final size:20
Alignment explanation
Indices: 709716--709762 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
709706 AAGATATAAA
709716 AAATAAAATAAAAT-TATAT
1 AAATAAAATAAAATGTATAT
* *
709735 AAATATATTAAAATGTATAT
1 AAATAAAATAAAATGTATAT
709755 AATATAAA
1 AA-ATAAA
709763 TTTATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 12 0.52
20 7 0.30
21 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAATAAAATAAAATGTATAT
Found at i:709773 original size:25 final size:25
Alignment explanation
Indices: 709731--709778 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
709721 AAATAAAATT
*
709731 ATATAAATATATTAAAATGTATATA
1 ATATAAATATATTAAAATATATATA
*
709756 ATATAAATTTA-TATAAATATATA
1 ATATAAATATATTA-AAATATATA
709779 GTAAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATAAATATATTAAAATATATATA
Found at i:709977 original size:16 final size:17
Alignment explanation
Indices: 709956--709987 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
709946 TAAATAAATC
709956 TTAAATAT-ATTATCTA
1 TTAAATATAATTATCTA
709972 TTAAATATAATTATCT
1 TTAAATATAATTATCT
709988 TAATAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATATAATTATCTA
Found at i:710130 original size:24 final size:22
Alignment explanation
Indices: 710102--710154 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
710092 TTAATTATCT
*
710102 ATTAAAAATAATTTTTTATAAAAA
1 ATTAAAAA-AATTATTT-TAAAAA
*
710126 ATTAATTAAAATTATTTTAAAAA
1 ATTAA-AAAAATTATTTTAAAAA
710149 A-TAAAA
1 ATTAAAA
710155 TTTAGAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.04
22 3 0.12
23 7 0.28
24 12 0.48
25 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTAAAAAAATTATTTTAAAAA
Found at i:710576 original size:14 final size:14
Alignment explanation
Indices: 710559--710618 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
710549 GTTTATTATT
710559 TTATATAATATAAA
1 TTATATAATATAAA
710573 TTATATATTATATAAAA
1 TTATATA--ATAT-AAA
* *
710590 TATAAAATAATATATA
1 T-T-ATATAATATAAA
710606 TTATATAAT-TAAA
1 TTATATAATATAAA
710619 AAATATAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
13 3 0.08
14 13 0.35
15 1 0.03
16 7 0.19
17 8 0.22
18 1 0.03
19 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATATAATATAAA
Found at i:710581 original size:26 final size:24
Alignment explanation
Indices: 710552--710624 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
710542 ATTATATGTT
*
710552 TATTATTTTATATAATAT-AAATTA
1 TATTA-TTTATATAATATAAAATAA
*
710576 TA-TATTATATAAAATATAAAATAA
1 TATTATT-TATATAATATAAAATAA
710600 TA-TATATTATATAAT-TAAAA-AA
1 TATTAT-TTATATAATATAAAATAA
710622 TAT
1 TAT
710625 AAGTTAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
22 6 0.14
23 16 0.38
24 19 0.45
25 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTATTTATATAATATAAAATAA
Found at i:713488 original size:101 final size:103
Alignment explanation
Indices: 713357--713568 Score: 349
Period size: 101 Copynumber: 2.1 Consensus size: 103
713347 AATATCATAA
* *
713357 TTAAATGTCTAAAATAATGTTTAGGATAATTATT-AGTTTGTTGTTTATATATGTTATATAAATA
1 TTAAATGTCTAAAATAATGTTTAGGATAATTATTCA-TTTATTGTTTATATATATTATATAAATA
713421 TATTAAAAACTAATGTG-TTTATATATAAACATGTTAAT
65 TATTAAAAACTAATGTGTTTTATATATAAACATGTTAAT
*
713459 TTAAATGTC-AAAATAATGTTTAGGATAATTATTCATTTATTTTTTATATATATTATATAAATAT
1 TTAAATGTCTAAAATAATGTTTAGGATAATTATTCATTTATTGTTTATATATATTATATAAATAT
**
713523 ATTAAAAACTAATGTGTTTTATATATAAATGTGTTAAT
66 ATTAAAAACTAATGTGTTTTATATATAAACATGTTAAT
713561 TTAAATGT
1 TTAAATGT
713569 GTCTACACAT
Statistics
Matches: 103, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
101 66 0.64
102 37 0.36
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (103 bp):
TTAAATGTCTAAAATAATGTTTAGGATAATTATTCATTTATTGTTTATATATATTATATAAATAT
ATTAAAAACTAATGTGTTTTATATATAAACATGTTAAT
Found at i:714988 original size:102 final size:103
Alignment explanation
Indices: 714801--715003 Score: 297
Period size: 102 Copynumber: 2.0 Consensus size: 103
714791 TTAATGTAAC
*
714801 AATCCTAAAAATCCATAAACTAAATGATGAATGGGTTATCCAAGTATTCATTTCGAAGGTGCACC
1 AATCCTAAAAATCCATAAACTAAATGATGAATGGGCTATCCAAGTATTCATTTCGAA-GTGCACC
*
714866 ACAAGCACCTTAAATATGCATT-GAAAATGCTCTACAGT
65 ACAAGCACCTTAAATATGCATTAAAAAATGCTCTACAGT
* *
714904 AATCCT-AAAGTCCATAAACTAAATGATGAATGGGCTATCCTAGTATTCACTTTAAC-AA-TGCA
1 AATCCTAAAAATCCATAAACTAAATGATGAATGGGCTATCCAAGTATTCA-TTT--CGAAGTGCA
*
714966 CCATAAGCACCTTAAATATGCATTAAAAAATGCTCTAC
63 CCACAAGCACCTTAAATATGCATTAAAAAATGCTCTAC
715004 CTATAAAACT
Statistics
Matches: 91, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
102 67 0.74
103 21 0.23
104 2 0.02
105 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (103 bp):
AATCCTAAAAATCCATAAACTAAATGATGAATGGGCTATCCAAGTATTCATTTCGAAGTGCACCA
CAAGCACCTTAAATATGCATTAAAAAATGCTCTACAGT
Found at i:721441 original size:22 final size:23
Alignment explanation
Indices: 721407--721467 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
721397 TCCAAATTTG
* *
721407 TTTTATTTAATAAAAATAT-TTAA
1 TTTTAATT-ATAAAAATATATAAA
*
721430 TTTTAATTATAATAATATATAAA
1 TTTTAATTATAAAAATATATAAA
*
721453 TATTAA-TATAAAAAT
1 TTTTAATTATAAAAAT
721468 TAATTTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTTAATTATAAAAATATATAAA
Found at i:722170 original size:15 final size:14
Alignment explanation
Indices: 722142--722168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
722132 TTTGCATTAA
722142 AAAATTAAAAAAAT
1 AAAATTAAAAAAAT
722156 AAAATTAAAAAAA
1 AAAATTAAAAAAA
722169 ATTGGGGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATTAAAAAAAT
Found at i:723024 original size:2 final size:2
Alignment explanation
Indices: 723017--723066 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
723007 ATATGTGTAA
723017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
723059 AT AT AT AT
1 AT AT AT AT
723067 CAGAACCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:725267 original size:19 final size:20
Alignment explanation
Indices: 725240--725278 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
725230 ATAATTAAAT
*
725240 TTAAATAAA-AATATTTTTA
1 TTAAATAAATAATAATTTTA
*
725259 TTAATTAAATAATAATTTTA
1 TTAAATAAATAATAATTTTA
725279 GACCGACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATAAATAATAATTTTA
Found at i:725812 original size:3 final size:3
Alignment explanation
Indices: 725799--725838 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
725789 CTTAACTTTC
* *
725799 ATA AAA ATA ATA ATA AAA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
725839 ACAAATGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:725816 original size:12 final size:12
Alignment explanation
Indices: 725799--725839 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
725789 CTTAACTTTC
725799 ATAAAAATAATA
1 ATAAAAATAATA
725811 ATAAAAATAATA
1 ATAAAAATAATA
*
725823 ATAATAATAATA
1 ATAAAAATAATA
725835 ATAAA
1 ATAAA
725840 CAAATGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:726100 original size:19 final size:18
Alignment explanation
Indices: 726064--726100 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
726054 TAGAAAAACT
*
726064 TTTTTTATTAAAATATAA
1 TTTTTTATTAAAAAATAA
726082 TTTTTTATTAATAAAATAA
1 TTTTTTATTAA-AAAATAA
726101 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTATTAAAAAATAA
Found at i:726107 original size:21 final size:20
Alignment explanation
Indices: 726057--726107 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
726047 ATTATTCTAG
*
726057 AAAAACTTTTTTTATTAAAAT
1 AAAAA-TTTTTTTAATAAAAT
* *
726078 ATAATTTTTTATTAATAAAAT
1 AAAAATTTTT-TTAATAAAAT
726099 AAAAATTTT
1 AAAAATTTT
726108 AATCGAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAATTTTTTTAATAAAAT
Found at i:726198 original size:17 final size:18
Alignment explanation
Indices: 726178--726220 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
726168 TAAGTTTACA
726178 AATTAAATAAA-TAATTT
1 AATTAAATAAATTAATTT
*
726195 AATT-TATAAATTAATTT
1 AATTAAATAAATTAATTT
726212 AATTTAAAT
1 AA-TTAAAT
726221 CTTAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 2 0.10
19 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAAATAAATTAATTT
Found at i:726225 original size:17 final size:17
Alignment explanation
Indices: 726184--726217 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
726174 TACAAATTAA
726184 ATAAA-TAATTTAATTT
1 ATAAATTAATTTAATTT
726200 ATAAATTAATTTAATTT
1 ATAAATTAATTTAATTT
726217 A
1 A
726218 AATCTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAAATTAATTTAATTT
Found at i:727902 original size:21 final size:21
Alignment explanation
Indices: 727856--727921 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
727846 TTTATATATT
* *
727856 ATATTTTATAAA-ATTATGTTA
1 ATATTTAATAAATTTTAT-TTA
*
727877 TTATTTAATAAATTTTATTTA
1 ATATTTAATAAATTTTATTTA
*
727898 ATATTATTAATAATTTTTTATTTA
1 ATA-T-TTAATAA-ATTTTATTTA
727922 TTTAATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 15 0.42
22 5 0.14
23 7 0.19
24 9 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATATTTAATAAATTTTATTTA
Found at i:727916 original size:24 final size:24
Alignment explanation
Indices: 727875--727921 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
727865 AAAATTATGT
727875 TATTATTTAATAAATTTTATTTAA
1 TATTATTTAATAAATTTTATTTAA
*
727899 TATTA-TTAATAATTTTTTATTTA
1 TATTATTTAATAA-ATTTTATTTA
727922 TTTAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATTTAATAAATTTTATTTAA
Found at i:729001 original size:18 final size:17
Alignment explanation
Indices: 728974--729008 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
728964 ATTATCTAGG
728974 AAGAGAATAATATTTAA
1 AAGAGAATAATATTTAA
*
728991 AAGATGAATAATTTTTAA
1 AAGA-GAATAATATTTAA
729009 TTGAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
AAGAGAATAATATTTAA
Found at i:730818 original size:17 final size:17
Alignment explanation
Indices: 730798--730834 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
730788 AAATAGCATC
*
730798 AATAATATTGGAGACTA
1 AATAATATTGAAGACTA
730815 AATAATATTGAAGACTA
1 AATAATATTGAAGACTA
730832 AAT
1 AAT
730835 TTTAGTACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (17 bp):
AATAATATTGAAGACTA
Found at i:731524 original size:13 final size:13
Alignment explanation
Indices: 731498--731530 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
731488 TTATTTTAAA
731498 TTTTTTAATAATT
1 TTTTTTAATAATT
731511 TTTTTATAAT-ATT
1 TTTTT-TAATAATT
731524 TTTTTTA
1 TTTTTTA
731531 GTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 13 0.68
14 4 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTTAATAATT
Found at i:731530 original size:14 final size:14
Alignment explanation
Indices: 731498--731545 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
731488 TTATTTTAAA
731498 TTTTT-TAATAATT
1 TTTTTATAATAATT
*
731511 TTTTTATAATATTT
1 TTTTTATAATAATT
* *
731525 TTTTTAGTAAAAATA
1 TTTTTA-TAATAATT
731540 TTTTTA
1 TTTTTA
731546 AAATGAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 5 0.17
14 13 0.45
15 11 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTTATAATAATT
Found at i:732091 original size:30 final size:30
Alignment explanation
Indices: 732010--732102 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
732000 AATTATTTAA
*
732010 AATTTTTAAATTT-TATTTAAAT-ATTTTTT
1 AATTTTT-AATTTATATTTAAATAAATTTTT
* * *
732039 ATATTTTT-A-TGATGTTTTAATAAATTTTT
1 A-ATTTTTAATTTATATTTAAATAAATTTTT
*
732068 AATTTTTAATTTATATTTAAATAAATTATT
1 AATTTTTAATTTATATTTAAATAAATTTTT
732098 AATTT
1 AATTT
732103 AAATCAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.02
28 14 0.27
29 9 0.18
30 27 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
AATTTTTAATTTATATTTAAATAAATTTTT
Found at i:732112 original size:29 final size:30
Alignment explanation
Indices: 732057--732114 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
732047 ATGATGTTTT
* * **
732057 AATAAATTTTTAATTTTTAATTTATATTTA
1 AATAAATTATTAATTTTAAATCAATATTTA
732087 AATAAATTATTAA-TTTAAATCAATATTT
1 AATAAATTATTAATTTTAAATCAATATTT
732115 TACTAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
AATAAATTATTAATTTTAAATCAATATTTA
Found at i:732151 original size:29 final size:28
Alignment explanation
Indices: 732119--732196 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 28
732109 ATATTTTACT
732119 AAAAATAAACATTTATTTAATAAAAATAA
1 AAAAATAAA-ATTTATTTAATAAAAATAA
* ** * * *
732148 AAAATTTAATTTTTAATTAATTATAATAA
1 AAAA-ATAAAATTTATTTAATAAAAATAA
*
732177 AAATATAAAATTTAATTTAA
1 AAAAATAAAATTT-ATTTAA
732197 ATAAGTAAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
28 6 0.17
29 27 0.75
30 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAAATAAAATTTATTTAATAAAAATAA
Found at i:732154 original size:22 final size:21
Alignment explanation
Indices: 732113--732155 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
732103 AAATCAATAT
* *
732113 TTTACTAAAAATAAACATTTA
1 TTTAATAAAAATAAAAATTTA
732134 TTTAATAAAAATAAAAAATTTA
1 TTTAATAAAAAT-AAAAATTTA
732156 ATTTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TTTAATAAAAATAAAAATTTA
Found at i:732190 original size:28 final size:28
Alignment explanation
Indices: 732118--732193 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
732108 AATATTTTAC
* *
732118 TAAAAATA-AACATTTATTTAATAAAAA
1 TAAAAATATAAAATTTAATTAATAAAAA
* ** * *
732145 TAAAAAATTTAATTTTTAATTAATTATAA
1 T-AAAAATATAAAATTTAATTAATAAAAA
732174 TAAAAATATAAAATTTAATT
1 TAAAAATATAAAATTTAATT
732194 TAAATAAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.03
28 22 0.58
29 15 0.39
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAAAATATAAAATTTAATTAATAAAAA
Found at i:733637 original size:16 final size:16
Alignment explanation
Indices: 733618--733677 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
733608 CCAAAAAAAT
*
733618 TTAAATTTAAAATTAC
1 TTAAATTTAAAATAAC
*
733634 TTAAATTTAAAATAAT
1 TTAAATTTAAAATAAC
*
733650 TTAAATCTAAAATAA-
1 TTAAATTTAAAATAAC
733665 TTCAAATATTAAA
1 TT-AAAT-TTAAA
733678 TTTGAAATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 2 0.05
16 32 0.84
17 4 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAATTTAAAATAAC
Found at i:734715 original size:28 final size:28
Alignment explanation
Indices: 734681--734738 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
734671 ACAAAAATTA
734681 AAATTAATAA-TAAAAATTTTATTACATT
1 AAATTAA-AATTAAAAATTTTATTACATT
* *
734709 AAATTAAAATTTAAAATTTTTATTTCATT
1 AAATTAAAA-TTAAAAATTTTATTACATT
734738 A
1 A
734739 TAATGATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 2 0.08
28 7 0.27
29 17 0.65
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATTAAAATTAAAAATTTTATTACATT
Found at i:735057 original size:23 final size:23
Alignment explanation
Indices: 735014--735060 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
735004 AACATAATAG
* *
735014 TTTATTTATATTTTTGTTAATTT
1 TTTATTTATATTTTAGGTAATTT
735037 TTTATTT-TATATTTAGGTAATTT
1 TTTATTTATAT-TTTAGGTAATTT
735060 T
1 T
735061 ATTAACTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (23 bp):
TTTATTTATATTTTAGGTAATTT
Found at i:735600 original size:21 final size:20
Alignment explanation
Indices: 735575--735633 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
735565 TGGCATAATT
735575 ATTATATTATTTTATTAAAAA
1 ATTATATT-TTTTATTAAAAA
*
735596 ATTATATTTGATGTATT-AAAA
1 ATTATATTT--TTTATTAAAAA
735617 ATTAT-TTTTTTATTAAA
1 ATTATATTTTTTATTAAA
735634 TTTAAAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 5 0.15
19 2 0.06
20 4 0.12
21 17 0.52
22 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTATATTTTTTATTAAAAA
Found at i:735991 original size:22 final size:23
Alignment explanation
Indices: 735948--735992 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
735938 ATTAATATAA
735948 TAAATTTATTAATTAAATTAAAT
1 TAAATTTATTAATTAAATTAAAT
* *
735971 TAAATTT-TTTATTCAATTAAAT
1 TAAATTTATTAATTAAATTAAAT
735993 CCGATTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATTTATTAATTAAATTAAAT
Found at i:741999 original size:51 final size:51
Alignment explanation
Indices: 741927--742040 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
741917 AAAAAAAAAA
* * *
741927 ATGCATTGCATTGCATTGGATTCCATACT-TGTCATTGCATGCTTTTATTTTC
1 ATGCATTTCA-TGCATTGGATTCCATA-TGTGTCATTACATGCTTTTACTTTC
741979 ATGCATTTCATGCATTGGATTCCATATGTGTCATTACATGCTTTTACTTTC
1 ATGCATTTCATGCATTGGATTCCATATGTGTCATTACATGCTTTTACTTTC
* *
742030 TTGTATTTCAT
1 ATGCATTTCAT
742041 ATATGTATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 1 0.02
51 46 0.82
52 9 0.16
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (51 bp):
ATGCATTTCATGCATTGGATTCCATATGTGTCATTACATGCTTTTACTTTC
Found at i:742092 original size:23 final size:23
Alignment explanation
Indices: 742063--742147 Score: 91
Period size: 23 Copynumber: 3.5 Consensus size: 23
742053 TGTCATTTTC
742063 ATTTCATGCATTTCATACATTAT
1 ATTTCATGCATTTCATACATTAT
*
742086 ATTTCATGCATACATTTCAATA-ATTTT
1 ATTTCATG----CATTTC-ATACATTAT
*
742113 CATTTCATGCATTTCATACATTAC
1 -ATTTCATGCATTTCATACATTAT
742137 ATTTCATGCAT
1 ATTTCATGCAT
742148 GCATTTCACG
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
23 22 0.42
24 9 0.17
27 10 0.19
28 11 0.21
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.46
Consensus pattern (23 bp):
ATTTCATGCATTTCATACATTAT
Found at i:742123 original size:51 final size:51
Alignment explanation
Indices: 742057--742155 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
742047 ATTTCATGTC
*
742057 ATTTTCATTTCATGCATTTCATACATTATATTTCATGCATACATTTCAATA
1 ATTTTCATTTCATGCATTTCATACATTACATTTCATGCATACATTTCAATA
*
742108 ATTTTCATTTCATGCATTTCATACATTACATTTCATGCATGCATTTCA
1 ATTTTCATTTCATGCATTTCATACATTACATTTCATGCATACATTTCA
742156 CGTAACATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.46
Consensus pattern (51 bp):
ATTTTCATTTCATGCATTTCATACATTACATTTCATGCATACATTTCAATA
Found at i:742574 original size:33 final size:33
Alignment explanation
Indices: 742497--742583 Score: 115
Period size: 33 Copynumber: 2.6 Consensus size: 33
742487 AACTGTTGCT
* *
742497 GCAAATGAATGCAATTGAAACAGCAGTTCAAGA
1 GCAAATGAATGCAATCGAAACAGCAATTCAAGA
742530 G-AGAATGAATGCAATCGAAACAGCAATTCAA-A
1 GCA-AATGAATGCAATCGAAACAGCAATTCAAGA
*
742562 GGCAAATAAATGCAATCGAAAC
1 -GCAAATGAATGCAATCGAAAC
742584 TACTGCAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 2 0.04
33 45 0.94
34 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (33 bp):
GCAAATGAATGCAATCGAAACAGCAATTCAAGA
Found at i:742996 original size:64 final size:65
Alignment explanation
Indices: 742822--743009 Score: 290
Period size: 65 Copynumber: 2.9 Consensus size: 65
742812 GGAGAGCAAT
* *
742822 CGAAAGAGAGAAGGGGAGGGGAATCGAAACAAAAGGCAATTGAAAACAAAGAACCAAACCAGAAA
1 CGAAAGAGAGAGGGGGAGGGGAATCGAAACAAAAGGCAATTGAAAACAAAGAAACAAACCAGAAA
* *
742887 CGAAAGAGAGAGGGGGAGGGGAATCGATACAAAAGGCAATCGAAAACAAAGAAACAAACCAGAAA
1 CGAAAGAGAGAGGGGGAGGGGAATCGAAACAAAAGGCAATTGAAAACAAAGAAACAAACCAGAAA
* * *
742952 TGAAA-A-AGAGGAGGGAAGGGAATCGAAACAAAAGGCAATTGAAAACAAAGAAAGAAAC
1 CGAAAGAGAGAGG-GGGAGGGGAATCGAAACAAAAGGCAATTGAAAACAAAGAAACAAAC
743010 GAAAAGAAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
63 5 0.04
64 43 0.38
65 65 0.58
ACGTcount: A:0.54, C:0.12, G:0.28, T:0.05
Consensus pattern (65 bp):
CGAAAGAGAGAGGGGGAGGGGAATCGAAACAAAAGGCAATTGAAAACAAAGAAACAAACCAGAAA
Found at i:752387 original size:58 final size:58
Alignment explanation
Indices: 752325--752570 Score: 198
Period size: 58 Copynumber: 4.3 Consensus size: 58
752315 TAAAAGCCCA
* *
752325 TAAATCATGAAAAATAACCTAAATGACCTCATTATTCAT-AAAGTGGCATAAAAATCCT
1 TAAATCATGAAAAATAACCTAAATGACCTCAATATACATGAAA-TGGCATAAAAATCCT
* * * * *
752383 TAAATCACT-AAAAATAACATAAATGACCTCAATATACGTGAAATTGTATAAAAATCTT
1 TAAATCA-TGAAAAATAACCTAAATGACCTCAATATACATGAAATGGCATAAAAATCCT
* * * * * * *
752441 TAGATCATGGAAAATAGCCTACATGACCTCAACATACATGAAATTGTATAAAAATTCC-
1 TAAATCATGAAAAATAACCTAAATGACCTCAATATACATGAAATGGCATAAAAA-TCCT
* * * * * ** * *
752499 TAGATCATGAAAAATTACTTAAATAACCTTACA-ATAC-T-AAATATACATAAAAGTTCT
1 TAAATCATGAAAAATAACCTAAATGACCTCA-ATATACATGAAAT-GGCATAAAAATCCT
752556 TAAATCATGAAAAAT
1 TAAATCATGAAAAAT
752571 GAGATAAAAA
Statistics
Matches: 154, Mismatches: 27, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
56 6 0.04
57 23 0.15
58 118 0.77
59 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.28
Consensus pattern (58 bp):
TAAATCATGAAAAATAACCTAAATGACCTCAATATACATGAAATGGCATAAAAATCCT
Found at i:754653 original size:19 final size:16
Alignment explanation
Indices: 754629--754725 Score: 89
Period size: 13 Copynumber: 6.0 Consensus size: 16
754619 ATTCAGTAAA
754629 TGTATCGATACATAAGTTT
1 TGTATCGATACA-AAG--T
754648 TGTATCGATAC-AA--
1 TGTATCGATACAAAGT
754661 TGTATCGATACATAAGTTT
1 TGTATCGATACA-AAG--T
754680 TGTATCGATAC-AA--
1 TGTATCGATACAAAGT
754693 TGTATCGATACATAAGT
1 TGTATCGATACA-AAGT
754710 TGTATCGATACAAAGT
1 TGTATCGATACAAAGT
754726 ATCGCTACGA
Statistics
Matches: 68, Mismatches: 0, Indels: 23
0.75 0.00 0.25
Matches are distributed among these distances:
13 22 0.32
15 4 0.06
16 4 0.06
17 16 0.24
19 22 0.32
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (16 bp):
TGTATCGATACAAAGT
Found at i:754668 original size:32 final size:32
Alignment explanation
Indices: 754627--754729 Score: 183
Period size: 32 Copynumber: 3.3 Consensus size: 32
754617 ACATTCAGTA
754627 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
754659 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
754691 AATGTATCGATACATAAG--TTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
*
754721 AAAGTATCG
1 AATGTATCG
754730 CTACGAAGCT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
30 20 0.29
32 50 0.71
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTTTTGTATCGATAC
Found at i:754772 original size:21 final size:21
Alignment explanation
Indices: 754746--754787 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
754736 AGCTACTGCC
754746 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
754767 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
754788 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:754792 original size:13 final size:13
Alignment explanation
Indices: 754774--754799 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
754764 ATTAAGGAAA
754774 TGTATCGATACAT
1 TGTATCGATACAT
754787 TGTATCGATACAT
1 TGTATCGATACAT
754800 CTATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:757238 original size:52 final size:52
Alignment explanation
Indices: 757111--757392 Score: 383
Period size: 52 Copynumber: 5.4 Consensus size: 52
757101 CAATTTTTCA
* * * *
757111 TAATCGGGGATACCCCAACCCTGGTTTTA-TTTCTAAAACACTAATTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTT
757162 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
*
757214 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
* *
757266 TAATCGGGGATACTCCACCCCCAGTTTTATTTTCAAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
* * * * *
757318 TAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTT
* *
757369 ACAATCGGGGATACTCTAACCCCG
1 -TAATCGGGGATACTCCAACCCCG
757393 TTATTGTCGA
Statistics
Matches: 208, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
51 44 0.21
52 151 0.73
53 13 0.06
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (52 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
Found at i:757455 original size:80 final size:79
Alignment explanation
Indices: 757371--757656 Score: 343
Period size: 78 Copynumber: 3.6 Consensus size: 79
757361 AATTTTTTAC
* * * *
757371 AATCGGGGATACTCTAACCCCGTTATTGTC-GAGGAGATACTCCAACCTCTGACTTTATTCCTAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCAGAGGGGATACTCCAACC-C-GGCTTTATTCCTAA
757435 AATATTGATTTCTCAT
64 AATATTGATTTCTCAT
* *
757451 AATCGGGGATACTCCAACCTCGTTATTTTC-GAGGGGATACTCCAACCCGGCTTTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCAGAGGGGATACTCCAACCCGGCTTTATTCCTAAAA
*
757515 TATTAATTTCTCAT
66 TATTGATTTCTCAT
* * * *
757529 AATCGAGGATACTCCAACCCCGTTA-TCTCTGAGGGGATACTCCAACCCCGGTTTTATTTCC--A
1 AATCGGGGATACTCCAACCCCGTTATTTTCAGAGGGGATACTCCAA-CCCGGCTTTA-TTCCTAA
* *
757591 AATCATCGATTTTTTCAT
64 AAT-ATTGA-TTTCTCAT
*
757609 AATCGGGGATACTCCAA-CCCGTTATTTTCA-AAGGGATACTCCAACCCG
1 AATCGGGGATACTCCAACCCCGTTATTTTCAGAGGGGATACTCCAACCCG
757657 TTATTTTCAA
Statistics
Matches: 181, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
77 3 0.02
78 73 0.40
79 33 0.18
80 72 0.40
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
AATCGGGGATACTCCAACCCCGTTATTTTCAGAGGGGATACTCCAACCCGGCTTTATTCCTAAAA
TATTGATTTCTCAT
Found at i:757539 original size:158 final size:158
Alignment explanation
Indices: 757325--757656 Score: 404
Period size: 158 Copynumber: 2.1 Consensus size: 158
757315 CTTTAATCGA
* * * * *
757325 GGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTTACAATCGGGGATACTCTAACC
1 GGATACTCCAAC-CCGACTTTATTTCCAAAAACACTAATTTCTCACAATCGAGGATACTCCAACC
* * *
757390 CCGTTAT-TGTCGAGGAGATACTCCAACCTCTGACTTTA-TTCCTAAAAT-ATTGA-TTTCTCAT
65 CCGTTATCTCT-GAGGAGATACTCCAACC-CCGACTTTATTTCC--AAATCATCGATTTTCTCAT
* *
757451 AATCGGGGATACTCCAACCTCGTTATTTTCGAGG
126 AATCGGGGATACTCCAACC-CGTTATTTTCAAAG
* * * * *
757485 GGATACTCCAACCCGGCTTTATTT-CTAAAATATTAATTTCTCATAATCGAGGATACTCCAACCC
1 GGATACTCCAACCCGACTTTATTTCCAAAAACACTAATTTCTCACAATCGAGGATACTCCAACCC
* ** *
757549 CGTTATCTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTTTCATAATCG
66 CGTTATCTCTGAGGAGATACTCCAACCCCGACTTTATTTCCAAATCATCGATTTTCTCATAATCG
757614 GGGATACTCCAACCCGTTATTTTCAAAG
131 GGGATACTCCAACCCGTTATTTTCAAAG
757642 GGATACTCCAACCCG
1 GGATACTCCAACCCG
757657 TTATTTTCAA
Statistics
Matches: 149, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
156 4 0.03
157 37 0.25
158 84 0.56
159 12 0.08
160 12 0.08
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (158 bp):
GGATACTCCAACCCGACTTTATTTCCAAAAACACTAATTTCTCACAATCGAGGATACTCCAACCC
CGTTATCTCTGAGGAGATACTCCAACCCCGACTTTATTTCCAAATCATCGATTTTCTCATAATCG
GGGATACTCCAACCCGTTATTTTCAAAG
Found at i:757542 original size:78 final size:78
Alignment explanation
Indices: 757325--757656 Score: 355
Period size: 80 Copynumber: 4.2 Consensus size: 78
757315 CTTTAATCGA
* * * * * * * *
757325 GGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTTACAATCGGGGATACTCTAACC
1 GGATACTCCAAC-CCGACTTTATTT-CTAAAATATTAATTTCTCATAATCGGGGATACTCCAACC
*
757390 CCGTTATTGTCGAGG
64 CCGTTATTTTCGAGG
* * *
757405 AGATACTCCAACCTCTGACTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
1 GGATACTCCAACC-C-GACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACC
*
757470 TCGTTATTTTCGAGG
64 CCGTTATTTTCGAGG
* *
757485 GGATACTCCAACCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACTCCAACCCC
1 GGATACTCCAACCCGACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCC
*
757550 GTTA-TCTCTGAGG
66 GTTATTTTC-GAGG
** * * * *
757563 GGATACTCCAACCCCGGTTTTATTTC-CAAATCATCGATTTTTTCATAATCGGGGATACTCCAA-
1 GGATACTCCAA-CCCGACTTTATTTCTAAAAT-AT-TAATTTCTCATAATCGGGGATACTCCAAC
* *
757626 CCCGTTATTTTCAAAG
63 CCCGTTATTTTCGAGG
757642 GGATACTCCAACCCG
1 GGATACTCCAACCCG
757657 TTATTTTCAA
Statistics
Matches: 216, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
77 3 0.01
78 73 0.34
79 37 0.17
80 95 0.44
81 8 0.04
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCGACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCC
GTTATTTTCGAGG
Found at i:757652 original size:27 final size:27
Alignment explanation
Indices: 757614--757687 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
757604 TTCATAATCG
757614 GGGATACTCCAACCCGTTATTTTCAAA
1 GGGATACTCCAACCCGTTATTTTCAAA
757641 GGGATACTCCAACCCGTTATTTTCAAA
1 GGGATACTCCAACCCGTTATTTTCAAA
757668 GGGATACTCCAACCCCGTTA
1 GGGATACTCCAA-CCCGTTA
757688 CTATCTCCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 39 0.85
28 7 0.15
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
GGGATACTCCAACCCGTTATTTTCAAA
Found at i:764070 original size:61 final size:60
Alignment explanation
Indices: 763853--764536 Score: 760
Period size: 61 Copynumber: 11.3 Consensus size: 60
763843 GCCCTTCCAA
* * * * * *
763853 TCCTCAAAGAGCAGGACACCTCTTCTTTTTAAAGCCCACACAAGTTGGTGACACCTTCAA
1 TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
*
763913 TCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT-AG
1 TCCTCAAAGAGCAGGACG-C-TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * * * * * *
763975 TCCTCAAAGAGCAGGACACCTCTTCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* * * *
764036 TCCTCAAAAAGCAGGATGGTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* * * * *
764097 TCCCCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * *
764158 TCCTCAAAGAGCAGGACAC-----C-TTTTAAAGCCCACATAAGTTGGTGGCACTTCCTAG
1 TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AG
*
764213 TCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * * * *
764274 TCCTCAAAGAGTAGGAC-ATCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-TG
1 TCCTCAAAGAGCAGGACGCT-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * * * *
764334 TCCTCAAAAAGCAGGGCGCTTTTT-TCGTTTAAAGTCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCTTTTTCT-TTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
* *
764394 TCTTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT-AG
1 TCCTCAAAGAGCAGGACG-C-TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * * * *
764456 TCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAG
764517 TCCTCAAAGAGCAGGACGCT
1 TCCTCAAAGAGCAGGACGCT
764537 CCCTCCTTTC
Statistics
Matches: 527, Mismatches: 73, Indels: 47
0.81 0.11 0.07
Matches are distributed among these distances:
54 3 0.01
55 44 0.08
56 1 0.00
59 9 0.02
60 137 0.26
61 224 0.43
62 102 0.19
63 7 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
TCCTCAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAG
Found at i:764632 original size:55 final size:55
Alignment explanation
Indices: 764546--765030 Score: 465
Period size: 55 Copynumber: 8.5 Consensus size: 55
764536 TCCCTCCTTT
* * *
764546 CACCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
*
764601 CACCTTTTAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGG
* * *
764662 CA-CTTCCTAGTCCTCAAAGAACAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTT-TTAGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGG
* ** * *
764723 CACCTTTCAGTCCTCAAAGAATAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
* *
764778 CA--TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTT--AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
764833 CACCTTTCAGTCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACGAGTTGGAGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
* ** * * * *
764888 TACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTAGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
764943 CA-CTTCTCAGTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGA
1 CACCTT-TTAGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGG
*
765004 CACCTTCTAGTCCTCAAAGAGCAGGAC
1 CACCTTTTAGTCCTCAAAGAGCAGGAC
765031 ACACTTTATT
Statistics
Matches: 360, Mismatches: 44, Indels: 49
0.79 0.10 0.11
Matches are distributed among these distances:
53 3 0.01
54 3 0.01
55 203 0.56
56 4 0.01
57 3 0.01
58 1 0.00
60 8 0.02
61 129 0.36
62 6 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (55 bp):
CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:764858 original size:110 final size:111
Alignment explanation
Indices: 764555--765037 Score: 517
Period size: 110 Copynumber: 4.2 Consensus size: 111
764545 TCACCTTTTT
** * *
764555 GTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
764619 GAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTA
66 GAGTAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACCTTCC-A
* **
764671 GTCCTCAAAGAACAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
1 GTCCTCAAAGAGCAGGA--C---ACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * **
764736 TCAAAGAATAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
61 TCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCA
*
764787 GTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * * * *
764851 GAGTAGGATGCCTTTTAAAGCCCACACGAGTTGGAGGTACCTTCCA
66 GAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCA
** * * *
764897 GTCCTCAAAGAGCAGGATGCC-TTTCAAAGCCCACACGAGTTAGTGGCA-CTTCTCAGTCCTTAA
1 GTCCTCAAAGAGCAGGACACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAA
* * * *
764960 AGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGACACCTTCTA
65 AGAGTAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTTCCA
765013 GTCCTCAAAGAGCAGGACACACTTT
1 GTCCTCAAAGAGCAGGACAC-CTTT
765038 ATTTTCCTCT
Statistics
Matches: 313, Mismatches: 37, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
109 5 0.02
110 138 0.44
111 7 0.02
114 1 0.00
116 99 0.32
117 5 0.02
118 2 0.01
120 1 0.00
121 6 0.02
122 49 0.16
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (111 bp):
GTCCTCAAAGAGCAGGACACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCA
Found at i:765059 original size:42 final size:43
Alignment explanation
Indices: 765013--765232 Score: 213
Period size: 42 Copynumber: 5.1 Consensus size: 43
765003 ACACCTTCTA
*
765013 GTCCTCAAAGAGCAGGACACACTTTATTTTCCTCTTT-CT-TTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCT-TTTCCTCTTT
*
765055 GTCCTCAAAGAGCAGGACGCA-TTTCGTTTTCCTTTT-CTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTTTCCTTTTCCT-CTTT
* * * * *
765098 GTCCTCAAAAAGCAAGACGCTCTTTA-TTTCCTTATTTTCCCTCCTA
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCC---TTTT-CCTCTTT
765144 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTCCT-TTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTCCTCTTT
* * * *
765186 GTCCTCAGAGAGCAGGACGTA-TTTCATTTCCCTTTTTC-CTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTTTCCTTTTCCTCTTT
765228 GTCCT
1 GTCCT
765233 AAAAAAACGG
Statistics
Matches: 149, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
41 11 0.07
42 71 0.48
43 24 0.16
44 7 0.05
45 4 0.03
46 25 0.17
47 7 0.05
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTCCTCTTT
Found at i:766027 original size:19 final size:21
Alignment explanation
Indices: 765979--766033 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
765969 AATTTTAATA
*
765979 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
766000 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
766020 -TTTGTATCGATACA
1 ATTTGTATCGATACA
766034 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:766040 original size:13 final size:13
Alignment explanation
Indices: 766022--766046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
766012 ACATAAGTTT
766022 TGTATCGATACAA
1 TGTATCGATACAA
766035 TGTATCGATACA
1 TGTATCGATACA
766047 TAAGTTGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:766057 original size:17 final size:16
Alignment explanation
Indices: 766003--766067 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 16
765993 ATTCAGTAAA
766003 TGTATCGATACATAAGTTT
1 TGTATCGATACA-AAG--T
766022 TGTATCGATAC-AA--
1 TGTATCGATACAAAGT
766035 TGTATCGATACATAAGT
1 TGTATCGATACA-AAGT
*
766052 TGTATCAATACAAAGT
1 TGTATCGATACAAAGT
766068 ATCGCTACGA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
16 4 0.10
17 13 0.32
19 11 0.27
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (16 bp):
TGTATCGATACAAAGT
Found at i:766112 original size:21 final size:21
Alignment explanation
Indices: 766086--766129 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
766076 GAAGCTACTG
766086 TTAAGGAAATGTATCGATACA
1 TTAAGGAAATGTATCGATACA
766107 TTAAGGAAATGTATCGATACA
1 TTAAGGAAATGTATCGATACA
766128 TT
1 TT
766130 GTATCGATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (21 bp):
TTAAGGAAATGTATCGATACA
Found at i:766134 original size:13 final size:12
Alignment explanation
Indices: 766094--766209 Score: 88
Period size: 13 Copynumber: 10.2 Consensus size: 12
766084 TGTTAAGGAA
766094 ATGTATCGATAC
1 ATGTATCGATAC
**
766106 AT-TAAGGA-A-
1 ATGTATCGATAC
766115 ATGTATCGATAC
1 ATGTATCGATAC
766127 ATTGTATCGATAC
1 A-TGTATCGATAC
**
766140 AT-TAAGGA-A-
1 ATGTATCGATAC
766149 ATGTATCGATAC
1 ATGTATCGATAC
766161 ATTGTATCGATAC
1 A-TGTATCGATAC
**
766174 AT-TAAGGA-A-
1 ATGTATCGATAC
766183 ATGTATCGATAC
1 ATGTATCGATAC
766195 ATTGTATCGATAC
1 A-TGTATCGATAC
766208 AT
1 AT
766210 CGATCTTTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
9 6 0.08
10 15 0.19
11 15 0.19
12 8 0.10
13 36 0.45
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:766138 original size:34 final size:34
Alignment explanation
Indices: 766095--766209 Score: 230
Period size: 34 Copynumber: 3.4 Consensus size: 34
766085 GTTAAGGAAA
766095 TGTATCGATACATTAAGGAAATGTATCGATACAT
1 TGTATCGATACATTAAGGAAATGTATCGATACAT
766129 TGTATCGATACATTAAGGAAATGTATCGATACAT
1 TGTATCGATACATTAAGGAAATGTATCGATACAT
766163 TGTATCGATACATTAAGGAAATGTATCGATACAT
1 TGTATCGATACATTAAGGAAATGTATCGATACAT
766197 TGTATCGATACAT
1 TGTATCGATACAT
766210 CGATCTTTGT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (34 bp):
TGTATCGATACATTAAGGAAATGTATCGATACAT
Found at i:768707 original size:52 final size:52
Alignment explanation
Indices: 768577--768858 Score: 374
Period size: 52 Copynumber: 5.4 Consensus size: 52
768567 CAATTTTTCA
*
768577 TAATCGGGGATACTCCAACCCTGGTTTTA-TTTCTAAAACACCAATTTTCC-T
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTT
* * * *
768628 CAATCGGGGATGCTCTAACCCCGGTTTTATTTTCAAAACACCAATTGTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
*
768680 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
* *
768732 TAATCGGGGATACTCCACCCCCAGTTTTATTTTCAAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
* ** * **
768784 TAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACATTAATTTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTT
*
768835 ACAATCGGGGATACTCCAACCCCG
1 -TAATCGGGGATACTCCAACCCCG
768859 TTAATCATCG
Statistics
Matches: 205, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
51 42 0.20
52 151 0.74
53 12 0.06
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (52 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
Found at i:768911 original size:28 final size:27
Alignment explanation
Indices: 768838--768912 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
768828 ATTTTTTACA
768838 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
768865 ATCGGGGATACTCCGACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
768891 ATCGAGGAGATACTCCAACCCC
1 ATCG-GG-GATACTCCAACCCC
768913 CGGCTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.14
27 24 0.56
28 13 0.30
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.21
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:769033 original size:79 final size:79
Alignment explanation
Indices: 768865--769181 Score: 381
Period size: 79 Copynumber: 4.0 Consensus size: 79
768855 CCCGTTAATC
* * * *
768865 ATCGGGGATACTCCGACCCCGTTATTATCGAGGAGATACTCCAACCCCCGGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCCGGCTTTATTTCTAAAA
*
768930 TATTGATTTCTCATA
65 TATTAATTTCTCATA
*
768945 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
769010 ATTAATTTCTCATA
66 ATTAATTTCTCATA
* * * * *
769024 ATCGAGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCGGTTTTATTTC-CAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
* * * *
769088 CATCGATTTTTTCACA
66 -AT-TAATTTCTCATA
* * * *
769104 ATCGGGGATACTCC-AGCCCGTTATTTTCAAGGGGATACTCCAACCCC-G-TTACTATCTCCAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTT--TATTTCTAAA
769166 ATATTAAATTTCTCAT
64 ATATT-AATTTCTCAT
769182 CGGGAAATAT
Statistics
Matches: 204, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.01
78 5 0.02
79 132 0.65
80 65 0.32
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
ATTAATTTCTCATA
Found at i:769056 original size:159 final size:158
Alignment explanation
Indices: 768865--769181 Score: 403
Period size: 159 Copynumber: 2.0 Consensus size: 158
768855 CCCGTTAATC
* * *
768865 ATCGGGGATACTCCGACCCCGTTATTATCGAGGAGATACTCCAACCCCCGGCTTTA-TTCCTAAA
1 ATCGAGGATACTCCAACCCCGTTATTACCGAGGAGATACTCCAA-CCCCGGCTTTATTTCC--AA
* * **
768929 AT-ATTGA-TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCC
63 ATCATCGATTTTCTCACAATCGGGGATACTCC-ACCCCGTTATTTTCAAGGGGATACTCCAACCC
* *
768992 CGGCTT-TATTTCTAAAATATT-AATTTCTCATA
127 C-G-TTATATCTCCAAAATATTAAATTTCTCATA
* *
769024 ATCGAGGATACTCCAACCCCGTTATCT-CCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAT
1 ATCGAGGATACTCCAACCCCGTTAT-TACCGAGGAGATACTCCAACCCCGGCTTTATTTCCAAAT
* *
769088 CATCGATTTTTTCACAATCGGGGATACTCCAGCCCGTTATTTTCAAGGGGATACTCCAACCCCGT
65 CATCGATTTTCTCACAATCGGGGATACTCCACCCCGTTATTTTCAAGGGGATACTCCAACCCCGT
769153 TACTATCTCCAAAATATTAAATTTCTCAT
130 TA-TATCTCCAAAATATTAAATTTCTCAT
769182 CGGGAAATAT
Statistics
Matches: 138, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
156 2 0.01
157 5 0.04
158 57 0.41
159 73 0.53
160 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (158 bp):
ATCGAGGATACTCCAACCCCGTTATTACCGAGGAGATACTCCAACCCCGGCTTTATTTCCAAATC
ATCGATTTTCTCACAATCGGGGATACTCCACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTT
ATATCTCCAAAATATTAAATTTCTCATA
Found at i:774132 original size:16 final size:16
Alignment explanation
Indices: 774111--774150 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
774101 ATTCAGCCAT
*
774111 GTTTACTTGATTAG-TA
1 GTTTACTTGAGT-GCTA
774127 GTTTACTTGAGTGCTA
1 GTTTACTTGAGTGCTA
774143 GTTTACTT
1 GTTTACTT
774151 TTACATCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (16 bp):
GTTTACTTGAGTGCTA
Found at i:775082 original size:2 final size:2
Alignment explanation
Indices: 775077--775110 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
775067 CAATTTTTTG
*
775077 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
775111 CACGATTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:783165 original size:22 final size:22
Alignment explanation
Indices: 783140--783220 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
783130 AATTATTATG
783140 ATAAATTATATAAAATATAAAA
1 ATAAATTATATAAAATATAAAA
* * *
783162 ATAAATTAAGATATAATAAAAAA
1 ATAAATT-ATATAAAATATAAAA
* *
783185 AT-AATTTTATGAAATAATAAAA
1 ATAAATTATATAAAAT-ATAAAA
* *
783207 A-ATATAATATAAAA
1 ATAAATTATATAAAA
783221 AATTAAATAG
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
21 5 0.11
22 25 0.57
23 14 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
ATAAATTATATAAAATATAAAA
Found at i:783184 original size:23 final size:23
Alignment explanation
Indices: 783140--783213 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
783130 AATTATTATG
* * *
783140 ATAAATT-ATATAAAATATAAAA
1 ATAAATTAAGATATAATAAAAAA
783162 ATAAATTAAGATATAATAAAAAA
1 ATAAATTAAGATATAATAAAAAA
* * *
783185 ATAATTTTATGAAATAATAAAAAA
1 ATAA-ATTAAGATATAATAAAAAA
783209 TATAA
1 -ATAA
783214 TATAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
22 7 0.16
23 16 0.37
24 16 0.37
25 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (23 bp):
ATAAATTAAGATATAATAAAAAA
Found at i:784132 original size:111 final size:109
Alignment explanation
Indices: 783983--784181 Score: 274
Period size: 111 Copynumber: 1.8 Consensus size: 109
783973 AATATCACTT
* * *
783983 AAGAATTTGAAATCATTCAATTCCATTGGATAATAATTACTTAAATTTTAAAAATAAAATTCTTA
1 AAGAATTTGAAATCATTCAATTCCATTGGATAACAATTACCTAAATTTTAAAAATAAAATTATTA
* *
784048 AATTTACAGAATTATACTTCCACTTCACTTGGAGTAGGTTTTTA
66 AATTTAAAAAATTATACTTCCACTTCACTTGGAGTAGGTTTTTA
** ** *
784092 AAGAATTTAGAAATCATTTCAATTTTATTAGG-TAACAATTACCTAAATTTTAGGAATCAAATTA
1 AAGAATTT-GAAATCA-TTCAATTCCATT-GGATAACAATTACCTAAATTTTAAAAATAAAATTA
784156 TTAAATTTAAAAAATTATACTTCCAC
63 TTAAATTTAAAAAATTATACTTCCAC
784182 CAGAAAGCGA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
109 8 0.10
110 7 0.09
111 60 0.78
112 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (109 bp):
AAGAATTTGAAATCATTCAATTCCATTGGATAACAATTACCTAAATTTTAAAAATAAAATTATTA
AATTTAAAAAATTATACTTCCACTTCACTTGGAGTAGGTTTTTA
Found at i:784691 original size:16 final size:16
Alignment explanation
Indices: 784670--784700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
784660 ATATAATAAA
784670 GATTGATTGATTGATC
1 GATTGATTGATTGATC
*
784686 GATTGATTGTTTGAT
1 GATTGATTGATTGAT
784701 TTGTAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.48
Consensus pattern (16 bp):
GATTGATTGATTGATC
Found at i:785074 original size:24 final size:23
Alignment explanation
Indices: 785030--785074 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
785020 AATTTTTTTA
* *
785030 TTTATAAAATTTAAATTAAAAAC
1 TTTATAAAATGTAAATAAAAAAC
*
785053 TTTATTAAAATGTATATAAAAA
1 TTTA-TAAAATGTAAATAAAAA
785075 TTTTTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 4 0.22
24 14 0.78
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTATAAAATGTAAATAAAAAAC
Found at i:789654 original size:13 final size:13
Alignment explanation
Indices: 789636--789660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
789626 CAAAAAAATA
789636 TGTATCGATACAT
1 TGTATCGATACAT
789649 TGTATCGATACA
1 TGTATCGATACA
789661 ACACTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.