Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012177.1 Kokia drynarioides strain JFW-HI SEQ_127178, whole genome shotgun sequence
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: 158829
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Warning! 163 characters in sequence are not A, C, G, or T
Found at i:11727 original size:21 final size:21
Alignment explanation
Indices: 11701--11741 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11691 CAATGCTACA
* *
11701 CCTCCACCCTCACCTTTTAGC
1 CCTCCACCCCCACCTGTTAGC
11722 CCTCCACCCCCACCTGTTAG
1 CCTCCACCCCCACCTGTTAG
11742 TCTTCCGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.54, G:0.07, T:0.24
Consensus pattern (21 bp):
CCTCCACCCCCACCTGTTAGC
Found at i:15245 original size:22 final size:21
Alignment explanation
Indices: 15220--15287 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
15210 TATATTGTTG
15220 TTTTGGTGCCTTTTTTTTACTA
1 TTTTGGTG-CTTTTTTTTACTA
* *
15242 TTTTGGTTGCTATTTTTTGCTA
1 TTTTGG-TGCTTTTTTTTACTA
*
15264 TTTTGAT--TTTTTTTTACTA
1 TTTTGGTGCTTTTTTTTACTA
15283 TTTTG
1 TTTTG
15288 ATTGTTGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 15 0.38
21 1 0.03
22 22 0.55
23 2 0.05
ACGTcount: A:0.10, C:0.09, G:0.13, T:0.68
Consensus pattern (21 bp):
TTTTGGTGCTTTTTTTTACTA
Found at i:15278 original size:19 final size:19
Alignment explanation
Indices: 15230--15290 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
15220 TTTTGGTGCC
*
15230 TTTTTTTTACTATTTTGGT
1 TTTTTTTTACTATTTTGAT
*
15249 TGCTATTTTTTGCTATTTTGAT
1 T--T-TTTTTTACTATTTTGAT
15271 TTTTTTTTACTATTTTGAT
1 TTTTTTTTACTATTTTGAT
15290 T
1 T
15291 GTTGTTATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.50
20 1 0.03
21 1 0.03
22 16 0.44
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.70
Consensus pattern (19 bp):
TTTTTTTTACTATTTTGAT
Found at i:15351 original size:12 final size:12
Alignment explanation
Indices: 15333--15462 Score: 106
Period size: 12 Copynumber: 11.2 Consensus size: 12
15323 GTTTTTGCTA
15333 TTATTTTTGTTG
1 TTATTTTTGTTG
* *
15345 TTGTTTTTATTG
1 TTATTTTTGTTG
15357 TTATTTTTGTTG
1 TTATTTTTGTTG
*
15369 TTATTTTTATTG
1 TTATTTTTGTTG
15381 TTATTTTTGTTG
1 TTATTTTTGTTG
* *
15393 CTA--TTT-TTA
1 TTATTTTTGTTG
* * *
15402 TCATTGTTATTG
1 TTATTTTTGTTG
* *
15414 TT-GTTTTGCTG
1 TTATTTTTGTTG
*
15425 TTATTTTTATTG
1 TTATTTTTGTTG
* * *
15437 TTGTTTTAGTTA
1 TTATTTTTGTTG
15449 TTATTTTTGTTG
1 TTATTTTTGTTG
15461 TT
1 TT
15463 TAGATGTTAT
Statistics
Matches: 87, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
9 3 0.03
10 3 0.03
11 9 0.10
12 72 0.83
ACGTcount: A:0.12, C:0.02, G:0.15, T:0.72
Consensus pattern (12 bp):
TTATTTTTGTTG
Found at i:15360 original size:24 final size:24
Alignment explanation
Indices: 15333--15462 Score: 126
Period size: 24 Copynumber: 5.6 Consensus size: 24
15323 GTTTTTGCTA
15333 TTATTTTTGTTGTTGTTTTTATTG
1 TTATTTTTGTTGTTGTTTTTATTG
*
15357 TTATTTTTGTTGTTATTTTTATTG
1 TTATTTTTGTTGTTGTTTTTATTG
* *
15381 TTATTTTTGTTGCTATTTTTA---
1 TTATTTTTGTTGTTGTTTTTATTG
* * * **
15402 TCATTGTTATTGTTG-TTTTGCTG
1 TTATTTTTGTTGTTGTTTTTATTG
* *
15425 TTATTTTTATTGTTG-TTTTAGTTA
1 TTATTTTTGTTGTTGTTTTTA-TTG
15449 TTATTTTTGTTGTT
1 TTATTTTTGTTGTT
15463 TAGATGTTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.05
21 10 0.11
23 17 0.19
24 57 0.65
ACGTcount: A:0.12, C:0.02, G:0.15, T:0.72
Consensus pattern (24 bp):
TTATTTTTGTTGTTGTTTTTATTG
Found at i:15373 original size:36 final size:36
Alignment explanation
Indices: 15319--15400 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
15309 ACTGTTTTGG
* * *
15319 TGCTGTTTTTGCTATTATTTTTGTTGTTGTTTTTAT
1 TGCTATTTTTGCTATTATTTTTATTGTTATTTTTAT
* * * *
15355 TGTTATTTTTGTTGTTATTTTTATTGTTATTTTTGT
1 TGCTATTTTTGCTATTATTTTTATTGTTATTTTTAT
15391 TGCTATTTTT
1 TGCTATTTTT
15401 ATCATTGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.10, C:0.04, G:0.15, T:0.72
Consensus pattern (36 bp):
TGCTATTTTTGCTATTATTTTTATTGTTATTTTTAT
Found at i:15471 original size:23 final size:22
Alignment explanation
Indices: 15408--15478 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
15398 TTTATCATTG
*
15408 TTATTGTTGTTTTGCTGTTATTT
1 TTATTGTTG-TTTGATGTTATTT
*
15431 TTATTGTTGTTTTA-GTTATTAT
1 TTATTGTTGTTTGATGTTATT-T
15453 TT-TTGTTGTTTAGATGTTATTT
1 TTATTGTTGTTT-GATGTTATTT
15475 TTAT
1 TTAT
15479 GCGTTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 15 0.37
22 10 0.24
23 16 0.39
ACGTcount: A:0.14, C:0.01, G:0.15, T:0.69
Consensus pattern (22 bp):
TTATTGTTGTTTGATGTTATTT
Found at i:18233 original size:96 final size:96
Alignment explanation
Indices: 18064--18256 Score: 305
Period size: 96 Copynumber: 2.0 Consensus size: 96
18054 AAACAACAAG
* * *
18064 GAACCGACTTCCCTGGTCCTTGCGAGGTTATCGAATTGAAAGATGGGATAAGAAGGGAAACCGCA
1 GAACCGACTTCCCTGATCCTTGCGAGGTTATCGAATTGAAAGAAGAGATAAGAAGGGAAACCGCA
*
18129 ATCATAACATGTAACAGTGAGCGTAGTCGGA
66 ACCATAACATGTAACAGTGAGCGTAGTCGGA
* ** *
18160 GAACTGACTTCCCTGATCCTTGCGAGGTTATCGAATTGAAAGAAGAGATAAGAAGGGAAGGCGCG
1 GAACCGACTTCCCTGATCCTTGCGAGGTTATCGAATTGAAAGAAGAGATAAGAAGGGAAACCGCA
*
18225 ACCATAACATGTAAGAGTGAGCGTAGTCGGA
66 ACCATAACATGTAACAGTGAGCGTAGTCGGA
18256 G
1 G
18257 TGCAAGATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.20
Consensus pattern (96 bp):
GAACCGACTTCCCTGATCCTTGCGAGGTTATCGAATTGAAAGAAGAGATAAGAAGGGAAACCGCA
ACCATAACATGTAACAGTGAGCGTAGTCGGA
Found at i:19923 original size:23 final size:23
Alignment explanation
Indices: 19897--19941 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19887 CTTCTAACAA
19897 AACACAAATATC-ATATTAAAAAG
1 AACACAAATA-CAATATTAAAAAG
19920 AACACAAATACAATATTAAAAA
1 AACACAAATACAATATTAAAAA
19942 TAATATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.64, C:0.13, G:0.02, T:0.20
Consensus pattern (23 bp):
AACACAAATACAATATTAAAAAG
Found at i:21336 original size:17 final size:17
Alignment explanation
Indices: 21307--21374 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
21297 CTGTAAAAAG
21307 TAAATTAATTTAAAATAA
1 TAAATTAA-TTAAAATAA
21325 TAAATTAATTAAAATAA
1 TAAATTAATTAAAATAA
*
21342 -AAATTAAATAAACATAA
1 TAAATTAATTAAA-ATAA
* **
21359 TTAATTTTTTAAAATA
1 TAAATTAATTAAAATA
21375 TTTTAAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 11 0.26
17 16 0.37
18 16 0.37
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTAATTAAAATAA
Found at i:29313 original size:16 final size:16
Alignment explanation
Indices: 29288--29330 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
29278 GCATATATAA
29288 AAAAATTATAAATTAAT
1 AAAAA-TATAAATTAAT
*
29305 AAAAATATAAATTTAT
1 AAAAATATAAATTAAT
29321 -AAAATATAAA
1 AAAAATATAAA
29331 AACATCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATATAAATTAAT
Found at i:29537 original size:18 final size:19
Alignment explanation
Indices: 29514--29551 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
29504 TCTGATATTT
* *
29514 TATAAA-TTATTAGAAACA
1 TATAAACTTACTAAAAACA
29532 TATAAACTTACTAAAAACA
1 TATAAACTTACTAAAAACA
29551 T
1 T
29552 CTAGAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (19 bp):
TATAAACTTACTAAAAACA
Found at i:44221 original size:18 final size:20
Alignment explanation
Indices: 44195--44232 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
44185 ATTTTAATCT
*
44195 TATTGTTTT-AAT-ATTTTA
1 TATTATTTTGAATAATTTTA
44213 TATTATTTTGAATAATTTTA
1 TATTATTTTGAATAATTTTA
44233 GATAAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TATTATTTTGAATAATTTTA
Found at i:44868 original size:16 final size:18
Alignment explanation
Indices: 44844--44876 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44834 ATTTAAGTTT
44844 TTTATAATTT-GTAAAAA
1 TTTATAATTTAGTAAAAA
44861 TTTA-AATTTAGTAAAA
1 TTTATAATTTAGTAAAA
44877 TTACACTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (18 bp):
TTTATAATTTAGTAAAAA
Found at i:66240 original size:23 final size:23
Alignment explanation
Indices: 66211--66255 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
66201 GATTTGAAAA
* *
66211 CTCAAAAGTTTTCATTTCCTTTG
1 CTCAAAAGTTTACATTGCCTTTG
66234 CTCAAAAGTTTACATTGCCTTT
1 CTCAAAAGTTTACATTGCCTTT
66256 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.44
Consensus pattern (23 bp):
CTCAAAAGTTTACATTGCCTTTG
Found at i:68738 original size:18 final size:18
Alignment explanation
Indices: 68715--68781 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 18
68705 ATAAATATAA
68715 AAAATTAGTAATTTGGAT
1 AAAATTAGTAATTTGGAT
** *
68733 AAAATTAAGTCAAATTTCAAA
1 AAAATT-AGT--AATTTGGAT
68754 ACAAGATTTAGTAATTTGGAT
1 A-AA-A-TTAGTAATTTGGAT
68775 AAAATTA
1 AAAATTA
68782 AGTTAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 9 0.24
19 4 0.11
20 2 0.05
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.34
Consensus pattern (18 bp):
AAAATTAGTAATTTGGAT
Found at i:68790 original size:21 final size:21
Alignment explanation
Indices: 68724--68791 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
68714 AAAAATTAGT
*
68724 AATTTGGATAAAATTAAGTCA
1 AATTTGGATAAAATTAAGTTA
** * *
68745 AATTTCAAAACAAGATTTAG-T-
1 AATTTGGATA-AA-ATTAAGTTA
68766 AATTTGGATAAAATTAAGTTA
1 AATTTGGATAAAATTAAGTTA
68787 AATTT
1 AATTT
68792 CAAACAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 19 0.56
22 2 0.06
23 5 0.15
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (21 bp):
AATTTGGATAAAATTAAGTTA
Found at i:68877 original size:39 final size:39
Alignment explanation
Indices: 68824--68927 Score: 136
Period size: 39 Copynumber: 2.7 Consensus size: 39
68814 GCAACGACAA
* * *
68824 AAAAATTATCCCAATTTATCTTTAAATCGTTTTTAAAAT
1 AAAAATTATCCCAATTTATTTTTAAATCATTTTAAAAAT
* * * * *
68863 GAAAGTTATTCCAATTTATTTTTTAATTATTTTAAAAAT
1 AAAAATTATCCCAATTTATTTTTAAATCATTTTAAAAAT
68902 AAAAATTATCCCAATTTATTTTTAAA
1 AAAAATTATCCCAATTTATTTTTAAA
68928 ATGATTTGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (39 bp):
AAAAATTATCCCAATTTATTTTTAAATCATTTTAAAAAT
Found at i:70138 original size:12 final size:13
Alignment explanation
Indices: 70101--70142 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
70091 TGAGACTTTA
* *
70101 TTTTCAAGACATG
1 TTTTTAAGATATG
70114 TTTTTAAGATATG
1 TTTTTAAGATATG
70127 TTTTTAAG-TATG
1 TTTTTAAGATATG
70139 TTTT
1 TTTT
70143 ATGCGAGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (13 bp):
TTTTTAAGATATG
Found at i:70818 original size:14 final size:15
Alignment explanation
Indices: 70789--70821 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
70779 CGTTTCCCTT
70789 TGTTTTTAAACTATG
1 TGTTTTTAAACTATG
*
70804 TGTTTTTAAGC-ATG
1 TGTTTTTAAACTATG
70818 TGTT
1 TGTT
70822 GATTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (15 bp):
TGTTTTTAAACTATG
Found at i:73320 original size:22 final size:21
Alignment explanation
Indices: 73292--73358 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 21
73282 ACAATAAAAA
*
73292 TTTTATAATAATTATTTTTAT
1 TTTTATAATAATTATTTTAAT
*
73313 TTTATATAATAATTGTTTATAAT
1 TTT-TATAATAATTATTT-TAAT
*
73336 TTTTATAATAATAATTTTAAT
1 TTTTATAATAATTATTTTAAT
73357 TT
1 TT
73359 ATTTTTAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.22
22 25 0.62
23 6 0.15
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (21 bp):
TTTTATAATAATTATTTTAAT
Found at i:73362 original size:25 final size:24
Alignment explanation
Indices: 73295--73365 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
73285 ATAAAAATTT
73295 TATAATAATTATT-TTTA-TTTTA
1 TATAATAATTATTATTTATTTTTA
* *
73317 TATAATAATTGTT-TATAATTTTTA
1 TATAATAATTATTAT-TTATTTTTA
73341 TAATAATAATT-TTAATTTATTTTTA
1 T-ATAATAATTATT-ATTTATTTTTA
73366 ACATTTTCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 13 0.32
23 2 0.05
24 8 0.20
25 17 0.41
26 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (24 bp):
TATAATAATTATTATTTATTTTTA
Found at i:73540 original size:5 final size:5
Alignment explanation
Indices: 73523--73554 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
73513 GGAGTCCCAT
*
73523 AAAAG AAACG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
73555 GTAGGTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:74996 original size:2 final size:2
Alignment explanation
Indices: 74989--75013 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
74979 CAATGATGCA
74989 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 A
75014 GTTTGTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77492 original size:18 final size:18
Alignment explanation
Indices: 77469--77506 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
77459 TAATATAGTT
77469 TTATTC-AGTTTATTCGAA
1 TTATTCGAG-TTATTCGAA
77487 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
77505 TT
1 TT
77507 CGAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:77583 original size:23 final size:23
Alignment explanation
Indices: 77551--77595 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
77541 AAAAAAATTC
**
77551 AACTCGATTCGTTTAATTCGAAT
1 AACTCGATTCGAATAATTCGAAT
*
77574 AACTCTATTCGAATAATTCGAA
1 AACTCGATTCGAATAATTCGAA
77596 ATTTGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (23 bp):
AACTCGATTCGAATAATTCGAAT
Found at i:80908 original size:2 final size:2
Alignment explanation
Indices: 80901--80925 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
80891 CGAAATGTTT
80901 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 T
80926 TTGCTGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85429 original size:6 final size:6
Alignment explanation
Indices: 85420--85451 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
85410 ATTTTTTGTA
*
85420 TTTGAT TTTGAT TTTGAT TTTGAT TGTGAT TT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TT
85452 ATAAAAGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.66
Consensus pattern (6 bp):
TTTGAT
Found at i:85926 original size:11 final size:12
Alignment explanation
Indices: 85910--85951 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 12
85900 TATAAAAATT
85910 AATTTAA-ATTA
1 AATTTAATATTA
85921 AATTTAATATTA
1 AATTTAATATTA
*
85933 TAATATTAATAATA
1 -AAT-TTAATATTA
85947 AATTT
1 AATTT
85952 TTATTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 7 0.26
12 6 0.22
13 6 0.22
14 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTTAATATTA
Found at i:86117 original size:13 final size:14
Alignment explanation
Indices: 86101--86142 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
86091 TTTCAATTTT
86101 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
86114 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
86129 ATTTTAAATAATAT
1 ATTTT-AATAATAT
86143 TCATATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:86127 original size:16 final size:16
Alignment explanation
Indices: 86105--86141 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
86095 AATTTTATTT
86105 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
86122 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
86137 TAATA
1 TAATA
86142 TTCATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:86157 original size:21 final size:20
Alignment explanation
Indices: 86132--86172 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
86122 AATAATAATT
*
86132 TTAAATAATATTCATATATTA
1 TTAAAAAATATTCA-ATATTA
86153 TTAAAAAATATTCAATATTA
1 TTAAAAAATATTCAATATTA
86173 ATATTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAAAATATTCAATATTA
Found at i:88074 original size:17 final size:18
Alignment explanation
Indices: 88052--88087 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88042 TAAATAAGTT
88052 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
88069 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
88087 A
1 A
88088 TAGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:90039 original size:29 final size:30
Alignment explanation
Indices: 90007--90069 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
89997 AAAACGGTGA
*
90007 TTTTGGACACTTCGAGGGTAAAAAT-GT-ATT
1 TTTTGGACACTT-G-GGGGAAAAATGGTAATT
90037 TTTTGGACACTTGGGGGAAAAATGGTAATT
1 TTTTGGACACTTGGGGGAAAAATGGTAATT
90067 TTT
1 TTT
90070 GGAAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 9 0.30
29 3 0.10
30 18 0.60
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (30 bp):
TTTTGGACACTTGGGGGAAAAATGGTAATT
Found at i:90070 original size:29 final size:30
Alignment explanation
Indices: 90007--90072 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
89997 AAAACGGTGA
* *
90007 TTTTGGACACTTCGAGGGTAAAAATGTATT
1 TTTTGGACACTTCGAGGGGAAAAATGTAAT
90037 TTTTGGACACTT-G-GGGGAAAAATGGTAAT
1 TTTTGGACACTTCGAGGGGAAAAAT-GTAAT
90066 TTTTGGA
1 TTTTGGA
90073 AATTTTAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 9 0.27
29 12 0.36
30 12 0.36
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (30 bp):
TTTTGGACACTTCGAGGGGAAAAATGTAAT
Found at i:90119 original size:30 final size:30
Alignment explanation
Indices: 90055--90318 Score: 261
Period size: 30 Copynumber: 8.9 Consensus size: 30
90045 ACTTGGGGGA
* * * *
90055 AAAATGGTAATTTTTGGAAATTTTA-GGATA
1 AAAAT-GTAATTTTTAGAAAGTTTAGGGGTT
* * *
90085 AAAATGTAATTTGTAGAAAGTTTGGGGGGT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
*
90115 AAAATTGT-ATTTTTTGAGAAGTTT-GGGGTT
1 AAAA-TGTAATTTTTAGA-AAGTTTAGGGGTT
* * *
90145 AAAATATAATTTTTGGAAAGTTAAGGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
*
90175 AAAATGTAATTTTT-GGAA-TTTAGGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
* *
90203 AGAATGTAATTTTTTGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
* * *
90233 AAAAAGTAAATTTTAGAAAGTTTAGGTG-T
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
*
90262 AAAATGTAATTTTTAGAAAGTTTAAGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
* * * *
90292 AAAATATGATTTCTAGATAGTTTAGGG
1 AAAATGTAATTTTTAGAAAGTTTAGGG
90319 ACCTCCTAAG
Statistics
Matches: 194, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.11
29 53 0.27
30 110 0.57
31 9 0.05
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTTAGAAAGTTTAGGGGTT
Found at i:90314 original size:59 final size:59
Alignment explanation
Indices: 90085--90318 Score: 226
Period size: 59 Copynumber: 3.9 Consensus size: 59
90075 TTTTAGGATA
* ** * * *
90085 AAAATGTAATTTGTAGAAAGTTTGGGGGGTAAAATTGTATTTTTTGAGAAGTTT-GGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAA-TATAATTTTT-AGAAGTTTAGGGGTT
* * * *
90145 AAAATATAATTTTTGGAAAG-TTAAGGGGTTAAAATGTAATTTTTGGAA-TTTAGGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAA-GGGTTAAAATATAATTTTTAGAAGTTTAGGGGTT
* * * * *
90203 AGAATGTAATTTTTTGAAAGTTTAGGGGTTAAAA-AGTAAATTTTAGAAAGTTTAGGTG-T
1 AAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAATA-TAATTTTTAG-AAGTTTAGGGGTT
* *
90262 AAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAATATGATTTCTAGATAGTTTAGGG
1 AAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAATATAATTTTTAGA-AGTTTAGGG
90319 ACCTCCTAAG
Statistics
Matches: 143, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
57 3 0.02
58 44 0.31
59 63 0.44
60 33 0.23
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.39
Consensus pattern (59 bp):
AAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAATATAATTTTTAGAAGTTTAGGGGTT
Found at i:91355 original size:12 final size:12
Alignment explanation
Indices: 91340--91372 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
91330 ATTTATTATT
*
91340 ATTAATATTAAA
1 ATTATTATTAAA
91352 ATTATTATTAAA
1 ATTATTATTAAA
91364 ATTATTATT
1 ATTATTATT
91373 TAATATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:92134 original size:6 final size:6
Alignment explanation
Indices: 92115--92209 Score: 53
Period size: 6 Copynumber: 16.8 Consensus size: 6
92105 TTGGATATTA
*
92115 TAAATT TAAA-- TAAATT TAAACT TAAATT TATAA-- TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TA-AATT TAAATT TAAATT
* * * * * *
92160 CTAAA-- TATATT TAAACT T-AATA TAAACT TAAAAT TAAA-A TAAATT
1 -TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
92205 TAAAT
1 TAAAT
92210 CCTTTTAGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
4 9 0.13
5 9 0.13
6 43 0.64
7 6 0.09
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:92156 original size:17 final size:16
Alignment explanation
Indices: 92114--92209 Score: 79
Period size: 17 Copynumber: 5.8 Consensus size: 16
92104 TTTGGATATT
92114 ATAAATTTAAA--TAA
1 ATAAATTTAAATTTAA
*
92128 ATTTAAACTTAAATTTATA
1 A--TAAATTTAAATTTA-A
92147 ATAAATTTAAATTCTAA
1 ATAAATTTAAATT-TAA
* *
92164 ATATATTTAAACTTAA
1 ATAAATTTAAATTTAA
* *
92180 TATAAACTTAAAATTAAA
1 -ATAAA-TTTAAATTTAA
92198 ATAAATTTAAAT
1 ATAAATTTAAAT
92210 CCTTTTAGGC
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
14 1 0.02
16 18 0.28
17 32 0.49
18 12 0.18
19 2 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAATTTAAATTTAA
Found at i:92197 original size:40 final size:39
Alignment explanation
Indices: 92115--92197 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
92105 TTGGATATTA
* *
92115 TAAATTTAAATAAATTTAAACTTAAATTTATAATAAATT
1 TAAATTTAAATAAATTTAAACTTAAATATATAATAAAAT
*
92154 TAAATTCTAAATATATTTAAACTT-AATATA-AACTTAAAAT
1 TAAATT-TAAATAAATTTAAACTTAAATATATAA--TAAAAT
92194 TAAA
1 TAAA
92198 ATAAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
38 2 0.05
39 11 0.29
40 25 0.66
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (39 bp):
TAAATTTAAATAAATTTAAACTTAAATATATAATAAAAT
Found at i:92605 original size:18 final size:18
Alignment explanation
Indices: 92565--92602 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
92555 ATGACATTGA
*
92565 TTATTATAAAATATTTTC
1 TTATTATAAAATAATTTC
92583 TTATTATAAAATAAATTTC
1 TTATTATAAAAT-AATTTC
92602 T
1 T
92603 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTATAAAATAATTTC
Found at i:101889 original size:241 final size:240
Alignment explanation
Indices: 101459--101912 Score: 752
Period size: 241 Copynumber: 1.9 Consensus size: 240
101449 TTCTACTTGG
* * *
101459 ATACACGACAACATGGATACTTGGGAGGGGACAAACCTAATGAGATTATGAAGTTAATATAGAAA
1 ATACACGACAACATGAATACTCGGGAGGGGACAAACCTAAAGAGATTATGAAGTTAATATAGAAA
* *
101524 CCCAGGGCATACAAGGTCGTCATGCACTTGGAGGATAGTGTGAGGACAAGACTTTATTTAACCAA
66 CCCAGGGCATACAAGGTCGTCATGCACTTGGAGGATAGTGCGAGGACAAGACCTTATTTAACCAA
*
101589 TTTATTAATTTTTCAACCACTATTTGTTGATTTTTTCATTCATTCTCAATTTTTTTTTTTTGTAA
131 TTTATTAATTTTTCAACCACTATTTGTTGATTTTTTCATTCATTCTCAA-TATTTTTTTTTGTAA
101654 TTTGTAAATATCAATTTTTCATTCATTCTCAATTTATTATACTATT
195 TTTGTAAATATCAATTTTTCATTCATTCTCAATTTATTATACTATT
*
101700 ATACGCGACAACATGAATACTCGGGAGGGGACAAACC-AACAGAGATTATGAAGTTAATATAGAA
1 ATACACGACAACATGAATACTCGGGAGGGGACAAACCTAA-AGAGATTATGAAGTTAATATAGAA
* *
101764 ACCTAGGGCATACAAGGTCGTCATGTCGACACTTGGAGGATAGTGCGTGGACAAGACCTTA-TTA
65 ACCCAGGGCATACAAGGTCGTCA--T-G-CACTTGGAGGATAGTGCGAGGACAAGACCTTATTTA
101828 ACCAATTTATTAATTTTTCAACCACTATTTGTTGATTTTTTCATTCATTCTCAA-ATTTTTTTTT
126 ACCAATTTATTAATTTTTCAACCACTATTTGTTGATTTTTTCATTCATTCTCAATATTTTTTTTT
101892 GTAATTTGTAAATATCAATTT
191 GTAATTTGTAAATATCAATTT
101913 ATTATACTAT
Statistics
Matches: 199, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
240 2 0.01
241 79 0.40
242 30 0.15
243 1 0.01
244 58 0.29
245 29 0.15
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (240 bp):
ATACACGACAACATGAATACTCGGGAGGGGACAAACCTAAAGAGATTATGAAGTTAATATAGAAA
CCCAGGGCATACAAGGTCGTCATGCACTTGGAGGATAGTGCGAGGACAAGACCTTATTTAACCAA
TTTATTAATTTTTCAACCACTATTTGTTGATTTTTTCATTCATTCTCAATATTTTTTTTTGTAAT
TTGTAAATATCAATTTTTCATTCATTCTCAATTTATTATACTATT
Found at i:118220 original size:2 final size:2
Alignment explanation
Indices: 118213--118238 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
118203 AATATAAACT
118213 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
118239 AGTTTTCTGC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120224 original size:29 final size:29
Alignment explanation
Indices: 120157--120215 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
120147 GGATTGATAA
*
120157 TTCAGCTCATCAAAGGGAGACTGAAACCT
1 TTCAGCTCATCAAAGGGAGACTAAAACCT
120186 TTCAGCTCATCAAAAGGG-GACTAAAACCT
1 TTCAGCTCATC-AAAGGGAGACTAAAACCT
120215 T
1 T
120216 AGGACTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (29 bp):
TTCAGCTCATCAAAGGGAGACTAAAACCT
Found at i:125284 original size:12 final size:12
Alignment explanation
Indices: 125267--125306 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
125257 NNNNNNNNNT
125267 CTCTCTCTCTCC
1 CTCTCTCTCTCC
125279 CTCTCTCTCTCC
1 CTCTCTCTCTCC
*
125291 CTCTCTCCCTCC
1 CTCTCTCTCTCC
125303 CTCT
1 CTCT
125307 GCGGAAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCTCTCTCTCC
Found at i:127723 original size:112 final size:112
Alignment explanation
Indices: 127520--127732 Score: 320
Period size: 112 Copynumber: 1.9 Consensus size: 112
127510 CTGCAAATAT
* *
127520 TAGTACTGAAAAACTTGCTCGTGTTACCGTTAAACATGGTCTTTTTCAATTTGTAAGACAAAATA
1 TAGTACTGAAAAACTTGCTCATGTTACCGTTAAACATGGTCTTTTTCAATTTATAAGACAAAATA
127585 TTGTCGATCTTGAACAAAATCGAATTCATCGTTTATTTTTGTTTTAC
66 TTGTCGATCTTGAACAAAATCGAATTCATCGTTTATTTTTGTTTTAC
* * * * * * *
127632 TAGTATTGAGAAACTTGCTTATGTTGCCGTTAAACATGGTTTTTTTCAATTTATAAGACACAATG
1 TAGTACTGAAAAACTTGCTCATGTTACCGTTAAACATGGTCTTTTTCAATTTATAAGACAAAATA
*
127697 TTGTCGATCTTGAACAAAAT-GTAATTCATTGTTTAT
66 TTGTCGATCTTGAACAAAATCG-AATTCATCGTTTAT
127733 GTTCTGATGT
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 89 0.99
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (112 bp):
TAGTACTGAAAAACTTGCTCATGTTACCGTTAAACATGGTCTTTTTCAATTTATAAGACAAAATA
TTGTCGATCTTGAACAAAATCGAATTCATCGTTTATTTTTGTTTTAC
Found at i:127924 original size:32 final size:34
Alignment explanation
Indices: 127883--127960 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 34
127873 GCTTTGAATT
127883 ATGTAAAATAATAGTTAT-TTTAAATT-TTT-C-CA
1 ATGTAAAATAAT--TTATATTTAAATTATTTCCGCA
*
127915 ATGTAAAATAATTTCTATTTAAATTATTTCCGCA
1 ATGTAAAATAATTTATATTTAAATTATTTCCGCA
*
127949 ATGTAAATTAAT
1 ATGTAAAATAAT
127961 CGTTTGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 3 0.08
31 8 0.20
32 15 0.38
33 1 0.03
34 13 0.32
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (34 bp):
ATGTAAAATAATTTATATTTAAATTATTTCCGCA
Found at i:133095 original size:23 final size:23
Alignment explanation
Indices: 133069--133112 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
133059 TAATTTTAAT
133069 TTCT-TTTATTATTTTGATCATAA
1 TTCTATTT-TTATTTTGATCATAA
* *
133092 TTCTATTTTTTTTTTTATCAT
1 TTCTATTTTTATTTTGATCAT
133113 TTTAGTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.68
Consensus pattern (23 bp):
TTCTATTTTTATTTTGATCATAA
Found at i:133620 original size:20 final size:20
Alignment explanation
Indices: 133595--133648 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
133585 ATGTGGAAGG
* *
133595 GCCACATGGGCGTGGGGAGA
1 GCCACATGGCCGTGGGGAAA
* *
133615 GCCACACGACCGTGGGGAAA
1 GCCACATGGCCGTGGGGAAA
*
133635 GCCATATGGCCGTG
1 GCCACATGGCCGTG
133649 TGACCCCTGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.41, T:0.11
Consensus pattern (20 bp):
GCCACATGGCCGTGGGGAAA
Found at i:140199 original size:17 final size:18
Alignment explanation
Indices: 140155--140200 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
140145 AAAAATATAT
140155 ATATTTAATTA-ATATTTA
1 ATATTT-ATTATATATTTA
140173 ATATTT-TTATATATTT-
1 ATATTTATTATATATTTA
*
140189 TTATTTATTATA
1 ATATTTATTATA
140201 GTTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.32
17 11 0.44
18 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTATTATATATTTA
Found at i:142515 original size:413 final size:413
Alignment explanation
Indices: 141719--142516 Score: 1228
Period size: 414 Copynumber: 1.9 Consensus size: 413
141709 TAGAGGATTG
141719 TGTCAACCTCTTAAAAATCTCAAATTTTAGATTGATTTAATCTCAACTATAGATGTAAAGTAAAT
1 TGTCAACCTCTTAAAAATCTCAAATTTTAGATTGATTTAATCTCAACTATAGATGTAAAGTAAAT
* * * * *
141784 TGTACCATTAAATCTGGAAAAGTTGAATTATAAATAAAAACTTTCCCCTTATTTGTATTCATCCC
66 TGTACCATTAAATCTGGAAAAGCTCAATTATAAATAAAAACTTTCCCCGTATATGTAATCATCCC
* * *
141849 ATTGAATCTCATTACATCCCATTGTACTCCATATTAATTGAATACTATTGAGAAAATTTATTCAA
131 ATTGAATCTCATTACATCCCATTGTACTCCATATTAATTGAATAATATTCAGAAAATTTACTCAA
* *
141914 ACACTTGGTGTGCTTTTGCTTTTTTGTGACTTCTTCCTTTCTTTCGTTTTATTTTCGGTACCTTA
196 ACACTTGGTGTGCTTTTGCTATCTTGTGACTTCTTCCTTTCTTTCGTTTTATTTTCGGTACCTTA
* * *
141979 GAGAATTTCTATCGAGAATTCTTATTTTGCTAGTGTTAGGCAGATTTGAAACCAAAAAATCACCA
261 GAGAATTTCTATCAAGAATTCTCATTTTGCTAGTATTAGGCAGATTTGAAACCAAAAAATCACCA
* *
142044 AAGGCCGCATAGATTACGAGACTAAAATTCTAGCCCCATGACAATTAGTATCCAAGCTAAATTTC
326 AAGGCCGCACAGATTACGAGACTAAAATTCTAACCCCATGACAATTAGTATCCAAGCTAAATTTC
142109 TAACCCCATGACAGTTAGCCCCA
391 TAACCCCATGACAGTTAGCCCCA
*
142132 TGTCAACCTCTTAAGAATCTCAAATTTTAGATTGATTTAATCTCAAC-AGTCA-ATGTAAAGTAA
1 TGTCAACCTCTTAAAAATCTCAAATTTTAGATTGATTTAATCTCAACTA-T-AGATGTAAAGTAA
* *
142195 ATTGTACCATTAAAT-TTGAAGGAGCTCAATTATAAATAAAAACTTTCCCCCGTATATGTAATCA
64 ATTGTACCATTAAATCTGGAA-AAGCTCAATTATAAATAAAAACTTT-CCCCGTATATGTAATCA
*
142259 TCCCATTGAATCTCATTACATCCCATTGTACTCCATATTAATTGAATAATATTCAGAACATTTAC
127 TCCCATTGAATCTCATTACATCCCATTGTACTCCATATTAATTGAATAATATTCAGAAAATTTAC
* ** * * *
142324 TCAAACATTTGGTGTGCTTTTGCTATCTTGTGGTTTCTT-TTGTTCTTTCGTTTTATTTTTGGTG
192 TCAAACACTTGGTGTGCTTTTGCTATCTTGTGACTTCTTCCT-TTCTTTCGTTTTATTTTCGGTA
**
142388 CCTTAGAGAATTTCTATCAAGAATTCTCATTTTGCTAGTATTAGGTGGATTTGAAACCAAAAAAT
256 CCTTAGAGAATTTCTATCAAGAATTCTCATTTTGCTAGTATTAGGCAGATTTGAAACCAAAAAAT
** ** *
142453 TGCC-AAGGTTGCACGGATTACGAGACTAAAATTCTAACCCCATGACAATTAGTATCCAAGCTAA
321 CACCAAAGGCCGCACAGATTACGAGACTAAAATTCTAACCCCATGACAATTAGTATCCAAGCTAA
142517 GGTTCAAAGG
Statistics
Matches: 348, Mismatches: 32, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
412 5 0.01
413 151 0.43
414 192 0.55
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (413 bp):
TGTCAACCTCTTAAAAATCTCAAATTTTAGATTGATTTAATCTCAACTATAGATGTAAAGTAAAT
TGTACCATTAAATCTGGAAAAGCTCAATTATAAATAAAAACTTTCCCCGTATATGTAATCATCCC
ATTGAATCTCATTACATCCCATTGTACTCCATATTAATTGAATAATATTCAGAAAATTTACTCAA
ACACTTGGTGTGCTTTTGCTATCTTGTGACTTCTTCCTTTCTTTCGTTTTATTTTCGGTACCTTA
GAGAATTTCTATCAAGAATTCTCATTTTGCTAGTATTAGGCAGATTTGAAACCAAAAAATCACCA
AAGGCCGCACAGATTACGAGACTAAAATTCTAACCCCATGACAATTAGTATCCAAGCTAAATTTC
TAACCCCATGACAGTTAGCCCCA
Found at i:144479 original size:20 final size:21
Alignment explanation
Indices: 144448--144492 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
144438 TAATATTTAT
144448 AAATTCTAAAAATTTGCAAAA
1 AAATTCTAAAAATTTGCAAAA
*
144469 AAATT-TAAAAATTTTCAAAA
1 AAATTCTAAAAATTTGCAAAA
144489 AAAT
1 AAAT
144493 ACAATTCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATTCTAAAAATTTGCAAAA
Found at i:146134 original size:12 final size:12
Alignment explanation
Indices: 146117--146141 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
146107 GATACCTATT
146117 ATGCAAGAACAG
1 ATGCAAGAACAG
146129 ATGCAAGAACAG
1 ATGCAAGAACAG
146141 A
1 A
146142 GTATTTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.24, T:0.08
Consensus pattern (12 bp):
ATGCAAGAACAG
Found at i:148990 original size:25 final size:21
Alignment explanation
Indices: 148969--149012 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
148959 ATAATTCAAA
148969 AATCCCTAATAATCATCAATTC
1 AATCCCTAATAATCAT-AATTC
*
148991 AATCCCTAATAATTAGTAATTC
1 AATCCCTAATAATCA-TAATTC
149013 CTAAGATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (21 bp):
AATCCCTAATAATCATAATTC
Found at i:150283 original size:10 final size:10
Alignment explanation
Indices: 150268--150301 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
150258 CACAATCATG
150268 TTTCTTTTTT
1 TTTCTTTTTT
*
150278 TTTCTTTTCT
1 TTTCTTTTTT
150288 TTTCTTTTTAT
1 TTTCTTTTT-T
150299 TTT
1 TTT
150302 TGCAAGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:150751 original size:653 final size:654
Alignment explanation
Indices: 149350--151892 Score: 3503
Period size: 641 Copynumber: 3.9 Consensus size: 654
149340 TAAAGTTCTC
*
149350 AAAAGAT-GGGGTTTAAAATTGTAAACTACCCAAGGGACCCATTAGCAAATGGACGTTTAATGGT
1 AAAAGATGGGGGTTTTAAATTGTAAACTACCCAAGGGACCCATTAGCAAATGGACGTTTAATGGT
149414 TTTTGGAGGGATGCACGCTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAAT
66 TTTTGGAGGGATGCACGCTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAAT
149479 TAGTTTTCTTTCTAAA-----T---TTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGAAA
131 TAGTTTTCTTTCTAAATTCTCTCAATTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGAAA
149536 ATTTCTTGAAAGGTAACATCATTTCCAACACAGATTAGAAGAGCTTTTAAGTTCACAATCATG--
196 ATTTCTTGAAAGGTAACATCATTTCCAACACAGATTAGAAGAGCTTTTAAGTTCACAATCATGTT
149599 --------TTTC-TTTC-TTT-TTTTTTTTTTGCAAGATTTGGCTATTAAGAGAGAGATTTGAGA
261 TCTTTTTTTTTCTTTTCTTTTCTTTTTTTTTTGCAAGATTTGGCTATTAAGAGAGA-A-TTGAGA
* *
149653 TTTTGAATACTTTTTTATTTAATCTATAATACATTAAATTTCAATTTTGATTATATATTCAGTTC
324 TTTTGAATACTTTTTTATTTAATCTATAATACATTAAATTTCAATTTAGATTATATTTTCAGTTC
149718 AGATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAGAAACTA
389 AGATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAG-AA-T-
* * **
149783 GGAAGA-T-GAATGAATGCTGAGAATGGTTAGAGTTTGTTCTTGAGTGCCATCAATGAGTGCTTA
451 -GAA-ACTAGGATGAATGATGAGAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTA
*
149846 AGAGAAAGTGTGGTTCGGATGAGTGATCAACGAGTTTCTTAATGTTTTTAGAATAGATTTGAGT-
514 AGAGAAAGTGTGGTTTGGATGAGTGATCAACGAGTTTCTTAATGTTTTTAGAATAGATTTGAGTC
*
149910 CCTAATAATTAGTCCCTAGTAATTGAGCGATTAGGATTAACTCGTAAAGCTCTCAAAAGTACTAA
579 CCTAATAA-TAGT--CTAG-AA-T---CG--T---A-TAA---GT-----TCTCAAAAGTTCTAA
149975 GCAAAATCATAATTTTCTAAAGGTTGATTTTTTT
622 GCAAAATCATAATTTTCTAAA-GTTGATTTTTTT
150009 AAAAGATGGGGGTTTTAAATTGTAAACTACCCAAGGGACCCATTAGCATAA-GGACGTTTAATGG
1 AAAAGATGGGGGTTTTAAATTGTAAACTACCCAAGGGACCCATTAGCA-AATGGACGTTTAATGG
* * *
150073 TTTTTGGAGGAATGCACGGTTACAAGGAAACATGGAAAGAGCCTGTTCATCTATTTTCATTTCAA
65 TTTTTGGAGGGATGCACGCTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAA
150138 TTAGTTTTCTTTCTAAATTCTCTCAATTTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGA
130 TTAGTTTTCTTTCTAAATTCTCTCAA-TTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGA
* *
150203 AAATTTCTTGAAAGGTAACATCATTTCCAACACAGGTTAGAAGAGATTTTAAGTTCACAATCATG
194 AAATTTCTTGAAAGGTAACATCATTTCCAACACAGATTAGAAGAGCTTTTAAGTTCACAATCATG
* *
150268 TTTCTTTTTTTTTCTTTTCTTTTCTTTTTATTTTTGCAAGATTTGGCCATTAAGAGAGAATTGTG
259 TTTCTTTTTTTTTCTTTTCTTTTCTTTTT-TTTTTGCAAGATTTGGCTATTAAGAGAGAATTGAG
*
150333 ATTTTGAATACTTTTTTATTTAATCTATAATACATTAATTTTCAATTTAGATTATATTTTCAGTT
323 ATTTTGAATACTTTTTTATTTAATCTATAATACATTAAATTTCAATTTAGATTATATTTTCAGTT
* *
150398 AAGATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCAAGGTTATTTTGAGGTTAAGAATGA
388 CAGATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAGAATGA
*
150463 AACTAGGATGAATGATGAGAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTAAGAA
453 AACTAGGATGAATGATGAGAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTAAGAG
* *
150528 AAAGTGTGGCTTGGATGAGTGATCAATGAGTTTCTTAATGTTTTTAGAATAGATTTGAGTCCCTA
518 AAAGTGTGGTTTGGATGAGTGATCAACGAGTTTCTTAATGTTTTTAGAATAGATTTGAGTCCCTA
150593 ATAATA-T-TA-AATCGTA-AAGTTCTCAAAAGTTCTAAGCAAAATCATAATTTTCTAAACGTTG
583 ATAATAGTCTAGAATCGTATAAGTTCTCAAAAGTTCTAAGCAAAATCATAATTTTCTAAA-GTTG
150654 ATTTTTTT
647 ATTTTTTT
* *
150662 AAAAGATGGGGGTTTTAAATTTTAAACTACCCAAGGGACCCGTTAGCAAATGGACGTTTAATGGT
1 AAAAGATGGGGGTTTTAAATTGTAAACTACCCAAGGGACCCATTAGCAAATGGACGTTTAATGGT
* *
150727 TTTTGGTGGGATGCACACTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAAT
66 TTTTGGAGGGATGCACGCTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAAT
*
150792 TAGTTTTCTTTCTAAATTTTCTCAATTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGAAA
131 TAGTTTTCTTTCTAAATTCTCTCAATTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGAAA
* *
150857 ATTTCTTGAAAGGTAACATCATTTCCAGCACAGATTAGAAGAGCTTTTAATTTCACAATCATGTT
196 ATTTCTTGAAAGGTAACATCATTTCCAACACAGATTAGAAGAGCTTTTAAGTTCACAATCATGTT
* *
150922 TCTTTTTTTTTCTTTTCCTTTCTTTTTTTTTTTTTGCAAGATTTGGCTATTAAGAGAGATTTGAG
261 TCTTTTTTTTTCTTTT-C-TT-TTCTTTTTTTTTTGCAAGATTTGGCTATTAAGAGAGAATTGAG
* *
150987 ATTTTGAATAATTTTTTATTTAATCTATAATACATTAATTTTCAATTTTA-ATTATATTTTCAGT
323 ATTTTGAATACTTTTTTATTTAATCTATAATACATTAAATTTCAA-TTTAGATTATATTTTCAGT
*
151051 TCAGATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAGAACG
387 TCAGATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAGAATG
* *
151116 AGACTAGGAAG-ATGA--ATGAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTAAG
452 AAACTAGGATGAATGATGA-GAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTAAG
*
151178 AGAAGGTGTGGTTTGGATGA--GATCAACGAGTTTCTTAATGTTTTTAGAATAGATTTGAGTCCC
516 AGAAAGTGTGGTTTGGATGAGTGATCAACGAGTTTCTTAATGTTTTTAGAATAGATTTGAGTCCC
* * *** *
151241 TAATAATGAGTCCCTAGTAATTG-AGCAA-TTAGGATTAAA-TTGTAAAGTTCTCAAAAGT-ACT
581 TAATAAT-AGT--CTAG-AATCGTA-TAAGTTCTCA--AAAGTTCT-AAG----CAAAA-TCA-T
* * *
151302 AA---GC-AAAGTCAT-AATTTTCT
632 AATTTTCTAAAGT--TGATTTTTTT
** * * *
151322 -AAAG--GTTGATTTT---TT-T-AA-TA--GATGGG--------GCAAATGGACGTTTAATGGT
1 AAAAGATGGGGGTTTTAAATTGTAAACTACCCAAGGGACCCATTAGCAAATGGACGTTTAATGGT
* *
151368 TTTTGGAGTGATGCACGGTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAAT
66 TTTTGGAGGGATGCACGCTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAAT
* *
151433 TAGTTTTCTTTCTAAATTCTCTCAAATTTTTTTTCATTTTCTTTGAGGTTTTCATTGCAGAGAAA
131 TAGTTTTCTTTCTAAATTCTCTCAATTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGAAA
151498 ATTTCTTGAAAGGTAACATCATTTCCAACACAGATTAGAAGAGCTTTTAAGTTCACAATCATGTT
196 ATTTCTTGAAAGGTAACATCATTTCCAACACAGATTAGAAGAGCTTTTAAGTTCACAATCATGTT
* * *
151563 TCTTTTCTTTTCTTTTCTTTTC---TTTTTTTGCAAGAATTGGCTATTAAGAGAGATTTGAGATT
261 TCTTTTTTTTTCTTTTCTTTTCTTTTTTTTTTGCAAGATTTGGCTATTAAGAGAGAATTGAGATT
151625 TTGAATACTTTTTTATTTAATCTATAATACATTAAATTTCAATTTAGATTATATTTTCAGTTCAG
326 TTGAATACTTTTTTATTTAATCTATAATACATTAAATTTCAATTTAGATTATATTTTCAGTTCAG
*
151690 ATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAGAATGAGAC
391 ATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAGAATGAAAC
151755 TAGGAAGATGAATGAATGCTAAGAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTA
456 TA-G--GATGAATG-ATG---AGAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTA
* *
151820 AGAGAAAGTGT-GTTTGGATGAGTGATCAACGAGTTTCTTATTTTTTTTAGAATAGATTTGAGTC
514 AGAGAAAGTGTGGTTTGGATGAGTGATCAACGAGTTTCTTAATGTTTTTAGAATAGATTTGAGTC
151884 CCTAATAAT
579 CCTAATAAT
151893 GGTTTAGTAG
Statistics
Matches: 1736, Mismatches: 81, Indels: 148
0.88 0.04 0.08
Matches are distributed among these distances:
634 4 0.00
635 163 0.09
636 1 0.00
638 5 0.00
639 5 0.00
640 2 0.00
641 221 0.13
643 10 0.01
644 53 0.03
645 49 0.03
649 4 0.00
650 49 0.03
651 4 0.00
652 184 0.11
653 197 0.11
654 165 0.10
655 13 0.01
656 1 0.00
657 13 0.01
658 7 0.00
659 19 0.01
660 140 0.08
661 6 0.00
663 7 0.00
664 4 0.00
665 1 0.00
666 1 0.00
668 2 0.00
669 101 0.06
671 1 0.00
672 2 0.00
674 2 0.00
676 1 0.00
677 5 0.00
678 114 0.07
679 13 0.01
680 6 0.00
681 127 0.07
682 6 0.00
683 28 0.02
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (654 bp):
AAAAGATGGGGGTTTTAAATTGTAAACTACCCAAGGGACCCATTAGCAAATGGACGTTTAATGGT
TTTTGGAGGGATGCACGCTTACAAGGAAACATGGAAAGAGCCTTTTCATCTATTTTCATTTCAAT
TAGTTTTCTTTCTAAATTCTCTCAATTTTTTTTTCATTTTCTTTGACGTTTTCATTGCAGAGAAA
ATTTCTTGAAAGGTAACATCATTTCCAACACAGATTAGAAGAGCTTTTAAGTTCACAATCATGTT
TCTTTTTTTTTCTTTTCTTTTCTTTTTTTTTTGCAAGATTTGGCTATTAAGAGAGAATTGAGATT
TTGAATACTTTTTTATTTAATCTATAATACATTAAATTTCAATTTAGATTATATTTTCAGTTCAG
ATAGAAATGAGTGTTTTCTTAAGTTCTTTGATGTTTCCAGGTTATTTTGAGGTTAAGAATGAAAC
TAGGATGAATGATGAGAATGGTTAGAGTTTGTTCTTGAGTGCCATTGATGAGTGCTTAAGAGAAA
GTGTGGTTTGGATGAGTGATCAACGAGTTTCTTAATGTTTTTAGAATAGATTTGAGTCCCTAATA
ATAGTCTAGAATCGTATAAGTTCTCAAAAGTTCTAAGCAAAATCATAATTTTCTAAAGTTGATTT
TTTT
Found at i:151571 original size:5 final size:5
Alignment explanation
Indices: 151561--151588 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
151551 CACAATCATG
151561 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
151589 TTTGCAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:153742 original size:179 final size:179
Alignment explanation
Indices: 153442--153803 Score: 688
Period size: 179 Copynumber: 2.0 Consensus size: 179
153432 TGCTTTGATT
*
153442 GGTAGTTGAATTTTGAATCTAAATTGCATGTCGAGTAGTAGTTGTTAAATGGTAAATTTTACTTA
1 GGTAGTTGAATTTTGAATCTAAATTGCATGTCGAGTAGTAGTTGTTAAATGGAAAATTTTACTTA
153507 AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTGTGTTTTAGACTTGATTTAGT
66 AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTGTGTTTTAGACTTGATTTAGT
*
153572 ATGTAAAATGTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGA
131 ATGTAAAATGTGTTAGATATGCCTTGGTACAAGTTTGGTATCGGTTAGA
*
153621 GGTAGTTGAATTTTGAATCTAAATTGCATGTTGAGTAGTAGTTGTTAAATGGAAAATTTTACTTA
1 GGTAGTTGAATTTTGAATCTAAATTGCATGTCGAGTAGTAGTTGTTAAATGGAAAATTTTACTTA
153686 AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTGTGTTTTAGACTTGATTTAGT
66 AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTGTGTTTTAGACTTGATTTAGT
*
153751 ATGTAAAATGTGTTAGATATGCCTTGGTACAAGTTTGGTATCGGTTTGA
131 ATGTAAAATGTGTTAGATATGCCTTGGTACAAGTTTGGTATCGGTTAGA
153800 GGTA
1 GGTA
153804 CTTAACGGTA
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (179 bp):
GGTAGTTGAATTTTGAATCTAAATTGCATGTCGAGTAGTAGTTGTTAAATGGAAAATTTTACTTA
AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTGTGTTTTAGACTTGATTTAGT
ATGTAAAATGTGTTAGATATGCCTTGGTACAAGTTTGGTATCGGTTAGA
Found at i:153928 original size:27 final size:27
Alignment explanation
Indices: 153898--153952 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
153888 GATACATTGC
153898 TATGATGTATTGGTACATAGGTGTCTA
1 TATGATGTATTGGTACATAGGTGTCTA
153925 TATGATGTATTGGTACATAGGTGTCTA
1 TATGATGTATTGGTACATAGGTGTCTA
153952 T
1 T
153953 GTATCGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (27 bp):
TATGATGTATTGGTACATAGGTGTCTA
Done.