Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 6 of 56
Found at i:1070470 original size:16 final size:16
Alignment explanation
Indices: 1070451--1070481 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1070441 ATTATTATTT
*
1070451 AAATTAAATTTAATAA
1 AAATTAAATTAAATAA
1070467 AAATTAAATTAAATA
1 AAATTAAATTAAATA
1070482 TTACTATTCG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTAAATTAAATAA
Found at i:1073602 original size:23 final size:23
Alignment explanation
Indices: 1073576--1073643 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
1073566 CTTTATCAGA
1073576 AAAAATTATGTATCTATTAGGAG
1 AAAAATTATGTATCTATTAGGAG
* ** *
1073599 AAAAA-AAT-T-T-TATTATTAT
1 AAAAATTATGTATCTATTAGGAG
1073618 AAAAATTATGTATCTATTAGGAG
1 AAAAATTATGTATCTATTAGGAG
1073641 AAA
1 AAA
1073644 TTTTTTTATA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 11 0.33
20 3 0.09
21 2 0.06
22 3 0.09
23 14 0.42
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.37
Consensus pattern (23 bp):
AAAAATTATGTATCTATTAGGAG
Found at i:1074173 original size:25 final size:24
Alignment explanation
Indices: 1074129--1074178 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
1074119 AAAAAATTTA
1074129 TTAAATATATTATATTATTTATAT
1 TTAAATATATTATATTATTTATAT
1074153 TTAAATATATT-TATTACATTTATAT
1 TTAAATATATTATATT--ATTTATAT
1074178 T
1 T
1074179 ATATTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTAAATATATTATATTATTTATAT
Found at i:1074192 original size:19 final size:19
Alignment explanation
Indices: 1074134--1074196 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
1074124 ATTTATTAAA
1074134 TATATTATATTATTTATATT
1 TATATTATATT-TTTATATT
* *
1074154 TA-AATATATTTATTACATT
1 TATATTATATTT-TTATATT
*
1074173 TATATTATATTTGTATATT
1 TATATTATATTTTTATATT
1074192 T-TATT
1 TATATT
1074197 TAAAATTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 5 0.14
19 21 0.58
20 10 0.28
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATTATATTTTTATATT
Found at i:1074206 original size:30 final size:30
Alignment explanation
Indices: 1074142--1074206 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
1074132 AATATATTAT
*
1074142 ATTAT-TTATATTTAAATATATTTATTACA
1 ATTATATTATATTTAAATATATTTATTAAA
* **
1074171 TTTATATTATATTTGTATAT-TTTATTTAAA
1 ATTATATTATATTTAAATATATTTA-TTAAA
1074201 ATTATA
1 ATTATA
1074207 AAATTTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (30 bp):
ATTATATTATATTTAAATATATTTATTAAA
Found at i:1074701 original size:19 final size:20
Alignment explanation
Indices: 1074677--1074728 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
1074667 TTATATTATT
1074677 TTTTATTTTATAAT-TTAAA
1 TTTTATTTTATAATATTAAA
*
1074696 TTTTATTTT-T-ATATTATA
1 TTTTATTTTATAATATTAAA
1074714 TTTATATTTTATAAT
1 TTT-TATTTTATAAT
1074729 CATATCGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.07
18 8 0.29
19 15 0.54
20 1 0.04
21 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATTTTATAATATTAAA
Found at i:1074722 original size:24 final size:24
Alignment explanation
Indices: 1074663--1074725 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
1074653 AAATTTTAAA
* *
1074663 ATATTTATATTAT-TTTTTATTTT
1 ATATTTATATTTTATTTTTATATT
*
1074686 ATAATTTAAATTTTATTTTTATATT
1 AT-ATTTATATTTTATTTTTATATT
1074711 ATATTTATATTTTAT
1 ATATTTATATTTTAT
1074726 AATCATATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.06
24 21 0.62
25 11 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATATTTATATTTTATTTTTATATT
Found at i:1081192 original size:2 final size:2
Alignment explanation
Indices: 1081185--1081217 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1081175 GCACTCTTTA
1081185 AT AT AT 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 AT AT AT A
1081218 GCTATTTATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1081926 original size:15 final size:15
Alignment explanation
Indices: 1081908--1081937 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1081898 TTTTCTCAAC
1081908 CTTTCTTTTACTTTT
1 CTTTCTTTTACTTTT
*
1081923 CTTTCTTTTTCTTTT
1 CTTTCTTTTACTTTT
1081938 ATTATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTCTTTTACTTTT
Found at i:1082156 original size:17 final size:18
Alignment explanation
Indices: 1082113--1082146 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1082103 TGGGTGAAGG
1082113 TATAAATAATT-AAATAA
1 TATAAATAATTAAAATAA
1082130 TATAAATAATTAAAATA
1 TATAAATAATTAAAATA
1082147 GAAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATAAATAATTAAAATAA
Found at i:1082331 original size:16 final size:18
Alignment explanation
Indices: 1082307--1082343 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1082297 AATATATATG
1082307 ATTTATTTTAT-AATTTA
1 ATTTATTTTATCAATTTA
*
1082324 ATTT-TTTTATCATTTTA
1 ATTTATTTTATCAATTTA
1082341 ATT
1 ATT
1082344 ACTAAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTATTTTATCAATTTA
Found at i:1082500 original size:24 final size:22
Alignment explanation
Indices: 1082460--1082513 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
1082450 TTGAGTTTTG
*
1082460 AATAAAA-ATTTTGAATTTGAATAT
1 AATAAAATATATTGAA-TT-AAT-T
1082484 AATAAAATATATT-AATTAATT
1 AATAAAATATATTGAATTAATT
1082505 AATAAAATA
1 AATAAAATA
1082514 ATTTTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 10 0.36
22 3 0.11
23 2 0.07
24 9 0.32
25 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
AATAAAATATATTGAATTAATT
Found at i:1082509 original size:21 final size:22
Alignment explanation
Indices: 1082483--1082539 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
1082473 AATTTGAATA
1082483 TAATAAAAT-ATATTAATTAAT
1 TAATAAAATAATATTAATTAAT
* *
1082504 TAATAAAATAATTTTATTTAAT
1 TAATAAAATAATATTAATTAAT
*
1082526 T-TTAAAATAATATT
1 TAATAAAATAATATT
1082540 TTAATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATAAAATAATATTAATTAAT
Found at i:1082548 original size:21 final size:21
Alignment explanation
Indices: 1082486--1082550 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
1082476 TTGAATATAA
*
1082486 TAAAAT-ATATTAATT-AATTAA
1 TAAAATAATATT-ATTAAATT-T
* *
1082507 TAAAATAATTTTATTTAATTT
1 TAAAATAATATTATTAAATTT
1082528 TAAAATAATATT-TTAATATTT
1 TAAAATAATATTATTAA-ATTT
1082549 TA
1 TA
1082551 TTTTTTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 3 0.08
21 26 0.70
22 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAAATAATATTATTAAATTT
Found at i:1090020 original size:2 final size:2
Alignment explanation
Indices: 1090013--1090054 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1090003 ATTGATTTTC
1090013 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1090055 TTATAGTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1095573 original size:2 final size:2
Alignment explanation
Indices: 1095566--1095599 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1095556 TTTAAAGTGT
1095566 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1095600 GGTGTGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1095671 original size:2 final size:2
Alignment explanation
Indices: 1095666--1095693 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1095656 AAACACAGAA
1095666 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1095694 CCTGGAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1099673 original size:2 final size:2
Alignment explanation
Indices: 1099661--1099694 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1099651 TTTAATTTTC
*
1099661 AT AT AT CT 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
1099695 CAAAATGAAT
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:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1099972 original size:78 final size:78
Alignment explanation
Indices: 1099890--1100040 Score: 266
Period size: 78 Copynumber: 1.9 Consensus size: 78
1099880 TTGGAAATCA
* *
1099890 AGGGTCAGATTAACTCAAACCACAGTGACAAAAAATGATTTAAGTAGGGTTCAATGATATCAGTG
1 AGGGTCAGATTAACTCAAACCACAGTAACAAAAAATGATTTAAGTAGGGTTCAATGAGATCAGTG
1099955 AAGAAGATTAAGT
66 AAGAAGATTAAGT
* *
1099968 AGGGTCAGATTAACTCAAACCACGGTAACAAAAAATGATTTAAGTAGGGTTCAGTGAGATCAGTG
1 AGGGTCAGATTAACTCAAACCACAGTAACAAAAAATGATTTAAGTAGGGTTCAATGAGATCAGTG
1100033 AAGAAGAT
66 AAGAAGAT
1100041 CGGGTCATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (78 bp):
AGGGTCAGATTAACTCAAACCACAGTAACAAAAAATGATTTAAGTAGGGTTCAATGAGATCAGTG
AAGAAGATTAAGT
Found at i:1100444 original size:2 final size:2
Alignment explanation
Indices: 1100432--1100463 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1100422 ATACAGAAAT
1100432 AC AC A- AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1100464 AGAGATGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1111188 original size:21 final size:22
Alignment explanation
Indices: 1111141--1111196 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
1111131 ATAGAATTAG
* *
1111141 ATTAGTTTGAAATTGTAAAATT
1 ATTAATTTAAAATTGTAAAATT
* *
1111163 TTTAATTTAAAATT-TAAACTT
1 ATTAATTTAAAATTGTAAAATT
*
1111184 ATTAAATTAAAAT
1 ATTAATTTAAAAT
1111197 AATTTAATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
ATTAATTTAAAATTGTAAAATT
Found at i:1113727 original size:46 final size:45
Alignment explanation
Indices: 1113660--1113749 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
1113650 TTTACCGTTA
*
1113660 GTAAATTATGTTACTCTAATTTTCTATTTTTTTAAAATTATTAAGC
1 GTAAATTATATTACTCTAATTTTCTATTTTTTT-AAATTATTAAGC
* * *
1113706 GTAAATTATATTATTTTAATTTTTTATTTTTTTAAATTATTAAG
1 GTAAATTATATTACTCTAATTTTCTATTTTTTTAAATTATTAAG
1113750 TATGAATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 11 0.28
46 29 0.73
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (45 bp):
GTAAATTATATTACTCTAATTTTCTATTTTTTTAAATTATTAAGC
Found at i:1121845 original size:21 final size:21
Alignment explanation
Indices: 1121821--1121884 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 21
1121811 AATATTATAT
1121821 TTAAATTTA-AATTAATATAAA
1 TTAAATTTACAATTAA-ATAAA
1121842 TTAAATTTATCAATTAAATAAA
1 TTAAATTTA-CAATTAAATAAA
* *
1121864 CT--ACTTACAATTAAATAAA
1 TTAAATTTACAATTAAATAAA
1121883 TT
1 TT
1121885 TAATCATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 13 0.34
20 4 0.11
21 9 0.24
22 6 0.16
23 6 0.16
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAATTTACAATTAAATAAA
Found at i:1122291 original size:3 final size:3
Alignment explanation
Indices: 1122283--1122320 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1122273 GAACCTACAG
1122283 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1122321 GGATTTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1122579 original size:17 final size:18
Alignment explanation
Indices: 1122558--1122614 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
1122548 AAATATTTTT
1122558 TTTAATATATAAAAAAT-
1 TTTAATATATAAAAAATA
* *
1122575 TTTAAAATAAAATAAAATA
1 TTTAATATATAA-AAAATA
1122594 TATT--TATATAAAAAATA
1 T-TTAATATATAAAAAATA
1122611 TTTA
1 TTTA
1122615 TTTTTGAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 2 0.06
17 17 0.53
18 10 0.31
19 1 0.03
20 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAATATATAAAAAATA
Found at i:1122603 original size:37 final size:39
Alignment explanation
Indices: 1122512--1122613 Score: 93
Period size: 43 Copynumber: 2.5 Consensus size: 39
1122502 TTTAAATTTG
* * *
1122512 ATATTTATGTTTAAAATATATTTAAACATAAATATAAAAT
1 ATATTTATATATAAAAAAT-TTTAAACATAAATATAAAAT
*
1122552 ATTTTTTTTAATATATAAAAAATTTTAAA-ATAAA-ATAAAAT
1 A---TATTT-ATATATAAAAAATTTTAAACATAAATATAAAAT
1122593 ATATTTATATA-AAAAATATTT
1 ATATTTATATATAAAAA-ATTT
1122614 ATTTTTGAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
36 5 0.10
37 9 0.17
38 4 0.08
40 1 0.02
41 8 0.15
42 5 0.10
43 10 0.19
44 10 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (39 bp):
ATATTTATATATAAAAAATTTTAAACATAAATATAAAAT
Found at i:1122604 original size:15 final size:15
Alignment explanation
Indices: 1122586--1122615 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1122576 TTAAAATAAA
*
1122586 ATAAAATATATTTAT
1 ATAAAAAATATTTAT
1122601 ATAAAAAATATTTAT
1 ATAAAAAATATTTAT
1122616 TTTTGAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAAAAAATATTTAT
Found at i:1122607 original size:21 final size:20
Alignment explanation
Indices: 1122539--1122607 Score: 50
Period size: 21 Copynumber: 3.4 Consensus size: 20
1122529 ATATTTAAAC
* *
1122539 ATAAATATAAAATATTTTTT
1 ATAAAAATAAAATATTTTAT
* * *
1122559 TTAATATATAAAAAATTTTA-
1 ATAA-AAATAAAATATTTTAT
*
1122579 AAATAAAATAAAATATATTTAT
1 ATA-AAAATAAAATAT-TTTAT
1122601 ATAAAAA
1 ATAAAAA
1122608 ATATTTATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
20 13 0.35
21 22 0.59
22 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAAATAAAATATTTTAT
Found at i:1124302 original size:23 final size:25
Alignment explanation
Indices: 1124276--1124346 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
1124266 TGTAATTTAT
*
1124276 ATATTTTTTTGTTAT-TAAA-T-TAA
1 ATATTTATTT-TTATATAAATTATAA
*
1124299 ATATTAATTTTTATATAAATTATAA
1 ATATTTATTTTTATATAAATTATAA
* *
1124324 ATATTTAATTTTAT-CAAATTATA
1 ATATTTATTTTTATATAAATTATA
1124347 TTATTAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.10
23 12 0.30
24 9 0.22
25 15 0.38
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
ATATTTATTTTTATATAAATTATAA
Found at i:1124355 original size:13 final size:14
Alignment explanation
Indices: 1124334--1124367 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1124324 ATATTTAATT
*
1124334 TTATCAAATTA-TA
1 TTATTAAATTATTA
1124347 TTATTAAATTATTA
1 TTATTAAATTATTA
1124361 TTATTAA
1 TTATTAA
1124368 TAAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:1124356 original size:23 final size:23
Alignment explanation
Indices: 1124287--1124363 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
1124277 TATTTTTTTG
*
1124287 TTATTAAATTA-AATATTAATTT
1 TTATTAAATTATAATATTAAATT
*
1124309 TTATATAAATTATAAATATTTAATT
1 TTAT-TAAATTAT-AATATTAAATT
* *
1124334 TTATCAAATTATATTATTAAATT
1 TTATTAAATTATAATATTAAATT
1124357 ATTATTA
1 -TTATTA
1124364 TTAATAAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 4 0.09
23 16 0.36
24 12 0.27
25 13 0.29
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATTAAATTATAATATTAAATT
Found at i:1124361 original size:24 final size:24
Alignment explanation
Indices: 1124296--1124361 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
1124286 GTTATTAAAT
* *
1124296 TAAATATTAATTTTTATATAAATTA
1 TAAATATTAAATTTTAT-CAAATTA
*
1124321 TAAATATTTAATTTTATCAAATTA
1 TAAATATTAAATTTTATCAAATTA
*
1124345 T-ATTATTAAATTATTAT
1 TAAATATTAAATT-TTAT
1124362 TATTAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 9 0.26
24 11 0.31
25 15 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAATATTAAATTTTATCAAATTA
Found at i:1127493 original size:17 final size:18
Alignment explanation
Indices: 1127463--1127513 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
1127453 TTTGTAATGT
1127463 AAAATTAATAATTTTAAA
1 AAAATTAATAATTTTAAA
*
1127481 AAAATTCAT-ATTTTAAA
1 AAAATTAATAATTTTAAA
*
1127498 AAAATTGATTAATTTT
1 AAAATT-AATAATTTT
1127514 TAGTAACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 14 0.50
18 9 0.32
19 5 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
AAAATTAATAATTTTAAA
Found at i:1130087 original size:20 final size:20
Alignment explanation
Indices: 1130062--1130103 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1130052 GCAGAACGTA
*
1130062 GAATTCTACTGTAATTGCCT
1 GAATTCTACTGTAATAGCCT
1130082 GAATTCTACTGTAATAGCCT
1 GAATTCTACTGTAATAGCCT
1130102 GA
1 GA
1130104 TGGTAGGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (20 bp):
GAATTCTACTGTAATAGCCT
Found at i:1135293 original size:2 final size:2
Alignment explanation
Indices: 1135286--1135311 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1135276 TGTGAAAATG
1135286 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
1135312 GCAAATCAAG
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:1135382 original size:2 final size:2
Alignment explanation
Indices: 1135332--1135362 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1135322 AGATTTTCTG
1135332 AT AT 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 AT AT A
1135363 CACACACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1138481 original size:2 final size:2
Alignment explanation
Indices: 1138470--1138509 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1138460 CAACAAAATA
1138470 AT AT AT -T AT AT AT 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 AT AT AT AT AT AT AT A
1138510 AAGAAGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1138843 original size:24 final size:24
Alignment explanation
Indices: 1138816--1138862 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1138806 GCATGATAAT
* *
1138816 TTATATATTCATATTATATTTATA
1 TTATATATTAATATTATAATTATA
* *
1138840 TTATTTTTTAATATTATAATTAT
1 TTATATATTAATATTATAATTAT
1138863 GTAATTGATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATATATTAATATTATAATTATA
Found at i:1139409 original size:3 final size:3
Alignment explanation
Indices: 1139390--1139423 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1139380 AAAGAAAATG
*
1139390 GAA GAA -AA GAC GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1139424 TAAGGTCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1139812 original size:22 final size:24
Alignment explanation
Indices: 1139783--1139835 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
1139773 TTATATAAAT
1139783 TTTA-ATAAA-TTAATAATTA-ATA
1 TTTATATAAATTTAA-AATTATATA
1139805 -TTATATAAATTTAAAATTATATA
1 TTTATATAAATTTAAAATTATATA
1139828 TTTATATA
1 TTTATATA
1139836 GTATTTCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.11
22 10 0.37
23 7 0.26
24 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTATATAAATTTAAAATTATATA
Found at i:1145017 original size:22 final size:21
Alignment explanation
Indices: 1144957--1145018 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
1144947 AAATCTTTAT
* *
1144957 AATAATTTTTTATTTTTTATTA
1 AATAAATTTTTA-TTTTAATTA
1144979 AATAAATTTTTATTTTAATTA
1 AATAAATTTTTATTTTAATTA
1145000 AA-AAATTAATTTATTTTAA
1 AATAAATT--TTTATTTTAA
1145019 AAATAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.14
21 10 0.28
22 21 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
AATAAATTTTTATTTTAATTA
Found at i:1146584 original size:19 final size:19
Alignment explanation
Indices: 1146544--1146587 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1146534 ATATAAATAT
*
1146544 TAATATTTTAAAATATATA
1 TAATATTTTAAAATATACA
*
1146563 TAATATTTT-AAATTTAACA
1 TAATATTTTAAAATAT-ACA
1146582 TAATAT
1 TAATAT
1146588 AAAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATATTTTAAAATATACA
Found at i:1146598 original size:22 final size:23
Alignment explanation
Indices: 1146533--1146604 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 23
1146523 AATTAATCAC
1146533 AATATAAATATTAATATTTTAAAAT
1 AATATAAATATTAA-A-TTTAAAAT
* *
1146558 ATATATAATATTTTAAATTTAACAT
1 A-ATATAA-ATATTAAATTTAAAAT
*
1146583 AATATAAA-ATTAAATTTTAAAT
1 AATATAAATATTAAATTTAAAAT
1146605 CTTAAATGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
22 11 0.28
23 1 0.03
24 6 0.15
25 9 0.22
26 7 0.17
27 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (23 bp):
AATATAAATATTAAATTTAAAAT
Found at i:1147401 original size:15 final size:16
Alignment explanation
Indices: 1147381--1147423 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
1147371 TTCATATATG
1147381 ATATAAT-AATTATTA
1 ATATAATAAATTATTA
1147396 ATATAAAATAAATTATTA
1 ATAT--AATAAATTATTA
*
1147414 ATATATTAAA
1 ATATAATAAA
1147424 ATTTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 5 0.21
17 3 0.12
18 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:1148616 original size:39 final size:38
Alignment explanation
Indices: 1148572--1148657 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
1148562 TTATTTAAAT
*
1148572 AATAAAAATAATTTATTTAA-ATTTAATTATAATTATT-
1 AATAAAAATAATTTATTTAATATTTAAATATAATT-TTA
* * *
1148609 AATATAAAATAATTTTTTTAATTTTTAAATATTATTTTA
1 AATA-AAAATAATTTATTTAATATTTAAATATAATTTTA
1148648 AATAAAAATA
1 AATAAAAATA
1148658 TAAATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 4 0.10
38 23 0.55
39 15 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (38 bp):
AATAAAAATAATTTATTTAATATTTAAATATAATTTTA
Found at i:1148656 original size:38 final size:38
Alignment explanation
Indices: 1148571--1148671 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 38
1148561 ATTATTTAAA
* * *
1148571 TAATAAAAATAATTTATTTAA-ATTTAATTATAATTAT
1 TAATAAAAATAATTTTTTTAATTTTTAAATATAATTAT
*
1148608 TAATATAAAATAATTTTTTTAATTTTTAAATATTATT-T
1 TAATA-AAAATAATTTTTTTAATTTTTAAATATAATTAT
**
1148646 TAAATAAAAATATAAATTTTTAATTT
1 T-AATAAAAATA-ATTTTTTTAATTT
1148672 ATATAAACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 5 0.09
38 23 0.43
39 26 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
TAATAAAAATAATTTTTTTAATTTTTAAATATAATTAT
Found at i:1148714 original size:12 final size:12
Alignment explanation
Indices: 1148697--1148722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1148687 AACTCAAATT
1148697 TAAATAAAAAAA
1 TAAATAAAAAAA
1148709 TAAATAAAAAAA
1 TAAATAAAAAAA
1148721 TA
1 TA
1148723 CTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAATAAAAAAA
Found at i:1157925 original size:2 final size:2
Alignment explanation
Indices: 1157918--1157966 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
1157908 TTATCAAGTA
*
1157918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1157960 AT AT AT A
1 AT AT AT A
1157967 ATAAAAGTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1163585 original size:9 final size:9
Alignment explanation
Indices: 1163573--1163651 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
1163563 GATTAATATG
1163573 ATATATTTA
1 ATATATTTA
*
1163582 ATATTTTTA
1 ATATATTTA
1163591 ATATATTTTA
1 ATATA-TTTA
*
1163601 TTTATAATTTTA
1 -ATAT-A-TTTA
1163613 ATATATTTA
1 ATATATTTA
1163622 ATA-ATTTA
1 ATATATTTA
*
1163630 TATTAAATTT-
1 -A-TATATTTA
*
1163640 ATATAATTA
1 ATATATTTA
1163649 ATA
1 ATA
1163652 AAAAATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
8 10 0.18
9 24 0.42
10 7 0.12
11 10 0.18
12 6 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATATTTA
Found at i:1163614 original size:22 final size:23
Alignment explanation
Indices: 1163576--1163620 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1163566 TAATATGATA
*
1163576 TATTTAATATTTTTAATATATTT
1 TATTTAATAATTTTAATATATTT
1163599 TATTT-ATAATTTTAATATATTT
1 TATTTAATAATTTTAATATATTT
1163621 AATAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTAATAATTTTAATATATTT
Found at i:1164023 original size:14 final size:14
Alignment explanation
Indices: 1163968--1164026 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
1163958 TTTATTTTGT
*
1163968 TTTTTGATTTTTT-T
1 TTTTTG-TTTTTTAG
*
1163982 TTTTTGTTTTGGTAG
1 TTTTTGTTTT-TTAG
*
1163997 TTTTT-TTTATTAG
1 TTTTTGTTTTTTAG
1164010 TTTTTGTTTTTTAG
1 TTTTTGTTTTTTAG
1164024 TTT
1 TTT
1164027 CAATATTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 12 0.32
14 20 0.54
15 5 0.14
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (14 bp):
TTTTTGTTTTTTAG
Found at i:1164057 original size:19 final size:19
Alignment explanation
Indices: 1164035--1164079 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1164025 TTCAATATTG
**
1164035 TTTTTTGATTTTGTTTTAT
1 TTTTTTGATTTTACTTTAT
*
1164054 TTTTTTTATTTTACTTTAT
1 TTTTTTGATTTTACTTTAT
1164073 TTTTTTG
1 TTTTTTG
1164080 TTATGTCATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTTTTGATTTTACTTTAT
Found at i:1164143 original size:26 final size:27
Alignment explanation
Indices: 1164113--1164163 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
1164103 ATGTGACAAG
1164113 TTTATAATATATATTTT-TT-ATTTTAC
1 TTTATAATAT-TATTTTATTAATTTTAC
*
1164139 TTTATGATATTATTTTATTAATTTT
1 TTTATAATATTATTTTATTAATTTT
1164164 TATTAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 11 0.50
27 5 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTATAATATTATTTTATTAATTTTAC
Found at i:1164900 original size:11 final size:11
Alignment explanation
Indices: 1164880--1164912 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
1164870 TAAATAAATT
1164880 TTTAAAATTAA
1 TTTAAAATTAA
*
1164891 TTTCAAATTAA
1 TTTAAAATTAA
1164902 TTTAAAATTAA
1 TTTAAAATTAA
1164913 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAATTAA
Found at i:1165375 original size:2 final size:2
Alignment explanation
Indices: 1165368--1165393 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1165358 AGAAATCATC
1165368 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
1165394 GGATAAAATT
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):
AT
Found at i:1167508 original size:2 final size:2
Alignment explanation
Indices: 1167503--1167528 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1167493 TTCAAGGCAG
1167503 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
1167529 TTTGTTAGAT
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):
AT
Found at i:1167846 original size:3 final size:3
Alignment explanation
Indices: 1167838--1167889 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
1167828 TCAAATTTAT
*
1167838 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1167886 ATA A
1 ATA A
1167890 ACCCTACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:1170296 original size:10 final size:11
Alignment explanation
Indices: 1170275--1170304 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
1170265 TTTTTGTAAT
1170275 ATAATATAAAA
1 ATAATATAAAA
1170286 ATAAT-TAAAA
1 ATAATATAAAA
1170296 ATAATATAA
1 ATAATATAA
1170305 TATATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:1171324 original size:13 final size:12
Alignment explanation
Indices: 1171306--1171356 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
1171296 ATAATAGAAA
1171306 ATATAATTAATTT
1 ATATAATT-ATTT
1171319 ATATAATTATTT
1 ATATAATTATTT
*
1171331 TTATAA--ATTT
1 ATATAATTATTT
*
1171341 ATAT-ATTATTA
1 ATATAATTATTT
1171352 ATATA
1 ATATA
1171357 CTAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
9 1 0.03
10 7 0.22
11 7 0.22
12 9 0.28
13 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATAATTATTT
Found at i:1171356 original size:21 final size:22
Alignment explanation
Indices: 1171314--1171356 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1171304 AAATATAATT
**
1171314 AATTTATATAATTATTTTTATA
1 AATTTATATAATTATTAATATA
1171336 AATTTATAT-ATTATTAATATA
1 AATTTATATAATTATTAATATA
1171357 CTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTTATATAATTATTAATATA
Found at i:1174396 original size:14 final size:13
Alignment explanation
Indices: 1174377--1174435 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 13
1174367 AATTCGTATC
1174377 TTTATTTTTAAATA
1 TTTATTTTT-AATA
1174391 TTTATTTTTAATA
1 TTTATTTTTAATA
* *
1174404 ---A-ATTTAAAA
1 TTTATTTTTAATA
1174413 TTTATATTTTAATA
1 TTTAT-TTTTAATA
1174427 TTTATTTTT
1 TTTATTTTT
1174436 TTAATTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
9 6 0.17
10 1 0.03
12 1 0.03
13 8 0.22
14 20 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATTTTTAATA
Found at i:1174417 original size:22 final size:24
Alignment explanation
Indices: 1174383--1174426 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
1174373 TATCTTTATT
1174383 TTTAAATATTTAT-TTTTAATAAA
1 TTTAAATATTTATATTTTAATAAA
1174406 TTTAAA-ATTTATATTTTAATA
1 TTTAAATATTTATATTTTAATA
1174427 TTTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTAAATATTTATATTTTAATAAA
Found at i:1176694 original size:20 final size:20
Alignment explanation
Indices: 1176671--1176713 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1176661 TAGATTTGAT
*
1176671 TAAA-AAATATTAAATATTAA
1 TAAATAAATAATAAAT-TTAA
*
1176691 TAAATAAATAATATATTTAA
1 TAAATAAATAATAAATTTAA
1176711 TAA
1 TAA
1176714 TAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATAAATAATAAATTTAA
Found at i:1178452 original size:21 final size:20
Alignment explanation
Indices: 1178415--1178472 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
1178405 TAGAAAATTT
*
1178415 AATTTA-ATATTAAATTTAATT
1 AATTTATATATT--ATTTAATA
*
1178436 AATTTATATAATTATTTTTATA
1 AATTTATAT-ATTA-TTTAATA
1178458 AATTTATATATTATT
1 AATTTATATATTATT
1178473 AATGTACTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 11 0.34
22 16 0.50
23 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTATATATTATTTAATA
Found at i:1182169 original size:24 final size:24
Alignment explanation
Indices: 1182124--1182167 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1182114 ATTAATTTCG
1182124 TATTTTAATTTTAATATTTATAAT
1 TATTTTAATTTTAATATTTATAAT
*
1182148 TATTTTTATTTT--TATTTATA
1 TATTTTAATTTTAATATTTATA
1182168 TACTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTTAATTTTAATATTTATAAT
Found at i:1184865 original size:19 final size:21
Alignment explanation
Indices: 1184827--1184865 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
1184817 TCATATCATC
1184827 TATTAATAATAATCTTAAATA
1 TATTAATAATAATCTTAAATA
*
1184848 TATTAA-AA-AATTTTAAAT
1 TATTAATAATAATCTTAAAT
1184866 TAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTAATAATAATCTTAAATA
Found at i:1185803 original size:26 final size:25
Alignment explanation
Indices: 1185763--1185822 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
1185753 GCGAAAATCT
* * **
1185763 AATAATTAATAAAATTATTTTTAAA
1 AATAATAAATAAAATAATTTAAAAA
1185788 AATATATAAATAAAATAATTTAAAAA
1 AATA-ATAAATAAAATAATTTAAAAA
1185814 AATAATAAA
1 AATAATAAA
1185823 ATTGATACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAATAAATAAAATAATTTAAAAA
Found at i:1187030 original size:30 final size:30
Alignment explanation
Indices: 1186994--1187072 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
1186984 TATGTTTGTG
* * *
1186994 TTATTTATTTAAAATTAAGTATTTTTGTAT
1 TTATTTATTTAAAATTAAATATATTTATAT
1187024 TTATTTATTTAAAATTAAATATATTTATAT
1 TTATTTATTTAAAATTAAATATATTTATAT
1187054 TTATTTATTT-AAATTAAAT
1 TTATTTATTTAAAATTAAAT
1187073 GAACTTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 9 0.20
30 37 0.80
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TTATTTATTTAAAATTAAATATATTTATAT
Found at i:1187263 original size:36 final size:36
Alignment explanation
Indices: 1187209--1187296 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
1187199 ATAAATATGT
* * *
1187209 TTATTAATTTTAAATATAAA-ATAATAAAACATAAATA
1 TTATT-ATTTTTATTATAAATA-AATAAAACACAAATA
1187246 TTATTATTTTTATTATAAATAAATAAAACACAAATA
1 TTATTATTTTTATTATAAATAAATAAAACACAAATA
* * *
1187282 ATAATAATTTTATTA
1 TTATTATTTTTATTA
1187297 ATTATATCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 38 0.86
37 6 0.14
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (36 bp):
TTATTATTTTTATTATAAATAAATAAAACACAAATA
Found at i:1192188 original size:2 final size:2
Alignment explanation
Indices: 1192183--1192219 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1192173 AAAAAAGAAG
*
1192183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1192220 ACAGAATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1193170 original size:15 final size:16
Alignment explanation
Indices: 1193152--1193184 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1193142 ATATTTTTTT
1193152 AATA-TATAAAAAATA
1 AATATTATAAAAAATA
*
1193167 AATATTTTAAAAAATA
1 AATATTATAAAAAATA
1193183 AA
1 AA
1193185 AAATTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATATTATAAAAAATA
Found at i:1193191 original size:16 final size:16
Alignment explanation
Indices: 1193158--1193193 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1193148 TTTTAATATA
* *
1193158 TAAAAAATAAATATTT
1 TAAAAAATAAAAAATT
1193174 TAAAAAATAAAAAATT
1 TAAAAAATAAAAAATT
1193190 TAAA
1 TAAA
1193194 TAACGTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAAATAAAAAATT
Found at i:1208139 original size:77 final size:77
Alignment explanation
Indices: 1208012--1208166 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
1208002 GTATTTACAC
1208012 AATTCCTCCATTGGAAGATCATCCATGCTGCTACCAACAAATAATCATACTTATTGAAACAACAA
1 AATTCCTCCATTGGAAGATCATCCATGCTGCTACCAACAAATAATCATACTTATTGAAACAACAA
1208077 ATAATCATACTT
66 ATAATCATACTT
*
1208089 AATTCCTCCATTGGAAGATCATCCATGCTGCTACCAACAAATAATCATACTTATTGAAACAATAA
1 AATTCCTCCATTGGAAGATCATCCATGCTGCTACCAACAAATAATCATACTTATTGAAACAACAA
1208154 ATAATCATACTT
66 ATAATCATACTT
1208166 A
1 A
1208167 TTGAAAATAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (77 bp):
AATTCCTCCATTGGAAGATCATCCATGCTGCTACCAACAAATAATCATACTTATTGAAACAACAA
ATAATCATACTT
Found at i:1208153 original size:21 final size:22
Alignment explanation
Indices: 1208124--1208172 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 22
1208114 TGCTGCTACC
1208124 AACAAATAATCATACTTATTGA
1 AACAAATAATCATACTTATTGA
1208146 AACAATAAATAATCATACTTATTGA
1 AAC---AAATAATCATACTTATTGA
1208171 AA
1 AA
1208173 ATAATAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 3 0.12
25 21 0.88
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (22 bp):
AACAAATAATCATACTTATTGA
Found at i:1208393 original size:2 final size:2
Alignment explanation
Indices: 1208381--1208410 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1208371 CTGATATACG
*
1208381 TA TA CA 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 TA TA
1208411 AAAGAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1213168 original size:2 final size:2
Alignment explanation
Indices: 1213161--1213203 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1213151 GAATAATTTG
1213161 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
1213203 T
1 T
1213204 GATTGAACGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1219650 original size:18 final size:18
Alignment explanation
Indices: 1219627--1219662 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1219617 ACCCACCTCT
1219627 TGATAATTCCACAAGGAA
1 TGATAATTCCACAAGGAA
1219645 TGATAATTCCACAAGGAA
1 TGATAATTCCACAAGGAA
1219663 CCCAACTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
TGATAATTCCACAAGGAA
Found at i:1222552 original size:5 final size:6
Alignment explanation
Indices: 1222530--1222559 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1222520 CTTTGGTTAG
*
1222530 TAAAAG TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1222560 ACCTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:1224038 original size:13 final size:14
Alignment explanation
Indices: 1224008--1224042 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
1223998 TTTAATAAAA
1224008 AAATTATAAATATTT
1 AAATT-TAAATATTT
1224023 AAATTTAAAT-TTT
1 AAATTTAAATATTT
1224036 AAATTTA
1 AAATTTA
1224043 TTATATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 5 0.25
15 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATTTAAATATTT
Found at i:1225503 original size:16 final size:15
Alignment explanation
Indices: 1225480--1225527 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1225470 TTAATTATAC
*
1225480 AAATAATTTTTCAAA
1 AAATAAATTTTCAAA
*
1225495 AAATAAATTTCCAAA
1 AAATAAATTTTCAAA
1225510 AAATCAAACTTTT-AAA
1 AAAT-AAA-TTTTCAAA
1225526 AA
1 AA
1225528 GATATTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 17 0.61
16 8 0.29
17 3 0.11
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAAATTTTCAAA
Found at i:1226047 original size:23 final size:23
Alignment explanation
Indices: 1226021--1226066 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1226011 TTTATGACAA
*
1226021 AAAATATATATATTA-TAAATATT
1 AAAATATAAAT-TTATTAAATATT
*
1226044 AAAATTTAAATTTATTAAATATT
1 AAAATATAAATTTATTAAATATT
1226067 TTTAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATATAAATTTATTAAATATT
Found at i:1228701 original size:3 final size:3
Alignment explanation
Indices: 1228693--1228726 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1228683 AGATGAATCT
1228693 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1228727 GTGATCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1232629 original size:3 final size:3
Alignment explanation
Indices: 1232621--1232647 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1232611 AAGAGACCAT
1232621 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1232648 TAATACAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:1235081 original size:24 final size:20
Alignment explanation
Indices: 1235040--1235081 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1235030 AAATTCAAAT
1235040 ATAAATTATAAAATAATAAA
1 ATAAATTATAAAATAATAAA
* *
1235060 ATAAA-TATATAATAATTAA
1 ATAAATTATAAAATAATAAA
1235079 ATA
1 ATA
1235082 CACCTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAATTATAAAATAATAAA
Found at i:1235436 original size:18 final size:20
Alignment explanation
Indices: 1235413--1235451 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1235403 GTAACACAAC
1235413 AAAATT-ACA-AAAATATAA
1 AAAATTAACATAAAATATAA
*
1235431 AAAATTAAGATAAAATATAA
1 AAAATTAACATAAAATATAA
1235451 A
1 A
1235452 CAAAAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATTAACATAAAATATAA
Found at i:1235606 original size:40 final size:40
Alignment explanation
Indices: 1235553--1235628 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
1235543 CAGATTTCAG
*
1235553 TTTTTTGTATGTTTTGCCATGCTTTTTTGATTTTTTAATT
1 TTTTTTGTATGTTTTACCATGCTTTTTTGATTTTTTAATT
* *
1235593 TTTTTTTTGTGTTTTACCATGCTTTTTTGATTTTTT
1 TTTTTTGTATGTTTTACCATGCTTTTTTGATTTTTT
1235629 TGTTAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.11, C:0.08, G:0.12, T:0.70
Consensus pattern (40 bp):
TTTTTTGTATGTTTTACCATGCTTTTTTGATTTTTTAATT
Found at i:1235628 original size:21 final size:21
Alignment explanation
Indices: 1235553--1235628 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
1235543 CAGATTTCAG
*
1235553 TTTTTTGTATGTTTTGCCATGC
1 TTTTTTG-ATGTTTTACCATGC
* **
1235575 TTTTTTGATTTTTTA--ATTTT
1 TTTTTTGATGTTTTACCA-TGC
1235595 TTTTTTG-TGTTTTACCATGC
1 TTTTTTGATGTTTTACCATGC
*
1235615 TTTTTTGATTTTTT
1 TTTTTTGATGTTTT
1235629 TGTTAAAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
19 7 0.17
20 16 0.38
21 12 0.29
22 7 0.17
ACGTcount: A:0.11, C:0.08, G:0.12, T:0.70
Consensus pattern (21 bp):
TTTTTTGATGTTTTACCATGC
Found at i:1236632 original size:28 final size:28
Alignment explanation
Indices: 1236597--1236650 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1236587 TATCAAAATT
*
1236597 TAATTATATTAAT-ATTATATATTAAAAA
1 TAATTATATAAATCATTATA-ATTAAAAA
*
1236625 TAATTATATAAATCATTTTAATTAAA
1 TAATTATATAAATCATTATAATTAAA
1236651 TTTTAGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TAATTATATAAATCATTATAATTAAAAA
Found at i:1237100 original size:19 final size:19
Alignment explanation
Indices: 1237064--1237102 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1237054 TATAATATAT
* *
1237064 ATTTAAATTTAGATAAAAA
1 ATTTAAATTTACAAAAAAA
*
1237083 ATTTAATTTTACAAAAAAA
1 ATTTAAATTTACAAAAAAA
1237102 A
1 A
1237103 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
ATTTAAATTTACAAAAAAA
Found at i:1244077 original size:15 final size:16
Alignment explanation
Indices: 1244052--1244102 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 16
1244042 TTTTATTTAT
*
1244052 TATAATTTTAAAAATA
1 TATAAATTTAAAAATA
1244068 TATAAA-TT-AAAATA
1 TATAAATTTAAAAATA
*
1244082 T-TAAATTTAATAATA
1 TATAAATTTAAAAATA
1244097 TATAAA
1 TATAAA
1244103 CCGTAACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 4 0.13
14 9 0.30
15 8 0.27
16 9 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAATTTAAAAATA
Found at i:1246880 original size:28 final size:28
Alignment explanation
Indices: 1246848--1246904 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
1246838 TTGATTATAT
1246848 ATACACCAATAAGATTTAATTTGTTGTG
1 ATACACCAATAAGATTTAATTTGTTGTG
*
1246876 ATACACTAATAAGATTTAATTTGTTGTG
1 ATACACCAATAAGATTTAATTTGTTGTG
1246904 A
1 A
1246905 ACTCTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (28 bp):
ATACACCAATAAGATTTAATTTGTTGTG
Found at i:1247669 original size:12 final size:13
Alignment explanation
Indices: 1247652--1247680 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1247642 CCAAAAAGGA
1247652 TTTTCTTTTTC-T
1 TTTTCTTTTTCAT
1247664 TTTTCTTTTTCAT
1 TTTTCTTTTTCAT
1247677 TTTT
1 TTTT
1247681 TATTCTCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTCAT
Found at i:1252710 original size:81 final size:82
Alignment explanation
Indices: 1252591--1252746 Score: 269
Period size: 81 Copynumber: 1.9 Consensus size: 82
1252581 TTGACAGATT
* *
1252591 TTCAGTTTATGGGTTGAATTTAATTTTGGAAATTTTGACTGGCTTTACGATTTACATCATATTCG
1 TTCAGTTCATGGGTTGAAGTTAATTTTGGAAATTTTGACTGGCTTTACGATTTACATCATATTCG
1252656 AATTATATATATGTATC
66 AATTATATATATGTATC
*
1252673 TTCAGTTCATGGGTTG-AGTTATTTTTGGAAATTTTGACTGGCTTTACGATTTACATCATATTCG
1 TTCAGTTCATGGGTTGAAGTTAATTTTGGAAATTTTGACTGGCTTTACGATTTACATCATATTCG
*
1252737 AGTTATATAT
66 AATTATATAT
1252747 GTTGATACAT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
81 55 0.79
82 15 0.21
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.46
Consensus pattern (82 bp):
TTCAGTTCATGGGTTGAAGTTAATTTTGGAAATTTTGACTGGCTTTACGATTTACATCATATTCG
AATTATATATATGTATC
Found at i:1259573 original size:18 final size:19
Alignment explanation
Indices: 1259552--1259590 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1259542 TTCAAAACAA
1259552 ATGCATACAAATGCA-TTC
1 ATGCATACAAATGCAGTTC
*
1259570 ATGCATGCAAATGCAGTTC
1 ATGCATACAAATGCAGTTC
1259589 AT
1 AT
1259591 TAACCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (19 bp):
ATGCATACAAATGCAGTTC
Found at i:1261791 original size:26 final size:26
Alignment explanation
Indices: 1261758--1261815 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
1261748 TTGTATCAAA
1261758 ATAAATTTTTAATTTTTAATTAATAT
1 ATAAATTTTTAATTTTTAATTAATAT
*
1261784 ATAAATTTTTAATTTTTAATTTATAT
1 ATAAATTTTTAATTTTTAATTAATAT
*
1261810 TTAAAT
1 ATAAAT
1261816 AAAATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
ATAAATTTTTAATTTTTAATTAATAT
Found at i:1261799 original size:33 final size:31
Alignment explanation
Indices: 1261761--1261823 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
1261751 TATCAAAATA
*
1261761 AATTTTTAATTTTTAATTAATATATAAATTTTT
1 AATTTTTAATTTATAATTAA-ATA-AAATTTTT
*
1261794 AATTTTTAATTTATATTTAAATAAAATTTT
1 AATTTTTAATTTATAATTAAATAAAATTTT
1261824 ATAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.25
32 3 0.11
33 18 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
AATTTTTAATTTATAATTAAATAAAATTTTT
Found at i:1261816 original size:56 final size:55
Alignment explanation
Indices: 1261683--1261824 Score: 135
Period size: 56 Copynumber: 2.5 Consensus size: 55
1261673 AAAAAAATAT
*
1261683 CTTTTAATTTTATTTAAATAAATTTAATAAATTTATTATATTTAAATAAATATTTAA
1 CTTTTAATTTTATTTAAATAAATTT--TTAATTTATTATATTTAAATAAATATTTAA
* * ** * *
1261740 CATTTAAATTGTATCAAAATAAATTTTTAATTT-TTA-ATTAATATATAAATTTTTAA
1 C-TTTTAATTTTATTTAAATAAATTTTTAATTTATTATATT--TAAATAAATATTTAA
* *
1261796 TTTTTAATTTATATTTAAATAAAATTTTA
1 CTTTTAATTT-TATTTAAATAAATTTTTA
1261825 TAAAATATTA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
54 3 0.04
55 10 0.15
56 34 0.50
57 1 0.01
58 20 0.29
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (55 bp):
CTTTTAATTTTATTTAAATAAATTTTTAATTTATTATATTTAAATAAATATTTAA
Found at i:1261848 original size:18 final size:18
Alignment explanation
Indices: 1261814--1261855 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1261804 TTATATTTAA
1261814 ATAA-AATTTTATAAAAT
1 ATAATAATTTTATAAAAT
1261831 ATTAATAATTTT-TAAAAT
1 A-TAATAATTTTATAAAAT
1261849 ATAATAA
1 ATAATAA
1261856 AAATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATAATTTTATAAAAT
Found at i:1262884 original size:14 final size:15
Alignment explanation
Indices: 1262865--1262907 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1262855 AAATATAAAA
1262865 ATTTATGTAT-TTAT
1 ATTTATGTATATTAT
*
1262879 ATTTATTTATATTAT
1 ATTTATGTATATTAT
*
1262894 TTTATATGTATATT
1 ATT-TATGTATATT
1262908 TAATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.38
15 6 0.25
16 9 0.38
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
ATTTATGTATATTAT
Found at i:1264103 original size:14 final size:14
Alignment explanation
Indices: 1264084--1264114 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1264074 TTCAATGAAT
*
1264084 ATAAATATAATATA
1 ATAAATAAAATATA
1264098 ATAAATAAAATATA
1 ATAAATAAAATATA
1264112 ATA
1 ATA
1264115 TATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATAAAATATA
Found at i:1264138 original size:12 final size:12
Alignment explanation
Indices: 1264123--1264147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1264113 TATATTTAAA
1264123 AATAAAAATTAT
1 AATAAAAATTAT
1264135 AATAAAAATTAT
1 AATAAAAATTAT
1264147 A
1 A
1264148 TTTATATTTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAAAAATTAT
Found at i:1269086 original size:21 final size:21
Alignment explanation
Indices: 1269062--1269122 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
1269052 TATGACCGAA
1269062 CTATGATCAAAGGCCTTGAAC
1 CTATGATCAAAGGCCTTGAAC
* *
1269083 CTAT-ATTAAA--CC---AAA
1 CTATGATCAAAGGCCTTGAAC
*
1269098 CTACGATCAAAGGCCTTGAAC
1 CTATGATCAAAGGCCTTGAAC
1269119 CTAT
1 CTAT
1269123 ATTTAAGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 5 0.18
16 5 0.18
18 4 0.14
20 5 0.18
21 9 0.32
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (21 bp):
CTATGATCAAAGGCCTTGAAC
Found at i:1270400 original size:2 final size:2
Alignment explanation
Indices: 1270395--1270437 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1270385 AAATCAAAAT
*
1270395 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1270437 T
1 T
1270438 TTTCTAGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:1282111 original size:15 final size:15
Alignment explanation
Indices: 1282087--1282125 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1282077 ACCAAAAGCA
1282087 GAGAAAAAGCCAGCG
1 GAGAAAAAGCCAGCG
* *
1282102 GAGAAGAAGCCAGCA
1 GAGAAAAAGCCAGCG
*
1282117 GAGGAAAAG
1 GAGAAAAAG
1282126 AAGACGACGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.36, T:0.00
Consensus pattern (15 bp):
GAGAAAAAGCCAGCG
Found at i:1293131 original size:4 final size:4
Alignment explanation
Indices: 1293122--1293151 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1293112 TAACAAATGA
1293122 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AG
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AG
1293152 GGGGGGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (4 bp):
AGAT
Found at i:1296279 original size:13 final size:13
Alignment explanation
Indices: 1296261--1296288 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1296251 AAACTTTTAA
1296261 AATTTACAAATTG
1 AATTTACAAATTG
1296274 AATTTACAAATTG
1 AATTTACAAATTG
1296287 AA
1 AA
1296289 AAATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (13 bp):
AATTTACAAATTG
Found at i:1297149 original size:13 final size:13
Alignment explanation
Indices: 1297124--1297175 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
1297114 AACTCTGCAA
1297124 TTAA-TTTTT-AT
1 TTAATTTTTTAAT
1297135 TTAATTTTTTAAT
1 TTAATTTTTTAAT
**
1297148 TTAAAATTTTAAT
1 TTAATTTTTTAAT
*
1297161 TTAATTTTTAAAT
1 TTAATTTTTTAAT
1297174 TT
1 TT
1297176 TGGATTATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 4 0.12
12 5 0.15
13 25 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTAATTTTTTAAT
Found at i:1297155 original size:26 final size:26
Alignment explanation
Indices: 1297126--1297175 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1297116 CTCTGCAATT
* *
1297126 AATTTTTATTTAATTTTTTAATTTAA
1 AATTTTAATTTAATTTTTAAATTTAA
1297152 AATTTTAATTTAATTTTTAAATTT
1 AATTTTAATTTAATTTTTAAATTT
1297176 TGGATTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
AATTTTAATTTAATTTTTAAATTTAA
Found at i:1299521 original size:17 final size:18
Alignment explanation
Indices: 1299486--1299521 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1299476 ATACGTATAT
1299486 AATAATTACATTATTTTA
1 AATAATTACATTATTTTA
*
1299504 AATAATTA-ATTTTTTTA
1 AATAATTACATTATTTTA
1299521 A
1 A
1299522 TAAAAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AATAATTACATTATTTTA
Found at i:1299913 original size:16 final size:16
Alignment explanation
Indices: 1299892--1299967 Score: 75
Period size: 16 Copynumber: 4.8 Consensus size: 16
1299882 TTAATTTAAG
1299892 TTCGGATCATTTTGGA
1 TTCGGATCATTTTGGA
*
1299908 TTCGGATCATTTCAGG-
1 TTCGGATCATTT-TGGA
**
1299924 TTCGGATCATTTCAGA
1 TTCGGATCATTTTGGA
*
1299940 TTCAGG-TTATTTTGGA
1 TTC-GGATCATTTTGGA
*
1299956 TTCAGATCATTT
1 TTCGGATCATTT
1299968 CAAATTCGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
15 2 0.04
16 42 0.88
17 4 0.08
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (16 bp):
TTCGGATCATTTTGGA
Found at i:1299942 original size:32 final size:32
Alignment explanation
Indices: 1299891--1299984 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 32
1299881 CTTAATTTAA
**
1299891 GTTCGGATCATTTTGGATTCGGATCATTTCAG
1 GTTCGGATCATTTCAGATTCGGATCATTTCAG
* *
1299923 GTTCGGATCATTTCAGATTCAGG-TTATTT-TG
1 GTTCGGATCATTTCAGATTC-GGATCATTTCAG
* * *
1299954 GATTCAGATCATTTCAAATTCGAATCATTTC
1 G-TTCGGATCATTTCAGATTCGGATCATTTC
1299985 GAATTTGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
31 3 0.06
32 45 0.90
33 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (32 bp):
GTTCGGATCATTTCAGATTCGGATCATTTCAG
Found at i:1299974 original size:16 final size:16
Alignment explanation
Indices: 1299896--1299984 Score: 72
Period size: 16 Copynumber: 5.6 Consensus size: 16
1299886 TTTAAGTTCG
** *
1299896 GATCATTTTGGATTCG
1 GATCATTTCAGATTCA
* *
1299912 GATCATTTCAGGTTCG
1 GATCATTTCAGATTCA
1299928 GATCATTTCAGATTCA
1 GATCATTTCAGATTCA
* * **
1299944 GGTTATTTTGGATTCA
1 GATCATTTCAGATTCA
*
1299960 GATCATTTCAAATTC-
1 GATCATTTCAGATTCA
1299975 GAATCATTTC
1 G-ATCATTTC
1299985 GAATTTGGAT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
15 1 0.02
16 57 0.98
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (16 bp):
GATCATTTCAGATTCA
Found at i:1300969 original size:1 final size:1
Alignment explanation
Indices: 1300963--1300988 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1300953 CTGAGTTGGA
1300963 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
1300989 CCGACAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1305812 original size:15 final size:15
Alignment explanation
Indices: 1305771--1305812 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1305761 TGGCGCCAAA
1305771 AGCTGAGAAGAAGCC
1 AGCTGAGAAGAAGCC
* *
1305786 GGCCGAGAAGAAGCC
1 AGCTGAGAAGAAGCC
*
1305801 AGCTGAGGAGAA
1 AGCTGAGAAGAA
1305813 AAAGACTACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.38, T:0.05
Consensus pattern (15 bp):
AGCTGAGAAGAAGCC
Found at i:1308953 original size:32 final size:30
Alignment explanation
Indices: 1308891--1308950 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
1308881 TATGAATTTA
*
1308891 TTATTTTTTAATTTTAATATAAATTAAAAT
1 TTATTTTTTAATTTTAAGATAAATTAAAAT
*
1308921 TTATTTGTTTACATTTTAAGGT-AATTAAAA
1 TTATTT-TTTA-ATTTTAAGATAAATTAAAA
1308951 ATTAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 12 0.46
32 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (30 bp):
TTATTTTTTAATTTTAAGATAAATTAAAAT
Found at i:1309884 original size:2 final size:2
Alignment explanation
Indices: 1309842--1309869 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1309832 GACGGAAACC
1309842 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1309870 TTTCCCTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1311848 original size:18 final size:18
Alignment explanation
Indices: 1311813--1311859 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1311803 GGTGGTGCTG
* **
1311813 GAGGCCGTGGCTTTGGAA
1 GAGGCCGTGGATGGGGAA
1311831 GAGGCCGTGGATGGGGAA
1 GAGGCCGTGGATGGGGAA
*
1311849 GGGGCCGTGGA
1 GAGGCCGTGGA
1311860 GAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.53, T:0.15
Consensus pattern (18 bp):
GAGGCCGTGGATGGGGAA
Found at i:1325116 original size:24 final size:24
Alignment explanation
Indices: 1325071--1325116 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1325061 TGATTATTTT
*
1325071 AAATTATTAAAATAAATTAAATAA
1 AAATTATTAAAATAAATCAAATAA
*
1325095 AAATT-TTAATAATTAATCAAAT
1 AAATTATTAA-AATAAATCAAAT
1325117 TTAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATTATTAAAATAAATCAAATAA
Found at i:1325162 original size:23 final size:23
Alignment explanation
Indices: 1325131--1325174 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1325121 TTCAATGATC
*
1325131 AATTGATTAATAAAATTAAATTT
1 AATTAATTAATAAAATTAAATTT
**
1325154 AATTAATTAATTTAATTAAAT
1 AATTAATTAATAAAATTAAAT
1325175 GTAAATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATTAATTAATAAAATTAAATTT
Found at i:1325165 original size:13 final size:14
Alignment explanation
Indices: 1325144--1325184 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
1325134 TGATTAATAA
1325144 AATTAAATTTAATT
1 AATTAAATTTAATT
1325158 AATT-AATTTAATT
1 AATTAAATTTAATT
1325171 AAATGTAAATTTAA
1 -AAT-TAAATTTAA
1325185 ATTATCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.38
14 7 0.29
15 1 0.04
16 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
AATTAAATTTAATT
Done.