Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 3 of 136
Found at i:518223 original size:47 final size:46
Alignment explanation
Indices: 518130--518224 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 46
518120 AATATTTTTT
***
518130 AAAAAATAAAAATAATTATGAAAAATATAAAAACTCTTTAAAATTC
1 AAAAAATAAAAATAATTATGAAAAATATAAAAAAAATTTAAAATTC
* *
518176 AAAAAATAAAAATGATT-TTAAAAATATAAAATAAAATTTCAAAATTC
1 AAAAAATAAAAATAATTATGAAAAATATAAAA-AAAATTT-AAAATTC
518223 AA
1 AA
518225 TGTTATCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 13 0.31
46 20 0.48
47 9 0.21
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.28
Consensus pattern (46 bp):
AAAAAATAAAAATAATTATGAAAAATATAAAAAAAATTTAAAATTC
Found at i:534069 original size:19 final size:19
Alignment explanation
Indices: 534031--534070 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
534021 ATTAATTTTG
* * *
534031 ATCAAGTAAATTTAAGTTA
1 ATCAAATAAATTAAAATTA
534050 ATCAAATAAATTAAAATTA
1 ATCAAATAAATTAAAATTA
534069 AT
1 AT
534071 ATAATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:541295 original size:22 final size:22
Alignment explanation
Indices: 541244--541303 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
541234 GGTACAATTT
**
541244 TTAAAACTTTTTTTAACTTAAC
1 TTAAAACAATTTTTAACTTAAC
*
541266 TTAAAACAATTTTTAA-TGTAAT
1 TTAAAACAATTTTTAACT-TAAC
*
541288 TTAGAACAATTTTTAA
1 TTAAAACAATTTTTAA
541304 ACTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (22 bp):
TTAAAACAATTTTTAACTTAAC
Found at i:541642 original size:20 final size:20
Alignment explanation
Indices: 541617--541662 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
541607 ATTTGCATCA
*
541617 TAACCTCCTAGTCATCAAAT
1 TAACCTCCTAATCATCAAAT
541637 TAACCTCCTAATCATCAAAT
1 TAACCTCCTAATCATCAAAT
541657 TAACCT
1 TAACCT
541663 GGCAATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.30, G:0.02, T:0.30
Consensus pattern (20 bp):
TAACCTCCTAATCATCAAAT
Found at i:542464 original size:22 final size:22
Alignment explanation
Indices: 542411--542477 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
542401 TTTAAAAATA
542411 TTAAAAGATATATTTTTAT-ATTT
1 TTAAAA-ATA-ATTTTTATAATTT
542434 TT--AAATAA-TTTTAGTAATTT
1 TTAAAAATAATTTTTA-TAATTT
542454 TTAAAAATAATTTTTATAATTT
1 TTAAAAATAATTTTTATAATTT
542476 TT
1 TT
542478 TTTGAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 9 0.23
21 2 0.05
22 14 0.36
23 7 0.18
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TTAAAAATAATTTTTATAATTT
Found at i:543474 original size:18 final size:17
Alignment explanation
Indices: 543447--543480 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
543437 GAGTCGATTG
*
543447 TTTATATGTTTAAATAA
1 TTTATATGTTGAAATAA
543464 TTTATTATGTTGAAATA
1 TTTA-TATGTTGAAATA
543481 CTGATTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
TTTATATGTTGAAATAA
Found at i:550670 original size:86 final size:86
Alignment explanation
Indices: 550525--550696 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 86
550515 AAATTGTAAA
*
550525 GAAAGTAAAACTTTCTTTCTTTTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTG
1 GAAAGTAAAACTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTG
*
550590 CCTCCTTCTCATCTTTCTTTC
66 CATCCTTCTCATCTTTCTTTC
*
550611 GAAAGTAAAACTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTT
1 GAAAGTAAAACTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTG
* *
550676 TATCCTTCTCCTCTTTCTTTC
66 CATCCTTCTCATCTTTCTTTC
550697 CACATATATA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (86 bp):
GAAAGTAAAACTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTG
CATCCTTCTCATCTTTCTTTC
Found at i:556927 original size:27 final size:27
Alignment explanation
Indices: 556897--557013 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
556887 CCTCATATGG
* * * *
556897 TAAAATAACTATTATGCCCCTATGTAA
1 TAAAATGACGATTATACCCCTATGTTA
*
556924 TAAAATGAC-AGTTATGCCCCTATGTTA
1 TAAAATGACGA-TTATACCCCTATGTTA
* *
556951 TAAAATGACGGTTATACCCCTATATTA
1 TAAAATGACGATTATACCCCTATGTTA
** *
556978 TAAAAAAACGGTTATACCCCTATGTTA
1 TAAAATGACGATTATACCCCTATGTTA
557005 TAAAATGAC
1 TAAAATGAC
557014 TATATGTTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.99
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (27 bp):
TAAAATGACGATTATACCCCTATGTTA
Found at i:556955 original size:54 final size:54
Alignment explanation
Indices: 556897--557016 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
556887 CCTCATATGG
* * * ** *
556897 TAAAATAACTATTATGCCCCTATGTAATAAAATGACAGTTATGCCCCTATGTTA
1 TAAAATGACTATTATACCCCTATATAATAAAAAAACAGTTATACCCCTATGTTA
** * *
556951 TAAAATGACGGTTATACCCCTATATTATAAAAAAACGGTTATACCCCTATGTTA
1 TAAAATGACTATTATACCCCTATATAATAAAAAAACAGTTATACCCCTATGTTA
557005 TAAAATGACTAT
1 TAAAATGACTAT
557017 ATGTTTAATG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (54 bp):
TAAAATGACTATTATACCCCTATATAATAAAAAAACAGTTATACCCCTATGTTA
Found at i:557329 original size:43 final size:43
Alignment explanation
Indices: 557281--557379 Score: 198
Period size: 43 Copynumber: 2.3 Consensus size: 43
557271 GATTGCATGT
557281 CTGAACTGTTATTGTCACTGTAATGGGCTAAGGCCCAACTGAA
1 CTGAACTGTTATTGTCACTGTAATGGGCTAAGGCCCAACTGAA
557324 CTGAACTGTTATTGTCACTGTAATGGGCTAAGGCCCAACTGAA
1 CTGAACTGTTATTGTCACTGTAATGGGCTAAGGCCCAACTGAA
557367 CTGAACTGTTATT
1 CTGAACTGTTATT
557380 AAATTGGGCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (43 bp):
CTGAACTGTTATTGTCACTGTAATGGGCTAAGGCCCAACTGAA
Found at i:571300 original size:17 final size:18
Alignment explanation
Indices: 571271--571305 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
571261 TAAACAAGTC
571271 AATATATTTATACACTTA
1 AATATATTTATACACTTA
571289 AATATA-TTATACACTTA
1 AATATATTTATACACTTA
571306 TAGCAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATATTTATACACTTA
Found at i:573266 original size:18 final size:18
Alignment explanation
Indices: 573243--573279 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
573233 AATAGCAACC
573243 ACATCCTCGTTTAGGCAT
1 ACATCCTCGTTTAGGCAT
573261 ACATCCTCGTTTAGGCAT
1 ACATCCTCGTTTAGGCAT
573279 A
1 A
573280 TATCACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (18 bp):
ACATCCTCGTTTAGGCAT
Found at i:575784 original size:23 final size:23
Alignment explanation
Indices: 575754--575801 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
575744 TCCTCATGTT
575754 ATTACATTATAACCAAACAAGGC
1 ATTACATTATAACCAAACAAGGC
575777 ATTACATTATAACCAAACAAGGC
1 ATTACATTATAACCAAACAAGGC
575800 AT
1 AT
575802 AAGTGTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (23 bp):
ATTACATTATAACCAAACAAGGC
Found at i:576118 original size:18 final size:20
Alignment explanation
Indices: 576083--576134 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
576073 TAATTACAAA
*
576083 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
*
576102 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
576121 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
576135 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 8 0.29
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:577184 original size:33 final size:33
Alignment explanation
Indices: 577142--577211 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
577132 CACCAGCTCC
*
577142 ACCACCAGTCAAGGTTCCTAGTC-CTCCATATGA
1 ACCACCAGTCAAGGCTCCTAGTCTC-CCATATGA
*
577175 ACCACCAGTCATGGCTCCTAGTCTCCCATATGA
1 ACCACCAGTCAAGGCTCCTAGTCTCCCATATGA
577208 ACCA
1 ACCA
577212 ACAGCTCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (33 bp):
ACCACCAGTCAAGGCTCCTAGTCTCCCATATGA
Found at i:581653 original size:6 final size:6
Alignment explanation
Indices: 581642--582475 Score: 1668
Period size: 6 Copynumber: 139.0 Consensus size: 6
581632 GCATAAACTG
581642 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
581690 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
581738 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
581786 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
581834 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
581882 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
581930 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
581978 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582026 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582074 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582122 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582170 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582218 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582266 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582314 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582362 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582410 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
582458 ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT
582476 GTGTATATAT
Statistics
Matches: 828, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 828 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:590089 original size:25 final size:25
Alignment explanation
Indices: 589999--590090 Score: 66
Period size: 25 Copynumber: 3.7 Consensus size: 25
589989 TTTAACAAAC
* *
589999 TTATTAAAATTATTTATTATTAATA
1 TTATTAAAAATATTTATTATTATTA
* *
590024 TT-TGAAACTAATAACTT-TT-TTATTA
1 TTATTAAA--AAT-ATTTATTATTATTA
* *
590049 TTATCCAAACAT-TTTATTATTATTA
1 TTAT-TAAAAATATTTATTATTATTA
590074 TTATTAAAAATATTTAT
1 TTATTAAAAATATTTAT
590091 CAATACTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
23 2 0.04
24 11 0.22
25 26 0.52
26 5 0.10
27 6 0.12
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (25 bp):
TTATTAAAAATATTTATTATTATTA
Found at i:591180 original size:27 final size:27
Alignment explanation
Indices: 591150--591279 Score: 63
Period size: 27 Copynumber: 4.8 Consensus size: 27
591140 ATATGTATTT
591150 ATTAAGTCTTTAAAAATTTTTAAGTTA
1 ATTAAGTCTTTAAAAATTTTTAAGTTA
* * * * **
591177 ATTATGACTTAAAAAATATTTATTTCTA
1 ATTAAGTCTTTAAAAATTTTTAAGT-TA
* * *
591205 A--AACAT-TTTAAAGAGTTTATGT-A-TTT
1 ATTAA-GTCTTTAAA-AATTT-T-TAAGTTA
591231 ATTAAGTCTTTAAAAATTTTTAAGTTA
1 ATTAAGTCTTTAAAAATTTTTAAGTTA
* * * *
591258 ATTATGACTTAAAAAATATTTA
1 ATTAAGTCTTTAAAAATTTTTA
591280 TTTCTAAAAC
Statistics
Matches: 72, Mismatches: 21, Indels: 20
0.64 0.19 0.18
Matches are distributed among these distances:
25 1 0.01
26 10 0.14
27 48 0.67
28 12 0.17
29 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (27 bp):
ATTAAGTCTTTAAAAATTTTTAAGTTA
Found at i:591233 original size:81 final size:82
Alignment explanation
Indices: 591141--591304 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 82
591131 TTTAGAAAAA
591141 TATGTATTTATTAAGTCTTTAAAAATTTTTAAGTTAATTATGACTTAAAAAATATTTATTTCTAA
1 TATGTATTTATTAAGTCTTTAAAAATTTTTAAGTTAATTATGACTTAAAAAATATTTATTTCTAA
591206 AACA-TTTTAAAGAGTT
66 AACATTTTTAAAGAGTT
591222 TATGTATTTATTAAGTCTTTAAAAATTTTTAAGTTAATTATGACTTAAAAAATATTTATTTCTAA
1 TATGTATTTATTAAGTCTTTAAAAATTTTTAAGTTAATTATGACTTAAAAAATATTTATTTCTAA
591287 AACATTTTTAAAGAGTT
66 AACATTTTTAAAGAGTT
591304 T
1 T
591305 TATTTAAATA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 69 0.84
82 13 0.16
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (82 bp):
TATGTATTTATTAAGTCTTTAAAAATTTTTAAGTTAATTATGACTTAAAAAATATTTATTTCTAA
AACATTTTTAAAGAGTT
Found at i:592656 original size:16 final size:17
Alignment explanation
Indices: 592635--592671 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
592625 TGATTTTGTA
*
592635 TATTATGAA-ATATATT
1 TATTATGAATATATATG
592651 TATTATGAATATATATG
1 TATTATGAATATATATG
592668 TATT
1 TATT
592672 GAGAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
TATTATGAATATATATG
Found at i:592666 original size:17 final size:16
Alignment explanation
Indices: 592635--592688 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
592625 TGATTTTGTA
*
592635 TATTATGAAATATATT
1 TATTATGAAATATATG
592651 TATTATGAATATATATG
1 TATTATGAA-ATATATG
*
592668 TATTGA-GAAAAATATG
1 TATT-ATGAAATATATG
592684 -ATTAT
1 TATTAT
592689 TATCAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 1 0.03
15 3 0.09
16 15 0.45
17 13 0.39
18 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (16 bp):
TATTATGAAATATATG
Found at i:593099 original size:18 final size:18
Alignment explanation
Indices: 593076--593159 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
593066 AATGACAAAG
593076 ATGAGAAATGAATATGAA
1 ATGAGAAATGAATATGAA
593094 ATGAGAAAATGTGGAA-ATGGAAAAA
1 ATGAG-AAA--T-GAATAT-G---AA
* *
593119 ATGAGCAATGATTATGAA
1 ATGAGAAATGAATATGAA
593137 ATGAGAAATGAAATATGAA
1 ATGAGAAATG-AATATGAA
593156 ATGA
1 ATGA
593160 TGAATTGAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
18 16 0.31
19 14 0.27
21 6 0.12
22 7 0.13
24 2 0.04
25 7 0.13
ACGTcount: A:0.54, C:0.01, G:0.24, T:0.21
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:594877 original size:41 final size:41
Alignment explanation
Indices: 594820--594934 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
594810 ACCGGTAATT
* * *
594820 AGCCTGCTAGACGTAAAGTCCGAGATATTTCATCGGCATTA
1 AGCCTGCTAGACGTAAAGTCCGAAACATTTCACCGGCATTA
* * * *
594861 AGCCTGGTAGATGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAACATTTCACCGGCATTA
* * *
594902 ACCCTGCTAGACATAAAGTCTGAAACATTTCAC
1 AGCCTGCTAGACGTAAAGTCCGAAACATTTCAC
594935 TGACGATAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCCGAAACATTTCACCGGCATTA
Found at i:597870 original size:16 final size:17
Alignment explanation
Indices: 597849--597885 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
597839 TGATTTTGTA
*
597849 TATTATGAA-ATATATT
1 TATTATGAATATATATG
597865 TATTATGAATATATATG
1 TATTATGAATATATATG
597882 TATT
1 TATT
597886 GAGAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
TATTATGAATATATATG
Found at i:597880 original size:17 final size:16
Alignment explanation
Indices: 597849--597902 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
597839 TGATTTTGTA
*
597849 TATTATGAAATATATT
1 TATTATGAAATATATG
597865 TATTATGAATATATATG
1 TATTATGAA-ATATATG
*
597882 TATTGA-GAAAAATATG
1 TATT-ATGAAATATATG
597898 -ATTAT
1 TATTAT
597903 TATCAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 1 0.03
15 3 0.09
16 15 0.45
17 13 0.39
18 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (16 bp):
TATTATGAAATATATG
Found at i:598313 original size:18 final size:18
Alignment explanation
Indices: 598290--598373 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
598280 AATGACAAAG
598290 ATGAGAAATGAATATGAA
1 ATGAGAAATGAATATGAA
598308 ATGAGAAAATGTGGAA-ATGGAAAAA
1 ATGAG-AAA--T-GAATAT-G---AA
* *
598333 ATGAGCAATGATTATGAA
1 ATGAGAAATGAATATGAA
598351 ATGAGAAATGAAATATGAA
1 ATGAGAAATG-AATATGAA
598370 ATGA
1 ATGA
598374 TGAATTGAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
18 16 0.31
19 14 0.27
21 6 0.12
22 7 0.13
24 2 0.04
25 7 0.13
ACGTcount: A:0.54, C:0.01, G:0.24, T:0.21
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:600091 original size:41 final size:41
Alignment explanation
Indices: 600034--600148 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
600024 ACCGGTAATT
* * *
600034 AGCCTGCTAGACGTAAAGTCCGAGATATTTCATCGGCATTA
1 AGCCTGCTAGACGTAAAGTCCGAAACATTTCACCGGCATTA
* * * *
600075 AGCCTGGTAGATGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAACATTTCACCGGCATTA
* * *
600116 ACCCTGCTAGACATAAAGTCTGAAACATTTCAC
1 AGCCTGCTAGACGTAAAGTCCGAAACATTTCAC
600149 TGACGATAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCCGAAACATTTCACCGGCATTA
Found at i:605133 original size:49 final size:49
Alignment explanation
Indices: 605042--605135 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
605032 TCAAGAAGGG
*
605042 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAATTTAGCAATGT
* *
605091 ATAAATAGTGATAAGATTGTAGACAGTGGAAGA-TCAAATTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACT-AAATTTAGCA
605136 TTGCAAAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 1 0.02
49 40 0.98
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAATTTAGCAATGT
Found at i:609184 original size:19 final size:19
Alignment explanation
Indices: 609160--609202 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
609150 AATGTCTAAA
609160 TACAATATTCTTAGTTTAT
1 TACAATATTCTTAGTTTAT
609179 TACAATATTCTTAGTTTAT
1 TACAATATTCTTAGTTTAT
609198 TACAA
1 TACAA
609203 CAAATGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (19 bp):
TACAATATTCTTAGTTTAT
Found at i:610169 original size:15 final size:15
Alignment explanation
Indices: 610149--610179 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
610139 ACATCTACCA
*
610149 AAATAGATGAATTAC
1 AAATAGACGAATTAC
610164 AAATAGACGAATTAC
1 AAATAGACGAATTAC
610179 A
1 A
610180 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:611917 original size:8 final size:8
Alignment explanation
Indices: 611904--611981 Score: 50
Period size: 8 Copynumber: 9.2 Consensus size: 8
611894 TAATGAATTT
611904 AATAATAA
1 AATAATAA
611912 AATAATAA
1 AATAATAA
*
611920 AATAATAGT
1 AATAATA-A
611929 AATAATAA
1 AATAATAA
* *
611937 TATTACAT-T
1 -AATA-ATAA
**
611946 AATGAATTT
1 AAT-AATAA
611955 AATAATAA
1 AATAATAA
*
611963 AATAGAAAA
1 AATA-ATAA
611972 AATAATAA
1 AATAATAA
611980 AA
1 AA
611982 AGGGGACTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
8 31 0.56
9 22 0.40
10 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (8 bp):
AATAATAA
Found at i:612834 original size:26 final size:26
Alignment explanation
Indices: 612783--612845 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
612773 GCCCGAAATA
*
612783 TCTTTTT-TTTTTGTATATTCTATTT
1 TCTTTTTATTTTTGTACATTCTATTT
* * *
612808 TCTTTTTATTTTTTTACATTGTTTTT
1 TCTTTTTATTTTTGTACATTCTATTT
612834 TGCTTTTATATT
1 T-CTTTT-TATT
612846 CTTCTAGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 7 0.23
26 15 0.48
27 5 0.16
28 4 0.13
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.75
Consensus pattern (26 bp):
TCTTTTTATTTTTGTACATTCTATTT
Found at i:613572 original size:89 final size:89
Alignment explanation
Indices: 613463--613975 Score: 431
Period size: 89 Copynumber: 5.8 Consensus size: 89
613453 CTCCACTACA
* * * * * *
613463 ACTTTAGGGAGATAGGATTAGTAGCTTTAATATGTTCCATTGCAACTTTAGGGAGATAAGATTTG
1 ACTTCAGGGAGATAAGATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* *
613528 CTATCTTCAGTCTGCTCCACTGTG
66 CTATCTTCAATCTGCTCCATTGTG
* * *
613552 ACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTA
1 ACTTCAGGGAGATAAGATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
*
613617 CTATCTTCAATCTGCTCCATTATG
66 CTATCTTCAATCTGCTCCATTGTG
* * * * *
613641 ACTTCAGGGAGATAAGACTAGGAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAG
1 ACTTCAGGGAGATAAGATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * **
613706 -TAGCTTTAATCTGCTCCATTGCA
66 CTATCTTCAATCTGCTCCATTGTG
* * * * * ** ** * *
613729 ACTTCAAGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCGGCTTCAAAGAGATAGGATTA
1 ACTTCAGGGAGATAAGATTAG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* * * **
613794 G-TAGCTTTAATCTGCTCCACTGCA
65 GCTATCTTCAATCTGCTCCATTGTG
* * * * * * * * *
613818 ACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGTTCGACTGCGAA-TTCAAGGAGATAAGACT
1 ACTTCAGGGAGATAAGATTAG-TAGCTTTAATCTGCTCCACTGC-AACTTCAGGGAGATAAGATT
* * * * * **
613882 AG-TAACTTTAATCCGCTCCACTGCA
64 TGCTATCTTCAATCTGCTCCATTGTG
* * * * * * *
613907 ACTTCAGAGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTCG
1 ACTTCAGGGAGATAAGATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
613972 CTAT
66 CTAT
613976 AATGACTTCA
Statistics
Matches: 356, Mismatches: 64, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
87 2 0.01
88 66 0.19
89 288 0.81
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (89 bp):
ACTTCAGGGAGATAAGATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
CTATCTTCAATCTGCTCCATTGTG
Found at i:613679 original size:133 final size:133
Alignment explanation
Indices: 613445--614153 Score: 579
Period size: 133 Copynumber: 5.3 Consensus size: 133
613435 ATTCATCATC
* * * * * * * * * *
613445 TTAATCCT-CTCCACTACAACTTTAGGGAGATAGGA-TTAGTAGCTTTAATATGTTCCATTGCAA
1 TTAAT-CTGCTCCACTACAACTTCAAGGAGATAAGATTTACTATCTTCAATCTGCTCCACTGCGA
* * * * * * **
613508 CTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGTGACTTCAGGGAGATAGGATTAG
65 CTTCAGGGAGATAAGATTAG-TAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAG
613573 TAGCT
129 TAGCT
* * **
613578 TTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTACTATCTTCAATCTGCTCCATTATGAC
1 TTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTACTATCTTCAATCTGCTCCACTGCGAC
* *
613643 TTCAGGGAGATAAGACTAGGAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAGTA
66 TTCAGGGAGATAAGATTAGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAGTA
613708 GCT
131 GCT
* * * * *
613711 TTAATCTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCGGC
1 TTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTACTATCTTCAATCTGCTCCACTGCGAC
** * * * * *
613776 TTCAAAGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCT
66 TTCAGGGAGATAAGATTAGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAG-T
*
613841 ATCT
130 AGCT
* * * * * * * * * * *
613845 TCAGTCTGTTCGACTGCGAA-TTCAAGGAGATAAGA-CTAGTAACTTTAATCCGCTCCACTGCAA
1 TTAATCTGCTCCACTAC-AACTTCAAGGAGATAAGATTTACTATCTTCAATCTGCTCCACTGCGA
* * * * * * *
613908 CTTCAGAGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTCGC
65 CTTCAGGGAGATAAGATTAGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAG-
613973 TATAATGACT
129 --T-A-G-CT
* * * * * * * *
613983 TCAATC--CATCCCACTGCAA-TATTAAGGAAATAAGATTCACTATTTTCAGTCTACTCCACTGC
1 TTAATCTGC-T-CCACTACAACT-TCAAGGAGATAAGATTTACTATCTTCAATCTGCTCCACTGC
* * * * **
614045 GACTTCAGGGAGATAAGACTAGTAACTTTAATTTGA-TCCAGTGCAACTTCATAGAGATAGGATT
63 GACTTCAGGGAGATAAGATTAGTAGCTTTAATCT-ACTCCACTGCAACTTCAGGGAGATAGGATT
* *
614109 ATTAGTT
127 AGTAGCT
* *
614116 TTAATCTGCTCCACTACAACTTTAGGGAGATAAGATTT
1 TTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTT
614154 GCCATAATGA
Statistics
Matches: 464, Mismatches: 95, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
132 2 0.00
133 288 0.62
134 71 0.15
135 5 0.01
136 2 0.00
137 4 0.01
138 25 0.05
139 66 0.14
140 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (133 bp):
TTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTACTATCTTCAATCTGCTCCACTGCGAC
TTCAGGGAGATAAGATTAGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAGTA
GCT
Found at i:613845 original size:222 final size:221
Alignment explanation
Indices: 613445--613975 Score: 765
Period size: 222 Copynumber: 2.4 Consensus size: 221
613435 ATTCATCATC
* * * *
613445 TTAATCCTCTCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTTAATATGTTCCATTGCAACT
1 TTAAT-CTCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCATTGCAACT
* **
613510 TTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGTGACTTCAGGGAGATAGGATTAGTA
65 TTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCGACTTCAAAGAGATAGGATTAGTA
* *
613575 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTACTATCTTCAATCTGCTCCATTAT
130 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTACTATCTTCAATCTGCTCCACTAC
* * *
613640 GACTTCAGGGAGATAAGACTAGGAGCT
195 GAATTCAAGGAGATAAGACTAGGAACT
613667 TTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCATTGCAACT
1 TTAATCT-CTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCATTGCAACT
* * *
613732 TCAAGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCGGCTTCAAAGAGATAGGATTAGTA
65 TTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCGACTTCAAAGAGATAGGATTAGTA
* * * * * * *
613797 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGTTCGACTGC
130 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTACTATCTTCAATCTGCTCCACTAC
*
613862 GAATTCAAGGAGATAAGACTAGTAACT
195 GAATTCAAGGAGATAAGACTAGGAACT
* * * * * *
613889 TTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACT
1 TTAAT-CTCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCATTGCAACT
*
613954 TTAGGGAGATAAGATTCGCTAT
65 TTAGGGAGATAAGATTTGCTAT
613976 AATGACTTCA
Statistics
Matches: 275, Mismatches: 32, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
221 2 0.01
222 272 0.99
223 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (221 bp):
TTAATCTCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCATTGCAACTT
TAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCGACTTCAAAGAGATAGGATTAGTAG
CTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTACTATCTTCAATCTGCTCCACTACG
AATTCAAGGAGATAAGACTAGGAACT
Found at i:614034 original size:183 final size:183
Alignment explanation
Indices: 613810--614189 Score: 546
Period size: 183 Copynumber: 2.1 Consensus size: 183
613800 TTAATCTGCT
* * ** ** *
613810 CCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGTTCGACTGCGAATTCAAGGAGA
1 CCACTGCAACTTTAAGGAAATAAGATTCACTATCTTCAGTCTACTCCACTGCGAATTCAAGGAGA
* *
613875 TAAGACTAGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATCT
66 TAAGACTAGTAACTTTAATCCGATCCACTGCAACTTCAGAGAGATAGGATTATTAGCTTTAATCT
* *
613940 ACTCCACTGCAACTTTAGGGAGATAAGATTCGCTATAATGACTTCAATCCATC
131 ACTCCACTACAACTTTAGGGAGATAAGATTCGCCATAATGACTTCAATCCATC
* * *
613993 CCACTGCAA-TATTAAGGAAATAAGATTCACTATTTTCAGTCTACTCCACTGCGACTTCAGGGAG
1 CCACTGCAACT-TTAAGGAAATAAGATTCACTATCTTCAGTCTACTCCACTGCGAATTCAAGGAG
** * * *
614057 ATAAGACTAGTAACTTTAATTTGATCCAGTGCAACTTCATAGAGATAGGATTATTAGTTTTAATC
65 ATAAGACTAGTAACTTTAATCCGATCCACTGCAACTTCAGAGAGATAGGATTATTAGCTTTAATC
* * *
614122 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCCATAATGACTTTAATCCATC
130 TACTCCACTACAACTTTAGGGAGATAAGATTCGCCATAATGACTTCAATCCATC
614176 CCACTGCAACTTTA
1 CCACTGCAACTTTA
614190 GCAGTATAGG
Statistics
Matches: 173, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
182 1 0.01
183 171 0.99
184 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (183 bp):
CCACTGCAACTTTAAGGAAATAAGATTCACTATCTTCAGTCTACTCCACTGCGAATTCAAGGAGA
TAAGACTAGTAACTTTAATCCGATCCACTGCAACTTCAGAGAGATAGGATTATTAGCTTTAATCT
ACTCCACTACAACTTTAGGGAGATAAGATTCGCCATAATGACTTCAATCCATC
Found at i:614095 original size:44 final size:44
Alignment explanation
Indices: 613454--614150 Score: 330
Period size: 44 Copynumber: 15.6 Consensus size: 44
613444 CTTAATCCTC
* * * * * * *
613454 TCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTTAATATGT
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* * * * * * * *
613498 TCCATTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-TAACTTTAATCTGA
** * * * *
613543 TCCACTGTGACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* * * * * *
613587 TCCACTACAACTTCAGGGAGATAAGATTTACTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-CTAGTAACTTTAATCTGA
* *** * *
613632 TCCATTATGACTTCAGGGAGATAAGACTAGGAGCTTTAATCT-A
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* * * *
613675 CTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCTGC
1 -TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* * * * * * * *
613720 TCCATTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-TAACTTTAATCTGA
** ** * * * *
613765 TCCACTGCGGCTTCAAAGAGATAGGATTAGTAGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* * * * * * *
613809 TCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGT
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-TAACTTTAATCTGA
* * * *
613854 TCGACTGCGAA-TTCAAGGAGATAAGACTAGTAACTTTAATCCGC
1 TCCACTGC-AACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* * * * **
613898 TCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATCT-A
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* * *
613941 CTCCACTGCAACTTTAGGGAGATAAGATTCGCTA-TAATGACTTCAATC-CA
1 -TCCACTGCAACTTCAGGGAGATAAGA----CTAGT-A--ACTTTAATCTGA
* * * * * * *
613991 TCCCACTGCAA-TATTAAGGAAATAAGATTCACT-ATTTTCAGTCT-A
1 T-CCACTGCAACT-TCAGGGAGATAAGACT-AGTAACTTT-AATCTGA
* *
614036 CTCCACTGCGACTTCAGGGAGATAAGACTAGTAACTTTAATTTGA
1 -TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* ** * * * ** *
614081 TCCAGTGCAACTTCATAGAGATAGGATTATTAGTTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
* *
614125 TCCACTACAACTTTAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
614151 TTTGCCATAA
Statistics
Matches: 498, Mismatches: 128, Indels: 54
0.73 0.19 0.08
Matches are distributed among these distances:
43 2 0.00
44 288 0.58
45 167 0.34
46 5 0.01
47 2 0.00
48 3 0.01
49 2 0.00
50 29 0.06
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTTAATCTGA
Found at i:619680 original size:13 final size:13
Alignment explanation
Indices: 619662--619686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
619652 TAATTTAATA
619662 TTATTTTGTGTGT
1 TTATTTTGTGTGT
619675 TTATTTTGTGTG
1 TTATTTTGTGTG
619687 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:620771 original size:12 final size:12
Alignment explanation
Indices: 620754--620786 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
620744 TGAAGTTCGA
620754 ATATGTATATAT
1 ATATGTATATAT
*
620766 ATATGTATATCT
1 ATATGTATATAT
620778 AT-TGTATAT
1 ATATGTATAT
620787 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:620871 original size:114 final size:115
Alignment explanation
Indices: 620606--620854 Score: 437
Period size: 114 Copynumber: 2.1 Consensus size: 115
620596 ATTTTCCATC
*
620606 GTTATATATATACACATAAATGAAGTTCGAATATGTATATATATATGTGTGTGTATCTATTGTAT
1 GTTATATATATACACATAAATGAAGTTCGAATATGTATATATATA---GTGTATATCTATTGTAT
*
620671 ATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGGAT
63 ATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
620724 GTTATATATATACACATAAATGAAGTTCGAATATGTATATATATA-TGTATATCTATTGTATATT
1 GTTATATATATACACATAAATGAAGTTCGAATATGTATATATATAGTGTATATCTATTGTATATT
620788 TGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
66 TGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
*
620838 GTTATATATATGCACAT
1 GTTATATATATACACAT
620855 GTGTGAGGTT
Statistics
Matches: 128, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
114 83 0.65
118 45 0.35
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (115 bp):
GTTATATATATACACATAAATGAAGTTCGAATATGTATATATATAGTGTATATCTATTGTATATT
TGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
Found at i:620889 original size:114 final size:114
Alignment explanation
Indices: 620606--620889 Score: 399
Period size: 114 Copynumber: 2.5 Consensus size: 114
620596 ATTTTCCATC
* *
620606 GTTATATATATACACATAAATGAAGTTCGAATATGTATATATATATGTGTGTGTATCTATTGTAT
1 GTTATATATATACACATAAATGAAGTTCG-A-A--TATACATATATGTGTGTATATCTATTGTAT
*
620671 ATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGGAT
62 ATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
** * *
620724 GTTATATATATACACATAAATGAAGTTCGAATATGTATATATATATGTATATCTATTGTATATTT
1 GTTATATATATACACATAAATGAAGTTCGAATATACATATATGTGTGTATATCTATTGTATATTT
620789 GATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
66 GATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
* *** * *
620838 GTTATATATATGCACATGTGTGAGGTTCGAATATACAGT-TATGTGTATATAT
1 GTTATATATATACACATAAATGAAGTTCGAATATACA-TATATGTGTGTATAT
620890 ATAAGTTTTT
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
114 118 0.79
115 1 0.01
116 1 0.01
117 1 0.01
118 29 0.19
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (114 bp):
GTTATATATATACACATAAATGAAGTTCGAATATACATATATGTGTGTATATCTATTGTATATTT
GATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAAT
Found at i:627840 original size:42 final size:41
Alignment explanation
Indices: 627751--627925 Score: 181
Period size: 44 Copynumber: 4.1 Consensus size: 41
627741 ACTATGTGAA
*
627751 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTC
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
* * * *
627792 CACCGTATCCTTGATTGTGAAAGG-GGTTTCTATGTGCTGATTC
1 C-CCGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTC
627835 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
* * ** **
627876 CACCGAGATCCTTTGAACATGGGGTGGTTGCTAAGTGCTGATTC
1 C-CCG-TAT-CATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
627920 CACCGT
1 C-CCGT
627926 GTAACGTTAA
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
40 4 0.04
41 19 0.17
42 31 0.28
43 19 0.17
44 38 0.34
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (41 bp):
CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
Found at i:629824 original size:43 final size:41
Alignment explanation
Indices: 629747--630037 Score: 347
Period size: 42 Copynumber: 7.0 Consensus size: 41
629737 TGTTATTACT
629747 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC-C
* * *
629789 TGTATCCTTGATTGTGAAAGG-GGTTGCTATA-TGCTGATTCCC
1 CGTATCATTGATTAT--AAGGTGGTTGCTA-AGTGCTGATTCCC
* *
629831 CGTATCATTGATCATAAGGTGGTTGGTAAGTGCTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC-C
* * * *
629873 CGTACCCTTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCCC
1 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCC
629915 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC-C
* * * *
629957 CGTACCCTTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCCC
1 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCC
629999 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
630038 GCTAAGTGCT
Statistics
Matches: 210, Mismatches: 26, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
40 13 0.06
41 54 0.26
42 75 0.36
43 55 0.26
44 13 0.06
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (41 bp):
CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCC
Found at i:629888 original size:84 final size:84
Alignment explanation
Indices: 629747--630037 Score: 537
Period size: 84 Copynumber: 3.5 Consensus size: 84
629737 TGTTATTACT
* *
629747 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTACCCTTGATTGTGAAAGGGG
*
629812 TTGCTATATGCTGATTCCC
66 TTGCTATGTGCTGATTCCC
* *
629831 CGTATCATTGATCATAAGGTGGTTGGTAAGTGCTGATTCCACCGTACCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTACCCTTGATTGTGAAAGGGG
629896 TTGCTATGTGCTGATTCCC
66 TTGCTATGTGCTGATTCCC
629915 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTACCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTACCCTTGATTGTGAAAGGGG
629980 TTGCTATGTGCTGATTCCC
66 TTGCTATGTGCTGATTCCC
629999 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
630038 GCTAAGTGCT
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 200 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (84 bp):
CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTACCCTTGATTGTGAAAGGGG
TTGCTATGTGCTGATTCCC
Found at i:630043 original size:15 final size:15
Alignment explanation
Indices: 630023--630052 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
630013 TAAGGTGGTT
630023 GCTAAGTGCTGATTC
1 GCTAAGTGCTGATTC
630038 GCTAAGTGCTGATTC
1 GCTAAGTGCTGATTC
630053 CACCGAGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
GCTAAGTGCTGATTC
Found at i:634550 original size:19 final size:21
Alignment explanation
Indices: 634513--634558 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
634503 TTTAATATAT
* *
634513 TTAAAAAAAGTAATTTAAAA-
1 TTAAAAAAACTAATGTAAAAC
634533 TTAAAAAAACT-ATGTAAAAC
1 TTAAAAAAACTAATGTAAAAC
634553 TTAAAA
1 TTAAAA
634559 TTTTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
TTAAAAAAACTAATGTAAAAC
Found at i:648763 original size:27 final size:27
Alignment explanation
Indices: 648733--648800 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
648723 CCTGATCTAT
*
648733 AGCTTGTGTGAGCAGCCCCAATATCAC
1 AGCTTGTGTGAGCAGACCCAATATCAC
* * * * *
648760 AGCTCGTGTGAGTAGACCGAATATTAT
1 AGCTTGTGTGAGCAGACCCAATATCAC
*
648787 AGCTTGCGTGAGCA
1 AGCTTGTGTGAGCA
648801 AAAATCAGTC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (27 bp):
AGCTTGTGTGAGCAGACCCAATATCAC
Found at i:651225 original size:23 final size:23
Alignment explanation
Indices: 651198--651275 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
651188 AGCTAAGCCG
651198 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
651221 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
651244 TTCAAGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
651267 TTCAGGCAC
1 ATCAGGCAC
651276 CTCGTGTGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:651256 original size:46 final size:46
Alignment explanation
Indices: 651203--651312 Score: 148
Period size: 46 Copynumber: 2.4 Consensus size: 46
651193 AGCCGATCAG
* *
651203 GCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCATATTTCAA
1 GCACTTTATGTGTCGTATATCAGGCACCTCATGTGTCATATTTCAA
* *
651249 GCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCATATTTCAA
1 GCACTTTATGTGTCGTATATCAGGCACCTCATGTGTCATATTTCAA
* * **
651295 ACACCTCGTGTGTCGTAT
1 GCACTTTATGTGTCGTAT
651313 CAGACACCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (46 bp):
GCACTTTATGTGTCGTATATCAGGCACCTCATGTGTCATATTTCAA
Found at i:651283 original size:23 final size:23
Alignment explanation
Indices: 651211--651331 Score: 102
Period size: 23 Copynumber: 5.3 Consensus size: 23
651201 AGGCACTTTA
* * **
651211 TGTGTCGTATATCAGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
* * * **
651234 TGTGTCATATTTCAAGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
651257 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
651280 TGTGTCATATTTCAAACACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
651303 TGTGTCGTA--TCAGACACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
651324 TATGTCGT
1 TGTGTCGT
651332 TTCAAGTACT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 18 0.21
23 66 0.79
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:656219 original size:5 final size:5
Alignment explanation
Indices: 656209--656237 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
656199 TAATACATGC
656209 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
656238 ATAATCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:670292 original size:1 final size:1
Alignment explanation
Indices: 670286--670313 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
670276 GCGATTCGGG
670286 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
670314 AAAAAAGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:670378 original size:1 final size:1
Alignment explanation
Indices: 670372--670396 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
670362 CTATATGGGG
670372 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
670397 GTAACAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:676058 original size:3 final size:3
Alignment explanation
Indices: 676035--676090 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
676025 GCTATGATTT
* ** **
676035 TTA TTA ATA TTA TTA CCA TTA TTA TGG TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
676083 TTA TTA TT
1 TTA TTA TT
676091 TACTACCACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:678047 original size:2 final size:2
Alignment explanation
Indices: 678040--678073 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
678030 AATGACAACC
678040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
678074 TAAAACAAAG
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:690207 original size:28 final size:27
Alignment explanation
Indices: 690157--690210 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
690147 TGGAGGAGGG
* **
690157 ATGAAAAAAAAAGAGAAGGAGAAGAAA
1 ATGAAAAAAAAAGAAAAAAAGAAGAAA
690184 ATGAAAAAAAAGAGAAAAAAAGAAGAA
1 ATGAAAAAAAA-AGAAAAAAAGAAGAA
690211 GGAAAGTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (27 bp):
ATGAAAAAAAAAGAAAAAAAGAAGAAA
Found at i:690215 original size:26 final size:26
Alignment explanation
Indices: 690161--690215 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
690151 GGAGGGATGA
* * *
690161 AAAAAAAAGAGAAGGAGAAGAAAATG
1 AAAAAAAAGAGAAGAAAAAGAAAAGG
690187 AAAAAAAAGAGAA-AAAAAGAAGAAGG
1 AAAAAAAAGAGAAGAAAAAGAA-AAGG
690213 AAA
1 AAA
690216 GTTCAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (26 bp):
AAAAAAAAGAGAAGAAAAAGAAAAGG
Found at i:695348 original size:28 final size:28
Alignment explanation
Indices: 695316--695371 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
695306 TTCAACAAAT
*
695316 TATTTTCTGATCTAGATTTCTCTTCTCC
1 TATTTTCTAATCTAGATTTCTCTTCTCC
695344 TATTTTCTAATCTAGATTTCTCTTCTCC
1 TATTTTCTAATCTAGATTTCTCTTCTCC
695372 CTTCACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.05, T:0.54
Consensus pattern (28 bp):
TATTTTCTAATCTAGATTTCTCTTCTCC
Found at i:696105 original size:20 final size:20
Alignment explanation
Indices: 696047--696096 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
696037 AAGTGAATGT
696047 ATGATTTTTTTACAAGTAAA
1 ATGATTTTTTTACAAGTAAA
696067 ATGATTTTTTTACAAGTAAA
1 ATGATTTTTTTACAAGTAAA
696087 ATGATTTTTT
1 ATGATTTTTT
696097 ACTACGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (20 bp):
ATGATTTTTTTACAAGTAAA
Found at i:699017 original size:16 final size:15
Alignment explanation
Indices: 698981--699029 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 15
698971 TTATACTTTT
*
698981 TTATAATAT-TTATA
1 TTATGATATATTATA
698995 TTATGATATATTATAA
1 TTATGATATATTAT-A
*
699011 TTGTGATATA-TA-A
1 TTATGATATATTATA
699024 TTATGA
1 TTATGA
699030 GATGATCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 6 0.20
14 8 0.27
15 6 0.20
16 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (15 bp):
TTATGATATATTATA
Found at i:707474 original size:33 final size:32
Alignment explanation
Indices: 707403--707480 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
707393 CGTCCAATGG
* * *
707403 GATAGTAAACAC-ATAATAGATAGTCCATTAG
1 GATAGTAAACACAAAAATAGAAAGTCCATTAA
* * *
707434 GACAGTAAACACAAAACATATAAAGTCCGTTAA
1 GATAGTAAACACAAAA-ATAGAAAGTCCATTAA
707467 GATAGTAAACACAA
1 GATAGTAAACACAA
707481 GGTAAGTCCA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 11 0.29
32 2 0.05
33 25 0.66
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (32 bp):
GATAGTAAACACAAAAATAGAAAGTCCATTAA
Found at i:716919 original size:26 final size:26
Alignment explanation
Indices: 716896--717003 Score: 135
Period size: 26 Copynumber: 4.2 Consensus size: 26
716886 CAAGAGTCTG
* * *
716896 CAAGGACTATTCCCTGTATCAGTCCG
1 CAAGGACTATTCCATGTATGAGTCCA
* *
716922 TAAGGACTATTCCATGTATGATTCCA
1 CAAGGACTATTCCATGTATGAGTCCA
* *
716948 CAAGGATTGTTCCATGTATGAGTCCA
1 CAAGGACTATTCCATGTATGAGTCCA
* *
716974 CAAGGACTATTCCAAGTATGAGTTCA
1 CAAGGACTATTCCATGTATGAGTCCA
717000 CAAG
1 CAAG
717004 AATCATTATT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (26 bp):
CAAGGACTATTCCATGTATGAGTCCA
Found at i:720638 original size:331 final size:332
Alignment explanation
Indices: 720036--720698 Score: 1319
Period size: 331 Copynumber: 2.0 Consensus size: 332
720026 TGTTTTGTAA
720036 AAGTGGAAGTGAAAATGAAAATGATGAAAACAAAGATTTTTAACTTGAAATGAATTAACCTTGGT
1 AAGTGGAAGTGAAAATGAAAATGATGAAAACAAAGATTTTTAACTTGAAATGAATTAACCTTGGT
720101 TCAAATCATATAAATGCAAAAATATTTTTAAAATATTAAATCCGACCCCCTAGTTCAAATTCATA
66 TCAAATCATATAAATGCAAAAATATTTTTAAAATATTAAATCCGACCCCCTAGTTCAAATTCATA
720166 TAAATGTAATAAACTTTTTTTATTCCTCGTGTTTCTATTATAGACAAATAGTTACCAAACATGTT
131 TAAATGTAATAAACTTTTTTTATTCCTCGTGTTTCTATTATAGACAAATAGTTACCAAACATGTT
720231 TTTATTTTTTTTATTGAAAATAAGTTTTTATTTCTATTCATCAAACTTATTTTTCAATTTAAAAG
196 TTTATTTTTTTTATTGAAAATAAGTTTTTATTTCTATTCATCAAACTTATTTTTCAATTTAAAAG
720296 AAAAAAGAAAATAACTGATTTTTGAAAATGGAAAATGAGAAATGAAATTAAAAAATA-TTTTAGA
261 AAAAAAGAAAATAACTGATTTTTGAAAATGGAAAATGAGAAATGAAATTAAAAAATATTTTTAGA
720360 AAGGTTT
326 AAGGTTT
720367 AAGTGGAAGTGAAAATGAAAATGATGAAAACAAAGATTTTTAACTTGAAATGAATTAACCTTGGT
1 AAGTGGAAGTGAAAATGAAAATGATGAAAACAAAGATTTTTAACTTGAAATGAATTAACCTTGGT
720432 TCAAATCATATAAATGCAAAAATATTTTTAAAATATTAAATCCGACCCCCTAGTTCAAATTCATA
66 TCAAATCATATAAATGCAAAAATATTTTTAAAATATTAAATCCGACCCCCTAGTTCAAATTCATA
720497 TAAATGTAATAAACTTTTTTTATTCCTCGTGTTTCTATTATAGACAAATAGTTACCAAACATGTT
131 TAAATGTAATAAACTTTTTTTATTCCTCGTGTTTCTATTATAGACAAATAGTTACCAAACATGTT
720562 TTTATTTTTTTTATTGAAAATAAGTTTTTATTTCTATTCATCAAACTTATTTTTCAATTTAAAAG
196 TTTATTTTTTTTATTGAAAATAAGTTTTTATTTCTATTCATCAAACTTATTTTTCAATTTAAAAG
720627 AAAAAAGAAAATAACTGATTTTTGAAAATGGAAAATGAGAAATGAAATTAAAAAATATTTTTAGA
261 AAAAAAGAAAATAACTGATTTTTGAAAATGGAAAATGAGAAATGAAATTAAAAAATATTTTTAGA
720692 AAGGTTT
326 AAGGTTT
720699 GAATTTAAAT
Statistics
Matches: 331, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
331 317 0.96
332 14 0.04
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (332 bp):
AAGTGGAAGTGAAAATGAAAATGATGAAAACAAAGATTTTTAACTTGAAATGAATTAACCTTGGT
TCAAATCATATAAATGCAAAAATATTTTTAAAATATTAAATCCGACCCCCTAGTTCAAATTCATA
TAAATGTAATAAACTTTTTTTATTCCTCGTGTTTCTATTATAGACAAATAGTTACCAAACATGTT
TTTATTTTTTTTATTGAAAATAAGTTTTTATTTCTATTCATCAAACTTATTTTTCAATTTAAAAG
AAAAAAGAAAATAACTGATTTTTGAAAATGGAAAATGAGAAATGAAATTAAAAAATATTTTTAGA
AAGGTTT
Found at i:720725 original size:12 final size:12
Alignment explanation
Indices: 720708--720749 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
720698 TGAATTTAAA
720708 TTAAATTATTTT
1 TTAAATTATTTT
720720 TTAAATTA---T
1 TTAAATTATTTT
720729 TTAAATTATTTT
1 TTAAATTATTTT
720741 TTAAATTAT
1 TTAAATTAT
720750 CTTATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.33
12 18 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTATTTT
Found at i:720732 original size:21 final size:21
Alignment explanation
Indices: 720708--720749 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
720698 TGAATTTAAA
720708 TTAAATTATTTTTTAAATTAT
1 TTAAATTATTTTTTAAATTAT
720729 TTAAATTATTTTTTAAATTAT
1 TTAAATTATTTTTTAAATTAT
720750 CTTATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAATTATTTTTTAAATTAT
Found at i:727512 original size:11 final size:11
Alignment explanation
Indices: 727496--727521 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
727486 CTGTTTTTCC
727496 TTCTCATCTTG
1 TTCTCATCTTG
727507 TTCTCATCTTG
1 TTCTCATCTTG
727518 TTCT
1 TTCT
727522 TAGCTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.27, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCATCTTG
Found at i:730899 original size:29 final size:29
Alignment explanation
Indices: 730865--730929 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
730855 ATCAAAATAG
730865 CATATTCTATCAATGGAATCAAGGAATTC
1 CATATTCTATCAATGGAATCAAGGAATTC
730894 CATATTCTATCAATGGAATCAAGGAATTC
1 CATATTCTATCAATGGAATCAAGGAATTC
730923 CATATTC
1 CATATTC
730930 ATTTCAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (29 bp):
CATATTCTATCAATGGAATCAAGGAATTC
Found at i:737471 original size:17 final size:18
Alignment explanation
Indices: 737443--737484 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
737433 TCAAAACTTT
737443 ATTTTGAATTTT-TTATAC
1 ATTTT-AATTTTATTATAC
737461 ATTTTAATTTTATTATAC
1 ATTTTAATTTTATTATAC
*
737479 ACTTTA
1 ATTTTA
737485 CATATATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTAATTTTATTATAC
Found at i:747175 original size:28 final size:27
Alignment explanation
Indices: 747118--747176 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
747108 AAAAGCCCTT
*
747118 TTTTTTAAATTTTCCGAAATAGGCCGA
1 TTTTTTAAATTTACCGAAATAGGCCGA
* *
747145 TTTTTTAATTATTTACCGGAATGGGCC-A
1 TTTTTTAA--ATTTACCGAAATAGGCCGA
747173 TTTT
1 TTTT
747177 CCCCGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 5 0.19
29 14 0.52
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (27 bp):
TTTTTTAAATTTACCGAAATAGGCCGA
Found at i:747390 original size:22 final size:22
Alignment explanation
Indices: 747365--747411 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
747355 ACAAATCCCA
747365 TCTCAAATTCCTT-CAAAAGTTC
1 TCTCAAATTCCTTCCAAAA-TTC
*
747387 TCTCAATTTCCTTCCAAAATTC
1 TCTCAAATTCCTTCCAAAATTC
747409 TCT
1 TCT
747412 TAAACTCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (22 bp):
TCTCAAATTCCTTCCAAAATTC
Found at i:747446 original size:21 final size:21
Alignment explanation
Indices: 747418--747466 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
747408 CTCTTAAACT
*
747418 CTCAAA-TTCCTTCCAAAATC
1 CTCAAATTTCCTTCAAAAATC
747438 CTCACAATTTCCTTCAAAAAATC
1 CTCA-AATTTCCTTC-AAAAATC
747461 TCTCAA
1 -CTCAA
747467 CTCCATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 2 0.08
22 7 0.29
23 7 0.29
24 4 0.17
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.31
Consensus pattern (21 bp):
CTCAAATTTCCTTCAAAAATC
Found at i:747446 original size:52 final size:52
Alignment explanation
Indices: 747365--747463 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
747355 ACAAATCCCA
* * * *
747365 TCTCAAATTCCTTCAAAAGTTCTCTCAATTTCCTTCCAAAATTCTCTTAAAC
1 TCTCAAATTCCTTCAAAAGTCCTCACAATTTCCTTCAAAAAATCTCTTAAAC
747417 TCTCAAATTCCTTCCAAAA-TCCTCACAATTTCCTTCAAAAAATCTCT
1 TCTCAAATTCCTT-CAAAAGTCCTCACAATTTCCTTCAAAAAATCTCT
747464 CAACTCCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 37 0.88
53 5 0.12
ACGTcount: A:0.32, C:0.30, G:0.01, T:0.36
Consensus pattern (52 bp):
TCTCAAATTCCTTCAAAAGTCCTCACAATTTCCTTCAAAAAATCTCTTAAAC
Found at i:747538 original size:29 final size:28
Alignment explanation
Indices: 747500--747557 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 28
747490 ATTCAATTTC
747500 ATTTTTTTAAGAA-AATTTTAAATATTTTT
1 ATTTTTTTAA-AATAATTTTAAA-ATTTTT
747529 ATTTTTTTAAAATAATTTTAAAATTTTT
1 ATTTTTTTAAAATAATTTTAAAATTTTT
747557 A
1 A
747558 ATATTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTTTTAAAATAATTTTAAAATTTTT
Found at i:747564 original size:29 final size:29
Alignment explanation
Indices: 747503--747564 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
747493 CAATTTCATT
*
747503 TTTTTAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAGAAAATTTTAAATATTTTTATA
747532 TTTTTAA-AATAATTTTAAA-ATTTTTAATA
1 TTTTTAAGAA-AATTTTAAATATTTTT-ATA
747561 TTTT
1 TTTT
747565 CAACAATGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAATATTTTTATA
Found at i:752107 original size:18 final size:17
Alignment explanation
Indices: 752084--752126 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
752074 AGTTAATTAC
752084 TTTTAAATAATATTTTAA
1 TTTTAAATAATATTTT-A
*
752102 TTTTAATTTAATATTTTA
1 TTTTAA-ATAATATTTTA
752120 TTTTAAA
1 TTTTAAA
752127 AGTTGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAAATAATATTTTA
Found at i:752658 original size:16 final size:16
Alignment explanation
Indices: 752632--752672 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
752622 AAATAAATAT
* *
752632 TATTTAATTATCTTTA
1 TATTTATTTATCTTAA
*
752648 TCTTTATTTATCTTAA
1 TATTTATTTATCTTAA
752664 TATTTATTT
1 TATTTATTT
752673 CATAACCATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTATTTATCTTAA
Found at i:754400 original size:3 final size:3
Alignment explanation
Indices: 754385--754454 Score: 62
Period size: 3 Copynumber: 24.3 Consensus size: 3
754375 AAGAGCAACT
*
754385 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA CA-A A-A ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
754428 ATA AT- ATA GA-A AT- ATA ATA ATGA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA AT-A ATA A
754455 ATGAGTATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
2 10 0.18
3 42 0.74
4 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:754411 original size:21 final size:19
Alignment explanation
Indices: 754385--754453 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
754375 AAGAGCAACT
754385 ATAATAATGATAATAATAATA
1 ATAATAAT-ATAA-AATAATA
*
754406 ATAATAATACAAAAATAATA
1 ATAATAATA-TAAAATAATA
754426 AT-ATAATATAGAAAT-ATA
1 ATAATAATATA-AAATAATA
754444 ATAATGAATA
1 ATAAT-AATA
754454 AATGAGTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
18 6 0.14
19 12 0.29
20 14 0.33
21 10 0.24
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAATAATATAAAATAATA
Found at i:757085 original size:5 final size:5
Alignment explanation
Indices: 757075--757102 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
757065 AAAAATAAAC
757075 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
757103 TTTTGTATCA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:764841 original size:19 final size:20
Alignment explanation
Indices: 764791--764844 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
764781 TCTAACGCTA
*
764791 AAAACAAATTTTAAAAAATT
1 AAAACAAATTTTAAAAAAGT
* * *
764811 AAAATAAA-TTTAATAAGGT
1 AAAACAAATTTTAAAAAAGT
764830 AAAA-AAATTTTAAAA
1 AAAACAAATTTTAAAA
764845 GATAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 3 0.11
19 18 0.64
20 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAACAAATTTTAAAAAAGT
Found at i:766281 original size:17 final size:16
Alignment explanation
Indices: 766259--766302 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
766249 CTCAATATTG
766259 TATAAAAAATAAAAATA
1 TATAAAAAATAAAAA-A
*
766276 TATAAAAAATTATAAAA
1 TATAAAAAA-TAAAAAA
766293 -ATAAAAAATA
1 TATAAAAAATA
766303 CCTAATTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 8 0.32
17 10 0.40
18 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TATAAAAAATAAAAAA
Found at i:767198 original size:261 final size:263
Alignment explanation
Indices: 766729--767247 Score: 668
Period size: 261 Copynumber: 2.0 Consensus size: 263
766719 GAAGGATAAA
* * *
766729 TTATTTGAGATTTGATCTTTTGTGCATCATCGATGTGATGAGTTTTTTAGGGTCTCGATAGTGAT
1 TTATATGAGATTTGATCTTTTGTGCATCATCGATGTGATGAGTCTTTTAGGGTCTCGACAGTGAT
* *
766794 TTCTTGGTTAATTTGAGATCATCGTCAAGTTGGTCTGATAATGATAGGGTTATGATGCAATTTCA
66 TTCTTGGTTAATTGGAGATCATCATCAAGTTGGTCTGATAATGATAGGGTTATGATGCAATTTCA
*
766859 ATAGTTTGATCAAGGCGAGGCATCTTTAATTTAATTCTGAATTCCCCGAATGTTATGACTATAGT
131 ATAGTTTGATCAAGGCGAGACATCTTTAATTTAATTCTGAATTCCCCGAATGTTATGACTATAGT
* * * * *
766924 TAGTTTGTCTTTCT-C-CTTTTGGGATTATTTAGTCGACATGGCATTTGTTTATTAATTTGCAAT
196 CAGTTTGTCTTTCTCCTCTTTTGGGATCATTCAGTCGACATGACATTTGTGTATTAATTTGCAAT
766987 GTC
261 GTC
* * * *
766990 TTATATGAGATTTGA-CATTTTGTGCATCA-CTGATGTGGTGGGTCTTTTAGGGTCTTGGCAGTG
1 TTATATGAGATTTGATC-TTTTGTGCATCATC-GATGTGATGAGTCTTTTAGGGTCTCGACAGTG
* * * * * *
767053 GTTTTTTGGTTAATTGGAGTTCATCATTAGGTTGGTCTGATAATGATAGGGTTTTGATGCAATTT
64 ATTTCTTGGTTAATTGGAGATCATCATCAAGTTGGTCTGATAATGATAGGGTTATGATGCAATTT
* * * * * ** *** * *
767118 CAATGGTTTGATCAAGGTGATACATTTTTAGTTTGTTTCTGAATTTTTCGAGTGTTATGGCTATA
129 CAATAGTTTGATCAAGGCGAGACATCTTTAATTTAATTCTGAATTCCCCGAATGTTATGACTATA
* * *
767183 GTCGGTTTGTCTTTCTCCTCTTTTGGGATCATTCAGTGGACATGATATTTGTGTATTAATTTGCA
194 GTCAGTTTGTCTTTCTCCTCTTTTGGGATCATTCAGTCGACATGACATTTGTGTATTAATTTGCA
767248 TTGTTTTGTT
Statistics
Matches: 218, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
260 2 0.01
261 175 0.80
262 1 0.00
263 40 0.18
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.44
Consensus pattern (263 bp):
TTATATGAGATTTGATCTTTTGTGCATCATCGATGTGATGAGTCTTTTAGGGTCTCGACAGTGAT
TTCTTGGTTAATTGGAGATCATCATCAAGTTGGTCTGATAATGATAGGGTTATGATGCAATTTCA
ATAGTTTGATCAAGGCGAGACATCTTTAATTTAATTCTGAATTCCCCGAATGTTATGACTATAGT
CAGTTTGTCTTTCTCCTCTTTTGGGATCATTCAGTCGACATGACATTTGTGTATTAATTTGCAAT
GTC
Found at i:768273 original size:19 final size:19
Alignment explanation
Indices: 768249--768289 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
768239 CTCAAGTCTT
768249 AAAAATCAATTTTCGATTA
1 AAAAATCAATTTTCGATTA
*
768268 AAAAATCAATTTTGGATTA
1 AAAAATCAATTTTCGATTA
768287 AAA
1 AAA
768290 TCATATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAAATCAATTTTCGATTA
Found at i:771690 original size:3 final size:3
Alignment explanation
Indices: 771682--771718 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
771672 TTACTTTCTA
771682 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
771719 TTAGAGACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:778137 original size:37 final size:37
Alignment explanation
Indices: 778087--778163 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
778077 GTCCGAAAGT
778087 TAAAACGATGAAAAAGGTTTCACATAGCAAGGAGACA
1 TAAAACGATGAAAAAGGTTTCACATAGCAAGGAGACA
*
778124 TAAAATGATGAAAAAGGTTTCACATAGCAAGGAGACA
1 TAAAACGATGAAAAAGGTTTCACATAGCAAGGAGACA
778161 TAA
1 TAA
778164 CCAGTGAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.18
Consensus pattern (37 bp):
TAAAACGATGAAAAAGGTTTCACATAGCAAGGAGACA
Found at i:788667 original size:46 final size:46
Alignment explanation
Indices: 788589--788727 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
788579 TCATTGCTAT
* * *
788589 AACTCAGTATGGCTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
** *
788635 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
788681 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
788727 A
1 A
788728 CTTTGCCATG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:791615 original size:115 final size:115
Alignment explanation
Indices: 791413--792134 Score: 1435
Period size: 115 Copynumber: 6.3 Consensus size: 115
791403 ATGTAACTAA
791413 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
1 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
791478 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
66 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
791528 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
1 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
791593 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
66 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
791643 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
1 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
791708 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
66 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
791758 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
1 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
791823 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
66 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
791873 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
1 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
791938 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
66 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
791988 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
1 AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
792053 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
66 TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
*
792103 AATAATAATTATATTAAGAATATTATTAAATT
1 AATAATAATTATATTAAGAATGTTATTAAATT
792135 TTAATAAGAT
Statistics
Matches: 606, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 606 1.00
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (115 bp):
AATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTAATATTTA
TGTTAAAATATGATTAAATTATTTGTATGAATTTTATTAATTCATATTTT
Found at i:792053 original size:20 final size:20
Alignment explanation
Indices: 791435--792051 Score: 82
Period size: 25 Copynumber: 27.1 Consensus size: 20
791425 ATTAAGAATG
*
791435 TTATTAAATTATATATTATT
1 TTATTAAATTATATAATATT
*
791455 TTATTAAATTGTATTAATATT
1 TTATTAAATTATA-TAATATT
* *
791476 TATGTTAAAATATGATTAAATTATT
1 T-TATTAAATTAT-A-T-AA-TATT
* * *
791501 TGTATGAATTTTATTAATTCATATT
1 T-TATTAA-ATTA-T-A-TAATATT
* * *
791526 TTAATAATAATTATATTAAGAATG
1 TT-ATTA-AATTATA-TAA-TATT
*
791550 TTATTAAATTATATATTATT
1 TTATTAAATTATATAATATT
*
791570 TTATTAAATTGTATTAATATT
1 TTATTAAATTATA-TAATATT
* *
791591 TATGTTAAAATATGATTAAATTATT
1 T-TATTAAATTAT-A-T-AA-TATT
* * *
791616 TGTATGAATTTTATTAATTCATATT
1 T-TATTAA-ATTA-T-A-TAATATT
* * *
791641 TTAATAATAATTATATTAAGAATG
1 TT-ATTA-AATTATA-TAA-TATT
*
791665 TTATTAAATTATATATTATT
1 TTATTAAATTATATAATATT
*
791685 TTATTAAATTGTATTAATATT
1 TTATTAAATTATA-TAATATT
* *
791706 TATGTTAAAATATGATTAAATTATT
1 T-TATTAAATTAT-A-T-AA-TATT
* * *
791731 TGTATGAATTTTATTAATTCATATT
1 T-TATTAA-ATTA-T-A-TAATATT
* * *
791756 TTAATAATAATTATATTAAGAATG
1 TT-ATTA-AATTATA-TAA-TATT
*
791780 TTATTAAATTATATATTATT
1 TTATTAAATTATATAATATT
*
791800 TTATTAAATTGTATTAATATT
1 TTATTAAATTATA-TAATATT
* *
791821 TATGTTAAAATATGATTAAATTATT
1 T-TATTAAATTAT-A-T-AA-TATT
* * *
791846 TGTATGAATTTTATTAATTCATATT
1 T-TATTAA-ATTA-T-A-TAATATT
* * *
791871 TTAATAATAATTATATTAAGAATG
1 TT-ATTA-AATTATA-TAA-TATT
*
791895 TTATTAAATTATATATTATT
1 TTATTAAATTATATAATATT
*
791915 TTATTAAATTGTATTAATATT
1 TTATTAAATTATA-TAATATT
* *
791936 TATGTTAAAATATGATTAAATTATT
1 T-TATTAAATTAT-A-T-AA-TATT
* * *
791961 TGTATGAATTTTATTAATTCATATT
1 T-TATTAA-ATTA-T-A-TAATATT
* * *
791986 TTAATAATAATTATATTAAGAATG
1 TT-ATTA-AATTATA-TAA-TATT
*
792010 TTATTAAATTATATATTATT
1 TTATTAAATTATATAATATT
*
792030 TTATTAAATTGTATTAATATT
1 TTATTAAATTATA-TAATATT
792051 T
1 T
792052 ATGTTAAAAT
Statistics
Matches: 439, Mismatches: 107, Indels: 101
0.68 0.17 0.16
Matches are distributed among these distances:
20 82 0.19
21 52 0.12
22 75 0.17
23 50 0.11
24 40 0.09
25 100 0.23
26 20 0.05
27 20 0.05
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.53
Consensus pattern (20 bp):
TTATTAAATTATATAATATT
Found at i:792134 original size:22 final size:22
Alignment explanation
Indices: 792109--792164 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
792099 TTTTAATAAT
*
792109 AATTATATTAAGAATATTATTA
1 AATTATAATAAGAATATTATTA
* *
792131 AATTTTAATAAGATTATTA-T-
1 AATTATAATAAGAATATTATTA
792151 AATT-TAATAA-AATA
1 AATTATAATAAGAATA
792165 ATATATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.10
19 6 0.20
20 4 0.13
21 1 0.03
22 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
AATTATAATAAGAATATTATTA
Found at i:792146 original size:19 final size:19
Alignment explanation
Indices: 792124--792180 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
792114 TATTAAGAAT
*
792124 ATTATTAAATTTTAATAAG
1 ATTATTAAATTTTAATAAA
792143 ATTATTATAA-TTTAATAAA
1 ATTATTA-AATTTTAATAAA
* *
792162 ATAATATATATTTTAATAA
1 ATTAT-TAAATTTTAATAA
792181 CAATAACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTATTAAATTTTAATAAA
Found at i:792171 original size:20 final size:19
Alignment explanation
Indices: 792134--792186 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
792124 ATTATTAAAT
* *
792134 TTTAATAAGATTATTATAA
1 TTTAATAAAATAATTATAA
*
792153 TTTAATAAAATAATATATAT
1 TTTAATAAAATAAT-TATAA
792173 TTTAATAACAATAA
1 TTTAATAA-AATAA
792187 CAATAACCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 12 0.41
21 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTAATAAAATAATTATAA
Found at i:793894 original size:5 final size:5
Alignment explanation
Indices: 793850--793886 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
793840 ATAGGTAACT
*
793850 TAAAA T-AAT TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
793887 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:795276 original size:12 final size:12
Alignment explanation
Indices: 795259--795289 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
795249 ACTGTCACAC
795259 GCCGTGTGTGAG
1 GCCGTGTGTGAG
*
795271 GCCGTGTGTTAG
1 GCCGTGTGTGAG
795283 GCCGTGT
1 GCCGTGT
795290 AACTCATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.45, T:0.29
Consensus pattern (12 bp):
GCCGTGTGTGAG
Found at i:802110 original size:20 final size:20
Alignment explanation
Indices: 802078--802181 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 20
802068 TTCAACTATG
*
802078 ATTAAACTTAATAACTTTAAT
1 ATTAAA-TTAATAAATTTAAT
802099 ATTAAATTAATATAATGATTATCAAT
1 ATTAAATT-A-ATAA--ATT-T-AAT
*
802125 ATAAATATTAGATTAAATTTAAT
1 ATTAA-ATTA-A-TAAATTTAAT
* *
802148 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAATAAATTTAAT
802168 ATTAAATTAATAAA
1 ATTAAATTAATAAA
802182 ATATTATTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
19 1 0.02
20 20 0.31
21 8 0.12
22 6 0.09
23 8 0.12
24 3 0.05
25 4 0.06
26 9 0.14
27 6 0.09
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
ATTAAATTAATAAATTTAAT
Found at i:802210 original size:68 final size:69
Alignment explanation
Indices: 802086--802220 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 69
802076 TGATTAAACT
* * * *
802086 TAATAACTTTAATATTAAATTAATATAATGATTATCAATATAAATATTAGATTAAATTTAATATT
1 TAATAACTTTAATATTAAATTAATAAAATGATTATCAAGATAAATATTAAACTAAATTTAATATT
802151 AAGA
66 AAGA
* *
802155 TAATCACTTTAATATTAAATTAATAAAAT-ATTATTAAGATAAATATTAAACTAAATTTAATATT
1 TAATAACTTTAATATTAAATTAATAAAATGATTATCAAGATAAATATTAAACTAAATTTAATATT
802219 AA
66 AA
802221 ACTATTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 33 0.55
69 27 0.45
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (69 bp):
TAATAACTTTAATATTAAATTAATAAAATGATTATCAAGATAAATATTAAACTAAATTTAATATT
AAGA
Found at i:813573 original size:24 final size:25
Alignment explanation
Indices: 813544--813610 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
813534 ATTAAAATTT
813544 AGTATTAAATTTAATCTAATGA-TAA
1 AGTATTAAATTTAATCTAAT-ATTAA
* * *
813569 A-TATTAGATTAAATTTAATATTAA
1 AGTATTAAATTTAATCTAATATTAA
*
813593 AGTGATTAAGTTTAATCT
1 AGT-ATTAAATTTAATCT
813611 TAGTTGAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.03
24 19 0.59
25 2 0.06
26 10 0.31
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (25 bp):
AGTATTAAATTTAATCTAATATTAA
Found at i:814625 original size:35 final size:35
Alignment explanation
Indices: 814579--814649 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
814569 AATTTGCAAC
814579 TACTTAATCATGGAGTCAATCCACAAGAAGTACTA
1 TACTTAATCATGGAGTCAATCCACAAGAAGTACTA
814614 TACTTAATCATGGAGTCAATCCACAAGAAGTACTA
1 TACTTAATCATGGAGTCAATCCACAAGAAGTACTA
814649 T
1 T
814650 GATTGAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (35 bp):
TACTTAATCATGGAGTCAATCCACAAGAAGTACTA
Found at i:815512 original size:15 final size:15
Alignment explanation
Indices: 815488--815519 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
815478 TATAGATGCA
*
815488 AAATATAAAAGACAT
1 AAATACAAAAGACAT
815503 AAATACAAAAGACAT
1 AAATACAAAAGACAT
815518 AA
1 AA
815520 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:816043 original size:15 final size:15
Alignment explanation
Indices: 816019--816050 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
816009 TATAGATGCA
*
816019 AAATATAAAAGACAT
1 AAATACAAAAGACAT
816034 AAATACAAAAGACAT
1 AAATACAAAAGACAT
816049 AA
1 AA
816051 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:816043 original size:531 final size:531
Alignment explanation
Indices: 815040--816101 Score: 2124
Period size: 531 Copynumber: 2.0 Consensus size: 531
815030 CGATCATCTT
815040 TAGAGCATAAGCCTTCAGTTATATCAAAGCACATGAGTTGCATACGCATGGTTAGTGACTAATTC
1 TAGAGCATAAGCCTTCAGTTATATCAAAGCACATGAGTTGCATACGCATGGTTAGTGACTAATTC
815105 AGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCACAAACGTATTCAAAATTA
66 AGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCACAAACGTATTCAAAATTA
815170 ATTCATCTTATGTCCAGTCCAATGTATCATTCTACCAATGAATACATCTATGTTTCTACTCGTGG
131 ATTCATCTTATGTCCAGTCCAATGTATCATTCTACCAATGAATACATCTATGTTTCTACTCGTGG
815235 AGTCAACTAGCTTGATAGCCAAGACTAGCCATCTTCTCAATTGGAATTCTAGACGACATAAGAGT
196 AGTCAACTAGCTTGATAGCCAAGACTAGCCATCTTCTCAATTGGAATTCTAGACGACATAAGAGT
815300 CCTTTTCAATATTTGAATTAAATGCTCACTTCAATTTTTTTACGGGATTACAGATTTATTTAAAT
261 CCTTTTCAATATTTGAATTAAATGCTCACTTCAATTTTTTTACGGGATTACAGATTTATTTAAAT
815365 TATCTATTGAAGCAAGTTGTCTTTTTCGCAATGTAAACGTTCTTACAATGCCAGTTATCTTCAGT
326 TATCTATTGAAGCAAGTTGTCTTTTTCGCAATGTAAACGTTCTTACAATGCCAGTTATCTTCAGT
815430 TTGAACTTAGACAAACAATGAGCTAATATTTTCTTGTCACAATTTCACTATAGATGCAAAATATA
391 TTGAACTTAGACAAACAATGAGCTAATATTTTCTTGTCACAATTTCACTATAGATGCAAAATATA
815495 AAAGACATAAATACAAAAGACATAATAGTGAAATGTTAAATTAACTTTATTTATTTATTCATCGT
456 AAAGACATAAATACAAAAGACATAATAGTGAAATGTTAAATTAACTTTATTTATTTATTCATCGT
815560 TCAAATAAATA
521 TCAAATAAATA
815571 TAGAGCATAAGCCTTCAGTTATATCAAAGCACATGAGTTGCATACGCATGGTTAGTGACTAATTC
1 TAGAGCATAAGCCTTCAGTTATATCAAAGCACATGAGTTGCATACGCATGGTTAGTGACTAATTC
815636 AGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCACAAACGTATTCAAAATTA
66 AGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCACAAACGTATTCAAAATTA
815701 ATTCATCTTATGTCCAGTCCAATGTATCATTCTACCAATGAATACATCTATGTTTCTACTCGTGG
131 ATTCATCTTATGTCCAGTCCAATGTATCATTCTACCAATGAATACATCTATGTTTCTACTCGTGG
815766 AGTCAACTAGCTTGATAGCCAAGACTAGCCATCTTCTCAATTGGAATTCTAGACGACATAAGAGT
196 AGTCAACTAGCTTGATAGCCAAGACTAGCCATCTTCTCAATTGGAATTCTAGACGACATAAGAGT
815831 CCTTTTCAATATTTGAATTAAATGCTCACTTCAATTTTTTTACGGGATTACAGATTTATTTAAAT
261 CCTTTTCAATATTTGAATTAAATGCTCACTTCAATTTTTTTACGGGATTACAGATTTATTTAAAT
815896 TATCTATTGAAGCAAGTTGTCTTTTTCGCAATGTAAACGTTCTTACAATGCCAGTTATCTTCAGT
326 TATCTATTGAAGCAAGTTGTCTTTTTCGCAATGTAAACGTTCTTACAATGCCAGTTATCTTCAGT
815961 TTGAACTTAGACAAACAATGAGCTAATATTTTCTTGTCACAATTTCACTATAGATGCAAAATATA
391 TTGAACTTAGACAAACAATGAGCTAATATTTTCTTGTCACAATTTCACTATAGATGCAAAATATA
816026 AAAGACATAAATACAAAAGACATAATAGTGAAATGTTAAATTAACTTTATTTATTTATTCATCGT
456 AAAGACATAAATACAAAAGACATAATAGTGAAATGTTAAATTAACTTTATTTATTTATTCATCGT
816091 TCAAATAAATA
521 TCAAATAAATA
816102 GAAAATAGTT
Statistics
Matches: 531, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
531 531 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (531 bp):
TAGAGCATAAGCCTTCAGTTATATCAAAGCACATGAGTTGCATACGCATGGTTAGTGACTAATTC
AGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCACAAACGTATTCAAAATTA
ATTCATCTTATGTCCAGTCCAATGTATCATTCTACCAATGAATACATCTATGTTTCTACTCGTGG
AGTCAACTAGCTTGATAGCCAAGACTAGCCATCTTCTCAATTGGAATTCTAGACGACATAAGAGT
CCTTTTCAATATTTGAATTAAATGCTCACTTCAATTTTTTTACGGGATTACAGATTTATTTAAAT
TATCTATTGAAGCAAGTTGTCTTTTTCGCAATGTAAACGTTCTTACAATGCCAGTTATCTTCAGT
TTGAACTTAGACAAACAATGAGCTAATATTTTCTTGTCACAATTTCACTATAGATGCAAAATATA
AAAGACATAAATACAAAAGACATAATAGTGAAATGTTAAATTAACTTTATTTATTTATTCATCGT
TCAAATAAATA
Found at i:818592 original size:91 final size:91
Alignment explanation
Indices: 818448--818661 Score: 243
Period size: 91 Copynumber: 2.3 Consensus size: 91
818438 GTGTTAACTT
* * * * *
818448 TAGGTACCATAATAATACATAAATTGATAGTTTAGGTACCATATTGAAGATTTTCAAAGTATAAG
1 TAGGTACCA-AATAATACACAAATTGATAGTTCAAGTACCATATAGAAGATTTTCAAAGTACAAG
818513 TACCACATT-GAGCATTTTATGAAAGTA
65 TACCACATTAGA-CATTTTATGAAAGTA
* * * * * *
818540 TAGGTACTAAATAACACACAAATTGATTGTTCAAGTACCATTATAG-ATATTTTTAAAGTACAGG
1 TAGGTACCAAATAATACACAAATTGATAGTTCAAGTACCA-TATAGAAGATTTTCAAAGTACAAG
*
818604 TACTACATTAGACATTTTATGAAAGTA
65 TACCACATTAGACATTTTATGAAAGTA
** * *
818631 TTTGTACCAAATAATACACAGATTAATAGTT
1 TAGGTACCAAATAATACACAAATTGATAGTT
818662 TAGGCCATTA
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
91 87 0.86
92 14 0.14
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (91 bp):
TAGGTACCAAATAATACACAAATTGATAGTTCAAGTACCATATAGAAGATTTTCAAAGTACAAGT
ACCACATTAGACATTTTATGAAAGTA
Found at i:821846 original size:12 final size:12
Alignment explanation
Indices: 821829--821865 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
821819 GGTGTTCATT
821829 CGGTTAACCGAC
1 CGGTTAACCGAC
*
821841 CGGTTAACTGAC
1 CGGTTAACCGAC
821853 CGGTTAACCGAC
1 CGGTTAACCGAC
821865 C
1 C
821866 CGAAATAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.19
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:822045 original size:9 final size:9
Alignment explanation
Indices: 822025--822091 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
822015 TTTGGTTAAA
*
822025 AATTAACTG
1 AATTAACCG
*
822034 AATTACCCG
1 AATTAACCG
822043 AATTAACCG
1 AATTAACCG
*
822052 AATTAACTG
1 AATTAACCG
* *
822061 GATTACCCG
1 AATTAACCG
*
822070 AATTAACTG
1 AATTAACCG
822079 AATTAACCG
1 AATTAACCG
822088 AATT
1 AATT
822092 GAATCACTAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:822048 original size:18 final size:18
Alignment explanation
Indices: 822025--822091 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
822015 TTTGGTTAAA
* * *
822025 AATTAACTGAATTACCCG
1 AATTAACCGAATTAACTG
822043 AATTAACCGAATTAACTG
1 AATTAACCGAATTAACTG
* *
822061 GATTACCCGAATTAACTG
1 AATTAACCGAATTAACTG
822079 AATTAACCGAATT
1 AATTAACCGAATT
822092 GAATCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:822057 original size:27 final size:27
Alignment explanation
Indices: 822025--822091 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
822015 TTTGGTTAAA
822025 AATTAACTGAATTACCCGAATTAACCG
1 AATTAACTGAATTACCCGAATTAACCG
* *
822052 AATTAACTGGATTACCCGAATTAACTG
1 AATTAACTGAATTACCCGAATTAACCG
*
822079 AATTAACCGAATT
1 AATTAACTGAATT
822092 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (27 bp):
AATTAACTGAATTACCCGAATTAACCG
Found at i:822222 original size:18 final size:18
Alignment explanation
Indices: 822182--822225 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
822172 AATTTTTATG
**
822182 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
822200 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
822218 TTTGGGTT
1 ATTGGGTT
822226 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:823289 original size:6 final size:6
Alignment explanation
Indices: 823278--823326 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
823268 AACTAAGCTA
*
823278 AGAAAG AGAAAG AGAAAG AGAAAAAA AGAAAG AGAAAG AGAAAG AGAAA
1 AGAAAG AGAAAG AGAAAG AG--AAAG AGAAAG AGAAAG AGAAAG AGAAA
823327 CGTACTTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 34 0.87
8 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:823307 original size:26 final size:26
Alignment explanation
Indices: 823277--823326 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
823267 GAACTAAGCT
823277 AAGAAAGAGAAAGAGAAAGAGAAAAA
1 AAGAAAGAGAAAGAGAAAGAGAAAAA
823303 AAGAAAGAGAAAGAGAAAGAGAAA
1 AAGAAAGAGAAAGAGAAAGAGAAA
823327 CGTACTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (26 bp):
AAGAAAGAGAAAGAGAAAGAGAAAAA
Found at i:829592 original size:16 final size:16
Alignment explanation
Indices: 829571--829601 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
829561 TTGTTGATAG
*
829571 AGAGAGAAGAGACAAT
1 AGAGAGAAAAGACAAT
829587 AGAGAGAAAAGACAA
1 AGAGAGAAAAGACAA
829602 AGAATTAAGA
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:0.61, C:0.06, G:0.29, T:0.03
Consensus pattern (16 bp):
AGAGAGAAAAGACAAT
Found at i:837567 original size:18 final size:17
Alignment explanation
Indices: 837525--837568 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
837515 TGTCGTTCGT
837525 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
837542 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
837561 TTTCAAAA
1 TTTCAAAA
837569 TAATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:844236 original size:18 final size:18
Alignment explanation
Indices: 844212--844255 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
844202 TGTCATTCGT
844212 TTTCAAAACATTATTC-A
1 TTTCAAAACATTATTCAA
* *
844229 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTCAA
844248 TTTCAAAA
1 TTTCAAAA
844256 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (18 bp):
TTTCAAAACATTATTCAA
Found at i:855003 original size:31 final size:29
Alignment explanation
Indices: 854936--855010 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 29
854926 TGGATCAGAT
* *
854936 CAAATTTCATGTATAAAATTGTATAAAAT
1 CAAAGTTCATGTATAAAATTGTATAAAAC
* *
854965 CAAAGTTCATGTATATAATTGCATATTAAAC
1 CAAAGTTCATGTATAAAATTG--TATAAAAC
*
854996 CATAGTTCATGTATA
1 CAAAGTTCATGTATA
855011 GTTTTGGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 19 0.49
31 20 0.51
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (29 bp):
CAAAGTTCATGTATAAAATTGTATAAAAC
Found at i:856383 original size:31 final size:30
Alignment explanation
Indices: 856348--856490 Score: 132
Period size: 30 Copynumber: 4.8 Consensus size: 30
856338 ATTTGAGAAT
*
856348 CCCTTATTTGAGCACTTTTGAAAATGTTTGA
1 CCCTTATTTGAGCA-TTTTGAAAAGGTTTGA
*
856379 CCCTTATTTGAGCATTTTAAAAAGGTTTGA
1 CCCTTATTTGAGCATTTTGAAAAGGTTTGA
* * * *
856409 CTCATATTTAACCATTTTG-AAAGGTTTGA
1 CCCTTATTTGAGCATTTTGAAAAGGTTTGA
*
856438 -CCTTCATTTGAGCAATTTT-ATAAAGG-TTAA
1 CCCTT-ATTTGAGC-ATTTTGA-AAAGGTTTGA
* * *
856468 ACCTTATATGACCATTTTGAAAA
1 CCCTTATTTGAGCATTTTGAAAA
856491 TTTTGGTCCT
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
28 2 0.02
29 24 0.26
30 43 0.47
31 23 0.25
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (30 bp):
CCCTTATTTGAGCATTTTGAAAAGGTTTGA
Found at i:856482 original size:59 final size:58
Alignment explanation
Indices: 856349--856489 Score: 158
Period size: 59 Copynumber: 2.4 Consensus size: 58
856339 TTTGAGAATC
* * **
856349 CCTTATTTGAGCACTTTTGAAAATGTTTGACCCTTATTTGAGCATTTTAAAAAGGTTTGA
1 CCTTATTTGACCA-TTTTG-AAAGGTTTGACCCTTATTTGAGCATTTTAAAAAGGTTAAA
* * *
856409 CTCATATTTAACCATTTTGAAAGGTTTGA-CCTTCATTTGAGCAATTTTATAAAGGTTAAA
1 C-CTTATTTGACCATTTTGAAAGGTTTGACCCTT-ATTTGAGC-ATTTTAAAAAGGTTAAA
*
856469 CCTTATATGACCATTTTGAAA
1 CCTTATTTGACCATTTTGAAA
856490 ATTTTGGTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 4 0.06
59 34 0.50
60 21 0.31
61 9 0.13
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (58 bp):
CCTTATTTGACCATTTTGAAAGGTTTGACCCTTATTTGAGCATTTTAAAAAGGTTAAA
Found at i:859029 original size:27 final size:27
Alignment explanation
Indices: 858999--859051 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
858989 GAAAACATAT
*
858999 ATATTTCGATTAATTCAGTTAACCGAA
1 ATATTTCAATTAATTCAGTTAACCGAA
*
859026 ATATTTCAATTAATTCGGTTAACCGA
1 ATATTTCAATTAATTCAGTTAACCGA
859052 CCATATTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (27 bp):
ATATTTCAATTAATTCAGTTAACCGAA
Found at i:862590 original size:13 final size:13
Alignment explanation
Indices: 862572--862598 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
862562 AAGATAGGCT
862572 TTTTTTTTATTTC
1 TTTTTTTTATTTC
862585 TTTTTTTTATTTC
1 TTTTTTTTATTTC
862598 T
1 T
862599 ACCTATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTATTTC
Found at i:872635 original size:19 final size:19
Alignment explanation
Indices: 872613--872649 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
872603 ATCAAAACAA
* *
872613 GAAAAGAAAAAGAAAATTG
1 GAAAAAAAAAACAAAATTG
872632 GAAAAAAAAAACAAAATT
1 GAAAAAAAAAACAAAATT
872650 TAAAGATGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.14, T:0.11
Consensus pattern (19 bp):
GAAAAAAAAAACAAAATTG
Found at i:873123 original size:21 final size:21
Alignment explanation
Indices: 873083--873129 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
873073 TATGCTTGTT
*
873083 TTTCTATTAAGTTTTATGGGCA
1 TTTCTATTAAGTTATATGGG-A
*
873105 TTTCTATTTA-TTATATGGGA
1 TTTCTATTAAGTTATATGGGA
873125 TTTCT
1 TTTCT
873130 TGTCTCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 8 0.35
22 9 0.39
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (21 bp):
TTTCTATTAAGTTATATGGGA
Found at i:874845 original size:40 final size:38
Alignment explanation
Indices: 874757--874845 Score: 88
Period size: 40 Copynumber: 2.2 Consensus size: 38
874747 TTTCTAAATT
* * *
874757 TAAAAATATATAAATAAAATGTTTTAAAATTTTTAATA
1 TAAAAATATAAAAATAAAATATTTTAAAATATTTAATA
* **
874795 TAATTTAATATAAAAATAAGAATATTTTAATGTAATTTAATA
1 TAA--AAATATAAAAATAA-AATATTTTAAAAT-ATTTAATA
874837 TAAAAATAT
1 TAAAAATAT
874846 TATTCTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
38 3 0.08
40 17 0.43
41 10 0.25
42 10 0.25
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (38 bp):
TAAAAATATAAAAATAAAATATTTTAAAATATTTAATA
Found at i:879931 original size:26 final size:26
Alignment explanation
Indices: 879902--879960 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
879892 TACTCCCAAC
* * *
879902 AAAATTTTGACGATTTTACCCCTTGT
1 AAAATTTTGACGACTCTACCCCTGGT
*
879928 AAAATTTTGACGACTCTACCTCTGGT
1 AAAATTTTGACGACTCTACCCCTGGT
879954 AAAATTT
1 AAAATTT
879961 CGAGAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (26 bp):
AAAATTTTGACGACTCTACCCCTGGT
Done.