Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 45 of 402
Found at i:8801683 original size:23 final size:22
Alignment explanation
Indices: 8801627--8801714 Score: 79
Period size: 23 Copynumber: 3.9 Consensus size: 22
8801617 TGAGCTTAGG
*
8801627 GTGCCAGCTAATTTGGGCTTAAA
1 GTGCTAGCTAATTTGGG-TTAAA
* *
8801650 ATG-TCAACTAATTTGGGTGTAAA
1 GTGCT-AGCTAATTTGGGT-TAAA
* *
8801673 GTGCTAGCTAATCTTGGCTTACA
1 GTGCTAGCTAAT-TTGGGTTAAA
*
8801696 GTGCTAGCTAAATTGGGTT
1 GTGCTAGCTAATTTGGGTT
8801715 CAAAATCTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
22 7 0.13
23 39 0.75
24 6 0.12
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (22 bp):
GTGCTAGCTAATTTGGGTTAAA
Found at i:8801792 original size:22 final size:22
Alignment explanation
Indices: 8801762--8801807 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8801752 ATCATCTGGA
*
8801762 TGCCAACTAAT-TTGAGCTTAGG
1 TGCCAACTAATCTAG-GCTTAGG
*
8801784 TGCCGACTAATCTAGGCTTAGG
1 TGCCAACTAATCTAGGCTTAGG
8801806 TG
1 TG
8801808 TTAGCTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (22 bp):
TGCCAACTAATCTAGGCTTAGG
Found at i:8801815 original size:22 final size:22
Alignment explanation
Indices: 8801790--8801852 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
8801780 TAGGTGCCGA
8801790 CTAATCTAGGCTTAGGTGTTAG
1 CTAATCTAGGCTTAGGTGTTAG
* * *
8801812 CTAAACTAAGCTTAAAGTGTTAG
1 CTAATCTAGGCTT-AGGTGTTAG
* *
8801835 CTAATCCAGGCTTGGGTG
1 CTAATCTAGGCTTAGGTG
8801853 GCAGTTAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (22 bp):
CTAATCTAGGCTTAGGTGTTAG
Found at i:8802123 original size:24 final size:23
Alignment explanation
Indices: 8802096--8802148 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
8802086 TGCCCTCTTT
8802096 TTTTTTTGCCATTTTTCTCTTCA
1 TTTTTTTGCCATTTTTCTCTTCA
** * *
8802119 CTTTTTTTTTCATTTTTTTCTTTA
1 -TTTTTTTGCCATTTTTCTCTTCA
8802143 TTTTTT
1 TTTTTT
8802149 GTTATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTTGCCATTTTTCTCTTCA
Found at i:8802130 original size:12 final size:11
Alignment explanation
Indices: 8802094--8802158 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
8802084 TTTGCCCTCT
8802094 TTTTTTTTTGCCA
1 TTTTTTTTT--CA
*
8802107 TTTTTCTCTTCA
1 TTTTT-TTTTCA
8802119 CTTTTTTTTTCA
1 -TTTTTTTTTCA
*
8802131 TTTTTTTCTTTA
1 TTTTTTT-TTCA
*
8802143 TTTTTTGTT-A
1 TTTTTTTTTCA
8802153 TTTTTT
1 TTTTTT
8802159 CTCTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
10 7 0.16
11 9 0.20
12 16 0.36
13 10 0.22
14 3 0.07
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:8802148 original size:21 final size:22
Alignment explanation
Indices: 8802094--8802169 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
8802084 TTTGCCCTCT
*
8802094 TTTTTTTTTGCCA-TTTTTCTC
1 TTTTTTTTTGTCATTTTTTCTC
*
8802115 TTCACTTTTTTTTTCATTTTTT-TC
1 TT---TTTTTTTGTCATTTTTTCTC
*
8802139 TTTATTTTTTGTTATTTTTTCTC
1 TTT-TTTTTTGTCATTTTTTCTC
8802162 TTTTTTTT
1 TTTTTTTT
8802170 ATTATTTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.07
22 19 0.42
23 5 0.11
24 13 0.29
25 5 0.11
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTGTCATTTTTTCTC
Found at i:8802174 original size:21 final size:19
Alignment explanation
Indices: 8802119--8802176 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
8802109 TTTCTCTTCA
*
8802119 CTTTTTTTTTCATTTTTTT
1 CTTTTTTTTTTATTTTTTT
8802138 CTTTATTTTTTGTTATTTTTTCT
1 C-TT-TTTTTT-TTATTTTTT-T
8802161 CTTTTTTTTATTATTT
1 CTTTTTTTT-TTATTT
8802177 CATTACTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 18 0.55
22 10 0.30
23 2 0.06
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (19 bp):
CTTTTTTTTTTATTTTTTT
Found at i:8817589 original size:29 final size:30
Alignment explanation
Indices: 8817527--8817643 Score: 109
Period size: 29 Copynumber: 4.0 Consensus size: 30
8817517 AAATTAAGTA
* * *
8817527 TTTATAAA-TTAATTAAATAAAAATAATAG
1 TTTAAAAATTTAATTAAATAAAAATAAAAT
* *
8817556 ATTAAGAA-TTAATTAAATAAAAATAAAAT
1 TTTAAAAATTTAATTAAATAAAAATAAAAT
*
8817585 TTTAAAAATTTAATCATAA-AAAAATAATAA-
1 TTTAAAAATTTAATTA-AATAAAAATAA-AAT
* *
8817615 TTAAAAAATTTAATTGAAT-AAAATAAAAT
1 TTTAAAAATTTAATTAAATAAAAATAAAAT
8817644 ATTGCGAGTT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.03
29 39 0.54
30 27 0.38
31 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (30 bp):
TTTAAAAATTTAATTAAATAAAAATAAAAT
Found at i:8817598 original size:59 final size:58
Alignment explanation
Indices: 8817527--8817643 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 58
8817517 AAATTAAGTA
* * *
8817527 TTTATAAATTAATTA-AATAAAAATAATAGATT-AAGAA-TTAATTAAATAAAAATAAAAT
1 TTTAAAAATTAATCATAA-AAAAATAATA-ATTAAAAAATTTAATTAAAT-AAAATAAAAT
*
8817585 TTTAAAAATTTAATCATAAAAAAATAATAATTAAAAAATTTAATTGAATAAAATAAAAT
1 TTTAAAAA-TTAATCATAAAAAAATAATAATTAAAAAATTTAATTAAATAAAATAAAAT
8817644 ATTGCGAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
58 10 0.20
59 30 0.59
60 11 0.22
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (58 bp):
TTTAAAAATTAATCATAAAAAAATAATAATTAAAAAATTTAATTAAATAAAATAAAAT
Found at i:8817609 original size:16 final size:16
Alignment explanation
Indices: 8817588--8817628 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
8817578 ATAAAATTTT
*
8817588 AAAAATTTAATCATAA
1 AAAAATTTAATAATAA
*
8817604 AAAAA--TAATAATTA
1 AAAAATTTAATAATAA
8817618 AAAAATTTAAT
1 AAAAATTTAAT
8817629 TGAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATTTAATAATAA
Found at i:8819309 original size:126 final size:125
Alignment explanation
Indices: 8819156--8819416 Score: 301
Period size: 126 Copynumber: 2.1 Consensus size: 125
8819146 CAGAAAAATA
* * ** * * * * *
8819156 CCTTCAATAATGCATAGAAAATTTTGGAATGGATTCTTGAAGGCGTTTTTCG-CTGAAAGTGCCT
1 CCTTCAATAATCCATAAAAAAAGTTGGAACGGATTCTTGAAGACATTTTTCGCCT-AAAATACCT
* * *** *
8819220 TTAATAATTCA-ATCAATAAATTTTTATGATGGATTATTGAAAGTGTTTTTGGTCAAAAATG
65 TTAATAATCCACA-CAATAAATTTTTATGAAGGATTATTGAAAGCAATTTTGGTCAAAAACG
* * *
8819281 TCTTCAATAATCCATACAAAAAAGTTGGAACGGATTCTTGAAGATATTTTTGGCCTAAAATACCT
1 CCTTCAATAATCCATA-AAAAAAGTTGGAACGGATTCTTGAAGACATTTTTCGCCTAAAATACCT
* *
8819346 TTAGTAATCCACACAATAAATTTTTATGAAGGATTATTGAACGCAATTTTGGTCAAAAACG
65 TTAATAATCCACACAATAAATTTTTATGAAGGATTATTGAAAGCAATTTTGGTCAAAAACG
8819407 CCTTCAATAA
1 CCTTCAATAA
8819417 CACTTTGTTA
Statistics
Matches: 112, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
125 14 0.12
126 95 0.85
127 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (125 bp):
CCTTCAATAATCCATAAAAAAAGTTGGAACGGATTCTTGAAGACATTTTTCGCCTAAAATACCTT
TAATAATCCACACAATAAATTTTTATGAAGGATTATTGAAAGCAATTTTGGTCAAAAACG
Found at i:8819530 original size:17 final size:17
Alignment explanation
Indices: 8819508--8819542 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8819498 TATATGTGAA
8819508 GTCAGTTGTAAGTTTAT
1 GTCAGTTGTAAGTTTAT
*
8819525 GTCAGTTGTAGGTTTAT
1 GTCAGTTGTAAGTTTAT
8819542 G
1 G
8819543 CTAATAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.06, G:0.29, T:0.46
Consensus pattern (17 bp):
GTCAGTTGTAAGTTTAT
Found at i:8822725 original size:12 final size:12
Alignment explanation
Indices: 8822699--8822772 Score: 76
Period size: 12 Copynumber: 6.0 Consensus size: 12
8822689 TAGTAATGTG
8822699 TTCAGAAACACCA
1 TTCAGAAA-ACCA
*
8822712 TTCAGTAAACCA
1 TTCAGAAAACCA
*
8822724 TTCAAAAAACCA
1 TTCAGAAAACCA
*
8822736 TTTAGAAACACCA
1 TTCAGAAA-ACCA
* *
8822749 TTAAGCAAACCA
1 TTCAGAAAACCA
*
8822761 TTCAGTAAACCA
1 TTCAGAAAACCA
8822773 ATATCATACA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
12 34 0.67
13 17 0.33
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.20
Consensus pattern (12 bp):
TTCAGAAAACCA
Found at i:8822727 original size:25 final size:24
Alignment explanation
Indices: 8822699--8822797 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
8822689 TAGTAATGTG
8822699 TTCAGAAACACCATTCAGTAAACCA
1 TTCAGAAA-ACCATTCAGTAAACCA
* * *
8822724 TTCAAAAAACCATTTAGAAACACCA
1 TTCAGAAAACCATTCAGTAA-ACCA
* *
8822749 TTAAGCAAACCATTCAGTAAACCAA
1 TTCAGAAAACCATTCAGTAAACC-A
*
8822774 TATCATACAATACCATTCAGTAAA
1 T-TCAGA-AA-ACCATTCAGTAAA
8822798 ATAATATCAT
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
24 13 0.22
25 28 0.48
26 2 0.03
27 2 0.03
28 13 0.22
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.22
Consensus pattern (24 bp):
TTCAGAAAACCATTCAGTAAACCA
Found at i:8822789 original size:28 final size:28
Alignment explanation
Indices: 8822757--8822828 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
8822747 CATTAAGCAA
8822757 ACCATTCAGTAAACCAATATCATACAAT
1 ACCATTCAGTAAACCAATATCATACAAT
**
8822785 ACCATTCAGTAAAATAATATCATACAAT
1 ACCATTCAGTAAACCAATATCATACAAT
* *
8822813 ATCATTCAGCAAACCA
1 ACCATTCAGTAAACCA
8822829 TAATATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (28 bp):
ACCATTCAGTAAACCAATATCATACAAT
Found at i:8832552 original size:16 final size:15
Alignment explanation
Indices: 8832525--8832558 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8832515 ATAAAAAATA
*
8832525 ATGCTATTTTCCTTG
1 ATGCTATTTTCCTCG
8832540 ATGCTATTTTTCCTCG
1 ATGCTA-TTTTCCTCG
8832556 ATG
1 ATG
8832559 TGTGTATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.50
Consensus pattern (15 bp):
ATGCTATTTTCCTCG
Found at i:8835807 original size:23 final size:23
Alignment explanation
Indices: 8835776--8835825 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
8835766 ACTGCTGTCC
* *
8835776 AAAAGAAAAACTACAAAAAATAA
1 AAAAGAAAAAATACAAAAAACAA
* *
8835799 AAAATAAAAAATACAAGAAACAA
1 AAAAGAAAAAATACAAAAAACAA
8835822 AAAA
1 AAAA
8835826 AAGTGCTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.80, C:0.08, G:0.04, T:0.08
Consensus pattern (23 bp):
AAAAGAAAAAATACAAAAAACAA
Found at i:8837861 original size:38 final size:38
Alignment explanation
Indices: 8837805--8837881 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
8837795 CAGTTGATCC
*
8837805 AGATCAAATGAAAGGGTTCCACTGTATATTTCACCAAA
1 AGATCAAATGAAACGGTTCCACTGTATATTTCACCAAA
8837843 AGATCAAATGAAACGGTTCCACTGTATATTTCACCAAA
1 AGATCAAATGAAACGGTTCCACTGTATATTTCACCAAA
8837881 A
1 A
8837882 AATATTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (38 bp):
AGATCAAATGAAACGGTTCCACTGTATATTTCACCAAA
Found at i:8842324 original size:21 final size:22
Alignment explanation
Indices: 8842300--8842350 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
8842290 AAGATTCGGA
8842300 TTTTAAGGG-TTTA-GATTTGAG
1 TTTTAAGGGTTTTAGGATTTG-G
* *
8842321 TTTTGAGGGTTTTAGGGTTTGG
1 TTTTAAGGGTTTTAGGATTTGG
8842343 TTTTAAGG
1 TTTTAAGG
8842351 TATTGAAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 8 0.32
22 12 0.48
23 5 0.20
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (22 bp):
TTTTAAGGGTTTTAGGATTTGG
Found at i:8842337 original size:29 final size:30
Alignment explanation
Indices: 8842300--8842399 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 30
8842290 AAGATTCGGA
* * *
8842300 TTTTAAGGGTTTAGATTTGA-GTTTTGAGGG
1 TTTT-AGGGTTTAGATTTAAGGTATTGAAGG
* *
8842330 TTTTAGGGTTTGGTTTTAAGGTATTGAAGG
1 TTTTAGGGTTTAGATTTAAGGTATTGAAGG
* * *
8842360 -TTTAGGGTTTTGATTTTAGAGT-TTGAAGA
1 TTTTAGGGTTTAGATTTAAG-GTATTGAAGG
*
8842389 ATTTAGGGTTT
1 TTTTAGGGTTT
8842400 CGGTTTTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
29 34 0.59
30 24 0.41
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (30 bp):
TTTTAGGGTTTAGATTTAAGGTATTGAAGG
Found at i:8842362 original size:30 final size:29
Alignment explanation
Indices: 8842322--8842477 Score: 103
Period size: 29 Copynumber: 5.4 Consensus size: 29
8842312 AGATTTGAGT
*
8842322 TTTGAGGGTTTTAGGGTTTGGTTTTAAG-G
1 TTTGAAGG-TTTAGGGTTTGGTTTTAAGAG
*
8842351 TATTGAAGGTTTAGGGTTTTGATTTT-AGAG
1 T-TTGAAGGTTTAGGG-TTTGGTTTTAAGAG
*
8842381 TTTGAAGAATTTAGGGTTTCGGTTTTAA-A-
1 TTTGAAG-GTTTAGGGTTT-GGTTTTAAGAG
* * * *
8842410 TTTG-AGGTTTGGGGTTTTGATTTAAGGG
1 TTTGAAGGTTTAGGGTTTGGTTTTAAGAG
*
8842438 TTT--AGATTTTAGGGGTTTGGATTTT-AGAG
1 TTTGAAG-GTTTA-GGGTTTGG-TTTTAAGAG
*
8842467 TTTAAAGGTTT
1 TTTGAAGGTTT
8842478 GGGATTTTGG
Statistics
Matches: 99, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
26 6 0.06
27 11 0.11
28 8 0.08
29 36 0.36
30 35 0.35
31 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (29 bp):
TTTGAAGGTTTAGGGTTTGGTTTTAAGAG
Found at i:8842413 original size:29 final size:27
Alignment explanation
Indices: 8842331--8842414 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 27
8842321 TTTTGAGGGT
*
8842331 TTTAGGGTTTGGTTTTAAGGTATTGAAGG
1 TTTAGGGTTTGGTTTTAA-GT-TTGAAGA
*
8842360 TTTAGGGTTTTGATTTTAGAGTTTGAAGAA
1 TTTAGGG-TTTGGTTTTA-AGTTTGAAG-A
*
8842390 TTTAGGGTTTCGGTTTTAAATTTGA
1 TTTAGGGTTT-GGTTTTAAGTTTGA
8842415 GGTTTGGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
29 22 0.47
30 24 0.51
31 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.48
Consensus pattern (27 bp):
TTTAGGGTTTGGTTTTAAGTTTGAAGA
Found at i:8842463 original size:22 final size:22
Alignment explanation
Indices: 8842438--8842512 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
8842428 GATTTAAGGG
8842438 TTTAGATTTTAGGGGTTTGGAT
1 TTTAGATTTTAGGGGTTTGGAT
* **
8842460 TTTAGAGTTTAAAGGTTTGGGAT
1 TTTAGATTTTAGGGGTTT-GGAT
*
8842483 TTTGGATTTTAGGGGGTTTTGGAT
1 TTTAGATTTTA-GGGG-TTTGGAT
8842507 TTTAGA
1 TTTAGA
8842513 GGTTTCGGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 15 0.36
23 13 0.31
24 11 0.26
25 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (22 bp):
TTTAGATTTTAGGGGTTTGGAT
Found at i:8842522 original size:16 final size:16
Alignment explanation
Indices: 8842482--8842610 Score: 122
Period size: 16 Copynumber: 8.2 Consensus size: 16
8842472 AGGTTTGGGA
*
8842482 TTTTGGATTTTAGGGGG
1 TTTTGGATTTTA-GAGG
8842499 TTTTGGATTTTAGAGG
1 TTTTGGATTTTAGAGG
*
8842515 TTTCGGATTTTA-AGG
1 TTTTGGATTTTAGAGG
* * * *
8842530 GTTTGAATTTAAGAGA
1 TTTTGGATTTTAGAGG
*
8842546 TTTTGGATTTTAGGGG
1 TTTTGGATTTTAGAGG
* *
8842562 TTTCGGATTTTA-AAG
1 TTTTGGATTTTAGAGG
* *
8842577 TTTTGGA-TTTAAAGA
1 TTTTGGATTTTAGAGG
8842592 TTTTGGATTTTAG-GG
1 TTTTGGATTTTAGAGG
8842607 TTTT
1 TTTT
8842611 TAGAAACCTA
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
14 4 0.04
15 31 0.35
16 42 0.47
17 12 0.13
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.49
Consensus pattern (16 bp):
TTTTGGATTTTAGAGG
Found at i:8842550 original size:47 final size:45
Alignment explanation
Indices: 8842499--8842609 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 45
8842489 TTTTAGGGGG
*
8842499 TTTTGGATTTTAGAGGTTTCGGATTTTAAGGGTTTGAATTTAAGAGA
1 TTTTGGATTTTAG-GGTTTCGGATTTTAAAGGTTTGAATTTAA-AGA
* *
8842546 TTTTGGATTTTAGGGGTTTCGGATTTTAAAGTTTTGGATTTAAAGA
1 TTTTGGATTTTA-GGGTTTCGGATTTTAAAGGTTTGAATTTAAAGA
8842592 TTTTGGATTTTAGGGTTT
1 TTTTGGATTTTAGGGTTT
8842610 TTAGAAACCT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
45 6 0.10
46 15 0.25
47 38 0.63
48 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.49
Consensus pattern (45 bp):
TTTTGGATTTTAGGGTTTCGGATTTTAAAGGTTTGAATTTAAAGA
Found at i:8842557 original size:31 final size:31
Alignment explanation
Indices: 8842480--8842586 Score: 110
Period size: 31 Copynumber: 3.4 Consensus size: 31
8842470 AAAGGTTTGG
* *
8842480 GATTTTGGATTTTAGGGGGTTTTGGATTTTAGA
1 GATTTTGGATTTTA-GGGG-TTTGAATTTAAGA
* * *
8842513 GGTTTCGGATTTTAAGGGTTTGAATTTAAGA
1 GATTTTGGATTTTAGGGGTTTGAATTTAAGA
*
8842544 GATTTTGGATTTTAGGGGTTTCGGATTTTAA-A
1 GATTTTGGATTTTAGGGGTTT--GAATTTAAGA
8842576 G-TTTTGGATTT
1 GATTTTGGATTT
8842587 AAAGATTTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
31 39 0.62
32 5 0.08
33 19 0.30
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.48
Consensus pattern (31 bp):
GATTTTGGATTTTAGGGGTTTGAATTTAAGA
Found at i:8842611 original size:16 final size:15
Alignment explanation
Indices: 8842421--8842610 Score: 122
Period size: 15 Copynumber: 12.5 Consensus size: 15
8842411 TTGAGGTTTG
*
8842421 GGGTTTT-GATTTAA
1 GGGTTTTGGATTTTA
*
8842435 GGG-TTTAGATTTTA
1 GGGTTTTGGATTTTA
*
8842449 GGGGTTTGGATTTTA
1 GGGTTTTGGATTTTA
* *
8842464 GAGTTTAAAGG--TTT-
1 GGGTTT--TGGATTTTA
8842478 GGGATTTTGGATTTTA
1 GGG-TTTTGGATTTTA
8842494 GGGGGTTTTGGATTTTA
1 --GGGTTTTGGATTTTA
*
8842511 GAGGTTTCGGATTTTAA
1 G-GGTTTTGGATTTT-A
* *
8842528 GGG-TTTGAATTTAA
1 GGGTTTTGGATTTTA
*
8842542 GAGATTTTGGATTTTA
1 G-GGTTTTGGATTTTA
*
8842558 GGGGTTTCGGATTTTA
1 -GGGTTTTGGATTTTA
** *
8842574 AAGTTTTGGATTTAA
1 GGGTTTTGGATTTTA
* *
8842589 AGATTTTGGATTTTA
1 GGGTTTTGGATTTTA
8842604 GGGTTTT
1 GGGTTTT
8842611 TAGAAACCTA
Statistics
Matches: 136, Mismatches: 25, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
13 5 0.04
14 16 0.12
15 60 0.44
16 35 0.26
17 17 0.12
18 3 0.02
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (15 bp):
GGGTTTTGGATTTTA
Found at i:8843612 original size:17 final size:17
Alignment explanation
Indices: 8843591--8843625 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8843581 CTGTTCTATT
8843591 TTTTTAATAATTAATTAA
1 TTTTTAAT-ATTAATTAA
*
8843609 TTTTTAATTTTAATTAA
1 TTTTTAATATTAATTAA
8843626 ACTAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATATTAATTAA
Found at i:8844350 original size:180 final size:179
Alignment explanation
Indices: 8844025--8844380 Score: 516
Period size: 180 Copynumber: 2.0 Consensus size: 179
8844015 AAAGAGACCG
* * * *
8844025 GGATTAAACTATGAGTAAAAAAAAACAACAATCGAGATTAAACTGTGATTTTTGATTAAAGTAAT
1 GGATTAAACCACGAGTAAAAAAAAACAACAATCGAGATTAAACTGTGATTTTGGATTAAAGAAAT
* * *
8844090 CGAGATTGAACTGCAAGTCAGAATAACATCAACTTGGATTGAATCATAAGTCAGAAAATAAAGAG
66 CGAGATTGAACTGCAAGTCAAAATAACATCAACTTGGATTGAATCACAAGTCAAAAAATAAAGAG
* * *
8844155 ATCGGTATTAAACCACGAGT-TAGAAAATAACAACAATCGAGATTAATCA
131 ATCGGGATTAAACCACGAGTCCA-AAAATAACAACAATCAAGATTAATCA
* * * *
8844204 GGATTAAACCACGAGTCAGAAAATAACAACAATTGATATTAAACTGTGATTTTGGATTAAAGAAA
1 GGATTAAACCACGAGT-AAAAAAAAACAACAATCGAGATTAAACTGTGATTTTGGATTAAAGAAA
* * ** *
8844269 TCGAGATTGAATTGCGAGTCAAAATAATGTCAACTTGGATTGAATCACAAGTTAAAAAATAAAGA
65 TCGAGATTGAACTGCAAGTCAAAATAACATCAACTTGGATTGAATCACAAGTCAAAAAATAAAGA
8844334 GATCGGGATTAAACCACGAGTCCAAAAATAACAACAATCAAGATTAA
130 GATCGGGATTAAACCACGAGTCCAAAAATAACAACAATCAAGATTAA
8844381 CGTGCGATTT
Statistics
Matches: 156, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
179 14 0.09
180 141 0.90
181 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (179 bp):
GGATTAAACCACGAGTAAAAAAAAACAACAATCGAGATTAAACTGTGATTTTGGATTAAAGAAAT
CGAGATTGAACTGCAAGTCAAAATAACATCAACTTGGATTGAATCACAAGTCAAAAAATAAAGAG
ATCGGGATTAAACCACGAGTCCAAAAATAACAACAATCAAGATTAATCA
Found at i:8844400 original size:68 final size:66
Alignment explanation
Indices: 8844328--8844614 Score: 159
Period size: 68 Copynumber: 4.2 Consensus size: 66
8844318 AGTTAAAAAA
* *
8844328 TAAAGAGATCGGGATTAAACCACGAGTCCAAAAATAACAACAATCAAGATTAACGTGCGA-TTTT
1 TAAAGAGATCGAGATTAAACCACAAGT-C-AAAATAACAACAATCAAGATTAAC-TGCGAGTTTT
*
8844392 GGAT
63 AGAT
* * * * ** ** * * * ***
8844396 TAAAGAAATC-AGGATTGAACCGCAAGTCAGAATAACGTCAA-CTTGGATTAAATCACAAGTCAA
1 TAAAGAGATCGA-GATTAAACCACAAGTCAAAATAACAACAATC-AAGATTAACT-GCGAGTTTT
* *
8844459 AAAA
63 AGAT
* * *
8844463 TAAAGAGACCGAGATTAAACCACGAGTCAAAAAATAACAACAATTAAGATTAACCTGCGA-TTTT
1 TAAAGAGATCGAGATTAAACCACAAGTC--AAAATAACAACAATCAAGATTAA-CTGCGAGTTTT
*
8844527 GGAT
63 AGAT
* * * * ** * *
8844531 TAAAGAAATCGAGATTGAACCGCAAGTCAGAATAACGTCAATCAAGATTAAACTGAGATTTTTAG
1 TAAAGAGATCGAGATTAAACCACAAGTCAAAATAACAACAATCAAGATT-AACTGCGAGTTTTAG
8844596 ATT
65 A-T
*
8844599 TAAAGAGATCAAGATT
1 TAAAGAGATCGAGATT
8844615 GAATAGCGAG
Statistics
Matches: 155, Mismatches: 52, Indels: 24
0.67 0.23 0.10
Matches are distributed among these distances:
65 2 0.01
66 40 0.26
67 32 0.21
68 62 0.40
69 18 0.12
70 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (66 bp):
TAAAGAGATCGAGATTAAACCACAAGTCAAAATAACAACAATCAAGATTAACTGCGAGTTTTAGA
T
Found at i:8844582 original size:135 final size:135
Alignment explanation
Indices: 8844205--8844571 Score: 565
Period size: 135 Copynumber: 2.7 Consensus size: 135
8844195 GATTAATCAG
* * * * *
8844205 GATTAAACCACGAGTCAGAAAATAACAACAATTGATATTAAACTGTGATTTTGGATTAAAGAAAT
1 GATTAAACCACGAGTCAAAAAATAACAACAATTAAGATTAACCTGCGATTTTGGATTAAAGAAAT
** * * * * *
8844270 CGAGATTGAATTGCGAGTCAAAATAATGTCAACTTGGATTGAATCACAAGTTAAAAAATAAAGAG
66 CGAGATTGAACCGCAAGTCAGAATAACGTCAACTTGGATTAAATCACAAGTCAAAAAATAAAGAG
* *
8844335 ATCGG
131 ACCGA
* * *
8844340 GATTAAACCACGAGTCCAAAAATAACAACAATCAAGATTAACGTGCGATTTTGGATTAAAGAAAT
1 GATTAAACCACGAGTCAAAAAATAACAACAATTAAGATTAACCTGCGATTTTGGATTAAAGAAAT
8844405 C-AGGATTGAACCGCAAGTCAGAATAACGTCAACTTGGATTAAATCACAAGTCAAAAAATAAAGA
66 CGA-GATTGAACCGCAAGTCAGAATAACGTCAACTTGGATTAAATCACAAGTCAAAAAATAAAGA
8844469 GACCGA
130 GACCGA
8844475 GATTAAACCACGAGTCAAAAAATAACAACAATTAAGATTAACCTGCGATTTTGGATTAAAGAAAT
1 GATTAAACCACGAGTCAAAAAATAACAACAATTAAGATTAACCTGCGATTTTGGATTAAAGAAAT
8844540 CGAGATTGAACCGCAAGTCAGAATAACGTCAA
66 CGAGATTGAACCGCAAGTCAGAATAACGTCAA
8844572 TCAAGATTAA
Statistics
Matches: 210, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
134 1 0.00
135 208 0.99
136 1 0.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (135 bp):
GATTAAACCACGAGTCAAAAAATAACAACAATTAAGATTAACCTGCGATTTTGGATTAAAGAAAT
CGAGATTGAACCGCAAGTCAGAATAACGTCAACTTGGATTAAATCACAAGTCAAAAAATAAAGAG
ACCGA
Found at i:8844617 original size:68 final size:66
Alignment explanation
Indices: 8844503--8844632 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 66
8844493 AAAATAACAA
* * * * * *
8844503 CAATTAAGATTAACCTGCGATTTTGGATTAAAGAAATCGAGATTGAACCGCAAGTCAGAATAACG
1 CAATCAAGATTAAACTGAGATTTTAGATTAAAGAAATCAAGATTGAACAGCAAGTCAGAATAACG
8844568 T
66 T
* * *
8844569 CAATCAAGATTAAACTGAGATTTTTAGATTTAAAGAGATCAAGATTGAATAGCGAGTCAGAATA
1 CAATCAAGATTAAACTGAGA-TTTTAGA-TTAAAGAAATCAAGATTGAACAGCAAGTCAGAATA
8844633 TAAAGAGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 17 0.32
67 6 0.11
68 30 0.57
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (66 bp):
CAATCAAGATTAAACTGAGATTTTAGATTAAAGAAATCAAGATTGAACAGCAAGTCAGAATAACG
T
Found at i:8844911 original size:109 final size:109
Alignment explanation
Indices: 8844674--8845068 Score: 510
Period size: 109 Copynumber: 3.6 Consensus size: 109
8844664 AAAATAAGAA
* * * * ** *
8844674 GACTGGGATTAAATCGTAATTTGAAAA-CTATAAAAATGATCATGATTAAACCATGAGTCAAAGA
1 GACTAGGATTAAATCGTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAGA
* * * * * * * *
8844738 TTAAAGATAATTGGGATTGAATCGCAAGTTAGAGAAATAAAAGC
66 TTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGT
*
8844782 GACTAGGATTAAA-CTATAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAG
1 GACTAGGATTAAATC-GTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAG
8844846 ATTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGT
65 ATTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGT
* *
8844891 GACTAGGATTAAATCGTAAGTCGAGAAGCTATAAGAATGATAGGGATTAAACCACGAGTCAAAGA
1 GACTAGGATTAAATCGTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAGA
* * *
8844956 TTAACGATGACT-AGGACTGAACCATAAGTCAAAGAAATAAAAGT
66 TTAAAGATAACTGA-GACTGAACCACAAGTCAAAGAAATAAAAGT
* * * *
8845000 GACTAGGATTAAATCGTAAGTTGAGAAGCTATAAGAATGAAT-GGGATTAAACTACAAGTCAAAG
1 GACTAGGATTAAATCGTAAGTCGAAAAGCTATAAGAATG-ATCGGGATTAAACCACGAGTCAAAG
8845064 ATTAA
65 ATTAA
8845069 CGACGATCGG
Statistics
Matches: 257, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
107 1 0.00
108 22 0.09
109 231 0.90
110 3 0.01
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (109 bp):
GACTAGGATTAAATCGTAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAGA
TTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGT
Found at i:8845020 original size:36 final size:36
Alignment explanation
Indices: 8844770--8845012 Score: 126
Period size: 38 Copynumber: 6.7 Consensus size: 36
8844760 CGCAAGTTAG
* *
8844770 AGAAATAAAAGCGACTAGGATTAAACTATAAGTCGAAA
1 AGAAATAAAAGTGACTAGGATTAAACCATAAGTC--AA
** * **
8844808 AGCTATAAGAA-TGA-TCGGGATTAAACCACGAGTCAA
1 AGAAATAA-AAGTGACT-AGGATTAAACCATAAGTCAA
* * * * *
8844844 AG--ATTAAAGATAACT-GAGACTGAACCACAAGTCAA
1 AGAAATAAAAG-TGACTAG-GATTAAACCATAAGTCAA
* *
8844879 AGAAATAAAAGTGACTAGGATTAAATCGTAAGTCGAGA
1 AGAAATAAAAGTGACTAGGATTAAACCATAAGTC-A-A
** **
8844917 AGCTATAAGAA-TGA-TAGGGATTAAACCACGAGTCAA
1 AGAAATAA-AAGTGACTA-GGATTAAACCATAAGTCAA
* * * *
8844953 AG--ATTAACGATGACTAGGACTGAACCATAAGTCAA
1 AGAAATAAAAG-TGACTAGGATTAAACCATAAGTCAA
8844988 AGAAATAAAAGTGACTAGGATTAAA
1 AGAAATAAAAGTGACTAGGATTAAA
8845013 TCGTAAGTTG
Statistics
Matches: 152, Mismatches: 35, Indels: 38
0.68 0.16 0.17
Matches are distributed among these distances:
33 3 0.02
34 7 0.05
35 39 0.26
36 37 0.24
37 17 0.11
38 45 0.30
39 4 0.03
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (36 bp):
AGAAATAAAAGTGACTAGGATTAAACCATAAGTCAA
Found at i:8845135 original size:109 final size:110
Alignment explanation
Indices: 8844674--8845113 Score: 509
Period size: 109 Copynumber: 4.0 Consensus size: 110
8844664 AAAATAAGAA
* * * * * * *
8844674 GACTGGGATTAAATCGTAATTTGA-AAACTATAAAAATGATCA-TGATTAAACCATGAGTCAAAG
1 GACTAGGATTAAATCGTAAGTCGAGAAGCTATAAGAATGAT-AGGGATTAAACCACGAGTCAAAG
* * * * * *
8844737 ATTAAAGATAAT-TGGGATTGAATCGCAAGTTAGAGAAATAAAAGC
65 ATTAAAGATGATCTGGGACTGAACCACAAGTCAAAGAAATAAAAGC
* * *
8844782 GACTAGGATTAAA-CTATAAGTCGAAAAGCTATAAGAATGATCGGGATTAAACCACGAGTCAAAG
1 GACTAGGATTAAATC-GTAAGTCGAGAAGCTATAAGAATGATAGGGATTAAACCACGAGTCAAAG
* * *
8844846 ATTAAAGAT-AACTGAGACTGAACCACAAGTCAAAGAAATAAAAGT
65 ATTAAAGATGATCTGGGACTGAACCACAAGTCAAAGAAATAAAAGC
8844891 GACTAGGATTAAATCGTAAGTCGAGAAGCTATAAGAATGATAGGGATTAAACCACGAGTCAAAGA
1 GACTAGGATTAAATCGTAAGTCGAGAAGCTATAAGAATGATAGGGATTAAACCACGAGTCAAAGA
* * * *
8844956 TTAACGATGA-CTAGGACTGAACCATAAGTCAAAGAAATAAAAGT
66 TTAAAGATGATCTGGGACTGAACCACAAGTCAAAGAAATAAAAGC
* * *
8845000 GACTAGGATTAAATCGTAAGTTGAGAAGCTATAAGAATGA-ATGGGATTAAACTACAAGTCAAAG
1 GACTAGGATTAAATCGTAAGTCGAGAAGCTATAAGAATGATA-GGGATTAAACCACGAGTCAAAG
* * * ** *
8845064 ATTAACGACGATC-GGGATTGAACTGCAAGTCAAAAAAATAAAAGC
65 ATTAAAGATGATCTGGGACTGAACCACAAGTCAAAGAAATAAAAGC
8845109 GACTA
1 GACTA
8845114 TAATTGAGCT
Statistics
Matches: 289, Mismatches: 35, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
107 1 0.00
108 20 0.07
109 265 0.92
110 3 0.01
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.22
Consensus pattern (110 bp):
GACTAGGATTAAATCGTAAGTCGAGAAGCTATAAGAATGATAGGGATTAAACCACGAGTCAAAGA
TTAAAGATGATCTGGGACTGAACCACAAGTCAAAGAAATAAAAGC
Found at i:8846146 original size:12 final size:12
Alignment explanation
Indices: 8846121--8846179 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 12
8846111 TCTAAATTGC
8846121 TTTTT-TCT-TT
1 TTTTTGTCTATT
8846131 TTTTTGTCTATT
1 TTTTTGTCTATT
8846143 TTTTTGTCTATT
1 TTTTTGTCTATT
*
8846155 TTTTCG--TATT
1 TTTTTGTCTATT
8846165 TTTTT-TCT-TT
1 TTTTTGTCTATT
8846175 TTTTT
1 TTTTT
8846180 TAAGCAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 20 0.47
11 4 0.09
12 19 0.44
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.81
Consensus pattern (12 bp):
TTTTTGTCTATT
Found at i:8846146 original size:13 final size:13
Alignment explanation
Indices: 8846128--8846158 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
8846118 TGCTTTTTTC
8846128 TTTTTTTTGTCTA
1 TTTTTTTTGTCTA
8846141 -TTTTTTTGTCTA
1 TTTTTTTTGTCTA
8846153 TTTTTT
1 TTTTTT
8846159 CGTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTTTTGTCTA
Found at i:8846180 original size:11 final size:11
Alignment explanation
Indices: 8846121--8846180 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 11
8846111 TCTAAATTGC
8846121 TTTTTTCTTTT
1 TTTTTTCTTTT
*
8846132 TTTTGTCTATTT
1 TTTTTTCT-TTT
* *
8846144 TTTTGTC--TA
1 TTTTTTCTTTT
*
8846153 TTTTTTCGTATT
1 TTTTTTC-TTTT
8846165 TTTTTTCTTTT
1 TTTTTTCTTTT
8846176 TTTTT
1 TTTTT
8846181 AAGCAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
9 7 0.17
11 15 0.38
12 18 0.45
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:8861254 original size:930 final size:932
Alignment explanation
Indices: 8856585--8862171 Score: 11105
Period size: 931 Copynumber: 6.0 Consensus size: 932
8856575 ACCAATCTTT
8856585 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
1 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
*
8856650 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACGTGTGG
66 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
*
8856715 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTATCATTTAATTATGCGCCATTCTCGGTG
131 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
8856780 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
196 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
8856845 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
261 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
8856910 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
326 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
8856975 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
391 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
8857040 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
456 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
8857105 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
521 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
8857170 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
586 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
8857235 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
651 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
8857300 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
716 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
8857365 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
781 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
8857430 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
846 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
8857495 TTTGAGTAAGGGCTTGAGTAGA
911 TTTGAGTAAGGGCTTGAGTAGA
8857517 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
1 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
8857582 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
66 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
8857647 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
131 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
8857712 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
196 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
8857777 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
261 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
8857842 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
326 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
8857907 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
391 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
8857972 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
456 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
8858037 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
521 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
8858102 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
586 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
8858167 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
651 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
8858232 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
716 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
8858297 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
781 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
8858362 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
846 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
8858427 TTTGAGTAAGGGCTTGAGTAGA
911 TTTGAGTAAGGGCTTGAGTAGA
8858449 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
1 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
8858514 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
66 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
8858579 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
131 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
8858644 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
196 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
8858709 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
261 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
8858774 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
326 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
8858839 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
391 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
8858904 TCTTTTGAAATGTTA-TTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
456 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
8858968 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
521 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
8859033 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
586 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
8859098 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
651 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
8859163 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
716 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
8859228 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
781 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
8859293 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
846 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
8859358 TTTGAGTAAGGGCTTGAGTAGA
911 TTTGAGTAAGGGCTTGAGTAGA
8859380 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
1 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
8859445 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
66 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
8859510 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
131 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
8859575 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
196 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
8859640 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
261 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
8859705 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
326 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
8859770 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
391 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
8859835 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTT-AAAAATATAGTATTCTTT
456 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
8859899 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
521 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
8859964 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
586 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
8860029 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
651 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
8860094 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
716 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
8860159 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
781 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
8860224 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
846 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
8860289 TTTGAGTAAGGGCTTGAGTAGA
911 TTTGAGTAAGGGCTTGAGTAGA
8860311 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
1 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
8860376 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
66 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
8860441 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
131 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
8860506 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTT-AAAAATATTTTTG
196 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
8860570 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
261 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
8860635 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
326 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
8860700 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
391 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
8860765 TCTTTTGAAATGTTA-TTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
456 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
8860829 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
521 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
8860894 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
586 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
8860959 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
651 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
8861024 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
716 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
8861089 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
781 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
8861154 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
846 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
8861219 TTTGAGTAAGGGCTTGAGTAGA
911 TTTGAGTAAGGGCTTGAGTAGA
8861241 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
1 GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
8861306 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
66 TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
8861371 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
131 AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
8861436 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
196 TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
8861501 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
261 CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
8861566 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
326 CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
8861631 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
391 ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
8861696 TCTTTTGAAATGTTA-TTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTC-TT
456 TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
8861759 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
521 TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
8861824 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
586 CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
8861889 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
651 AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
8861954 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
716 GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
8862019 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
781 TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
*
8862084 TGGCATTCAGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
846 TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
8862149 TTTGAGTAAGGGCTTGAGTAGA
911 TTTGAGTAAGGGCTTGAGTAGA
8862171 G
1 G
8862172 GTTTTAAAGA
Statistics
Matches: 4649, Mismatches: 3, Indels: 8
1.00 0.00 0.00
Matches are distributed among these distances:
929 30 0.01
930 1313 0.28
931 1876 0.40
932 1430 0.31
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (932 bp):
GTTAGGGTGTGATTGGCCACTCAAATGTTTATCTTTTTAATAAAACTATAAAAACATGTTTAAAG
TTTATCAAAAAGATAAATTTGGTTTACGAAAAACCAGGTTGGGTCTGGGAGTCGGTTACATGTGG
AGAAGGATTAGCACTCCCACAACGCCCGTAAATTAGTACCATTTAATTATGCGCCATTCTCGGTG
TTGGATAAAAATGGTTTTGACTTGAAATTTAATACTAATTCCTTTCGTTTTAAAAAATATTTTTG
CTAAAGTTTTTATTAACAATATTGAGAAAATCTTTAAGTTAAAAAATTATCTTAAAATTCTCCAA
CATCTGGGTAGAATTTAAAATAACTCTTTTCGCTTAAGATTTAACACAATAATCCTTAAAATGAA
ATAACACTCTTTATAGAAAATTGTTGGTGACTCTCCAACATCTAGGCAAAGTACTGAGAATTATT
TCTTTTGAAATGTTATTTTTTTTATTTTATAATATCAATTTTTTTTAAAAAATATAGTATTCTTT
TTTGTTATAAAATATTTTATTACCAAGTAGTAAATAAAAATTAAAGACAGGATAATACAAATAAT
CTCTAATAATAACATGCTAACGTATGTATGCTAATAAATGTTATGTAGGATAAGATGCAATTTTA
AAGTTGGATTCTTAAGTATAATCAGATCACCCCGACTCTCTAATATCTAGGGAGAGCTTAGGTGC
GATTGTTTATATTTAAGATCCCAATTTACTGTTATACTTTTTATTTATTAATCTTATTATTAATA
TGAATTAAGAAATCGTGTGAAAAGACTTAACGAAGTAAAATTTCCTAAATACCCTATCATCTAGG
TGGCATTCGGGAACAAATTGCTTCAAATGAAGTTTTCACACGTGTCCTTAGGATTTTTAGGATGT
TTTGAGTAAGGGCTTGAGTAGA
Found at i:8862353 original size:28 final size:27
Alignment explanation
Indices: 8862301--8862375 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
8862291 GTTTAAAGAT
8862301 TTTAGGGTTTTGATTTTAAAATTT-GAGG
1 TTTAGGGTTTTGA-TTTAAAATTTGGA-G
* *
8862329 TTTAGGGTTTTGATTTAAATGTTTGGAT
1 TTTAGGGTTTTGATTTAAA-ATTTGGAG
*
8862357 TTTAGGGGTTTAGATTTAA
1 TTTA-GGGTTTTGATTTAA
8862376 GAGTTTAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 6 0.15
28 20 0.49
29 15 0.37
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (27 bp):
TTTAGGGTTTTGATTTAAAATTTGGAG
Found at i:8862483 original size:46 final size:48
Alignment explanation
Indices: 8862394--8862518 Score: 161
Period size: 46 Copynumber: 2.7 Consensus size: 48
8862384 AGGTTTGGGA
* * * *
8862394 TTTTGGATTTTAGGGGGTTTTAGATTTTAGAGGTTTCGAATTTTAAGGG
1 TTTTGGAATTTAAGGGATTTTAGATTTTAGGGGTTTCGAATTTT-AGGG
8862443 -TTT-GAATTTAAGGGATTTT-GATTTTAGGGGTTTCGAATTTTAGGG
1 TTTTGGAATTTAAGGGATTTTAGATTTTAGGGGTTTCGAATTTTAGGG
*
8862488 TTTTGGATTTTAA--GATTTTAGATTTTAGGGG
1 TTTTGGAATTTAAGGGATTTTAGATTTTAGGGG
8862519 CTTTAGAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
45 10 0.15
46 35 0.51
47 20 0.29
48 3 0.04
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (48 bp):
TTTTGGAATTTAAGGGATTTTAGATTTTAGGGGTTTCGAATTTTAGGG
Found at i:8862525 original size:16 final size:15
Alignment explanation
Indices: 8862349--8862525 Score: 90
Period size: 15 Copynumber: 11.5 Consensus size: 15
8862339 TGATTTAAAT
*
8862349 GTTTGGATTTTAGGG
1 GTTTAGATTTTAGGG
* *
8862364 GTTTAGA-TTTAAGA
1 GTTTAGATTTTAGGG
* *
8862378 GTTTAAAGGTTT-GGG
1 GTTTAGA-TTTTAGGG
* *
8862393 ATTTTGGATTTTAGGGG
1 -GTTTAGATTTTA-GGG
*
8862410 GTTTTAGATTTTAGAG
1 G-TTTAGATTTTAGGG
* *
8862426 GTTTCGAATTTTAAGG
1 GTTTAG-ATTTTAGGG
*
8862442 GTTT-GAATTTAAGGG
1 GTTTAG-ATTTTAGGG
* *
8862457 ATTTTGATTTTAGGG
1 GTTTAGATTTTAGGG
*
8862472 GTTTCGAATTTTAGGG
1 GTTTAG-ATTTTAGGG
* * * *
8862488 TTTTGGATTTTAAGA
1 GTTTAGATTTTAGGG
*
8862503 TTTTAGATTTTAGGG
1 GTTTAGATTTTAGGG
8862518 GCTTTAGA
1 G-TTTAGA
8862526 AACCTAGGAT
Statistics
Matches: 122, Mismatches: 30, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
14 11 0.09
15 57 0.47
16 41 0.34
17 13 0.11
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (15 bp):
GTTTAGATTTTAGGG
Found at i:8862947 original size:17 final size:18
Alignment explanation
Indices: 8862920--8862988 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
8862910 ATCATGCATA
8862920 AATATATAAAAAAATAATT
1 AATATATAAAAAAATAA-T
8862939 AA-A-ATAAAAAAATAAT
1 AATATATAAAAAAATAAT
*
8862955 AATATATAAAAAAATAGAA
1 AATATATAAAAAAATA-AT
*
8862974 AAT-TAAAAAAAAATA
1 AATATATAAAAAAATA
8862989 TTTTTACCTG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
16 3 0.07
17 13 0.29
18 23 0.51
19 6 0.13
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (18 bp):
AATATATAAAAAAATAAT
Found at i:8862950 original size:18 final size:17
Alignment explanation
Indices: 8862926--8862988 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
8862916 CATAAATATA
8862926 TAAAAAAATAATTAAAA-
1 TAAAAAAATAA-TAAAAT
*
8862943 TAAAAAAATAATAATAT
1 TAAAAAAATAATAAAAT
*
8862960 ATAAAAAAAT-AGAAAAT
1 -TAAAAAAATAATAAAAT
8862977 TAAAAAAA-AATA
1 TAAAAAAATAATA
8862989 TTTTTACCTG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 14 0.36
17 16 0.41
18 9 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
TAAAAAAATAATAAAAT
Found at i:8862966 original size:33 final size:33
Alignment explanation
Indices: 8862919--8862988 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
8862909 TATCATGCAT
*
8862919 AAAT-ATATAAAAAAATAAT-TAAAA-TAAAAAA
1 AAATAATATAAAAAAA-AATAGAAAATTAAAAAA
*
8862950 ATAATAATATATAAAAAAATAGAAAATTAAAAAA
1 A-AATAATATAAAAAAAAATAGAAAATTAAAAAA
8862984 AAATA
1 AAATA
8862989 TTTTTACCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
31 1 0.03
32 6 0.18
33 18 0.55
34 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (33 bp):
AAATAATATAAAAAAAAATAGAAAATTAAAAAA
Found at i:8869879 original size:19 final size:19
Alignment explanation
Indices: 8869855--8869895 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8869845 TAAGGATCTA
8869855 AACAAATTCAAACTTCAGG
1 AACAAATTCAAACTTCAGG
8869874 AACAAATTCAAACTTCAGG
1 AACAAATTCAAACTTCAGG
8869893 AAC
1 AAC
8869896 CACCACCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.20
Consensus pattern (19 bp):
AACAAATTCAAACTTCAGG
Found at i:8869887 original size:77 final size:77
Alignment explanation
Indices: 8869797--8869953 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
8869787 AAGGGTTCTT
8869797 AACAAATTCAAACTTCAAGAACCACCACCTTAGAGCTGTCCATGCAAGTAAGGATCTAAACAAAT
1 AACAAATTCAAACTTCAAGAACCACCACCTTAGAGCTGTCCATGCAAGTAAGGATCTAAACAAAT
8869862 TCAAACTTCAGG
66 TCAAACTTCAGG
* *
8869874 AACAAATTCAAACTTCAGGAACCACCACCTTAGAGCTGTCCATGCAAGTAGGGATCTAAACAAAT
1 AACAAATTCAAACTTCAAGAACCACCACCTTAGAGCTGTCCATGCAAGTAAGGATCTAAACAAAT
8869939 TCAAACTTCAGG
66 TCAAACTTCAGG
8869951 AAC
1 AAC
8869954 CATCTGTGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (77 bp):
AACAAATTCAAACTTCAAGAACCACCACCTTAGAGCTGTCCATGCAAGTAAGGATCTAAACAAAT
TCAAACTTCAGG
Found at i:8874926 original size:25 final size:26
Alignment explanation
Indices: 8874865--8874927 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
8874855 ACAACCTAAA
8874865 ATTATTATATTAAATTCATTATAATTT
1 ATTATTA-ATTAAATTCATTATAATTT
*
8874892 -TAATGT-ATTAAATTCATTA-AATTT
1 ATTAT-TAATTAAATTCATTATAATTT
8874916 ATTATTAATTAA
1 ATTATTAATTAA
8874928 TACATTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
24 6 0.19
25 21 0.68
26 3 0.10
27 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTATTAATTAAATTCATTATAATTT
Found at i:8875706 original size:25 final size:24
Alignment explanation
Indices: 8875636--8875707 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
8875626 ACCTAAGAGT
8875636 ATTC-TTAAAATTATTA-TATTAA
1 ATTCATTAAAATTATTATTATTAA
*
8875658 ATTCATTATAATT-TTAATGTATTAA
1 ATTCATTAAAATTATT-AT-TATTAA
8875683 ATTCATTAAAATTATTATTAATTAA
1 ATTCATTAAAATTATTATT-ATTAA
8875708 TACATTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.14
23 8 0.19
24 1 0.02
25 25 0.60
26 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.50
Consensus pattern (24 bp):
ATTCATTAAAATTATTATTATTAA
Found at i:8876032 original size:781 final size:770
Alignment explanation
Indices: 8874575--8876138 Score: 2648
Period size: 781 Copynumber: 2.0 Consensus size: 770
8874565 AAATATTATA
*
8874575 AAAAATTAATTAATTTTTTATATAAAATAATTCAATCCTATCCAAATGAAAAATATTTTTTTAAT
1 AAAAATAAATTAATTTTTTATATAAAATAATTCAATCCTATCCAAA-GAAAAATATTTTTTTAAT
* * *
8874640 CAATGAGATTAAATTTACTTATTCTATTATGTTTTTAAAAATTATATTAATTATTTAAATTATAT
65 CAATGAAATTAAATTTACTTATGCTATTATGTTTTTAAAAATTATATTAATTATTGAAATTATAT
* *
8874705 AAGCTTTGAGGAATAATAATTTTGATAAATAAATAAATTATCTATATTAATTCTTACACATATTA
130 AAGCTTTGAGAAATAATAATTTTGATAAATAAATAAATTATCTATATTAATTCTTACACATATCA
* * * *
8874770 AACACAAAATTAAATTAAATAATTTAATTTTATTTTATTTATAATATTATTTTATCGTATCTGAA
195 AACACAAAATTAAATTAAATAATTTAATTTAATTCTATTTATAATATCATTTTATCATATCTGAA
*
8874835 CATAGTTTTGTATATCAATCACAACCTAAAATTATTATATTAAATTCATTATAATTTTAATGTAT
260 CATAATTTTGTATATCAATCACAACCTAAAATTATTATATTAAATTCATTATAATTTTAATGTAT
*
8874900 TAAATTCATTAAATTTATTATTAATTAATACATTTAATATAAATATTATTATAAATAATAATTTA
325 TAAATTCATTAAAATTATTATTAATTAATACATTTAATATAAATATTATTATAAATAATAATTTA
*
8874965 CTTAATCTTTTAACAAAATTCAAAAAAGAATGTATTAAATAAAAATTTAAAAAGGTGAATTTTGG
390 CTCAATCTTTTAACAAAATTCAAAAAAGAATGTATTAAATAAAAATTTAAAAAGGTGAATTTTGG
* *
8875030 GGGTTCTAAGCTGTAAAGCTACTCATTTGCAATTGGATTAACATTTAAATGCATAGTTATTAAAA
455 GGGTTCTAAGCTGTAAAACTACTCATTTGCAATTAGATTAACATTTAAATGCATAGTTATTAAAA
*
8875095 TAAAATTGAAAAATAAATCATTTAAGGTGTCAGCTCACTCGATTATTAATTTAACCATTACATCA
520 TAAAATTGAAAAATAAATCATTTAAGATGTCAGCTCACTCGATTATTAATTTAACCATTACATCA
* *
8875160 ATCGAATTAATTATCAAATCAATAAAAATATTTTTAAAATATAAATATTTCAAAAGATTAATCTT
585 ATCAAATTAATTATCAAATCAATAAAAATATTTTTAAAATATAAATATTTCAAAAGATTAAGCTT
8875225 TTATGTGATAAATAATAAAATTTTATTATAATAATTTC-ATTTAAAATTAAAATATATAACGTAA
650 TTATGTGATAAATAATAAAATTTTATTATAATAATTTCAATTTAAAATTAAAATATATAACGTAA
8875289 TATAATAAGTGAGAAAATTTTATATATTTAAAAAATATATAATAAATTTAACATAC
715 TATAATAAGTGAGAAAATTTTATATATTTAAAAAATATATAATAAATTTAACATAC
* *
8875345 AAAAATAAATTAATTTTTTTTATAAAATGATTCAATCCTAAT-CAAA-AAAAATATTTTTTTAAT
1 AAAAATAAATTAATTTTTTATATAAAATAATTCAATCCT-ATCCAAAGAAAAATATTTTTTTAAT
* *
8875408 CCATGAAATTAAATTTACTTATGCTATTATGTTTTTAAAAATTATATTAATTATTGAAGTTATAT
65 CAATGAAATTAAATTTACTTATGCTATTATGTTTTTAAAAATTATATTAATTATTGAAATTATAT
8875473 AAGCTTTGAGAAATAATAATTTTGATAAATAAATAAATTATCTATATTAATTCTTACACATATCA
130 AAGCTTTGAGAAATAATAATTTTGATAAATAAATAAATTATCTATATTAATTCTTACACATATCA
* * * * * * *
8875538 AATATAAGATTAAATTACATTATTTAATTTAATTCTATTTATAATATCATTTTATTATATTTGAA
195 AACACAAAATTAAATTAAATAATTTAATTTAATTCTATTTATAATATCATTTTATCATATCTGAA
8875603 CATAATTTTGTATATCAATCACAACCTAAGAGTATTCTTAAAATTATTATATTAAATTCATTATA
260 CATAATTTTGTATATCAATCACAA-C----------C-TAAAATTATTATATTAAATTCATTATA
8875668 ATTTTAATGTATTAAATTCATTAAAATTATTATTAATTAATACATTTAATATAAATATTATTATA
313 ATTTTAATGTATTAAATTCATTAAAATTATTATTAATTAATACATTTAATATAAATATTATTATA
8875733 AATAATAATTTACTCAATCTTTTAACAAAATTCAAAAAAGAATGTATTAAATAAAAATTTAAAAA
378 AATAATAATTTACTCAATCTTTTAACAAAATTCAAAAAAGAATGTATTAAATAAAAATTTAAAAA
8875798 GGTGAATTTTTGGGGGTTCTAAGCTGTAAAACTACTCATTTGCAATTAGATTAACATTTAAATGC
443 GGTGAA-TTTTGGGGGTTCTAAGCTGTAAAACTACTCATTTGCAATTAGATTAACATTTAAATGC
* *
8875863 ATAGTTATTAAAATTAAATTGAAAAATAAATCATTTAAGATGTCAGCTCACTTGATTATTAATTT
507 ATAGTTATTAAAATAAAATTGAAAAATAAATCATTTAAGATGTCAGCTCACTCGATTATTAATTT
*
8875928 AACCATTACATCAATCAAATTAATTATCGAATCAATAAAAATATTTTTAAAATATAAATATTTCA
572 AACCATTACATCAATCAAATTAATTATCAAATCAATAAAAATATTTTTAAAATATAAATATTTCA
8875993 AAAGATTAAGCTTTTATGTGATAAATAATAAAATTTTATTATAATAATTTCATATTTAAAATTAA
637 AAAGATTAAGCTTTTATGTGATAAATAATAAAATTTTATTATAATAATTTCA-ATTTAAAATTAA
* *
8876058 AATATATAACGTAATATAATAAGTGTGAAAATTTTATATATTTAAAAAATATATAATAAATTTCA
701 AATATATAACGTAATATAATAAGTGAGAAAATTTTATATATTTAAAAAATATATAATAAATTTAA
*
8876123 CGTAC
766 CATAC
8876128 AAAAATAAATT
1 AAAAATAAATT
8876139 TAAAATCTAA
Statistics
Matches: 743, Mismatches: 35, Indels: 19
0.93 0.04 0.02
Matches are distributed among these distances:
768 217 0.29
769 1 0.00
770 40 0.05
771 2 0.00
779 1 0.00
780 161 0.22
781 231 0.31
783 90 0.12
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.41
Consensus pattern (770 bp):
AAAAATAAATTAATTTTTTATATAAAATAATTCAATCCTATCCAAAGAAAAATATTTTTTTAATC
AATGAAATTAAATTTACTTATGCTATTATGTTTTTAAAAATTATATTAATTATTGAAATTATATA
AGCTTTGAGAAATAATAATTTTGATAAATAAATAAATTATCTATATTAATTCTTACACATATCAA
ACACAAAATTAAATTAAATAATTTAATTTAATTCTATTTATAATATCATTTTATCATATCTGAAC
ATAATTTTGTATATCAATCACAACCTAAAATTATTATATTAAATTCATTATAATTTTAATGTATT
AAATTCATTAAAATTATTATTAATTAATACATTTAATATAAATATTATTATAAATAATAATTTAC
TCAATCTTTTAACAAAATTCAAAAAAGAATGTATTAAATAAAAATTTAAAAAGGTGAATTTTGGG
GGTTCTAAGCTGTAAAACTACTCATTTGCAATTAGATTAACATTTAAATGCATAGTTATTAAAAT
AAAATTGAAAAATAAATCATTTAAGATGTCAGCTCACTCGATTATTAATTTAACCATTACATCAA
TCAAATTAATTATCAAATCAATAAAAATATTTTTAAAATATAAATATTTCAAAAGATTAAGCTTT
TATGTGATAAATAATAAAATTTTATTATAATAATTTCAATTTAAAATTAAAATATATAACGTAAT
ATAATAAGTGAGAAAATTTTATATATTTAAAAAATATATAATAAATTTAACATAC
Found at i:8884094 original size:9 final size:8
Alignment explanation
Indices: 8884083--8884193 Score: 80
Period size: 8 Copynumber: 13.0 Consensus size: 8
8884073 AAATTCAAAA
8884083 AAAAAATT
1 AAAAAATT
8884091 AAAAAAATT
1 -AAAAAATT
*
8884100 AAAAAACT
1 AAAAAATT
*
8884108 CAAAAATT
1 AAAAAATT
*
8884116 AAAAATAAAT
1 -AAAA-AATT
8884126 AAATAAA-T
1 AAA-AAATT
8884134 AAAATAAGGTT
1 AAAA-AA--TT
* *
8884145 CAAACATT
1 AAAAAATT
*
8884153 AAATAATT
1 AAAAAATT
*
8884161 AAAAATTT
1 AAAAAATT
8884169 CAAAAAATT
1 -AAAAAATT
8884178 AAAAAATT
1 AAAAAATT
8884186 AAAAAATT
1 AAAAAATT
8884194 CTAAGTCCAT
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
7 1 0.01
8 48 0.59
9 23 0.28
10 5 0.06
11 4 0.05
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (8 bp):
AAAAAATT
Found at i:8887961 original size:12 final size:12
Alignment explanation
Indices: 8887944--8887972 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8887934 ATAAATATCA
8887944 AATTTATTATAC
1 AATTTATTATAC
8887956 AATTTATTATAC
1 AATTTATTATAC
8887968 AATTT
1 AATTT
8887973 TAGTCTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
AATTTATTATAC
Found at i:8896338 original size:111 final size:112
Alignment explanation
Indices: 8896179--8896409 Score: 349
Period size: 111 Copynumber: 2.1 Consensus size: 112
8896169 CATTTTTATA
* * * * *
8896179 ATTAGCTAAATCAGTATCTAATATTTTTTAAATCAATATCAAATCAATATAGAGTATTATTGGAA
1 ATTA-CTAAATCAATACCTAATATTCTCTAAATCAATATCAAATCAATATAGAGTATTACTGGAA
* *
8896244 TATTA-TCATAATAATATCATTGAAATCAATTTAGAATATTACCAAAAT
65 TATTACT-AAAATAATATCATTGAAATCAATCTAGAATATTACCAAAAT
*
8896292 ATTACTAAATCAATACCTAATATTCTCTAAA-CAATATCAAATCAATATAGATTATTACTGGAAT
1 ATTACTAAATCAATACCTAATATTCTCTAAATCAATATCAAATCAATATAGAGTATTACTGGAAT
*
8896356 ATTACTAAAATAATATCATTGAAATCAATCTAGAATATTACCAGAAT
66 ATTACTAAAATAATATCATTGAAATCAATCTAGAATATTACCAAAAT
8896403 ATTACTA
1 ATTACTA
8896410 GAATATCGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
111 80 0.74
112 24 0.22
113 4 0.04
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (112 bp):
ATTACTAAATCAATACCTAATATTCTCTAAATCAATATCAAATCAATATAGAGTATTACTGGAAT
ATTACTAAAATAATATCATTGAAATCAATCTAGAATATTACCAAAAT
Found at i:8901069 original size:11 final size:11
Alignment explanation
Indices: 8901055--8901127 Score: 58
Period size: 11 Copynumber: 6.4 Consensus size: 11
8901045 ATTAATTTAA
8901055 AATATTACTAG
1 AATATTACTAG
* *
8901066 AATATTACAAAAAT
1 AATATTAC---TAG
* *
8901080 AATATTATTAA
1 AATATTACTAG
8901091 AATCATTA-TAG
1 AAT-ATTACTAG
*
8901102 AATATTACTAA
1 AATATTACTAG
8901113 AATATTACTAG
1 AATATTACTAG
8901124 AATA
1 AATA
8901128 ATATCGTTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
10 4 0.08
11 33 0.67
12 4 0.08
14 8 0.16
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (11 bp):
AATATTACTAG
Found at i:8901093 original size:47 final size:47
Alignment explanation
Indices: 8901041--8901167 Score: 123
Period size: 47 Copynumber: 2.7 Consensus size: 47
8901031 TAAATCAATA
* *
8901041 TAAAATTAATTTAAAATATTACTAGAATATTACAAAAATAATATTAT
1 TAAAATTAATTTAAAATATTACTAAAATATTACAAAAATAATATCAT
* * * * *
8901088 TAAAA-TCATTATAGAATATTACTAAAATATTACTAGAATAATATCGT
1 TAAAATTAATT-TAAAATATTACTAAAATATTACAAAAATAATATCAT
* * * *
8901135 TGAAATCAATCTAAAATATT-GTCAAAATATTAC
1 TAAAATTAATTTAAAATATTACT-AAAATATTAC
8901168 TAGAATATCA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
46 5 0.08
47 57 0.89
48 2 0.03
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (47 bp):
TAAAATTAATTTAAAATATTACTAAAATATTACAAAAATAATATCAT
Found at i:8901108 original size:22 final size:22
Alignment explanation
Indices: 8901080--8901127 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
8901070 TTACAAAAAT
*
8901080 AATATTATTAAAATCATTA-TAG
1 AATATTACTAAAAT-ATTACTAG
8901102 AATATTACTAAAATATTACTAG
1 AATATTACTAAAATATTACTAG
8901124 AATA
1 AATA
8901128 ATATCGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (22 bp):
AATATTACTAAAATATTACTAG
Found at i:8901174 original size:22 final size:23
Alignment explanation
Indices: 8901080--8901175 Score: 58
Period size: 22 Copynumber: 4.2 Consensus size: 23
8901070 TTACAAAAAT
* *
8901080 AATATTATTAAAATCATTA-TAG
1 AATATTGTCAAAATCATTACTAG
*
8901102 AATATT-ACTAAAAT-ATTACTAG
1 AATATTGTC-AAAATCATTACTAG
** * *
8901124 AATAATATCGTTGAAATCAAT-CTAA
1 AAT-AT-T-GTCAAAATCATTACTAG
8901149 AATATTGTCAAAAT-ATTACTAG
1 AATATTGTCAAAATCATTACTAG
8901171 AATAT
1 AATAT
8901176 CACTGACACA
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
21 6 0.11
22 31 0.56
23 3 0.05
24 3 0.05
25 10 0.18
26 2 0.04
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (23 bp):
AATATTGTCAAAATCATTACTAG
Found at i:8902394 original size:21 final size:21
Alignment explanation
Indices: 8902365--8902406 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8902355 GCAGGTTAGT
*
8902365 TACTATAATGGTGATATTAAA
1 TACTATAATGGTGAGATTAAA
*
8902386 TACTGTAATGGTGAGATTAAA
1 TACTATAATGGTGAGATTAAA
8902407 ATCAATAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (21 bp):
TACTATAATGGTGAGATTAAA
Found at i:8902415 original size:21 final size:21
Alignment explanation
Indices: 8902369--8902416 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8902359 GTTAGTTACT
* *
8902369 ATAATGGTGATATTAAATACT
1 ATAATGGTGAGATTAAATACA
*
8902390 GTAATGGTGAGATTAAA-ATCA
1 ATAATGGTGAGATTAAATA-CA
8902411 ATAATG
1 ATAATG
8902417 AAAATATGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (21 bp):
ATAATGGTGAGATTAAATACA
Found at i:8902656 original size:28 final size:25
Alignment explanation
Indices: 8902624--8902697 Score: 67
Period size: 28 Copynumber: 2.8 Consensus size: 25
8902614 ATTTTAATAA
8902624 TATAAAATAATAAATTTTATTTTTAGT
1 TATAAAATAATAAATTTTATTTTT--T
* **
8902651 TCATAATATAATATTTATTTATTTTTT
1 T-ATAAAATAATAAAT-TTTATTTTTT
* *
8902678 TATATAATAATAAAATTTAT
1 TATAAAATAATAAATTTTAT
8902698 AAAATAATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
25 5 0.14
26 9 0.24
27 3 0.08
28 11 0.30
29 9 0.24
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
TATAAAATAATAAATTTTATTTTTT
Found at i:8902698 original size:17 final size:17
Alignment explanation
Indices: 8902676--8902712 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8902666 TATTTATTTT
*
8902676 TTTATATAATAATAAAA
1 TTTATAAAATAATAAAA
*
8902693 TTTATAAAATAATAATA
1 TTTATAAAATAATAAAA
8902710 TTT
1 TTT
8902713 TTAGGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATAAAATAATAAAA
Found at i:8903775 original size:22 final size:21
Alignment explanation
Indices: 8903750--8903792 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8903740 TGATTGAATT
8903750 AATAAAATAAAAGTAATGTAAA
1 AATAAAATAAAA-TAATGTAAA
* *
8903772 AATAATATAAAATGATGTAAA
1 AATAAAATAAAATAATGTAAA
8903793 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
AATAAAATAAAATAATGTAAA
Found at i:8913775 original size:24 final size:24
Alignment explanation
Indices: 8913737--8913793 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
8913727 TATTTGAAAG
8913737 TTTAAAGTATAAATTGTATAT-TTT
1 TTTAAAGTATAAATT-TATATATTT
* *
8913761 TTTAAATTATCAATTTATATATTT
1 TTTAAAGTATAAATTTATATATTT
8913785 TTTCAAAGT
1 TTT-AAAGT
8913794 TCAAGTACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.18
24 19 0.68
25 4 0.14
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (24 bp):
TTTAAAGTATAAATTTATATATTT
Found at i:8916603 original size:38 final size:38
Alignment explanation
Indices: 8916547--8916623 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
8916537 CAGTTGATCC
*
8916547 AGATCAAATGAAAGGGTTCCACTGTATATTTC-ACCAAA
1 AGATCAAATGAAACGGTTCCACTGTATA-TTCAACCAAA
*
8916585 AGATCAAATGAAACGGTTCTACTGTATATTCAACCAAA
1 AGATCAAATGAAACGGTTCCACTGTATATTCAACCAAA
8916623 A
1 A
8916624 AATATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 3 0.08
38 33 0.92
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (38 bp):
AGATCAAATGAAACGGTTCCACTGTATATTCAACCAAA
Found at i:8921004 original size:29 final size:28
Alignment explanation
Indices: 8920957--8921093 Score: 91
Period size: 30 Copynumber: 4.7 Consensus size: 28
8920947 AAGATTCAGA
* *
8920957 TTTTAAGGGTTTAGATTTAAGTTTTGAGGG
1 TTTT-AGGGTTTAGTTTTAAG-TTTGAAGG
* * *
8920987 TTTTAGGGTTTGGTTTTAAGGCATGGAAGG
1 TTTTAGGGTTTAGTTTTAA-G-TTTGAAGG
* *
8921017 -TTTAGGGTTTTGATTTTAGAGTTTGAAGA
1 TTTTAGGGTTTAG-TTTTA-AGTTTGAAGG
*
8921046 TTTTAGGGTTTCAGTTTTAAAATTTG-AGG
1 TTTTAGGGTTT-AGTTTT-AAGTTTGAAGG
* *
8921075 -TTTAGGGTTTTGATTTAAG
1 TTTTAGGGTTTAGTTTTAAG
8921094 GGTTTGGATT
Statistics
Matches: 85, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
26 2 0.02
27 4 0.05
28 10 0.12
29 31 0.36
30 35 0.41
31 3 0.04
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (28 bp):
TTTTAGGGTTTAGTTTTAAGTTTGAAGG
Found at i:8921032 original size:58 final size:56
Alignment explanation
Indices: 8920962--8921093 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 56
8920952 TCAGATTTTA
* * * * *
8920962 AGGGTTTAGATTTAAGTTTTGAGGGTTTTAGGGTTT-GGTTTTAAGGCA-TGGAAGGTTT
1 AGGGTTTTGATTTAAG-TTTGAAGATTTTAGGGTTTCAGTTTTAA--AATTGG-AGGTTT
*
8921020 AGGGTTTTGATTTTAGAGTTTGAAGATTTTAGGGTTTCAGTTTTAAAATTTGAGGTTT
1 AGGGTTTTGA-TTTA-AGTTTGAAGATTTTAGGGTTTCAGTTTTAAAATTGGAGGTTT
8921078 AGGGTTTTGATTTAAG
1 AGGGTTTTGATTTAAG
8921094 GGTTTGGATT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
56 2 0.03
57 4 0.06
58 26 0.41
59 23 0.36
60 9 0.14
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (56 bp):
AGGGTTTTGATTTAAGTTTGAAGATTTTAGGGTTTCAGTTTTAAAATTGGAGGTTT
Found at i:8921134 original size:58 final size:57
Alignment explanation
Indices: 8921013--8921135 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 57
8921003 TAAGGCATGG
* *
8921013 AAGGTTTAGGGTTTTGATTTTAGAGTTTGAAGATTTTAGGGTTTCAGTTTTAAAATTT
1 AAGGTTTAGGGTTTTGATTTAAGAGTTTG-AGATTTTAGGGTTTCAGATTTAAAATTT
* * * *
8921071 GAGGTTTAGGGTTTTGATTTAAGGGTTTG-GATTTTAGGAGTTT-GGATTTAAGAGTTT
1 AAGGTTTAGGGTTTTGATTTAAGAGTTTGAGATTTTAGG-GTTTCAGATTTAA-AATTT
8921128 AAAGGTTT
1 -AAGGTTT
8921136 GAGATTTCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
56 15 0.27
57 8 0.15
58 32 0.58
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.46
Consensus pattern (57 bp):
AAGGTTTAGGGTTTTGATTTAAGAGTTTGAGATTTTAGGGTTTCAGATTTAAAATTT
Found at i:8921180 original size:16 final size:16
Alignment explanation
Indices: 8921145--8921254 Score: 143
Period size: 16 Copynumber: 6.9 Consensus size: 16
8921135 TGAGATTTCA
8921145 GATTTTAGGGGGTTTTG
1 GATTTTA-GGGGTTTTG
* *
8921162 GATTTTAGAGGTTTCG
1 GATTTTAGGGGTTTTG
8921178 GATTTTAGGGG-TTTG
1 GATTTTAGGGGTTTTG
* * *
8921193 AATTTAAGGGATTTTG
1 GATTTTAGGGGTTTTG
8921209 GATTTTAGGGGTTTTG
1 GATTTTAGGGGTTTTG
*
8921225 AATTTTA-GGGTTTTG
1 GATTTTAGGGGTTTTG
8921240 GATTTTAGGGGTTTT
1 GATTTTAGGGGTTTT
8921255 AGAAACCTAG
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
15 25 0.32
16 47 0.59
17 7 0.09
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.48
Consensus pattern (16 bp):
GATTTTAGGGGTTTTG
Found at i:8921208 original size:47 final size:47
Alignment explanation
Indices: 8921148--8921254 Score: 142
Period size: 47 Copynumber: 2.3 Consensus size: 47
8921138 GATTTCAGAT
* *
8921148 TTTAGGGGGTTTTGGATTTTAGAGGTTTCGGATTTTAGGGGTTTGAA
1 TTTAAGGGGTTTTGGATTTTAGAGGTTTCGAATTTTAGGGGTTTGAA
* * * * *
8921195 TTTAAGGGATTTTGGATTTTAGGGGTTTTGAATTTTAGGGTTTTGGA
1 TTTAAGGGGTTTTGGATTTTAGAGGTTTCGAATTTTAGGGGTTTGAA
*
8921242 TTTTAGGGGTTTT
1 TTTAAGGGGTTTT
8921255 AGAAACCTAG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.49
Consensus pattern (47 bp):
TTTAAGGGGTTTTGGATTTTAGAGGTTTCGAATTTTAGGGGTTTGAA
Found at i:8921215 original size:31 final size:31
Alignment explanation
Indices: 8921145--8921254 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
8921135 TGAGATTTCA
* *
8921145 GATTTTAGGGGGTTTTGGATTTTAGAGGTTTCG
1 GATTTTA-GGGGTTTTGAATTTTAG-GGTTTTG
*
8921178 GATTTTAGGGG-TTTGAATTTAAGGGATTTTG
1 GATTTTAGGGGTTTTGAATTTTAGGG-TTTTG
8921209 GATTTTAGGGGTTTTGAATTTTAGGGTTTTG
1 GATTTTAGGGGTTTTGAATTTTAGGGTTTTG
8921240 GATTTTAGGGGTTTT
1 GATTTTAGGGGTTTT
8921255 AGAAACCTAG
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.03
31 45 0.63
32 17 0.24
33 7 0.10
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.48
Consensus pattern (31 bp):
GATTTTAGGGGTTTTGAATTTTAGGGTTTTG
Found at i:8921474 original size:16 final size:16
Alignment explanation
Indices: 8921453--8921483 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8921443 ATATTTAGGC
8921453 GAAATTATTTTTTTAG
1 GAAATTATTTTTTTAG
8921469 GAAATTATTTTTTTA
1 GAAATTATTTTTTTA
8921484 TTCCATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
GAAATTATTTTTTTAG
Found at i:8921700 original size:18 final size:19
Alignment explanation
Indices: 8921653--8921702 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
8921643 ATCATGCATA
*
8921653 AATATAT-AAAAAATACTT
1 AATATATAAAAAAATACAT
8921671 AA-A-ATAACAAAAATA-AT
1 AATATATAA-AAAAATACAT
8921688 AATATATAAAAAAAT
1 AATATATAAAAAAAT
8921703 TAGAAAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.07
17 5 0.19
18 16 0.59
19 4 0.15
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
AATATATAAAAAAATACAT
Found at i:8922795 original size:171 final size:174
Alignment explanation
Indices: 8922457--8922803 Score: 447
Period size: 171 Copynumber: 2.0 Consensus size: 174
8922447 AAAGAGACTG
*
8922457 GATTAAACACGAGTCAGAAAAAAATAACAATCGAGATTAAACTACGATTTTGGATTAAAGAAATA
1 GATTAAACACGAGTCAGAAAAAAACAACAATCGAGATTAAACTACGATTTTGGATTAAAGAAATA
*
8922522 GATATTGAACCGCAAATCAGAATAACGTCAACTTGGATTGAATCACAAGTCAAAAAATAAAGAGA
66 GAGATTGAACCGCAAATCAG-A-AAC-TCAA--TGGATTGAATCACAAGTCAAAAAATAAAGAGA
8922587 TCGGTATTAAACCACAAATCAAAAAATAACAACAATCGAGATTAACAGA
126 TCGGTATTAAACCACAAATCAAAAAATAACAACAATCGAGATTAACAGA
* * *
8922636 GATTAAACCATGAGTCAGAAAATAACAACAATTGAGATTAAACTACGATTTTGGATTAAAGAAAT
1 GATTAAA-CACGAGTCAGAAAAAAACAACAATCGAGATTAAACTACGATTTTGGATTAAAGAAAT
* * * *
8922701 CA-AGATTGAATCGCGAGTCAG-AA-T-AA-GGATTGAATCACAAGTCAGAAAATAAAGAGA-CT
65 -AGAGATTGAACCGCAAATCAGAAACTCAATGGATTGAATCACAAGTCAAAAAATAAAGAGATC-
* * * *
8922760 GAG-ATTAAACCACAAGTTAGAAAATAACTACAATCGAGATTAAC
128 G-GTATTAAACCACAAATCAAAAAATAACAACAATCGAGATTAAC
8922804 CTGTGATTTT
Statistics
Matches: 151, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
170 1 0.01
171 68 0.45
172 1 0.01
174 2 0.01
175 1 0.01
177 2 0.01
179 7 0.05
180 68 0.45
181 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (174 bp):
GATTAAACACGAGTCAGAAAAAAACAACAATCGAGATTAAACTACGATTTTGGATTAAAGAAATA
GAGATTGAACCGCAAATCAGAAACTCAATGGATTGAATCACAAGTCAAAAAATAAAGAGATCGGT
ATTAAACCACAAATCAAAAAATAACAACAATCGAGATTAACAGA
Found at i:8922969 original size:135 final size:135
Alignment explanation
Indices: 8922727--8922993 Score: 419
Period size: 135 Copynumber: 2.0 Consensus size: 135
8922717 GTCAGAATAA
* * * *
8922727 GGATTGAATCACAAGTCAGAAAATAAAGAGACTGAGATTAAACCACAAGTTAGAAAATAACTACA
1 GGATTGAATCACAAGTCAAAAAATAAAGAGACTAAGATTAAACCACAAGTCAGAAAATAACAACA
*
8922792 ATCGAGATTAACCTGTGATTTTGGATTTAAAAAATCGAGATTGAACCACGAGTCAGAATAATGTC
66 ATCGAGATTAACCTGTGATTTTGGATTTAAAAAATCGAGATTGAACAACGAGTCAGAATAATGTC
8922857 AACTT
131 AACTT
* *
8922862 GGATTGAATCACAAGTCAAAAAATAAAGAGATTAAGATTAAACCACGAGTCAGAAAATAACAACA
1 GGATTGAATCACAAGTCAAAAAATAAAGAGACTAAGATTAAACCACAAGTCAGAAAATAACAACA
* * * *
8922927 ATCGAGGTTAACCTGTGATTTTGGA-TTACAGAAATTGGGATTGAACAACGAGTCAGAATAATGT
66 ATCGAGATTAACCTGTGATTTTGGATTTA-AAAAATCGAGATTGAACAACGAGTCAGAATAATGT
8922991 CAA
130 CAA
8922994 TCAAGATTAA
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
134 3 0.03
135 117 0.98
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (135 bp):
GGATTGAATCACAAGTCAAAAAATAAAGAGACTAAGATTAAACCACAAGTCAGAAAATAACAACA
ATCGAGATTAACCTGTGATTTTGGATTTAAAAAATCGAGATTGAACAACGAGTCAGAATAATGTC
AACTT
Found at i:8923243 original size:109 final size:109
Alignment explanation
Indices: 8923122--8923637 Score: 648
Period size: 109 Copynumber: 4.7 Consensus size: 109
8923112 AATTTGAAAA
* * * * *
8923122 CTATAAAAATGATCAGGATTAAACCATGAGTCAAATATTAAAGATAACTGGGACTGAATCGTAAG
1 CTATAAGAATGATCAGGATTAAACCATGAGTCAAAGATTAAAGATAACTGAGACTGAACCGCAAG
* * * *
8923187 TCAGAGAAATAAAAGCAACTAGGATTAAATCGTAAGTCAAGAAG
66 TCAAAGAAATAAAAGCGACTAGGATTAAACCATAAGTCAAGAAG
* * *
8923231 CTATAAGAATGAT-TGAGATTAAACCATGAGTCAAAGATTAAAGATAACTGAGATTAAACCGCAA
1 CTATAAGAATGATCAG-GATTAAACCATGAGTCAAAGATTAAAGATAACTGAGACTGAACCGCAA
* * *
8923295 GTCAAAGAAATAAAAGTGACTAGGATTAAACCGTAAGTCAAGAAA
65 GTCAAAGAAATAAAAGCGACTAGGATTAAACCATAAGTCAAGAAG
* * **
8923340 CTATAAGAATGATC-GAGATTAAACCACGAGTCAAAGATTAATGACGA-TCGAGACTGAACCGCA
1 CTATAAGAATGATCAG-GATTAAACCATGAGTCAAAGATTAAAGATAACT-GAGACTGAACCGCA
* **
8923403 AGTCAAAGAAATAAAAGCCACTAGGATTAAACCATAAGTTGAGAAG
64 AGTCAAAGAAATAAAAGCGACTAGGATTAAACCATAAGTCAAGAAG
* * * * *
8923449 CTATAAGAAGGAACAAGATTAAACCACGTGTCAAAGATTAAAGATAACTGAGACTGAACCGCAAG
1 CTATAAGAATGATCAGGATTAAACCATGAGTCAAAGATTAAAGATAACTGAGACTGAACCGCAAG
*
8923514 TCAAAGAAATAAAAGCGACTAGGATTAAACCATAAGTCGAGAAG
66 TCAAAGAAATAAAAGCGACTAGGATTAAACCATAAGTCAAGAAG
* * * *
8923558 TTATAAGAATGATCAGGATTAAATCATGAGTTAAAGATTAACAACGAT--CT-AGACTGAATCGC
1 CTATAAGAATGATCAGGATTAAACCATGAGTCAAAGATT-A-AA-GATAACTGAGACTGAACCGC
8923620 AAGTCAAAGAAATAAAAG
63 AAGTCAAAGAAATAAAAG
8923638 TAACCATAAC
Statistics
Matches: 356, Mismatches: 43, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
108 2 0.01
109 345 0.97
110 4 0.01
111 2 0.01
112 3 0.01
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (109 bp):
CTATAAGAATGATCAGGATTAAACCATGAGTCAAAGATTAAAGATAACTGAGACTGAACCGCAAG
TCAAAGAAATAAAAGCGACTAGGATTAAACCATAAGTCAAGAAG
Found at i:8923298 original size:35 final size:34
Alignment explanation
Indices: 8923239--8923411 Score: 107
Period size: 35 Copynumber: 4.8 Consensus size: 34
8923229 AGCTATAAGA
***
8923239 ATGATTGAGATTAAACCATGAGTCAAAGATTAAAG
1 ATGA-TGAGATTAAACCGCAAGTCAAAGATTAAAG
* *
8923274 ATAACTGAGATTAAACCGCAAGTCAAAGAAATAAA-
1 ATGA-TGAGATTAAACCGCAAGTCAAAG-ATTAAAG
* * *
8923309 AGTGACT-AGGATTAAACCGTAAGTCAAGAAACTATAAG
1 A-TGA-TGA-GATTAAACCGCAAGTCAA-AGATTA-AAG
* * *
8923347 AATGATCGAGATTAAACCACGAGTCAAAGATTAATG
1 -ATGAT-GAGATTAAACCGCAAGTCAAAGATTAAAG
* * *
8923383 ACGATCGAGACTGAACCGCAAGTCAAAGA
1 ATGAT-GAGATTAAACCGCAAGTCAAAGA
8923412 AATAAAAGCC
Statistics
Matches: 108, Mismatches: 21, Indels: 18
0.73 0.14 0.12
Matches are distributed among these distances:
35 49 0.45
36 31 0.29
37 8 0.07
38 18 0.17
39 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (34 bp):
ATGATGAGATTAAACCGCAAGTCAAAGATTAAAG
Found at i:8923326 original size:36 final size:36
Alignment explanation
Indices: 8923282--8923544 Score: 107
Period size: 35 Copynumber: 7.2 Consensus size: 36
8923272 AGATAACTGA
8923282 GATTAAACCGCAAGTCAAAGAAATAAAAGTGACTAG
1 GATTAAACCGCAAGTCAAAGAAATAAAAGTGACTAG
* * *
8923318 GATTAAACCGTAAGTC-AAGAAACTATAAGAATGA-TCG
1 GATTAAACCGCAAGTCAAAGAAA-TA-AA-AGTGACTAG
* * * *
8923355 AGATTAAACCACGAGTCAAAG--AT-TAA-TGACGATCG
1 -GATTAAACCGCAAGTCAAAGAAATAAAAGTGAC--TAG
* * **
8923390 AGACTGAACCGCAAGTCAAAGAAATAAAAGCCACTAG
1 -GATTAAACCGCAAGTCAAAGAAATAAAAGTGACTAG
** * ** *
8923427 GATTAAACCATAAGTTGAGAAGCTATAAGAAG-GAAC-AA
1 GATTAAACCGCAAG-TCA-AAGAAATAA-AAGTG-ACTAG
* ** * *
8923465 GATTAAACCACGTGTCAAAG--ATTAAAGATAACT-G
1 GATTAAACCGCAAGTCAAAGAAATAAAAG-TGACTAG
* * *
8923499 AGACTGAACCGCAAGTCAAAGAAATAAAAGCGACTAG
1 -GATTAAACCGCAAGTCAAAGAAATAAAAGTGACTAG
8923536 GATTAAACC
1 GATTAAACC
8923545 ATAAGTCGAG
Statistics
Matches: 163, Mismatches: 41, Indels: 46
0.65 0.16 0.18
Matches are distributed among these distances:
32 3 0.02
33 4 0.02
34 6 0.04
35 41 0.25
36 41 0.25
37 20 0.12
38 38 0.23
39 10 0.06
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.17
Consensus pattern (36 bp):
GATTAAACCGCAAGTCAAAGAAATAAAAGTGACTAG
Found at i:8923497 original size:218 final size:218
Alignment explanation
Indices: 8923101--8923637 Score: 722
Period size: 218 Copynumber: 2.5 Consensus size: 218
8923091 AGGAGACTTA
* * * *
8923101 GATTAAACCGTAATTTGA-AAACTATAAAAATGATCAGGATTAAACCATGAGTCAAATATTAAAG
1 GATTAAACCGTAAGTCGAGAAACTATAAGAATGATCAGGATTAAACCATGAGTCAAAGATTAAAG
* * * * * * *
8923165 A-TAACTGGGACTGAATCGTAAGTCAGAGAAATAAAAGCAACTAGGATTAAATCGTAAGTCAAGA
66 ACGATC-GAGACTGAATCGCAAGTCAAAGAAATAAAAGCAACTAGGATTAAACCATAAGTCAAGA
* *** * *
8923229 AGCTATAAGAATGATTGAGATTAAACCATGAGTCAAAGATTAAAGATAACTGAGATTAAACCGCA
130 AGCTATAAGAAGGAACAAGATTAAACCACGAGTCAAAGATTAAAGATAACTGAGACTAAACCGCA
*
8923294 AGTCAAAGAAATAAAAGTGACTAG
195 AGTCAAAGAAATAAAAGCGACTAG
* * *
8923318 GATTAAACCGTAAGTCAAGAAACTATAAGAATGATC-GAGATTAAACCACGAGTCAAAGATTAAT
1 GATTAAACCGTAAGTCGAGAAACTATAAGAATGATCAG-GATTAAACCATGAGTCAAAGATTAAA
* * **
8923382 GACGATCGAGACTGAACCGCAAGTCAAAGAAATAAAAGCCACTAGGATTAAACCATAAGTTGAGA
65 GACGATCGAGACTGAATCGCAAGTCAAAGAAATAAAAGCAACTAGGATTAAACCATAAGTCAAGA
* *
8923447 AGCTATAAGAAGGAACAAGATTAAACCACGTGTCAAAGATTAAAGATAACTGAGACTGAACCGCA
130 AGCTATAAGAAGGAACAAGATTAAACCACGAGTCAAAGATTAAAGATAACTGAGACTAAACCGCA
8923512 AGTCAAAGAAATAAAAGCGACTAG
195 AGTCAAAGAAATAAAAGCGACTAG
* ** * *
8923536 GATTAAACCATAAGTCGAGAAGTTATAAGAATGATCAGGATTAAATCATGAGTTAAAGATTAACA
1 GATTAAACCGTAAGTCGAGAAACTATAAGAATGATCAGGATTAAACCATGAGTCAAAGATTAA-A
*
8923601 -ACGATCTAGACTGAATCGCAAGTCAAAGAAATAAAAG
65 GACGATCGAGACTGAATCGCAAGTCAAAGAAATAAAAG
8923638 TAACCATAAC
Statistics
Matches: 278, Mismatches: 37, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
217 16 0.06
218 259 0.93
219 3 0.01
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (218 bp):
GATTAAACCGTAAGTCGAGAAACTATAAGAATGATCAGGATTAAACCATGAGTCAAAGATTAAAG
ACGATCGAGACTGAATCGCAAGTCAAAGAAATAAAAGCAACTAGGATTAAACCATAAGTCAAGAA
GCTATAAGAAGGAACAAGATTAAACCACGAGTCAAAGATTAAAGATAACTGAGACTAAACCGCAA
GTCAAAGAAATAAAAGCGACTAG
Found at i:8935651 original size:25 final size:23
Alignment explanation
Indices: 8935607--8935652 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
8935597 ATATCAAAAA
8935607 TTTTTTTAAAAATATATTATTCT
1 TTTTTTTAAAAATATATTATTCT
*
8935630 TTTTTATTATAAAATATTTTATT
1 TTTTT-TTA-AAAATATATTATT
8935653 ACCAAATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTTTTAAAAATATATTATTCT
Found at i:8936077 original size:23 final size:23
Alignment explanation
Indices: 8936046--8936090 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8936036 TGAGTAGAGG
*
8936046 TTTTAAAGATTAAGGTTTTAAGA
1 TTTTAAAGATTAAGATTTTAAGA
* *
8936069 TTTTGAAGATTCAGATTTTAAG
1 TTTTAAAGATTAAGATTTTAAG
8936091 GGTTTAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (23 bp):
TTTTAAAGATTAAGATTTTAAGA
Found at i:8936134 original size:21 final size:20
Alignment explanation
Indices: 8936083--8936135 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
8936073 GAAGATTCAG
*
8936083 ATTTTAAGGGTTTAGATTTA
1 ATTTTAAGGTTTTAGATTTA
* *
8936103 AGTTTTGAAGGTTTTAGGGTTTC
1 A-TTTT-AAGGTTTTA-GATTTA
8936126 ATTTTAAGGT
1 ATTTTAAGGT
8936136 ATGGAAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
22 12 0.44
23 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (20 bp):
ATTTTAAGGTTTTAGATTTA
Found at i:8936160 original size:30 final size:29
Alignment explanation
Indices: 8936089--8936261 Score: 119
Period size: 30 Copynumber: 6.0 Consensus size: 29
8936079 TCAGATTTTA
* *
8936089 AGGGTTTAGA-TTTAAGTTTTGAAGGTTTT
1 AGGGTTTTGATTTTAAGGTTTGAAGG-TTT
* *
8936118 AGGG-TTTCATTTTAAGGTATGGAAGGTTT
1 AGGGTTTTGATTTTAAGGT-TTGAAGGTTT
* *
8936147 AGGGTTTTGATTTT-AGAGTTTAAAGATTTT
1 AGGGTTTTGATTTTAAG-GTTTGAAG-GTTT
**
8936177 AGGGTTTTGATTTTAAAATTTG-AGGTTT
1 AGGGTTTTGATTTTAAGGTTTGAAGGTTT
* *
8936205 GGGGTTTTGA-TTTAAGGGTTTG--GATTT
1 AGGGTTTTGATTTTAA-GGTTTGAAGGTTT
* *
8936232 AGGGGTTTGGA-TTTAAGAGTTTAAAGGTTT
1 A-GGGTTTTGATTTTAAG-GTTTGAAGGTTT
8936262 GGGATTTCGG
Statistics
Matches: 113, Mismatches: 20, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
27 10 0.09
28 36 0.32
29 26 0.23
30 40 0.35
31 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (29 bp):
AGGGTTTTGATTTTAAGGTTTGAAGGTTT
Found at i:8936167 original size:14 final size:14
Alignment explanation
Indices: 8936144--8936394 Score: 85
Period size: 15 Copynumber: 16.8 Consensus size: 14
8936134 GTATGGAAGG
8936144 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
8936158 TTTAGAGTTTAAAGAT
1 TTTAGGGTTT--TGAT
8936174 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
*** *
8936188 TTTA-AAATTTGAGG
1 TTTAGGGTTTTGA-T
*
8936202 TTTGGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
8936216 TTAAGGGTTTGGA-
1 TTTAGGGTTTTGAT
*
8936229 TTTAGGGGTTTGGAT
1 TTTA-GGGTTTTGAT
* * ** *
8936244 TTAAGAGTTTAAAGG
1 TTTAGGGTTTTGA-T
*
8936259 TTT-GGGATTTCGGAT
1 TTTAGGG-TTT-TGAT
8936274 TTTAGGGGGTTTTAGAT
1 TTTA--GGGTTTT-GAT
*
8936291 TTTAGAGGTTTAGAAT
1 TTTAG-GGTTTTG-AT
* *
8936307 TTTAAGGATTTGAAT
1 TTTAGGGTTTTG-AT
*
8936322 TTAAGGGATTTTGAT
1 TTTAGGG-TTTTGAT
*
8936337 TTTAGGGGTTTCGGAT
1 TTTA-GGGTTT-TGAT
*
8936353 TTTAGGGTTTCGGAT
1 TTTAGGGTTT-TGAT
***
8936368 TTTAATATTTTAGAT
1 TTTAGGGTTTT-GAT
8936383 TTTAAGGGTTTT
1 TTT-AGGGTTTT
8936395 AGAAACCTAG
Statistics
Matches: 173, Mismatches: 44, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
13 8 0.05
14 46 0.27
15 63 0.36
16 43 0.25
17 10 0.06
18 3 0.02
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:8936226 original size:28 final size:29
Alignment explanation
Indices: 8936140--8936264 Score: 107
Period size: 28 Copynumber: 4.3 Consensus size: 29
8936130 TAAGGTATGG
* *
8936140 AAGGTTTAGGGTTTTGATTTTAGAGTTTA
1 AAGGTTTGGGGTTTTGATTTAAGAGTTTA
* * *
8936169 AAGATTTTAGGGTTTTGATTTTAA-AATTT-
1 AAG-GTTTGGGGTTTTGA-TTTAAGAGTTTA
* *
8936198 GAGGTTTGGGGTTTTGATTTAAGGGTTT-
1 AAGGTTTGGGGTTTTGATTTAAGAGTTTA
*
8936226 --GGATTTAGGGGTTTGGATTTAAGAGTTTA
1 AAGG-TTT-GGGGTTTTGATTTAAGAGTTTA
8936255 AAGGTTTGGG
1 AAGGTTTGGG
8936265 ATTTCGGATT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
26 2 0.03
27 8 0.10
28 34 0.44
29 8 0.10
30 20 0.26
31 6 0.08
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
AAGGTTTGGGGTTTTGATTTAAGAGTTTA
Found at i:8936235 original size:13 final size:14
Alignment explanation
Indices: 8936205--8936246 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
8936195 TTTGAGGTTT
*
8936205 GGGGTTTTGATTTA
1 GGGGTTTGGATTTA
*
8936219 AGGGTTTGGATTTA
1 GGGGTTTGGATTTA
8936233 GGGGTTTGGATTTA
1 GGGGTTTGGATTTA
8936247 AGAGTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (14 bp):
GGGGTTTGGATTTA
Found at i:8944283 original size:2 final size:2
Alignment explanation
Indices: 8944271--8944310 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8944261 GTGAAAACTA
*
8944271 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8944311 TACTTTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8944992 original size:13 final size:12
Alignment explanation
Indices: 8944975--8945009 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
8944965 ACTTATAATA
8944975 TTTTTTTATTAT
1 TTTTTTTATTAT
*
8944987 TATTTTTAATTAT
1 T-TTTTTTATTAT
8945000 TTTTTTTATT
1 TTTTTTTATT
8945010 TTTCGCCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTATTAT
Found at i:8945873 original size:16 final size:15
Alignment explanation
Indices: 8945851--8945907 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
8945841 ACTAACCCTA
8945851 AAAATCCAAAATCTCT
1 AAAATCCAAAA-CTCT
*
8945867 TAAATCC-AAACTCAT
1 AAAATCCAAAACTC-T
8945882 AAAATCCAAAACTCCT
1 AAAATCCAAAACT-CT
8945898 AAAATCCAAA
1 AAAATCCAAA
8945908 CCCTTATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 3 0.08
15 10 0.28
16 22 0.61
17 1 0.03
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATCCAAAACTCT
Found at i:8946010 original size:12 final size:12
Alignment explanation
Indices: 8945985--8946019 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
8945975 AACCAAACCT
8945985 TCAAAACCTCTAC
1 TCAAAACCT-TAC
*
8945998 TCAAACCCTTAC
1 TCAAAACCTTAC
8946010 TCAAAACCTT
1 TCAAAACCTT
8946020 CTAAAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (12 bp):
TCAAAACCTTAC
Found at i:8957375 original size:23 final size:21
Alignment explanation
Indices: 8957330--8957381 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
8957320 ATTTTACTTA
8957330 AAAAAAAAAGAAAAAAAATAC
1 AAAAAAAAAGAAAAAAAATAC
* *
8957351 AAAAAAAGAGAGAAAAAATGGAC
1 AAAAAAAAAGAAAAAAAAT--AC
8957374 AAAAAAAA
1 AAAAAAAA
8957382 GGAAGCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 17 0.65
23 9 0.35
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAATAC
Found at i:8958520 original size:38 final size:36
Alignment explanation
Indices: 8958430--8958520 Score: 103
Period size: 35 Copynumber: 2.5 Consensus size: 36
8958420 TTTATTTTCT
* *
8958430 TGACTTATGGTTTAGTCCCGATCATCATTAATCTT-
1 TGACTTATGGTTTAATCCCGATCATCATTAAACTTC
* **
8958465 TGACTCATGGTTTAATCCCGATCATTTTTATAACTTC
1 TGACTTATGGTTTAATCCCGATCATCATTA-AACTTC
*
8958502 TCGACTTACGGTTTAATCC
1 T-GACTTATGGTTTAATCC
8958521 TAGTCGCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
35 26 0.57
36 4 0.09
37 1 0.02
38 15 0.33
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (36 bp):
TGACTTATGGTTTAATCCCGATCATCATTAAACTTC
Found at i:8958532 original size:38 final size:37
Alignment explanation
Indices: 8958473--8958642 Score: 118
Period size: 38 Copynumber: 4.6 Consensus size: 37
8958463 TTTGACTCAT
8958473 GGTTTAATCCC-GATCATTTTTATAACTTCTCGACTTAC
1 GGTTTAATCCCAG-TCA-TTTTATAACTTCTCGACTTAC
* * * * * *
8958511 GGTTTAATCCTAGTCGCTTTTAT--TTTTTTGACTTAT
1 GGTTTAATCCCAGTC-ATTTTATAACTTCTCGACTTAC
* * * ***
8958547 GGTTCAGTCCCAGTTATTTT-TAATCTT-T-GACTCGT
1 GGTTTAATCCCAGTCATTTTATAA-CTTCTCGACTTAC
*
8958582 GGTTTAATCCCAGTCATTCTTATAGCTTCTCGACTTAC
1 GGTTTAATCCCAGTCATT-TTATAACTTCTCGACTTAC
*
8958620 GGTTTAATCCTAGTCACTTTTAT
1 GGTTTAATCCCAGTCA-TTTTAT
8958643 TTCTCTAACT
Statistics
Matches: 100, Mismatches: 22, Indels: 20
0.70 0.15 0.14
Matches are distributed among these distances:
34 1 0.01
35 24 0.24
36 26 0.26
37 5 0.05
38 41 0.41
39 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.46
Consensus pattern (37 bp):
GGTTTAATCCCAGTCATTTTATAACTTCTCGACTTAC
Found at i:8958585 original size:109 final size:109
Alignment explanation
Indices: 8958417--8958714 Score: 411
Period size: 109 Copynumber: 2.7 Consensus size: 109
8958407 AGTTATGGTT
* * * *
8958417 ACTTTTATTTTCTTGACTTATGGTTTAGTCCC-GATCATCATTAATCTTTGACTCATGGTTTAAT
1 ACTTTTATTTTTTTGACTTATGGTTTAGTCCCAG-TTATCTTTAATCTTTGACTCGTGGTTTAAT
8958481 CCCGATCATTTTTATAACTTCTCGACTTACGGTTTAATCCTAGTC
65 CCCGATCATTTTTATAACTTCTCGACTTACGGTTTAATCCTAGTC
* * *
8958526 GCTTTTATTTTTTTGACTTATGGTTCAGTCCCAGTTATTTTTAATCTTTGACTCGTGGTTTAATC
1 ACTTTTATTTTTTTGACTTATGGTTTAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
* *
8958591 CC-AGTCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTC
66 CCGA-TCATTTTTATAACTTCTCGACTTACGGTTTAATCCTAGTC
* * * * * * *
8958635 ACTTTTATTTCTCTAACTTACGATTTAGTCCCAGTTATCTTTAATCTTTAACTTGTGGTTTAATC
1 ACTTTTATTTTTTTGACTTATGGTTTAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
*
8958700 CTGATCATTTTTATA
66 CCGATCATTTTTATA
8958715 GTTTTTGAAT
Statistics
Matches: 165, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
108 1 0.01
109 162 0.98
110 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (109 bp):
ACTTTTATTTTTTTGACTTATGGTTTAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
CCGATCATTTTTATAACTTCTCGACTTACGGTTTAATCCTAGTC
Found at i:8959000 original size:134 final size:135
Alignment explanation
Indices: 8958783--8959046 Score: 354
Period size: 134 Copynumber: 2.0 Consensus size: 135
8958773 AATCTCTTTA
* * * ** *
8958783 TATTTTGACTCGCAGTTTAATCTCGATTTTTTTAATCCAAAATCGTAGGTTAATCTCGATTGTTG
1 TATTCTGACTCGCAGTTCAATCTCGAATTTTTTAATCCAAAATCACAGGTTAATCTCGATTGTTA
* * *
8958848 TTATTTTTTGGCTAGTGGTTTAATCC-CGATCTCTTTATTTTTTGACTTGTGATTCAATCCAAGT
66 TTATTTTTTGACTAGTGGTTTAATCCTC-ATCTCTTTATATTTTGACTTATGATTCAATCCAAGT
8958912 TGACGT
130 TGACGT
** * *
8958918 TATTCTGACTCGTGGTTCAATCTC-AATTTTTTAATCCAAAATTACAGTTTAATCTCGATTGTTA
1 TATTCTGACTCGCAGTTCAATCTCGAATTTTTTAATCCAAAATCACAGGTTAATCTCGATTGTTA
* *
8958982 TT-TTTTTCTGACTCGTGGTTTAATCCTCATCTCTTTATATTTTGACTTATGATTCAATCTAAGT
66 TTATTTTT-TGACTAGTGGTTTAATCCTCATCTCTTTATATTTTGACTTATGATTCAATCCAAGT
8959046 T
130 T
8959047 CAATCCTGAT
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
133 5 0.04
134 86 0.77
135 21 0.19
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (135 bp):
TATTCTGACTCGCAGTTCAATCTCGAATTTTTTAATCCAAAATCACAGGTTAATCTCGATTGTTA
TTATTTTTTGACTAGTGGTTTAATCCTCATCTCTTTATATTTTGACTTATGATTCAATCCAAGTT
GACGT
Found at i:8970367 original size:6 final size:6
Alignment explanation
Indices: 8970356--8970432 Score: 50
Period size: 6 Copynumber: 13.2 Consensus size: 6
8970346 CTTGAAAATC
* * * * * *
8970356 TTAATT TTAATT TTGACT TTAA-T TTGATC TTAACT TTAATT TTAGTT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
* * * *
8970403 TTGATT TT-AGT TTGATT TTGATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT T
8970433 AAAGTAAAAA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
5 8 0.15
6 46 0.85
ACGTcount: A:0.25, C:0.04, G:0.09, T:0.62
Consensus pattern (6 bp):
TTAATT
Found at i:8970396 original size:35 final size:35
Alignment explanation
Indices: 8970356--8970432 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
8970346 CTTGAAAATC
8970356 TTAATTTTAATTTTGACTTTAATTTGATCTTAACT
1 TTAATTTTAATTTTGACTTTAATTTGATCTTAACT
* * * * * *
8970391 TTAATTTTAGTTTTGATTTTAGTTTGATTTTGATT
1 TTAATTTTAATTTTGACTTTAATTTGATCTTAACT
8970426 TTAATTT
1 TTAATTT
8970433 AAAGTAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.04, G:0.09, T:0.62
Consensus pattern (35 bp):
TTAATTTTAATTTTGACTTTAATTTGATCTTAACT
Found at i:8970432 original size:12 final size:12
Alignment explanation
Indices: 8970359--8970432 Score: 62
Period size: 12 Copynumber: 6.3 Consensus size: 12
8970349 GAAAATCTTA
8970359 ATTTTAATTTTG
1 ATTTTAATTTTG
*
8970371 ACTTTAA-TTTG
1 ATTTTAATTTTG
* * *
8970382 ATCTTAACTTTA
1 ATTTTAATTTTG
*
8970394 ATTTTAGTTTTG
1 ATTTTAATTTTG
*
8970406 ATTTT-AGTTTG
1 ATTTTAATTTTG
* *
8970417 ATTTTGATTTTA
1 ATTTTAATTTTG
8970429 ATTT
1 ATTT
8970433 AAAGTAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
11 18 0.38
12 30 0.62
ACGTcount: A:0.24, C:0.04, G:0.09, T:0.62
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:8971410 original size:12 final size:12
Alignment explanation
Indices: 8971395--8971491 Score: 54
Period size: 12 Copynumber: 7.2 Consensus size: 12
8971385 TAATTGCATG
8971395 ATTATATATTTA
1 ATTATATATTTA
*
8971407 ATTACATATTTTA
1 ATTATATA-TTTA
8971420 TATTAT-TAATTGTA
1 -ATTATAT-ATT-TA
*
8971434 TGATTATATTTTTA
1 --ATTATATATTTA
8971448 ATTATATATTTTA
1 ATTATATA-TTTA
8971461 TATTAT-TAATTACATA
1 -ATTATAT-ATT---TA
8971477 ATTATATATTTA
1 ATTATATATTTA
8971489 ATT
1 ATT
8971492 GCATATCTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 26
0.68 0.05 0.27
Matches are distributed among these distances:
12 19 0.28
13 14 0.21
14 15 0.22
15 15 0.22
16 4 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTATATATTTA
Found at i:8971424 original size:14 final size:14
Alignment explanation
Indices: 8971395--8971466 Score: 73
Period size: 14 Copynumber: 5.4 Consensus size: 14
8971385 TAATTGCATG
8971395 ATTATATA-TTTA-
1 ATTATATATTTTAT
*
8971407 ATTACATATTTTAT
1 ATTATATATTTTAT
*
8971421 ATTAT-TAATTGTAT
1 ATTATAT-ATTTTAT
8971435 GATTATAT-TTTTA-
1 -ATTATATATTTTAT
8971448 ATTATATATTTTAT
1 ATTATATATTTTAT
8971462 ATTAT
1 ATTAT
8971467 TAATTACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
12 14 0.29
13 10 0.20
14 19 0.39
15 5 0.10
16 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (14 bp):
ATTATATATTTTAT
Found at i:8971427 original size:41 final size:41
Alignment explanation
Indices: 8971382--8971497 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
8971372 TTTGGTAAGA
8971382 TATTAATTGCATGATTATATATTTAATTACATATTTTATAT
1 TATTAATTGCATGATTATATATTTAATTACATATTTTATAT
* * *
8971423 TATTAATTGTATGATTATATTTTTAATTATATATTTTATAT
1 TATTAATTGCATGATTATATATTTAATTACATATTTTATAT
* * *
8971464 TATTAATTACATAATTATATATTTAATTGCATAT
1 TATTAATTGCATGATTATATATTTAATTACATAT
8971498 CTATTTACAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.55
Consensus pattern (41 bp):
TATTAATTGCATGATTATATATTTAATTACATATTTTATAT
Found at i:8971886 original size:22 final size:24
Alignment explanation
Indices: 8971837--8971886 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
8971827 TATTTGCATG
* * *
8971837 ATTTATTGCATGGTATGATTTAAT
1 ATTTATTGCATGATATGACTTAAC
8971861 ATTTATTGCATGAT-TG-CTTAAC
1 ATTTATTGCATGATATGACTTAAC
8971883 ATTT
1 ATTT
8971887 TGATAGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 2 0.09
24 13 0.57
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (24 bp):
ATTTATTGCATGATATGACTTAAC
Found at i:8975276 original size:142 final size:141
Alignment explanation
Indices: 8975071--8975489 Score: 413
Period size: 144 Copynumber: 2.9 Consensus size: 141
8975061 TGAGATTGTG
* * * *
8975071 AAAAA-CTCCAAATCATGTTTTAATATTATTTCATGAACTTTGATGCATTGAAAATCTTGATTGC
1 AAAAAGCTCCATATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTGATTGC
* * *
8975135 ACCCCAAAAGTTAAAATTAACAAAATGCCTTTTCAGGTAATTTTGATAATTTGGCCTTTTCGAGA
66 ACCTCAAAAGGTAAAATTAACAAAATGCCTTTTAAGGTAATTTTGATAATTTGGCCTTTTCGAG-
* **
8975200 TTGGATTTTTGC-
130 GTCAATTTTT-CA
* *
8975212 AAAAAGCTTCATATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTAATTGC
1 AAAAAGCTCCATATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTGATTGC
* * * * *
8975277 ACCTTAGATAGGGTAAAATT-ACTAAATTAT-CC-TTTAAGGGT-ATTTTTATAATTTGACTTTT
66 ACCTCA-A-AAGGTAAAATTAAC-AAA--ATGCCTTTTAA-GGTAATTTTGATAATTTGGCCTTT
8975338 TCGAGGTCAATTTTTCA
125 TCGAGGTCAATTTTTCA
* * * *
8975355 TAAAAAGCTCCATATCATATTTTAGTATTATTTCATGAATTTTTTATACATTAAAAATTTTGATT
1 -AAAAAGCTCCATATCATATTTTAATATTATTTCATGAA-TTTTGATACATTGAAAATCTTGATT
* * * * *
8975420 GCACTTCAAAAGGAGTGAAATTACCAAAATGCAC-TTTAGAGGTATTTTTG-TAATTTGGCCATT
64 GCACCTCAAAA-G-GTAAAATTAACAAAATGC-CTTTTA-AGGTAATTTTGATAATTTGGCCTTT
*
8975483 TCCAGGT
125 TCGAGGT
8975490 TGGTTTCTCA
Statistics
Matches: 227, Mismatches: 34, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
141 5 0.02
142 58 0.26
143 13 0.06
144 77 0.34
145 66 0.29
146 8 0.04
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (141 bp):
AAAAAGCTCCATATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTGATTGC
ACCTCAAAAGGTAAAATTAACAAAATGCCTTTTAAGGTAATTTTGATAATTTGGCCTTTTCGAGG
TCAATTTTTCA
Found at i:8975506 original size:145 final size:141
Alignment explanation
Indices: 8975069--8975518 Score: 451
Period size: 145 Copynumber: 3.1 Consensus size: 141
8975059 TCTGAGATTG
* * * *
8975069 TGAAAAACTCCAAATCATGTTTTAATATTATTTCATGAACTTTGATGCATTGAAAATCTTGATTG
1 TGAAAAGCTCCAAATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTGATTG
** * * * *
8975134 CACCCCAAAA-GTTAAAATTAACAAAATGCCTTTTCAGGTAATTTTGATAATTTGGCCTTTTCGA
66 CACTTCAAAAGGGTAAAATTACCAAAATGCC-TTTAAGGTATTTTTG-TAATTTGGCCTTTTCGA
*
8975198 GATTGGATTTTTGCA
129 GGTTGG-TTTTT-CA
* * *
8975213 --AAAAGCTTCATATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTAATTG
1 TGAAAAGCTCCAAATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTGATTG
* * * * *
8975276 CACCTT-AGATAGGGTAAAATTACTAAATTAT-CCTTTAAGGGTATTTTTATAATTTGACTTTTT
66 CA-CTTCA-AAAGGGTAAAATTACCAAA--ATGCCTTTAA-GGTATTTTTGTAATTTGGCCTTTT
***
8975339 CGAGGTCAATTTTTCA
126 CGAGGTTGGTTTTTCA
* * * * * *
8975355 TAAAAAGCTCCATATCATATTTTAGTATTATTTCATGAATTTTTTATACATTAAAAATTTTGATT
1 TGAAAAGCTCCAAATCATATTTTAATATTATTTCATGAA-TTTTGATACATTGAAAATCTTGATT
* *
8975420 GCACTTCAAAAGGAGTGAAATTACCAAAATGCACTTTAGAGGTATTTTTGTAATTTGGCCATTTC
65 GCACTTCAAAAGG-GTAAAATTACCAAAATGC-CTTTA-AGGTATTTTTGTAATTTGGCCTTTTC
* *
8975485 CAGGTTGGTTTCTCA
127 GAGGTTGGTTTTTCA
*
8975500 TGAAAAGCTCAAAATCATA
1 TGAAAAGCTCCAAATCATA
8975519 GTTAGGTATT
Statistics
Matches: 249, Mismatches: 43, Indels: 27
0.78 0.13 0.08
Matches are distributed among these distances:
142 61 0.24
143 10 0.04
144 76 0.31
145 99 0.40
146 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (141 bp):
TGAAAAGCTCCAAATCATATTTTAATATTATTTCATGAATTTTGATACATTGAAAATCTTGATTG
CACTTCAAAAGGGTAAAATTACCAAAATGCCTTTAAGGTATTTTTGTAATTTGGCCTTTTCGAGG
TTGGTTTTTCA
Found at i:8976695 original size:7 final size:7
Alignment explanation
Indices: 8976676--8976716 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
8976666 GAAATTACCT
8976676 TAAACCC
1 TAAACCC
8976683 -AAACCC
1 TAAACCC
8976689 TAAACCC
1 TAAACCC
8976696 TAAACCC
1 TAAACCC
*
8976703 TAAAACCT
1 T-AAACCC
8976711 TAAACC
1 TAAACC
8976717 TTAGAACCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.61
8 6 0.19
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:8976702 original size:14 final size:14
Alignment explanation
Indices: 8976676--8976716 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
8976666 GAAATTACCT
8976676 TAAACCC-AAACCC
1 TAAACCCTAAACCC
8976689 TAAACCCTAAACCC
1 TAAACCCTAAACCC
*
8976703 TAAAACCTTAAACC
1 T-AAACCCTAAACC
8976717 TTAGAACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 7 0.28
14 7 0.28
15 11 0.44
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:8976714 original size:15 final size:15
Alignment explanation
Indices: 8976683--8976729 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
8976673 CCTTAAACCC
*
8976683 AAACCCT-AAACCCT
1 AAACCCTAAAACCTT
8976697 AAACCCTAAAACCTT
1 AAACCCTAAAACCTT
* *
8976712 AAACCTTAGAACCTT
1 AAACCCTAAAACCTT
8976727 AAA
1 AAA
8976730 TAGTAAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (15 bp):
AAACCCTAAAACCTT
Found at i:8976717 original size:7 final size:7
Alignment explanation
Indices: 8976672--8976729 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
8976662 CTATGAAATT
8976672 ACCTTAA
1 ACCTTAA
*
8976679 ACC-CAA
1 ACCTTAA
*
8976685 ACCCTAA
1 ACCTTAA
*
8976692 ACCCTAA
1 ACCTTAA
*
8976699 ACCCTAAA
1 A-CCTTAA
8976707 ACCTTAA
1 ACCTTAA
8976714 ACCTTAGA
1 ACCTTA-A
8976722 ACCTTAA
1 ACCTTAA
8976729 A
1 A
8976730 TAGTAAAACC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 5 0.12
7 26 0.60
8 12 0.28
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (7 bp):
ACCTTAA
Found at i:8976744 original size:29 final size:29
Alignment explanation
Indices: 8976677--8976749 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
8976667 AAATTACCTT
* *
8976677 AAACCCAAACCCTA-AACCCTAAACCCTA
1 AAACCCAAACCTTAGAACCCTAAACACTA
* * * *
8976705 AAACCTTAAACCTTAGAACCTTAAATAGTA
1 AAACC-CAAACCTTAGAACCCTAAACACTA
8976735 AAACCCAAACCTTAG
1 AAACCCAAACCTTAG
8976750 GCCATGAACC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 5 0.14
29 16 0.44
30 15 0.42
ACGTcount: A:0.47, C:0.32, G:0.04, T:0.18
Consensus pattern (29 bp):
AAACCCAAACCTTAGAACCCTAAACACTA
Found at i:8976860 original size:19 final size:18
Alignment explanation
Indices: 8976838--8976901 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
8976828 CCTAAAACCT
8976838 AACCCTAAATCCTAAATCA
1 AACCCTAAATCCT-AATCA
*
8976857 AA-CCTCAAATCCTAGTCA
1 AACCCT-AAATCCTAATCA
* *
8976875 AGCCCTAAATCCTACTCA
1 AACCCTAAATCCTAATCA
8976893 AACCCTAAA
1 AACCCTAAA
8976902 ACAAACCCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 27 0.69
19 12 0.31
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.20
Consensus pattern (18 bp):
AACCCTAAATCCTAATCA
Found at i:8980206 original size:3 final size:3
Alignment explanation
Indices: 8980187--8980227 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
8980177 TATTTTTAAA
*
8980187 ATT ATTT ATT AATT ATT ATT CTT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8980228 TACACATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8985681 original size:3 final size:3
Alignment explanation
Indices: 8985673--8985727 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8985663 TACATCCAAG
8985673 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8985721 TTA TTA T
1 TTA TTA T
8985728 CCTTCTTTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8985838 original size:3 final size:3
Alignment explanation
Indices: 8985830--8985873 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
8985820 TACATCCAAG
8985830 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8985874 TACATTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8985857 original size:157 final size:157
Alignment explanation
Indices: 8985571--8985873 Score: 606
Period size: 157 Copynumber: 1.9 Consensus size: 157
8985561 TATCAGTTTA
8985571 CCTTCTTTTCTTTACGTTTTAATTTTAACTAGCCATTTATTCAAGTCGATTTAATTGAGTTTTAC
1 CCTTCTTTTCTTTACGTTTTAATTTTAACTAGCCATTTATTCAAGTCGATTTAATTGAGTTTTAC
8985636 TTCGAGAAAATCGGGCGAAGTTGGGTTTACATCCAAGTTATTATTATTATTATTATTATTATTAT
66 TTCGAGAAAATCGGGCGAAGTTGGGTTTACATCCAAGTTATTATTATTATTATTATTATTATTAT
8985701 TATTATTATTATTATTATTATTATTAT
131 TATTATTATTATTATTATTATTATTAT
8985728 CCTTCTTTTCTTTACGTTTTAATTTTAACTAGCCATTTATTCAAGTCGATTTAATTGAGTTTTAC
1 CCTTCTTTTCTTTACGTTTTAATTTTAACTAGCCATTTATTCAAGTCGATTTAATTGAGTTTTAC
8985793 TTCGAGAAAATCGGGCGAAGTTGGGTTTACATCCAAGTTATTATTATTATTATTATTATTATTAT
66 TTCGAGAAAATCGGGCGAAGTTGGGTTTACATCCAAGTTATTATTATTATTATTATTATTATTAT
8985858 TATTATTATTATTATT
131 TATTATTATTATTATT
8985874 TACATTTAAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 146 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (157 bp):
CCTTCTTTTCTTTACGTTTTAATTTTAACTAGCCATTTATTCAAGTCGATTTAATTGAGTTTTAC
TTCGAGAAAATCGGGCGAAGTTGGGTTTACATCCAAGTTATTATTATTATTATTATTATTATTAT
TATTATTATTATTATTATTATTATTAT
Found at i:8986065 original size:30 final size:28
Alignment explanation
Indices: 8986029--8986088 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
8986019 TATGTATTAT
*
8986029 ATTATTGCATGATTATATTATTTTTCCATG
1 ATTATTGCATGA-TAT-TTATATTTCCATG
*
8986059 ATTATTGCATGATATTTATATTTGCATG
1 ATTATTGCATGATATTTATATTTCCATG
8986087 AT
1 AT
8986089 AATTTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.46
29 3 0.11
30 12 0.43
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (28 bp):
ATTATTGCATGATATTTATATTTCCATG
Found at i:8986336 original size:37 final size:37
Alignment explanation
Indices: 8986258--8986336 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
8986248 TATATTTTTT
** * *
8986258 AAATTTTATCAACATATTGGAAGATAATCTTTGATAG
1 AAATTTTATCAACATATTAAAAGATAATCTTTGAAAC
* *
8986295 AAATTTTATTAACATATTAAAAGAT-ATTTTTGAAAAC
1 AAATTTTATCAACATATTAAAAGATAATCTTTG-AAAC
8986332 AAATT
1 AAATT
8986337 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 6 0.17
37 29 0.83
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (37 bp):
AAATTTTATCAACATATTAAAAGATAATCTTTGAAAC
Found at i:8990120 original size:56 final size:56
Alignment explanation
Indices: 8990012--8990120 Score: 123
Period size: 56 Copynumber: 1.9 Consensus size: 56
8990002 AATTCTTTAT
* ** *
8990012 TTTTTAAAATTTTAAACCTTTCAATATGTTGATAAATTTTTTTATTTCAAAATTCA
1 TTTTAAAAATTTTAAACCTTTCAATATGTTGATAAATTCATTTATCTCAAAATTCA
* * *
8990068 TTTTAAAAAGTTTTAAA-TTTTCAATATGTTGGTAAGATTCATTTGTCT-AAAAT
1 TTTTAAAAA-TTTTAAACCTTTCAATATGTTGATAA-ATTCATTTATCTCAAAAT
8990121 ATTTTTATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
56 29 0.66
57 15 0.34
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (56 bp):
TTTTAAAAATTTTAAACCTTTCAATATGTTGATAAATTCATTTATCTCAAAATTCA
Found at i:8991280 original size:3 final size:3
Alignment explanation
Indices: 8991274--8991450 Score: 168
Period size: 3 Copynumber: 64.0 Consensus size: 3
8991264 GATTTTTTTA
* * *
8991274 TAT TAT TAT TAT TAT TAT TGT TAT TAT TA- TAG TA- TAG TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
8991318 CAT TA- TAT TA- TAT TA- TGT TA- TAT TAT TAT TAT TAT TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
8991362 CAT TAT TA- TAT TA- TAT TA- TAT TAT TA- TAT TAT TAT TAG CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8991406 TA- TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8991451 CTTTCTTTTT
Statistics
Matches: 145, Mismatches: 14, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
2 28 0.19
3 117 0.81
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:8991322 original size:5 final size:5
Alignment explanation
Indices: 8991271--8991447 Score: 123
Period size: 5 Copynumber: 33.8 Consensus size: 5
8991261 GTCGATTTTT
* * * *
8991271 TTATA TTATTA TTATTA TTATTG TTATTA TTATA GTATA GTATA TTACA
1 TTATA TTA-TA TTA-TA TTA-TA TTA-TA TTATA TTATA TTATA TTATA
* *
8991320 TTATA TTATA TTATG TTATA TTATTA TTATTA TTATTA TTAGCA -T-TA
1 TTATA TTATA TTATA TTATA TTA-TA TTA-TA TTA-TA TTA-TA TTATA
*
8991367 TTATA TTATA TTATA -T-TA TTATA TTATTA TTAGCA -T-TA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTA-TA TTATA TTATA TTATA
8991415 TTATA TTATTA TTATTA TTATTA TTATTA TTAT
1 TTATA TTA-TA TTA-TA TTA-TA TTA-TA TTAT
8991448 TATCTTTCTT
Statistics
Matches: 148, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
3 4 0.03
4 4 0.03
5 72 0.49
6 68 0.46
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:8991874 original size:21 final size:20
Alignment explanation
Indices: 8991825--8991886 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
8991815 AAATTTAGGG
**
8991825 TTTA-GTTTGAAGTTTTTGA
1 TTTAGGTTTGAAGTTTAAGA
8991844 TTTAGGTTTGAAGTGTTAAGA
1 TTTAGGTTTGAAGT-TTAAGA
*
8991865 TTT-GGATTTGGAGTTTAA-A
1 TTTAGG-TTTGAAGTTTAAGA
8991884 TTT
1 TTT
8991887 TTAGAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.22
20 15 0.41
21 14 0.38
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (20 bp):
TTTAGGTTTGAAGTTTAAGA
Found at i:8992271 original size:26 final size:27
Alignment explanation
Indices: 8992242--8992314 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 27
8992232 ACCATTTTAT
* * *
8992242 TTTTATTTTTTGA-TTTTTTAAAATCA
1 TTTTATATTTTAAGTTTTTTAAATTCA
* *
8992268 TTTTATATTTTAAGTTTTTTTATTTCA
1 TTTTATATTTTAAGTTTTTTAAATTCA
8992295 TTTT-TATTTTAAGTTTTTTA
1 TTTTATATTTTAAGTTTTTTA
8992315 TTATTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 26 0.65
27 14 0.35
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (27 bp):
TTTTATATTTTAAGTTTTTTAAATTCA
Done.