Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 99 of 135
Found at i:33988622 original size:16 final size:18
Alignment explanation
Indices: 33988596--33988630 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
33988586 TAGAATTGAG
33988596 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
33988613 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
33988630 T
1 T
33988631 AAATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:33989020 original size:61 final size:61
Alignment explanation
Indices: 33988922--33989036 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 61
33988912 ATTTTGTTAA
* ** * * *
33988922 TTTTTAGAGTTAGGTCTAAATTGATAGATTTTATAAATATTGAGGGCCAAATTTATTGTCT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGCCAAATTTATTGTCT
* * *
33988983 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGTGCTAAATTT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGCCAAATTT
33989037 GTTGAATTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 45 1.00
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.43
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGCCAAATTTATTGTCT
Found at i:33989047 original size:61 final size:61
Alignment explanation
Indices: 33988914--33989047 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
33988904 GAAAAAATAT
* ** * * *
33988914 TTTGTT-AA-TTTTTAGAGTTAGGTCTAAATTGATAGATTTTATAAATATTGAGGGCCAAA
1 TTTGTTGAATTTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGCCAAA
* ** * * *
33988973 TTTATTGTCTTTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGTGCTAAA
1 TTTGTTGAATTTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGCCAAA
33989034 TTTGTTGAATTTTT
1 TTTGTTGAATTTTT
33989048 ATATTTAGGA
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
59 5 0.09
61 53 0.91
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.46
Consensus pattern (61 bp):
TTTGTTGAATTTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGCCAAA
Found at i:33989530 original size:22 final size:24
Alignment explanation
Indices: 33989499--33989543 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33989489 TTTTAATTAA
33989499 TTAAATTTAATT-AACTGAAAATT
1 TTAAATTTAATTAAACTGAAAATT
33989522 TTAAA-TTAATTACAACTGAAAA
1 TTAAATTTAATTA-AACTGAAAA
33989544 AGAAAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 5 0.25
24 9 0.45
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (24 bp):
TTAAATTTAATTAAACTGAAAATT
Found at i:33995158 original size:20 final size:20
Alignment explanation
Indices: 33995133--33995173 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33995123 TAGTGTTAGT
33995133 TGAACTCTCATGGTAGAGCC
1 TGAACTCTCATGGTAGAGCC
33995153 TGAACTCTCATGGTAGAGCC
1 TGAACTCTCATGGTAGAGCC
33995173 T
1 T
33995174 TTTATCTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (20 bp):
TGAACTCTCATGGTAGAGCC
Found at i:33999408 original size:8 final size:8
Alignment explanation
Indices: 33999397--33999434 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
33999387 CAATAAATAA
33999397 ATATATGG
1 ATATATGG
33999405 ATATATGG
1 ATATATGG
33999413 ATATATGG
1 ATATATGG
33999421 ATATATGG
1 ATATATGG
33999429 ATATAT
1 ATATAT
33999435 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (8 bp):
ATATATGG
Found at i:33999440 original size:16 final size:15
Alignment explanation
Indices: 33999405--33999453 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
33999395 AAATATATGG
*
33999405 ATATATGGATATATGG
1 ATATATGGATATAT-T
33999421 ATATATGGATATATAT
1 ATATATGGATATAT-T
33999437 ATATAT--ATATATT
1 ATATATGGATATATT
33999450 ATAT
1 ATAT
33999454 GAATTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 5 0.16
14 6 0.19
16 20 0.65
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (15 bp):
ATATATGGATATATT
Found at i:33999440 original size:24 final size:24
Alignment explanation
Indices: 33999397--33999442 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33999387 CAATAAATAA
*
33999397 ATATATGGATATATGGATATATGG
1 ATATATGGATATATAGATATATGG
*
33999421 ATATATGGATATATATATATAT
1 ATATATGGATATATAGATATAT
33999443 ATATATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (24 bp):
ATATATGGATATATAGATATATGG
Found at i:34012568 original size:22 final size:21
Alignment explanation
Indices: 34012516--34012577 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
34012506 AGTAGGATCG
34012516 AAATTAAATTATAATTTTTAA
1 AAATTAAATTATAATTTTTAA
** *
34012537 TTATAAAAATTATAATTTTTAA
1 AAAT-TAAATTATAATTTTTAA
*
34012559 AAACTTAAATTAAAATTTT
1 AAA-TTAAATTATAATTTT
34012578 ATATTTTAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 2 0.06
22 29 0.91
23 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTAAATTATAATTTTTAA
Found at i:34012585 original size:28 final size:27
Alignment explanation
Indices: 34012542--34012612 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
34012532 TTTAATTATA
* *
34012542 AAAATTATAATTTTTAA-AAACTTAAATT
1 AAAATT-TTATTTTTAAGAAA-TTAAAAT
*
34012570 AAAATTTTATATTTTAAGAGATTAAAAT
1 AAAATTTTAT-TTTTAAGAAATTAAAAT
*
34012598 ATAATTTTATTTTTA
1 AAAATTTTATTTTTA
34012613 TTAATTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.22
28 27 0.73
29 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
AAAATTTTATTTTTAAGAAATTAAAAT
Found at i:34015808 original size:22 final size:21
Alignment explanation
Indices: 34015764--34015810 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
34015754 GATCTAAGGA
*
34015764 AAAAATAAAAGAAACAGATTT
1 AAAAATAAAAGAAACAGAATT
* *
34015785 AAAAATTAAAGAAAATAGAATT
1 AAAAATAAAAG-AAACAGAATT
34015807 AAAA
1 AAAA
34015811 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:34016647 original size:19 final size:19
Alignment explanation
Indices: 34016625--34016667 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
34016615 AAACATAAAT
34016625 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
34016644 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
34016663 TAAAT
1 TAAAT
34016668 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:34024544 original size:21 final size:21
Alignment explanation
Indices: 34024517--34024568 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
34024507 AGAGTTTTTA
34024517 GTATCGGTAGAAG-CATGACAT
1 GTATCGGTAGAAGTCAT-ACAT
* * *
34024538 GTTTCGGTATAAGTCATACTT
1 GTATCGGTAGAAGTCATACAT
34024559 GTATCGGTAG
1 GTATCGGTAG
34024569 TATTATCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACAT
Found at i:34035679 original size:21 final size:21
Alignment explanation
Indices: 34035641--34035710 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
34035631 ACTGAGAAAT
* *
34035641 GAAGAATTGTAGATAAAGCAA
1 GAAGAGTTGTACATAAAGCAA
* *
34035662 GAAGAGTTGTACACAAAGCCA
1 GAAGAGTTGTACATAAAGCAA
* * * *
34035683 TAAGCGTTGTACGTAAAGCTA
1 GAAGAGTTGTACATAAAGCAA
34035704 GAAGAGT
1 GAAGAGT
34035711 GGTCTTTTCT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (21 bp):
GAAGAGTTGTACATAAAGCAA
Found at i:34046819 original size:21 final size:21
Alignment explanation
Indices: 34046795--34046845 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
34046785 ATAATAGTAT
34046795 AATCCAAATATA-AAGTTTAGA
1 AATCCAAATATATAA-TTTAGA
* *
34046816 AATCCAAACATATAATTTATA
1 AATCCAAATATATAATTTAGA
*
34046837 AATCAAAAT
1 AATCCAAAT
34046846 TACATAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (21 bp):
AATCCAAATATATAATTTAGA
Found at i:34047522 original size:15 final size:15
Alignment explanation
Indices: 34047502--34047555 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
34047492 ATACTACAAA
34047502 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
34047517 ATATTTATAATTATAAT
1 ATATTTATTA-T-TAAT
*
34047534 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
34047551 ATATT
1 ATATT
34047556 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:34047541 original size:19 final size:19
Alignment explanation
Indices: 34047517--34047553 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34047507 TATTATTAAT
*
34047517 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
34047536 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
34047554 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:34047745 original size:13 final size:13
Alignment explanation
Indices: 34047729--34047776 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
34047719 ATGTATGTTT
*
34047729 AATAATATTGAAA
1 AATAATATTAAAA
34047742 AATAAT-TTACAAA
1 AATAATATTA-AAA
*
34047755 AAAAATATTAAAA
1 AATAATATTAAAA
34047768 AATAATATT
1 AATAATATT
34047777 TTATATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.83
14 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
AATAATATTAAAA
Found at i:34049072 original size:10 final size:9
Alignment explanation
Indices: 34049055--34049094 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
34049045 TTAAAATTTA
34049055 ATAATTTTT
1 ATAATTTTT
*
34049064 ATAACTTTT
1 ATAATTTTT
34049073 ATTAATTTTT
1 A-TAATTTTT
34049083 AATAATTTTT
1 -ATAATTTTT
34049093 AT
1 AT
34049095 TGAATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 11 0.41
10 15 0.56
11 1 0.04
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:34049075 original size:29 final size:28
Alignment explanation
Indices: 34049018--34049094 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
34049008 AATTTTTAAC
34049018 AAAATTTAA-ATATTCTTTATATTTATATT
1 AAAATTTAATA-ATT-TTTATATTTATATT
34049047 AAAATTTAATAATTTTTATAACTTT-TATT
1 AAAATTTAATAATTTTTAT-A-TTTATATT
**
34049076 AATTTTTAATAATTTTTAT
1 AAAATTTAATAATTTTTAT
34049095 TGAATTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 5 0.12
29 34 0.79
30 4 0.09
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
AAAATTTAATAATTTTTATATTTATATT
Found at i:34049103 original size:20 final size:19
Alignment explanation
Indices: 34049051--34049103 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
34049041 TATATTAAAA
* *
34049051 TTTAATAATTTTTATAACT
1 TTTATTAATTTTAATAACT
*
34049070 TTTATTAATTTTTAATAATT
1 TTTATTAA-TTTTAATAACT
34049090 TTTATTGAATTTTA
1 TTTATT-AATTTTA
34049104 TTTTTTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.24
20 20 0.69
21 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATTAATTTTAATAACT
Found at i:34049672 original size:6 final size:6
Alignment explanation
Indices: 34049661--34049705 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
34049651 CTTGACATAC
* * * *
34049661 ATATCT ATATCT ATATCT ATATCC ATATAT ATATAT ATATAT ATA
1 ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATA
34049706 ATTCCAGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (6 bp):
ATATCT
Found at i:34053692 original size:58 final size:58
Alignment explanation
Indices: 34053625--34053895 Score: 357
Period size: 58 Copynumber: 4.6 Consensus size: 58
34053615 GAAAATTTGA
* *
34053625 GGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATTAG
1 GGTTAAAAATGGAATTTTGGAAAGTT-TAGGGTAAAATGGTAATTTTTGGTGAAATTAG
* * *
34053684 GGTT-AAAATGGAATTTTGAAAAGTTTAGGGGTAAAATGGTAATTTTGGGTAAAATTAG
1 GGTTAAAAATGGAATTTTGGAAAGTTTA-GGGTAAAATGGTAATTTTTGGTGAAATTAG
* * *
34053742 GGTTAAAAATGGAAATTTGGAAAGTTTAGGGTAAAATGGTAATTTTAGGTGAAATTGG
1 GGTTAAAAATGGAATTTTGGAAAGTTTAGGGTAAAATGGTAATTTTTGGTGAAATTAG
* ** *
34053800 GGTTAAAAATGGAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTTGG-GAGTTTCG
1 GGTTAAAAATGGAATTTTGGAAAGTTT-AGGGTAAAATGGTAATTTTTGGTGAAATTAG
* *
34053858 AGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAA
1 -GGTTAAAAATGGAATTTTGGAAAGTTTA-GGGTAAAA
34053896 CGATAATATT
Statistics
Matches: 190, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
57 1 0.01
58 109 0.57
59 80 0.42
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.33
Consensus pattern (58 bp):
GGTTAAAAATGGAATTTTGGAAAGTTTAGGGTAAAATGGTAATTTTTGGTGAAATTAG
Found at i:34053867 original size:117 final size:116
Alignment explanation
Indices: 34053600--34053895 Score: 384
Period size: 117 Copynumber: 2.5 Consensus size: 116
34053590 CTCGGGGGCA
* * * * *
34053600 AAAAT-GTAATTTCGAGAAAATTTGAGGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAAAATG
1 AAAATGGTAATTTTGGGAAAATTAGAGGTTAAAAATGGAATTTTGGAAAGTT-TAGGGTAAAATG
* *
34053664 GTAATTTTTGGTGAAATTAGGGTTAAAATGGAATTTTGAAAAGTTTAGGGGT
65 GTAATTTTAGGTGAAATTAGGGTTAAAATGGAATTTTGAAAAGTTTAAGGGT
*
34053716 AAAATGGTAATTTTGGGTAAAATTAG-GGTTAAAAATGGAAATTTGGAAAGTTTAGGGTAAAATG
1 AAAATGGTAATTTTGGG-AAAATTAGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGTAAAATG
*
34053780 GTAATTTTAGGTGAAATTGGGGTTAAAAATGGAATTTT-AGAAAGTTTAAGGGT
65 GTAATTTTAGGTGAAATTAGGGTT-AAAATGGAATTTTGA-AAAGTTTAAGGGT
** * * *
34053833 AAAATGGTAATTTTTGGG-AGTTTCGAGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAA
1 AAAATGGTAA-TTTTGGGAAAATTAGAGGTTAAAAATGGAATTTTGGAAAGTTTA-GGGTAAAA
34053896 CGATAATATT
Statistics
Matches: 158, Mismatches: 15, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
116 43 0.27
117 93 0.59
118 22 0.14
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.33
Consensus pattern (116 bp):
AAAATGGTAATTTTGGGAAAATTAGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGTAAAATGG
TAATTTTAGGTGAAATTAGGGTTAAAATGGAATTTTGAAAAGTTTAAGGGT
Found at i:34053885 original size:30 final size:29
Alignment explanation
Indices: 34053599--34053895 Score: 129
Period size: 29 Copynumber: 10.1 Consensus size: 29
34053589 TCTCGGGGGC
* * * * *
34053599 AAAAATGTAATTTCGAGAAAATTTGAGGTT
1 AAAAATGGAATTT-TAGAAAGTTTAAGGGT
* * **
34053629 AAAAATAGAATTTTGGAAAGTTCGAGGGT
1 AAAAATGGAATTTTAGAAAGTTTAAGGGT
*
34053658 -AAAATGGTAATTTTTGGTGAAA--TT-AGGGT
1 AAAAATGG-AA-TTTT--AGAAAGTTTAAGGGT
* *
34053687 TAAAATGGAATTTT-GAAAAGTTTAGGGGT
1 AAAAATGGAATTTTAG-AAAGTTTAAGGGT
* *
34053716 -AAAATGGTAATTTTGGGTAAA-ATT-AGGGTT
1 AAAAATGG-AATTTT-AG-AAAGTTTAAGGG-T
* *
34053746 AAAAATGGAAATTTGGAAAGTTT-AGGGT
1 AAAAATGGAATTTTAGAAAGTTTAAGGGT
*
34053774 -AAAATGGTAATTTTAGGTGAAA--TT-GGGGTT
1 AAAAATGG-AATTTTA---GAAAGTTTAAGGG-T
34053804 AAAAATGGAATTTTAGAAAGTTTAAGGGT
1 AAAAATGGAATTTTAGAAAGTTTAAGGGT
* ** *
34053833 -AAAATGGTAATTTTTGGGAGTTT-CGAGGT
1 AAAAATGG-AATTTTAGAAAGTTTAAG-GGT
*
34053862 CAAAAATGGAATTTTAGAAAGTTTAGGGGT
1 -AAAAATGGAATTTTAGAAAGTTTAAGGGT
34053892 AAAA
1 AAAA
34053896 CGATAATATT
Statistics
Matches: 210, Mismatches: 28, Indels: 59
0.71 0.09 0.20
Matches are distributed among these distances:
25 1 0.00
26 3 0.01
27 11 0.05
28 36 0.17
29 68 0.32
30 57 0.27
31 30 0.14
32 4 0.02
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.33
Consensus pattern (29 bp):
AAAAATGGAATTTTAGAAAGTTTAAGGGT
Found at i:34055202 original size:23 final size:23
Alignment explanation
Indices: 34055141--34055203 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 23
34055131 GTTTGAACTT
34055141 TGAGTCTATTCGACTACTGGATG
1 TGAGTCTATTCGACTACTGGATG
* *
34055164 TG-G-GTATTCGAATACTGGATG
1 TGAGTCTATTCGACTACTGGATG
34055185 TGAGTCTATTC-ACCTACTG
1 TGAGTCTATTCGA-CTACTG
34055204 CATTAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 18 0.55
22 3 0.09
23 12 0.36
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (23 bp):
TGAGTCTATTCGACTACTGGATG
Found at i:34055630 original size:17 final size:17
Alignment explanation
Indices: 34055610--34055686 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
34055600 AATTTAATTT
*
34055610 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
* **
34055627 TAAATTTAAATTTTATG
1 TAAATTTAAATTTAAAA
* *
34055644 CAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
* *
34055661 TAAATCTAATTTTAAAA
1 TAAATTTAAATTTAAAA
34055678 CTAAATTTA
1 -TAAATTTA
34055687 TCTCATTGGG
Statistics
Matches: 45, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 38 0.84
18 7 0.16
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:34055634 original size:34 final size:33
Alignment explanation
Indices: 34055596--34055672 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 33
34055586 GACTTTGGAC
** * *
34055596 ATTTAATTTAATTTTAAATTTAAATTTATAATAA
1 ATTTAATTTAA-TGCAAATTTAAATTCAAAATAA
*
34055630 ATTTAAATTTTATGCAAATTTAAATTCAAAATAA
1 ATTT-AATTTAATGCAAATTTAAATTCAAAATAA
*
34055664 ATCTAATTT
1 ATTTAATTT
34055673 TAAAACTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 5 0.14
34 25 0.69
35 6 0.17
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (33 bp):
ATTTAATTTAATGCAAATTTAAATTCAAAATAA
Found at i:34056368 original size:200 final size:200
Alignment explanation
Indices: 34056019--34056864 Score: 1424
Period size: 200 Copynumber: 4.2 Consensus size: 200
34056009 TTCATTGACC
* * * * *
34056019 TGGTCTTCTTCTCTGTGTCTCATCAGGAAGATGACCGCGATC-ATCTGTTTTAATTCGCTTCTCT
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGC-CTCGCT-TGTTTTGATTCGCTTCTCT
* * *
34056083 GGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTA
64 GGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTA
* * * *
34056148 TTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGC
129 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGC
34056213 GTTGAGT
194 GTTGAGT
34056220 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTGG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTGG
* *
34056285 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTATATCTCATCAGGAAGTTAACCATTTTATT
66 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
34056350 GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
131 GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
34056415 TGAGT
196 TGAGT
* *
34056420 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCCCCTCGCTTGTTTTGATTCGCTTTTCTGG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTGG
34056485 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
66 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
*
34056550 GCTTCGACCTGTTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
131 GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
*
34056615 TGATT
196 TGAGT
* * *
34056620 TGGTATTCTACTCTGTATCTCATCAGGAATATGACCGCCTCGCTTGTTTTGATTCGCTTCTTTGG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTGG
* *
34056685 ATCTCCTCAGGAAAATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
66 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
* * *
34056750 GCTCCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGTGC
131 GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
34056815 TGAGT
196 TGAGT
*
34056820 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTT
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTT
34056865 TCTTGTTGAA
Statistics
Matches: 609, Mismatches: 35, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
200 572 0.94
201 37 0.06
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (200 bp):
TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTGG
ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
TGAGT
Found at i:34069040 original size:30 final size:30
Alignment explanation
Indices: 34068997--34069148 Score: 131
Period size: 30 Copynumber: 5.2 Consensus size: 30
34068987 CTCTCGGGGG
*
34068997 TAAAAAAGTAATTTTGGGAAAATTCAGGGT
1 TAAAATAGTAATTTTGGGAAAATTCAGGGT
*
34069027 TAAAAATAG-AATTTT-GGAAAGTTCAAGGG-
1 T-AAAATAGTAATTTTGGGAAAATTC-AGGGT
*
34069056 TAAAATGGTAATTTTTGGTG-AAA-TCAGGGT
1 TAAAATAGTAA-TTTTGG-GAAAATTCAGGGT
* ** *
34069086 TAAAATAG-AATTTT-GGAAAGTTTGGGGG
1 TAAAATAGTAATTTTGGGAAAATTCAGGGT
*
34069114 TAAAATGGTAATTTTGGGTAAAATT-AGGGT
1 TAAAATAGTAATTTTGGG-AAAATTCAGGGT
34069144 TAAAA
1 TAAAA
34069149 ATGGAATTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 21 0.22
29 23 0.24
30 34 0.35
31 14 0.14
32 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (30 bp):
TAAAATAGTAATTTTGGGAAAATTCAGGGT
Found at i:34069045 original size:29 final size:29
Alignment explanation
Indices: 34068997--34069222 Score: 126
Period size: 30 Copynumber: 7.7 Consensus size: 29
34068987 CTCTCGGGGG
34068997 TAAAAA-AGTAATTTTGGGAAAATTCAGGGT
1 TAAAAATAG-AATTTT-GGAAAATTCAGGGT
*
34069027 TAAAAATAGAATTTTGGAAAGTTCAAGGG-
1 TAAAAATAGAATTTTGGAAAATTC-AGGGT
* *
34069056 T-AAAATGGTAATTTTTGGTGAAA-TCAGGGT
1 TAAAAATAG-AA-TTTTGG-AAAATTCAGGGT
* ** *
34069086 T-AAAATAGAATTTTGGAAAGTTTGGGGG
1 TAAAAATAGAATTTTGGAAAATTCAGGGT
*
34069114 T-AAAATGGTAATTTTGGGTAAAATT-AGGGT
1 TAAAAATAG-AATTTT-GG-AAAATTCAGGGT
* * * * *
34069144 TAAAAATGGAATTTTAGAAAGTTTAGGGG
1 TAAAAATAGAATTTTGGAAAATTCAGGGT
* ** **
34069173 TAAAACGATA-ATTTTTGGAAGTTTTGGGGT
1 TAAAA--ATAGAATTTTGGAAAATTCAGGGT
*
34069203 TAAAAATAGAATTGTGGAAA
1 TAAAAATAGAATTTTGGAAA
34069223 GTTTGGGGAC
Statistics
Matches: 154, Mismatches: 27, Indels: 31
0.73 0.13 0.15
Matches are distributed among these distances:
27 2 0.01
28 31 0.20
29 41 0.27
30 62 0.40
31 18 0.12
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (29 bp):
TAAAAATAGAATTTTGGAAAATTCAGGGT
Found at i:34069069 original size:59 final size:59
Alignment explanation
Indices: 34068993--34069230 Score: 279
Period size: 59 Copynumber: 4.1 Consensus size: 59
34068983 TTGGCTCTCG
** *
34068993 GGGGTAAAAAAGTAATTTTGGGAAAATTCAGGGTTAAAAATAGAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTGGGAAAATTCAGGGTTAAAAATAGAATTTTGGAAAGTTTA
* *
34069052 AGGGTAAAATGGTAATTTTTGGTG-AAA-TCAGGGTT-AAAATAGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAA-TTTTGG-GAAAATTCAGGGTTAAAAATAGAATTTTGGAAAGTTTA
* *
34069110 GGGGTAAAATGGTAATTTTGGGTAAAATT-AGGGTTAAAAATGGAATTTTAGAAAGTTTA
1 GGGGTAAAATGGTAATTTTGGG-AAAATTCAGGGTTAAAAATAGAATTTTGGAAAGTTTA
* * * ** ** *
34069169 GGGGTAAAACGATAATTTTTGGAAGTTTTGGGGTTAAAAATAGAATTGTGGAAAGTTT-
1 GGGGTAAAATGGTAATTTTGGGAAAATTCAGGGTTAAAAATAGAATTTTGGAAAGTTTA
34069227 GGGG
1 GGGG
34069231 ACTAGAGAGC
Statistics
Matches: 154, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 6 0.04
58 52 0.34
59 85 0.55
60 9 0.06
61 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTGGGAAAATTCAGGGTTAAAAATAGAATTTTGGAAAGTTTA
Found at i:34069203 original size:117 final size:118
Alignment explanation
Indices: 34068992--34069230 Score: 315
Period size: 117 Copynumber: 2.0 Consensus size: 118
34068982 TTTGGCTCTC
*
34068992 GGGGGTAAAAAAGTAATTTTGGGAAAATTCAGGGTTAAAAATAGAATTTTGGAAAGTTCAAGGGT
1 GGGGGTAAAAAAGTAATTTTGGGAAAATTCAGGGTTAAAAATAGAATTTTAGAAAGTTCAAGGGT
* * *
34069057 AAAATGGTAATTTTTGGTGAAATCAGGGTT-AAAATAGAATTTTGGAAAGTTT
66 AAAACGATAATTTTTGGTGAAATCAGGGTTAAAAATAGAATTGTGGAAAGTTT
** * * *
34069109 GGGGGTAAAATGGTAATTTTGGGTAAAATT-AGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGG
1 GGGGGTAAAAAAGTAATTTTGGG-AAAATTCAGGGTTAAAAATAGAATTTTAGAAAGTTCAAGGG
* **
34069173 TAAAACGATAATTTTT-G-GAAGTTTTGGGGTTAAAAATAGAATTGTGGAAAGTTT
65 TAAAACGATAATTTTTGGTGAA--ATCAGGGTTAAAAATAGAATTGTGGAAAGTTT
34069227 GGGG
1 GGGG
34069231 ACTAGAGAGC
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
115 3 0.03
116 1 0.01
117 71 0.67
118 31 0.29
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (118 bp):
GGGGGTAAAAAAGTAATTTTGGGAAAATTCAGGGTTAAAAATAGAATTTTAGAAAGTTCAAGGGT
AAAACGATAATTTTTGGTGAAATCAGGGTTAAAAATAGAATTGTGGAAAGTTT
Found at i:34069966 original size:17 final size:17
Alignment explanation
Indices: 34069936--34069970 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34069926 TATTTTCTTT
*
34069936 TAGTTCCAAGCCAGATC
1 TAGTTCCAAACCAGATC
*
34069953 TAGTTTCAAACCAGATC
1 TAGTTCCAAACCAGATC
34069970 T
1 T
34069971 GAAAACTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (17 bp):
TAGTTCCAAACCAGATC
Found at i:34070231 original size:10 final size:10
Alignment explanation
Indices: 34070214--34070247 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
34070204 TTTTTTTTAA
34070214 TAATTATTAT
1 TAATTATTAT
*
34070224 TTATTATTAT
1 TAATTATTAT
*
34070234 TAATTAATAT
1 TAATTATTAT
34070244 TAAT
1 TAAT
34070248 GAATTTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TAATTATTAT
Found at i:34070544 original size:23 final size:23
Alignment explanation
Indices: 34070485--34070545 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 23
34070475 TTGAACTTTA
34070485 AGTCTATTCGACTACTGGATGTG
1 AGTCTATTCGACTACTGGATGTG
* *
34070508 -G-GTATTCGAATACTGGATGTG
1 AGTCTATTCGACTACTGGATGTG
34070529 AGTCTATTCTG-CTACTG
1 AGTCTATTC-GACTACTG
34070546 CATTAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 18 0.58
22 2 0.06
23 10 0.32
24 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (23 bp):
AGTCTATTCGACTACTGGATGTG
Found at i:34077014 original size:58 final size:54
Alignment explanation
Indices: 34076901--34077016 Score: 135
Period size: 58 Copynumber: 2.1 Consensus size: 54
34076891 ACCCATCAAC
* *
34076901 AAACTAAACCCAAATATTTTTAAAAATATAATTTCATTCTTCAAAAGCACTCAT
1 AAACTAAACCCAAATATTTTTAAAAATATAATTTCATTCCTCAAAAACACTCAT
* * *
34076955 AAACTAAATCTAAATATTTTTAAACTCAAATATAATTTTATTCCT-AAATAACACTCAT
1 AAACTAAACCCAAATATTTTT-AA---AAATATAATTTCATTCCTCAAA-AACACTCAT
34077013 AAAC
1 AAAC
34077017 AACTCCTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
54 19 0.37
55 2 0.04
57 3 0.06
58 28 0.54
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (54 bp):
AAACTAAACCCAAATATTTTTAAAAATATAATTTCATTCCTCAAAAACACTCAT
Found at i:34077427 original size:71 final size:71
Alignment explanation
Indices: 34077307--34077438 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 71
34077297 TTTACTGTAT
* * ** *
34077307 TTTGGACTTTTGCTTATGTTTTTTTATAATCTTGTTGTGTTATTGTTG-TTACTTGGATTTATGT
1 TTTGAACTTTTGCTTATGTTTTTTTATAATCTTGTCGTGTTATCATTGTTTACTTAGATTTATGT
34077371 TGTTTA
66 TGTTTA
* *
34077377 TTTGAACTTTTGCTTATTTTTTTATTATAATCTTGTCGTGTTGTCATTGTTTACTTAGATTT
1 TTTGAACTTTTGCTTATGTTTTT-TTATAATCTTGTCGTGTTATCATTGTTTACTTAGATTT
34077439 TTTCACTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
70 21 0.40
71 21 0.40
72 11 0.21
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (71 bp):
TTTGAACTTTTGCTTATGTTTTTTTATAATCTTGTCGTGTTATCATTGTTTACTTAGATTTATGT
TGTTTA
Found at i:34077449 original size:71 final size:70
Alignment explanation
Indices: 34077298--34077450 Score: 166
Period size: 71 Copynumber: 2.1 Consensus size: 70
34077288 CGTGTAGGTT
* * ** *
34077298 TTACTGTATTTTGGACTTTTGCTTATGTTTTTTTATAATCTTGTTGTGTTATTGTTGTTACTTGG
1 TTACT-TA-TTTGAACTTTTGCTTATGTTTTTTTATAATCTTGTCGTGTTATCATTGTTACTTAG
34077363 ATTTATG
64 ATTTATG
** * *
34077370 TTGTTTATTTGAACTTTTGCTTATTTTTTTATTATAATCTTGTCGTGTTGTCATTGTTTACTTAG
1 TTACTTATTTGAACTTTTGCTTATGTTTTT-TTATAATCTTGTCGTGTTATCATTG-TTACTTAG
34077435 ATTT-T-
64 ATTTATG
34077440 TTCACTTATTT
1 TT-ACTTATTT
34077451 ATTTCAATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
70 23 0.34
71 30 0.45
72 14 0.21
ACGTcount: A:0.16, C:0.08, G:0.14, T:0.61
Consensus pattern (70 bp):
TTACTTATTTGAACTTTTGCTTATGTTTTTTTATAATCTTGTCGTGTTATCATTGTTACTTAGAT
TTATG
Found at i:34080502 original size:8 final size:8
Alignment explanation
Indices: 34080489--34080513 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34080479 ATTAGTAAAG
34080489 GTTTAATA
1 GTTTAATA
34080497 GTTTAATA
1 GTTTAATA
34080505 GTTTAATA
1 GTTTAATA
34080513 G
1 G
34080514 ATATAACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (8 bp):
GTTTAATA
Found at i:34086956 original size:78 final size:79
Alignment explanation
Indices: 34086823--34086977 Score: 258
Period size: 78 Copynumber: 1.9 Consensus size: 79
34086813 AATCCGGAAG
*
34086823 AATTCATGCTTATCAACAAAGAAAAGCATTGCCAGGTGTCAGACTTCAAGAAAATGAAGTGATGA
1 AATTCATGCTTATCAAC--A-AAAAGCATTGCCAGGTGTCAGACTTCAAGAAAATGAACTGATGA
34086888 CAGAGTTATCTGATAAA
63 CAGAGTTATCTGATAAA
*
34086905 AATTCATGCTTATCAAC-AAAAGCATTGCCAGGTGTCAGACTTCAAGAAAATGAACTGATGGCAG
1 AATTCATGCTTATCAACAAAAAGCATTGCCAGGTGTCAGACTTCAAGAAAATGAACTGATGACAG
34086969 AGTTATCTG
66 AGTTATCTG
34086978 GAGGCATCCG
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
78 54 0.76
82 17 0.24
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (79 bp):
AATTCATGCTTATCAACAAAAAGCATTGCCAGGTGTCAGACTTCAAGAAAATGAACTGATGACAG
AGTTATCTGATAAA
Found at i:34087756 original size:20 final size:21
Alignment explanation
Indices: 34087716--34087758 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
34087706 AAAATATACG
34087716 TATTTTTAAAATAATATAATT
1 TATTTTTAAAATAATATAATT
34087737 TATTTTATAAAATAA-A-AATT
1 TATTTT-TAAAATAATATAATT
34087757 TA
1 TA
34087759 ATTGAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTTTTAAAATAATATAATT
Found at i:34090166 original size:13 final size:13
Alignment explanation
Indices: 34090148--34090205 Score: 80
Period size: 13 Copynumber: 4.2 Consensus size: 13
34090138 TTAGGGTTTA
34090148 AGAAGAAAAAAAG
1 AGAAGAAAAAAAG
*
34090161 AGAAGAAAAGAAG
1 AGAAGAAAAAAAG
34090174 AGAAGAAAAAGAAG
1 AGAAGAAAAA-AAG
34090188 AGAAGAAGAAAATAG
1 AGAAGAA-AAAA-AG
34090203 AGA
1 AGA
34090206 TTCCGACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
13 21 0.52
14 11 0.28
15 8 0.20
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.02
Consensus pattern (13 bp):
AGAAGAAAAAAAG
Found at i:34092004 original size:14 final size:12
Alignment explanation
Indices: 34091976--34092001 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34091966 GAATGACACC
34091976 TAAAAAACAACA
1 TAAAAAACAACA
34091988 TAAAAAACAACA
1 TAAAAAACAACA
34092000 TA
1 TA
34092002 TAAGTCAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
TAAAAAACAACA
Found at i:34092096 original size:11 final size:11
Alignment explanation
Indices: 34092064--34092125 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 11
34092054 AAAACAACAT
*
34092064 CCAATATAAAG
1 CCAACATAAAG
34092075 CCAACATTAAAG
1 CCAACA-TAAAG
34092087 -CAGACATAAAG
1 CCA-ACATAAAG
*
34092098 TC-ACATAAAG
1 CCAACATAAAG
34092108 CCAACA-AAA-
1 CCAACATAAAG
34092117 CACAACATA
1 C-CAACATA
34092126 CAAGTCAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 1 0.02
10 17 0.40
11 16 0.37
12 9 0.21
ACGTcount: A:0.55, C:0.24, G:0.08, T:0.13
Consensus pattern (11 bp):
CCAACATAAAG
Found at i:34092168 original size:12 final size:12
Alignment explanation
Indices: 34092151--34092191 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
34092141 TTAGCTTGTT
34092151 CAAAACAACATA
1 CAAAACAACATA
*
34092163 CAAAACAAAATA
1 CAAAACAACATA
34092175 -AAGAACAACATA
1 CAA-AACAACATA
34092187 CAAAA
1 CAAAA
34092192 TAGTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.71, C:0.20, G:0.02, T:0.07
Consensus pattern (12 bp):
CAAAACAACATA
Found at i:34092219 original size:84 final size:84
Alignment explanation
Indices: 34092122--34092311 Score: 353
Period size: 84 Copynumber: 2.3 Consensus size: 84
34092112 CAAAACACAA
* *
34092122 CATACAAGTCAGAATAGGTTTAGCTTGTTCAAAACAACATACAAAACAAAATAAAGAACAACATA
1 CATACAAGTCAGAATAGGTTTAGCTTATTAAAAACAACATACAAAACAAAATAAAGAACAACATA
*
34092187 CAAAATAGTATTAAAAAAG
66 CAAAATAATATTAAAAAAG
34092206 CATACAAGTCAGAATAGGTTTAGCTTATTAAAAACAACATACAAAACAAAATAAAGAACAACATA
1 CATACAAGTCAGAATAGGTTTAGCTTATTAAAAACAACATACAAAACAAAATAAAGAACAACATA
34092271 CAAAATAATATTAAAAAAG
66 CAAAATAATATTAAAAAAG
34092290 CATACAAGTCAGAATAGGTTTA
1 CATACAAGTCAGAATAGGTTTA
34092312 AGGTAACTTA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 103 1.00
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.21
Consensus pattern (84 bp):
CATACAAGTCAGAATAGGTTTAGCTTATTAAAAACAACATACAAAACAAAATAAAGAACAACATA
CAAAATAATATTAAAAAAG
Found at i:34092253 original size:12 final size:12
Alignment explanation
Indices: 34092236--34092275 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
34092226 TAGCTTATTA
34092236 AAAACAACATAC
1 AAAACAACATAC
*
34092248 AAAACAAAATA-
1 AAAACAACATAC
34092259 AAGAACAACATAC
1 AA-AACAACATAC
34092272 AAAA
1 AAAA
34092276 TAATATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.72, C:0.17, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAACAACATAC
Found at i:34094110 original size:33 final size:30
Alignment explanation
Indices: 34094047--34094116 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 30
34094037 GCCAGACAAA
* *
34094047 TTACT-CATCACTATCAGATAAACAACCAT
1 TTACTACATCACTATCAGAGAAACAAACAT
34094076 TTACTACATCACTATCAGACCAGAAACAAACAT
1 TTACTACATCACTATCAG---AGAAACAAACAT
*
34094109 TTAATACA
1 TTACTACA
34094117 ACACATGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.15
30 12 0.35
33 17 0.50
ACGTcount: A:0.44, C:0.26, G:0.04, T:0.26
Consensus pattern (30 bp):
TTACTACATCACTATCAGAGAAACAAACAT
Found at i:34094598 original size:12 final size:12
Alignment explanation
Indices: 34094569--34094607 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
34094559 CGAAAGCCCT
*
34094569 AAATCAAAAATAA
1 AAATC-AAAATTA
*
34094582 AAATCAATATTA
1 AAATCAAAATTA
34094594 AAATCAAAATTA
1 AAATCAAAATTA
34094606 AA
1 AA
34094608 TAAACCCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATCAAAATTA
Found at i:34097410 original size:21 final size:21
Alignment explanation
Indices: 34097386--34097439 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
34097376 GCAGATTTAC
*
34097386 ACCGATACAAGTGACAGTTCT
1 ACCGATACAAGTGACACTTCT
*
34097407 ACCGATACAAGTGACTCTTCT
1 ACCGATACAAGTGACACTTCT
*
34097428 GCCGATACAAGT
1 ACCGATACAAGT
34097440 CTTACCTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (21 bp):
ACCGATACAAGTGACACTTCT
Found at i:34097453 original size:21 final size:20
Alignment explanation
Indices: 34097404--34097456 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
34097394 AAGTGACAGT
*
34097404 TCTACCGATACAAGTGACTCT
1 TCTACCGATACAAGT-ACTCC
*
34097425 TCTGCCGATACAAGT-CTTACC
1 TCTACCGATACAAGTAC-T-CC
34097446 TCTACCGATAC
1 TCTACCGATAC
34097457 TAAAAAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 1 0.04
21 25 0.93
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.28
Consensus pattern (20 bp):
TCTACCGATACAAGTACTCC
Found at i:34104290 original size:21 final size:21
Alignment explanation
Indices: 34104266--34104333 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
34104256 GATTTGTACT
**
34104266 GATACAAGTGACAGTTCTACC
1 GATACAAGTGACACCTCTACC
*
34104287 GATACAAGTGACTCCTCTACC
1 GATACAAGTGACACCTCTACC
***
34104308 GATACAAGTCTTACCTCTACC
1 GATACAAGTGACACCTCTACC
34104329 GATAC
1 GATAC
34104334 TAAAAACTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (21 bp):
GATACAAGTGACACCTCTACC
Found at i:34115069 original size:19 final size:19
Alignment explanation
Indices: 34115045--34115088 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
34115035 AAGACACTGA
* *
34115045 AGCGATACTGGCTCGTAAG
1 AGCGATACTAGCTCATAAG
34115064 AGCGATACTAGCTCATAAG
1 AGCGATACTAGCTCATAAG
34115083 AGCGAT
1 AGCGAT
34115089 TTACTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (19 bp):
AGCGATACTAGCTCATAAG
Found at i:34115161 original size:35 final size:35
Alignment explanation
Indices: 34115115--34115188 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
34115105 TAAGAGCTAA
* *
34115115 AAATTACTAGGAATCTTGAAGAGCTCGTATGAGTT
1 AAATTACTAGGAATCTTGAAAAACTCGTATGAGTT
*
34115150 AAATTATTAGGAATCTTGAAAAACTCGTATGAGTT
1 AAATTACTAGGAATCTTGAAAAACTCGTATGAGTT
34115185 AAAT
1 AAAT
34115189 CACTGGGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (35 bp):
AAATTACTAGGAATCTTGAAAAACTCGTATGAGTT
Found at i:34118036 original size:22 final size:22
Alignment explanation
Indices: 34118011--34118053 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34118001 AAAATATTTC
*
34118011 ATTA-ATAATTTGGGTTTAATTA
1 ATTATATAAATTGGG-TTAATTA
*
34118033 ATTATTTAAATTGGGTTAATT
1 ATTATATAAATTGGGTTAATT
34118054 TTATTCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
ATTATATAAATTGGGTTAATTA
Found at i:34131226 original size:12 final size:12
Alignment explanation
Indices: 34131211--34131236 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34131201 ATATAGTTAA
34131211 AAATATTAAAAC
1 AAATATTAAAAC
34131223 AAATATTAAAAC
1 AAATATTAAAAC
34131235 AA
1 AA
34131237 CAAACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:34131274 original size:41 final size:41
Alignment explanation
Indices: 34131213--34131293 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
34131203 ATAGTTAAAA
*
34131213 ATATTAAAACAAATATTAAAACAACAAACAAATTAAAAATG
1 ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAATG
* * * * *
34131254 ATATTAAAACAATTCGTAAAATAACAAATAAATTGAAAAT
1 ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAAT
34131294 ACAATAAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.25
Consensus pattern (41 bp):
ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAATG
Found at i:34131750 original size:24 final size:23
Alignment explanation
Indices: 34131710--34131756 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
34131700 TATTACAAGC
*
34131710 AAAAAAAAATTAGTATTAAAAAT
1 AAAAAAAAATCAGTATTAAAAAT
* *
34131733 AAAAATAAAATCATTATTATAAAT
1 AAAAA-AAAATCAGTATTAAAAAT
34131757 TCGGGCCGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAAAAAATCAGTATTAAAAAT
Found at i:34134666 original size:20 final size:19
Alignment explanation
Indices: 34134637--34134703 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
34134627 TATAGATGCA
*
34134637 AAATAAGGGCACAAACGTGC
1 AAATAGGGGCACAAA-GTGC
*
34134657 AAATAGGGGCACCTAAGTGC
1 AAATAGGGGCA-CAAAGTGC
* *
34134677 -AATCAGGAGCACATATGTGC
1 AAAT-AGGGGCACA-AAGTGC
34134697 AAATAGG
1 AAATAGG
34134704 AGAACCAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 4 0.11
20 28 0.74
21 6 0.16
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (19 bp):
AAATAGGGGCACAAAGTGC
Found at i:34134704 original size:20 final size:20
Alignment explanation
Indices: 34134653--34134705 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
34134643 GGGCACAAAC
* *
34134653 GTGCAAATAGGGGCACCTAA
1 GTGCAAATAGGAGCACATAA
*
34134673 GTGC-AATCAGGAGCACATAT
1 GTGCAAAT-AGGAGCACATAA
34134693 GTGCAAATAGGAG
1 GTGCAAATAGGAG
34134706 AACCAAGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (20 bp):
GTGCAAATAGGAGCACATAA
Found at i:34156094 original size:119 final size:117
Alignment explanation
Indices: 34155958--34156191 Score: 405
Period size: 119 Copynumber: 2.0 Consensus size: 117
34155948 TATGAGCTAA
*
34155958 AATTAGAGAATTCAATTCTCATTGATAAAGAGAATGCAAAGACAGAAAAAACATATACAAAGGAG
1 AATTAGAGAATTCAATTCTCATTGATAAAGAGAATGCAAAGAAAGAAAAAACATATACAAAGGAG
*
34156023 ATGAATGATTTTCTTTTCACTAACTTTAACTTGAAAATTTTTAGTAAACTTATT
66 AT-AATGATTATCTTTTCACTAACTTTAACTTGAAAA-TTTTAGTAAACTTATT
*
34156077 AATTAGAGAATTCAATTCTCATTGATAAAGAGAATGCAAAGAAAGAAAGAACATATACAAAGGAG
1 AATTAGAGAATTCAATTCTCATTGATAAAGAGAATGCAAAGAAAGAAAAAACATATACAAAGGAG
* *
34156142 ATAATGATTATGTTTTCACTAACTTTAACTTGAAAATTTTAGTAGACTTA
66 ATAATGATTATCTTTTCACTAACTTTAACTTGAAAATTTTAGTAAACTTA
34156192 ATTCTTTCTT
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
117 13 0.12
118 32 0.29
119 65 0.59
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (117 bp):
AATTAGAGAATTCAATTCTCATTGATAAAGAGAATGCAAAGAAAGAAAAAACATATACAAAGGAG
ATAATGATTATCTTTTCACTAACTTTAACTTGAAAATTTTAGTAAACTTATT
Found at i:34160541 original size:28 final size:27
Alignment explanation
Indices: 34160510--34160564 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34160500 AGATATCAAG
*
34160510 TTCCTACCACAAGGGCTCATACATCAGA
1 TTCCT-CCACAAAGGCTCATACATCAGA
* *
34160538 TTCCTCCATAAAGGCTCATATATCAGA
1 TTCCTCCACAAAGGCTCATACATCAGA
34160565 AGTTAAGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (27 bp):
TTCCTCCACAAAGGCTCATACATCAGA
Found at i:34160681 original size:23 final size:23
Alignment explanation
Indices: 34160621--34160687 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
34160611 CACATATATT
34160621 AGAACAACCACAAAGGCTTCCCC
1 AGAACAACCACAAAGGCTTCCCC
** * *
34160644 A-AAGTACCTATAAAGGCTTCCTC
1 AGAACAACC-ACAAAGGCTTCCCC
34160667 AGAACAACCACAAAGGCTTCC
1 AGAACAACCACAAAGGCTTCC
34160688 ACATATCAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 5 0.14
23 25 0.71
24 5 0.14
ACGTcount: A:0.39, C:0.33, G:0.13, T:0.15
Consensus pattern (23 bp):
AGAACAACCACAAAGGCTTCCCC
Found at i:34164727 original size:3 final size:3
Alignment explanation
Indices: 34164719--34164770 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
34164709 AAGGGCCCAA
* * * *
34164719 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT ATT ATT ATT ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
34164767 ATC A
1 ATC A
34164771 ATAAGATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (3 bp):
ATC
Found at i:34164779 original size:21 final size:21
Alignment explanation
Indices: 34164740--34164779 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34164730 CATCATCATC
* **
34164740 ATCATCATCATTATTATTATT
1 ATCATCATCAATAAGATTATT
34164761 ATCATCATCAATAAGATTA
1 ATCATCATCAATAAGATTA
34164780 AAGAATAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (21 bp):
ATCATCATCAATAAGATTATT
Found at i:34165256 original size:52 final size:52
Alignment explanation
Indices: 34165198--34165555 Score: 177
Period size: 52 Copynumber: 7.2 Consensus size: 52
34165188 ATTTTAAAGA
* *
34165198 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAAT
1 AAAAGTTTAAATTTTTAAACAAAATATTGATTTTTTTTAACTATTTCAAAAT
** * **
34165250 AAAAGTTTAAATTTTTAAGTAAAATAGTGATTTTTTTTAA--A----AAAGC
1 AAAAGTTTAAATTTTTAAACAAAATATTGATTTTTTTTAACTATTTCAAAAT
* * * * ** * *
34165296 GAAAGTTTATATTTTTAAAAATAAAAATCTG---TTTTTTAGTTATTTTAAGGA-
1 AAAAGTTTAAATTTTTAAACA-AAATAT-TGATTTTTTTTAACTATTTCAA-AAT
* *
34165347 AAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAACAAAATATTGATTTTTTTTAACTATTTCAAAAT
* *** *
34165399 -AAAGTTTGAATTTTTAGGTAAAATAATGATTTTCTTTTTAA--A----AAAA-
1 AAAAGTTTAAATTTTTAAACAAAATATTGA-TTT-TTTTTAACTATTTCAAAAT
* * * * *
34165445 GAAAGTTTATATTTTTAAAAATAAAAATCTG---TTTTTTAA-TGATTTTAAAGA-
1 AAAAGTTTAAATTTTTAAACA-AAATAT-TGATTTTTTTTAACT-ATTTCAAA-AT
* * * * * *
34165496 AAAAATTTAAATTTTTAAATAAAGTTTTGATTTTTTTTAGCTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAACAAAATATTGATTTTTTTTAACTATTTCAAAAT
34165548 AAAAGTTT
1 AAAAGTTT
34165556 TGATTTTGAA
Statistics
Matches: 225, Mismatches: 51, Indels: 60
0.67 0.15 0.18
Matches are distributed among these distances:
44 7 0.03
45 8 0.04
46 21 0.09
47 23 0.10
48 6 0.03
49 6 0.03
50 11 0.05
51 64 0.28
52 71 0.32
53 8 0.04
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (52 bp):
AAAAGTTTAAATTTTTAAACAAAATATTGATTTTTTTTAACTATTTCAAAAT
Found at i:34165279 original size:149 final size:149
Alignment explanation
Indices: 34165074--34165621 Score: 782
Period size: 149 Copynumber: 3.7 Consensus size: 149
34165064 TTAGGAAAAA
* * *
34165074 TTTTG-TTTTTTTTAACAATTTCGAAATAAAAATTTTGATTTTTAAGTAAAATAGTGATTTTCTT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTTAATTTTTAAGTAAAATAGTGATTTTCTT
* *
34165138 TAAAAAAGAGAAAGTTTATATTTTCAAAAATAAAAATTTGTTTTTTAGTTATTTTAAAGAAAAAG
66 TAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAG
34165203 TTTAAATTTTTAAACAAAG
131 TTTAAATTTTTAAACAAAG
* * *
34165222 TTTTGATTTTTTTTAACTATTTCAAAATAAAAGTTTAAATTTTTAAGTAAAATAGTGATTTTTTT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTTAATTTTTAAGTAAAATAGTGATTTTCTT
* *
34165287 TAAAAAAGCGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAGGAAAAAG
66 TAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAG
*
34165352 TTTAAATTTTTAAACAAAA
131 TTTAAATTTTTAAACAAAG
* * *
34165371 TTTTGATTTTTTTTAACTATTTCGAAAT-AAAGTTTGAATTTTTAGGTAAAATAATGATTTTCTT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTTAATTTTTAAGTAAAATAGTGATTTTC--
* *
34165435 TTTAAAAAA-AGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAATGATTTTAAAGAAAA
64 TTTAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAA
* *
34165499 AATTTAAATTTTTAAATAAAG
129 AGTTTAAATTTTTAAACAAAG
* * * * *
34165520 TTTTGATTTTTTTTAGCTATTTCGAAATAAAAGTTTTGATTTTGAAGTAAAGTAGTGATTTTGTT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTTAATTTTTAAGTAAAATAGTGATTTT-CT
* * *
34165585 TTAATCAAAAGA-AAACTTTAGATTTTTTAAAA-AAAAA
65 TTAA--AAAAGAGAAAGTTTATATTTTTAAAAATAAAAA
34165622 GAAGAAGAAA
Statistics
Matches: 358, Mismatches: 34, Indels: 14
0.88 0.08 0.03
Matches are distributed among these distances:
148 35 0.10
149 260 0.73
150 41 0.11
151 21 0.06
152 1 0.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (149 bp):
TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTTAATTTTTAAGTAAAATAGTGATTTTCTT
TAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAG
TTTAAATTTTTAAACAAAG
Found at i:34167257 original size:19 final size:20
Alignment explanation
Indices: 34167233--34167271 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34167223 TAAATTTTCG
*
34167233 TTAATT-GAGGAGTTTGGAC
1 TTAATTCGAGGAGTGTGGAC
34167252 TTAATTCCGAGGAGTGTGGA
1 TTAATT-CGAGGAGTGTGGA
34167272 AGTTTTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.08, G:0.33, T:0.33
Consensus pattern (20 bp):
TTAATTCGAGGAGTGTGGAC
Found at i:34167430 original size:11 final size:11
Alignment explanation
Indices: 34167414--34167450 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
34167404 TCCACCTTTC
34167414 TTTTTCTTTTG
1 TTTTTCTTTTG
*
34167425 TTTTTCATTTG
1 TTTTTCTTTTG
*
34167436 TTTTTCTTTTA
1 TTTTTCTTTTG
34167447 TTTT
1 TTTT
34167451 CTCAAGCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTG
Found at i:34169136 original size:3 final size:3
Alignment explanation
Indices: 34169124--34169171 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
34169114 TAGAATATTC
34169124 TAT T-T TAT TAT TAT 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
34169171 T
1 T
34169172 TTGGAGTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:34169978 original size:18 final size:19
Alignment explanation
Indices: 34169955--34169990 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34169945 CACGATTATG
*
34169955 TGGTTTGGC-CGTGTGGAA
1 TGGTTTAGCACGTGTGGAA
34169973 TGGTTTAGCACGTGTGGA
1 TGGTTTAGCACGTGTGGA
34169991 TAACACGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.11, G:0.42, T:0.33
Consensus pattern (19 bp):
TGGTTTAGCACGTGTGGAA
Found at i:34172076 original size:18 final size:18
Alignment explanation
Indices: 34172053--34172089 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34172043 GTCCTAAACT
*
34172053 AAATTCTTTCATCTATAG
1 AAATTCTCTCATCTATAG
34172071 AAATTCTCTCATCTATAG
1 AAATTCTCTCATCTATAG
34172089 A
1 A
34172090 GCATTTCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (18 bp):
AAATTCTCTCATCTATAG
Found at i:34172473 original size:13 final size:12
Alignment explanation
Indices: 34172438--34172475 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
34172428 ATATATTTTA
34172438 TTATAATCAATA-
1 TTATAAT-AATAG
34172450 TTATAATAATAG
1 TTATAATAATAG
34172462 TTATATATAATAG
1 TTATA-ATAATAG
34172475 T
1 T
34172476 AGTACATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.17
12 12 0.50
13 8 0.33
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (12 bp):
TTATAATAATAG
Found at i:34172869 original size:21 final size:22
Alignment explanation
Indices: 34172845--34172892 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
34172835 AACTATAATA
*
34172845 TTTTATA-TTTT-TACCCCAAAC
1 TTTTATACTTTTCT-CCCAAAAC
*
34172866 TTTTTTACTTTTCTCCCAAAAC
1 TTTTATACTTTTCTCCCAAAAC
34172888 TTTTA
1 TTTTA
34172893 CCCCTTCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 6 0.27
22 15 0.68
23 1 0.05
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTATACTTTTCTCCCAAAAC
Found at i:34174050 original size:15 final size:17
Alignment explanation
Indices: 34174030--34174071 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
34174020 TTAGCCCTCT
34174030 TACTATATTATAT-A-A
1 TACTATATTATATCATA
*
34174045 TACTATATCATATCATA
1 TACTATATTATATCATA
*
34174062 TAATATATTA
1 TACTATATTA
34174072 ATAGTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 1 0.05
17 9 0.41
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
TACTATATTATATCATA
Found at i:34174144 original size:17 final size:17
Alignment explanation
Indices: 34174106--34174160 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
34174096 GAACATTATA
34174106 ATATATTAGT-ATA-TT
1 ATATATTAGTAATAGTT
*
34174121 ATCTATTAGTAATAGTT
1 ATATATTAGTAATAGTT
* *
34174138 ATATATTATTAACAG-T
1 ATATATTAGTAATAGTT
34174154 ATATATT
1 ATATATT
34174161 TTAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 9 0.26
16 11 0.32
17 14 0.41
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (17 bp):
ATATATTAGTAATAGTT
Found at i:34174347 original size:16 final size:17
Alignment explanation
Indices: 34174326--34174358 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34174316 ATAATTACAG
34174326 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
34174342 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
34174359 TAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:34181479 original size:6 final size:6
Alignment explanation
Indices: 34181468--34181494 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34181458 CAAAATACAA
34181468 CAATGG CAATGG CAATGG CAATGG CAA
1 CAATGG CAATGG CAATGG CAATGG CAA
34181495 AGCAGATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (6 bp):
CAATGG
Found at i:34184175 original size:24 final size:23
Alignment explanation
Indices: 34184132--34184177 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
34184122 ATTCTCTATT
*
34184132 ATTTTTGGATTGATTTTTTTGAA
1 ATTTTTGGATTGATTATTTTGAA
34184155 ATTTTATGGATTTG-TTATTTTGA
1 ATTTT-TGGA-TTGATTATTTTGA
34184178 TTTTCCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.22, C:0.00, G:0.17, T:0.61
Consensus pattern (23 bp):
ATTTTTGGATTGATTATTTTGAA
Found at i:34186645 original size:33 final size:34
Alignment explanation
Indices: 34186608--34186751 Score: 98
Period size: 33 Copynumber: 4.3 Consensus size: 34
34186598 GGATTATCCA
34186608 ACGGTT-TGCGCCCAGCGCTAGTCGAATAAACCG
1 ACGGTTATGCGCCCAGCGCTAGTCGAATAAACCG
* * *
34186641 ACGGTTATGGCACCCAGTGCCTAGT-GGATAAACC-
1 ACGGTTAT-GCGCCCAGCG-CTAGTCGAATAAACCG
* * * *** * * * * *
34186675 ACGATATGTGAGCCCATTTCTGGTTGGATTAACCA
1 ACGGT-TATGCGCCCAGCGCTAGTCGAATAAACCG
*
34186710 ACGGTT-TGCGCCCAACGCTAGTCGAATAAACCG
1 ACGGTTATGCGCCCAGCGCTAGTCGAATAAACCG
34186743 ACGGTTATG
1 ACGGTTATG
34186752 ACACCTAATG
Statistics
Matches: 83, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
33 34 0.41
34 22 0.27
35 22 0.27
36 5 0.06
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (34 bp):
ACGGTTATGCGCCCAGCGCTAGTCGAATAAACCG
Found at i:34186721 original size:102 final size:102
Alignment explanation
Indices: 34186545--34186814 Score: 387
Period size: 102 Copynumber: 2.6 Consensus size: 102
34186535 CCGTCAATTC
* * * * * *
34186545 ATGGCACCCAGTGTCTAGCGGATATACCGTGGTATGTGAGCCTAGCTCTAGTTGGATTATCCAAC
1 ATGGCACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGCCCAGCTCTAGTTGGATTAACCAAC
*
34186610 GGTTTGCGCCCAGCGCTAGTCGAATAAACCGACGGTT
66 GGTTTGCGCCCAACGCTAGTCGAATAAACCGACGGTT
* * ** *
34186647 ATGGCACCCAGTGCCTAGTGGATAAACCACGATATGTGAGCCCATTTCTGGTTGGATTAACCAAC
1 ATGGCACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGCCCAGCTCTAGTTGGATTAACCAAC
34186712 GGTTTGCGCCCAACGCTAGTCGAATAAACCGACGGTT
66 GGTTTGCGCCCAACGCTAGTCGAATAAACCGACGGTT
* * * * *
34186749 ATGACACCTAATGCCTAGCGGATAAATCGCGATATGTGAGCCCAGCTCTAGTTAGATTAACCAAC
1 ATGGCACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGCCCAGCTCTAGTTGGATTAACCAAC
34186814 G
66 G
34186815 AATAATTCGT
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 146 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (102 bp):
ATGGCACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGCCCAGCTCTAGTTGGATTAACCAAC
GGTTTGCGCCCAACGCTAGTCGAATAAACCGACGGTT
Found at i:34187374 original size:132 final size:134
Alignment explanation
Indices: 34187204--34187575 Score: 606
Period size: 132 Copynumber: 2.8 Consensus size: 134
34187194 TCTTGCTCTC
* * * *
34187204 TATATATAAAACAATTCAAATCTTTCGTTAATCCTTTGTATTCAACTTATTTCAACAATCCAAAA
1 TATATATATAACAATTCAAATATTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAA
* *
34187269 TGTTTAATATAAGTCATATGGCAAAAAACATTTATTTATTTATTTCCAACCACCAAATATGCATA
66 TGTTTAATATAATTCACATGGCAAAAAACATTTATTTATTTATTTCCAACCACCAAATATGCATA
*
34187334 -TCA
131 TTAA
34187337 -ATATATATAACAATTCAAA-ATTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAA
1 TATATATATAACAATTCAAATA-TTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAA
* * *
34187400 ATGTTTAATAAAATTCACATGGCAAAAAACATTTATTTATTTATTTCCAGCCACCAAATATTCAT
65 ATGTTTAATATAATTCACATGGCAAAAAACATTTATTTATTTATTTCCAACCACCAAATATGCAT
34187465 ATTAA
130 ATTAA
34187470 TATATATATAACAATTCAAATATTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAA
1 TATATATATAACAATTCAAATATTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAA
* *
34187535 TGTTCAATATAATTCACATGGCAAAAAGCATTTATTTATTT
66 TGTTTAATATAATTCACATGGCAAAAAACATTTATTTATTT
34187576 GTAGGAACTC
Statistics
Matches: 222, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
132 119 0.54
133 2 0.01
134 100 0.45
135 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (134 bp):
TATATATATAACAATTCAAATATTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAA
TGTTTAATATAATTCACATGGCAAAAAACATTTATTTATTTATTTCCAACCACCAAATATGCATA
TTAA
Found at i:34195355 original size:26 final size:26
Alignment explanation
Indices: 34195326--34195382 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
34195316 ATTTTATTTT
*
34195326 TTTACTTATTAATTA-TTTATTTATGA
1 TTTA-TTATTAATAACTTTATTTATGA
* * *
34195352 TTTATTTTTACTAACTTTATTTATTA
1 TTTATTATTAATAACTTTATTTATGA
34195378 TTTAT
1 TTTAT
34195383 AGTTATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTATTATTAATAACTTTATTTATGA
Found at i:34195378 original size:22 final size:22
Alignment explanation
Indices: 34195353--34195398 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
34195343 TATTTATGAT
*
34195353 TTATTTTTACTAACTTTATTTA
1 TTATTTATACTAACTTTATTTA
* * *
34195375 TTATTTATAGTTATTTTATTTA
1 TTATTTATACTAACTTTATTTA
34195397 TT
1 TT
34195399 CTCAATTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTATACTAACTTTATTTA
Found at i:34195393 original size:37 final size:32
Alignment explanation
Indices: 34195305--34195395 Score: 83
Period size: 37 Copynumber: 2.6 Consensus size: 32
34195295 AATTTTTTTG
* *
34195305 TTATTTTTTTCATTTTATTTTTTTACTTATTAA
1 TTATTTATTT-ATTTTATTTTTTAACTTATTAA
*
34195338 TTATTTATTTATGATTTATTTTTACTAACTTTATTTA
1 TTATTTATTTAT--TTTATTTTT--TAAC-TTATTAA
34195375 TTATTTATAGTTATTTTATTT
1 TTATTTAT--TTATTTTATTT
34195396 ATTCTCAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
32 2 0.04
33 9 0.19
34 9 0.19
36 3 0.06
37 21 0.44
39 4 0.08
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (32 bp):
TTATTTATTTATTTTATTTTTTAACTTATTAA
Found at i:34196413 original size:26 final size:26
Alignment explanation
Indices: 34196375--34196439 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
34196365 AAATTTAAAA
* * *
34196375 TTTG-ATTTAATTTAATTTGTGATCC
1 TTTGCATTTTATTTAATATATGATCC
* * *
34196400 TTTGCATTTTATTTTATATATGTTGC
1 TTTGCATTTTATTTAATATATGATCC
34196426 TTTGCATTTTATTT
1 TTTGCATTTTATTT
34196440 TTGTTATGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.20, C:0.08, G:0.11, T:0.62
Consensus pattern (26 bp):
TTTGCATTTTATTTAATATATGATCC
Found at i:34207313 original size:17 final size:17
Alignment explanation
Indices: 34207275--34207325 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
34207265 GATAAGAAAG
34207275 GAAATGCAACT-AC-AAT
1 GAAATGC-ACTGACAAAT
34207291 GCAAATGCACTGACAAAT
1 G-AAATGCACTGACAAAT
* *
34207309 GAAATACAGTGACAAAT
1 GAAATGCACTGACAAAT
34207326 AACAATGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.13
17 22 0.73
18 4 0.13
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (17 bp):
GAAATGCACTGACAAAT
Found at i:34207477 original size:21 final size:21
Alignment explanation
Indices: 34207453--34207496 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34207443 GCCTTCCTCT
*
34207453 TTGCCCTT-CTTTTTCTTGTCC
1 TTGCCCTTCCTCTTT-TTGTCC
*
34207474 TTGCGCTTCCTCTTTTTGTCC
1 TTGCCCTTCCTCTTTTTGTCC
34207495 TT
1 TT
34207497 TGAATCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.00, C:0.32, G:0.11, T:0.57
Consensus pattern (21 bp):
TTGCCCTTCCTCTTTTTGTCC
Found at i:34211751 original size:51 final size:51
Alignment explanation
Indices: 34211670--34211810 Score: 183
Period size: 51 Copynumber: 2.8 Consensus size: 51
34211660 CTATAAACGA
* ** * * *
34211670 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCATGACGAATT
* *
34211721 AAAGGTTCGATGACTAAGTGTAATCATGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCATGACGAATT
* * *
34211772 AAAGGTCCGATGACTCAGTGTCATCTTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAAT
34211811 TTCTATACGG
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 77 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCATGACGAATT
Found at i:34213980 original size:98 final size:97
Alignment explanation
Indices: 34213804--34214355 Score: 462
Period size: 98 Copynumber: 5.6 Consensus size: 97
34213794 GTCTGAAAAG
* * * * *
34213804 GGATAGATTGAAGCCACAATGGTAGATCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCCG
1 GGATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGTCG
* * **
34213869 AAACTATAAATCTTACACCTTAAAACTAAAGAA
66 CAACGATGGATCTTACACCTTAAAA-TAAAGAA
* * * * * *
34213902 GGATAGGTTAAAGCTGTAATGGTGGACCTAACACCCTAAAATCGATGAGAGAAAGATTAAAGTCG
1 GGATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGTCG
* *
34213967 CAACGATAGATCTTACACCTTAAAAT-AGGAAA
66 CAACGATGGATCTTACACCTTAAAATAAAG-AA
** * ** ** * *
34213999 GTGATATATTGAAGCCGCAACGGTGGACCTAACACGTTAAAATATAAGAGGGATAGTTTGAAGTC
1 G-GATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGTC
* * * * * * * *
34214064 GTAATGACGGACCTAACACCCTAAAATCGAAGAG
65 GCAACGATGGATCTTACACCTTAAAAT-AAAGAA
* * * * * * * *
34214098 GGATAGATTGAAGTCGCAATGATGGATCTAACACCCTATAACCAAAGAGGGAAAGATTGAAGCCG
1 GGATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGTCG
* *
34214163 CAACGACGGATCTTACACCTTAAAATTGAAG-A
66 CAACGATGGATCTTACACCTTAAAA-TAAAGAA
* * * * * * * *
34214195 GGAATAGGTTGAAGCCACAACGGCGAACCTAACACCTTAAAATCGATGAGGGGAAGATTAAAGTC
1 GG-ATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGTC
* * *
34214260 GTAACGATGGATCTTACATCTTAAAACAGAAG-A
65 GCAACGATGGATCTTACACCTTAAAATA-AAGAA
* * * * * *
34214293 GGAATAGGTTGAAGCCACAATGGTGGACCTAATATCTTAAAATTGAAGAGGGATAGATTGAAG
1 GG-ATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAG
34214356 CCACGACAGC
Statistics
Matches: 357, Mismatches: 90, Indels: 14
0.77 0.20 0.03
Matches are distributed among these distances:
96 2 0.01
97 6 0.02
98 344 0.96
99 3 0.01
100 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (97 bp):
GGATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGTCG
CAACGATGGATCTTACACCTTAAAATAAAGAA
Found at i:34213985 original size:49 final size:49
Alignment explanation
Indices: 34213828--34214401 Score: 316
Period size: 49 Copynumber: 11.7 Consensus size: 49
34213818 CACAATGGTA
* * * * *
34213828 GATCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCCGAAACTATA
1 GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATG
* * * * * * * * * *
34213877 AATCTTACACCTTAAAA-CTAAAGAAGGATAGGTTAAAG-CTGTAATGGTG
1 GATCTAACACCTTAAAATC-GAAGAGGGAAAGATTGAAGTC-GCAACGATG
* * * * * *
34213926 GACCTAACACCCTAAAATCGATGAGAGAAAGATTAAAGTCGCAACGATA
1 GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATG
* * * * * * *
34213975 GATCTTACACCTTAAAATAGGAA-AGTGATATATTGAAGCCGCAACGGTG
1 GATCTAACACCTTAAAAT-CGAAGAGGGAAAGATTGAAGTCGCAACGATG
* * ** * * * * *
34214024 GACCTAACACGTTAAAATATAAGAGGGATAGTTTGAAGTCGTAATGACG
1 GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATG
* * * *
34214073 GACCTAACACCCTAAAATCGAAGAGGGATAGATTGAAGTCGCAATGATG
1 GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATG
* * * * * *
34214122 GATCTAACACCCTATAACCAAAGAGGGAAAGATTGAAGCCGCAACGACG
1 GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATG
* * * * * **
34214171 GATCTTACACCTTAAAATTGAAGA-GGAATAGGTTGAAGCCACAACGGCG
1 GATCTAACACCTTAAAATCGAAGAGGGAA-AGATTGAAGTCGCAACGATG
* * * * * *
34214220 AACCTAACACCTTAAAATCGATGAGGGGAAGATTAAAGTCGTAACGATG
1 GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATG
* * * * * * *
34214269 GATCTTACATCTTAAAA-CAGAAGA-GGAATAGGTTGAAGCCACAATGGTG
1 GATCTAACACCTTAAAATC-GAAGAGGGAA-AGATTGAAGTCGCAACGATG
* * * * * * * * *
34214318 GACCTAATATCTTAAAATTGAAGAGGGATAGATTGAAGCCACGAC-AGCG
1 GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGA-TG
* * *
34214367 GATCTAACACCTTGAAATCAAAGAGTGAATAGATT
1 GATCTAACACCTTAAAATCGAAGAGGGAA-AGATT
34214402 AAAGCTGCGA
Statistics
Matches: 391, Mismatches: 120, Indels: 27
0.73 0.22 0.05
Matches are distributed among these distances:
48 12 0.03
49 364 0.93
50 15 0.04
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (49 bp):
GATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATG
Found at i:34214076 original size:147 final size:144
Alignment explanation
Indices: 34213925--34214405 Score: 466
Period size: 147 Copynumber: 3.3 Consensus size: 144
34213915 CTGTAATGGT
* *
34213925 GGACCTAACACCCTAAAATCGATGAGAGAAAGATTAAAGTCGCAACGATAGATCTTACACCTTAA
1 GGACCTAACACCCTAAAATCGATGAGGGAAAGATTAAAGTCGCAACGATGGATCTTACACCTTAA
*
34213990 AATAGGAA-AGTGATATATTGAAGCCGCAACGGTGGACCTAACACGTTAAAATAT-AAGAGGGAT
66 AACA-GAAGAG-GA-ATATTGAAGCCGCAACGGTGGACCTAACAC-TTAAAAT-TGAAGAGGGAT
* * ** *
34214053 AGTTTGAAGTCGTAATGAC
126 AGATTGAAGCCACAACGAC
* * * * * *
34214072 GGACCTAACACCCTAAAATCGAAGAGGGATAGATTGAAGTCGCAATGATGGATCTAACACCCTAT
1 GGACCTAACACCCTAAAATCGATGAGGGAAAGATTAAAGTCGCAACGATGGATCTTACACCTTA-
* * ** * * *
34214137 AACCA-AAGAGGGAAAGATTGAAGCCGCAACGACGGATCTTACACCTTAAAATTGAAGAGGAATA
65 AAACAGAAGA-GG-AATATTGAAGCCGCAACGGTGGACCTAACA-CTTAAAATTGAAGAGGGATA
* *
34214201 GGTTGAAGCCACAACGGC
127 GATTGAAGCCACAACGAC
* * * * *
34214219 GAACCTAACACCTTAAAATCGATGAGGGGAAGATTAAAGTCGTAACGATGGATCTTACATCTTAA
1 GGACCTAACACCCTAAAATCGATGAGGGAAAGATTAAAGTCGCAACGATGGATCTTACACCTTAA
* * *
34214284 AACAGAAGAGGAATAGGTTGAAGCCACAATGGTGGACCTAATATCTTAAAATTGAAGAGGGATAG
66 AACAGAAGAGGAATA--TTGAAGCCGCAACGGTGGACCTAACA-CTTAAAATTGAAGAGGGATAG
*
34214349 ATTGAAGCCACGAC-AGC
128 ATTGAAGCCACAACGA-C
* * * * * *
34214366 GGATCTAACACCTTGAAATCAAAGAGTGAATAGATTAAAG
1 GGACCTAACACCCTAAAATCGATGAGGGAA-AGATTAAAG
34214406 CTGCGACGAC
Statistics
Matches: 269, Mismatches: 54, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
145 3 0.01
146 9 0.03
147 242 0.90
148 15 0.06
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (144 bp):
GGACCTAACACCCTAAAATCGATGAGGGAAAGATTAAAGTCGCAACGATGGATCTTACACCTTAA
AACAGAAGAGGAATATTGAAGCCGCAACGGTGGACCTAACACTTAAAATTGAAGAGGGATAGATT
GAAGCCACAACGAC
Found at i:34216098 original size:32 final size:32
Alignment explanation
Indices: 34216036--34216099 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
34216026 TTTCATATTA
* *
34216036 TTTGCATCATTTAATTTTTTTATTTGTTAATTT
1 TTTGCAT-ATTTAATTTTTTTACTTATTAATTT
*
34216069 TTTGCAT-TTTATTTTCTTTTACTTATTAATT
1 TTTGCATATTTAATTT-TTTTACTTATTAATT
34216100 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.26
32 13 0.48
33 7 0.26
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.67
Consensus pattern (32 bp):
TTTGCATATTTAATTTTTTTACTTATTAATTT
Found at i:34219952 original size:17 final size:18
Alignment explanation
Indices: 34219918--34219953 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34219908 TTAGTTTTCG
34219918 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
34219936 AATTCGAATAA-TCGAAT
1 AATTCAAATAACTCGAAT
34219953 A
1 A
34219954 TCAAACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:34226307 original size:30 final size:28
Alignment explanation
Indices: 34226271--34226343 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 28
34226261 TTTTAAATTA
* **
34226271 AAAAATATAAAATTGTATTTTGGCTCCTTT
1 AAAAATATAAAATT-TAATTT-AATCCTTT
34226301 AAAAATAATAATAATTTAATTTAATCCTTT
1 AAAAAT-ATAA-AATTTAATTTAATCCTTT
34226331 AAAAATTATAAAA
1 AAAAA-TATAAAA
34226344 ATATATACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 2 0.05
30 21 0.57
31 10 0.27
32 4 0.11
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAAATATAAAATTTAATTTAATCCTTT
Found at i:34227214 original size:21 final size:20
Alignment explanation
Indices: 34227184--34227223 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
34227174 TTTTATTCGA
34227184 AAATCATATTTTATCTAATC
1 AAATCATATTTTATCTAATC
*
34227204 AAATACATATTTTATTTAAT
1 AAAT-CATATTTTATCTAAT
34227224 AACAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATCATATTTTATCTAATC
Found at i:34247097 original size:36 final size:36
Alignment explanation
Indices: 34247057--34247132 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
34247047 TGTTATGATG
* *
34247057 GCATTCGAGCTTGTGATTGCATCTGGTTATATGAAT-
1 GCATTCGAGCTTGTGATCGCATCTGGTCATAT-AATC
** *
34247093 GCATTCGATTTTGTGATCGCATTTGGTCATATAATC
1 GCATTCGAGCTTGTGATCGCATCTGGTCATATAATC
34247129 GCAT
1 GCAT
34247133 ATTATCTGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 3 0.09
36 31 0.91
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (36 bp):
GCATTCGAGCTTGTGATCGCATCTGGTCATATAATC
Found at i:34266429 original size:18 final size:18
Alignment explanation
Indices: 34266408--34266452 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
34266398 AGTTGTCAAT
34266408 GCAATGAAAAATGTCAGA
1 GCAATGAAAAATGTCAGA
34266426 GCAA--AATAAATGTCAGA
1 GCAATGAA-AAATGTCAGA
34266443 GCAATTGAAA
1 GCAA-TGAAA
34266453 GTAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 4 0.17
19 1 0.04
20 2 0.09
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.18
Consensus pattern (18 bp):
GCAATGAAAAATGTCAGA
Found at i:34274017 original size:21 final size:22
Alignment explanation
Indices: 34273991--34274032 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
34273981 AAGAAGATCA
34273991 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
34274012 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
34274033 ACATGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:34275129 original size:26 final size:26
Alignment explanation
Indices: 34275089--34275157 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
34275079 TACCATTTAC
* *
34275089 AGTTTACCATATATTTTTTAGCACTT
1 AGTTTACCATTTATTTTTCAGCACTT
34275115 AGTTTACCATTTATTTTTCAGCACTT
1 AGTTTACCATTTATTTTTCAGCACTT
*
34275141 AGTTTATCATTTATTTT
1 AGTTTACCATTTATTTT
34275158 CCCGTACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (26 bp):
AGTTTACCATTTATTTTTCAGCACTT
Found at i:34275170 original size:26 final size:26
Alignment explanation
Indices: 34275089--34275183 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 26
34275079 TACCATTTAC
* * ** *
34275089 AGTTTACCATATATTTTTTAGCACTT
1 AGTTTATCATTTATTTTCCAGCACTA
* * *
34275115 AGTTTACCATTTATTTTTCAGCACTT
1 AGTTTATCATTTATTTTCCAGCACTA
* *
34275141 AGTTTATCATTTATTTTCCCGTACTA
1 AGTTTATCATTTATTTTCCAGCACTA
*
34275167 AGTTTATAATTTATTTT
1 AGTTTATCATTTATTTT
34275184 ATCATTTACT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (26 bp):
AGTTTATCATTTATTTTCCAGCACTA
Found at i:34276649 original size:46 final size:46
Alignment explanation
Indices: 34276578--34276665 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
34276568 TCAACATCAA
* *
34276578 CATTTTTTTTGCTTAATAAAATTATGAGACTTGAACAAGTTTTCTT
1 CATTTCTTTTGCTTAATAAAATTATGAGACATGAACAAGTTTTCTT
*
34276624 CATTTCTTTTGCTTAATAAACTTATGAGACATGAACAAGTTT
1 CATTTCTTTTGCTTAATAAAATTATGAGACATGAACAAGTTT
34276666 CTAAATCTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (46 bp):
CATTTCTTTTGCTTAATAAAATTATGAGACATGAACAAGTTTTCTT
Found at i:34277902 original size:26 final size:26
Alignment explanation
Indices: 34277864--34277935 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
34277854 TGCCATTTAC
* * *
34277864 AGTTTACCTTTTATTTTTTAGCAC-A
1 AGTTTATCATTTATTTTTCAGCACTA
* * *
34277889 TAGTTTATCATTTATTTTCCCGTACTA
1 -AGTTTATCATTTATTTTTCAGCACTA
34277916 AGTTTATCATTTATTTTTCA
1 AGTTTATCATTTATTTTTCA
34277936 ATATATTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 36 0.97
27 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (26 bp):
AGTTTATCATTTATTTTTCAGCACTA
Found at i:34278632 original size:70 final size:70
Alignment explanation
Indices: 34278500--34278841 Score: 267
Period size: 70 Copynumber: 4.9 Consensus size: 70
34278490 GGAAAATGAC
* * * * * * ** *
34278500 ATCCTAAGGCTCGCAGGTTCAATACCACAAG-CTTCAAAACAATTAGCACGAGCTTACACTCCCA
1 ATCCTAAGGCTCACAAGTTCAATACTAC-AGCCTCCAAAATAGTTAGCGTGAGCTTACGCTCCCA
*
34278564 TTTGAT
65 GTTGAT
* * * * *
34278570 ATCTTAAGGCTCACAGGTTCAATACTGCAGCCTCCAAAATAGTTAGTGTGAGCCTACGCTCCCAG
1 ATCCTAAGGCTCACAAGTTCAATACTACAGCCTCCAAAATAGTTAGCGTGAGCTTACGCTCCCAG
34278635 TTGAT
66 TTGAT
* * * * * ** *
34278640 ATCTTAAGGCTCAGAAGTTCAATACTATAGCCCCCAAAACAGTTA-ATTGAAGCTTACGTTCCCA
1 ATCCTAAGGCTCACAAGTTCAATACTACAGCCTCCAAAATAGTTAGCGTG-AGCTTACGCTCCCA
* *
34278704 ATTGGT
65 GTTGAT
* * * * * ** * *
34278710 ATCCTAAGGCTCGCAAGTTTAATACTGCGGACTCCAAAATCA-TTAGCGCAAACTTACGCTCTCA
1 ATCCTAAGGCTCACAAGTTCAATACTACAGCCTCCAAAAT-AGTTAGCGTGAGCTTACGCTCCCA
* *
34278774 GCTGGT
65 GTTGAT
** * * *
34278780 ATCCTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCTTACGCTCC
1 ATCCTAAGGCTCACAAGTTCAATACTACAGCCTCCAAAATAGTTAGCGTGAGCTTACGCTCC
34278842 AAACTGATAT
Statistics
Matches: 211, Mismatches: 56, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
69 5 0.02
70 205 0.97
71 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (70 bp):
ATCCTAAGGCTCACAAGTTCAATACTACAGCCTCCAAAATAGTTAGCGTGAGCTTACGCTCCCAG
TTGAT
Found at i:34278817 original size:140 final size:138
Alignment explanation
Indices: 34278500--34278851 Score: 312
Period size: 140 Copynumber: 2.5 Consensus size: 138
34278490 GGAAAATGAC
* * * *
34278500 ATCCTAAGGCTCGCAGGTTCAATACCACAAGCTTCAAAACAATTAGCACGAGCTTACACTCCCAT
1 ATCCTAAGGCTCG-AGGTTCAATACCACAACCTCCAAAACAGTTA-CACGAGCTTACACTCCCAA
* * * * ** *
34278565 TTGATATCTTAAGGCTCACAGGTTCAATACTGCAGCCTCCAAAATAGTTAGTGTGAGCCTACGCT
64 TTGATATCCTAAGGCTCACAAGTTCAATACTGCAGACTCCAAAATAGTTAGCGCAAACCTACGCT
*
34278630 CCCAGTTGAT
129 CCCAGCTGAT
* * * * * * * **
34278640 ATCTTAAGGCTCAGAAGTTCAATACTATAGCCCCCAAAACAGTTA-ATTGAAGCTTACGTTCCCA
1 ATCCTAAGGCTC-GAGGTTCAATACCACAACCTCCAAAACAGTTACA-CG-AGCTTACACTCCCA
* * * * *
34278704 ATTGGTATCCTAAGGCTCGCAAGTTTAATACTGCGGACTCCAAAATCA-TTAGCGCAAACTTACG
63 ATTGATATCCTAAGGCTCACAAGTTCAATACTGCAGACTCCAAAAT-AGTTAGCGCAAACCTACG
* *
34278768 CTCTCAGCTGGT
127 CTCCCAGCTGAT
* ** * *
34278780 ATCCTAAGGCTCGTAGGTTCAATACCACAACCTCCAAAATAGTTAGCGTGAGCTTACGCTCCAAA
1 ATCCTAAGGCTCG-AGGTTCAATACCACAACCTCCAAAACAGTTA-CACGAGCTTACACTCCCAA
*
34278845 CTGATAT
64 TTGATAT
34278852 TACAAAGGCT
Statistics
Matches: 165, Mismatches: 40, Indels: 14
0.75 0.18 0.06
Matches are distributed among these distances:
138 1 0.01
139 2 0.01
140 158 0.96
141 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (138 bp):
ATCCTAAGGCTCGAGGTTCAATACCACAACCTCCAAAACAGTTACACGAGCTTACACTCCCAATT
GATATCCTAAGGCTCACAAGTTCAATACTGCAGACTCCAAAATAGTTAGCGCAAACCTACGCTCC
CAGCTGAT
Found at i:34278976 original size:31 final size:31
Alignment explanation
Indices: 34278938--34279012 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
34278928 TGCTCATTGG
*
34278938 TTTAAGATTGCAACTCTT-AACAACTCGCCGA
1 TTTAAGATCGCAAC-CTTCAACAACTCGCCGA
* * *
34278969 TTTAAGATCGTAGCCTTCGAACAACTCGCTGA
1 TTTAAGATCGCAACCTTC-AACAACTCGCCGA
34279001 TTTAAGATCGCA
1 TTTAAGATCGCA
34279013 GTTGATATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 3 0.08
31 11 0.30
32 23 0.62
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (31 bp):
TTTAAGATCGCAACCTTCAACAACTCGCCGA
Found at i:34279158 original size:17 final size:18
Alignment explanation
Indices: 34279131--34279167 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
34279121 AATAATAATC
*
34279131 ATTTATATATTTTTTTAT
1 ATTTATATATTTTATTAT
34279149 ATTT-TATATTTTATTAT
1 ATTTATATATTTTATTAT
34279166 AT
1 AT
34279168 AATAACCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:34279417 original size:19 final size:20
Alignment explanation
Indices: 34279379--34279429 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
34279369 ATAATTAATT
*
34279379 TTTAAAATATTTTCATAATCA-
1 TTTAAAA-A-TTTCAAAATCAG
34279400 TTTAAAAATTTCAAAATCAG
1 TTTAAAAATTTCAAAATCAG
34279420 TTTCAAAAAT
1 TTT-AAAAAT
34279430 AGGCTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 4 0.15
21 13 0.48
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAAAAATTTCAAAATCAG
Found at i:34282394 original size:10 final size:11
Alignment explanation
Indices: 34282358--34282393 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
34282348 ATTTGAGAGC
*
34282358 AAAAGGAGCGA
1 AAAACGAGCGA
34282369 AAAACGAGCGA
1 AAAACGAGCGA
34282380 AAAACGAGCGA
1 AAAACGAGCGA
34282391 AAA
1 AAA
34282394 CCGGAAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.58, C:0.14, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAACGAGCGA
Found at i:34288960 original size:22 final size:21
Alignment explanation
Indices: 34288926--34288966 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
34288916 TTGAAATCAA
**
34288926 ATATTTTTCCTTATGTTTTTGT
1 ATATTTTAACTTA-GTTTTTGT
34288948 ATATTTTAACTTAGTTTTT
1 ATATTTTAACTTAGTTTTT
34288967 ATCTTGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.66
Consensus pattern (21 bp):
ATATTTTAACTTAGTTTTTGT
Found at i:34290395 original size:29 final size:29
Alignment explanation
Indices: 34290353--34290411 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
34290343 TTCAGATTGA
34290353 TAATGACATATGAAATCCAGGTCAATTCT
1 TAATGACATATGAAATCCAGGTCAATTCT
34290382 TAATGACATATGAAATCCAGGTCAATTCT
1 TAATGACATATGAAATCCAGGTCAATTCT
34290411 T
1 T
34290412 TCTGGGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (29 bp):
TAATGACATATGAAATCCAGGTCAATTCT
Found at i:34290711 original size:11 final size:10
Alignment explanation
Indices: 34290692--34290724 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
34290682 ACTTCGGCCA
34290692 TTTTTTTATT
1 TTTTTTTATT
34290702 TTTGTTTTA-T
1 TTT-TTTTATT
34290712 TTTTTTTATT
1 TTTTTTTATT
34290722 TTT
1 TTT
34290725 AATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.24
10 11 0.52
11 5 0.24
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:34290730 original size:20 final size:20
Alignment explanation
Indices: 34290691--34290742 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
34290681 TACTTCGGCC
**
34290691 ATTTTTTTATTTTTGTTTTA
1 ATTTTTTTATTTTTAATTTA
*
34290711 TTTTTTTTATTTTTAATTTA
1 ATTTTTTTATTTTTAATTTA
*
34290731 ATTTTTCTATTT
1 ATTTTTTTATTT
34290743 AAAATTTTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (20 bp):
ATTTTTTTATTTTTAATTTA
Found at i:34314356 original size:85 final size:85
Alignment explanation
Indices: 34314201--34314367 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
34314191 AAAACCCATA
* * * **
34314201 TCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAATTGGTAATCTTCCTGACGAGACGT
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTAATCTTCCTGACGAGACGT
34314266 AGAGAAGT-GAACCAAATCCG
66 AGAGAAGTAG-ACCAAATCCG
* * * * *
34314286 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGGCGGTCATCTTCCTGATGAGA--T
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTAATCTTCCTGACGAGACGT
34314349 ACTGAGAAGTAGACCAAAT
66 A--GAGAAGTAGACCAAAT
34314368 ATATGAAGCG
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
83 2 0.03
85 66 0.96
86 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTAATCTTCCTGACGAGACGT
AGAGAAGTAGACCAAATCCG
Found at i:34321322 original size:2 final size:2
Alignment explanation
Indices: 34321317--34321346 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34321307 ACTTATATAT
*
34321317 AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34321347 CGCAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34324176 original size:13 final size:13
Alignment explanation
Indices: 34324148--34324184 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
34324138 TATGTAACAA
34324148 TAATTAAAATAAAT
1 TAATTAAAA-AAAT
*
34324162 TATTTAAAAAAAT
1 TAATTAAAAAAAT
34324175 TAATTAAAAA
1 TAATTAAAAA
34324185 TTAAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAATTAAAAAAAT
Found at i:34324993 original size:6 final size:6
Alignment explanation
Indices: 34324982--34325006 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34324972 TTAATATAAA
34324982 ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A
34325007 GATTTTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:34325888 original size:24 final size:24
Alignment explanation
Indices: 34325872--34325946 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
34325862 AGTTTGACTC
34325872 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
34325896 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* * *
34325920 AAAAAAATAAACAGAGTGTAACTG
1 AAACAAATAAACAGAGTTTAATTG
34325944 AAA
1 AAA
34325947 GATTATTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:34327898 original size:24 final size:24
Alignment explanation
Indices: 34327869--34327943 Score: 107
Period size: 24 Copynumber: 3.1 Consensus size: 24
34327859 AGTTTGACTC
34327869 AAACAAATAAACAGAATTTAATTG
1 AAACAAATAAACAGAATTTAATTG
* *
34327893 GAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAATTTAATTG
*
34327917 AAACAAATAAACA-AAGTTTAACTG
1 AAACAAATAAACAGAA-TTTAATTG
34327941 AAA
1 AAA
34327944 GATTATTTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (24 bp):
AAACAAATAAACAGAATTTAATTG
Done.