Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 23 of 345
Found at i:7586158 original size:9 final size:9
Alignment explanation
Indices: 7586132--7586185 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
7586122 TAAAATAAAA
7586132 TTATAATTT
1 TTATAATTT
*
7586141 TTACAATTT
1 TTATAATTT
*
7586150 TTATTATTT
1 TTATAATTT
* *
7586159 TAAT-A-GT
1 TTATAATTT
7586166 TTAT-ATTT
1 TTATAATTT
7586174 TTATAATTT
1 TTATAATTT
7586183 TTA
1 TTA
7586186 AAAAATTAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
7 5 0.14
8 6 0.17
9 25 0.69
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:7586894 original size:22 final size:22
Alignment explanation
Indices: 7586869--7586911 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7586859 TATCCAAACA
7586869 ATAACAAT-AACATAGTAGTAAC
1 ATAACAATGAA-ATAGTAGTAAC
* *
7586891 ATAATAGTGAAATAGTAGTAA
1 ATAACAATGAAATAGTAGTAA
7586912 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (22 bp):
ATAACAATGAAATAGTAGTAAC
Found at i:7588263 original size:24 final size:25
Alignment explanation
Indices: 7588210--7588263 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
7588200 TTCTTTAGAG
* *
7588210 CCAAAACCCATTAAAACTTTATAAC
1 CCAATACCCATTAAAACTTTAAAAC
*
7588235 TCAATACCCTATT-AAA-TTTAAAAC
1 CCAATACCC-ATTAAAACTTTAAAAC
7588259 CCAAT
1 CCAAT
7588264 TTGAAATGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 11 0.46
25 10 0.42
26 3 0.12
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (25 bp):
CCAATACCCATTAAAACTTTAAAAC
Found at i:7589571 original size:84 final size:85
Alignment explanation
Indices: 7589472--7589644 Score: 249
Period size: 84 Copynumber: 2.0 Consensus size: 85
7589462 AAATAGTAAA
* * * * *
7589472 AATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAATATGTTAAAAGGCGAGAATAAATTTCGA
1 AATTCTAGTTTGGAAACAAAATCAAAATGGAACAAAATATGTTAAAAGGCAAGAATAAATTCCAA
*
7589537 AATAGA-ATTATTCAATTTT
66 AACAGATATTATTCAATTTT
* * *
7589556 AATTCTAGTTTGGAAACAAAATTAAAATGGAACAAAATCTGTTAAACGGCAAGAATAAATTCCAA
1 AATTCTAGTTTGGAAACAAAATCAAAATGGAACAAAATATGTTAAAAGGCAAGAATAAATTCCAA
*
7589621 AACAGATTTTATTCAATTTT
66 AACAGATATTATTCAATTTT
7589641 AATT
1 AATT
7589645 TTTTATTCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 62 0.79
85 16 0.21
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (85 bp):
AATTCTAGTTTGGAAACAAAATCAAAATGGAACAAAATATGTTAAAAGGCAAGAATAAATTCCAA
AACAGATATTATTCAATTTT
Found at i:7589824 original size:23 final size:22
Alignment explanation
Indices: 7589786--7589828 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
7589776 ATATAAATAT
7589786 AAATAAACAAATATTTATATAA
1 AAATAAACAAATATTTATATAA
*
7589808 AAATAAAATAAATATTTATAT
1 AAAT-AAACAAATATTTATAT
7589829 TTAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAACAAATATTTATATAA
Found at i:7590188 original size:25 final size:25
Alignment explanation
Indices: 7590160--7590211 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
7590150 AGGAGCATTT
*
7590160 AAATCAATTTGAATAAAATAAAATC
1 AAATCAATTAGAATAAAATAAAATC
** *
7590185 AAATTTATTAGAATTAAATAAAATC
1 AAATCAATTAGAATAAAATAAAATC
7590210 AA
1 AA
7590212 GGTGTATGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATCAATTAGAATAAAATAAAATC
Found at i:7590203 original size:20 final size:21
Alignment explanation
Indices: 7590158--7590208 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
7590148 AAAGGAGCAT
7590158 TTAAATC-AATTTGAATAAAA
1 TTAAATCAAATTTGAATAAAA
* * *
7590178 TAAAATCAAATTT-ATTAGAA
1 TTAAATCAAATTTGAATAAAA
*
7590198 TTAAATAAAAT
1 TTAAATCAAAT
7590209 CAAGGTGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
TTAAATCAAATTTGAATAAAA
Found at i:7598886 original size:4 final size:4
Alignment explanation
Indices: 7598877--7598913 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
7598867 CGTAGTGGTA
7598877 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
7598914 ATTTACCTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:7613076 original size:20 final size:21
Alignment explanation
Indices: 7613042--7613082 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
7613032 ATACATTATC
7613042 AAATCATATTAACCAATTAGA
1 AAATCATATTAACCAATTAGA
*
7613063 AAATCATA-TAACCACTTAGA
1 AAATCATATTAACCAATTAGA
7613083 GTACTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (21 bp):
AAATCATATTAACCAATTAGA
Found at i:7624749 original size:28 final size:28
Alignment explanation
Indices: 7624718--7624774 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
7624708 ACAAAATTAT
*
7624718 CAAAATTAAAATATGAAACTTTAGAAAA
1 CAAAATTAAAATACGAAACTTTAGAAAA
7624746 CAAAATTAAAATACGAAACTTTAGAAAA
1 CAAAATTAAAATACGAAACTTTAGAAAA
7624774 C
1 C
7624775 TAACACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.23
Consensus pattern (28 bp):
CAAAATTAAAATACGAAACTTTAGAAAA
Found at i:7626270 original size:46 final size:45
Alignment explanation
Indices: 7626210--7626475 Score: 330
Period size: 46 Copynumber: 6.0 Consensus size: 45
7626200 TTTGACATGA
* * * * * *
7626210 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
7626256 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
7626302 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
* *
7626348 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
7626394 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
7626432 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
7626476 AGAGCACACT
Statistics
Matches: 195, Mismatches: 15, Indels: 20
0.85 0.07 0.09
Matches are distributed among these distances:
38 33 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 148 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:7626441 original size:38 final size:38
Alignment explanation
Indices: 7626390--7626463 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
7626380 ATTTTATATT
7626390 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACTC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACTC
7626428 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
7626464 ATTTCATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACTC
Found at i:7628624 original size:11 final size:11
Alignment explanation
Indices: 7628608--7628659 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
7628598 TATACTAAAT
7628608 AAATAATAATA
1 AAATAATAATA
*
7628619 AAATAAT-ATT
1 AAATAATAATA
* *
7628629 AAATATCTCATA
1 AAATA-ATAATA
*
7628641 AAATATTAATA
1 AAATAATAATA
7628652 AAATAATA
1 AAATAATA
7628660 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:7631067 original size:26 final size:26
Alignment explanation
Indices: 7631037--7631116 Score: 142
Period size: 26 Copynumber: 3.1 Consensus size: 26
7631027 TGAAATTCCC
7631037 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
7631063 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7631089 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7631115 AT
1 AT
7631117 TAATTTGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:7638089 original size:26 final size:26
Alignment explanation
Indices: 7638053--7638133 Score: 153
Period size: 26 Copynumber: 3.1 Consensus size: 26
7638043 TGAAATTCCC
7638053 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
7638079 TCATGAAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
7638105 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
7638131 TCA
1 TCA
7638134 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:7642926 original size:17 final size:17
Alignment explanation
Indices: 7642904--7642946 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
7642894 TATATTTTTT
*
7642904 TAAAAAATAATTTTAAA
1 TAAAAAATAATATTAAA
7642921 TAAAAAATAATATTAAA
1 TAAAAAATAATATTAAA
7642938 -AATAAAATA
1 TAA-AAAATA
7642947 TGAGCGGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAAATAATATTAAA
Found at i:7654565 original size:19 final size:19
Alignment explanation
Indices: 7654517--7654565 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
7654507 TTCGCTTATC
* **
7654517 TATTTTTATTATTTTCCAA
1 TATTTTTATTTTTTTAAAA
* *
7654536 TATGTTAATTTTTTTAAAA
1 TATTTTTATTTTTTTAAAA
7654555 TATTTTTATTT
1 TATTTTTATTT
7654566 GGTAATTACT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTATTTTTTTAAAA
Found at i:7655318 original size:25 final size:24
Alignment explanation
Indices: 7655290--7655347 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
7655280 GATTAATAAT
7655290 AATTATATT-A-AAATTAAAAATTAAA
1 AATTATATTAAGAAATT--AAATT-AA
7655315 AATT-TATTTAAGAAATTAAATTAA
1 AATTATA-TTAAGAAATTAAATTAA
7655339 AATTATATT
1 AATTATATT
7655348 CTTATTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
24 10 0.34
25 13 0.45
26 1 0.03
27 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
AATTATATTAAGAAATTAAATTAA
Found at i:7655410 original size:27 final size:26
Alignment explanation
Indices: 7655360--7655410 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
7655350 TATTGATTAA
*
7655360 TAAAATATATTATTTTAAATAATATT
1 TAAAATATATTATATTAAATAATATT
7655386 TAAAATTATATTAATATTAAA-AATA
1 TAAAA-TATATT-ATATTAAATAATA
7655411 ATGTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 10 0.45
28 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAAATATATTATATTAAATAATATT
Found at i:7655555 original size:2 final size:2
Alignment explanation
Indices: 7655543--7655573 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7655533 CATGCCAAAA
*
7655543 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7655574 ATTTTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7655641 original size:31 final size:32
Alignment explanation
Indices: 7655593--7655656 Score: 96
Period size: 30 Copynumber: 2.0 Consensus size: 32
7655583 TAGTAAAAAT
7655593 AAAATTATATTTTAATTTTTTAAAAATAATAAA
1 AAAATTATATTTTAA-TTTTTAAAAATAATAAA
*
7655626 AAAATT-TA-TTTAATTTTTAAAAATTATAAA
1 AAAATTATATTTTAATTTTTAAAAATAATAAA
7655656 A
1 A
7655657 TATAAACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 17 0.57
31 5 0.17
32 2 0.07
33 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
AAAATTATATTTTAATTTTTAAAAATAATAAA
Found at i:7656710 original size:9 final size:9
Alignment explanation
Indices: 7656698--7656760 Score: 51
Period size: 10 Copynumber: 7.0 Consensus size: 9
7656688 TTTTAGAAAT
7656698 TTTTTTAAA
1 TTTTTTAAA
*
7656707 --TTTTAAC
1 TTTTTTAAA
*
7656714 TTTCTTTATA
1 TTT-TTTAAA
7656724 TATTTTT-AA
1 T-TTTTTAAA
*
7656733 TTTTTTTAA
1 TTTTTTAAA
7656742 TTTTTATAAA
1 TTTTT-TAAA
7656752 TTTTTTAAA
1 TTTTTTAAA
7656761 AAGATAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
7 6 0.14
8 5 0.12
9 14 0.33
10 16 0.37
11 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:7656711 original size:19 final size:17
Alignment explanation
Indices: 7656694--7656760 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
7656684 ATTATTTTAG
7656694 AAATTTTTTTAAATTTT
1 AAATTTTTTTAAATTTT
* *
7656711 AACTTTCTTTATATATTTT
1 AAATTT-TTT-TAAATTTT
* *
7656730 TAATTTTTTTAATTTTT
1 AAATTTTTTTAAATTTT
*
7656747 ATAAATTTTTTAAA
1 A-AATTTTTTTAAA
7656761 AAGATAAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
17 11 0.29
18 16 0.42
19 11 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
AAATTTTTTTAAATTTT
Found at i:7656800 original size:20 final size:19
Alignment explanation
Indices: 7656775--7656830 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
7656765 TAAAATTTGG
7656775 AATTTTTATAAATATTTTA
1 AATTTTTATAAATATTTTA
* * *
7656794 AAATTTTAAAAATTATTTTG
1 AATTTTTATAAA-TATTTTA
*
7656814 AATTTTTTTAAA-ATTTT
1 AATTTTTATAAATATTTT
7656831 TATTGAGAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 15 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTTTATAAATATTTTA
Found at i:7663474 original size:21 final size:21
Alignment explanation
Indices: 7663448--7663488 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7663438 AGACGAGCGA
* *
7663448 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
7663469 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
7663489 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:7666473 original size:93 final size:93
Alignment explanation
Indices: 7666361--7666532 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
7666351 CGCCCATAAG
* *
7666361 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7666426 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
7666454 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7666519 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
7666533 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:7666529 original size:46 final size:46
Alignment explanation
Indices: 7666354--7666529 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
7666344 TGTAACCCGC
* * *
7666354 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7666400 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
7666450 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7666493 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7666530 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7683515 original size:17 final size:19
Alignment explanation
Indices: 7683470--7683509 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
7683460 GCTTATATTT
7683470 TATATTTATTTATTTTTTTAA
1 TATATTTA--TATTTTTTTAA
*
7683491 TATCTTTATATTTTTTTAA
1 TATATTTATATTTTTTTAA
7683510 AATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
TATATTTATATTTTTTTAA
Found at i:7691812 original size:15 final size:16
Alignment explanation
Indices: 7691792--7691824 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7691782 TGTCTGGTTT
7691792 ATTGTAATAGAAT-GA
1 ATTGTAATAGAATAGA
*
7691807 ATTGTAATGGAATAGA
1 ATTGTAATAGAATAGA
7691823 AT
1 AT
7691825 GAGTATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (16 bp):
ATTGTAATAGAATAGA
Found at i:7692147 original size:16 final size:17
Alignment explanation
Indices: 7692108--7692139 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7692098 TTTTTTTTAT
7692108 AAAAT-ATAAAATATTC
1 AAAATAATAAAATATTC
7692124 AAAATAATAAAATATT
1 AAAATAATAAAATATT
7692140 GAAATAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAATAAAATATTC
Found at i:7697883 original size:30 final size:31
Alignment explanation
Indices: 7697849--7697917 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
7697839 TTGCATAAGA
*
7697849 GTAAATACTCAAAA-TTTG-AGGAGTTAA-AGT
1 GTAAATA-TCAAAATTTTGAAGGA-CTAATAGT
*
7697879 GTAAATATGAAAATTTTGAAGGACTAATAGT
1 GTAAATATCAAAATTTTGAAGGACTAATAGT
7697910 GTAAATAT
1 GTAAATAT
7697918 TTTAAGGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (31 bp):
GTAAATATCAAAATTTTGAAGGACTAATAGT
Found at i:7698204 original size:11 final size:11
Alignment explanation
Indices: 7698182--7698211 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7698172 TTTTAAATGA
7698182 TATTTT-TTAT
1 TATTTTATTAT
7698192 TATTTTATTAT
1 TATTTTATTAT
7698203 TATTTTATT
1 TATTTTATT
7698212 TAGTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:7699809 original size:33 final size:33
Alignment explanation
Indices: 7699772--7699914 Score: 89
Period size: 33 Copynumber: 4.3 Consensus size: 33
7699762 TGTTGACGGA
*
7699772 TAAGACCATGGCTGGGCCATAGCAATATATGTG
1 TAAGACCATAGCTGGGCCATAGCAATATATGTG
* * * *
7699805 TAAGACCATAGCTAGGCTATGGC-ATCATGATG-A
1 TAAGACCATAGCTGGGCCATAGCAAT-AT-ATGTG
* ** *
7699838 TAAGACCATATCTGGG--ATATGACACCACGA-GTG
1 TAAGACCATAGCTGGGCCATA-G-CAATA-TATGTG
* * **
7699871 TAAGACCATGGCTGGGCCATTGCAATGCATGTG
1 TAAGACCATAGCTGGGCCATAGCAATATATGTG
7699904 TAAGACCATAG
1 TAAGACCATAG
7699915 TTGGACTATG
Statistics
Matches: 80, Mismatches: 20, Indels: 20
0.67 0.17 0.17
Matches are distributed among these distances:
31 2 0.03
32 5 0.06
33 67 0.84
34 4 0.05
35 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCCATAGCAATATATGTG
Found at i:7700039 original size:45 final size:45
Alignment explanation
Indices: 7699937--7700039 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
7699927 ATCATACCAG
* *
7699937 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTG
1 AAATGAGTAAGACCATAACTGAAAGACGCTATGGCATCACGATTC
* ** *
7699982 AGACT-AACAAGACCATAACTGAAAGACGCTATGGCATCGCGATTC
1 A-AATGAGTAAGACCATAACTGAAAGACGCTATGGCATCACGATTC
*
7700027 AAATGTGTAAGAC
1 AAATGAGTAAGAC
7700040 ATGGTTGAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
44 2 0.04
45 42 0.91
46 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (45 bp):
AAATGAGTAAGACCATAACTGAAAGACGCTATGGCATCACGATTC
Found at i:7700233 original size:46 final size:46
Alignment explanation
Indices: 7700034--7700225 Score: 278
Period size: 46 Copynumber: 4.2 Consensus size: 46
7700024 TTCAAATGTG
** *
7700034 TAAGA-CATGGTTGAAAGATACCATGATAACATGACAGGAAACGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
7700079 TAAGACCGTGGTTGAAAGATACCATGGCAACATGATAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
7700125 TAAGACCATGGTTAAAAGATACCATGGCAACATGACAGGAAGTGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
7700171 TAAGACCTTGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
*
7700217 TGAGACCAT
1 TAAGACCAT
7700226 AATTGAAAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 5 0.04
46 125 0.96
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:7704924 original size:29 final size:29
Alignment explanation
Indices: 7704892--7704949 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
7704882 ATGAGTCTTG
* *
7704892 AGGTTTTAGTCTCCTTTTAATGAGCTGAA
1 AGGTTTCAGTCTCCCTTTAATGAGCTGAA
*
7704921 AGGTTTCAGTCTCCCTTTGATGAGCTGAA
1 AGGTTTCAGTCTCCCTTTAATGAGCTGAA
7704950 CTATCAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (29 bp):
AGGTTTCAGTCTCCCTTTAATGAGCTGAA
Found at i:7733663 original size:2 final size:2
Alignment explanation
Indices: 7733656--7733683 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7733646 ACGCAAGATG
7733656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7733684 AAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7736890 original size:4 final size:4
Alignment explanation
Indices: 7736883--7736909 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7736873 CAAAAAAAAA
7736883 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
7736910 AAACCCTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:7741519 original size:2 final size:2
Alignment explanation
Indices: 7741512--7741569 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
7741502 TTTATTTCTT
7741512 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
7741554 TC TC CC TC TC T- TC TC T
1 TC TC TC TC TC TC TC TC T
7741570 GTATTTGTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7742560 original size:56 final size:54
Alignment explanation
Indices: 7742478--7742594 Score: 130
Period size: 56 Copynumber: 2.1 Consensus size: 54
7742468 TAAAAAAGAC
* ** *
7742478 AAAATTAAATAATTAAATGACTATTTTGTAACTTTTCA-AAGTT-AGATGATAAAA
1 AAAATTAAATAATTAAATGACCATTTTAAAACTTTTCATAA-TTGA-ATGAAAAAA
* *
7742532 AAAATTACTAATAATTAAATGGCCATTTTAAAACTTTTTATAATTGAATGAAAAAA
1 AAAATTA--AATAATTAAATGACCATTTTAAAACTTTTCATAATTGAATGAAAAAA
7742588 AAAATTA
1 AAAATTA
7742595 GATGACCTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
54 7 0.13
56 43 0.81
57 3 0.06
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (54 bp):
AAAATTAAATAATTAAATGACCATTTTAAAACTTTTCATAATTGAATGAAAAAA
Found at i:7744724 original size:2 final size:2
Alignment explanation
Indices: 7744717--7744746 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7744707 AAATAAGTGC
7744717 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
7744747 GCACGAACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7746464 original size:21 final size:22
Alignment explanation
Indices: 7746431--7746471 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7746421 AATTTAATGC
* *
7746431 AAAGCAAGTAAAAACAAAAACG
1 AAAGCAAGGAAAAAAAAAAACG
7746453 AAAG-AAGGAAAAAAAAAAA
1 AAAGCAAGGAAAAAAAAAAA
7746472 GTTATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAGCAAGGAAAAAAAAAAACG
Found at i:7749400 original size:16 final size:17
Alignment explanation
Indices: 7749373--7749405 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7749363 TTCATGAGTA
7749373 AAAAATATATATAAAAG
1 AAAAATATATATAAAAG
*
7749390 AAAAATA-ATATTAAAG
1 AAAAATATATATAAAAG
7749406 TAAATAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAAATATATATAAAAG
Found at i:7753272 original size:2 final size:2
Alignment explanation
Indices: 7753265--7753293 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7753255 TTTCTTATTC
7753265 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7753294 TATTGATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7755345 original size:19 final size:20
Alignment explanation
Indices: 7755323--7755364 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
7755313 AAAAAAGATT
7755323 AAAAAATT-ATCAAAA-ATAA
1 AAAAAATTAAT-AAAATATAA
*
7755342 AAAATATTAATAAAATATAA
1 AAAAAATTAATAAAATATAA
7755362 AAA
1 AAA
7755365 TAAAAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAATTAATAAAATATAA
Found at i:7755363 original size:26 final size:27
Alignment explanation
Indices: 7755310--7755370 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
7755300 AATATTTTCT
7755310 AATAAAAAAGATTAAAAAATTATCAAA
1 AATAAAAAAGATTAAAAAATTATCAAA
*
7755337 AATAAAAAATATTAATAAAA-TAT-AAA
1 AATAAAAAAGATTAA-AAAATTATCAAA
7755363 AATAAAAA
1 AATAAAAA
7755371 TTGATATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 11 0.34
27 17 0.53
28 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (27 bp):
AATAAAAAAGATTAAAAAATTATCAAA
Found at i:7755449 original size:18 final size:18
Alignment explanation
Indices: 7755424--7755475 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
7755414 AAATCAAATA
7755424 AATT-ATAAAAAATATAG
1 AATTAATAAAAAATATAG
* **
7755441 AATTAATAAAATATATTT
1 AATTAATAAAAAATATAG
* *
7755459 AAATATTAAAAAATATA
1 AATTAATAAAAAATATA
7755476 TTAAAATTCT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTAATAAAAAATATAG
Found at i:7755473 original size:20 final size:21
Alignment explanation
Indices: 7755442--7755482 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
7755432 AAAATATAGA
*
7755442 ATTAATAAAATATATTTAAAT
1 ATTAATAAAATATATTAAAAT
7755463 ATTAA-AAAATATATTAAAAT
1 ATTAATAAAATATATTAAAAT
7755483 TCTATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAATAAAATATATTAAAAT
Found at i:7755491 original size:20 final size:20
Alignment explanation
Indices: 7755425--7755492 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
7755415 AATCAAATAA
* *
7755425 ATTATAAAAAATA-TAGAAT
1 ATTATAAAATATATTAAAAT
* *
7755444 -TAATAAAATATATTTAAAT
1 ATTATAAAATATATTAAAAT
*
7755463 ATTAAAAAATATATTAAAAT
1 ATTATAAAATATATTAAAAT
7755483 -TCTATAAAAT
1 AT-TATAAAAT
7755493 CATAAAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
18 10 0.26
19 5 0.13
20 23 0.61
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (20 bp):
ATTATAAAATATATTAAAAT
Found at i:7755499 original size:29 final size:29
Alignment explanation
Indices: 7755467--7755532 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
7755457 TTAAATATTA
*
7755467 AAAAATATATTAAAATT-CTATAAAATCAT
1 AAAAAT-TATTAAAATTGATATAAAATCAT
* *
7755496 AAAAATTATTAAAATTGATATAAACTTAT
1 AAAAATTATTAAAATTGATATAAAATCAT
7755525 AAAAATTA
1 AAAAATTA
7755533 CAAAAATCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATTATTAAAATTGATATAAAATCAT
Found at i:7756702 original size:25 final size:25
Alignment explanation
Indices: 7756674--7756723 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7756664 TTTTTAAATT
*
7756674 TAAAAATAGTGAGA-TTAAATTCTAA
1 TAAAAATA-TAAGAGTTAAATTCTAA
*
7756699 TAAAAATATAAGAGTTTAATTCTAA
1 TAAAAATATAAGAGTTAAATTCTAA
7756724 ATGTATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (25 bp):
TAAAAATATAAGAGTTAAATTCTAA
Found at i:7769584 original size:10 final size:9
Alignment explanation
Indices: 7769531--7769692 Score: 81
Period size: 10 Copynumber: 18.0 Consensus size: 9
7769521 ATAAATAACC
7769531 TTTTTATAA
1 TTTTTATAA
**
7769540 TTCATAT-A
1 TTTTTATAA
7769548 -TTTTATAA
1 TTTTTATAA
*
7769556 -ATTTATAA
1 TTTTTATAA
*
7769564 TAATTT-TAA
1 T-TTTTATAA
7769573 TTTTTATGAA
1 TTTTTAT-AA
7769583 TTTTTTATAA
1 -TTTTTATAA
*
7769593 -GTTTATAA
1 TTTTTATAA
7769601 TTTTT-TAA
1 TTTTTATAA
*
7769609 --TATAT-A
1 TTTTTATAA
*
7769615 TTTTTAGAA
1 TTTTTATAA
7769624 TTTTTATAA
1 TTTTTATAA
7769633 GTTTTTATAA
1 -TTTTTATAA
*
7769643 TATTTATAA
1 TTTTTATAA
* *
7769652 GTTATTATGAT
1 -TTTTTAT-AA
7769663 TATTTTATAA
1 T-TTTTATAA
7769673 CTTTTTATAAA
1 -TTTTTAT-AA
*
7769684 TTTATATAA
1 TTTTTATAA
7769693 AATTTTAACA
Statistics
Matches: 117, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
6 3 0.03
7 5 0.04
8 25 0.21
9 32 0.27
10 36 0.31
11 16 0.14
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7769584 original size:26 final size:28
Alignment explanation
Indices: 7769548--7769605 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
7769538 AATTCATATA
7769548 TTTTATAAATTTATAATAA-TTT-TAAT
1 TTTTATAAATTTATAATAAGTTTATAAT
* * *
7769574 TTTTATGAATTTTTTATAAGTTTATAAT
1 TTTTATAAATTTATAATAAGTTTATAAT
7769602 TTTT
1 TTTT
7769606 TAATATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 16 0.59
27 3 0.11
28 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTATAAATTTATAATAAGTTTATAAT
Found at i:7769588 original size:18 final size:17
Alignment explanation
Indices: 7769557--7769609 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
7769547 ATTTTATAAA
* *
7769557 TTTATAATAATTTTAATT
1 TTTATAAT-TTTTTAATG
*
7769575 TTTATGAATTTTTTATAAG
1 TTTAT-AATTTTTTA-ATG
7769594 TTTATAATTTTTTAAT
1 TTTATAATTTTTTAAT
7769610 ATATATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 19 0.66
19 9 0.31
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTATAATTTTTTAATG
Found at i:7769637 original size:19 final size:19
Alignment explanation
Indices: 7769573--7769679 Score: 72
Period size: 19 Copynumber: 5.3 Consensus size: 19
7769563 ATAATTTTAA
7769573 TTTTTATGAATTTTTTATAAG
1 TTTTTA-GAA-TTTTTATAAG
* * *
7769594 TTTATA-ATTTTTTAATATATA
1 TTTTTAGAATTTTT-ATA-A-G
7769615 TTTTTAGAATTTTTATAAG
1 TTTTTAGAATTTTTATAAG
* *
7769634 TTTTTATAATATTTATAAG
1 TTTTTAGAATTTTTATAAG
* * *
7769653 TTATTATGATTATTTTATAAC
1 TTTTTA-GAAT-TTTTATAAG
7769674 TTTTTA
1 TTTTTA
7769680 TAAATTTATA
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.08
19 26 0.39
20 4 0.06
21 25 0.38
22 6 0.09
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTTAGAATTTTTATAAG
Found at i:7769668 original size:50 final size:50
Alignment explanation
Indices: 7769571--7769693 Score: 126
Period size: 50 Copynumber: 2.4 Consensus size: 50
7769561 TAATAATTTT
* * * *
7769571 AATTTTTATGAATTTTTTATAAGTTTATAATTTTTTAATATATATTTT-TA
1 AATTTTTAT-AAATTTTTATAAATTTATAAGTTATTAATATATATTTTATA
*
7769621 GAATTTTTATAAGTTTTTATAATATTTATAAGTTATT-ATGAT-TATTTTATA
1 -AATTTTTATAAATTTTTATAA-ATTTATAAGTTATTAAT-ATATATTTTATA
* *
7769672 ACTTTTTATAAATTTATATAAA
1 AATTTTTATAAATTTTTATAAA
7769694 ATTTTAACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
49 1 0.02
50 37 0.60
51 24 0.39
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.58
Consensus pattern (50 bp):
AATTTTTATAAATTTTTATAAATTTATAAGTTATTAATATATATTTTATA
Found at i:7779874 original size:11 final size:11
Alignment explanation
Indices: 7779858--7779888 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7779848 TATATATACT
7779858 TAAAAATTATA
1 TAAAAATTATA
*
7779869 TAAAAATAATA
1 TAAAAATTATA
7779880 TAAAAATTA
1 TAAAAATTA
7779889 ATACAGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:7788175 original size:31 final size:31
Alignment explanation
Indices: 7788140--7788201 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
7788130 TTATAATTTT
*
7788140 GTTATTAAACTAT-TTAAAAGTTTTTATTTAA
1 GTTATTAAAATATGTT-AAAGTTTTTATTTAA
7788171 GTTATTAAAATATGTTAAAGTTTTTATTTAA
1 GTTATTAAAATATGTTAAAGTTTTTATTTAA
7788202 AACACTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (31 bp):
GTTATTAAAATATGTTAAAGTTTTTATTTAA
Found at i:7788319 original size:31 final size:31
Alignment explanation
Indices: 7788283--7788347 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
7788273 GGTAGATCAA
*
7788283 TATTTATCAACGAGTAGATCTAAGTTGATTT
1 TATTTATCAACGAGTAGATCTAAGTTGATCT
7788314 TATTTATCAACGAGTAGATCTAAGTTGATCT
1 TATTTATCAACGAGTAGATCTAAGTTGATCT
7788345 TAT
1 TAT
7788348 AATCACTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (31 bp):
TATTTATCAACGAGTAGATCTAAGTTGATCT
Found at i:7788832 original size:20 final size:23
Alignment explanation
Indices: 7788807--7788847 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
7788797 TTAATGATAT
7788807 ATACAT-TTGT-TT-GTTATCTC
1 ATACATATTGTATTGGTTATCTC
7788827 ATACATATTGTATTGGTTATC
1 ATACATATTGTATTGGTTATC
7788848 AGGTGAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 2 0.11
23 6 0.33
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (23 bp):
ATACATATTGTATTGGTTATCTC
Found at i:7798985 original size:3 final size:3
Alignment explanation
Indices: 7798977--7799016 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7798967 AATCAATGTT
7798977 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7799017 CTACATTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7799076 original size:7 final size:7
Alignment explanation
Indices: 7799064--7799090 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7799054 ATAAGACGAT
7799064 AAGGAAA
1 AAGGAAA
7799071 AAGGAAA
1 AAGGAAA
7799078 AAGGAAA
1 AAGGAAA
7799085 AAGGAA
1 AAGGAA
7799091 GAGAGTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
AAGGAAA
Found at i:7806281 original size:24 final size:24
Alignment explanation
Indices: 7806236--7806281 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7806226 GGCCAAGTGG
***
7806236 ATATGATTAAAAATAGTGAAAACA
1 ATATGATTAAAAATAACAAAAACA
7806260 ATATGATTAAAAATAACAAAAA
1 ATATGATTAAAAATAACAAAAA
7806282 GAAGCAGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (24 bp):
ATATGATTAAAAATAACAAAAACA
Found at i:7810643 original size:13 final size:13
Alignment explanation
Indices: 7810625--7810651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7810615 GTCTGGTCAA
7810625 TCTTTTTCTTTTT
1 TCTTTTTCTTTTT
7810638 TCTTTTTCTTTTT
1 TCTTTTTCTTTTT
7810651 T
1 T
7810652 TAAATTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TCTTTTTCTTTTT
Found at i:7814081 original size:51 final size:51
Alignment explanation
Indices: 7813965--7814082 Score: 119
Period size: 51 Copynumber: 2.3 Consensus size: 51
7813955 CTACCATCAA
* * * * * *
7813965 ATCTTTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGATTATAAAATAATATCTTATAAGATTACATATCATAGATAAG
* * ** * **
7814016 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAAAATAATATCTTATAAGATTACATATCATAGATAAG
7814067 ATCTCTAAGATTATAA
1 ATCTCTAAGATTATAA
7814083 TATCTTTTAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAAAATAATATCTTATAAGATTACATATCATAGATAAG
Found at i:7816713 original size:20 final size:20
Alignment explanation
Indices: 7816690--7816739 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7816680 AAATCCGAAT
*
7816690 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAAGA
*
7816710 TAAAAT-CTTGAAATTCAAGA
1 TAAAATAC-TAAAATTCAAGA
7816730 TAAGAATACT
1 TAA-AATACT
7816740 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 4 0.16
22 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:7816967 original size:35 final size:35
Alignment explanation
Indices: 7816876--7816948 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
7816866 CATATTTTGT
* *
7816876 TATTGCTACTAAAAAAATGAATAAATTAATTTTTA
1 TATTGCTATTAAAAAAATAAATAAATTAATTTTTA
7816911 TATTGCTATTAAAAAAATAAATAAATTAATTTTTA
1 TATTGCTATTAAAAAAATAAATAAATTAATTTTTA
7816946 TAT
1 TAT
7816949 GTTAGATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (35 bp):
TATTGCTATTAAAAAAATAAATAAATTAATTTTTA
Found at i:7820389 original size:30 final size:31
Alignment explanation
Indices: 7820324--7820389 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
7820314 ACTATTAATC
* *
7820324 AGTGACTGTTTTGTCAATTTTTTATAACGTT
1 AGTGACTGTTTTGTCAATTTTTCATAAAGTT
*
7820355 AGTGACTGTTTTGT-TATTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCAATTTTTCATAAAGTT
7820384 GAGTGA
1 -AGTGA
7820390 TTGAAATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 12 0.39
31 14 0.45
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCAATTTTTCATAAAGTT
Found at i:7822115 original size:29 final size:30
Alignment explanation
Indices: 7822082--7822152 Score: 126
Period size: 29 Copynumber: 2.4 Consensus size: 30
7822072 CTATCAAATT
7822082 ATGAAAAGGGATGGTGACAACCATC-AACA
1 ATGAAAAGGGATGGTGACAACCATCGAACA
*
7822111 ATGAAAAGGGATGGTGACGACCATCGAACA
1 ATGAAAAGGGATGGTGACAACCATCGAACA
7822141 ATGAAAAGGGAT
1 ATGAAAAGGGAT
7822153 AGATATGGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACAACCATCGAACA
Found at i:7822202 original size:30 final size:30
Alignment explanation
Indices: 7822141--7822203 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
7822131 CCATCGAACA
* * **
7822141 ATGAAAAGGGATAGATATGGCTATCGGATT
1 ATGAAAAAGGATAGATATGACTATCAAATT
* *
7822171 ATGAAAAAGGATAGCTTTGACTATCAAATT
1 ATGAAAAAGGATAGATATGACTATCAAATT
7822201 ATG
1 ATG
7822204 GAAAGAGATG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (30 bp):
ATGAAAAAGGATAGATATGACTATCAAATT
Found at i:7823887 original size:18 final size:18
Alignment explanation
Indices: 7823866--7823932 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
7823856 AATCGGTTAA
7823866 TCAGTAAC-GATCATTTAT
1 TCAGTAACAG-TCATTTAT
* *
7823884 TCAGTATCAGTCGTTTAT
1 TCAGTAACAGTCATTTAT
* *
7823902 TCAGTAACAGTTAATTAT
1 TCAGTAACAGTCATTTAT
* *
7823920 TCAATAGCAGTCA
1 TCAGTAACAGTCA
7823933 GTCTTCAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 38 0.97
19 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:7824078 original size:18 final size:18
Alignment explanation
Indices: 7824055--7824089 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7824045 TATACTGTGT
*
7824055 CAGTAATGGTAACAGTAA
1 CAGTAATAGTAACAGTAA
*
7824073 CAGTAATAGTAATAGTA
1 CAGTAATAGTAACAGTA
7824090 GCGGTACACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (18 bp):
CAGTAATAGTAACAGTAA
Found at i:7825100 original size:17 final size:19
Alignment explanation
Indices: 7825066--7825104 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
7825056 AAACCTTTAA
7825066 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
7825085 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
7825102 TTT
1 TTT
7825105 CCTTCCCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 3 0.15
19 7 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:7830147 original size:137 final size:137
Alignment explanation
Indices: 7829901--7830178 Score: 529
Period size: 137 Copynumber: 2.0 Consensus size: 137
7829891 CTGGTTCCTA
7829901 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
1 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
* *
7829966 AAAGCATAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATGAGAATTTACA
66 AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATGAGAATTTACA
7830031 TGGCCCT
131 TGGCCCT
*
7830038 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTGTTTATTTAAAAAAAGA
1 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
7830103 AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATGAGAATTTACA
66 AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATGAGAATTTACA
7830168 TGGCCCT
131 TGGCCCT
7830175 GATG
1 GATG
7830179 GTTGCATTTC
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (137 bp):
GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATGAGAATTTACA
TGGCCCT
Found at i:7840521 original size:21 final size:19
Alignment explanation
Indices: 7840465--7840525 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
7840455 TAATTATTTA
7840465 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
7840484 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
7840503 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
7840524 TT
1 TT
7840526 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:7840789 original size:8 final size:8
Alignment explanation
Indices: 7840776--7840808 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
7840766 AAGTTGAGAC
7840776 AAGAAAAA
1 AAGAAAAA
7840784 AAG-AAAA
1 AAGAAAAA
7840791 AAGAAAAA
1 AAGAAAAA
7840799 AAGAAAAA
1 AAGAAAAA
7840807 AA
1 AA
7840809 TCTTCTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:7840796 original size:15 final size:15
Alignment explanation
Indices: 7840776--7840807 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7840766 AAGTTGAGAC
7840776 AAGAAAAAAAGAAAA
1 AAGAAAAAAAGAAAA
7840791 AAGAAAAAAAGAAAA
1 AAGAAAAAAAGAAAA
7840806 AA
1 AA
7840808 ATCTTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAGAAAA
Found at i:7844599 original size:30 final size:30
Alignment explanation
Indices: 7844563--7844622 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
7844553 TATTTTATTA
7844563 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
7844593 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
7844623 ATTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:7844771 original size:12 final size:12
Alignment explanation
Indices: 7844748--7844782 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7844738 TATATATTTT
7844748 AAAATT-ATATA
1 AAAATTAATATA
7844759 AAAATTAATATA
1 AAAATTAATATA
7844771 AAAATTAATATA
1 AAAATTAATATA
7844783 GACGGGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:7847001 original size:3 final size:3
Alignment explanation
Indices: 7846989--7847026 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
7846979 TTATTATTCT
* *
7846989 TTC TTT TTC TTC TTC TTC TTC TTC TTC CTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7847027 TTACTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7849643 original size:16 final size:17
Alignment explanation
Indices: 7849624--7849670 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
7849614 TTGAAATAAT
7849624 AATATTTAAATTTT-TA
1 AATATTTAAATTTTATA
7849640 AATATTTAATAGTTTTATA
1 AATATTTAA-A-TTTTATA
*
7849659 AA-ATTAAAATTT
1 AATATTTAAATTT
7849671 GATCCATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 9 0.33
19 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AATATTTAAATTTTATA
Found at i:7850399 original size:22 final size:22
Alignment explanation
Indices: 7850374--7850436 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
7850364 TTCTTTTCTG
7850374 TTACTATTTTATTGTTATTTTA
1 TTACTATTTTATTGTTATTTTA
* * * *
7850396 TTACTTTTTTACTATTATATTA
1 TTACTATTTTATTGTTATTTTA
* *
7850418 CTACTATTTTGTTGTTATT
1 TTACTATTTTATTGTTATT
7850437 GTTTATGATG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (22 bp):
TTACTATTTTATTGTTATTTTA
Found at i:7851578 original size:20 final size:20
Alignment explanation
Indices: 7851541--7851578 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7851531 TGATGGAGAG
*
7851541 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
7851561 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
7851579 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:7853524 original size:46 final size:46
Alignment explanation
Indices: 7853472--7853745 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
7853462 AGTGTGCTCT
*
7853472 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7853518 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7853564 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7853610 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
7853656 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCTTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
7853702 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
7853746 TCATGTCAAA
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7855195 original size:237 final size:237
Alignment explanation
Indices: 7854779--7855214 Score: 608
Period size: 237 Copynumber: 1.8 Consensus size: 237
7854769 CTCGAAAATC
* *
7854779 AGCTTGGAATCTTTAATCTTGATGAAGATCTGCCTCAGAATCAACTTCAAGGCTGTTCTTTTGGG
1 AGCTTGGAATCTTCAATCTTGATGAAGAACTGCCTCAGAATCAACTTCAAGGCTGTTCTTTTGGG
* * * *
7854844 TAATTTTCATGCAAAAATAGGAGGACTACCATTCTCCCTTTTTATTTTCTTATATTTGCCCTCTC
66 TAATTTTCATGCAAAAATAAGACGACTACCATTCTCCCTTTTTATTTCCTTATATATGCCCTCTC
** **
7854909 AAAGTGCTGAAAACCTAAAAATCAAAAATCCCCGCTGGTGTCATACATGAGTCTAGTTAGTTACA
131 AAAGTGCCAAAAACCTAAAAATCAAAAATCCCCGCTGGTGTCATACATGAGTCTAGCGAGTTACA
7854974 CGCCCGTGTGGAACACTATTGACCGTGTGTAGCTTCTAATTT
196 CGCCCGTGTGGAACACTATTGACCGTGTGTAGCTTCTAATTT
* * *
7855016 AGCTTGGAATCTTCAATCTTGATGGAGAACTGCTTCA-ATATCAATTTCAAAGG-TGTTCTTTTG
1 AGCTTGGAATCTTCAATCTTGATGAAGAACTGCCTCAGA-ATCAACTTC-AAGGCTGTTCTTTTG
** *** *
7855079 GGTAATTTTTGTGCAAAAATAAGACGACTATTGTTCTCCCTTTTTATTTCCTTATATATGCCTTC
64 GGTAATTTTCATGCAAAAATAAGACGACTACCATTCTCCCTTTTTATTTCCTTATATATGCCCTC
*** * *
7855144 TCAAAGTGCCAAAAACCTAAAAA-CTAAAAATCGTTGTTGGTGTCGTACATGAGTCTAGCGAGTT
129 TCAAAGTGCCAAAAACCTAAAAATC-AAAAATCCCCGCTGGTGTCATACATGAGTCTAGCGAGTT
7855208 ACACGCC
193 ACACGCC
7855215 TTGTCCACAC
Statistics
Matches: 172, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
236 2 0.01
237 166 0.97
238 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (237 bp):
AGCTTGGAATCTTCAATCTTGATGAAGAACTGCCTCAGAATCAACTTCAAGGCTGTTCTTTTGGG
TAATTTTCATGCAAAAATAAGACGACTACCATTCTCCCTTTTTATTTCCTTATATATGCCCTCTC
AAAGTGCCAAAAACCTAAAAATCAAAAATCCCCGCTGGTGTCATACATGAGTCTAGCGAGTTACA
CGCCCGTGTGGAACACTATTGACCGTGTGTAGCTTCTAATTT
Found at i:7859110 original size:31 final size:31
Alignment explanation
Indices: 7859072--7859134 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
7859062 AACATAAGCA
* *
7859072 TAATTCCATTTAACCAATTACCATTTCAATG
1 TAATTCCATTAAACCAATTACCATGTCAATG
7859103 TAATTCCATTAAACCAATTACCATGTCAATG
1 TAATTCCATTAAACCAATTACCATGTCAATG
7859134 T
1 T
7859135 TTATCATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (31 bp):
TAATTCCATTAAACCAATTACCATGTCAATG
Found at i:7859400 original size:21 final size:21
Alignment explanation
Indices: 7859368--7859455 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
7859358 TCCGGATCAC
7859368 GCTAAA-AAAAGCTCATAAGA
1 GCTAAATAAAAGCTCATAAGA
* * * *
7859388 GCTTAACAAAAGCTCAAAATA
1 GCTAAATAAAAGCTCATAAGA
* * *
7859409 GCTGAATAGAAGCTCGTAAGA
1 GCTAAATAAAAGCTCATAAGA
* *
7859430 GCTAAATAGAAGCTCGTAAGA
1 GCTAAATAAAAGCTCATAAGA
7859451 GCTAA
1 GCTAA
7859456 TCCACCCGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 5 0.09
21 52 0.91
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (21 bp):
GCTAAATAAAAGCTCATAAGA
Found at i:7866693 original size:19 final size:18
Alignment explanation
Indices: 7866668--7866745 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
7866658 AAAAAGCATA
7866668 AAAAATTAT-TAAATATAT
1 AAAAATTATATAAAT-TAT
7866686 ATAAAATTATATAAATTAT
1 A-AAAATTATATAAATTAT
7866705 AAAAA-TATA-AAACTTAT
1 AAAAATTATATAAA-TTAT
* * *
7866722 AACAGTTCTAGTAAATTAT
1 AAAAATTATA-TAAATTAT
7866741 AAAAA
1 AAAAA
7866746 ACATAAAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.06
17 11 0.22
18 8 0.16
19 19 0.39
20 8 0.16
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAAATTATATAAATTAT
Found at i:7866707 original size:17 final size:17
Alignment explanation
Indices: 7866685--7866744 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
7866675 ATTAAATATA
7866685 TATAAAATTATATAAAT
1 TATAAAATTATATAAAT
*
7866702 TATAAAAATATA-AAACT
1 TATAAAATTATATAAA-T
* *
7866719 TATAACAGTTCTAGTAAAT
1 TATAA-AATTATA-TAAAT
7866738 TATAAAA
1 TATAAAA
7866745 AACATAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 3 0.09
17 17 0.50
18 5 0.15
19 6 0.18
20 3 0.09
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (17 bp):
TATAAAATTATATAAAT
Found at i:7866723 original size:9 final size:8
Alignment explanation
Indices: 7866669--7866723 Score: 56
Period size: 9 Copynumber: 6.2 Consensus size: 8
7866659 AAAAGCATAA
7866669 AAAATTATT
1 AAAATTA-T
7866678 AAATATATAT
1 AAA-AT-TAT
7866688 AAAATTAT
1 AAAATTAT
7866696 ATAAATTAT
1 A-AAATTAT
*
7866705 AAAAATAT
1 AAAATTAT
7866713 AAAACTTAT
1 AAAA-TTAT
7866722 AA
1 AA
7866724 CAGTTCTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 14 0.35
9 18 0.45
10 6 0.15
11 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATTAT
Found at i:7867886 original size:27 final size:29
Alignment explanation
Indices: 7867842--7867895 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
7867832 TATTATAGTC
*
7867842 TTTTTTATAAATTCTTATGATATTTATGA
1 TTTTTTATAAATTCTTATAATATTTATGA
*
7867871 TTTTTT-TAAGTT-TTATAATATTTAT
1 TTTTTTATAAATTCTTATAATATTTAT
7867896 AATAATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 5 0.22
29 6 0.26
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (29 bp):
TTTTTTATAAATTCTTATAATATTTATGA
Found at i:7869408 original size:27 final size:27
Alignment explanation
Indices: 7869373--7869450 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
7869363 AACTAATCGA
* *
7869373 GCCTTTCTCAGAGGCGCAAATGGTTGT
1 GCCTATCTCAGAGGCGCAAATGATTGT
*
7869400 GTCTATCTCAG-GGACGCAAATGATTGT
1 GCCTATCTCAGAGG-CGCAAATGATTGT
*
7869427 GCCTATCTCAGAGGCGCATATGAT
1 GCCTATCTCAGAGGCGCAAATGAT
7869451 GTGGCCCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (27 bp):
GCCTATCTCAGAGGCGCAAATGATTGT
Found at i:7869578 original size:18 final size:19
Alignment explanation
Indices: 7869550--7869585 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
7869540 CGGAAATAAG
7869550 AAGATAAGGAGAAGAAAAA
1 AAGATAAGGAGAAGAAAAA
7869569 AAGA-AAGGAGAAGAAAA
1 AAGATAAGGAGAAGAAAA
7869586 CAAGGAGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (19 bp):
AAGATAAGGAGAAGAAAAA
Found at i:7872733 original size:72 final size:72
Alignment explanation
Indices: 7872606--7872744 Score: 174
Period size: 72 Copynumber: 1.9 Consensus size: 72
7872596 AAAAACCATA
*
7872606 AAATTGATAAATAAAATGAAAAAAAAGTCATTACATAAATACAAAGTTAACTATTTAAATTACAA
1 AAATTGATAAATAAAATGAAAAAAAAGTCATTACATAAATACAAAGTGAACTATTTAAATTACAA
7872671 AAAAAAT
66 AAAAAAT
* * ** * * *
7872678 AAATTGTTAATTAAAATGCCAAAAAATTCATTACATAAATA-AATA-TGAAGTTATTTATATTAC
1 AAATTGATAAATAAAATGAAAAAAAAGTCATTACATAAATACAA-AGTGAA-CTATTTAAATTAC
7872741 AAAA
64 AAAA
7872745 CCCCCTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
71 5 0.09
72 52 0.91
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (72 bp):
AAATTGATAAATAAAATGAAAAAAAAGTCATTACATAAATACAAAGTGAACTATTTAAATTACAA
AAAAAAT
Found at i:7872958 original size:33 final size:33
Alignment explanation
Indices: 7872914--7872998 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
7872904 ATGAACTTGA
*
7872914 GCCGGGAGGAGTGGAGTAC-GACTATTGATACGG
1 GCCGGGAGGAGTGGAGTACAG-CAATTGATACGG
*
7872947 GTCGGGAGGAGTGGAGTACAGCAATTGATACGG
1 GCCGGGAGGAGTGGAGTACAGCAATTGATACGG
* * *
7872980 GCCAGAAGGAGCGGAGTAC
1 GCCGGGAGGAGTGGAGTAC
7872999 TGAGGTGGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 44 0.98
34 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.42, T:0.15
Consensus pattern (33 bp):
GCCGGGAGGAGTGGAGTACAGCAATTGATACGG
Found at i:7875647 original size:60 final size:62
Alignment explanation
Indices: 7875563--7875695 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 62
7875553 ATACAAAACT
* * * * *
7875563 AAACAC-AACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA-C
1 AAACACAAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTATA
*
7875623 AAACACAAAAAATTT-TAACATAATCCTAAATTACAAACAAATTATTTTTAAAATAATTATA
1 AAACACAAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTATA
*
7875684 AAAAACAAAAAA
1 AAACACAAAAAA
7875696 ATTACATTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
60 46 0.72
61 18 0.28
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (62 bp):
AAACACAAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTATA
Found at i:7875817 original size:3 final size:3
Alignment explanation
Indices: 7875811--7875861 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
7875801 TCTTTTTTCT
*
7875811 TTC TTC TTC TTC TCCC TTC TTC TTC TTC -TC TTC TTC TTCC TT- TT-
1 TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC
7875855 TTC TTC T
1 TTC TTC T
7875862 CCTTTCTCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.14
3 31 0.74
4 5 0.12
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:7875830 original size:16 final size:14
Alignment explanation
Indices: 7875807--7875887 Score: 66
Period size: 13 Copynumber: 6.0 Consensus size: 14
7875797 TTTTTCTTTT
7875807 TTCTT-TCTTCTTC
1 TTCTTCTCTTCTTC
*
7875820 TTC-TCCCTTCTTC
1 TTCTTCTCTTCTTC
7875833 TTCTTCTCTTCTTC
1 TTCTTCTCTTCTTC
*
7875847 TTCCTT-TTTTCTTC
1 TT-CTTCTCTTCTTC
*
7875861 TCCTT-TCTCTCTT-
1 TTCTTCTCT-TCTTC
7875874 TTCTT-TCTCTCTTC
1 TTCTTCTCT-TCTTC
7875888 CGGTGTGAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
12 1 0.02
13 30 0.53
14 23 0.40
15 3 0.05
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCTTCTCTTCTTC
Found at i:7875835 original size:19 final size:19
Alignment explanation
Indices: 7875811--7875878 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
7875801 TCTTTTTTCT
7875811 TTCTTCTTCTTCTCCCTTC
1 TTCTTCTTCTTCTCCCTTC
*
7875830 TTCTTCTTC-TCT-TCTTC
1 TTCTTCTTCTTCTCCCTTC
* *
7875847 TTCCTTTTTTCTTCTCCTTTC
1 TT-C-TTCTTCTTCTCCCTTC
7875868 TCTCTT-TTCTT
1 T-TCTTCTTCTT
7875879 TCTCTCTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
17 6 0.15
18 4 0.10
19 19 0.47
20 5 0.12
21 5 0.12
22 1 0.03
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (19 bp):
TTCTTCTTCTTCTCCCTTC
Found at i:7876043 original size:31 final size:31
Alignment explanation
Indices: 7876000--7876106 Score: 126
Period size: 31 Copynumber: 3.4 Consensus size: 31
7875990 GCTGAGTAGG
*
7876000 GGGCATGCATGCAGGCTGTAGGAGGACTGTTC
1 GGGCA-GCATGCAGGCTGCAGGAGGACTGTTC
* * *
7876032 GGGCAGTATGCAGG-TGCAGAGAGAACTATTC
1 GGGCAGCATGCAGGCTGCAG-GAGGACTGTTC
*
7876063 GGGCAGCAGGCAGGCTGCAGGGAGGACTGTTC
1 GGGCAGCATGCAGGCTGCA-GGAGGACTGTTC
*
7876095 AGGCAGCATGCA
1 GGGCAGCATGCA
7876107 AGGCAGGTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
30 4 0.06
31 29 0.47
32 28 0.45
33 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.40, T:0.17
Consensus pattern (31 bp):
GGGCAGCATGCAGGCTGCAGGAGGACTGTTC
Found at i:7876196 original size:21 final size:22
Alignment explanation
Indices: 7876166--7876215 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7876156 CGACAGGCGC
* *
7876166 GACCCTTTTTTA-CCGTATTTT
1 GACCCGTTTTTACCCATATTTT
7876187 GACCCGTTTTTACCCATATTTT
1 GACCCGTTTTTACCCATATTTT
*
7876209 GATCCGT
1 GACCCGT
7876216 ATATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.16, C:0.26, G:0.12, T:0.46
Consensus pattern (22 bp):
GACCCGTTTTTACCCATATTTT
Found at i:7876257 original size:21 final size:20
Alignment explanation
Indices: 7876226--7876273 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
7876216 ATATATATTT
*
7876226 AAATAAT-TTTAATACAAAA
1 AAATAATATTTTATACAAAA
**
7876245 AAATAATATTTTATTTAAAA
1 AAATAATATTTTATACAAAA
7876265 AAATAATAT
1 AAATAATAT
7876274 AAAATAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATAATATTTTATACAAAA
Found at i:7877217 original size:15 final size:14
Alignment explanation
Indices: 7877182--7877223 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
7877172 TTTTACTAAA
7877182 AATTATAAAAAA-T
1 AATTATAAAAAATT
7877195 -ATTATAAAAAATT
1 AATTATAAAAAATT
*
7877208 AATATATAAACAATT
1 AAT-TATAAAAAATT
7877223 A
1 A
7877224 TAAAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 11 0.44
13 1 0.04
14 2 0.08
15 11 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTATAAAAAATT
Found at i:7877907 original size:3 final size:3
Alignment explanation
Indices: 7877899--7877924 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7877889 AGTAGCAATA
7877899 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7877925 ATCAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7881942 original size:16 final size:16
Alignment explanation
Indices: 7881912--7881944 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7881902 TGATTAGAAC
7881912 TAAAAAGATAGCAACA
1 TAAAAAGATAGCAACA
7881928 TAAACAAGATA-CAACA
1 TAAA-AAGATAGCAACA
7881944 T
1 T
7881945 CTTCTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.61, C:0.15, G:0.09, T:0.15
Consensus pattern (16 bp):
TAAAAAGATAGCAACA
Found at i:7888858 original size:16 final size:17
Alignment explanation
Indices: 7888837--7888892 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 17
7888827 GTTTGGTTCA
7888837 CTGTAATGGAATAAG-G
1 CTGTAATGGAATAAGAG
*
7888853 CTGTAATTGAAT-AGAG
1 CTGTAATGGAATAAGAG
* *
7888869 TTGTAATGGAAT-AGAA
1 CTGTAATGGAATAAGAG
7888885 CTGTAATG
1 CTGTAATG
7888893 ATATTCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 2 0.06
16 32 0.94
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (17 bp):
CTGTAATGGAATAAGAG
Found at i:7890139 original size:131 final size:133
Alignment explanation
Indices: 7889814--7890276 Score: 386
Period size: 131 Copynumber: 3.5 Consensus size: 133
7889804 ATGAAAAAGC
* * * ** * *
7889814 GCAACCCAGCACGATAGGGTACGATTCTCA--AATTGTCAAACATCGAACATCGCCTTCGTTTTG
1 GCAACCCAACACGTTAGGGCACGATTC-CACGAATTACCAAATATCGAATATCGCCTTCGTTTT-
* * ** * * *
7889877 AAAGG--TTTTTAATAAACATGAGTAAAAACCTAAAGGAATATTCGATTGTTTTGAA-CAAACGA
64 AAAGGATTTTTTAATAGACATGAGTGAAATTCTAAAGGGACATTCGATTATTTT-AAGCAAACGA
*
7889939 GAAATC
128 GAAATT
* * * * ** *** * * *
7889945 ACAACCCAGCACGATAGGGCATGATTCC-CGAATTGTCAAACCCCGAGTATTGCCTTCATTTTAA
1 GCAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCGAATATCGCCTTCGTTTTAA
* * * * * * *
7890009 AGGA-TTTTTAA-AGGATATGAGTGAAATTTTGAAGGGATATTTGATTTTTTTAAGCAGACGAGA
66 AGGATTTTTTAATA-GACATGAGTGAAATTCTAAAGGGACATTCGATTATTTTAAGCAAACGAGA
7890072 AATT
130 AATT
* * ** * *
7890076 GCAACCCAGCACGTTAGGGTACGATTCCGTGAATTCCCAAATATCGCATATCGCCTTCG-TTTAA
1 GCAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCGAATATCGCCTTCGTTTTAA
* * * * * * *
7890140 GGGATTTTTTAATAGCCGTGGGTGAAATTCTAAAGGGACCTTCGATTATTTTGAGCAAACGAGGA
66 AGGATTTTTTAATAGACATGAGTGAAATTCTAAAGGGACATTCGATTATTTTAAGCAAACGAGAA
7890205 ATT
131 ATT
* *
7890208 GCAACCTAACACGTTAGGGCACGATTCCACGAATTACCAAGTATCGAATATCGCCTTCGTTTTAA
1 GCAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCGAATATCGCCTTCGTTTTAA
7890273 AGGA
66 AGGA
7890277 AATTGTGAAA
Statistics
Matches: 265, Mismatches: 58, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
130 9 0.03
131 128 0.48
132 119 0.45
133 9 0.03
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (133 bp):
GCAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCGAATATCGCCTTCGTTTTAA
AGGATTTTTTAATAGACATGAGTGAAATTCTAAAGGGACATTCGATTATTTTAAGCAAACGAGAA
ATT
Found at i:7891175 original size:19 final size:19
Alignment explanation
Indices: 7891128--7891215 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
7891118 AATCTTTAAG
7891128 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7891147 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7891164 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7891183 GATATCCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7891202 GATATGCAATCTTA
1 GATATGCAATCTTA
7891216 AAGGTATGAT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
17 17 0.26
19 48 0.74
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7894323 original size:12 final size:12
Alignment explanation
Indices: 7894306--7894339 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7894296 TAAAGTTATT
7894306 AAAAAGAGAAAG
1 AAAAAGAGAAAG
*
7894318 AAAAAGAGAGAG
1 AAAAAGAGAAAG
*
7894330 AAAGAGAGAA
1 AAAAAGAGAA
7894340 GAGGGTCACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:7896852 original size:1 final size:1
Alignment explanation
Indices: 7896846--7896895 Score: 64
Period size: 1 Copynumber: 50.0 Consensus size: 1
7896836 CTTCTATTTC
* * * *
7896846 AAAAAAAAAAAAGAAAAAGAAAAAAAAATAAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7896896 TGGAGAGGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.92, C:0.00, G:0.06, T:0.02
Consensus pattern (1 bp):
A
Found at i:7897919 original size:44 final size:44
Alignment explanation
Indices: 7897775--7898482 Score: 492
Period size: 44 Copynumber: 16.3 Consensus size: 44
7897765 CAGAGAAACA
7897775 AGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * ** * * * **
7897819 AGATCTGACA-CTCCTGTGCCTACAGTGAAGC-AGATTGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
7897864 AGCA--TGGCATCCATGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
7897907 AGATTTGGCATCCCTGTATTTATAGGGAAC-AGATTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * * * * **
7897951 AGATTTGACA-CTCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
** *
7897995 A-ACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * *
7898038 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * * * **
7898082 AGATCTAACA-CTCCTGTGATTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
7898127 AGCA--TGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
7898170 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * ** * * **
7898214 AGATCTGACATTCCTGTGATTACAGCAAAGCAAATCAAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAGTCGAAGATAGC
** *
7898259 A-ACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
7898302 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * ** **
7898346 AGATCTGACATTCCTATGCTTATAGCAAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
7898391 AGCA--TGTCATCCCTGTGTTTATAGGGAACAAATCGAAGAT---
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * *
7898431 --A--TGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
7898471 AGATCTGGCATC
1 AGATTTGGCATC
7898483 TCTATTTCGA
Statistics
Matches: 517, Mismatches: 114, Indels: 66
0.74 0.16 0.09
Matches are distributed among these distances:
37 35 0.07
42 3 0.01
43 75 0.15
44 348 0.67
45 53 0.10
46 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:7898176 original size:132 final size:132
Alignment explanation
Indices: 7897775--7898477 Score: 1071
Period size: 132 Copynumber: 5.4 Consensus size: 132
7897765 CAGAGAAACA
* *
7897775 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * *
7897840 ACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCATGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
7897905 GC
131 GC
* * * *
7897907 AGATTTGGCATCCCTGTATTTATAGGGAACAGATTGAAGATAGCAGATTTGACACT-CTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
7897971 ACAGCGAAGCAGATCGAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
7898036 GC
131 GC
* * * *
7898038 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAACAGATCTAACACTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
7898103 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
7898168 GC
131 GC
* *
7898170 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * * *
7898235 ACAGCAAAGCAAATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
7898300 GC
131 GC
* * *
7898302 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * * * *
7898367 ATAGCAAAGCAGATCGAAGATTTCAGCATGTCATCCCTGTGTTTATAGGGAACAAATCGAAGAT-
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
7898431 --
131 GC
* *
7898431 --A--TGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAACAGATCTG
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTG
7898478 GCATCTCTAT
Statistics
Matches: 532, Mismatches: 38, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
125 43 0.08
127 1 0.00
131 121 0.23
132 367 0.69
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:7898369 original size:88 final size:88
Alignment explanation
Indices: 7897775--7898482 Score: 569
Period size: 88 Copynumber: 8.1 Consensus size: 88
7897765 CAGAGAAACA
* * **
7897775 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACA-CTCCTGTGCC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATC-CCTGTGTT
* * **
7897839 TACAGTGAAGCAGATTGAAGATTTC
65 TATAGGGAA-CAGATTGAAGATAGC
* * * * *
7897864 AGCA--TGGCATCCATGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTATT
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATCCCTGTGTT
7897927 TATAGGGAACAGATTGAAGATAGC
65 TATAGGGAACAGATTGAAGATAGC
* * * * * * **
7897951 AGATTTGACA-CTCTGTGCTTACAGCGAAGCAGATCGAAGATTTCA-A-CATGGCATCCCTGTGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGGCATCCCTGTGT
7898013 TTATAGGGAACA-AGTTGAAGATAGC
64 TTATAGGGAACAGA-TTGAAGATAGC
* * ** *
7898038 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAACAGATCTAACA-CTCCTGTGAT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATC-CCTGTGTT
* * * **
7898102 TACAGCGAAGCAGATCGAAGATTTC
65 TATAGGGAA-CAGATTGAAGATAGC
* * * *
7898127 AGCA--TGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTT
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATCCCTGTGTT
* *
7898190 TATAGGGAACAAATCGAAGATAGC
65 TATAGGGAACAGATTGAAGATAGC
* * * * * ** * **
7898214 AGATCTGACATTCCTGTGATTACAGCAAAGCAAATCAAAGATTTCA-A-CATGGCATCCCTGTGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGGCATCCCTGTGT
7898277 TTATAGGGAACA-AGTTGAAGATAGC
64 TTATAGGGAACAGA-TTGAAGATAGC
* * * * *
7898302 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATCCCTGTGTTT
** * **
7898367 ATAGCAAAGCAGATCGAAGATTTC
66 ATAGGGAA-CAGATTGAAGATAGC
*
7898391 AGCA--TGTCATCCCTGTGTTTATAGGGAACAAATCGAAGAT-----A--TGGCATCCCTGTGTT
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATCCCTGTGTT
* ** *
7898447 TATAGGGAACAAATCAAAGATAAC
65 TATAGGGAACAGATTGAAGATAGC
*
7898471 AGATCTGGCATC
1 AGATTTGGCATC
7898483 TCTATTTCGA
Statistics
Matches: 488, Mismatches: 104, Indels: 62
0.75 0.16 0.09
Matches are distributed among these distances:
79 1 0.00
80 13 0.03
81 24 0.05
83 1 0.00
86 3 0.01
87 116 0.24
88 284 0.58
89 41 0.08
90 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (88 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATCCCTGTGTTT
ATAGGGAACAGATTGAAGATAGC
Found at i:7898448 original size:37 final size:37
Alignment explanation
Indices: 7898398--7898468 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
7898388 TTCAGCATGT
*
7898398 CATCCCTGTGTTTATAGGGAACAAATCGAAGATATGG
1 CATCCCTGTGTTTATAGGGAACAAATCAAAGATATGG
7898435 CATCCCTGTGTTTATAGGGAACAAATCAAAGATA
1 CATCCCTGTGTTTATAGGGAACAAATCAAAGATA
7898469 ACAGATCTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (37 bp):
CATCCCTGTGTTTATAGGGAACAAATCAAAGATATGG
Found at i:7899078 original size:19 final size:19
Alignment explanation
Indices: 7899054--7899151 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
7899044 AATCTTTAAG
7899054 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7899073 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
*
7899092 GATA--CAATATTAGATAT
1 GATATGCAATCTTAGATAT
*
7899109 GATATGCAATCTTAGATAC
1 GATATGCAATCTTAGATAT
7899128 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
7899149 GAT
1 GAT
7899152 CTTGTAATCT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.22
19 46 0.67
21 8 0.12
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7899084 original size:36 final size:36
Alignment explanation
Indices: 7899044--7899151 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 36
7899034 ATGGAAATAT
*
7899044 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAAAGATATGCAATCTTAGATATGATATGC
* * *
7899080 AATC-TTAAATATGATACAATATTAGATATGATATGC
1 AATCTTTAAAGAT-ATGCAATCTTAGATATGATATGC
7899116 AATC-TTAGATACGATATGCAATCTTGAAGATATGAT
1 AATCTTTA-A-A-GATATGCAATCTT--AGATATGAT
7899152 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
35 6 0.10
36 32 0.54
37 1 0.02
38 9 0.15
39 2 0.03
40 9 0.15
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (36 bp):
AATCTTTAAAGATATGCAATCTTAGATATGATATGC
Found at i:7900612 original size:27 final size:29
Alignment explanation
Indices: 7900560--7900616 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
7900550 TGGTTTCGAC
*
7900560 ATATATATATAAAATTGATTTAAAAGGAA
1 ATATATATATAAAATAGATTTAAAAGGAA
*
7900589 ATATATA-ATGAAATAGATTT-AAAGGAA
1 ATATATATATAAAATAGATTTAAAAGGAA
7900616 A
1 A
7900617 ACACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.31
28 11 0.42
29 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (29 bp):
ATATATATATAAAATAGATTTAAAAGGAA
Found at i:7900624 original size:28 final size:28
Alignment explanation
Indices: 7900571--7900624 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
7900561 TATATATATA
* * *
7900571 AAATTGATTTAAAAGGAAATATATAATG
1 AAATAGATTTAAAAGGAAACACATAATG
7900599 AAATAGATTT-AAAGGAAAACACATAA
1 AAATAGATTTAAAAGG-AAACACATAA
7900625 AACAATAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (28 bp):
AAATAGATTTAAAAGGAAACACATAATG
Found at i:7901722 original size:2 final size:2
Alignment explanation
Indices: 7901715--7901761 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7901705 GGATTTAATA
7901715 AT AT AT AT 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 AT
7901757 AT AT A
1 AT AT A
7901762 GAAATACATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7905022 original size:24 final size:24
Alignment explanation
Indices: 7904986--7905077 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
7904976 GTGCCTTAGT
* * * * *
7904986 AATTCACATACATATTGACATTCT
1 AATTCGCACACATAATGCCATTCA
* * *
7905010 AATCCGCACACATAGTGCCATACA
1 AATTCGCACACATAATGCCATTCA
7905034 AATTCGCACACATAATGCCATTCA
1 AATTCGCACACATAATGCCATTCA
7905058 AATTCGCACACATAATGCCA
1 AATTCGCACACATAATGCCA
7905078 AAATCATTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.25
Consensus pattern (24 bp):
AATTCGCACACATAATGCCATTCA
Done.