Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 83 of 93
Found at i:12874100 original size:20 final size:20
Alignment explanation
Indices: 12874075--12874115 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12874065 ATATCTCACA
12874075 ATATACATGATGACATAATG
1 ATATACATGATGACATAATG
12874095 ATATACATGATGACATAATG
1 ATATACATGATGACATAATG
12874115 A
1 A
12874116 CAAACTTGCA
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:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (20 bp):
ATATACATGATGACATAATG
Found at i:12875512 original size:21 final size:22
Alignment explanation
Indices: 12875487--12875529 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12875477 AAAAAGTTTA
12875487 CCGGAAAAT-TTCAGAGTTTTG
1 CCGGAAAATGTTCAGAGTTTTG
*
12875508 CCGGAAAATGTTTAGAGTTTTG
1 CCGGAAAATGTTCAGAGTTTTG
12875530 AGAGAGGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (22 bp):
CCGGAAAATGTTCAGAGTTTTG
Found at i:12876539 original size:4 final size:4
Alignment explanation
Indices: 12876530--12876600 Score: 64
Period size: 4 Copynumber: 19.0 Consensus size: 4
12876520 TTTTTATTTG
* *
12876530 TATT TATT TATT TATT TATT TA-T TATT TA-T TA-T TATT TATT AATA
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
*
12876575 TATT T-TAT TA-T TA-T TATT TATC TATT
1 TATT TAT-T TATT TATT TATT TATT TATT
12876601 AACATATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
3 16 0.29
4 40 0.71
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:12876584 original size:30 final size:30
Alignment explanation
Indices: 12876533--12876625 Score: 118
Period size: 30 Copynumber: 3.1 Consensus size: 30
12876523 TTATTTGTAT
* *
12876533 TTATTTATTTATTTA-TTTATTATTTATTA
1 TTATTTATTAATATATTTTATTATTTATTA
12876562 TTATTTATTAATATATTTTATTA-TTATTA
1 TTATTTATTAATATATTTTATTATTTATTA
* *
12876591 TTTATCTATTAACATATTTTATTATTTATCTA
1 -TTATTTATTAATATATTTTATTATTTAT-TA
12876623 TTA
1 TTA
12876626 ATATTCTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
29 19 0.34
30 28 0.50
31 7 0.12
32 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
TTATTTATTAATATATTTTATTATTTATTA
Found at i:12876617 original size:24 final size:25
Alignment explanation
Indices: 12876580--12876626 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
12876570 TAATATATTT
12876580 TATTATTATTATTTATCTATTAACA
1 TATTATTATTATTTATCTATTAACA
12876605 TATT-TTATTATTTATCTATTAA
1 TATTATTATTATTTATCTATTAA
12876627 TATTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTATTATTATTTATCTATTAACA
Found at i:12876624 original size:8 final size:7
Alignment explanation
Indices: 12876518--12876624 Score: 69
Period size: 8 Copynumber: 14.6 Consensus size: 7
12876508 AATTCATTTG
12876518 TATTT-T
1 TATTTAT
*
12876524 TATTT-G
1 TATTTAT
12876530 TATTTATT
1 TATTTA-T
12876538 TATTTATT
1 TATTTA-T
12876546 TATTTAT
1 TATTTAT
12876553 TATTTAT
1 TATTTAT
12876560 TA-TTATT
1 TATTTA-T
*
12876567 TATTAAT
1 TATTTAT
12876574 ATATTTTAT
1 -TA-TTTAT
12876583 TA-TTAT
1 TATTTAT
12876589 TATTTAT
1 TATTTAT
* *
12876596 CTATTAACA
1 -TATTTA-T
12876605 TATTTTAT
1 TA-TTTAT
12876613 TATTTAT
1 TATTTAT
12876620 CTATT
1 -TATT
12876625 AATATTCTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
6 19 0.23
7 23 0.28
8 33 0.40
9 7 0.09
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (7 bp):
TATTTAT
Found at i:12877561 original size:57 final size:56
Alignment explanation
Indices: 12877500--12877680 Score: 184
Period size: 59 Copynumber: 3.1 Consensus size: 56
12877490 TTTTTTTATT
* * *
12877500 TTTTTATTTAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAA
1 TTTTTCTTAAAATAAAATTTTAAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAA
*** *
12877557 TTTTTCTTGAAAATAGGTTTTTCTAAAAAAATATTTCGAGGAAAAGTTGAAAGTATCAA
1 TTTTTCTT-AAAATA-AAATTT-TAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAA
* * * * * *
12877616 TTTTTCTTGAAATTAAAGTTTCAGAAAAATATTTTGGGGAAAAAG-TGAAACTATCAA
1 TTTTTCTT-AAAATAAAATTTTAAAAAAATATTTTGAGG-AAAAGTTGAAAGTATCAA
12877673 TTTTTCTT
1 TTTTTCTT
12877681 GTATAAAAGC
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
57 40 0.38
58 13 0.12
59 41 0.39
60 10 0.10
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.40
Consensus pattern (56 bp):
TTTTTCTTAAAATAAAATTTTAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAA
Found at i:12877681 original size:57 final size:58
Alignment explanation
Indices: 12877520--12877681 Score: 204
Period size: 59 Copynumber: 2.8 Consensus size: 58
12877510 AATAAAATTT
* *
12877520 TAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAGGTTTTTC
1 TAAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-TTTTC
* *
12877580 TAAAAAAATATTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAG-TTTC
1 TAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGTTTTC
* * *
12877638 -AGAAAAATATTTTGGGGAAAAAG-TGAAACTATCAATTTTTCTTG
1 TAAAAAAATATTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTG
12877682 TATAAAAGCA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
57 34 0.37
58 9 0.10
59 37 0.40
60 12 0.13
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (58 bp):
TAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTC
Found at i:12879177 original size:2 final size:2
Alignment explanation
Indices: 12879166--12879196 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
12879156 GATTACTTTT
12879166 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12879197 ATTATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:12883995 original size:23 final size:24
Alignment explanation
Indices: 12883969--12884023 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
12883959 ATGAGATACT
12883969 TTTTATAAAATAAAAT-TATAAAA
1 TTTTATAAAATAAAATATATAAAA
** *
12883992 TTTT-TAAGTTAAAATATATAATA
1 TTTTATAAAATAAAATATATAAAA
12884015 TTTTATAAA
1 TTTTATAAA
12884024 TTAGATGCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 9 0.35
23 14 0.54
24 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTTATAAAATAAAATATATAAAA
Found at i:12886565 original size:17 final size:17
Alignment explanation
Indices: 12886543--12886576 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12886533 GGCAGTGCAT
12886543 GCAGCTCGGAA-TAAAGG
1 GCAGCTC-GAAGTAAAGG
12886560 GCAGCTCGAAGTAAAGG
1 GCAGCTCGAAGTAAAGG
12886577 AAAAAGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.35, C:0.18, G:0.35, T:0.12
Consensus pattern (17 bp):
GCAGCTCGAAGTAAAGG
Found at i:12898556 original size:125 final size:125
Alignment explanation
Indices: 12898377--12898606 Score: 288
Period size: 125 Copynumber: 1.8 Consensus size: 125
12898367 AATTGAAAAT
* **
12898377 GATTATTTAATGCATTTTTAGCTAAAAATACTTTAAACAATCTCATTTTATTTTTTGTAA-AAGA
1 GATTATTTAAGGCATTTTTAGCTAAAAATACTTTAAACAATCTCATTCAATTTTTTGTAAGAA-A
* *
12898441 TTATTTAAGATATTTTTT-GACAAAAAAAGTCTTGAATAATTTTCTCTCCAAATTTTTTGAG
65 TTATTCAAGATATTTTTTGGAC-AAAAAAGACTTGAATAATTTTCTCTCCAAATTTTTTGAG
* * * *
12898502 GATTATTTAAGGTATTTTTGGCTAAAAATA-TATTGAATAA-CTTCATTCAATTTTTTGTAAGAA
1 GATTATTTAAGGCATTTTTAGCTAAAAATACT-TTAAACAATC-TCATTCAATTTTTTGTAAGAA
* * *
12898565 ATTATTCAAGATGTTTTTTGGTCAAAAATGACTTGAATAATT
64 ATTATTCAAGATATTTTTTGGACAAAAAAGACTTGAATAATT
12898607 CACAAAAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
124 2 0.02
125 83 0.93
126 4 0.04
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (125 bp):
GATTATTTAAGGCATTTTTAGCTAAAAATACTTTAAACAATCTCATTCAATTTTTTGTAAGAAAT
TATTCAAGATATTTTTTGGACAAAAAAGACTTGAATAATTTTCTCTCCAAATTTTTTGAG
Found at i:12898689 original size:61 final size:61
Alignment explanation
Indices: 12898560--12898678 Score: 150
Period size: 61 Copynumber: 2.0 Consensus size: 61
12898550 AATTTTTTGT
* * * *
12898560 AAGAAATTATTCAAGATGTTTTTTGGTCAAAAATGACTTGAATAATTCACAAAAAAATGGA
1 AAGAGATTATTCAAGATGTTTTTTGGTCAAAAACGACTTGAATAATTAAAAAAAAAATGGA
* ** *
12898621 AAGAGATTATTCAAGATG-TTTTTGTTCATGAACGCCTTGAATAATCTAAAAAAAAAAT
1 AAGAGATTATTCAAGATGTTTTTTGGTCAAAAACGACTTGAATAAT-TAAAAAAAAAAT
12898679 TGGAGGAGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 22 0.45
61 27 0.55
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (61 bp):
AAGAGATTATTCAAGATGTTTTTTGGTCAAAAACGACTTGAATAATTAAAAAAAAAATGGA
Found at i:12899066 original size:24 final size:22
Alignment explanation
Indices: 12899039--12899083 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
12899029 TTAATTTATT
*
12899039 AATTAAAACTTAATAATATTAAAG
1 AATTAAAAATTAAT--TATTAAAG
12899063 AATTAAAAATTAATTATTAAA
1 AATTAAAAATTAATTATTAAA
12899084 AAAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTAAAAATTAATTATTAAAG
Found at i:12900630 original size:7 final size:7
Alignment explanation
Indices: 12900605--12900754 Score: 63
Period size: 7 Copynumber: 20.7 Consensus size: 7
12900595 AAAAAAAAAA
12900605 CTAAACC
1 CTAAACC
* *
12900612 CCAAACTT
1 CTAAAC-C
12900620 CTAAACC
1 CTAAACC
12900627 CTAAACC
1 CTAAACC
**
12900634 CTAAAAA
1 CTAAACC
*
12900641 CAAAACC
1 CTAAACC
*
12900648 TTAAACC
1 CTAAACC
12900655 CTCAAAACC
1 CT--AAACC
*
12900664 CTACAA-A
1 CTA-AACC
12900671 CTAAACC
1 CTAAACC
12900678 CTAAACAC
1 CTAAAC-C
*
12900686 TTCAAACC
1 CT-AAACC
* **
12900694 TTAAAAA
1 CTAAACC
*
12900701 C-AAAAC
1 CTAAACC
12900707 CTAAACC
1 CTAAACC
*
12900714 TCCAAACC
1 -CTAAACC
*
12900722 CTAAA-A
1 CTAAACC
*
12900728 TTAAACC
1 CTAAACC
12900735 CTAAACC
1 CTAAACC
*
12900742 TCAAAACC
1 -CTAAACC
12900750 CTAAA
1 CTAAA
12900755 AATGAAACCC
Statistics
Matches: 104, Mismatches: 28, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
6 11 0.11
7 58 0.56
8 24 0.23
9 11 0.11
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:12900665 original size:30 final size:28
Alignment explanation
Indices: 12900620--12900920 Score: 227
Period size: 30 Copynumber: 10.4 Consensus size: 28
12900610 CCCCAAACTT
12900620 CTAAACC-CTAAACCCTAAAAACAAAACC
1 CTAAACCTC-AAACCCTAAAAACAAAACC
* * *
12900648 TTAAACCCTCAAAACCCTACAAACTAAACC
1 CTAAA-CCTC-AAACCCTAAAAACAAAACC
*
12900678 CTAAACACTTCAAACCTTAAAAACAAAA-C
1 CTAAAC-C-TCAAACCCTAAAAACAAAACC
**
12900707 CTAAACCTCCAAACCCT-AAAATTAAACC
1 CTAAACCT-CAAACCCTAAAAACAAAACC
**
12900735 CTAAACCTCAAAACCCTAAAAATGAAACC
1 CTAAACCTC-AAACCCTAAAAACAAAACC
* * * *
12900764 CTAGACCATCAAAACTCTAAAATCAAATCC
1 CTAAACC-TC-AAACCCTAAAAACAAAACC
* * *
12900794 CTAAAACATCAAAACCTTAAAATCAAAACC
1 CT-AAACCTC-AAACCCTAAAAACAAAACC
* * *
12900824 CTAAATCTTCTAAACCTTAAAACCAAAA-C
1 CTAAA-CCTC-AAACCCTAAAAACAAAACC
* *
12900853 CTCAAACTTCAAACCCTAAAATCAAAACC
1 CT-AAACCTCAAACCCTAAAAACAAAACC
* *
12900882 CCAAACCTCAAACCCTAAAATA-AAAAAC
1 CTAAACCTCAAACCCTAAAA-ACAAAACC
12900910 CT-AACCTCAAA
1 CTAAACCTCAAA
12900921 ATCTAAAACT
Statistics
Matches: 226, Mismatches: 33, Indels: 29
0.78 0.11 0.10
Matches are distributed among these distances:
27 18 0.08
28 66 0.29
29 38 0.17
30 99 0.44
31 5 0.02
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.17
Consensus pattern (28 bp):
CTAAACCTCAAACCCTAAAAACAAAACC
Found at i:12900724 original size:15 final size:15
Alignment explanation
Indices: 12900701--12900754 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
12900691 ACCTTAAAAA
*
12900701 CAAAACCTAAACCTC
1 CAAACCCTAAACCTC
*
12900716 CAAACCCTAAA-AT-
1 CAAACCCTAAACCTC
*
12900729 TAAACCCTAAACCTC
1 CAAACCCTAAACCTC
*
12900744 AAAACCCTAAA
1 CAAACCCTAAA
12900755 AATGAAACCC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 10 0.31
14 2 0.06
15 20 0.62
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (15 bp):
CAAACCCTAAACCTC
Found at i:12900880 original size:14 final size:14
Alignment explanation
Indices: 12900629--12900913 Score: 136
Period size: 14 Copynumber: 19.6 Consensus size: 14
12900619 TCTAAACCCT
*
12900629 AAACCCTAAAAACA
1 AAACCCTAAAATCA
* *
12900643 AAACCTTAAACCCTCA
1 AAACCCTAAA--ATCA
*
12900659 AAACCCTACAAA-CT
1 AAACCCTA-AAATCA
12900673 AAACCCTAAACACTTC-
1 AAACCCTAAA-A--TCA
* *
12900689 AAACCTTAAAAACA
1 AAACCCTAAAATCA
* *
12900703 AAA-CCTAAACCTCC
1 AAACCCTAAA-ATCA
*
12900717 AAACCCTAAAAT-T
1 AAACCCTAAAATCA
*
12900730 AAACCCTAAACCTCA
1 AAACCCTAAA-ATCA
*
12900745 AAACCCTAAAAAT-G
1 AAACCCT-AAAATCA
*
12900759 AAACCCTAGACCATCA
1 AAACCCTA-A-AATCA
*
12900775 AAACTCTAAAATCA
1 AAACCCTAAAATCA
*
12900789 AATCCCTAAAACATCA
1 AAACCCT-AAA-ATCA
*
12900805 AAACCTTAAAATCA
1 AAACCCTAAAATCA
* *
12900819 AAACCCTAAATCTTCT
1 AAACCCTAAA--ATCA
* *
12900835 AAACCTTAAAACCA
1 AAACCCTAAAATCA
*
12900849 AAA-CCTCAAACTTC-
1 AAACCCT-AAA-ATCA
12900863 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
12900877 AAACCCCAAACCTC-
1 AAACCCTAAA-ATCA
*
12900891 AAACCCTAAAATAA
1 AAACCCTAAAATCA
*
12900905 AAAACCTAA
1 AAACCCTAA
12900914 CCTCAAAATC
Statistics
Matches: 202, Mismatches: 43, Indels: 52
0.68 0.14 0.18
Matches are distributed among these distances:
13 24 0.12
14 97 0.48
15 30 0.15
16 48 0.24
17 3 0.01
ACGTcount: A:0.52, C:0.31, G:0.01, T:0.16
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:12900984 original size:15 final size:14
Alignment explanation
Indices: 12900953--12900992 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
12900943 CCTAAAATCC
12900953 AAAATTCCAAACCTT
1 AAAA-TCCAAACCTT
*
12900968 AAAATCCAATACTTT
1 AAAATCCAA-ACCTT
12900983 AAAATCCAAA
1 AAAATCCAAA
12900993 ATTCTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATCCAAACCTT
Found at i:12903560 original size:11 final size:11
Alignment explanation
Indices: 12903544--12903589 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
12903534 GGATTAGGTT
12903544 TTTTTTTGAAA
1 TTTTTTTGAAA
*
12903555 TTTTTTTG-CA
1 TTTTTTTGAAA
12903565 TTTTTTTGAGAA
1 TTTTTTTGA-AA
*
12903577 TTTTTTGGAAA
1 TTTTTTTGAAA
12903588 TT
1 TT
12903590 CCATAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.30
11 12 0.40
12 9 0.30
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (11 bp):
TTTTTTTGAAA
Found at i:12904077 original size:4 final size:4
Alignment explanation
Indices: 12904053--12904121 Score: 54
Period size: 4 Copynumber: 17.2 Consensus size: 4
12904043 TTTTGCTTAA
** *
12904053 TTAT TCTAT TTAT CCAT TTAT TTA- TTAT TTAG TTAT TTAT TTAT CATTA-
1 TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT --TTAT
*
12904102 TTAT TT-T TTAT ATAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT T
12904122 GGTTAAGTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
3 9 0.18
4 35 0.69
5 4 0.08
6 3 0.06
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:12904106 original size:32 final size:32
Alignment explanation
Indices: 12904053--12904121 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
12904043 TTTTGCTTAA
*
12904053 TTATTCTATTTATCCATTTATTTATTATTTAG
1 TTATTCTATTTATCCATTTATTTATTATATAG
* *
12904085 TTATT-TATTTAT-CATTATTATTTTTTATATAT
1 TTATTCTATTTATCCA-T-TTATTTATTATATAG
12904117 TTATT
1 TTATT
12904122 GGTTAAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 8 0.25
32 22 0.69
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (32 bp):
TTATTCTATTTATCCATTTATTTATTATATAG
Found at i:12904311 original size:56 final size:55
Alignment explanation
Indices: 12904210--12904580 Score: 466
Period size: 55 Copynumber: 6.7 Consensus size: 55
12904200 AAAATATTTT
* * * *
12904210 TTTTAAAAAAAAATTGAAAGTATCAATTTTCCTTGAAAA-AAAATTTTCAAAAATG
1 TTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAA-TTTCAAAAATG
12904265 TTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAATG
1 TTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAA-TTTCAAAAATG
*
12904321 TTTTAAGAAAAATTTGAAAATATCAATTTTTCTTGAAAATGAAAATTTCAAAAATG
1 TTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAAT-AAAATTTCAAAAATG
* * * ** *
12904377 TTTTAAGGAAAAGTTGAAAGTATCAA-TTTCCTTTGAAACGAAAATTTC-AAAATA
1 TTTTAAGAAAAAGTTGAAAATATCAATTTTTC-TTGAAAATAAAATTTCAAAAATG
* *
12904431 TTTTAAGAAAAAGTTGAAACTATCAA-TTTTCTTTGAAAACGAAAATTTCAAAAATG
1 TTTTAAGAAAAAGTTGAAAATATCAATTTTTC-TTGAAAA-TAAAATTTCAAAAATG
* *
12904487 TTTTAAG-GAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTTAAAAATG
1 TTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAAT-AAAATTTCAAAAATG
* * * *
12904542 CTTTAAG-AAAAGTTGAAAGTATCAAATTTTCTTAAAAAT
1 TTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAAT
12904581 TGAGAACTTA
Statistics
Matches: 283, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
54 40 0.14
55 127 0.45
56 112 0.40
57 4 0.01
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (55 bp):
TTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTCAAAAATG
Found at i:12904580 original size:55 final size:55
Alignment explanation
Indices: 12904218--12904647 Score: 431
Period size: 55 Copynumber: 7.7 Consensus size: 55
12904208 TTTTTTAAAA
* *
12904218 AAAAATTGAAAGTATC-AATTTTCCTTGAAAA-AAAATTTTCAAAAATGTTTTAAG
1 AAAAGTTGAAAGTATCAAATTTT-CTTGAAAATAAAAATTTCAAAAATGTTTTAAG
* * *
12904272 AAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAATGTTTTAAG
1 -AAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAATGTTTTAAG
* * * *
12904328 AAAAATTTGAAAATATCAATTTTTCTTGAAAATGAAAATTTCAAAAATGTTTTAAGG
1 -AAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAATGTTTTAA-G
* ** *
12904385 AAAAGTTGAAAGTATC-AATTTCCTTTG-AAACGAAAATTTC-AAAATATTTTAAG
1 AAAAGTTGAAAGTATCAAATTTTC-TTGAAAATAAAAATTTCAAAAATGTTTTAAG
* **
12904438 AAAAAGTTGAAACTATC-AATTTTCTTTGAAAACGAAAATTTCAAAAATGTTTTAAG
1 -AAAAGTTGAAAGTATCAAATTTTC-TTGAAAATAAAAATTTCAAAAATGTTTTAAG
* * * * *
12904494 GAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTTAAAAATGCTTTAAG
1 AAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAATGTTTTAAG
* * * **
12904549 AAAAGTTGAAAGTATCAAATTTTCTTAAAAATTGAGAACTTAAAAAAAATGTCTTTTTAAGG
1 AAAAGTTGAAAGTATCAAATTTTCTTGAAAA-T-AAAAATT-TCAAAAATG---TTTTAA-G
* * *
12904611 AAAAGTTCAAAGTATCAAATTTCCTTAAAAATAAAAA
1 AAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAA
12904648 ATAAAAAAAA
Statistics
Matches: 325, Mismatches: 35, Indels: 25
0.84 0.09 0.06
Matches are distributed among these distances:
53 1 0.00
54 36 0.11
55 120 0.37
56 116 0.36
57 6 0.02
58 7 0.02
60 3 0.01
61 6 0.02
62 30 0.09
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (55 bp):
AAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAATGTTTTAAG
Found at i:12904701 original size:62 final size:61
Alignment explanation
Indices: 12904487--12904701 Score: 185
Period size: 62 Copynumber: 3.6 Consensus size: 61
12904477 TTCAAAAATG
* * * * ***
12904487 TTTTAAGGAAAGTTGAAAATATCAATTTTTCTTGAAAA-T-AAAAAT-TTTAAAAATG-C-
1 TTTTAAGAAAAGTTGAAAGTATCAAATTTTCTTAAAAATTAAAAAATAAAAAAAAATGTCT
* * * *
12904543 -TTTAAGAAAAGTTGAAAGTATCAAATTTTCTTAAAAATTGAGAACTTAAAAAAAATGTCT
1 TTTTAAGAAAAGTTGAAAGTATCAAATTTTCTTAAAAATTAAAAAATAAAAAAAAATGTCT
* * * *
12904603 TTTTAAGGAAAAGTTCAAAGTATCAAATTTCCTTAAAAA-TAAAAAATAAAAAAAAAAGTTTTTT
1 TTTTAA-GAAAAGTTGAAAGTATCAAATTTTCTTAAAAATTAAAAAAT-AAAAAAAAA--TGTCT
* *
12904667 TTTTCAGAAAAGTTGAAAGTATC-AATTTTTTTAAA
1 TTTTAAGAAAAGTTGAAAGTATCAAATTTTCTTAAA
12904702 TAAAGGCGTT
Statistics
Matches: 128, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
55 33 0.26
56 1 0.01
57 4 0.03
58 7 0.05
59 1 0.01
61 10 0.08
62 48 0.38
63 16 0.12
64 8 0.06
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (61 bp):
TTTTAAGAAAAGTTGAAAGTATCAAATTTTCTTAAAAATTAAAAAATAAAAAAAAATGTCT
Found at i:12910433 original size:260 final size:258
Alignment explanation
Indices: 12909914--12910429 Score: 814
Period size: 259 Copynumber: 2.0 Consensus size: 258
12909904 TCTTCTATAA
* *
12909914 ATTTAAGACTACAAATGTAATGTGTTATACATCAATTTTTTTTAGTAACTTTTTTTAAGGTATTA
1 ATTTAAGACTACAAATGTAATATATTATACATCAATTTTTTTTAGTAACTTTTTTTAAGGTATTA
*
12909979 TATTACTATTACAATTTTTTTTGTTTATAAATGTTTTTCAAGATATATTTTATTATTATTACAGT
66 TATTACTATTACAATTTTTTTTGTTTATAAATATTTTTCAAGATATATTTTATTATTATTA-AGT
* * * *
12910044 TTCATTCTTATGAAAAATAACTTTTTTCAATTTATTTTTTCTCTTTTCACATATTTTTTAACATT
130 TTAATTATTATGAAAAATAACTTTTTTCAATTTATTTTTTATCTTTTCACATATTTTCTAACATT
*
12910109 TTTTATATTTTATATAATAATTTAGTCAAAATTACTAAAGTAAAAATGTGTTAATACTTTTTTT
195 TTTCATATTTTATATAATAATTTAGTCAAAATTACTAAAGTAAAAATGTGTTAATACTTTTTTT
12910173 ATTTAAGACTACAAATGTAATATATTATACATCAATTTTTTTTAGTAAC-TTTTTTAAGGTACAT
1 ATTTAAGACTACAAATGTAATATATTATACATCAATTTTTTTTAGTAACTTTTTTTAAGGT--AT
* *
12910237 TCTATTACTATTACAATTTTTTTTTTTTATAAA-ATTTTTCTAAGATATATTTTATTATTA-T-A
64 TATATTACTATTACAATTTTTTTTGTTTATAAATATTTTTC-AAGATATATTTTATTATTATTAA
*
12910299 GTTTAATTATTATGAAAAATAA-TTTTTT-AATTTATTTTTTATTTTTTCACATATTTTCTAACA
128 GTTTAATTATTATGAAAAATAACTTTTTTCAATTTATTTTTTATCTTTTCACATATTTTCTAACA
* * *
12910362 -TTTTCATATTTTATATAATAATTTAGTCAAAATTATTAAAGTGAAAGTGTGTTAATA-TTTTTT
193 TTTTTCATATTTTATATAATAATTTAGTCAAAATTACTAAAGTAAAAATGTGTTAATACTTTTTT
12910425 T
258 T
12910426 ATTT
1 ATTT
12910430 TTTAATATAT
Statistics
Matches: 240, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
253 11 0.05
254 53 0.22
255 32 0.13
256 6 0.03
257 21 0.09
258 11 0.05
259 54 0.22
260 52 0.22
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (258 bp):
ATTTAAGACTACAAATGTAATATATTATACATCAATTTTTTTTAGTAACTTTTTTTAAGGTATTA
TATTACTATTACAATTTTTTTTGTTTATAAATATTTTTCAAGATATATTTTATTATTATTAAGTT
TAATTATTATGAAAAATAACTTTTTTCAATTTATTTTTTATCTTTTCACATATTTTCTAACATTT
TTCATATTTTATATAATAATTTAGTCAAAATTACTAAAGTAAAAATGTGTTAATACTTTTTTT
Found at i:12913695 original size:44 final size:43
Alignment explanation
Indices: 12913640--12914067 Score: 301
Period size: 43 Copynumber: 9.9 Consensus size: 43
12913630 AAAACTTTTT
* * *
12913640 TAAACGGAGGCTCAATGACTTTGAAAAATTAAATAAAACTTCTC
1 TAAACAGAGGCTCAACGACTTTGAAAAA-TAAATAAAGCTTCTC
* *
12913684 TAAACAAAGGCTCAACAACTTTGAAAAATAAATAAAGC-TCATC
1 TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTTC-TC
** * * *
12913727 TAAGTAGAGCCTTAACGACTTTGAAAAAATAAATAAAGCTTCTA
1 TAAACAGAGGCTCAACGACTTTG-AAAAATAAATAAAGCTTCTC
* *
12913771 TAAACAGAGGCTTAATGACTTTGAAAAATAAATAAAGC-TCTTC
1 TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTTC-TC
* * * * * ** * *
12913814 TAAGCAGAGACTCGATGACTTTGGAAAATAAATAGGGTTTTTC
1 TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTTCTC
* *
12913857 TAAACA-AAGCTCAACAACTTTGAAAAATAAATAAAGCCTT-TC
1 TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAG-CTTCTC
* * ** * * * **
12913899 CAAGCAGAGATTCGACAATTTTGGAAAAATAAATAGGGC-TCATC
1 TAAACAGAGGCTCAACGACTTT-GAAAAATAAATAAAGCTTC-TC
** * ** * * *
12913943 TAAGTAAAGGCTCAATAACTTTAAAAAATAAATAAGGCTCCTC
1 TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTTCTC
* * * *
12913986 TAAGCAGAAGCTCAACAACTTTGAAAAATAAATAATGC-TCTTC
1 TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTTC-TC
* * * * *
12914029 TAAATAGATGCTTAACGACTTTGAAAAGTAAACAAAGCT
1 TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGCT
12914068 CCTCAACAAA
Statistics
Matches: 300, Mismatches: 71, Indels: 26
0.76 0.18 0.07
Matches are distributed among these distances:
42 34 0.11
43 174 0.58
44 90 0.30
45 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (43 bp):
TAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTTCTC
Found at i:12913802 original size:87 final size:85
Alignment explanation
Indices: 12913649--12914068 Score: 371
Period size: 87 Copynumber: 4.9 Consensus size: 85
12913639 TTAAACGGAG
* *
12913649 GCTCAATGACTTTGAAAAATTAAATAAAACTTCTCTAAACAAAGGCTCAACAACTTTGAAAAATA
1 GCTCAACGACTTTGAAAAA-TAAATAAAGCTTCTCTAAACAAAGGCTCAACAACTTTGAAAAATA
* *
12913714 AATAAAGCTCATCTAAGTAGA
65 AATAAAGCTCTTCTAAGCAGA
* * * * **
12913735 GCCTTAACGACTTTGAAAAAATAAATAAAGCTTCTATAAACAGAGGCTTAATGACTTTGAAAAAT
1 G-CTCAACGACTTTG-AAAAATAAATAAAGCTTCTCTAAACAAAGGCTCAACAACTTTGAAAAAT
12913800 AAATAAAGCTCTTCTAAGCAGA
64 AAATAAAGCTCTTCTAAGCAGA
* * * ** * *
12913822 GACTCGATGACTTTGGAAAATAAATAGGGTTTTTCTAAACAAA-GCTCAACAACTTTGAAAAATA
1 G-CTCAACGACTTTGAAAAATAAATAAAGCTTCTCTAAACAAAGGCTCAACAACTTTGAAAAATA
*
12913886 AATAAAGC-CTTTCCAAGCAGA
65 AATAAAGCTC-TTCTAAGCAGA
* * * * ** ** * *
12913907 GATTCGACAATTTTGGAAAAATAAATAGGGC-TCATCTAAGTAAAGGCTCAATAACTTTAAAAAA
1 G-CTCAACGACTTT-GAAAAATAAATAAAGCTTC-TCTAAACAAAGGCTCAACAACTTTGAAAAA
* *
12913971 TAAATAAGGCTCCTCTAAGCAGAA
63 TAAATAAAGCTCTTCTAAGCAG-A
* * * * * * * *
12913995 GCTCAACAACTTTGAAAAATAAATAATGC-TCTTCTAAATAGATGCTTAACGACTTTGAAAAGTA
1 GCTCAACGACTTTGAAAAATAAATAAAGCTTC-TCTAAACAAAGGCTCAACAACTTTGAAAAATA
*
12914059 AACAAAGCTC
65 AATAAAGCTC
12914069 CTCAACAAAT
Statistics
Matches: 271, Mismatches: 55, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
84 1 0.00
85 47 0.17
86 92 0.34
87 123 0.45
88 8 0.03
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (85 bp):
GCTCAACGACTTTGAAAAATAAATAAAGCTTCTCTAAACAAAGGCTCAACAACTTTGAAAAATAA
ATAAAGCTCTTCTAAGCAGA
Found at i:12914032 original size:172 final size:172
Alignment explanation
Indices: 12913657--12914066 Score: 398
Period size: 172 Copynumber: 2.4 Consensus size: 172
12913647 AGGCTCAATG
*
12913657 ACTTTGAAAAATTAAATAAAACTTCTCTAAACAAAGGCTCAACAACTTTGAAAAATAAATAAAG-
1 ACTTTGAAAAA-TAAATAAAGCTT-TCTAAACAAA-GCTCAACAACTTTGAAAAATAAATAAAGC
* * * * * *
12913721 CTCATCTAAGTAGAGCCTTAACGACTTTGAAAAAATAAATAAAGCTTCTATAAACAGAGGCTTAA
63 CTCATCCAAGCAGAGCATTAACAACTTTGAAAAAATAAATAAAGCTTCTATAAACAAAGGCTCAA
* * * * **
12913786 TGACTTTGAAAAATAAATAAAGCTCTTCTAAGCAGAGACTCGATG
128 TAACTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGACTCAACA
* ** *
12913831 ACTTTGGAAAATAAATAGGGTTTTTCTAAACAAAGCTCAACAACTTTGAAAAATAAATAAAGCCT
1 ACTTTGAAAAATAAATAAAG-CTTTCTAAACAAAGCTCAACAACTTTGAAAAATAAATAAAGCCT
* * * * ** * **
12913896 -TTCCAAGCAGAG-ATTCGACAATTTTGGAAAAATAAATAGGGC-TCATCTAAGTAAAGGCTCAA
65 CATCCAAGCAGAGCATT-AACAACTTTGAAAAAATAAATAAAGCTTC-TATAAACAAAGGCTCAA
*
12913958 TAACTTTAAAAAATAAATAAGGCTCCTCTAAGCAGA-AGCTCAACA
128 TAACTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGA-CTCAACA
* * * * * * *
12914003 ACTTTGAAAAATAAATAATGCTCTTCTAAATAGATGCTTAACGACTTTGAAAAGTAAACAAAGC
1 ACTTTGAAAAATAAATAAAGCT-TTCTAAACA-AAGCTCAACAACTTTGAAAAATAAATAAAGC
12914067 TCCTCAACAA
Statistics
Matches: 192, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
171 6 0.03
172 130 0.68
173 44 0.23
174 12 0.06
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (172 bp):
ACTTTGAAAAATAAATAAAGCTTTCTAAACAAAGCTCAACAACTTTGAAAAATAAATAAAGCCTC
ATCCAAGCAGAGCATTAACAACTTTGAAAAAATAAATAAAGCTTCTATAAACAAAGGCTCAATAA
CTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGACTCAACA
Found at i:12919492 original size:59 final size:59
Alignment explanation
Indices: 12919372--12919840 Score: 520
Period size: 59 Copynumber: 7.7 Consensus size: 59
12919362 TTTTTTGTAG
* * *
12919372 GGAAAATTGATACTTTCAACTTTT-CCCTAAAAA-TATTTGTTGAAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTTTGAAAA-TTT-ATTTCT-AA
* * ***
12919431 GGAAAACTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTTTGAAAATTTATTTCTAA
* * *
12919490 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTTTTTGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA----ATTTTTTTTTGAAAATTT-ATTTCTAA
*
12919554 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-AT-TTTTTTTTGAAAATTTA--TTTC---TA
12919619 A
59 A
* * *
12919620 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATTTTTTTTTGAAAATTTATTTCTAA
* * *
12919679 GGAAAATTGATAGTTTCAACTTTTCTCCAAAAATATTTTTTTTTTG-AAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-A-TTTTTTTTTGAAAATTTATTTCTAA
* *
12919739 GGAAAATTAATACTTTCAACTTTTCCCC-AAAAA-TATTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTTTGAAAATTTATTTCTAA
*
12919796 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-AT-TTTTTTTT
12919841 TGGAATTTTT
Statistics
Matches: 357, Mismatches: 33, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
56 8 0.02
57 39 0.11
58 5 0.01
59 99 0.28
60 58 0.16
61 20 0.06
62 18 0.05
63 17 0.05
64 47 0.13
65 8 0.02
66 38 0.11
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTTTGAAAATTTATTTCTAA
Found at i:12919675 original size:189 final size:181
Alignment explanation
Indices: 12919372--12919839 Score: 607
Period size: 189 Copynumber: 2.6 Consensus size: 181
12919362 TTTTTTGTAG
* * **
12919372 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTGTT-GAAA---ATTTTGATTTTCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTT-AAGG
* ***
12919433 AAAACTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAAAT
65 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTATTTCTAAGGAAAAT
* *
12919497 TGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTTTTTGAAATTTTGATTTTTAA
129 TGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTTTTGAAA-TTT-ATTTCTAA
12919554 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAA-ATA--TTTTTTGGAAATTTATTTTTCTTTTA
*
12919619 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTGAGGAA
62 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAAATTTATTTCTAAGGAA
* * *
12919683 AATTGATAGTTTCAACTTTTCTCCAAAAATATTTTTTTTTTGAAATTTATTTCTGA
126 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
* *
12919739 GGAAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTA--TTTC---TAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAAGGA
12919799 AAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
66 AAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTT
12919840 TTGGAATTTT
Statistics
Matches: 259, Mismatches: 16, Indels: 27
0.86 0.05 0.09
Matches are distributed among these distances:
176 39 0.15
177 7 0.03
179 4 0.02
181 14 0.05
182 27 0.10
183 7 0.03
184 7 0.03
185 33 0.13
186 8 0.03
187 19 0.07
189 81 0.31
190 13 0.05
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (181 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAAGGA
AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
Found at i:12919721 original size:248 final size:242
Alignment explanation
Indices: 12919372--12919845 Score: 656
Period size: 248 Copynumber: 1.9 Consensus size: 242
12919362 TTTTTTGTAG
12919372 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTGTTGAAAATTTTGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTGTTGAAAATTTTGATTTTCAAGGAAAA
* *
12919437 CTGATACTTTCAACTTTTCCTCAAAAAC-CCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGAT
66 CTGATACTTTCAACTTTTCCTCAAAAACATCTTTTTTTG-AAATTTATTTCTAAGGAAAATTAAT
* * *
12919501 ACTTTCAACTTTTCCCCAAAAATTTTTTTTTTTTTTGAAATTTTGATTTTTAAGGAAAATTGATA
130 ACTTTCAACTTTTCCCCAAAAA------TATTTTTTGAAAATTT-ATTTCTAAGGAAAATTGATA
12919566 CTTTCAACTTTTCCCCAAAAATATA-TTTTTTTTGGAAATTTATTTTTCTTTTAA
188 CTTTCAACTTTTCCCCAAAAATATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
* *
12919620 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAA-TTT-A-TTTCTGAGG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTGTT-GAAAATTTTGATTTTC-AAGG
* * * * *
12919681 AAAATTGATAGTTTCAACTTTT-CTCCAAAAATATTTTTTTTTTGAAATTTATTTCTGAGGAAAA
62 AAAACTGATACTTTCAACTTTTCCT-CAAAAACA-TCTTTTTTTGAAATTTATTTCTAAGGAAAA
12919745 TTAATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATTGATACT
125 TTAATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATTGATACT
*
12919810 TTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAA
190 TTCAACTTTTCCCCAAAAATATATTTTTTTTTGGAA
12919846 TTTTTTATTT
Statistics
Matches: 205, Mismatches: 13, Indels: 21
0.86 0.05 0.09
Matches are distributed among these distances:
242 43 0.21
243 26 0.13
247 6 0.03
248 65 0.32
249 48 0.23
250 16 0.08
251 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (242 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTGTTGAAAATTTTGATTTTCAAGGAAAA
CTGATACTTTCAACTTTTCCTCAAAAACATCTTTTTTTGAAATTTATTTCTAAGGAAAATTAATA
CTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAAC
TTTTCCCCAAAAATATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
Found at i:12919969 original size:27 final size:25
Alignment explanation
Indices: 12919917--12919990 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 25
12919907 AACCTAATCT
12919917 AATAAATAAAAATTAAAATAAACAAAGA
1 AATAAAT-AAAA-TAAAA-AAACAAAGA
12919945 AATAAATAAAATAAAAAAATTCAAAGA
1 AATAAATAAAATAAAAAAA--CAAAGA
* * *
12919972 AAGAAAGAAAAAAAAAAAA
1 AATAAATAAAATAAAAAAA
12919991 AAAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 3 0.07
26 5 0.12
27 26 0.63
28 7 0.17
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (25 bp):
AATAAATAAAATAAAAAAACAAAGA
Found at i:12919979 original size:35 final size:35
Alignment explanation
Indices: 12919924--12919998 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
12919914 TCTAATAAAT
* * * *
12919924 AAAAATTAAAATAAACAAAGAAATAAATAAAATAA
1 AAAAATTAAAAGAAACAAAGAAAAAAAAAAAAAAA
* *
12919959 AAAAATTCAAAGAAAGAAAGAAAAAAAAAAAAAAA
1 AAAAATTAAAAGAAACAAAGAAAAAAAAAAAAAAA
12919994 AAAAA
1 AAAAA
12919999 AAACCTGGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (35 bp):
AAAAATTAAAAGAAACAAAGAAAAAAAAAAAAAAA
Found at i:12920355 original size:19 final size:20
Alignment explanation
Indices: 12920316--12920360 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
12920306 AACACCGGTG
*
12920316 CCGGATTCTGGAAATTTTCA
1 CCGGAATCTGGAAATTTTCA
12920336 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
12920355 CCGGAA
1 CCGGAA
12920361 GTTGGCCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:12920531 original size:26 final size:24
Alignment explanation
Indices: 12920492--12920545 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
12920482 AATCTGGAAA
*
12920492 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
12920517 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
12920542 TTTC
1 TTTC
12920546 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:12921001 original size:35 final size:35
Alignment explanation
Indices: 12920962--12921061 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 35
12920952 ATATATATAC
*
12920962 ATAAATAATAAAATACACATAAATAC-TAACAAAAA
1 ATAAATAATAAAATACATATAAATACATAA-AAAAA
* *
12920997 ATAAATAAATAAATATACATATATTAATACATAATAATA
1 ATAAAT-AATAAA-ATACATATA--AATACATAAAAAAA
*
12921036 ATAAATAATACAATACATA-AAATACA
1 ATAAATAATAAAATACATATAAATACA
12921062 AAAGAAGAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
34 6 0.11
35 6 0.11
36 7 0.12
37 15 0.27
38 5 0.09
39 14 0.25
40 3 0.05
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (35 bp):
ATAAATAATAAAATACATATAAATACATAAAAAAA
Found at i:12927093 original size:45 final size:45
Alignment explanation
Indices: 12927044--12927140 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
12927034 TATATTTTTC
*
12927044 TTTTTTTAATTTTTAAAAATTTCACCATTTGGATGAATTTAGAAA
1 TTTTTTTAATTTCTAAAAATTTCACCATTTGGATGAATTTAGAAA
** * * * **
12927089 TTTTTTTAATTTCTAAATTTTTTATCATTTGGGTGAATTTAGATT
1 TTTTTTTAATTTCTAAAAATTTCACCATTTGGATGAATTTAGAAA
12927134 TTTTTTT
1 TTTTTTT
12927141 GTCTTTAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (45 bp):
TTTTTTTAATTTCTAAAAATTTCACCATTTGGATGAATTTAGAAA
Found at i:12936985 original size:2 final size:2
Alignment explanation
Indices: 12936973--12937008 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
12936963 AAAATGATAG
* *
12936973 GA GA GA AA GA GA GT GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
12937009 TGCGAATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:12941942 original size:20 final size:21
Alignment explanation
Indices: 12941904--12941943 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12941894 TTTATAATTT
*
12941904 AATATTATATAAAATTTATAA
1 AATATTATATAAAACTTATAA
*
12941925 AATA-TATATATAACTTATA
1 AATATTATATAAAACTTATA
12941944 TTTTTAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATTATATAAAACTTATAA
Found at i:12942219 original size:17 final size:18
Alignment explanation
Indices: 12942199--12942240 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12942189 ATTTTTATTT
*
12942199 TATAAAAATTTA-AAAAA
1 TATAAAAATTAATAAAAA
*
12942216 TATATAAATTAATAAAAA
1 TATAAAAATTAATAAAAA
12942234 TATAAAA
1 TATAAAA
12942241 TTCAACTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAATTAATAAAAA
Found at i:12967626 original size:20 final size:21
Alignment explanation
Indices: 12967589--12967632 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
12967579 CCTTTTCTTA
* *
12967589 ATTTTTTTATAAAATTATCAG
1 ATTTTTTGATAAAATTATAAG
*
12967610 ATTTTTTGA-AAACTTATAAG
1 ATTTTTTGATAAAATTATAAG
12967630 ATT
1 ATT
12967633 GGACTTCCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTTTTGATAAAATTATAAG
Found at i:12972177 original size:3 final size:3
Alignment explanation
Indices: 12972169--12972224 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
12972159 TAACATATAG
* * * * * *
12972169 TAA TAA TAA TAA TAA CAA CAA CAA CAA CAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12972217 T-A TAA TAA
1 TAA TAA TAA
12972225 ATTAATTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (3 bp):
TAA
Found at i:12972601 original size:21 final size:23
Alignment explanation
Indices: 12972568--12972621 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
12972558 TGTATCTTAT
*
12972568 AATATAAT-TATATATAATTATTTA
1 AATATAATATATA-ATAAAT-TTTA
*
12972592 AATATAATATTTAATAAATTTTA
1 AATATAATATATAATAAATTTTA
12972615 AATATAA
1 AATATAA
12972622 ATCTAAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 11 0.41
24 13 0.48
25 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATAATATATAATAAATTTTA
Found at i:12980068 original size:20 final size:20
Alignment explanation
Indices: 12980043--12980096 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
12980033 TATATTTGCA
12980043 TTATATAAAATATTAATAAT
1 TTATATAAAATATTAATAAT
** *
12980063 TTATATATTTATATT-ATATT
1 TTATATA-AAATATTAATAAT
12980083 TTATATAAAA-ATTA
1 TTATATAAAATATTA
12980097 TATATTATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 3 0.11
19 1 0.04
20 18 0.67
21 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATATAAAATATTAATAAT
Found at i:12980096 original size:18 final size:18
Alignment explanation
Indices: 12980043--12980105 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
12980033 TATATTTGCA
12980043 TTATATAAAATATTAATAATT
1 TTATATAAAA-ATT-AT-ATT
** *
12980064 TATATATTTATATTATATT
1 T-TATATAAAAATTATATT
*
12980083 TTATATAAAAATTATATA
1 TTATATAAAAATTATATT
12980101 TTATA
1 TTATA
12980106 ATTTATATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 18 0.53
19 4 0.12
20 2 0.06
21 4 0.12
22 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATATAAAAATTATATT
Found at i:12980098 original size:31 final size:31
Alignment explanation
Indices: 12980063--12980125 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
12980053 TATTAATAAT
*
12980063 TTATATATT-T-ATATTATATTTTATATAAAAA
1 TTATATATTATAAT-TTATA-TTAATATAAAAA
12980094 TTATATATTATAATTTATATTAATATAAAAA
1 TTATATATTATAATTTATATTAATATAAAAA
12980125 T
1 T
12980126 ATAAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 21 0.72
32 6 0.21
33 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTATATATTATAATTTATATTAATATAAAAA
Found at i:12980119 original size:18 final size:19
Alignment explanation
Indices: 12980052--12980119 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 19
12980042 ATTATATAAA
12980052 ATATTAATAATTTATATATTT
1 ATATTAAT-A-TTATATATTT
* **
12980073 ATATT-ATATTTTATATAA
1 ATATTAATATTATATATTT
*
12980091 AAATTATATATTATA-ATTT
1 ATATTA-ATATTATATATTT
12980110 ATATTAATAT
1 ATATTAATAT
12980120 AAAAATATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
18 15 0.41
19 8 0.22
20 9 0.24
21 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTAATATTATATATTT
Found at i:12980167 original size:20 final size:21
Alignment explanation
Indices: 12980138--12980180 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
12980128 AAAATATATA
12980138 TTTTTAA-TTTT-TTAAAATT
1 TTTTTAATTTTTATTAAAATT
12980157 TTTTATAATTTTTATTAAAATT
1 TTTT-TAATTTTTATTAAAATT
12980179 TT
1 TT
12980181 AAATTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 4 0.19
22 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATTTTTATTAAAATT
Found at i:12980181 original size:20 final size:19
Alignment explanation
Indices: 12980137--12980185 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
12980127 TAAAATATAT
12980137 ATTTT-TAA-TTTTTTAAA
1 ATTTTATAATTTTTTTAAA
12980154 ATTTTTTATAATTTTTATTAAA
1 A--TTTTATAATTTTT-TTAAA
12980176 ATTTTA-AATT
1 ATTTTATAATT
12980186 AATAATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
19 8 0.30
20 8 0.30
21 4 0.15
22 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTATAATTTTTTTAAA
Found at i:12989829 original size:2 final size:2
Alignment explanation
Indices: 12989822--12989849 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12989812 AATGCATAAT
12989822 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
12989850 CGAGTTTATG
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:12990396 original size:10 final size:9
Alignment explanation
Indices: 12990371--12990411 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
12990361 GTGATTATTT
12990371 TAAATATAA
1 TAAATATAA
12990380 -AAATATAA
1 TAAATATAA
12990388 TATAATATAA
1 TA-AATATAA
12990398 TAAAATATAA
1 T-AAATATAA
12990408 -AAAT
1 TAAAT
12990412 TTAGTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 12 0.41
9 1 0.03
10 15 0.52
11 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAATATAA
Found at i:12991162 original size:15 final size:16
Alignment explanation
Indices: 12991130--12991161 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12991120 TCGTTTTAGA
*
12991130 TGTTTAGTGAGTTTTT
1 TGTTTAATGAGTTTTT
12991146 TGTTTAATGAGTTTTT
1 TGTTTAATGAGTTTTT
12991162 GATTGATGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (16 bp):
TGTTTAATGAGTTTTT
Found at i:12993280 original size:16 final size:15
Alignment explanation
Indices: 12993259--12993288 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12993249 TATGTTAAAG
12993259 CTTTTTTTCTCTTTCT
1 CTTTTTTTCT-TTTCT
12993275 CTTTTTTTCTTTTC
1 CTTTTTTTCTTTTC
12993289 CAATTCATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTTTTCTTTTCT
Found at i:12997921 original size:35 final size:35
Alignment explanation
Indices: 12997882--12997952 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
12997872 GAAAACAATC
*
12997882 AAATTAAGTTCGTTGGCAAATGGACAAAGGCACTG
1 AAATTAAGTTAGTTGGCAAATGGACAAAGGCACTG
* *
12997917 AAATTAAGTTAGTTGGCAAATGGGCAATGGCACTG
1 AAATTAAGTTAGTTGGCAAATGGACAAAGGCACTG
12997952 A
1 A
12997953 TGTTGCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (35 bp):
AAATTAAGTTAGTTGGCAAATGGACAAAGGCACTG
Found at i:13002116 original size:3 final size:3
Alignment explanation
Indices: 13002110--13002134 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13002100 AATAATCCTT
13002110 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
13002135 AATGCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13012030 original size:36 final size:36
Alignment explanation
Indices: 13011983--13012054 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
13011973 GATGTATGTG
* * *
13011983 AATAATTATTAAGATATGGTGTTTCATGGATTAATT
1 AATAATTATTAAGATATGGCGTTTAATAGATTAATT
13012019 AATAATTATTAAGATATGGCGTTTAATAGATTAATT
1 AATAATTATTAAGATATGGCGTTTAATAGATTAATT
13012055 GTTGGATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (36 bp):
AATAATTATTAAGATATGGCGTTTAATAGATTAATT
Found at i:13015754 original size:2 final size:2
Alignment explanation
Indices: 13015747--13015778 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13015737 ATATTAGATG
13015747 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
13015779 TTCAGGAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13018393 original size:2 final size:2
Alignment explanation
Indices: 13018382--13018422 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
13018372 AACCTTATTT
13018382 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13018423 CACCTTAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13019258 original size:90 final size:90
Alignment explanation
Indices: 13019112--13019281 Score: 254
Period size: 90 Copynumber: 1.9 Consensus size: 90
13019102 TGTTTTTCTC
* * * *
13019112 TTTTTAATTCATCAATTGTTGATCAATAAGATTTTCGGCCCTAAGATTGAAATTTAATTTTTTTT
1 TTTTTAATTCATCAATTATTGATCAATAAGATTTTCGACCCTAAGATTGAAATTTAAATTTTTTA
13019177 ATAATATATTTTTTTAATGAGATTA
66 ATAATATATTTTTTTAATGAGATTA
13019202 TTTTTAATTCATCAATTATTGATCAATAAGATTCTT-GACCCTAAGATT-AAATTTTAAATTTTT
1 TTTTTAATTCATCAATTATTGATCAATAAGATT-TTCGACCCTAAGATTGAAA-TTTAAATTTTT
* *
13019265 TAATAATGTGTTTTTTT
64 TAATAATATATTTTTTT
13019282 TATAAAAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
89 3 0.04
90 67 0.93
91 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (90 bp):
TTTTTAATTCATCAATTATTGATCAATAAGATTTTCGACCCTAAGATTGAAATTTAAATTTTTTA
ATAATATATTTTTTTAATGAGATTA
Found at i:13020078 original size:23 final size:21
Alignment explanation
Indices: 13020050--13020099 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
13020040 ATTCATTTTC
*
13020050 AATAATTATTTTTATATTAAAAT
1 AATAATTA-TTTTAT-TCAAAAT
13020073 AATAATTATTTTATTCAAAAT
1 AATAATTATTTTATTCAAAAT
13020094 AA-AATT
1 AATAATT
13020100 TTAAAAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 8 0.31
22 6 0.23
23 8 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATAATTATTTTATTCAAAAT
Found at i:13022086 original size:54 final size:54
Alignment explanation
Indices: 13022004--13022114 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
13021994 TGCTTGCTGG
*
13022004 GTCATAATTAAGTAACCAGCAGTGTTTCTTGGAAACAACAACCAAACTTTTCCA
1 GTCATAATTAAGTAACCAGCAGTGTTTCTTGAAAACAACAACCAAACTTTTCCA
* *
13022058 GTCATAATTAAGTAACCAGCAGTGTTTCTTGAAAACAACAACTAAACTTTTGCA
1 GTCATAATTAAGTAACCAGCAGTGTTTCTTGAAAACAACAACCAAACTTTTCCA
13022112 GTC
1 GTC
13022115 GTCTTAGACT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (54 bp):
GTCATAATTAAGTAACCAGCAGTGTTTCTTGAAAACAACAACCAAACTTTTCCA
Found at i:13025384 original size:2 final size:2
Alignment explanation
Indices: 13025377--13025411 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13025367 TTAATTATTA
13025377 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13025412 CTTCATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13029754 original size:132 final size:132
Alignment explanation
Indices: 13029517--13029780 Score: 528
Period size: 132 Copynumber: 2.0 Consensus size: 132
13029507 ATGCAAGTAC
13029517 AAAGGGGTTGCTTCTATAAAATAACATTCACCTAAAAGGAAAATAAGGAAGAAAAACAATGAGCT
1 AAAGGGGTTGCTTCTATAAAATAACATTCACCTAAAAGGAAAATAAGGAAGAAAAACAATGAGCT
13029582 CCAAGGATACTGGAATTTACTTAAAGAGTTTTTTATGAGACTAGTGAACCCAAATTAAAGCCTCT
66 CCAAGGATACTGGAATTTACTTAAAGAGTTTTTTATGAGACTAGTGAACCCAAATTAAAGCCTCT
13029647 TT
131 TT
13029649 AAAGGGGTTGCTTCTATAAAATAACATTCACCTAAAAGGAAAATAAGGAAGAAAAACAATGAGCT
1 AAAGGGGTTGCTTCTATAAAATAACATTCACCTAAAAGGAAAATAAGGAAGAAAAACAATGAGCT
13029714 CCAAGGATACTGGAATTTACTTAAAGAGTTTTTTATGAGACTAGTGAACCCAAATTAAAGCCTCT
66 CCAAGGATACTGGAATTTACTTAAAGAGTTTTTTATGAGACTAGTGAACCCAAATTAAAGCCTCT
13029779 TT
131 TT
13029781 TGGTCATTTT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (132 bp):
AAAGGGGTTGCTTCTATAAAATAACATTCACCTAAAAGGAAAATAAGGAAGAAAAACAATGAGCT
CCAAGGATACTGGAATTTACTTAAAGAGTTTTTTATGAGACTAGTGAACCCAAATTAAAGCCTCT
TT
Found at i:13031785 original size:3 final size:3
Alignment explanation
Indices: 13031777--13031808 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13031767 GGTACCTTAT
13031777 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13031809 GTGTAATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13032257 original size:16 final size:16
Alignment explanation
Indices: 13032236--13032277 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
13032226 TTATTTGATT
13032236 TGGTATAATTAAGAAA
1 TGGTATAATTAAGAAA
* * *
13032252 TGGTATGATTAGGTAA
1 TGGTATAATTAAGAAA
13032268 TGGTATAATT
1 TGGTATAATT
13032278 GACAATCTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (16 bp):
TGGTATAATTAAGAAA
Found at i:13033836 original size:63 final size:62
Alignment explanation
Indices: 13033686--13033880 Score: 169
Period size: 64 Copynumber: 3.1 Consensus size: 62
13033676 ATTGGTTTAC
* * * *
13033686 AAAAAA-TTGAATAGGATTATTGAAGGTATTTTTTGTCAAAAAAACTTTCAATAACCCAT-TCA
1 AAAAAATTTG-ATAGGATTATTGAAGGTATTTTTGGTCAAAAAAGCCTTCAATAATCCATAT-A
** * * *
13033748 ATAAATTTTTGAGAAAGATTATTGAAGGTATTTTTGGTCAAAAATGCCTTCAATAATCCATATA
1 A-AAAAATTTGA-TAGGATTATTGAAGGTATTTTTGGTCAAAAAAGCCTTCAATAATCCATATA
**** * * * *
13033812 AAAAAATTTGCATAGGATTATTGAAAACGTTTTTGGTCAGAAACGCCTTGAATAATCCCTTATA
1 AAAAAATTTG-ATAGGATTATTGAAGGTATTTTTGGTCAAAAAAGCCTTCAATAAT-CCATATA
13033876 AAAAA
1 AAAAA
13033881 TTGAATAATT
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 46 0.43
64 58 0.55
65 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (62 bp):
AAAAAATTTGATAGGATTATTGAAGGTATTTTTGGTCAAAAAAGCCTTCAATAATCCATATA
Found at i:13033903 original size:22 final size:22
Alignment explanation
Indices: 13033859--13033902 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13033849 CAGAAACGCC
*
13033859 TTGAATAATCCCTTATAAAAAA
1 TTGAATAATCCATTATAAAAAA
*
13033881 TTGAATAATTCATTAATAAAAA
1 TTGAATAATCCATT-ATAAAAA
13033903 TATTAGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (22 bp):
TTGAATAATCCATTATAAAAAA
Found at i:13034392 original size:59 final size:59
Alignment explanation
Indices: 13034321--13034577 Score: 167
Period size: 59 Copynumber: 4.4 Consensus size: 59
13034311 TCGTTTCAGC
* *
13034321 CCAAAAATGCTTTGAATAATCCAAAAAATAATGGCAGGGGATTATTTAAGGTGTTTTGG
1 CCAAAAACGCTTTGAATAATCCAAAAAATAATGGCAGGGGATTATTCAAGGTGTTTTGG
* * * *
13034380 CCAAAAACGCTTTGAGTAATCCCTTTTAATAAA-AATTGAAGGGGAATTATTCAAGGCAT-TTTT
1 CCAAAAACGCTTTGAATAAT-CC----AAAAAATAATGGCAGGGG-ATTATTCAAGG--TGTTTT
*
13034443 AG
58 GG
** * ** * * * *
13034445 TTAAAAACGCATTGAATAA-CC---GCAT--T-G-AAGGGATTATTCAA-ATCGTTTCAGC
1 CCAAAAACGCTTTGAATAATCCAAAAAATAATGGCAGGGGATTATTCAAGGT-GTTT-TGG
* * *
13034497 CCAAAAATGCTTTGAATAATCTAAAAAATAATGGCAGGGGATTATTTAAGGTGTTTTGG
1 CCAAAAACGCTTTGAATAATCCAAAAAATAATGGCAGGGGATTATTCAAGGTGTTTTGG
*
13034556 CCAAAAACGCTTTGAGTAATCC
1 CCAAAAACGCTTTGAATAATCC
13034578 CCTTTAATAA
Statistics
Matches: 144, Mismatches: 33, Indels: 42
0.66 0.15 0.19
Matches are distributed among these distances:
49 1 0.01
51 3 0.02
52 24 0.17
53 5 0.03
54 1 0.01
55 1 0.01
56 3 0.02
58 1 0.01
59 39 0.27
60 18 0.12
61 1 0.01
63 11 0.08
64 15 0.10
65 20 0.14
66 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (59 bp):
CCAAAAACGCTTTGAATAATCCAAAAAATAATGGCAGGGGATTATTCAAGGTGTTTTGG
Found at i:13034588 original size:176 final size:176
Alignment explanation
Indices: 13034294--13034649 Score: 676
Period size: 176 Copynumber: 2.0 Consensus size: 176
13034284 TTAATTTTTA
13034294 TGAAGGGATTATTCAAATCGTTTCAGCCCAAAAATGCTTTGAATAATCCAAAAAATAATGGCAGG
1 TGAAGGGATTATTCAAATCGTTTCAGCCCAAAAATGCTTTGAATAATCCAAAAAATAATGGCAGG
*
13034359 GGATTATTTAAGGTGTTTTGGCCAAAAACGCTTTGAGTAATCCCTTTTAATAAAAATTGAAGGGG
66 GGATTATTTAAGGTGTTTTGGCCAAAAACGCTTTGAGTAATCCCCTTTAATAAAAATTGAAGGGG
*
13034424 AATTATTCAAGGCATTTTTAGTTAAAAACGCATTGAATAACCGCAT
131 AATTATTCAAGGCATTTTTAGTTAAAAACGCATTGAATAACCCCAT
*
13034470 TGAAGGGATTATTCAAATCGTTTCAGCCCAAAAATGCTTTGAATAATCTAAAAAATAATGGCAGG
1 TGAAGGGATTATTCAAATCGTTTCAGCCCAAAAATGCTTTGAATAATCCAAAAAATAATGGCAGG
13034535 GGATTATTTAAGGTGTTTTGGCCAAAAACGCTTTGAGTAATCCCCTTTAATAAAAATTGAAGGGG
66 GGATTATTTAAGGTGTTTTGGCCAAAAACGCTTTGAGTAATCCCCTTTAATAAAAATTGAAGGGG
*
13034600 AATTATTCAAGGCATTTTTAGTTAAAAACGTATTGAATAACCCCAT
131 AATTATTCAAGGCATTTTTAGTTAAAAACGCATTGAATAACCCCAT
13034646 TGAA
1 TGAA
13034650 TTTTTTGTAA
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (176 bp):
TGAAGGGATTATTCAAATCGTTTCAGCCCAAAAATGCTTTGAATAATCCAAAAAATAATGGCAGG
GGATTATTTAAGGTGTTTTGGCCAAAAACGCTTTGAGTAATCCCCTTTAATAAAAATTGAAGGGG
AATTATTCAAGGCATTTTTAGTTAAAAACGCATTGAATAACCCCAT
Found at i:13035001 original size:29 final size:29
Alignment explanation
Indices: 13034939--13035025 Score: 140
Period size: 28 Copynumber: 3.0 Consensus size: 29
13034929 TAACTCTATT
13034939 GAAATTATTCAAGGTATTTTTTACCAGAA
1 GAAATTATTCAAGGTATTTTTTACCAGAA
13034968 G-AATTATTCAAGGTATTTTTTACCAGAA
1 GAAATTATTCAAGGTATTTTTTACCAGAA
* *
13034996 GAAATTATTCAATGCATTTTTTTACCAGAA
1 GAAATTATTCAAGGTA-TTTTTTACCAGAA
13035026 ATGCTTTGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
28 28 0.52
29 13 0.24
30 13 0.24
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (29 bp):
GAAATTATTCAAGGTATTTTTTACCAGAA
Found at i:13036031 original size:17 final size:18
Alignment explanation
Indices: 13036002--13036036 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13035992 TGTTATTAAA
*
13036002 TATTTTTACTTTTTTATG
1 TATTTTTACTTTTATATG
13036020 TATTTTTA-TTTTATATG
1 TATTTTTACTTTTATATG
13036037 AAATCCTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
TATTTTTACTTTTATATG
Found at i:13039664 original size:36 final size:37
Alignment explanation
Indices: 13039618--13039691 Score: 141
Period size: 36 Copynumber: 2.0 Consensus size: 37
13039608 ATAGTCATGG
13039618 ATTAATTAGCAATATGAAGAAAAAGGAAAAAAA-AAA
1 ATTAATTAGCAATATGAAGAAAAAGGAAAAAAAGAAA
13039654 ATTAATTAGCAATATGAAGAAAAAGGAAAAAAAGAAA
1 ATTAATTAGCAATATGAAGAAAAAGGAAAAAAAGAAA
13039691 A
1 A
13039692 AAAACTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.15, T:0.16
Consensus pattern (37 bp):
ATTAATTAGCAATATGAAGAAAAAGGAAAAAAAGAAA
Found at i:13041011 original size:9 final size:8
Alignment explanation
Indices: 13040996--13041020 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13040986 AAGCAATGGT
13040996 TAAAAAAA
1 TAAAAAAA
13041004 TAAAAAAA
1 TAAAAAAA
13041012 TAAAAAAA
1 TAAAAAAA
13041020 T
1 T
13041021 TTATTTGAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:13041095 original size:35 final size:34
Alignment explanation
Indices: 13041047--13041128 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
13041037 TGTTTAGTTT
* * * *
13041047 ATTTTAAATTAAATTTTTATTCAATTTTG-ATTAA
1 ATTTAAAATTAAATATATATT-AAATTTGAATTAA
13041081 ATTTAAATATTAAATATATATTAAATTTGAATTAA
1 ATTTAAA-ATTAAATATATATTAAATTTGAATTAA
*
13041116 ATTTTAAATTAAA
1 ATTTAAAATTAAA
13041129 ATGTAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 18 0.44
35 23 0.56
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (34 bp):
ATTTAAAATTAAATATATATTAAATTTGAATTAA
Found at i:13041122 original size:18 final size:18
Alignment explanation
Indices: 13041072--13041125 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
13041062 TTTATTCAAT
13041072 TTTG-ATTAAA-TTTAAA
1 TTTGAATTAAATTTTAAA
* * *
13041088 TATT-AAATATATATTAAA
1 T-TTGAATTAAATTTTAAA
13041106 TTTGAATTAAATTTTAAA
1 TTTGAATTAAATTTTAAA
13041124 TT
1 TT
13041126 AAAATGTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 1 0.04
17 8 0.29
18 19 0.68
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (18 bp):
TTTGAATTAAATTTTAAA
Found at i:13041263 original size:7 final size:7
Alignment explanation
Indices: 13041253--13041278 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13041243 AAATAATATA
13041253 TAAAATT
1 TAAAATT
13041260 TAAAATT
1 TAAAATT
13041267 TAAAATT
1 TAAAATT
13041274 TAAAA
1 TAAAA
13041279 ATCAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAAAATT
Found at i:13044947 original size:20 final size:20
Alignment explanation
Indices: 13044922--13044967 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
13044912 ACTTTTGAAA
*
13044922 AAAAAAAGATAAAAAAAACC
1 AAAAAAAGAAAAAAAAAACC
13044942 AAAAAAAGAAAAAAAAAACC
1 AAAAAAAGAAAAAAAAAACC
13044962 AAAAAA
1 AAAAAA
13044968 TTTTTTTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAAAACC
Found at i:13046291 original size:32 final size:33
Alignment explanation
Indices: 13046191--13046494 Score: 298
Period size: 33 Copynumber: 9.3 Consensus size: 33
13046181 TGATGAAGCT
* *
13046191 TTTATCTGGCC-TCAAATGAAATTTTAAGCTCAG
1 TTTATCTGGCCATC-AATGAAAATTTAAGCCCAG
*
13046224 TTTATCTGGCCATCAATGAAACTTTAAGCCCAG
1 TTTATCTGGCCATCAATGAAAATTTAAGCCCAG
**
13046257 TTTATCTGGCCATCAAT-AAAATTTAAGCTTAG
1 TTTATCTGGCCATCAATGAAAATTTAAGCCCAG
*
13046289 TTTATCTGACCATCAAT-AAAATTTAAGCCCAG
1 TTTATCTGGCCATCAATGAAAATTTAAGCCCAG
* * *
13046321 TTTATTTGGCCATCAATG-ACATTTAAGCTCAG
1 TTTATCTGGCCATCAATGAAAATTTAAGCCCAG
* **
13046353 TTTATCTGGCAATCAATGAAGCTTTAAGCCCAG
1 TTTATCTGGCCATCAATGAAAATTTAAGCCCAG
* * ** * *
13046386 TTTATCTAGCCATCAAAGAAGTTTTAAACCCAA
1 TTTATCTGGCCATCAATGAAAATTTAAGCCCAG
* *** *
13046419 TTTATCTGG-CTTCAAATGAGGTTTTAAGCCTAG
1 TTTATCTGGCCATC-AATGAAAATTTAAGCCCAG
* *
13046452 TTTAGCTGG-CATTCAAT-AAAATTTAAGTCCAG
1 TTTATCTGGCCA-TCAATGAAAATTTAAGCCCAG
*
13046484 TTTATTTGGCC
1 TTTATCTGGCC
13046495 CCAAAAGAAG
Statistics
Matches: 226, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
32 104 0.46
33 118 0.52
34 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (33 bp):
TTTATCTGGCCATCAATGAAAATTTAAGCCCAG
Found at i:13046445 original size:66 final size:65
Alignment explanation
Indices: 13046224--13046455 Score: 202
Period size: 64 Copynumber: 3.6 Consensus size: 65
13046214 TTAAGCTCAG
* * * * * **
13046224 TTTATCTGGCCATCAATGAAACTTTAAGCCCAGTTTATCTGGCCATCAATA-AAATTTAAGCTTA
1 TTTATCTGGCAATCAATGAAGCTTTAAGCCCAGTTTATCTAGCCATCAA-AGACATTTAAACCCA
*
13046288 G
65 A
* * ** * * * * * *
13046289 TTTATCTGACCATCAAT-AAAATTTAAGCCCAGTTTATTTGGCCATCAATGACATTTAAGCTCAG
1 TTTATCTGGCAATCAATGAAGCTTTAAGCCCAGTTTATCTAGCCATCAAAGACATTTAAACCCAA
13046353 TTTATCTGGCAATCAATGAAGCTTTAAGCCCAGTTTATCTAGCCATCAAAGA-AGTTTTAAACCC
1 TTTATCTGGCAATCAATGAAGCTTTAAGCCCAGTTTATCTAGCCATCAAAGACA--TTTAAACCC
13046417 AA
64 AA
* * * *
13046419 TTTATCTGGC-TTCAAATGAGGTTTTAAGCCTAGTTTA
1 TTTATCTGGCAATC-AATGAAGCTTTAAGCCCAGTTTA
13046456 GCTGGCATTC
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
64 57 0.40
65 47 0.33
66 38 0.27
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (65 bp):
TTTATCTGGCAATCAATGAAGCTTTAAGCCCAGTTTATCTAGCCATCAAAGACATTTAAACCCAA
Found at i:13047178 original size:24 final size:24
Alignment explanation
Indices: 13047151--13047197 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
13047141 CAGTCGATTC
* *
13047151 TATAAGACCTCCGGGCATGATTTA
1 TATAAAACCTCCGGGCATAATTTA
13047175 TATAAAACCTCCGGGCATAATTT
1 TATAAAACCTCCGGGCATAATTT
13047198 TGATTCACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (24 bp):
TATAAAACCTCCGGGCATAATTTA
Found at i:13047332 original size:87 final size:87
Alignment explanation
Indices: 13047172--13047372 Score: 242
Period size: 87 Copynumber: 2.3 Consensus size: 87
13047162 CGGGCATGAT
* * * * * * * **
13047172 TTATATAAAACCTCCGGGCATAATTTTGATTCACGGTATTATCTCGATCGATTCATTATTCTTGA
1 TTATATAAGACCTCCGGGCATGATTTCGATTCACGATATTATCCCAATCAATTCATTATTCTCAA
*
13047237 CTTGCGATGTTATC-CTAGTCGA
66 CTTGCGATGTTATCTC-AGTCAA
* * * *
13047259 TTATGTAAGACCTTCGGGCATGATTTCGATTCGCGATGTTATCCCAATCAATTCATTATTCTCAA
1 TTATATAAGACCTCCGGGCATGATTTCGATTCACGATATTATCCCAATCAATTCATTATTCTCAA
13047324 CTTGCGATGTTATCTCAGTCAA
66 CTTGCGATGTTATCTCAGTCAA
* *
13047346 TTCTATAAGACCTCCGGACATGATTTC
1 TTATATAAGACCTCCGGGCATGATTTC
13047373 TGTAAGATCT
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
87 94 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (87 bp):
TTATATAAGACCTCCGGGCATGATTTCGATTCACGATATTATCCCAATCAATTCATTATTCTCAA
CTTGCGATGTTATCTCAGTCAA
Found at i:13047378 original size:24 final size:24
Alignment explanation
Indices: 13047346--13047396 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
13047336 TCTCAGTCAA
13047346 TTCTATAAGACCTCCGGACATGAT
1 TTCTATAAGACCTCCGGACATGAT
* * * *
13047370 TTCTGTAAGATCTTCGGGCATGAT
1 TTCTATAAGACCTCCGGACATGAT
13047394 TTC
1 TTC
13047397 GATTCGTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (24 bp):
TTCTATAAGACCTCCGGACATGAT
Found at i:13047489 original size:37 final size:37
Alignment explanation
Indices: 13047406--13047491 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
13047396 CGATTCGTGA
* * * * * *
13047406 TGTTGTCCCAATTGATTTTTTATTTCTCAATTCGCGG
1 TGTTGTCCCGATCGATTCTTTACTTATCAACTCGCGG
*
13047443 TGTTATCCCGATCGATTCTTTACTTATCAACTCGCGG
1 TGTTGTCCCGATCGATTCTTTACTTATCAACTCGCGG
13047480 TGTTGTCCCGAT
1 TGTTGTCCCGAT
13047492 TGTTTTTGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.43
Consensus pattern (37 bp):
TGTTGTCCCGATCGATTCTTTACTTATCAACTCGCGG
Found at i:13049145 original size:16 final size:17
Alignment explanation
Indices: 13049107--13049150 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
13049097 TAAAACCCCT
*
13049107 AAAATCCAAAATCCTTT
1 AAAATCCAAAATCCTTA
13049124 AAAATCCAAAAT-CTTA
1 AAAATCCAAAATCCTTA
13049140 AAAATCCAAAA
1 AAAATCCAAAA
13049151 ATCTGAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATCCAAAATCCTTA
Found at i:13049167 original size:16 final size:16
Alignment explanation
Indices: 13049148--13049234 Score: 66
Period size: 16 Copynumber: 5.3 Consensus size: 16
13049138 TAAAAATCCA
*
13049148 AAAATCTGAAACCCCT
1 AAAATCTAAAACCCCT
* * * *
13049164 AAAAAACCAAAATCTCT
1 -AAAATCTAAAACCCCT
* * *
13049181 TAAATCCAAACCCCCT
1 AAAATCTAAAACCCCT
*
13049197 AAAATCTGAAACCCCT
1 AAAATCTAAAACCCCT
*
13049213 AAAATTTAAAACCCCAT
1 AAAATCTAAAACCCC-T
13049230 AAAAT
1 AAAAT
13049235 TCGAAATCCC
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
16 36 0.68
17 17 0.32
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAATCTAAAACCCCT
Found at i:13049285 original size:29 final size:29
Alignment explanation
Indices: 13049253--13049363 Score: 102
Period size: 28 Copynumber: 3.8 Consensus size: 29
13049243 CCAAACCTTT
*
13049253 AAACTCTTAAATCCAAATCCCTAAAATC-C
1 AAACTCTTAAAT-CAAAACCCTAAAATCTC
* * *
13049282 AAACCCTTAAATCAAAACCC-CAAACCTC
1 AAACTCTTAAATCAAAACCCTAAAATCTC
* * *
13049310 AAAAT-TTAAAACCGAAACCCTAAAATCTTC
1 AAACTCTT-AAATCAAAACCCTAAAATC-TC
*
13049340 AAACTCTAAAATCAAAACCCTAAA
1 AAACTCTTAAATCAAAACCCTAAA
13049364 CCTTTTATAC
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
27 6 0.10
28 21 0.33
29 15 0.24
30 20 0.32
31 1 0.02
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACTCTTAAATCAAAACCCTAAAATCTC
Found at i:13049288 original size:14 final size:14
Alignment explanation
Indices: 13049261--13049363 Score: 66
Period size: 14 Copynumber: 7.1 Consensus size: 14
13049251 TTAAACTCTT
13049261 AAATCCAAATCCCTA
1 AAATCCAAA-CCCTA
*
13049276 AAATCCAAACCCTT
1 AAATCCAAACCCTA
* *
13049290 AAATCAAAACCC-C
1 AAATCCAAACCCTA
* ***
13049303 AAACCTCAAAATTTA
1 AAATC-CAAACCCTA
13049318 AAA-CCGAAACCCTA
1 AAATCC-AAACCCTA
*
13049332 AAATCTTCAAACTCTA
1 AAATC--CAAACCCTA
*
13049348 AAATCAAAACCCTA
1 AAATCCAAACCCTA
13049362 AA
1 AA
13049364 CCTTTTATAC
Statistics
Matches: 67, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
13 5 0.07
14 36 0.54
15 13 0.19
16 12 0.18
17 1 0.01
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.18
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:13049308 original size:58 final size:58
Alignment explanation
Indices: 13049204--13049368 Score: 156
Period size: 58 Copynumber: 2.8 Consensus size: 58
13049194 CCTAAAATCT
* * * * * *
13049204 GAAACCCCTAAAATTTAAAACCCCATAAAATTCGAAATCCCAAACCTTTAAACTCTTAAATCC
1 GAAA-CCCTAAAATCTCAAA-CCC-TAAAA-TCAAAACCCCAAACCTTTAAAAT-TTAAAACC
* *
13049267 -AAATCCCTAAAATC-CAAACCCTTAAATCAAAACCCCAAACC-TCAAAATTTAAAACC
1 GAAA-CCCTAAAATCTCAAACCCTAAAATCAAAACCCCAAACCTTTAAAATTTAAAACC
* *
13049323 GAAACCCTAAAATCTTCAAACTCTAAAATCAAAACCCTAAACCTTT
1 GAAACCCTAAAATC-TCAAACCCTAAAATCAAAACCCCAAACCTTT
13049369 TATACCCTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
56 17 0.20
57 8 0.09
58 37 0.44
59 5 0.06
60 3 0.04
61 3 0.04
62 12 0.14
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.22
Consensus pattern (58 bp):
GAAACCCTAAAATCTCAAACCCTAAAATCAAAACCCCAAACCTTTAAAATTTAAAACC
Found at i:13049443 original size:22 final size:20
Alignment explanation
Indices: 13049407--13049459 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
13049397 CTCTAAATCT
13049407 TAAAACCAAACCCAAAAACCC
1 TAAAACCAAACCC-AAAACCC
13049428 TCAAAACTCAAA-CCAAAACCC
1 T-AAAAC-CAAACCCAAAACCC
13049449 TAAAATCCAAA
1 TAAAA-CCAAA
13049460 TCTTCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.28
21 10 0.34
22 7 0.24
23 4 0.14
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (20 bp):
TAAAACCAAACCCAAAACCC
Found at i:13051799 original size:4 final size:4
Alignment explanation
Indices: 13051790--13051816 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13051780 AAGCAAAATC
13051790 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
13051817 AAAAGGTTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:13052819 original size:6 final size:6
Alignment explanation
Indices: 13052808--13052839 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
13052798 TTAAAAATAA
13052808 TAAAAT TAAAAT TAAAAT TAAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT T-AAAAT TAAAAT T
13052840 GATAAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAAAT
Found at i:13052833 original size:7 final size:7
Alignment explanation
Indices: 13052796--13052837 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
13052786 GAATTTTTTT
13052796 AATTAAA
1 AATTAAA
*
13052803 AATAATAA
1 AATTA-AA
13052811 AATT-AA
1 AATTAAA
13052817 AATT-AA
1 AATTAAA
13052823 AATTAAA
1 AATTAAA
13052830 AATTAAA
1 AATTAAA
13052837 A
1 A
13052838 TTGATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 12 0.39
7 14 0.45
8 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTAAA
Found at i:13052833 original size:13 final size:13
Alignment explanation
Indices: 13052796--13052839 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
13052786 GAATTTTTTT
13052796 AATTAAAAATAATAA
1 AATTAAAAAT--TAA
13052811 AATT-AAAATTAA
1 AATTAAAAATTAA
13052823 AATTAAAAATTAA
1 AATTAAAAATTAA
13052836 AATT
1 AATT
13052840 GATAAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.25
13 12 0.43
14 5 0.18
15 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTAAAAATTAA
Found at i:13055255 original size:12 final size:12
Alignment explanation
Indices: 13055238--13055273 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
13055228 TTGTAAATAA
13055238 TTTTTTTAAATT
1 TTTTTTTAAATT
13055250 TTTTTTTAAATT
1 TTTTTTTAAATT
*
13055262 TTTTTTAAAATT
1 TTTTTTTAAATT
13055274 CTTAATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTTAAATT
Found at i:13074553 original size:18 final size:19
Alignment explanation
Indices: 13074516--13074554 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13074506 AAATTTAACA
* *
13074516 TTTATAATACAAATTTATT
1 TTTAAAATACAAATTAATT
13074535 TTTAAAATA-AAATTAATT
1 TTTAAAATACAAATTAATT
13074553 TT
1 TT
13074555 GAGTTAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAAATACAAATTAATT
Found at i:13077495 original size:2 final size:2
Alignment explanation
Indices: 13077476--13077531 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
13077466 ATATAAAGAC
* * *
13077476 AG AG AG AC AG AC AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13077518 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
13077532 GGAGGGGGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.05, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13087677 original size:25 final size:24
Alignment explanation
Indices: 13087649--13087727 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
13087639 TTATATTTTT
13087649 ATATTAATATTAATTATAATATATA
1 ATATTAATATTAA-TATAATATATA
* *
13087674 ATATTTATATGAAATATAATATA-A
1 ATATTAATAT-TAATATAATATATA
* **
13087698 ATATATAAATTTTAATATTTTATATA
1 ATAT-T-AATATTAATATAATATATA
13087724 ATAT
1 ATAT
13087728 AAATTTATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 5 0.12
25 28 0.65
26 10 0.23
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (24 bp):
ATATTAATATTAATATAATATATA
Found at i:13088697 original size:26 final size:27
Alignment explanation
Indices: 13088649--13088716 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
13088639 ATTTATTTTT
*
13088649 TAAAAAATAAATATCAAATTAAATATA
1 TAAAAAATAAATATCAAATTAAATAAA
*
13088676 TAAAAAACTAAAT-TTAAA-TAAATAAA
1 TAAAAAA-TAAATATCAAATTAAATAAA
*
13088702 TAAAATAATATATAT
1 TAAAA-AATAAATAT
13088717 ATACCGAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 16 0.46
27 14 0.40
28 5 0.14
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAAAAATAAATATCAAATTAAATAAA
Found at i:13093054 original size:119 final size:119
Alignment explanation
Indices: 13092843--13093080 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
13092833 TCCGTAGTTC
13092843 TCATTTTTTTCTTTATCTTTTGTCTATTGAACTAACGGTAATAGATATCTGCATTGATTATATAT
1 TCATTTTTTTCTTTATCTTTTGTCTATTGAACTAACGGTAATAGATATCTGCATTGATTATATAT
13092908 ATTTTATCAAAAGATGTCTTCTATAATCTGATATTACACCCTTTTTGCCTGTTA
66 ATTTTATCAAAAGATGTCTTCTATAATCTGATATTACACCCTTTTTGCCTGTTA
13092962 TCATTTTTTTCTTTATCTTTTGTCTATTGAACTAACGGTAATAGATATCTGCATTGATTATATAT
1 TCATTTTTTTCTTTATCTTTTGTCTATTGAACTAACGGTAATAGATATCTGCATTGATTATATAT
13093027 ATTTTATCAAAAGATGTCTTCTATAATCTGATATTACACCCTTTTTGCCTGTTA
66 ATTTTATCAAAAGATGTCTTCTATAATCTGATATTACACCCTTTTTGCCTGTTA
13093081 CAGGGTCTGA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (119 bp):
TCATTTTTTTCTTTATCTTTTGTCTATTGAACTAACGGTAATAGATATCTGCATTGATTATATAT
ATTTTATCAAAAGATGTCTTCTATAATCTGATATTACACCCTTTTTGCCTGTTA
Found at i:13096246 original size:12 final size:12
Alignment explanation
Indices: 13096229--13096278 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
13096219 TCCGACAATC
13096229 CCAACCACGACT
1 CCAACCACGACT
13096241 CCAACCACGACT
1 CCAACCACGACT
* *
13096253 CCAA-C-TGTC-
1 CCAACCACGACT
13096262 CCAACCACGACT
1 CCAACCACGACT
13096274 CCAAC
1 CCAAC
13096279 TGTCCCAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 3 0.10
12 21 0.68
ACGTcount: A:0.32, C:0.50, G:0.08, T:0.10
Consensus pattern (12 bp):
CCAACCACGACT
Found at i:13096266 original size:21 final size:21
Alignment explanation
Indices: 13096241--13096296 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
13096231 AACCACGACT
13096241 CCAACCACGACTCCAACTGTC
1 CCAACCACGACTCCAACTGTC
13096262 CCAACCACGACTCCAACTGTC
1 CCAACCACGACTCCAACTGTC
*
13096283 CCAACCACTACTCC
1 CCAACCACGACTCC
13096297 TTCAACATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.50, G:0.07, T:0.14
Consensus pattern (21 bp):
CCAACCACGACTCCAACTGTC
Found at i:13099750 original size:18 final size:18
Alignment explanation
Indices: 13099723--13099759 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13099713 ATTAAATCAA
13099723 ATTAAATTATATATTTTT
1 ATTAAATTATATATTTTT
*
13099741 ATTAATTTATATATTTTT
1 ATTAAATTATATATTTTT
13099759 A
1 A
13099760 AATTTTTATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTAAATTATATATTTTT
Found at i:13103534 original size:24 final size:24
Alignment explanation
Indices: 13103502--13103549 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
13103492 GAACCTCCAG
13103502 AAATAATTATCAAAAGTTCAAGCT
1 AAATAATTATCAAAAGTTCAAGCT
*
13103526 AAATAATTATCCAAAGTTCAAGCT
1 AAATAATTATCAAAAGTTCAAGCT
13103550 TTTATCTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATAATTATCAAAAGTTCAAGCT
Found at i:13121568 original size:6 final size:6
Alignment explanation
Indices: 13121557--13121586 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13121547 CGAACTACTC
13121557 CTGCTA CTGCTA CTGCTA CTGCTA CTGCTA
1 CTGCTA CTGCTA CTGCTA CTGCTA CTGCTA
13121587 GAGCTCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
CTGCTA
Found at i:13121933 original size:27 final size:27
Alignment explanation
Indices: 13121903--13121959 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
13121893 TCATTTCCTA
13121903 CCACCATTTGATAAAATCACAATAGTT
1 CCACCATTTGATAAAATCACAATAGTT
13121930 CCACCATTTGATAAAATCACAATAGTT
1 CCACCATTTGATAAAATCACAATAGTT
13121957 CCA
1 CCA
13121960 ATCACTACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (27 bp):
CCACCATTTGATAAAATCACAATAGTT
Found at i:13123551 original size:17 final size:17
Alignment explanation
Indices: 13123507--13123553 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13123497 AAAAATTGAA
13123507 TTAAA-TTATATATTTT
1 TTAAATTTATATATTTT
* *
13123523 TATTAATATATATATTTT
1 T-TAAATTTATATATTTT
13123541 TTAAATTTATATA
1 TTAAATTTATATA
13123554 AACTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 13 0.52
18 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAAATTTATATATTTT
Found at i:13123609 original size:22 final size:24
Alignment explanation
Indices: 13123582--13123626 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
13123572 TATACATAAA
*
13123582 TTTATTTAAAT-ATAT-TAAAAAT
1 TTTATTAAAATAATATATAAAAAT
13123604 TTTATTAAAATAATATATAAAAA
1 TTTATTAAAATAATATATAAAAA
13123627 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTATTAAAATAATATATAAAAAT
Found at i:13125226 original size:26 final size:27
Alignment explanation
Indices: 13125196--13125251 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
13125186 TTGTATTTAG
* *
13125196 TTTTAAA-AAAACACAATATTTGATTA
1 TTTTAAACAAAACACAATAATTAATTA
**
13125222 TTTTAAACAAATTACAATAATTAATTA
1 TTTTAAACAAAACACAATAATTAATTA
13125249 TTT
1 TTT
13125252 GTTTCTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (27 bp):
TTTTAAACAAAACACAATAATTAATTA
Found at i:13125477 original size:16 final size:16
Alignment explanation
Indices: 13125456--13125495 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13125446 TGTTCAACAT
**
13125456 AATTAAAATTGAAAAA
1 AATTAAAATCCAAAAA
13125472 AATTAAAATCCAAAAA
1 AATTAAAATCCAAAAA
13125488 AATATAAA
1 AAT-TAAA
13125496 TAAGAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AATTAAAATCCAAAAA
Found at i:13136416 original size:39 final size:39
Alignment explanation
Indices: 13136359--13136463 Score: 185
Period size: 39 Copynumber: 2.7 Consensus size: 39
13136349 AGAATTCAAT
* *
13136359 AAAA-ATGATGTTTATAAGATAAAAATATAGTATTGTTG
1 AAAATATGATATTTCTAAGATAAAAATATAGTATTGTTG
13136397 AAAATATGATATTTCTAAGATAAAAATATAGTATTGTTG
1 AAAATATGATATTTCTAAGATAAAAATATAGTATTGTTG
13136436 AAAATATGATATTTCTAAGATAAAAATA
1 AAAATATGATATTTCTAAGATAAAAATA
13136464 CATTCTTTGT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 4 0.06
39 60 0.94
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (39 bp):
AAAATATGATATTTCTAAGATAAAAATATAGTATTGTTG
Found at i:13136422 original size:22 final size:22
Alignment explanation
Indices: 13136397--13136463 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
13136387 AGTATTGTTG
13136397 AAAATATGATATTTCTAAGATA
1 AAAATATGATATTTCTAAGATA
13136419 AAAATAT-AGTATTGT-T--G---
1 AAAATATGA-TATT-TCTAAGATA
13136436 AAAATATGATATTTCTAAGATA
1 AAAATATGATATTTCTAAGATA
13136458 AAAATA
1 AAAATA
13136464 CATTCTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 18
0.67 0.00 0.33
Matches are distributed among these distances:
16 1 0.03
17 12 0.33
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 18 0.50
23 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (22 bp):
AAAATATGATATTTCTAAGATA
Found at i:13136569 original size:150 final size:150
Alignment explanation
Indices: 13136296--13136575 Score: 345
Period size: 150 Copynumber: 1.9 Consensus size: 150
13136286 AAAGACAACG
13136296 TTTCTAAGATAAAAATGTAAATTTTATTAAAAATATGAAAAAATATAGTTTTAAGAATTCAATAA
1 TTTCTAAGATAAAAA-GTAAATTTTATTAAAAATATGAAAAAATATAGTTTTAAGAATTCAATAA
* * * *
13136361 AAATGATGTTTATAAGATAAAAATATAGTATTGTTGAAAATATGATATTTCTAAGATAAAAATAT
65 AAACGACGTTTATAAGATAAAAATATAGTATTATTGAAAAGATGATATTTCTAAGATAAAAATAT
13136426 AGTATTGTTGAAAATATGATA
130 AGTATTGTTGAAAATATGATA
* * * *
13136447 TTTCTAAGATAAAAA-TACATTCTTTGTTAAAAATAT-AAAAAATAT-TTTTTCAA-AATTTAAT
1 TTTCTAAGATAAAAAGTA-AAT-TTTATTAAAAATATGAAAAAATATAGTTTT-AAGAATTCAAT
* * * * * *
13136508 AAAGACGACGTTTTTAAGATAAAAACGTA-ATTTTTATTGAAAAGATGATGTTTCTACGATAAAA
63 AAAAACGACGTTTATAAGATAAAAA--TATAGTATTATTGAAAAGATGATATTTCTAAGATAAAA
13136572 ATAT
126 ATAT
13136576 GATTTTTTTA
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
149 34 0.31
150 46 0.42
151 30 0.27
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (150 bp):
TTTCTAAGATAAAAAGTAAATTTTATTAAAAATATGAAAAAATATAGTTTTAAGAATTCAATAAA
AACGACGTTTATAAGATAAAAATATAGTATTATTGAAAAGATGATATTTCTAAGATAAAAATATA
GTATTGTTGAAAATATGATA
Found at i:13136657 original size:109 final size:110
Alignment explanation
Indices: 13136412--13136682 Score: 318
Period size: 109 Copynumber: 2.5 Consensus size: 110
13136402 ATGATATTTC
* * *
13136412 TAAGATAAAAATATAGTATTGTTGAAAATATGATATTTCTAAGATAAAAATACATTCTTTGTTAA
1 TAAGATAAAAATATATTTTTGTTGAAAAGATGATATTTCTAAGATAAAAATACATTCTTTGTTAA
* * *
13136477 AAATATAAAAAATATTTTTTCAAAATTTAATAAAGACGACGTTTT
66 AAACATAAAAAATATATTTTCAAAATTAAATAAAGACGACGTTTT
* * * *
13136522 TAAGATAAAAACGTA-ATTTTTATTGAAAAGATGATGTTTCTACGATAAAAATATGATT-TTT-T
1 TAAGATAAAAA--TATATTTTTGTTGAAAAGATGATATTTCTAAGATAAAAATA-CATTCTTTGT
* *
13136584 TAAAAACATTAAAAATA-ATTTTCAAAATTAAATATAA-TCGACGTTTT
63 TAAAAACATAAAAAATATATTTTCAAAATTAAATA-AAGACGACGTTTT
* * * *
13136631 TAAGATAAAATTATATTTTTTGTTGAAAAGATAATATTTTTAAAATAAAAAT
1 TAAGATAAAAATATA-TTTTTGTTGAAAAGATGATATTTCTAAGATAAAAAT
13136683 GTAATTTTTA
Statistics
Matches: 136, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
107 2 0.01
108 1 0.01
109 64 0.47
110 29 0.21
111 35 0.26
112 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (110 bp):
TAAGATAAAAATATATTTTTGTTGAAAAGATGATATTTCTAAGATAAAAATACATTCTTTGTTAA
AAACATAAAAAATATATTTTCAAAATTAAATAAAGACGACGTTTT
Found at i:13136689 original size:20 final size:20
Alignment explanation
Indices: 13136666--13136733 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
13136656 AAAAGATAAT
*
13136666 ATTTTTAAAATAAAAATGTA
1 ATTTTTATAATAAAAATGTA
13136686 ATTTTTATAATAAAAATGTA
1 ATTTTTATAATAAAAATGTA
13136706 ATTTTTATAATAAAAATGTA
1 ATTTTTATAATAAAAATGTA
13136726 ATTTTTAT
1 ATTTTTAT
13136734 TAAAAATATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
ATTTTTATAATAAAAATGTA
Found at i:13136691 original size:40 final size:39
Alignment explanation
Indices: 13136666--13136744 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 39
13136656 AAAAGATAAT
*
13136666 ATTTTTAAAATAAAAATGTAATTTTTATAATAAAAATGTA
1 ATTTTTAAAATAAAAATGTAATTTTTAT-ATAAAAATATA
*
13136706 ATTTTTATAATAAAAATGTAATTTTTAT-TAAAAATATA
1 ATTTTTAAAATAAAAATGTAATTTTTATATAAAAATATA
13136744 A
1 A
13136745 AAAATAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 10 0.27
40 27 0.73
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (39 bp):
ATTTTTAAAATAAAAATGTAATTTTTATATAAAAATATA
Found at i:13136790 original size:37 final size:39
Alignment explanation
Indices: 13136748--13136822 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 39
13136738 AATATAAAAA
* *
13136748 ATAAAATGTAAAATATCTTTATTTAATA-TATT-TACAT
1 ATAAAATGTAAAATATATTTACTTAATATTATTATACAT
*
13136785 ATAAAATTTAAAATATATTTACTTAATATTATTATACA
1 ATAAAATGTAAAATATATTTACTTAATATTATTATACA
13136823 AAAATTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 25 0.76
38 4 0.12
39 4 0.12
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (39 bp):
ATAAAATGTAAAATATATTTACTTAATATTATTATACAT
Found at i:13137691 original size:12 final size:12
Alignment explanation
Indices: 13137673--13137703 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13137663 TTTAAAGATG
13137673 ATTTAATAAAAA
1 ATTTAATAAAAA
*
13137685 TTTTAATAAAAA
1 ATTTAATAAAAA
13137697 ATTTAAT
1 ATTTAAT
13137704 CGATAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:13141172 original size:27 final size:26
Alignment explanation
Indices: 13141122--13141181 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
13141112 TTTTTACTCT
*
13141122 TATATAATTTTTACTTTTAATTTTTA
1 TATATATTTTTTACTTTTAATTTTTA
* *
13141148 TATATATTATTTTATTTTTATTTTTTA
1 TATATATT-TTTTACTTTTAATTTTTA
13141175 TATATAT
1 TATATAT
13141182 GTGAATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TATATATTTTTTACTTTTAATTTTTA
Found at i:13142842 original size:2 final size:2
Alignment explanation
Indices: 13142835--13142869 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13142825 ATCTCTTGAC
13142835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13142870 ATGCTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.