Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 26 of 425
Found at i:6704675 original size:23 final size:21
Alignment explanation
Indices: 6704644--6704700 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
6704634 CAATAGTAAT
6704644 AATATATAAAATAC-ACAAAGCAA
1 AATA-ATAAAATACTA-AAA-CAA
6704667 ACATAATAAAATACTAAAACAA
1 A-ATAATAAAATACTAAAACAA
*
6704689 AGTAATAAAATA
1 AATAATAAAATA
6704701 ATAGAATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 10 0.32
22 4 0.13
23 13 0.42
24 4 0.13
ACGTcount: A:0.67, C:0.11, G:0.04, T:0.19
Consensus pattern (21 bp):
AATAATAAAATACTAAAACAA
Found at i:6705300 original size:18 final size:16
Alignment explanation
Indices: 6705279--6705317 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
6705269 AAGAAAGGAA
6705279 GAGAGAAAAAGAGGAGGG
1 GAGAG-AAAAGA-GAGGG
*
6705297 GAGAGAAGAGAGAGGG
1 GAGAGAAAAGAGAGGG
6705313 GAGAG
1 GAGAG
6705318 GGAGAGGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 5 0.25
18 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (16 bp):
GAGAGAAAAGAGAGGG
Found at i:6705317 original size:16 final size:15
Alignment explanation
Indices: 6705287--6705317 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
6705277 AAGAGAGAAA
6705287 AAGAGGAGGGGAGAG
1 AAGAGGAGGGGAGAG
6705302 AAGAGAGAGGGGAGAG
1 AAGAG-GAGGGGAGAG
6705318 GGAGAGGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (15 bp):
AAGAGGAGGGGAGAG
Found at i:6705866 original size:17 final size:18
Alignment explanation
Indices: 6705844--6705883 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6705834 GTTTGCAGGT
*
6705844 GTGGCAGA-GGCATGGTG
1 GTGGCAGACGGCATGGGG
*
6705861 GTGGCAGACGGTATGGGG
1 GTGGCAGACGGCATGGGG
6705879 GTGGC
1 GTGGC
6705884 CAGGGGATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.55, T:0.17
Consensus pattern (18 bp):
GTGGCAGACGGCATGGGG
Found at i:6707060 original size:130 final size:128
Alignment explanation
Indices: 6706703--6707204 Score: 693
Period size: 130 Copynumber: 3.8 Consensus size: 128
6706693 GACCTGAGGC
* * *
6706703 TCAACTCACCTCTCGCAATATGAGTTG--ATTTTTGACAAACAAAAATTGAAATTACCTCAGCGT
1 TCAACCCACCTCTCGCAATATGAGTTGTTTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGT
*
6706766 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
* *
6706830 TCAACCCACCTCTCGCCATATGAGTTTTTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
1 TCAACCCACCTCTCGCAATATGAG----TTGTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
* * * *
6706895 CGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTCAAAAAGTAAAAATTAAAAG
62 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAG
6706960 GT
127 GT
6706962 TCAACCCACCTCTCGCAATATGAGTTGGTTCTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 TCAACCCACCTCTCGCAATATGAGTT-GTT-TTTTTTGACAACAGAAATTGAAATTACCTCAGCG
6707027 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
64 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
* * * *
6707092 TCAACCCACCTCTCGCCATATGAGTTGTTTTTGAACAGCATAAATTGAAAATAGAAATTGAAAAT
1 TCAACCCACCTCTCGCAATATGAGTTGTTTTT--------T---TTGACAACAGAAATTGAAATT
*
6707157 ACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
55 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
6707205 AATTAAAACA
Statistics
Matches: 335, Mismatches: 21, Indels: 26
0.88 0.05 0.07
Matches are distributed among these distances:
127 22 0.07
128 5 0.01
129 5 0.01
130 120 0.36
131 2 0.01
132 107 0.32
133 8 0.02
136 1 0.00
139 65 0.19
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (128 bp):
TCAACCCACCTCTCGCAATATGAGTTGTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
Found at i:6707151 original size:13 final size:13
Alignment explanation
Indices: 6707133--6707157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6707123 TGAACAGCAT
6707133 AAATTGAAAATAG
1 AAATTGAAAATAG
6707146 AAATTGAAAATA
1 AAATTGAAAATA
6707158 CCTCAGCGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATTGAAAATAG
Found at i:6719368 original size:35 final size:37
Alignment explanation
Indices: 6719329--6719401 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 37
6719319 AAATGATGAC
*
6719329 ATGTT-AATAAAGACAATAATAAG-TAAT-AATAAATA
1 ATGTTAAATAAA-ACAATAATAAGACAATAAATAAATA
**
6719364 ATGTTAAATAAATTAATAATAAGACAATAAATAAATA
1 ATGTTAAATAAAACAATAATAAGACAATAAATAAATA
6719401 A
1 A
6719402 ACACAAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 14 0.44
36 9 0.28
37 9 0.28
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (37 bp):
ATGTTAAATAAAACAATAATAAGACAATAAATAAATA
Found at i:6721029 original size:17 final size:18
Alignment explanation
Indices: 6721007--6721046 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6720997 GTTTGCAGGT
*
6721007 GTGGCAGA-GGCATGGTG
1 GTGGCAGACGGCATGGGG
*
6721024 GTGGCAGACGGTATGGGG
1 GTGGCAGACGGCATGGGG
6721042 GTGGC
1 GTGGC
6721047 CAGGGGATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.55, T:0.17
Consensus pattern (18 bp):
GTGGCAGACGGCATGGGG
Found at i:6721665 original size:21 final size:20
Alignment explanation
Indices: 6721632--6721670 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6721622 AAATGTTTCT
6721632 AAAATATAATAAATTTTAAA
1 AAAATATAATAAATTTTAAA
*
6721652 AAAATTATTATAAATTTTA
1 AAAA-TATAATAAATTTTA
6721671 TATTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATATAATAAATTTTAAA
Found at i:6721892 original size:23 final size:23
Alignment explanation
Indices: 6721865--6721930 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
6721855 ACAATTGTAT
6721865 AAATTCTAATTGAAATATTACAA
1 AAATTCTAATTGAAATATTACAA
* * * ** *
6721888 AAATTATCATT-ATATAATTGTAT
1 AAATTCTAATTGAAAT-ATTACAA
6721911 AAATTCTAATTGAAATATTA
1 AAATTCTAATTGAAATATTA
6721931 AAATAATAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
22 3 0.10
23 25 0.81
24 3 0.10
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (23 bp):
AAATTCTAATTGAAATATTACAA
Found at i:6723989 original size:21 final size:21
Alignment explanation
Indices: 6723960--6723999 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6723950 TAAAATTTTT
* *
6723960 TTAACAATAATTTTAAAAAAA
1 TTAAAAATAATCTTAAAAAAA
6723981 TTAAAAATAATCTTAAAAA
1 TTAAAAATAATCTTAAAAA
6724000 TATTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAAAATAATCTTAAAAAAA
Found at i:6732410 original size:3 final size:3
Alignment explanation
Indices: 6732402--6732524 Score: 75
Period size: 3 Copynumber: 40.0 Consensus size: 3
6732392 ATAATTGTAA
* * * * * *
6732402 AAT AAT AAT AGT GAAA AAT AAT AGT AAT AAA AAT AGT AAC AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
6732448 AAT AAT AAC ATAT AAT AGT AAG AAT AAT AAC AAT TAT ATAT AAT AGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * *
6732495 AAG AAT AAT AAT AAC AAT GAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6732525 TAGCAATCCA
Statistics
Matches: 85, Mismatches: 32, Indels: 6
0.69 0.26 0.05
Matches are distributed among these distances:
3 79 0.93
4 6 0.07
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6732467 original size:28 final size:28
Alignment explanation
Indices: 6732433--6732508 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
6732423 TAGTAATAAA
*
6732433 AATAGTAACAATAATAATAATAACATAT
1 AATAGTAAGAATAATAATAATAACATAT
* * *
6732461 AATAGTAAGAATAATAACAATTATATAT
1 AATAGTAAGAATAATAATAATAACATAT
6732489 AATAGTAAGAATAATAATAA
1 AATAGTAAGAATAATAATAA
6732509 CAATGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (28 bp):
AATAGTAAGAATAATAATAATAACATAT
Found at i:6734227 original size:133 final size:133
Alignment explanation
Indices: 6733988--6734261 Score: 386
Period size: 133 Copynumber: 2.1 Consensus size: 133
6733978 ACTGCTTAGG
* * * * *
6733988 GAGATAAGATTTAAAATTTTCAGTTTGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTC
1 GAGATAAGATCTAAAATTTTCAGTCTGCTCCCTTGCTACCTCAAGAAAATAAGACTTGTATCTTC
* * * * * *
6734053 GACCTGCTCTCTTGCTACCTCAGAGAGACAAGGCCGGTGGCTAAAATCTGCTCTATAGCCGATAC
66 AACCTGCTCTCTTGCTACCTCAAAGAGACAAGGCCGATGGCTAAAATCTACTCCATAGCCAATAC
6734118 ATA
131 ATA
** * * *
6734121 GAGATAAGATCTGTAATTTTCAGTCTGCTCCCTTGCTACCTTAGGAAAATGAGACTTGTATCTTC
1 GAGATAAGATCTAAAATTTTCAGTCTGCTCCCTTGCTACCTCAAGAAAATAAGACTTGTATCTTC
* *
6734186 AACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTGATGGCTAAAATCTACTCCATAGCCAATAC
66 AACCTGCTCTCTTGCTACCTCAAAGAGACAAGGCCGATGGCTAAAATCTACTCCATAGCCAATAC
6734251 ATA
131 ATA
6734254 GAGATAAG
1 GAGATAAG
6734262 GCTCACCATT
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 123 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (133 bp):
GAGATAAGATCTAAAATTTTCAGTCTGCTCCCTTGCTACCTCAAGAAAATAAGACTTGTATCTTC
AACCTGCTCTCTTGCTACCTCAAAGAGACAAGGCCGATGGCTAAAATCTACTCCATAGCCAATAC
ATA
Found at i:6734308 original size:178 final size:178
Alignment explanation
Indices: 6734098--6734852 Score: 985
Period size: 178 Copynumber: 4.2 Consensus size: 178
6734088 GGTGGCTAAA
* * * *
6734098 ATCTGCTCTATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTCCCTTGCTACCTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTCCCTTACTACCTC
* * *
6734163 AGGAAAATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTGATGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCT
* * * *
6734228 AAAATCTACTCCATAGCCAATACATAGAGATAAGGCTCACCATTT-TCG
131 AAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCT-G
* * *
6734276 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTCCCTTACTACCTC
* * *
6734341 AGGAAGATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCGGAGAGATAAGGCTGGTGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCT
*
6734406 AAAATCTGCTCTATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
131 AAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
* * *
6734454 ATCTGCTCCATAGTCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTACTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTCCCTTACTACCTC
* * * * *
6734519 AGGAATATAAGACTTGTATCTTCAACCTGTTTTCTTGCTACCTTAGAGAAATAAGGCTGATGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCT
* * * * * * *
6734584 AAAATTTGTTCCATAGCCGATACATGGAAATAATACTCGCCATTTTTT
131 AAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
* * * * * * *
6734632 ATCTGCTCTATAGCCAATACATGGAGATAAGATATGTAATTTTTAGCCTGTTACCC-TACT-GCT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCT-CCCTTACTACCT
* * * * * *
6734695 TAGGTAGATAAGGCTTATCGTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG
65 CAGGAAGATAAGACTTGT-ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGG
* * *
6734760 CTAAAATCTGTTCCATAGCCGATATATGGAGATAAGACTCGCCATTTCTG
129 CTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
* * * *
6734810 ATCTGCTCAATAGCCGATAAATGAAGATAAAATCTGTAATTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
6734853 TAGCCTGTTA
Statistics
Matches: 509, Mismatches: 65, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
177 15 0.03
178 491 0.96
179 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (178 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTCCCTTACTACCTC
AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCT
AAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
Found at i:6734997 original size:12 final size:12
Alignment explanation
Indices: 6734982--6735006 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6734972 TTATGCCTAA
6734982 TGATTAGGATGC
1 TGATTAGGATGC
6734994 TGATTAGGATGC
1 TGATTAGGATGC
6735006 T
1 T
6735007 ATGATCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TGATTAGGATGC
Found at i:6735762 original size:18 final size:19
Alignment explanation
Indices: 6735739--6735776 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6735729 TTTCCCTTGG
6735739 TCTCTC-CATTCCTTCTTT
1 TCTCTCTCATTCCTTCTTT
* *
6735757 TCTCTCTCTTTCTTTCTTT
1 TCTCTCTCATTCCTTCTTT
6735776 T
1 T
6735777 TTTTTTGCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (19 bp):
TCTCTCTCATTCCTTCTTT
Found at i:6746717 original size:3 final size:3
Alignment explanation
Indices: 6746709--6746840 Score: 66
Period size: 3 Copynumber: 42.7 Consensus size: 3
6746699 ATAATTGTAA
* * * * * *
6746709 AAT AAT AAT AGT GAAA AAT AAT AGT AAT AAT GAT GTAT AAA AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * * * * *
6746756 AGT AAT AAA AAT AGT AAC GAT AAT AAT AAT AAC ATAT AAT AGT AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * *
6746802 AAT AAT AAC AAT TAT ATAT AAT AGT AAG AAT AAT AAT AA
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
6746841 CAGTGATAAT
Statistics
Matches: 90, Mismatches: 35, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
3 82 0.91
4 8 0.09
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6746739 original size:22 final size:25
Alignment explanation
Indices: 6746695--6746763 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
6746685 TATGGTATAT
* *
6746695 AAAAATAATTGTAAAATAATAATAGT-G
1 AAAAATAATAGT--AATAATGAT-GTAG
*
6746722 AAAAATAATAGTAATAATGATGTAT
1 AAAAATAATAGTAATAATGATGTAG
6746747 AAAAATAATAGTAATAA
1 AAAAATAATAGTAATAA
6746764 AAATAGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 25 0.66
27 11 0.29
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (25 bp):
AAAAATAATAGTAATAATGATGTAG
Found at i:6746799 original size:28 final size:28
Alignment explanation
Indices: 6746765--6746840 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 28
6746755 TAGTAATAAA
6746765 AATAGTAACG-ATAATAATAATAACATAT
1 AATAGTAA-GAATAATAATAATAACATAT
* * *
6746793 AATAGTAAGAATAATAACAATTATATAT
1 AATAGTAAGAATAATAATAATAACATAT
6746821 AATAGTAAGAATAATAATAA
1 AATAGTAAGAATAATAATAA
6746841 CAGTGATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (28 bp):
AATAGTAAGAATAATAATAATAACATAT
Found at i:6749780 original size:50 final size:50
Alignment explanation
Indices: 6749689--6749787 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
6749679 GCCTTATTCT
* * *
6749689 AATCAATGTCAAATAGAATGAGAGAAGTTCTATATGGATTCTACTTGTAC
1 AATCAATATCAAATAGAATGAGAGAAGTTCTATACGAATTCTACTTGTAC
* *
6749739 AATCAATATCAAATAGAA-GAAGAGTAGTTTTATACGAATTCTACTTGTA
1 AATCAATATCAAATAGAATG-AGAGAAGTTCTATACGAATTCTACTTGTA
6749788 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (50 bp):
AATCAATATCAAATAGAATGAGAGAAGTTCTATACGAATTCTACTTGTAC
Found at i:6752161 original size:18 final size:18
Alignment explanation
Indices: 6752134--6752168 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6752124 CTGGGGTTGT
*
6752134 CTTCTTCTTCTTCTTCCC
1 CTTCTCCTTCTTCTTCCC
6752152 CTTCTCCTTCTTCTTCC
1 CTTCTCCTTCTTCTTCC
6752169 TGAGACTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (18 bp):
CTTCTCCTTCTTCTTCCC
Found at i:6755124 original size:33 final size:33
Alignment explanation
Indices: 6755083--6755153 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
6755073 GGAATCCTAG
6755083 GAAAGAATACTACTTGAGTTATATTGAAATTTA
1 GAAAGAATACTACTTGAGTTATATTGAAATTTA
6755116 GAAAGAATACTACTTGAGTTATATTGAAATTTA
1 GAAAGAATACTACTTGAGTTATATTGAAATTTA
6755149 GAAAG
1 GAAAG
6755154 TTATTGAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.34
Consensus pattern (33 bp):
GAAAGAATACTACTTGAGTTATATTGAAATTTA
Found at i:6766790 original size:30 final size:30
Alignment explanation
Indices: 6766751--6766811 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
6766741 GTACTAAAGC
*
6766751 TTCACAATTATTATTATTTAAAATAAAAAT
1 TTCAAAATTATTATTATTTAAAATAAAAAT
6766781 TTCAAAATTATTATTATTTAAAATAAAAAT
1 TTCAAAATTATTATTATTTAAAATAAAAAT
6766811 T
1 T
6766812 ATAATTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TTCAAAATTATTATTATTTAAAATAAAAAT
Found at i:6766812 original size:16 final size:16
Alignment explanation
Indices: 6766763--6766813 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
6766753 CACAATTATT
6766763 ATTATTTAAAATAAAA
1 ATTATTTAAAATAAAA
* * **
6766779 A-T-TTCAAAATTATT
1 ATTATTTAAAATAAAA
6766793 ATTATTTAAAATAAAA
1 ATTATTTAAAATAAAA
6766809 ATTAT
1 ATTAT
6766814 AATTAATTGA
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
14 9 0.36
15 2 0.08
16 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATTTAAAATAAAA
Found at i:6782244 original size:40 final size:40
Alignment explanation
Indices: 6782197--6782277 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
6782187 AAAACTAGAG
6782197 TTACCATAGTGAATATTGTAAATCCTAAGGGATAAAATAT
1 TTACCATAGTGAATATTGTAAATCCTAAGGGATAAAATAT
6782237 TTACCATAGTGAATATTGTAAATCCTAAGGGATAAAATAT
1 TTACCATAGTGAATATTGTAAATCCTAAGGGATAAAATAT
6782277 T
1 T
6782278 GTATAGAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (40 bp):
TTACCATAGTGAATATTGTAAATCCTAAGGGATAAAATAT
Found at i:6789207 original size:19 final size:19
Alignment explanation
Indices: 6789182--6789224 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6789172 ATAATATAAT
*
6789182 AAAAGAAATAATA-AAAGA
1 AAAAGAAATAAAATAAAGA
6789200 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAATAAAGA
6789220 AAAAG
1 AAAAG
6789225 GAAAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAGAAATAAAATAAAGA
Found at i:6790141 original size:6 final size:6
Alignment explanation
Indices: 6790132--6790168 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
6790122 CCTAACTATA
*
6790132 ACTGTT ACTGTT ACTGTT ATTGTT ACTGTT ACTGTT A
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT A
6790169 TCCTACGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (6 bp):
ACTGTT
Found at i:6790157 original size:18 final size:18
Alignment explanation
Indices: 6790134--6790169 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6790124 TAACTATAAC
6790134 TGTTACTGTTACTGTTAT
1 TGTTACTGTTACTGTTAT
6790152 TGTTACTGTTACTGTTAT
1 TGTTACTGTTACTGTTAT
6790170 CCTACGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (18 bp):
TGTTACTGTTACTGTTAT
Found at i:6791483 original size:13 final size:13
Alignment explanation
Indices: 6791465--6791497 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
6791455 GCTACACTAG
6791465 TTTAGTTTTTTGC
1 TTTAGTTTTTTGC
6791478 TTTAG--TTTTGC
1 TTTAGTTTTTTGC
6791489 TTTAGTTTT
1 TTTAGTTTT
6791498 CTCTTAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTAGTTTTTTGC
Found at i:6794859 original size:39 final size:39
Alignment explanation
Indices: 6794800--6794896 Score: 158
Period size: 39 Copynumber: 2.5 Consensus size: 39
6794790 TGATCTGAAA
* * * *
6794800 CCCGAAGTCTAGCTGCAGCACATAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
6794839 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
6794878 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
6794897 TCATCAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.26, T:0.12
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
Found at i:6802399 original size:3 final size:3
Alignment explanation
Indices: 6802391--6802416 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6802381 AAAACAGAGA
6802391 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
6802417 AATACCTCGT
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:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6803837 original size:89 final size:90
Alignment explanation
Indices: 6803688--6803907 Score: 275
Period size: 89 Copynumber: 2.4 Consensus size: 90
6803678 GTTTTTCAAG
* * * *
6803688 AAAAGCAATTAAGCCCCTATTTTATTTTTTACACTCAATTGAGTACTTAAACTTTTAAAATGTA-
1 AAAAGCAATTAAGCCCCT-GTTT-TTTTTTACACTCAATTGAGTACTTAAACTGTCAAAATGCAC
**
6803752 TTAAAAAGACCCTC-AAACTTAAAAAAA
64 CAAAAAAG-CCCTCAAAACTTAAAAAAA
* * * *
6803779 AAAAGTAATTAAGCCCCTGCTTTTTTTTGCACTCAATTG-GATACTTGAACTGTCAAAATGCACC
1 AAAAGCAATTAAGCCCCTGTTTTTTTTTACACTCAATTGAG-TACTTAAACTGTCAAAATGCACC
*
6803843 AAAAAAGCCCTCAAAATTTAAAAAAA
65 AAAAAAGCCCTCAAAACTTAAAAAAA
6803869 AAAAGCAATTAAGCCCCTGTTTTTTTTTTACACTCAATT
1 AAAAGCAATTAAGCCCCTG-TTTTTTTTTACACTCAATT
6803908 TTCAAAATGC
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
88 1 0.01
89 38 0.34
90 38 0.34
91 34 0.31
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (90 bp):
AAAAGCAATTAAGCCCCTGTTTTTTTTTACACTCAATTGAGTACTTAAACTGTCAAAATGCACCA
AAAAAGCCCTCAAAACTTAAAAAAA
Found at i:6804124 original size:10 final size:10
Alignment explanation
Indices: 6804109--6804151 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
6804099 ATTTTTTATT
6804109 AAAAATTAGA
1 AAAAATTAGA
*
6804119 AAAAATTATA
1 AAAAATTAGA
*
6804129 AAAAATTATA
1 AAAAATTAGA
*
6804139 AAATATATAGA
1 AAAAAT-TAGA
6804150 AA
1 AA
6804152 TATAGGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 24 0.83
11 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (10 bp):
AAAAATTAGA
Found at i:6804127 original size:20 final size:20
Alignment explanation
Indices: 6804104--6804172 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
6804094 CATTTATTTT
*
6804104 TTATTAAAAATTAGAAAAAA
1 TTATAAAAAATTAGAAAAAA
* *
6804124 TTATAAAAAATTATAAAATA
1 TTATAAAAAATTAGAAAAAA
*
6804144 -TAT-AGAAATATAGGAAAAAAA
1 TTATAAAAAAT-TA-G-AAAAAA
6804165 TTATAAAA
1 TTATAAAA
6804173 TTTTATAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 17 0.46
21 5 0.14
22 3 0.08
23 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
TTATAAAAAATTAGAAAAAA
Found at i:6804150 original size:31 final size:30
Alignment explanation
Indices: 6804108--6804173 Score: 64
Period size: 31 Copynumber: 2.2 Consensus size: 30
6804098 TATTTTTTAT
*
6804108 TAAAA-ATTAGAAAAAATTATAAAAAATTA
1 TAAAATATAAGAAAAAATTATAAAAAATTA
* **
6804137 TAAAATATATAGAAATATAGGA-AAAAAATTA
1 TAAAATATA-AGAAA-AAATTATAAAAAATTA
6804168 TAAAAT
1 TAAAAT
6804174 TTTATAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 5 0.17
30 2 0.07
31 20 0.67
32 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (30 bp):
TAAAATATAAGAAAAAATTATAAAAAATTA
Found at i:6804240 original size:20 final size:19
Alignment explanation
Indices: 6804185--6804242 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
6804175 TTATAAAGTA
*
6804185 GTAAGAAAATTATAAAAAAT
1 GTAAAAAAATTAT-AAAAAT
*
6804205 GTAAAGAAAA--ATAAAATT
1 GTAAA-AAAATTATAAAAAT
6804223 CGTAAAAAAATTATAAAAAT
1 -GTAAAAAAATTATAAAAAT
6804243 TATCGTACCG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.29
19 7 0.23
20 11 0.35
21 4 0.13
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
GTAAAAAAATTATAAAAAT
Found at i:6804431 original size:20 final size:21
Alignment explanation
Indices: 6804406--6804450 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
6804396 TAAAGGGCCT
6804406 TTTTTTATGCA-TTTTAT-AAA
1 TTTTTTATG-ATTTTTATAAAA
6804426 TTTTTTATGATTTTTATAAAA
1 TTTTTTATGATTTTTATAAAA
6804447 TTTT
1 TTTT
6804451 ATATTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTTTATGATTTTTATAAAA
Found at i:6804451 original size:19 final size:20
Alignment explanation
Indices: 6804408--6804458 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
6804398 AAGGGCCTTT
*
6804408 TTTTATGCA-TTTTATAAATT
1 TTTTATG-ATTTTTATAAATA
6804428 TTTTATGATTTTTATAAA-A
1 TTTTATGATTTTTATAAATA
6804447 TTTTAT-ATTTTT
1 TTTTATGATTTTT
6804459 TCTAATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.21
19 7 0.24
20 16 0.55
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTATGATTTTTATAAATA
Found at i:6804514 original size:25 final size:23
Alignment explanation
Indices: 6804486--6804547 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
6804476 ATTAAATATT
*
6804486 TTTATATTTTTTTTAATTTTTAATA
1 TTTATATTTTTTGT--TTTTTAATA
*
6804511 TTTAATATTTTTATGTTTTTTATTA
1 TTT-ATATTTTT-TGTTTTTTAATA
6804536 TTTAT-TTTTTTG
1 TTTATATTTTTTG
6804548 GCACATGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 5 0.15
24 2 0.06
25 14 0.42
26 8 0.24
27 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (23 bp):
TTTATATTTTTTGTTTTTTAATA
Found at i:6806288 original size:10 final size:11
Alignment explanation
Indices: 6806270--6806294 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6806260 ACTCTTTCAC
6806270 TTTCTTTTTTT
1 TTTCTTTTTTT
6806281 TTTCTTTTTTT
1 TTTCTTTTTTT
6806292 TTT
1 TTT
6806295 TTGTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:6806856 original size:12 final size:13
Alignment explanation
Indices: 6806837--6806874 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6806827 TTGGTCAATA
6806837 ATTAGTTTTAATT
1 ATTAGTTTTAATT
* *
6806850 ATT-GTTTGATTT
1 ATTAGTTTTAATT
6806862 ATTAGTTTTAATT
1 ATTAGTTTTAATT
6806875 CTTTTTCAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (13 bp):
ATTAGTTTTAATT
Found at i:6809744 original size:46 final size:46
Alignment explanation
Indices: 6809668--6810165 Score: 683
Period size: 46 Copynumber: 10.8 Consensus size: 46
6809658 TGATATCATA
* * * * *
6809668 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATG
* *** *
6809714 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATG
* *
6809761 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
*
6809807 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
*
6809853 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* *** * *
6809899 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCTATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATG
* *
6809946 GTATCTTTCAACCACGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* *
6809992 GTATCTTTCAACCATGGTCTTATTAATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
*
6810038 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* * *
6810084 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* * *
6810130 GTATCTTTCAACCATGGTTTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
6810166 GAGAGCACAC
Statistics
Matches: 410, Mismatches: 39, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
46 332 0.81
47 78 0.19
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
Found at i:6809985 original size:185 final size:185
Alignment explanation
Indices: 6809668--6810166 Score: 788
Period size: 185 Copynumber: 2.7 Consensus size: 185
6809658 TGATATCATA
* * * * * *
6809668 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
* *
6809732 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
65 CTTATTCATTTTCCCGTCATGTTGCTATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
*
6809797 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
130 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATATCACGTTGCCATG
6809853 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
*
6809918 TTATTCATTTTCCCGTCATGTTGCTATGGTATCTTTCAACCACGGTCTTACTCATTTCATATCAG
66 TTATTCATTTTCCCGTCATGTTGCTATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
6809983 GTTGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATATCACGTTGCCATG
131 GTTGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATATCACGTTGCCATG
6810038 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
** *** * * * *
6810103 TTACACA-TTTCATATCAGGTTG-TCATGGTATCTTTCAACCATGGTTTTACACATTCCATATCA
66 TTATTCATTTTCCCGTCATGTTGCT-ATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
6810166 G
130 G
6810167 AGAGCACACT
Statistics
Matches: 292, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
183 1 0.00
184 51 0.17
185 240 0.82
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (185 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTTCCCGTCATGTTGCTATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
GTTGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATATCACGTTGCCATG
Found at i:6812584 original size:31 final size:31
Alignment explanation
Indices: 6812546--6812629 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
6812536 GGCTATTACA
*
6812546 GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
* *
6812577 GAAAAGTGGTAGCTTCTGCTACCTAATTAGT
1 GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
*
6812608 GAATAGTGGTAGCTTCGGCTAC
1 GAAAAGTGGTAGCTTCGGCTAC
6812630 AAGTGACAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
Found at i:6812765 original size:46 final size:49
Alignment explanation
Indices: 6812651--6812803 Score: 151
Period size: 47 Copynumber: 3.2 Consensus size: 49
6812641 GATTTCCGTA
* * * * *
6812651 TAAGACCATATCTGGGATATGACATCCG---TGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCAT-CGATATGTGATATGTGATTAC-GTG
* *
6812698 TAAGACCATATCTGGGATATGGCATC-A-GTG-GAATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGTG-ATATGTGATTACGTG
*
6812744 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
6812793 TAAGACCATAG
1 TAAGACCATAG
6812804 TTGAACTATG
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
46 28 0.31
47 34 0.37
48 13 0.14
49 16 0.18
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (49 bp):
TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
Found at i:6812802 original size:49 final size:46
Alignment explanation
Indices: 6812698--6812803 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 46
6812688 TGCTACTGTA
* *
6812698 TAAGACCATATCTGGGATATGGCATCAGTGGAATATGTGATTCGTG
1 TAAGACCATAGCTGGGATATGGCATCAATGGAATATGTGATTCGTG
*
6812744 TAAGACCATAGCTGGGCTATGGCATCGATATGTG-ATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATC-A-ATG-GAATATGTGATT-CGTG
6812793 TAAGACCATAG
1 TAAGACCATAG
6812804 TTGAACTATG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
46 24 0.45
47 1 0.02
48 12 0.23
49 16 0.30
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (46 bp):
TAAGACCATAGCTGGGATATGGCATCAATGGAATATGTGATTCGTG
Found at i:6822699 original size:43 final size:43
Alignment explanation
Indices: 6822597--6822701 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
6822587 CCCTGCTATA
* * *
6822597 ATCTTACACAAAATCAAATAACGATGTCAATGTCCCAGACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
* * * *
6822640 GTCTTACACGTAATCACATAATGATGCCGATGTCCCAGACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
6822683 ATCTTACACATAATCACAT
1 ATCTTACACATAATCACAT
6822702 CTCGTTAATC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (43 bp):
ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
Found at i:6828098 original size:48 final size:48
Alignment explanation
Indices: 6828027--6828124 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
6828017 CATATGTTCC
6828027 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
6828075 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
6828123 AC
1 AC
6828125 GAAATCCTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (48 bp):
ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
Found at i:6829588 original size:17 final size:18
Alignment explanation
Indices: 6829553--6829594 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6829543 TACCTCTTAG
*
6829553 AAGTATTTTTGGGATTAA
1 AAGTATTTTTGAGATTAA
6829571 AAGTATTTTTGAGA-TAA
1 AAGTATTTTTGAGATTAA
6829588 AAGTATT
1 AAGTATT
6829595 GTTAAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (18 bp):
AAGTATTTTTGAGATTAA
Found at i:6832781 original size:18 final size:18
Alignment explanation
Indices: 6832758--6832794 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6832748 TTATTCTTCT
6832758 TATTCGGTAACCATTGGA
1 TATTCGGTAACCATTGGA
*
6832776 TATTCGGTAACTATTGGA
1 TATTCGGTAACCATTGGA
6832794 T
1 T
6832795 TTTCCTTATT
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:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (18 bp):
TATTCGGTAACCATTGGA
Found at i:6835615 original size:115 final size:115
Alignment explanation
Indices: 6835413--6835641 Score: 458
Period size: 115 Copynumber: 2.0 Consensus size: 115
6835403 TATATATATA
6835413 TAGAAACACAACCTTCTTTGCCTACATTAGACTTCTGGTCTTAATTCACTTATGTTACACTTAAT
1 TAGAAACACAACCTTCTTTGCCTACATTAGACTTCTGGTCTTAATTCACTTATGTTACACTTAAT
6835478 ATTACAGGTCAGGGTCCCAGAGAGGAGTTATGAATCTCACATTGACAGTT
66 ATTACAGGTCAGGGTCCCAGAGAGGAGTTATGAATCTCACATTGACAGTT
6835528 TAGAAACACAACCTTCTTTGCCTACATTAGACTTCTGGTCTTAATTCACTTATGTTACACTTAAT
1 TAGAAACACAACCTTCTTTGCCTACATTAGACTTCTGGTCTTAATTCACTTATGTTACACTTAAT
6835593 ATTACAGGTCAGGGTCCCAGAGAGGAGTTATGAATCTCACATTGACAGT
66 ATTACAGGTCAGGGTCCCAGAGAGGAGTTATGAATCTCACATTGACAGT
6835642 GTACTAGAGT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (115 bp):
TAGAAACACAACCTTCTTTGCCTACATTAGACTTCTGGTCTTAATTCACTTATGTTACACTTAAT
ATTACAGGTCAGGGTCCCAGAGAGGAGTTATGAATCTCACATTGACAGTT
Found at i:6837209 original size:12 final size:13
Alignment explanation
Indices: 6837184--6837212 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6837174 TGGTGGCGCA
6837184 GTGGTGGCTGCTG
1 GTGGTGGCTGCTG
6837197 GTGGTGG-TGCTG
1 GTGGTGGCTGCTG
6837209 GTGG
1 GTGG
6837213 CGAAGCCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.10, G:0.59, T:0.31
Consensus pattern (13 bp):
GTGGTGGCTGCTG
Found at i:6837393 original size:2 final size:2
Alignment explanation
Indices: 6837386--6837422 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6837376 CAGCTACCCA
6837386 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6837423 GCTAAACCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6837719 original size:3 final size:3
Alignment explanation
Indices: 6837711--6837742 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
6837701 TTATGAAAAA
6837711 ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A
6837743 AAATGTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6838005 original size:3 final size:3
Alignment explanation
Indices: 6837997--6838022 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6837987 AGAATGCCAA
6837997 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6838023 GGTGTTTACA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6847902 original size:19 final size:20
Alignment explanation
Indices: 6847865--6847902 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6847855 TGTTAAAAAG
*
6847865 TTTTTATTTTATTTTATATT
1 TTTTTATTTTATTTAATATT
6847885 TTTTTATTTT-TTTAATAT
1 TTTTTATTTTATTTAATAT
6847903 CATAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTATTTTATTTAATATT
Found at i:6848147 original size:37 final size:38
Alignment explanation
Indices: 6848083--6848160 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 38
6848073 GAAGATTTCC
6848083 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
1 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
* **
6848121 ATTTAATCTCTTT-AAATCTTTAATTATATTGGTTTTA
1 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
6848158 ATT
1 ATT
6848161 AGAATAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (38 bp):
ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
Found at i:6848847 original size:18 final size:17
Alignment explanation
Indices: 6848820--6848854 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6848810 AGGTTTAGTT
6848820 ATTTATTTTTTAATTTA
1 ATTTATTTTTTAATTTA
*
6848837 ATTTAATTTTTTATTTTA
1 ATTT-ATTTTTTAATTTA
6848855 TTCATCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATTTTTTAATTTA
Found at i:6849096 original size:91 final size:89
Alignment explanation
Indices: 6848990--6849253 Score: 318
Period size: 91 Copynumber: 2.9 Consensus size: 89
6848980 TAATATATTG
* *
6848990 ATTGATAGTTCAAGTATCATATT-GAACATTTTCAAAGTATAAGTACCTAGTTGGACAATTTATG
1 ATTGATAGTTCAAGTACCACATTAG-ACATTTTCAAAGTATAAGTACC-A-TTGGACAATTTATG
6849054 AAAGTACATGTATCAAATAAGACACAA
63 AAAGTACATGTATCAAATAAGACACAA
* *
6849081 ATTGATAGTTCAAGTACCACATTAGAGATTTTCAAAGTATATA-TATCACATTAGAC-ATATTAT
1 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATA-AGTA-C-CATTGGACAAT-TTAT
* *
6849144 GAAAGTACATGTACCAAATAATACACAA
62 GAAAGTACATGTATCAAATAAGACACAA
* * * *
6849172 ATTGATAGTTTAAGTACCACATTAGACATTTTCAAAGTATAGGTACCACATTGAACATTTTATGA
1 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAGTA-C-CATTGGACAATTTATGA
* *
6849237 AAGTATAAGTATCAAAT
64 AAGTACATGTATCAAAT
6849254 GCGACATTAT
Statistics
Matches: 150, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.01
91 142 0.95
92 5 0.03
93 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (89 bp):
ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAGTACCATTGGACAATTTATGAAA
GTACATGTATCAAATAAGACACAA
Found at i:6849219 original size:29 final size:29
Alignment explanation
Indices: 6849094--6849232 Score: 100
Period size: 29 Copynumber: 4.7 Consensus size: 29
6849084 GATAGTTCAA
*
6849094 GTACCACATTAGAGATTTTCAAAGTATAT
1 GTACCACATTAGACATTTTCAAAGTATAT
* * * *
6849123 ATATCACATTAGACATATTATGAAAGTACAT
1 GTACCACATTAGACAT-TT-TCAAAGTATAT
* * ** * * * *
6849154 GTACCAAATAATACACAAATTGATAGTTTAA
1 GTACCACAT--TAGACATTTTCAAAGTATAT
*
6849185 GTACCACATTAGACATTTTCAAAGTATAG
1 GTACCACATTAGACATTTTCAAAGTATAT
6849214 GTACCACATT-GAACATTTT
1 GTACCACATTAG-ACATTTT
6849233 ATGAAAGTAT
Statistics
Matches: 82, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
28 1 0.01
29 43 0.52
30 2 0.02
31 30 0.37
32 1 0.01
33 5 0.06
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (29 bp):
GTACCACATTAGACATTTTCAAAGTATAT
Found at i:6851138 original size:24 final size:26
Alignment explanation
Indices: 6851108--6851162 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
6851098 ATACATACAC
6851108 ATATAATAAGAA-AATACATATA-AT
1 ATATAATAAGAAGAATACATATATAT
** *
6851132 ATATAATATTAAGAATATATATATAT
1 ATATAATAAGAAGAATACATATATAT
6851158 ATATA
1 ATATA
6851163 TATGAATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 10 0.38
25 9 0.35
26 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (26 bp):
ATATAATAAGAAGAATACATATATAT
Found at i:6851308 original size:29 final size:26
Alignment explanation
Indices: 6851266--6851338 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
6851256 TACGTGATAT
*
6851266 ATACATATATATAAAATAAATATTGAAAA
1 ATACATATACATAAAAT--ATA-TGAAAA
* *
6851295 ATACATGTACATAACATATATGAAAA
1 ATACATATACATAAAATATATGAAAA
6851321 AT--ATATACATAATAATAT
1 ATACATATACATAA-AATAT
6851339 TAAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 9 0.24
25 4 0.11
26 8 0.21
27 3 0.08
29 14 0.37
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (26 bp):
ATACATATACATAAAATATATGAAAA
Found at i:6851584 original size:24 final size:24
Alignment explanation
Indices: 6851531--6851589 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
6851521 AAAATATAAC
6851531 ATTAA-AAATATATATATGTAATAT
1 ATTAAGAAATATATATA-GTAATAT
*
6851555 A-CAAGAAATATATATA-TAATAGT
1 ATTAAGAAATATATATAGTAATA-T
6851578 ATTAAG-AATATA
1 ATTAAGAAATATA
6851590 AACATAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.17
23 10 0.33
24 15 0.50
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (24 bp):
ATTAAGAAATATATATAGTAATAT
Found at i:6852485 original size:14 final size:16
Alignment explanation
Indices: 6852461--6852492 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
6852451 GTGGTAAAAA
6852461 TTATATTTTTTTG-TT
1 TTATATTTTTTTGCTT
6852476 TTAT-TTTTTTTGCTT
1 TTATATTTTTTTGCTT
6852491 TT
1 TT
6852493 TGCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.81
Consensus pattern (16 bp):
TTATATTTTTTTGCTT
Found at i:6852516 original size:22 final size:23
Alignment explanation
Indices: 6852474--6852516 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6852464 TATTTTTTTG
*
6852474 TTTTATTTTTTTTGCTTTTTGCT
1 TTTTATTTTTTTTGCTATTTGCT
*
6852497 TTTTA-TTTTTTTGGTATTTG
1 TTTTATTTTTTTTGCTATTTG
6852517 TTAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.77
Consensus pattern (23 bp):
TTTTATTTTTTTTGCTATTTGCT
Found at i:6855014 original size:19 final size:20
Alignment explanation
Indices: 6854992--6855033 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6854982 TTTTTTGTAC
6854992 TTTTTA-ATAAATTTTAAAA
1 TTTTTACATAAATTTTAAAA
*
6855011 -TTTTACTATAATTTTTAAAA
1 TTTTTAC-ATAAATTTTAAAA
6855031 TTT
1 TTT
6855034 AAAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
18 5 0.26
20 12 0.63
21 2 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTACATAAATTTTAAAA
Found at i:6855041 original size:20 final size:20
Alignment explanation
Indices: 6854997--6855043 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6854987 TGTACTTTTT
* * *
6854997 AATAAATTTTAAAATTTTAC
1 AATAATTTTTAAAATTTAAA
*
6855017 TATAATTTTTAAAATTTAAA
1 AATAATTTTTAAAATTTAAA
6855037 AATAATT
1 AATAATT
6855044 AATTGCACAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATTTTTAAAATTTAAA
Found at i:6857305 original size:27 final size:26
Alignment explanation
Indices: 6857261--6857318 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
6857251 AATATTAAAT
*
6857261 TATTTATATAATTTTATTATATATTA
1 TATTTTTATAATTTTATTATATATTA
* * *
6857287 TATTTTTATGATTTGTATTTTTTATTA
1 TATTTTTATAATTT-TATTATATATTA
6857314 T-TTTT
1 TATTTT
6857319 AATGGTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (26 bp):
TATTTTTATAATTTTATTATATATTA
Found at i:6859470 original size:34 final size:34
Alignment explanation
Indices: 6859427--6859496 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
6859417 TAGGAGTTTA
6859427 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
1 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
6859461 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
1 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
6859495 TT
1 TT
6859497 GACTTTTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (34 bp):
TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
Found at i:6862921 original size:14 final size:15
Alignment explanation
Indices: 6862902--6862934 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6862892 AAATAAAGGG
6862902 CTTTTTCTTT-TTTT
1 CTTTTTCTTTATTTT
6862916 CTTTTTCTTTATTTT
1 CTTTTTCTTTATTTT
6862931 -TTTT
1 CTTTT
6862935 AACCTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (15 bp):
CTTTTTCTTTATTTT
Found at i:6866150 original size:40 final size:40
Alignment explanation
Indices: 6866098--6866219 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
6866088 TGTCGTACTT
*
6866098 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGAATTTTAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
6866138 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
*
6866178 TTCTATTTTAACCCTAGTATTCTTGCTCTAAGGATTTTAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
6866218 TT
1 TT
6866220 TGCTCCATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (40 bp):
TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
Found at i:6876459 original size:30 final size:30
Alignment explanation
Indices: 6876411--6876473 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
6876401 GTCTACATAC
* * *
6876411 TTTATTTGATCAAATTTAACCCTTGTTCTT
1 TTTAATTGATCAAATTTAACCCTTATACTT
* * *
6876441 TTTAATTGGTCAATTTTAATCCTTATACTT
1 TTTAATTGATCAAATTTAACCCTTATACTT
6876471 TTT
1 TTT
6876474 TTGAATTTCG
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:0.24, C:0.14, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTAATTGATCAAATTTAACCCTTATACTT
Found at i:6882385 original size:20 final size:20
Alignment explanation
Indices: 6882354--6882406 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
6882344 GATGATATTT
*
6882354 TATA-ATTA-TTTAATTAGA
1 TATATATTATTTTAATGAGA
6882372 TATATATTATTTTAATGAGA
1 TATATATTATTTTAATGAGA
*
6882392 TATTTTATTATTTTA
1 TA-TATATTATTTTA
6882407 TTATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 11 0.37
21 11 0.37
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TATATATTATTTTAATGAGA
Found at i:6884595 original size:23 final size:23
Alignment explanation
Indices: 6884565--6884712 Score: 156
Period size: 23 Copynumber: 6.3 Consensus size: 23
6884555 CCGATATATA
6884565 GCTCTTTGTGAGCTTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
*
6884588 GCTCTTTGTGAGCCTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
** *
6884611 TGCTCGCT-TGAACTTCCCGATATATG
1 -GCTCTTTGTGAGCTTCCCG--ATA-G
* *
6884637 GCTATCTG-GAGCTTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
*
6884659 GCTCTTCGTGAGCTTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
*
6884682 GCTCTTCGTGAGCTTCCCGATATG
1 GCTCTTTGTGAGCTTCCCGATA-G
*
6884706 GTTCTTT
1 GCTCTTT
6884713 ATGAACTACC
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.06
23 70 0.67
24 11 0.10
25 17 0.16
26 1 0.01
ACGTcount: A:0.14, C:0.28, G:0.24, T:0.34
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCCGATAG
Found at i:6884670 original size:71 final size:72
Alignment explanation
Indices: 6884553--6884704 Score: 209
Period size: 71 Copynumber: 2.1 Consensus size: 72
6884543 CTTAAAAGCG
* * *
6884553 TCCCGATATATAGCTCTTTGTGAGCTTCCCGATAGGCTCTTTGTGAGCCTCCCGATAGTGCTC-G
1 TCCCGATATATAGCTATCTGTGAGCTTCCCGATAGGCTCTTCGTGAGCCTCCCGATAG-GCTCTG
*
6884617 CTTGAACT
65 CGTGAACT
* * *
6884625 TCCCGATATATGGCTATCTG-GAGCTTCCCGATAGGCTCTTCGTGAGCTTCCCGATAGGCTCTTC
1 TCCCGATATATAGCTATCTGTGAGCTTCCCGATAGGCTCTTCGTGAGCCTCCCGATAGGCTCTGC
*
6884689 GTGAGCT
66 GTGAACT
6884696 TCCCGATAT
1 TCCCGATAT
6884705 GGTTCTTTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
70 4 0.06
71 50 0.70
72 17 0.24
ACGTcount: A:0.16, C:0.28, G:0.23, T:0.32
Consensus pattern (72 bp):
TCCCGATATATAGCTATCTGTGAGCTTCCCGATAGGCTCTTCGTGAGCCTCCCGATAGGCTCTGC
GTGAACT
Found at i:6884675 original size:48 final size:49
Alignment explanation
Indices: 6884565--6884680 Score: 125
Period size: 48 Copynumber: 2.4 Consensus size: 49
6884555 CCGATATATA
* * *
6884565 GCTCTTTGTGAGCTTCCCG--ATAGGCTCTTTGTGAGCCTCCCGATAGT
1 GCTCTTCGTGAGCTTCCCGATATAGGCTATCTGTGAGCCTCCCGATAGT
* * * *
6884612 GCTC-GCTTGAACTTCCCGATATATGGCTATCTG-GAGCTTCCCGATAG-
1 GCTCTTCGTGAGCTTCCCGATATA-GGCTATCTGTGAGCCTCCCGATAGT
6884659 GCTCTTCGTGAGCTTCCCGATA
1 GCTCTTCGTGAGCTTCCCGATA
6884681 GGCTCTTCGT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
46 10 0.18
47 8 0.15
48 30 0.55
49 7 0.13
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (49 bp):
GCTCTTCGTGAGCTTCCCGATATAGGCTATCTGTGAGCCTCCCGATAGT
Found at i:6886687 original size:43 final size:43
Alignment explanation
Indices: 6886632--6886752 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 43
6886622 AATAAGTACA
* * *
6886632 ATGCCGACGTCCCAAACGTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAGACGTGGTCTTACATGTAAATCAGATA-CG
** *
6886675 ATGCCTCTGTCCCAGACAG-GGTCTTACACG-AAATCAGATACG
1 ATGCCGATGTCCCAGAC-GTGGTCTTACATGTAAATCAGATACG
* *
6886717 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATC
1 ATGCCGATGTCCCAGACGTGGTCTTACATGTAAATC
6886753 TTAATTGAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 31 0.49
43 31 0.49
44 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACGTGGTCTTACATGTAAATCAGATACG
Found at i:6886775 original size:85 final size:85
Alignment explanation
Indices: 6886632--6886790 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
6886622 AATAAGTACA
* * **
6886632 ATGCCGACGTCCCAAACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGACGTCCCAAACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAGACACAGT
6886697 CTTACACGAAATCAGATACG
66 CTTACACGAAATCAGATACG
* * * * *
6886717 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTTAAT-T-GAGGCCTGTGTCCCAGACACA
1 ATGCCGACGTCCCAAACATGGTCTTACATGT-AAT-TCAATATCGAGGCCTCTGTCCCAGACACA
6886780 GTCTTACACGA
64 GTCTTACACGA
6886791 TGTCTCAGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 55 0.87
86 4 0.06
87 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (85 bp):
ATGCCGACGTCCCAAACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAGACACAGT
CTTACACGAAATCAGATACG
Found at i:6888842 original size:86 final size:86
Alignment explanation
Indices: 6888729--6888957 Score: 217
Period size: 86 Copynumber: 2.7 Consensus size: 86
6888719 TATGACCCGC
* * * * *
6888729 TAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAGACACTTAGCAAAATTTATTTAAGGCACACA
1 TAAGTCAATAGCAAAATCATTGCTAGCCTCCTAAGACACTTAGCAAAATTTATTTAAAGCACAAA
* *
6888794 CCTTATGAGGGTACTGCTAGT
66 CCCTACGAGGGTACTGCTAGT
* * * * * *
6888815 TAAGTTAATAGCAAAATCATTGTTAGCCTCTTAAGGCACTTAGCTAAGTTTATTTAAAGCACAAA
1 TAAGTCAATAGCAAAATCATTGCTAGCCTCCTAAGACACTTAGCAAAATTTATTTAAAGCACAAA
* * *
6888880 CCCTACGAGGGTATTGCCCA-C
66 CCCTACGAGGGTACTG-CTAGT
* * ** * * * * *
6888901 TAAGCCAATAACAAAATCGCTACTAGCCTTCTAAGCCATTTAGCGAAATTTATTTAA
1 TAAGTCAATAGCAAAATCATTGCTAGCCTCCTAAGACACTTAGCAAAATTTATTTAA
6888958 GGCATACATC
Statistics
Matches: 113, Mismatches: 29, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
86 111 0.98
87 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (86 bp):
TAAGTCAATAGCAAAATCATTGCTAGCCTCCTAAGACACTTAGCAAAATTTATTTAAAGCACAAA
CCCTACGAGGGTACTGCTAGT
Found at i:6893773 original size:79 final size:78
Alignment explanation
Indices: 6893585--6893812 Score: 314
Period size: 79 Copynumber: 2.9 Consensus size: 78
6893575 GATTTATTCC
*
6893585 TGATTCAC-TATGGTAACTTAAGGTGGATAGGATTTAACCTGAAAAGGTAATCCTGATTCGCTAC
1 TGATTC-CTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTAC
* *
6893649 AGTTACATGATATA
65 AGCTACACGATATA
* * *
6893663 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCAGATTCGCTAC
1 TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
*
6893728 GGCTACACGATATA
65 AGCTACACGATATA
* * * * *
6893742 TGATTCCTTATGATAACTTAAGATGGGTAGGATTTGACCTGAAAAGGTAAGCCTGATTCACTACA
1 TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
*
6893807 GTTACA
66 GCTACA
6893813 TGAGATGTGG
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
78 62 0.47
79 69 0.53
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (78 bp):
TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
GCTACACGATATA
Found at i:6895588 original size:20 final size:20
Alignment explanation
Indices: 6895567--6895603 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6895557 AAAAGAATGA
6895567 AAAATA-GAAAAAAAAAAGG
1 AAAATATGAAAAAAAAAAGG
6895586 AAAATATGAAAAAAAAAA
1 AAAATATGAAAAAAAAAA
6895604 AAAGTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (20 bp):
AAAATATGAAAAAAAAAAGG
Found at i:6895618 original size:24 final size:23
Alignment explanation
Indices: 6895574--6895621 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 23
6895564 TGAAAAATAG
6895574 AAAAAAAAAAGGAAAATATGAAA
1 AAAAAAAAAAGGAAAATATGAAA
6895597 AAAAAAAAAAGTTGAAAA-ATGAAA
1 AAAAAAAAAAG--GAAAATATGAAA
6895621 A
1 A
6895622 TAAGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.48
24 7 0.30
25 5 0.22
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (23 bp):
AAAAAAAAAAGGAAAATATGAAA
Found at i:6897050 original size:57 final size:56
Alignment explanation
Indices: 6896986--6897101 Score: 196
Period size: 57 Copynumber: 2.1 Consensus size: 56
6896976 TATAATTTTC
* * *
6896986 TTTAATAAATTATTCTCATCAAATTTACATCAACGTAAGATGTGAATTAGTTTATTA
1 TTTAATAAATTATTCTCACCAAAGTTACATCAACATAAGATGTGAATTAGTTTA-TA
6897043 TTTAATAAATTATTCTCACCAAAGTTACATCAACATAAGATGTGAATTAGTTTATA
1 TTTAATAAATTATTCTCACCAAAGTTACATCAACATAAGATGTGAATTAGTTTATA
6897099 TTT
1 TTT
6897102 TTTTTAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 5 0.09
57 51 0.91
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (56 bp):
TTTAATAAATTATTCTCACCAAAGTTACATCAACATAAGATGTGAATTAGTTTATA
Found at i:6898094 original size:26 final size:27
Alignment explanation
Indices: 6898059--6898110 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
6898049 ATTCAAATTA
6898059 ATATATAAAATTGAAAATTGTTATAAC
1 ATATATAAAATTGAAAATTGTTATAAC
*
6898086 ATATA-AAAATTGAAAATTTTTATAA
1 ATATATAAAATTGAAAATTGTTATAA
6898111 AATTTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (27 bp):
ATATATAAAATTGAAAATTGTTATAAC
Found at i:6899111 original size:31 final size:32
Alignment explanation
Indices: 6899042--6899111 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 32
6899032 TTGTAAATTT
* *
6899042 TATTTTTTTATATTTTATATATACTTTTCTGA
1 TATTTTTTTATATTTTATATATAATTTTCTCA
* *
6899074 -AATTTTTTATATATTTAT-TTTAATTTT-TCA
1 TATTTTTTTATAT-TTTATATATAATTTTCTCA
6899104 TATTTTTT
1 TATTTTTT
6899112 AATGTGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.06
31 24 0.77
32 5 0.16
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (32 bp):
TATTTTTTTATATTTTATATATAATTTTCTCA
Found at i:6900454 original size:3 final size:3
Alignment explanation
Indices: 6900446--6900481 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6900436 TGGGGTTTTG
6900446 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
6900482 TCCCTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:6903718 original size:29 final size:29
Alignment explanation
Indices: 6903685--6903740 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
6903675 ATTTGATTTT
* *
6903685 TTTAATAGTATAGAGACTAAATTAATTCA
1 TTTAATAATAAAGAGACTAAATTAATTCA
* *
6903714 TTTAATAATAAAGAGATTAATTTAATT
1 TTTAATAATAAAGAGACTAAATTAATT
6903741 GAATCACGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (29 bp):
TTTAATAATAAAGAGACTAAATTAATTCA
Found at i:6907408 original size:12 final size:11
Alignment explanation
Indices: 6907355--6907414 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 11
6907345 AATAAAAAAC
*
6907355 AATACTATATAT
1 AATA-TATACAT
*
6907367 AATATATATAT
1 AATATATACAT
6907378 -ATATATACAT
1 AATATATACAT
*
6907388 AAAAGTATACACT
1 AATA-TATACA-T
6907401 AATATATA-AT
1 AATATATACAT
6907411 AATA
1 AATA
6907415 ATAGTAATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 14 0.33
11 10 0.24
12 14 0.33
13 4 0.10
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
AATATATACAT
Found at i:6907506 original size:3 final size:3
Alignment explanation
Indices: 6907498--6907553 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
6907488 AATAGGGGTG
*
6907498 ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CAT- ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA
6907544 TATA ATA ATA
1 -ATA ATA ATA
6907554 GTAGTCAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
2 3 0.06
3 34 0.72
4 10 0.21
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6907513 original size:12 final size:13
Alignment explanation
Indices: 6907498--6907553 Score: 59
Period size: 12 Copynumber: 4.7 Consensus size: 13
6907488 AATAGGGGTG
6907498 ATAATAATAATA-
1 ATAATAATAATAC
6907510 ATAATAATAATAC
1 ATAATAATAATAC
*
6907523 A-AACAATAATAC
1 ATAATAATAATAC
*
6907535 AT-AT-AT-ATAT
1 ATAATAATAATAC
6907545 ATAATAATA
1 ATAATAATA
6907554 GTAGTCAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 26 0.72
13 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAATAC
Found at i:6908124 original size:13 final size:12
Alignment explanation
Indices: 6908106--6908198 Score: 83
Period size: 13 Copynumber: 7.9 Consensus size: 12
6908096 AGTGGTTGGG
6908106 GTGGTTTAGTAGA
1 GTGGTTTAGT-GA
*
6908119 GTGGTTTAGTAGG
1 GTGGTTTAGT-GA
6908132 GTGG-TTAG-G-
1 GTGGTTTAGTGA
6908141 GTGGTTTAGTGGA
1 GTGGTTTAGT-GA
6908154 GTGG-TTAGTGTA
1 GTGGTTTAGTG-A
6908166 GTGGTTTAGTGGA
1 GTGGTTTAGT-GA
6908179 GTGG-TT-G-GA
1 GTGGTTTAGTGA
6908188 GTGGTTTAGTG
1 GTGGTTTAGTG
6908199 GAGTAAAGAT
Statistics
Matches: 69, Mismatches: 1, Indels: 21
0.76 0.01 0.23
Matches are distributed among these distances:
9 10 0.14
10 7 0.10
11 3 0.04
12 18 0.26
13 30 0.43
14 1 0.01
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (12 bp):
GTGGTTTAGTGA
Found at i:6908144 original size:22 final size:23
Alignment explanation
Indices: 6908117--6908202 Score: 124
Period size: 22 Copynumber: 3.7 Consensus size: 23
6908107 TGGTTTAGTA
6908117 GAGTGGTTTAGTAGG-GTGGTTAG
1 GAGTGGTTTAGT-GGAGTGGTTAG
6908140 G-GTGGTTTAGTGGAGTGGTTAG
1 GAGTGGTTTAGTGGAGTGGTTAG
6908162 TGTAGTGGTTTAGTGGAGTGGTT-G
1 -G-AGTGGTTTAGTGGAGTGGTTAG
6908186 GAGTGGTTTAGTGGAGT
1 GAGTGGTTTAGTGGAGT
6908203 AAAGATATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.03
22 34 0.58
23 3 0.05
24 1 0.02
25 19 0.32
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (23 bp):
GAGTGGTTTAGTGGAGTGGTTAG
Found at i:6913537 original size:41 final size:41
Alignment explanation
Indices: 6913480--6913710 Score: 358
Period size: 41 Copynumber: 5.7 Consensus size: 41
6913470 TCAGGGTTTA
6913480 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
6913521 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
6913562 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
6913603 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
6913644 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
6913684 AATCCGAGCTTGGTCTCGAA-GGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
6913711 TGAGTCAGCG
Statistics
Matches: 171, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 36 0.21
41 135 0.79
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:6913712 original size:122 final size:123
Alignment explanation
Indices: 6913480--6913720 Score: 369
Period size: 122 Copynumber: 2.0 Consensus size: 123
6913470 TCAGGGTTTA
* * *
6913480 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
* * *
6913545 TTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTCAT
66 CTTCGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTCAT
* *
6913603 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCTTAA-CCGAACCTAGTTTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
* *
6913667 CTTCGGGCCAATGTCATAATCCGAGCTTGGTCTCGAA-GGCTTTTTGAGTCAGCG
66 CTTCGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGC-TTTTGAGCCAGCG
6913721 CTAAGAATCG
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
121 3 0.03
122 62 0.58
123 42 0.39
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (123 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
CTTCGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTCAT
Found at i:6913736 original size:122 final size:123
Alignment explanation
Indices: 6913480--6913748 Score: 366
Period size: 122 Copynumber: 2.2 Consensus size: 123
6913470 TCAGGGTTTA
* * *
6913480 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
* * * * *
6913545 TTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTCAT
66 CTTCGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTAAG
* *
6913603 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCTTAA-CCGAACCTAGTTTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
* *
6913667 CTTCGGGCCAATGTCATAATCCGAGCTTGGTCTCGAA-GGCTTTTTGAGTCAGCGCTAAG
66 CTTCGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGC-TTTTGAGCCAGCG-TAAG
*
6913726 AAT-CGGGCTTGGT-TCCGAAGGGC
1 AATCCGAGCTTGGTCT-CGAAGGGC
6913749 GTCTGTGACG
Statistics
Matches: 130, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
121 4 0.03
122 79 0.61
123 47 0.36
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (123 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
CTTCGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTAAG
Found at i:6920836 original size:41 final size:41
Alignment explanation
Indices: 6920779--6920928 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
6920769 TCGGGGTTTA
6920779 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
6920820 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
6920861 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
6920901 AATTCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
6920929 TGAGTCAGCG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:6927352 original size:17 final size:17
Alignment explanation
Indices: 6927327--6927360 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6927317 GATCCATTCC
* *
6927327 TTCCCAAAAGCTTCTCT
1 TTCCAAAAAACTTCTCT
6927344 TTCCAAAAAACTTCTCT
1 TTCCAAAAAACTTCTCT
6927361 CATTGGAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.35
Consensus pattern (17 bp):
TTCCAAAAAACTTCTCT
Found at i:6929125 original size:30 final size:27
Alignment explanation
Indices: 6929049--6929117 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
6929039 TCAAAACTTG
* *
6929049 AAAAATATAAAGACTGAAATTGACCAATT
1 AAAAATAT--AGACTAAAATTGACAAATT
*
6929078 AGAAAAGTATAGTCTAAAATTGATCAAATT
1 A-AAAA-TATAGACTAAAATTGA-CAAATT
6929108 AAAAATATAG
1 AAAAATATAG
6929118 GGACTAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 5 0.15
29 16 0.47
30 10 0.29
31 3 0.09
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (27 bp):
AAAAATATAGACTAAAATTGACAAATT
Found at i:6934050 original size:42 final size:42
Alignment explanation
Indices: 6933984--6934147 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
6933974 CTTTGTTTTC
** *
6933984 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
6934027 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
6934068 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
6934117 TCGATGCCATAGCCCAGCTATGGTCGTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
6934148 GAATCACATA
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.02
42 61 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:6934127 original size:49 final size:48
Alignment explanation
Indices: 6934067--6934237 Score: 188
Period size: 47 Copynumber: 3.6 Consensus size: 48
6934057 ATATTCATAT
*
6934067 ATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * *
6934115 TATCGATGCCATAGCCCAGCTATGGTCGTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
6934163 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* * *
6934209 ACCGATGCCATATCCCAAATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
6934238 TACGGAAATC
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
46 25 0.24
47 36 0.34
48 13 0.12
49 32 0.30
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:6934294 original size:31 final size:31
Alignment explanation
Indices: 6934259--6934407 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
6934249 CTTGTCACTT
* *
6934259 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
6934290 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
6934321 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
6934352 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
6934383 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
6934408 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:6934489 original size:50 final size:51
Alignment explanation
Indices: 6934383--6934511 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
6934373 CACTGATCAG
* * * *
6934383 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAATT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
* *
6934434 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
6934484 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
6934512 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:6938334 original size:30 final size:30
Alignment explanation
Indices: 6938268--6938334 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
6938258 TAAATTATAT
* ** *
6938268 ATATAAATTTAAAAGGAAATGTATAATCAC
1 ATATAAATTTAAAAGAAAATACATAATAAC
*
6938298 AAATAAATTTAAAAGAAAATACATAA-AATC
1 ATATAAATTTAAAAGAAAATACATAATAA-C
6938328 ATATAAA
1 ATATAAA
6938335 ATCAACAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (30 bp):
ATATAAATTTAAAAGAAAATACATAATAAC
Found at i:6938466 original size:2 final size:2
Alignment explanation
Indices: 6938459--6938491 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6938449 AAACAAAACA
6938459 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 A
6938492 CGAATAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6938559 original size:23 final size:21
Alignment explanation
Indices: 6938529--6938571 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6938519 ATAGCTTAAT
6938529 ATAAATAATATATACAAAAATA
1 ATAAATAATATATA-AAAAATA
*
6938551 ATAATATAATATTTAAAAAAT
1 ATAA-ATAATATATAAAAAAT
6938572 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAATAATATATAAAAAATA
Found at i:6943379 original size:24 final size:24
Alignment explanation
Indices: 6943342--6943388 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
6943332 CTCTTACGAA
*
6943342 TTAAATTACGCTAAACACAAATAAT
1 TTAAATAACGCTAAA-ACAAATAAT
6943367 TTAAATAAC-CTAAAACAAATAA
1 TTAAATAACGCTAAAACAAATAA
6943389 CACAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 8 0.38
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (24 bp):
TTAAATAACGCTAAAACAAATAAT
Found at i:6945909 original size:11 final size:11
Alignment explanation
Indices: 6945893--6945917 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6945883 TTTTCCTAAC
6945893 AATAATTTAAA
1 AATAATTTAAA
6945904 AATAATTTAAA
1 AATAATTTAAA
6945915 AAT
1 AAT
6945918 TACTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:6945936 original size:31 final size:31
Alignment explanation
Indices: 6945899--6945959 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
6945889 TAACAATAAT
*
6945899 TTAAAAATAAT-TTAAAAATTACTATAAATTA
1 TTAAAAATAATGTTAAAAATT-CAATAAATTA
* *
6945930 TTAAAAATTATGTTGAAAATTCAATAAATT
1 TTAAAAATAATGTTAAAAATTCAATAAATT
6945960 TAGCCCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (31 bp):
TTAAAAATAATGTTAAAAATTCAATAAATTA
Found at i:6946053 original size:61 final size:60
Alignment explanation
Indices: 6945945--6946074 Score: 143
Period size: 61 Copynumber: 2.1 Consensus size: 60
6945935 AATTATGTTG
* ** * * * * * *
6945945 AAAATTCAATAAATTTAGCCCTCAATGTTTACAAATTTTTTTATTTTAATTATAATTCTAA
1 AAAATTTAATAAATTTAGCCCTCAAAATTTACAAAATCTGTCATTTTAATCATAACTCT-A
* * *
6946006 AAAATTTAATAAATTTGGCCCTCAAAATTTACAAAATCTGTCGTTTTAATCCTAACTCTA
1 AAAATTTAATAAATTTAGCCCTCAAAATTTACAAAATCTGTCATTTTAATCATAACTCTA
6946066 AAAATTTAA
1 AAAATTTAA
6946075 AAAAAAAATT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
60 10 0.18
61 47 0.82
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (60 bp):
AAAATTTAATAAATTTAGCCCTCAAAATTTACAAAATCTGTCATTTTAATCATAACTCTA
Found at i:6947522 original size:23 final size:23
Alignment explanation
Indices: 6947477--6947522 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6947467 ATTTTTTTAA
* * *
6947477 AGATTTTTTTATGTAAATTTTTT
1 AGATTTGTTTACGTAAATATTTT
*
6947500 AGATTTGTTTACGTATATATTTT
1 AGATTTGTTTACGTAAATATTTT
6947523 GAACTTTTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (23 bp):
AGATTTGTTTACGTAAATATTTT
Found at i:6947600 original size:20 final size:20
Alignment explanation
Indices: 6947563--6947606 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6947553 TATTCATAAA
*
6947563 AATATTTTCACATAATTTTT
1 AATATTTTCACATAATTTTC
*
6947583 AATATTTTTA-ATATATTTTC
1 AATATTTTCACATA-ATTTTC
6947603 AATA
1 AATA
6947607 ATCTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTTTCACATAATTTTC
Found at i:6948936 original size:17 final size:17
Alignment explanation
Indices: 6948880--6948940 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
6948870 ATTATTTTAG
*
6948880 ATTTTTAAATTTTTTAT
1 ATTTTTAAATTTTTAAT
* *
6948897 ATCTTTATATTTTTAAT
1 ATTTTTAAATTTTTAAT
*
6948914 ACTTTTAAATTTTATAAT
1 ATTTTTAAATTTT-TAAT
*
6948932 TTTTTTAAA
1 ATTTTTAAA
6948941 AAATATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 24 0.69
18 11 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTAAATTTTTAAT
Found at i:6949427 original size:20 final size:19
Alignment explanation
Indices: 6949383--6949428 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6949373 GCCAGTAAAA
*
6949383 TATTTTTCAGAAAATGATT
1 TATTTTTCAGAAAATAATT
*
6949402 TATTTTTCTGAAAATAATT
1 TATTTTTCAGAAAATAATT
*
6949421 TACTTTTC
1 TATTTTTC
6949429 TGGTGTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.52
Consensus pattern (19 bp):
TATTTTTCAGAAAATAATT
Found at i:6951219 original size:169 final size:173
Alignment explanation
Indices: 6950915--6951298 Score: 499
Period size: 171 Copynumber: 2.2 Consensus size: 173
6950905 GGTCAGTTGG
* * *
6950915 CTGATTTTGAAACATCTAGAGCTAAATTCAATTGGTTTTTGTAAAGATTTCAATCTTACTCTTTG
1 CTGATTTTGAAACATCTAGAGCTAAATTGAAATGGTTTTTGTAAAGATTCCAATCTTACTCTTTG
* * * *
6950980 TTTCTATAAAGATTTGAAGCTGAATTCAACTACAATTTTCTAAATAATTCCTGGATAATGACAAC
66 TTTCTATAAAGAATTGAAGCTGAATTCAACTACAATTCTCTAAAGAATTCATGGATAATGACAAC
*
6951045 ATTTGCAGAATGATACCTCATAAGACTAGT-TC-TATTTTGAA
131 ATTTGCAGAATGATACCTCATAAGACTAATGTCTTATTTTGAA
* * * * * * *
6951086 CTGGTTTTGAAACATCTAGGGCTAAATTGAACTGGGTTTTGTAAATATTCCTATCTT-TTCTTT-
1 CTGATTTTGAAACATCTAGAGCTAAATTGAAATGGTTTTTGTAAAGATTCCAATCTTACTCTTTG
* ** * * *
6951149 TTTCTGTGTAGAATTGAAGCTGAA-TCTAACTGCAATTCTGTAAAGATTTCATGGATAATGACAA
66 TTTCTATAAAGAATTGAAGCTGAATTC-AACTACAATTCTCTAAAGAATTCATGGATAATGACAA
* *
6951213 CATTTGCAGAATGATGCCTCATAAGACTAATGTCTTATTTTTAA
130 CATTTGCAGAATGATACCTCATAAGACTAATGTCTTATTTTGAA
* *
6951257 TTGATGTTGAAACATCTAGAGCTAAATTGAAATGGTTTTTGT
1 CTGATTTTGAAACATCTAGAGCTAAATTGAAATGGTTTTTGT
6951299 TTCTGTAAGA
Statistics
Matches: 182, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
168 2 0.01
169 80 0.44
170 7 0.04
171 93 0.51
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (173 bp):
CTGATTTTGAAACATCTAGAGCTAAATTGAAATGGTTTTTGTAAAGATTCCAATCTTACTCTTTG
TTTCTATAAAGAATTGAAGCTGAATTCAACTACAATTCTCTAAAGAATTCATGGATAATGACAAC
ATTTGCAGAATGATACCTCATAAGACTAATGTCTTATTTTGAA
Found at i:6959424 original size:26 final size:28
Alignment explanation
Indices: 6959367--6959425 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
6959357 CGAATTTGAC
* * *
6959367 ATTTTTTTTTCTAATGTGGTACATGTGTT
1 ATTTTTTTGTCTAATCTAGTACA-GTGTT
6959396 ATTTTTTTGTCTAATCTAGTACA-TG-T
1 ATTTTTTTGTCTAATCTAGTACAGTGTT
6959422 ATTT
1 ATTT
6959426 GACAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 2 0.07
29 20 0.74
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (28 bp):
ATTTTTTTGTCTAATCTAGTACAGTGTT
Found at i:6962003 original size:19 final size:20
Alignment explanation
Indices: 6961969--6962007 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6961959 AAGAAATTTG
*
6961969 TCTAATATGATTAAAAATAT
1 TCTAAAATGATTAAAAATAT
6961989 TCTAAAATG-TTAAAAATAT
1 TCTAAAATGATTAAAAATAT
6962008 ATATGTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
TCTAAAATGATTAAAAATAT
Found at i:6965258 original size:24 final size:24
Alignment explanation
Indices: 6965226--6965272 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6965216 TTCTATACTA
*
6965226 TTTTATAATT-TACAATTTTTTTAT
1 TTTTATAATTATA-AATTTATTTAT
*
6965250 TTTTTTAATTATAAATTTATTTA
1 TTTTATAATTATAAATTTATTTA
6965273 GTCACGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTATAATTATAAATTTATTTAT
Found at i:6965784 original size:13 final size:14
Alignment explanation
Indices: 6965756--6965784 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6965746 GGATTAAGAC
6965756 ATGTCACACTATAA
1 ATGTCACACTATAA
6965770 ATGTCACAC-ATAA
1 ATGTCACACTATAA
6965783 AT
1 AT
6965785 AAATCCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (14 bp):
ATGTCACACTATAA
Found at i:6966597 original size:34 final size:33
Alignment explanation
Indices: 6966554--6966647 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 33
6966544 TACATTTGTC
*
6966554 ACACGGTCTGCCGACACGGCTATGTAACCCCTCT
1 ACACGGTCTGCC-ACACGGCTGTGTAACCCCTCT
* * *
6966588 ACACGGTCTGCCCACACGACTGTGTAAGCCCTTT
1 ACACGGTCTG-CCACACGGCTGTGTAACCCCTCT
* *
6966622 ACATGGTCTAACCACACGGCTGTGTA
1 ACACGGTCT-GCCACACGGCTGTGTA
6966648 CCTTTATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
34 49 0.96
35 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.22
Consensus pattern (33 bp):
ACACGGTCTGCCACACGGCTGTGTAACCCCTCT
Done.