Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 24 of 295
Found at i:6423152 original size:39 final size:40
Alignment explanation
Indices: 6423092--6423171 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
6423082 GATTCAATAT
*
6423092 TTTGATTCACTCCCACATTATTATATGTAATAATATTGAAG
1 TTTGATTCAC-CCCACATTATTATATGGAATAATATTGAAG
*
6423133 TTTGATTCA-CCCACGTTATTATATGGAATAATATTGAAG
1 TTTGATTCACCCCACATTATTATATGGAATAATATTGAAG
6423172 ATGATCGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 28 0.76
41 9 0.24
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (40 bp):
TTTGATTCACCCCACATTATTATATGGAATAATATTGAAG
Found at i:6429558 original size:43 final size:43
Alignment explanation
Indices: 6429497--6429700 Score: 142
Period size: 43 Copynumber: 4.7 Consensus size: 43
6429487 CACTTCTAGC
* *
6429497 CTGTTACCCTACTGCTTAGGGGTTTAGGCTCATCATTTTTGAT
1 CTGTTACCCTACTACTTAGGGGTTTAGGCTCATCAATTTTGAT
* * * * * * * *
6429540 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAG-C
1 CTGTTACCCTACTACTTAGGGGTTTAGGCTC-ATCAATTTTGAT
* * **
6429583 CTGTTACCCTACTGCTTAAGGGTTTAGGCTCATCGCTTTTGAT
1 CTGTTACCCTACTACTTAGGGGTTTAGGCTCATCAATTTTGAT
* * * * * * * *
6429626 CTATTTCCCTACTACTTAGGAGG-TTAAGATCTGTAAATTTTTAGC
1 CTGTTACCCTACTACTTAGG-GGTTTAGGCTC-ATCAATTTTGA-T
* *
6429671 CTGTTACCCTACTATTTAGGGGTTAAGGCT
1 CTGTTACCCTACTACTTAGGGGTTTAGGCT
6429701 TGTCACCTTC
Statistics
Matches: 115, Mismatches: 40, Indels: 10
0.70 0.24 0.06
Matches are distributed among these distances:
42 5 0.04
43 73 0.63
44 16 0.14
45 21 0.18
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (43 bp):
CTGTTACCCTACTACTTAGGGGTTTAGGCTCATCAATTTTGAT
Found at i:6429813 original size:44 final size:44
Alignment explanation
Indices: 6429757--6429912 Score: 151
Period size: 44 Copynumber: 3.5 Consensus size: 44
6429747 TAAATCCAGC
6429757 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGAT
* * ** * *
6429801 CTGTTTCCCTACTGCTTA-GGGTGATAA-G---ATCTGTAAATCTAGC
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGGCCCATCT-T-CTTCGA-T
* *
6429844 CTGTTACCCTACTGCTTAGGGTTTTAAGGCCCATCTTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGAT
*
6429888 CTGTTTCCCTACTGCTTAAGGGGTT
1 CTGTTACCCTACTGCTT-AGGGGTT
6429913 AAGATCTGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
40 4 0.05
41 1 0.01
42 3 0.03
43 25 0.29
44 40 0.47
45 8 0.09
46 1 0.01
47 4 0.05
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGAT
Found at i:6429820 original size:87 final size:87
Alignment explanation
Indices: 6429491--6429925 Score: 549
Period size: 87 Copynumber: 5.0 Consensus size: 87
6429481 CAGTGCCACT
* *
6429491 TCTAGCCTGTTACCCTACTGCTTAGGGGTTT-AGGCTCATCATT-TTTGATCTGTTTCCCTACTA
1 TCTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATC-TTCTTCGATCTGTTTCCCTACTG
6429554 CTTAGGGGGTTAAGATCTGTAAA
65 CTTAGGGGGTTAAGATCTGTAAA
* * *
6429577 TTTAGCCTGTTACCCTACTGCTTAAGGGTTT-AGGCTCATCGCTT-TT-GATCTATTTCCCTACT
1 TCTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCAT--CTTCTTCGATCTGTTTCCCTACT
* *
6429639 ACTTAGGAGGTTAAGATCTGTAAA
64 GCTTAGGGGGTTAAGATCTGTAAA
* ** ** ** * *
6429663 TTTTTAGCCTGTTACCCTACTATTTAGGGG-TTAAGGCTTGTCACCTTCGATCTATTTCTCTACT
1 --TCTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCTTCTTCGATCTGTTTCCCTACT
* *
6429727 GTTTAGGGGGTTTAGATCTGTAAA
64 GCTTAGGGGGTTAAGATCTGTAAA
* *
6429751 TCCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGTTTCCCTACTGC
1 TCTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCTTCTTCGATCTGTTTCCCTACTGC
* *
6429816 TTAGGGTGATAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* * *
6429838 TCTAGCCTGTTACCCTACTGCTTAGGGTTTTAAGGCCCATCTTCTTTGATCTGTTTCCCTACTGC
1 TCTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCTTCTTCGATCTGTTTCCCTACTGC
*
6429903 TTAAGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
6429925 T
1 T
6429926 TCACCGATCT
Statistics
Matches: 304, Mismatches: 37, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
86 100 0.33
87 137 0.45
88 67 0.22
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (87 bp):
TCTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCTTCTTCGATCTGTTTCCCTACTGC
TTAGGGGGTTAAGATCTGTAAA
Found at i:6439193 original size:50 final size:50
Alignment explanation
Indices: 6439071--6439319 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
6439061 GATAATAACA
* * ** * *
6439071 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* * *
6439122 TGCCCATGCCATGTCCCAGACATGGTCTAATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6439172 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
6439222 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
6439277 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
6439320 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:6439249 original size:100 final size:104
Alignment explanation
Indices: 6439070--6439319 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
6439060 TGATAATAAC
**
6439070 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
6439135 TCCCAGACATGGTCTAATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTAACAGGGGACCTCTCAATCTTAAGG
* *
6439172 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
6439235 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTAACAGGGGACCTCTCA--ATCTTAAGG
* *
6439277 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
6439320 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTAACAGGGGACCTCTCAATCTTAAGG
Found at i:6439435 original size:13 final size:13
Alignment explanation
Indices: 6439414--6439445 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6439404 GCTTGGATCA
*
6439414 TCATCAAATAAAT
1 TCATAAAATAAAT
6439427 TCATAAAATAAAT
1 TCATAAAATAAAT
6439440 TCATAA
1 TCATAA
6439446 TTTCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:6439692 original size:30 final size:30
Alignment explanation
Indices: 6439657--6439714 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6439647 CCTCGACTCT
*
6439657 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
6439687 AACTTTTACATAATTACATTTTTTCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
6439715 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:6441155 original size:22 final size:22
Alignment explanation
Indices: 6441113--6441155 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6441103 CAGCGCCGTT
* *
6441113 TTAAGTTCTTCTATCTTCTCTC
1 TTAAGTTCTTCGATCTGCTCTC
6441135 TTAA-TTCTTCGATTCTGCTCT
1 TTAAGTTCTTCGA-TCTGCTCT
6441156 GACTAGCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.14, C:0.26, G:0.07, T:0.53
Consensus pattern (22 bp):
TTAAGTTCTTCGATCTGCTCTC
Found at i:6443392 original size:28 final size:26
Alignment explanation
Indices: 6443335--6443415 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
6443325 AAAGTAAACA
*
6443335 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
**
6443361 ATAAAACAAGTTTAAAATAAAATAATGT
1 ATAAAACAA-TTTAAAAT-AAATAATAC
* * **
6443389 ATAAAGCATTTTAAAATCTATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
6443415 A
1 A
6443416 CAAAGCAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 15 0.34
27 16 0.36
28 13 0.30
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:6443625 original size:17 final size:17
Alignment explanation
Indices: 6443603--6443650 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
6443593 TGAAATATAT
6443603 AATATATAATAACTTAA
1 AATATATAATAACTTAA
* * *
6443620 AATATAAAATAATTTGA
1 AATATATAATAACTTAA
*
6443637 AATGTATATATAAC
1 AATATATA-ATAAC
6443651 AAAACAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (17 bp):
AATATATAATAACTTAA
Found at i:6443817 original size:28 final size:24
Alignment explanation
Indices: 6443749--6443801 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
6443739 TAAATAATAC
6443749 ATATAAAATAGATTAAAGTGACAT
1 ATATAAAATAGATTAAAGTGACAT
6443773 ATATAAAATAGATTAAAGTGACAT
1 ATATAAAATAGATTAAAGTGACAT
6443797 ATATA
1 ATATA
6443802 CATAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.30
Consensus pattern (24 bp):
ATATAAAATAGATTAAAGTGACAT
Found at i:6445169 original size:25 final size:26
Alignment explanation
Indices: 6445132--6445183 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
6445122 TCAAACATGC
6445132 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
6445158 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
6445183 A
1 A
6445184 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:6446668 original size:26 final size:26
Alignment explanation
Indices: 6446632--6446715 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6446622 CATGAAATTC
6446632 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6446658 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6446684 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6446710 TTATCA
1 TTATCA
6446716 ATTTGTACCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6450549 original size:64 final size:64
Alignment explanation
Indices: 6450476--6450686 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
6450466 CTGGGCCAGA
*
6450476 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
6450540 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* * *
6450602 ACTGGGCGAGA-
54 A-TGGCCCATAG
*
6450613 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
6450677 GCCCATTTCA
1 GCCCATTTCA
6450687 AAATACATGC
Statistics
Matches: 101, Mismatches: 29, Indels: 34
0.62 0.18 0.21
Matches are distributed among these distances:
63 8 0.08
64 25 0.25
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 8 0.08
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:6450688 original size:137 final size:137
Alignment explanation
Indices: 6450442--6450728 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
6450432 TATTGGGCCT
**
6450442 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
6450507 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
6450572 CATATGC
131 CATATGC
*
6450579 AAGCCCATTTGGGTAACAGTGGTACTGGGCGAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
6450644 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
6450709 CATATGC
131 CATATGC
6450716 AAGCCCATTTGGG
1 AAGCCCATTTGGG
6450729 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:6452553 original size:26 final size:25
Alignment explanation
Indices: 6452517--6452600 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
6452507 CATGAAATTC
6452517 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAA-CCA
6452543 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
6452569 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
6452595 TTATCA
1 TTATCA
6452601 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 2 0.04
26 53 0.96
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:6463456 original size:14 final size:14
Alignment explanation
Indices: 6463437--6463466 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6463427 GCTGAGGTAA
*
6463437 TTTCAATTTATGTT
1 TTTCAATTTATATT
6463451 TTTCAATTTATATT
1 TTTCAATTTATATT
6463465 TT
1 TT
6463467 GCAAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTCAATTTATATT
Found at i:6463593 original size:170 final size:174
Alignment explanation
Indices: 6463390--6463790 Score: 542
Period size: 172 Copynumber: 2.3 Consensus size: 174
6463380 AAAAAAGTCG
6463390 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATG-TTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTT
* * * *
6463454 -CAATTTATATTTTGCAAAAATCAATTCATATTGTGAGACGTGAGTTGAGCCTCAGGACACACCG
66 CCAATCTATATTTTGCAAAAATCAACTCATATTGCGAGACGTGAATTGAGCCTCAGGACACACCG
* *
6463518 AGGTATTTTTAATTTCTGTTCTT-AA-TGACTGTTTTT-AAATCA
131 AGGTATTTTCAATTTCCGTTCTTCAATTGA-TGTTTTTAAAATCA
* * *
6463560 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTGTTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTT
* * ***
6463625 CCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGTTG
66 CCAATCTATATTTTGCAAAAATCAACTCATATTGCGAGACGTGAATTGAGCCTCAGGACACACCG
* * *
6463690 AGGTATTTTCGATTTCCGTTTTTCAATTTATGTTTTTCAAAAATCA
131 AGGTATTTTCAATTTCCGTTCTTCAATTGATGTTTTT--AAAATCA
* * ** *
6463736 ATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACGTTGAGGTAATTTCAATT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
6463791 CCTGCTTTTT
Statistics
Matches: 200, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
170 56 0.28
171 5 0.03
172 74 0.37
173 9 0.05
174 2 0.01
176 54 0.27
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (174 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTT
CCAATCTATATTTTGCAAAAATCAACTCATATTGCGAGACGTGAATTGAGCCTCAGGACACACCG
AGGTATTTTCAATTTCCGTTCTTCAATTGATGTTTTTAAAATCA
Found at i:6463679 original size:89 final size:87
Alignment explanation
Indices: 6463381--6463944 Score: 545
Period size: 87 Copynumber: 6.7 Consensus size: 87
6463371 GTTTGTAAAA
* *
6463381 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
6463446 ATGTTTTTCAATTTATATTTTGC
65 CTGTTTTTCAATTTATATTTTTC
* * * * * *
6463469 AAAAATCAATTCATATTGTGAGACGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * *
6463534 TGTTCTT-AA-TGACTGTTTTT-
66 TGTTTTTCAATTTA-TATTTTTC
*
6463554 --AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
6463617 TGTTTTTTCCAATCTATATTTTTC
66 TG-TTTTT-CAATTTATATTTTTC
* * *
6463641 AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGTATTTTCGATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
6463706 CGTTTTTCAATTTATGTTTTTC
66 TGTTTTTCAATTTATATTTTTC
* * ** * * *
6463728 AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACGTTGAGGTAATTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
6463793 TG-----C----T-T-TTTTTA
66 TGTTTTTCAATTTATATTTTTC
* ** * ** *
6463804 AAAAGTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
6463869 TGTCTTTC-----A-A------
66 TGTTTTTCAATTTATATTTTTC
*
6463879 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
6463944 T
64 T
6463945 TTTGCTTTTT
Statistics
Matches: 398, Mismatches: 61, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
75 36 0.09
76 60 0.15
77 21 0.05
78 1 0.00
81 1 0.00
82 1 0.00
83 58 0.15
84 4 0.01
85 2 0.01
86 15 0.04
87 129 0.32
88 10 0.03
89 60 0.15
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTATATTTTTC
Found at i:6463807 original size:75 final size:75
Alignment explanation
Indices: 6463709--6463989 Score: 279
Period size: 76 Copynumber: 3.7 Consensus size: 75
6463699 CGATTTCCGT
* * * *
6463709 TTTTCAATTTATG--TTTTTCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACA
1 TTTTCAATTTCTGCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGACA
6463772 CGTTGAGGTA
66 CGTTGAGGTA
* * * ** *
6463782 ATTTCAATTCCTGCTTTTTTTAAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-AGA
1 TTTTCAATTTCTGCTTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGA
* *
6463846 CACATTAAGGTA
64 CACGTTGAGGTA
* *
6463858 TTTTCAATTTCTG--TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGT
1 TTTTCAATTTCTGCTTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGG-
* *
6463921 CACACGCTGAGGTA
62 GACACGTTGAGGTA
*
6463935 TTTTCAATTTTTTGC-TTTTTCAAAAGATCAACTCATAATT-CGAGAGGTGAGTTGA
1 TTTTCAA-TTTCTGCTTTTTTCAAAA-ATCAACTCAT-ATTGCGAGAGGTGAGTTGA
6463990 ACTTCGGGTC
Statistics
Matches: 169, Mismatches: 27, Indels: 19
0.79 0.13 0.09
Matches are distributed among these distances:
73 10 0.06
74 4 0.02
75 41 0.24
76 56 0.33
77 21 0.12
78 29 0.17
79 8 0.05
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGACA
CGTTGAGGTA
Found at i:6463970 original size:153 final size:149
Alignment explanation
Indices: 6463709--6463989 Score: 352
Period size: 153 Copynumber: 1.9 Consensus size: 149
6463699 CGATTTCCGT
* * * * *
6463709 TTTTCAATTTATGTTTTTCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACG
1 TTTTCAATTTATGTCTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTAGGCACACG
* *
6463774 TTGAGGTAATTTCAATTCCTGCTTTTTTTAAAAAGTCAACTCAT-ATTGCGAGAAATGAGTTGAG
66 CTGAGGTAATTTCAATTCCTGCTTTTTTCAAAAAGTCAACTCATAATT-CGAGAAATGAGTTGAG
6463838 CCTCAAGACACATTAAGGTA
130 CCTCAAGACACATTAAGGTA
* *
6463858 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTATGTCTTTC--AAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCT-AGG-CA
* ** **
6463923 CACGCTGAGGTATTTTCAATTTTTTGC-TTTTTC-AAAAGATCAACTCATAATTCGAGAGGTGAG
62 CACGCTGAGGTAATTTCAA-TTCCTGCTTTTTTCAAAAAG-TCAACTCATAATTCGAGAAATGAG
6463986 TTGA
125 TTGA
6463990 ACTTCGGGTC
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
149 17 0.15
151 34 0.31
152 7 0.06
153 45 0.41
154 8 0.07
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (149 bp):
TTTTCAATTTATGTCTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTAGGCACACG
CTGAGGTAATTTCAATTCCTGCTTTTTTCAAAAAGTCAACTCATAATTCGAGAAATGAGTTGAGC
CTCAAGACACATTAAGGTA
Found at i:6464015 original size:78 final size:78
Alignment explanation
Indices: 6463803--6464025 Score: 199
Period size: 78 Copynumber: 2.9 Consensus size: 78
6463793 TGCTTTTTTT
* ** * * **** *
6463803 AAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACATTAAGGTATTTTCAA-
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
*
6463865 TTTCTGTCTTTCA
66 TTTTTGTCTTTCA
* *
6463878 AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
*
6463943 TTTTTGCTTTTTC-
66 TTTTTG-TCTTTCA
* * * *
6463956 AAAAGATCAACTCATAATT-CGAGAGGTGAGTTGAA-CTTCGGGTCGCATC-CCGAGCTATTTTC
1 AAAAAATCAACTCAT-ATTGCGAGAGGTGAGTT-AAGCCTCAGGTCACA-CGCCGAGCTATTTTC
6464018 AATTTTTT
63 AATTTTTT
6464026 TTTGTTTTTC
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
75 37 0.30
77 17 0.14
78 60 0.48
79 11 0.09
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (78 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
TTTTTGTCTTTCA
Found at i:6464230 original size:30 final size:30
Alignment explanation
Indices: 6464196--6464315 Score: 131
Period size: 30 Copynumber: 4.1 Consensus size: 30
6464186 AAAAAAATAA
6464196 AAATTTCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTTGACCCCTAAACTTTTCCT
* * *
6464226 AAATTTCATTTTAACCCTTAAAC-TTTCTAT
1 AAATTTCATTTTGACCCCTAAACTTTTC-CT
* * *
6464256 AAATTTTATTTAGACCCCTAAACTTTTCTT
1 AAATTTCATTTTGACCCCTAAACTTTTCCT
* *
6464286 AAATTGCATTTT-AACCCTAAA-TTTT-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCCT
6464313 AAA
1 AAA
6464316 AATTACATTT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
27 4 0.05
28 4 0.05
29 12 0.16
30 51 0.68
31 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTTCCT
Found at i:6464260 original size:60 final size:59
Alignment explanation
Indices: 6464193--6464331 Score: 199
Period size: 60 Copynumber: 2.4 Consensus size: 59
6464183 TAAAAAAAAA
* *
6464193 TAAAAATTTCATTTTGACCCCTAAACTTTTCCTAAATTTCATTTTAACCCTTAAACTTTC
1 TAAAAATTTCATTTAGACCCCTAAACTTTTCCTAAATTGCATTTTAACCC-TAAACTTTC
* * * *
6464253 TATAAATTTTATTTAGACCCCTAAACTTTTCTTAAATTGCATTTTAACCCTAAATTTTC
1 TAAAAATTTCATTTAGACCCCTAAACTTTTCCTAAATTGCATTTTAACCCTAAACTTTC
*
6464312 TAAAAATTACATTTAG-CCCC
1 TAAAAATTTCATTTAGACCCC
6464332 AGAAGTTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
58 4 0.06
59 21 0.30
60 45 0.64
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (59 bp):
TAAAAATTTCATTTAGACCCCTAAACTTTTCCTAAATTGCATTTTAACCCTAAACTTTC
Found at i:6464547 original size:13 final size:14
Alignment explanation
Indices: 6464536--6464587 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 14
6464526 GAGAAAAAAG
6464536 AGCAAAAAAAAATC
1 AGCAAAAAAAAATC
**
6464550 AGCAAAAAAATTTTCC
1 AGCAAAAAAA-AAT-C
6464566 AGCAAAAAAAAA-C
1 AGCAAAAAAAAATC
*
6464579 AACAAAAAA
1 AGCAAAAAA
6464588 GGAACATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.29
14 10 0.32
15 1 0.03
16 11 0.35
ACGTcount: A:0.69, C:0.15, G:0.06, T:0.10
Consensus pattern (14 bp):
AGCAAAAAAAAATC
Found at i:6467409 original size:26 final size:26
Alignment explanation
Indices: 6467360--6467419 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
6467350 AGAAAATGTT
* * *
6467360 ATAATAATAATAGTAATAATACAATG
1 ATAATAATAATAATAAAAAAACAATG
* *
6467386 ATAATGATAATAATAAAAAAACAATT
1 ATAATAATAATAATAAAAAAACAATG
6467412 ATTAATAA
1 A-TAATAA
6467420 CATTACATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (26 bp):
ATAATAATAATAATAAAAAAACAATG
Found at i:6467518 original size:18 final size:20
Alignment explanation
Indices: 6467491--6467543 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
6467481 GTACATGATT
6467491 TATATAAAAA-AT-ACATAA
1 TATATAAAAATATAACATAA
*
6467509 TATATTAAAATATAGACATAA
1 TATATAAAAATATA-ACATAA
* *
6467530 TATACATAAATATA
1 TATATAAAAATATA
6467544 TATATAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
21 17 0.61
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (20 bp):
TATATAAAAATATAACATAA
Found at i:6467540 original size:21 final size:21
Alignment explanation
Indices: 6467503--6467545 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6467493 TATAAAAAAT
*
6467503 ACATAATATATTAAAATATAG
1 ACATAATATAATAAAATATAG
6467524 ACATAATATACATAAATATATA
1 ACATAATATA-ATAAA-ATATA
6467546 TATAATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATAATATAATAAAATATAG
Found at i:6477365 original size:32 final size:32
Alignment explanation
Indices: 6477302--6477365 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
6477292 ATAATGCATG
6477302 ATACTTAATATATACATACAAAGATAATAATA
1 ATACTTAATATATACATACAAAGATAATAATA
* * *
6477334 ATACATTAATATATATA-AGAATGATAATAATA
1 ATAC-TTAATATATACATACAAAGATAATAATA
6477366 TATATATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (32 bp):
ATACTTAATATATACATACAAAGATAATAATA
Found at i:6477471 original size:30 final size:28
Alignment explanation
Indices: 6477435--6477505 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
6477425 TGGTATTTAA
6477435 ATAATAAAAAATATAAAAGAATTAAT-ATAT
1 ATAATAAAAAATAT-AAA-AA-TAATAATAT
6477465 ATAATAAAATAAT-TAAAAATAATAATAT
1 ATAATAAAA-AATATAAAAATAATAATAT
*
6477493 AGAATAAAAAATA
1 ATAATAAAAAATA
6477506 ATACATAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
27 7 0.19
28 14 0.38
29 3 0.08
30 10 0.27
31 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
ATAATAAAAAATATAAAAATAATAATAT
Found at i:6477507 original size:17 final size:17
Alignment explanation
Indices: 6477480--6477523 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
6477470 AAAATAATTA
*
6477480 AAAATAATAATATAGAAT
1 AAAA-AATAATACAGAAT
*
6477498 AAAAAATAATACATAAT
1 AAAAAATAATACAGAAT
6477515 AAAAAATAA
1 AAAAAATAA
6477524 GTAATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAAATAATACAGAAT
Found at i:6477514 original size:45 final size:44
Alignment explanation
Indices: 6477465--6477563 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 44
6477455 ATTAATATAT
6477465 ATAATAAAATAATTAA-AAATAATAATATAGAATAAA-AAATAATAC
1 ATAATAAAATAA-TAAGAAATAATAATAT--AATAAACAAATAATAC
* *
6477510 ATAATAAAA-AATAAGTAATTAATAATATAATAAACATATAATAC
1 ATAATAAAATAATAAG-AAATAATAATATAATAAACAAATAATAC
*
6477554 A-AATATAATA
1 ATAATAAAATA
6477564 TTTTAATAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
43 15 0.32
44 12 0.26
45 20 0.43
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (44 bp):
ATAATAAAATAATAAGAAATAATAATATAATAAACAAATAATAC
Found at i:6477516 original size:30 final size:28
Alignment explanation
Indices: 6477437--6477508 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
6477427 GTATTTAAAT
*
6477437 AATAAAAAAT-ATAAAAGAATTAATATA
1 AATAAAAAATAATAAAATAATTAATATA
*
6477464 TATAATAAAATAATTAAAAATAA-TAATATA
1 AATAA-AAAATAA-T-AAAATAATTAATATA
6477494 GAATAAAAAATAATA
1 -AATAAAAAATAATA
6477509 CATAATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 4 0.11
28 6 0.16
29 2 0.05
30 15 0.41
31 10 0.27
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
AATAAAAAATAATAAAATAATTAATATA
Found at i:6477600 original size:7 final size:7
Alignment explanation
Indices: 6477582--6477845 Score: 79
Period size: 7 Copynumber: 36.9 Consensus size: 7
6477572 ATAATTTCAA
6477582 AATATAT
1 AATATAT
6477589 AATA-AT
1 AATATAT
*
6477595 -ATATAA
1 AATATAT
*
6477601 AATAAAT
1 AATATAT
6477608 AAT-T-T
1 AATATAT
6477613 ACATAGTA-
1 A-ATA-TAT
*
6477621 AATAAAAT
1 AAT-ATAT
6477629 AATTATAT
1 AA-TATAT
6477637 AATATAT
1 AATATAT
*
6477644 AATATAA
1 AATATAT
6477651 AAGTATAT
1 AA-TATAT
* * *
6477659 AGGTTTAA
1 A-ATATAT
*
6477667 AAT-TAC
1 AATATAT
6477673 AATA-AT
1 AATATAT
6477679 -ATATAT
1 AATATAT
*
6477685 AGTATAT
1 AATATAT
6477692 AA-ATAATT
1 AATAT-A-T
6477700 AAT-TAAT
1 AATAT-AT
*
6477707 AAAATAT
1 AATATAT
6477714 AATAGT-T
1 AATA-TAT
*
6477721 AAGGATAAT
1 AA-TAT-AT
6477730 AATATAT
1 AATATAT
6477737 -ATATAAT
1 AATAT-AT
*
6477744 AATATAA
1 AATATAT
6477751 AATA-AT
1 AATATAT
6477757 AATATATAT
1 -A-ATATAT
6477766 AAATATAT
1 -AATATAT
* *
6477774 GATAAAT
1 AATATAT
*
6477781 AATATGT
1 AATATAT
6477788 AATA-AT
1 AATATAT
6477794 AATATAT
1 AATATAT
*
6477801 AAAATAAAT
1 --AATATAT
*
6477810 AACATAT
1 AATATAT
*
6477817 AATAAAAT
1 AAT-ATAT
6477825 AATCATAT
1 AAT-ATAT
*
6477833 AACATAT
1 AATATAT
6477840 AATATA
1 AATATA
6477846 AGAAAATAAA
Statistics
Matches: 189, Mismatches: 37, Indels: 62
0.66 0.13 0.22
Matches are distributed among these distances:
5 8 0.04
6 25 0.13
7 88 0.47
8 54 0.29
9 14 0.07
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (7 bp):
AATATAT
Found at i:6477698 original size:20 final size:20
Alignment explanation
Indices: 6477583--6477698 Score: 53
Period size: 20 Copynumber: 5.5 Consensus size: 20
6477573 TAATTTCAAA
6477583 ATATATAATAATATATA-A--
1 ATATA-AATAATATATATAGT
* *
6477601 A-ATAAATAATTTACATAGT
1 ATATAAATAATATATATAGT
* *
6477620 AAATAAAATAAT-TATATAAT
1 ATAT-AAATAATATATATAGT
*
6477640 ATATAATATAAAAGTATATAGGTTT
1 ATATAA-ATAATA-TATATA-G--T
*
6477665 AAAATTACAATAATATATATAGT
1 -ATA-TA-AATAATATATATAGT
6477688 ATATAAATAAT
1 ATATAAATAAT
6477699 TAATTAATAA
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
16 9 0.12
17 4 0.05
18 1 0.01
19 3 0.04
20 21 0.28
21 9 0.12
22 8 0.11
23 1 0.01
25 2 0.03
26 8 0.11
27 7 0.09
28 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
ATATAAATAATATATATAGT
Found at i:6477740 original size:27 final size:27
Alignment explanation
Indices: 6477673--6477881 Score: 113
Period size: 27 Copynumber: 8.0 Consensus size: 27
6477663 TTAAAATTAC
*
6477673 AATAATATATATAGTATATAA-AT-AATT
1 AATAATATATATA-TA-ATAATATAAAAT
* * *
6477700 AATTAATA-AAATATAATAGT-TAAGGAT
1 AA-TAATATATATATAATAATATAA-AAT
6477727 AATAATATATATATAATAATATAAAAT
1 AATAATATATATATAATAATATAAAAT
* *
6477754 AATAATATATATA-AAT-ATATGATA-
1 AATAATATATATATAATAATATAAAAT
* *
6477778 AATAATATGTA-ATAATAATATATAA-
1 AATAATATATATATAATAATATAAAAT
* * *
6477803 AATAA-ATAACATATAATAAAATAATCAT
1 AATAATAT-ATATATAATAATATAA-AAT
* * *
6477831 -ATAACATATAATATAAGAAAATAAAAT
1 AATAATATAT-ATATAATAATATAAAAT
*
6477858 AAATAAT-TATA-AAAATAA-ATAAAA
1 -AATAATATATATATAATAATATAAAA
6477882 CATAGGGCTA
Statistics
Matches: 142, Mismatches: 24, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
23 1 0.01
24 15 0.11
25 27 0.19
26 26 0.18
27 43 0.30
28 26 0.18
29 4 0.03
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (27 bp):
AATAATATATATATAATAATATAAAAT
Found at i:6477771 original size:37 final size:34
Alignment explanation
Indices: 6477725--6477880 Score: 117
Period size: 37 Copynumber: 4.4 Consensus size: 34
6477715 ATAGTTAAGG
6477725 ATAATAATATATATATAATAATATAAAATAATAATAT
1 ATAA-AATATA-ATA-AATAATATAAAATAATAATAT
**
6477762 ATATAAATATATGATAAATAATATGTAATAATAATAT
1 ATA-AAATATA--ATAAATAATATAAAATAATAATAT
*
6477799 ATAAAATA-AATAACAT-ATAATAAAATAAT--CAT
1 ATAAAATATAATAA-ATAAT-ATAAAATAATAATAT
* * *
6477831 ATAACATATAATATAAGAAAATAAAATAAATAAT-T
1 ATAAAATATAATA-AATAATATAAAAT-AATAATAT
6477866 ATAAAA-ATAAATAAA
1 ATAAAATAT-AATAAA
6477881 ACATAGGGCT
Statistics
Matches: 97, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
32 9 0.09
33 18 0.19
34 19 0.20
35 11 0.11
36 5 0.05
37 31 0.32
38 4 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (34 bp):
ATAAAATATAATAAATAATATAAAATAATAATAT
Found at i:6479727 original size:87 final size:89
Alignment explanation
Indices: 6479623--6479784 Score: 222
Period size: 89 Copynumber: 1.8 Consensus size: 89
6479613 ACAATACAGA
* * * *
6479623 GATGTTAAATCATCTTGGATCTGC-TTCA-GCGTAAACA-CCTGAAGGTCAGATCTGCTATGTCT
1 GATGCTAAATCATCTTGGATCTGCTTTAATGCGAAAACATCC-AAAGGTCAGATCTGCTATGTCT
* *
6479685 TTGATTTGCTCCTTGTAAACACAAG
65 TCGATCTGCTCCTTGTAAACACAAG
* *
6479710 GATGCTAAATCATCTTGGATCTGCTTTAATGTGAAAACATCCAAATGTCAGATCTGCTATGTCTT
1 GATGCTAAATCATCTTGGATCTGCTTTAATGCGAAAACATCCAAAGGTCAGATCTGCTATGTCTT
6479775 CGATCTGCTC
66 CGATCTGCTC
6479785 TCCGTCGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 23 0.36
88 3 0.05
89 36 0.56
90 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (89 bp):
GATGCTAAATCATCTTGGATCTGCTTTAATGCGAAAACATCCAAAGGTCAGATCTGCTATGTCTT
CGATCTGCTCCTTGTAAACACAAG
Found at i:6479943 original size:44 final size:44
Alignment explanation
Indices: 6479829--6480451 Score: 356
Period size: 44 Copynumber: 14.2 Consensus size: 44
6479819 TTTAATTTGT
** *
6479829 TCTCTGACAATACAGAGAAACCAAACCTACTATCTTCGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGC
* * * *
6479873 TCCCTGTCTAATACAGAGATGCCAAATCTACTATCTTTGATCTG-
1 TCTCTGAC-AATACAGAGACGCCAAATCTACTATCTTCGATCTGC
*
6479917 TCTTCTGACAATACAGAGACGCCAAA--T-C-ATCTTAGAT-TCGC
1 TC-TCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCT-GC
* * * *
6479958 T-TCAG-CGTAA-ACACGTGAAAGCCAAATCTACTATGTCTTCAATCTGC
1 TCTCTGAC--AATACA-GAG-ACGCCAAATCTACTA--TCTTCGATCTGC
* ** * * *
6480005 TC-CTTGTCGAATACAGAGATACGAAATCTGCTATCTTCGATCTGT
1 TCTC-TGAC-AATACAGAGACGCCAAATCTACTATCTTCGATCTGC
6480050 TCTCTGACAATACAGAGACGCCAAATC-ATCTATCTTCGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTA-CTATCTTCGATCTGC
* *
6480094 TCTCTGACAATACAGAGACGCCAAA--T-C-ATCTTAGATTTGC
1 TCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGC
* * * *
6480134 T-T-TAACGTAA-ACACGTGAAAGCCAAATCAGTTA-TGTCTTCGATCTGC
1 TCTCTGAC--AATACA-GAG-ACGCCAAATC---TACTATCTTCGATCTGC
* * * *
6480181 T-TCCTGTCGAATACAAAGACGCCAAATCT-GTCATCTTCGATTTGC
1 TCT-CTGAC-AATACAGAGACGCCAAATCTACT-ATCTTCGATCTGC
*
6480226 TCTCTGACAATACAGAGACGCCAAATCTACTAT-ATCTGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTACTATCTTC-GATCTGC
* * *
6480270 TCTCTGACAATACAGAGACGCCGAATCTACTAT-TTGGATTTGC
1 TCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGC
* * *
6480313 TC-CTCGTCGAATAC-GAAGATGCCAAA--T-C-ATCTTGGA-CTTGC
1 TCTCT-GAC-AATACAG-AGACGCCAAATCTACTATCTTCGATC-TGC
* * * * *
6480354 TCCCTGACCATACAGAGATGCCAAAT-TCACTATCCTCGATTTGC
1 TCTCTGACAATACAGAGACGCCAAATCT-ACTATCTTCGATCTGC
* * * * *
6480398 TTTCTGACAATACAGAGACGCTAAATCTGA-TGTCTTTGATTTGC
1 TCTCTGACAATACAGAGACGCCAAATCT-ACTATCTTCGATCTGC
6480442 TCTCTGACAA
1 TCTCTGACAA
6480452 AATAGAGATG
Statistics
Matches: 451, Mismatches: 74, Indels: 108
0.71 0.12 0.17
Matches are distributed among these distances:
38 4 0.01
39 11 0.02
40 45 0.10
41 32 0.07
42 6 0.01
43 15 0.03
44 205 0.45
45 70 0.16
46 3 0.01
47 42 0.09
48 9 0.02
49 9 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
TCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGC
Found at i:6480145 original size:176 final size:176
Alignment explanation
Indices: 6479837--6480296 Score: 635
Period size: 176 Copynumber: 2.6 Consensus size: 176
6479827 GTTCTCTGAC
* * * * *
6479837 AATACAGAGAAACCAAACCTACTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCT
1 AATACAGAGAAACCAAATCTGCTATCTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCT
* *
6479902 ACTATCTTTGATCTG-TCTTCTGACAATACAGAGACGCCAAATCATCTTAGATTCGCTTCAGCGT
65 ACTATCTTCGATCTGCTC-TCTGACAATACAGAGACGCCAAATCATCTTAGATTCGCTTCAACGT
6479966 AAACACGTGAAAGCCAAATCTA-CTATGTCTTCAATCTGC-TCCTTGTCG
129 AAACACGTGAAAGCCAAATC-AGCTATGTCTTCAATCTGCTTCC-TGTCG
* * *
6480014 AATACAGAGATACGAAATCTGCTATCTTCGATCTGTTCTCTGACAATACAGAGACGCCAAATC-A
1 AATACAGAGAAACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTA
* *
6480078 TCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTTAACGTA
66 -CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTCGCTTCAACGTA
* *
6480143 AACACGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTTCCTGTCG
130 AACACGTGAAAGCCAAATCAGCTATGTCTTCAATCTGCTTCCTGTCG
* ** *
6480190 AATACAAAGACGCCAAATCTG-TCATCTTCGATTTGCTCTCTGACAATACAGAGACGCCAAATCT
1 AATACAGAGAAACCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* *
6480254 ACTAT-ATCTGATCTGCTCTCTGACAATACAGAGACGCCGAATC
65 ACTATCTTC-GATCTGCTCTCTGACAATACAGAGACGCCAAATC
6480297 TACTATTTGG
Statistics
Matches: 254, Mismatches: 22, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
175 5 0.02
176 206 0.81
177 43 0.17
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (176 bp):
AATACAGAGAAACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTA
CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTCGCTTCAACGTAA
ACACGTGAAAGCCAAATCAGCTATGTCTTCAATCTGCTTCCTGTCG
Found at i:6480461 original size:128 final size:128
Alignment explanation
Indices: 6480211--6480476 Score: 292
Period size: 128 Copynumber: 2.1 Consensus size: 128
6480201 GCCAAATCTG
* * *
6480211 TCATCTTCGATTTGCTCTCTGACAATACAGAGACGCCAAATCTACTATATCTGATCTGCTCTCTG
1 TCATCTTGGACTTGCTCCCTGACAATACAGAGACGCCAAATCTACTATATCTGATCTGCTCTCTG
* * *
6480276 ACAATACAGAGACGCCGAATCTACTATTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAA
66 ACAATACAGAGACGCCAAATCTACTATTTGGATTTGCTCCTCGACAAATACGAAGATGCCAAA
* * * * *
6480339 TCATCTTGGACTTGCTCCCTGACCATACAGAGATGCCAAAT-TCACTAT-CCTCGATTTGCTTTC
1 TCATCTTGGACTTGCTCCCTGACAATACAGAGACGCCAAATCT-ACTATATCT-GATCTGCTCTC
* * * *
6480402 TGACAATACAGAGACGCTAAATCTGA-TGTCTTTGATTTGCT-CTCTGACAAAATA-G-AGATGT
64 TGACAATACAGAGACGCCAAATCT-ACTAT-TTGGATTTGCTCCTC-GAC-AAATACGAAGATGC
*
6480463 CAAG
125 CAAA
6480467 TCATCTTGGA
1 TCATCTTGGA
6480477 TCTGCTTCAG
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
127 3 0.03
128 95 0.82
129 14 0.12
130 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (128 bp):
TCATCTTGGACTTGCTCCCTGACAATACAGAGACGCCAAATCTACTATATCTGATCTGCTCTCTG
ACAATACAGAGACGCCAAATCTACTATTTGGATTTGCTCCTCGACAAATACGAAGATGCCAAA
Found at i:6488592 original size:14 final size:16
Alignment explanation
Indices: 6488557--6488593 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6488547 CAAACGATGC
6488557 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
6488572 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
6488587 -ATGCAAA
1 GATGCAAA
6488594 AAGGACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:6492317 original size:32 final size:32
Alignment explanation
Indices: 6492254--6492317 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
6492244 ATAATGCATG
6492254 ATACTTAATATATACATACAAAGATAATAATA
1 ATACTTAATATATACATACAAAGATAATAATA
* * *
6492286 ATACATTAATATATATA-AGAATGATAATAATA
1 ATAC-TTAATATATACATACAAAGATAATAATA
6492318 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (32 bp):
ATACTTAATATATACATACAAAGATAATAATA
Found at i:6492425 original size:30 final size:28
Alignment explanation
Indices: 6492389--6492459 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
6492379 TGGTATTTAA
6492389 ATAATAAAAAATATAAAAGAATTAAT-ATAT
1 ATAATAAAAAATAT-AAA-AA-TAATAATAT
6492419 ATAATAAAATAAT-TAAAAATAATAATAT
1 ATAATAAAA-AATATAAAAATAATAATAT
*
6492447 AGAATAAAAAATA
1 ATAATAAAAAATA
6492460 ATACATAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
27 7 0.19
28 14 0.38
29 3 0.08
30 10 0.27
31 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
ATAATAAAAAATATAAAAATAATAATAT
Found at i:6492430 original size:38 final size:37
Alignment explanation
Indices: 6492387--6492516 Score: 112
Period size: 38 Copynumber: 3.5 Consensus size: 37
6492377 TTTGGTATTT
6492387 AAATAATAAAAAATATAAAAGAATTAATATATATAATA
1 AAATAATAAAAAATATAAAAGAATTAATA-ATATAATA
* *
6492425 AAATAATTAAAAATAATAATATAGAA-TAA-AAAATAAT-
1 AAATAATAAAAAAT-ATAA-A-AGAATTAATAATATAATA
*
6492462 ACATAATAAAAAA-AT--AAGTAATTAATAATATAATA
1 AAATAATAAAAAATATAAAAG-AATTAATAATATAATA
6492497 AACAT-ATAATACAAATATAA
1 AA-ATAATAA-A-AAATATAA
6492517 TATTTTAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
31 2 0.03
32 3 0.04
33 3 0.04
34 7 0.10
35 7 0.10
36 3 0.04
37 14 0.19
38 21 0.29
39 5 0.07
40 4 0.05
41 4 0.05
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (37 bp):
AAATAATAAAAAATATAAAAGAATTAATAATATAATA
Found at i:6492461 original size:17 final size:17
Alignment explanation
Indices: 6492434--6492474 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6492424 AAAATAATTA
*
6492434 AAAATAATAATATAGAAT
1 AAAA-AATAATACAGAAT
*
6492452 AAAAAATAATACATAAT
1 AAAAAATAATACAGAAT
6492469 AAAAAA
1 AAAAAA
6492475 ATAAGTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAAATAATACAGAAT
Found at i:6492470 original size:30 final size:28
Alignment explanation
Indices: 6492391--6492462 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
6492381 GTATTTAAAT
*
6492391 AATAAAAAAT-ATAAAAGAATTAATATA
1 AATAAAAAATAATAAAATAATTAATATA
*
6492418 TATAATAAAATAATTAAAAATAA-TAATATA
1 AATAA-AAAATAA-T-AAAATAATTAATATA
6492448 GAATAAAAAATAATA
1 -AATAAAAAATAATA
6492463 CATAATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 4 0.11
28 6 0.16
29 2 0.05
30 15 0.41
31 10 0.27
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
AATAAAAAATAATAAAATAATTAATATA
Found at i:6492489 original size:19 final size:18
Alignment explanation
Indices: 6492427--6492478 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
6492417 ATATAATAAA
*
6492427 ATAATTAAAAATAATAATAT
1 ATAA-TAAAAA-AATAATAC
*
6492447 AGAAT-AAAAAATAATAC
1 ATAATAAAAAAATAATAC
6492464 ATAATAAAAAAATAA
1 ATAATAAAAAAATAA
6492479 GTAATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 11 0.39
18 13 0.46
19 1 0.04
20 3 0.11
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAATAAAAAAATAATAC
Found at i:6492555 original size:7 final size:7
Alignment explanation
Indices: 6492537--6492803 Score: 80
Period size: 7 Copynumber: 37.9 Consensus size: 7
6492527 ATAATTTCAA
6492537 AATATAT
1 AATATAT
6492544 AATA-AT
1 AATATAT
*
6492550 -ATATAA
1 AATATAT
*
6492556 AATAAAT
1 AATATAT
6492563 AAT-T-T
1 AATATAT
6492568 ACATAGTA-
1 A-ATA-TAT
*
6492576 AATAAAAT
1 AAT-ATAT
6492584 AATTATAT
1 AA-TATAT
6492592 AATATAT
1 AATATAT
*
6492599 AATATAA
1 AATATAT
6492606 AAGTATAT
1 AA-TATAT
* * *
6492614 AGGTTTAA
1 A-ATATAT
*
6492622 AAT-TAC
1 AATATAT
6492628 AATA-AT
1 AATATAT
6492634 -ATATAT
1 AATATAT
*
6492640 AGTATAT
1 AATATAT
6492647 AA-ATAATT
1 AATAT-A-T
6492655 AAT-TAAT
1 AATAT-AT
*
6492662 AAAATAT
1 AATATAT
6492669 AATAGT-T
1 AATA-TAT
*
6492676 AAGGATAAT
1 AA-TAT-AT
6492685 AATATAT
1 AATATAT
*
6492692 -ATAAAT
1 AATATAT
6492698 AATAATAT
1 AAT-ATAT
6492706 AA-A-AT
1 AATATAT
6492711 AATA-AT
1 AATATAT
*
6492717 ATATATAA
1 A-ATATAT
6492725 AATATAT
1 AATATAT
* *
6492732 GATAAAT
1 AATATAT
*
6492739 AATATGT
1 AATATAT
6492746 AATA-AT
1 AATATAT
6492752 AATATAT
1 AATATAT
*
6492759 AAAATAAAT
1 --AATATAT
*
6492768 AACATAT
1 AATATAT
*
6492775 AATAAAAT
1 AAT-ATAT
6492783 AATCATAT
1 AAT-ATAT
*
6492791 AACATAT
1 AATATAT
6492798 AATATA
1 AATATA
6492804 AGAAAATAAA
Statistics
Matches: 190, Mismatches: 39, Indels: 62
0.65 0.13 0.21
Matches are distributed among these distances:
5 12 0.06
6 30 0.16
7 90 0.47
8 48 0.25
9 10 0.05
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (7 bp):
AATATAT
Found at i:6492565 original size:16 final size:16
Alignment explanation
Indices: 6492391--6492837 Score: 89
Period size: 16 Copynumber: 26.6 Consensus size: 16
6492381 GTATTTAAAT
6492391 AATAAA-AA-ATATAA
1 AATAAATAATATATAA
* * *
6492405 AAGAATTAATATATAT
1 AATAAATAATATATAA
6492421 AATAAAATAAT-TA-AA
1 AAT-AAATAATATATAA
*
6492436 AAT-AATAATATAGAA
1 AATAAATAATATATAA
*
6492451 TAAAAAATAATACATAATAA
1 -AATAAATAAT--AT-ATAA
6492471 AA-AAATAAGTA-ATTAA
1 AATAAATAA-TATA-TAA
*
6492487 TAATATAATAAACATATAA
1 -AATA-AAT-AATATATAA
**
6492506 TACA-AATATAATAT-TTT
1 -A-ATAA-ATAATATATAA
*
6492523 AAT-AATAATTTCA-AA
1 AATAAATAATAT-ATAA
6492538 ATATATAATAATATATAA
1 A-ATA-AATAATATATAA
*
6492556 AATAAATAATTTACATAGTA
1 AATAAATAA--TATATA--A
*
6492576 AATAAAATAAT-TATAT
1 AAT-AAATAATATATAA
*
6492592 AATATATAATATA-AA
1 AATAAATAATATATAA
* * *
6492607 AGTATATAGGT-T-TAA
1 AATAAATA-ATATATAA
6492622 AATTACAATAATATATATA
1 AA-TA-AATAATATATA-A
6492641 GTATATAAATAAT-TAATTAA
1 --A-ATAAATAATAT-A-TAA
6492661 TAA-AATATAATAGT-TAA
1 -AATAA-ATAATA-TATAA
*
6492678 GGATA-ATAATATATATA
1 -AATAAATAATATATA-A
*
6492695 AAT-AATAATATAAAA
1 AATAAATAATATATAA
6492710 TAAT-AAT-ATATATAA
1 -AATAAATAATATATAA
**
6492725 AATATATGATAAATAATATGT
1 AATA-A--AT-AAT-ATATAA
6492746 AAT-AATAATATATAA
1 AATAAATAATATATAA
*
6492761 AATAAATAACATATAA
1 AATAAATAATATATAA
*
6492777 TA-AAATAATCATATAA
1 AATAAATAAT-ATATAA
* *
6492793 CATATAATATAAGAAAATAA
1 -A-ATAA-ATAA-TATATAA
6492813 AATAAATAAT-TATAAA
1 AATAAATAATATAT-AA
6492829 AATAAATAA
1 AATAAATAA
6492838 AACATAGGGC
Statistics
Matches: 323, Mismatches: 43, Indels: 132
0.65 0.09 0.27
Matches are distributed among these distances:
13 6 0.02
14 15 0.05
15 54 0.17
16 89 0.28
17 37 0.11
18 46 0.14
19 26 0.08
20 31 0.10
21 18 0.06
22 1 0.00
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (16 bp):
AATAAATAATATATAA
Found at i:6492653 original size:20 final size:20
Alignment explanation
Indices: 6492538--6492653 Score: 53
Period size: 20 Copynumber: 5.5 Consensus size: 20
6492528 TAATTTCAAA
6492538 ATATATAATAATATATA-A--
1 ATATA-AATAATATATATAGT
* *
6492556 A-ATAAATAATTTACATAGT
1 ATATAAATAATATATATAGT
* *
6492575 AAATAAAATAAT-TATATAAT
1 ATAT-AAATAATATATATAGT
*
6492595 ATATAATATAAAAGTATATAGGTTT
1 ATATAA-ATAATA-TATATA-G--T
*
6492620 AAAATTACAATAATATATATAGT
1 -ATA-TA-AATAATATATATAGT
6492643 ATATAAATAAT
1 ATATAAATAAT
6492654 TAATTAATAA
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
16 9 0.12
17 4 0.05
18 1 0.01
19 3 0.04
20 21 0.28
21 9 0.12
22 8 0.11
23 1 0.01
25 2 0.03
26 8 0.11
27 7 0.09
28 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
ATATAAATAATATATATAGT
Found at i:6492712 original size:29 final size:27
Alignment explanation
Indices: 6492399--6492803 Score: 122
Period size: 27 Copynumber: 14.7 Consensus size: 27
6492389 ATAATAAAAA
* *
6492399 ATATAAAAGAATTAATATATATAATAAA
1 ATATAAAATAA-TAATATATATAATAAT
* *
6492427 ATAATTAAA-AATAATA-ATAT-AGAAT
1 AT-ATAAAATAATAATATATATAATAAT
* *
6492452 A-A-AAAATAATACATA-ATAAAAAAAT
1 ATATAAAATAATA-ATATATATAATAAT
*
6492477 A-AGT-AATTAATAATATA-ATAA-ACAT
1 ATA-TAAAATAATAATATATATAATA-AT
*
6492502 ATAATACAAAT-ATAATAT-TTTAATAAT
1 AT-ATA-AAATAATAATATATATAATAAT
*
6492529 AATTTCAAAATATATAATAATATATAA-AAT
1 -ATAT-AAAATA-ATAAT-ATATATAATAAT
* ** * * *
6492559 AAATAATTTACATAGTAAATAAAATAAT
1 ATATAAAATA-ATAATATATATAATAAT
*
6492587 -TATATAATATATAATATA-A-AAGTATAT
1 ATATAAAATA-ATAATATATATAA-TA-AT
* *
6492614 AGGTTTAAAATTACAATAATATATATAGT-AT
1 A--TATAAAA-T--AATAATATATATAATAAT
*
6492645 ATA-AATAATTAATTAATA-AAAT-ATAAT
1 ATATAA-AA-TAA-TAATATATATAATAAT
*
6492672 AGT-TAAGGATAATAATATATATAAATAAT
1 A-TATAA-AATAATAATATATAT-AATAAT
6492701 AATATAAAATAATAATATATATAA-AAT
1 -ATATAAAATAATAATATATATAATAAT
*
6492728 ATATGATAAATAAT-ATGTA-ATAATAAT
1 ATAT-A-AAATAATAATATATATAATAAT
*
6492755 ATATAAAATAAATAACATATAATAAAATAAT
1 ATATAAAAT-AAT-A-ATAT-ATATAATAAT
*
6492786 CATATAACAT-ATAATATA
1 -ATATAAAATAATAATATA
6492804 AGAAAATAAA
Statistics
Matches: 285, Mismatches: 41, Indels: 103
0.66 0.10 0.24
Matches are distributed among these distances:
22 3 0.01
23 5 0.02
24 7 0.02
25 25 0.09
26 34 0.12
27 72 0.25
28 46 0.16
29 41 0.14
30 17 0.06
31 15 0.05
32 16 0.06
33 3 0.01
34 1 0.00
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (27 bp):
ATATAAAATAATAATATATATAATAAT
Found at i:6492768 original size:13 final size:13
Alignment explanation
Indices: 6492682--6492765 Score: 86
Period size: 13 Copynumber: 6.4 Consensus size: 13
6492672 AGTTAAGGAT
6492682 AATAATATATATA
1 AATAATATATATA
6492695 AATAATA-ATATAA
1 AATAATATATAT-A
6492708 AATAATAATATATA
1 AATAAT-ATATATA
6492722 TAA-AATATATGATA
1 -AATAATATAT-ATA
*
6492736 AATAATATGTA-A
1 AATAATATATATA
6492748 TAATAATATATA-A
1 -AATAATATATATA
6492761 AATAA
1 AATAA
6492766 ATAACATATA
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
12 10 0.16
13 32 0.52
14 14 0.23
15 6 0.10
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
AATAATATATATA
Found at i:6492835 original size:25 final size:25
Alignment explanation
Indices: 6492691--6492839 Score: 67
Period size: 27 Copynumber: 5.7 Consensus size: 25
6492681 TAATAATATA
6492691 TATAAATAATAATATAAAAT-AATAAT
1 TATAAA-AATAA-ATAAAATAAATAAT
*
6492717 ATATATAAAATATATGATAAAT-AAT-AT
1 -TATA-AAAATAAAT-A-AAATAAATAAT
* * *
6492744 GTAATAATAATATATAAAATAAATAACA
1 -T-ATAAAAATAAATAAAATAAATAA-T
* *
6492772 TATAATAAA-ATAATCATATAACAT-AT
1 TATAA-AAATA-AATAAAATAA-ATAAT
* *
6492798 AATATAAGA-AAATAAAATAAATAAT
1 TATA-AAAATAAATAAAATAAATAAT
6492823 TATAAAAATAAATAAAA
1 TATAAAAATAAATAAAA
6492840 CATAGGGCTA
Statistics
Matches: 94, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
24 5 0.05
25 25 0.27
26 17 0.18
27 33 0.35
28 14 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
TATAAAAATAAATAAAATAAATAAT
Found at i:6493524 original size:13 final size:13
Alignment explanation
Indices: 6493506--6493530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6493496 GATTGCTTGC
6493506 AATAAAATAAAAA
1 AATAAAATAAAAA
6493519 AATAAAATAAAA
1 AATAAAATAAAA
6493531 GTAGAAAGAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:6493701 original size:28 final size:28
Alignment explanation
Indices: 6493670--6493730 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
6493660 TCTTTGCGTG
* *
6493670 TGTAAGTGTGTAAATCTCTGCCTATGTA
1 TGTAAGTGTGTAAATCCCTACCTATGTA
*
6493698 TGTAAGTGTGTAAATCCCTACCTATGTG
1 TGTAAGTGTGTAAATCCCTACCTATGTA
6493726 TGTAA
1 TGTAA
6493731 AAAACGTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (28 bp):
TGTAAGTGTGTAAATCCCTACCTATGTA
Found at i:6493750 original size:28 final size:28
Alignment explanation
Indices: 6493719--6493773 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
6493709 AAATCCCTAC
6493719 CTATGTGTGTAAAAAACGTAAGTCTCCT
1 CTATGTGTGTAAAAAACGTAAGTCTCCT
6493747 CTATGTGTGTAAAAAACGTAAGTCTCC
1 CTATGTGTGTAAAAAACGTAAGTCTCC
6493774 CCCCCTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (28 bp):
CTATGTGTGTAAAAAACGTAAGTCTCCT
Found at i:6494289 original size:17 final size:17
Alignment explanation
Indices: 6494267--6494300 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6494257 TTGTATAACG
6494267 AGTTTAAGTGTGGGTTT
1 AGTTTAAGTGTGGGTTT
*
6494284 AGTTTAAGTTTGGGTTT
1 AGTTTAAGTGTGGGTTT
6494301 GAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (17 bp):
AGTTTAAGTGTGGGTTT
Found at i:6495903 original size:29 final size:30
Alignment explanation
Indices: 6495871--6495947 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
6495861 GCAATGGTAT
*
6495871 ACATG-AACTTTAATTTGGTGCAATTATAC
1 ACATGAAACTTTAATTTGGTGCAAATATAC
* * * *
6495900 ACATGAAAGTCTAATTGTGGTTCAAATATAT
1 ACATGAAACTTTAATT-TGGTGCAAATATAC
*
6495931 ACTTGAAACTTTAATTT
1 ACATGAAACTTTAATTT
6495948 TTATTTAATC
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 5 0.13
30 9 0.24
31 24 0.63
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (30 bp):
ACATGAAACTTTAATTTGGTGCAAATATAC
Found at i:6496239 original size:23 final size:23
Alignment explanation
Indices: 6496213--6496258 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6496203 TTCATTTGAC
*
6496213 TTAATCAAACATGTTCACGAATA
1 TTAAACAAACATGTTCACGAATA
*
6496236 TTAAACGAACATGTTCACGAATA
1 TTAAACAAACATGTTCACGAATA
6496259 ATGTTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (23 bp):
TTAAACAAACATGTTCACGAATA
Found at i:6496818 original size:55 final size:57
Alignment explanation
Indices: 6496690--6496828 Score: 255
Period size: 55 Copynumber: 2.5 Consensus size: 57
6496680 AAAAAAAAAC
*
6496690 AAGTATGAAGCCTTGTAAAGTAGAAATCAGGAATAAGGGTTTTATATTCCTAAAAGA
1 AAGTATGAAGCCTTGTAAAGTAGAAATCAAGAATAAGGGTTTTATATTCCTAAAAGA
6496747 AAGTATGAAGCCTTGTAAAGTAGAAATCAAGAATAAGGG-TTT-TATTCCTAAAAGA
1 AAGTATGAAGCCTTGTAAAGTAGAAATCAAGAATAAGGGTTTTATATTCCTAAAAGA
6496802 AAGTATGAAGCCTTGTAAAGTAGAAAT
1 AAGTATGAAGCCTTGTAAAGTAGAAAT
6496829 GAGGATAATG
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
55 40 0.49
56 3 0.04
57 38 0.47
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (57 bp):
AAGTATGAAGCCTTGTAAAGTAGAAATCAAGAATAAGGGTTTTATATTCCTAAAAGA
Found at i:6496987 original size:40 final size:40
Alignment explanation
Indices: 6496939--6497021 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
6496929 GGCAAATAGT
* *
6496939 AAAACCAGCGTTGCCAAAGGGTCATT-ATCAAAATATTGCC
1 AAAACCAGCATTGCCAAAGGGTCATTGA-CAAAACATTGCC
* *
6496979 AAAACCAGCATTGCTAGAGGGTCATTGACAAAACATTGCC
1 AAAACCAGCATTGCCAAAGGGTCATTGACAAAACATTGCC
6497019 AAA
1 AAA
6497022 GTGCCATCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (40 bp):
AAAACCAGCATTGCCAAAGGGTCATTGACAAAACATTGCC
Found at i:6518474 original size:19 final size:19
Alignment explanation
Indices: 6518452--6518510 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
6518442 TGCACATACT
**
6518452 ATTCCACTAATCACACATG
1 ATTCCACTAATCACACACA
* *
6518471 ATTCCACTAATTAGACACA
1 ATTCCACTAATCACACACA
6518490 ATTCCACTAATCGA-ACACA
1 ATTCCACTAATC-ACACACA
6518509 AT
1 AT
6518511 CATAAAGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 33 0.97
20 1 0.03
ACGTcount: A:0.41, C:0.29, G:0.05, T:0.25
Consensus pattern (19 bp):
ATTCCACTAATCACACACA
Found at i:6528783 original size:30 final size:30
Alignment explanation
Indices: 6528749--6528815 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
6528739 ATGAAGGAAA
6528749 TGAATTGTTTTATTGATTAAATTAATAAAT
1 TGAATTGTTTTATTGATTAAATTAATAAAT
6528779 TGAATTGTTTTATTGATTAAATTAATAAAT
1 TGAATTGTTTTATTGATTAAATTAATAAAT
6528809 TGAATTG
1 TGAATTG
6528816 GGTGAAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (30 bp):
TGAATTGTTTTATTGATTAAATTAATAAAT
Found at i:6529316 original size:21 final size:21
Alignment explanation
Indices: 6529292--6529363 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
6529282 TTTTCTGAAA
6529292 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
6529313 TGAAA-G-GTACCATGGCAACATGAT
1 TGAAATGTGTA--A--G-ACCATGGT
6529337 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
6529359 TGAAA
1 TGAAA
6529364 GATACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 11 0.28
22 6 0.15
23 2 0.05
24 6 0.15
25 6 0.15
26 1 0.03
27 3 0.08
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:6529343 original size:46 final size:46
Alignment explanation
Indices: 6529291--6529544 Score: 315
Period size: 46 Copynumber: 5.6 Consensus size: 46
6529281 GTTTTCTGAA
** * *
6529291 ATGAAATGTGTAAGACCATGGTTGAAAGGTACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
6529337 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
6529383 ATGAAATGAATAAGACCATGGTT----G-TACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
6529424 GA-GAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACACGGC
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
6529470 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
6529516 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
6529545 CACTATGACA
Statistics
Matches: 184, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
41 37 0.20
42 2 0.01
45 2 0.01
46 143 0.78
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:6529442 original size:87 final size:87
Alignment explanation
Indices: 6529301--6529544 Score: 292
Period size: 87 Copynumber: 2.7 Consensus size: 87
6529291 ATGAAATGTG
* *
6529301 TAAGACCATGGTTGAAAGGTACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTT---A-GTACCATGGCAACATGACA-GAAATGAGTAAGACCATGGTTGAAAGA
** *
6529366 TACCATGGCAACGTGACATGAAATGAA
61 TACCATGGCAACACGACAGGAAATGAA
* *
6529393 TAAGACCATGGTT-GTACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATATC
1 TAAGACCATGGTTAGTACCATGGCAACATGAC-AGAAATGAGTAAGACCATGGTTGAAAGATACC
* *
6529457 ATGGCAACACGGCGGGAAATGAA
65 ATGGCAACACGACAGGAAATGAA
*
6529480 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTT---AG-TACCATGGCAACATGACAG-AAATGAGTAAGACCATGGTTGAAAGA
6529545 CACTATGACA
Statistics
Matches: 134, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
87 76 0.57
88 1 0.01
91 3 0.02
92 54 0.40
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.20
Consensus pattern (87 bp):
TAAGACCATGGTTAGTACCATGGCAACATGACAGAAATGAGTAAGACCATGGTTGAAAGATACCA
TGGCAACACGACAGGAAATGAA
Found at i:6530973 original size:20 final size:21
Alignment explanation
Indices: 6530950--6531005 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
6530940 AATACTACAT
6530950 AAATATGTACATAT-ATATTA
1 AAATATGTACATATAATATTA
**
6530970 AAATAAATACATAATAATATTA
1 AAATATGTACAT-ATAATATTA
6530992 AAAGTATGTACATA
1 AAA-TATGTACATA
6531006 AAAACATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.34
21 2 0.07
22 10 0.34
23 7 0.24
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATATGTACATATAATATTA
Found at i:6531097 original size:13 final size:12
Alignment explanation
Indices: 6531071--6531095 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6531061 TATACATGAT
6531071 ATAGTATTAAAA
1 ATAGTATTAAAA
6531083 ATAGTATTAAAA
1 ATAGTATTAAAA
6531095 A
1 A
6531096 ATGATATATA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAGTATTAAAA
Found at i:6531103 original size:49 final size:49
Alignment explanation
Indices: 6531010--6531103 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 49
6531000 TACATAAAAA
* * * *
6531010 CATATATATGATATAGTTATTGAAAATATGTACATAATGCATATAACGG
1 CATATACATGATATAGTTATTAAAAATATGTAAAAAATGCATATAACGG
*
6531059 CATATACATGATATAG-TATTAAAAATAGTATTAAAAAATG-ATATA
1 CATATACATGATATAGTTATTAAAAATA-T-GTAAAAAATGCATATA
6531104 TACATCGAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 10 0.26
49 21 0.55
50 7 0.18
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (49 bp):
CATATACATGATATAGTTATTAAAAATATGTAAAAAATGCATATAACGG
Found at i:6531293 original size:3 final size:3
Alignment explanation
Indices: 6531279--6531308 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6531269 GAACATATAC
*
6531279 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6531309 GGATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6531515 original size:21 final size:22
Alignment explanation
Indices: 6531475--6531535 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
6531465 GTACATATAT
* *
6531475 ATATATAATAATAGTGTTAGAA
1 ATATACAATAATAGTATTAGAA
6531497 ATATACAAT-ATAGTATTAGAA
1 ATATACAATAATAGTATTAGAA
*
6531518 ATATACATACAATAGTAT
1 ATATACA-ATAATAGTAT
6531536 AAAAGATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.53
22 9 0.26
23 7 0.21
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (22 bp):
ATATACAATAATAGTATTAGAA
Found at i:6533846 original size:19 final size:20
Alignment explanation
Indices: 6533793--6533848 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 20
6533783 AATTAATTAC
*
6533793 ATTTTTTTATA-AATTTTTA
1 ATTTTTTTAAATAATTTTTA
** *
6533812 ATAATTTT-AATGATTTTT-
1 ATTTTTTTAAATAATTTTTA
6533830 ATTTTTTTAAATAATTTTT
1 ATTTTTTTAAATAATTTTT
6533849 TGAATTTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTTTAAATAATTTTTA
Found at i:6535604 original size:19 final size:19
Alignment explanation
Indices: 6535535--6535604 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
6535525 TATATTAATT
* *
6535535 TAAAATATAAAAAAATCATA
1 TAAAATAT-AAAAAATAAAA
* * *
6535555 TAAAACTCTAAAATATATAA
1 TAAAA-TATAAAAAATAAAA
*
6535575 TAAAATTTAAAAAATAAAA
1 TAAAATATAAAAAATAAAA
*
6535594 TAATATATAAA
1 TAAAATATAAA
6535605 GCTTGAAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
19 20 0.51
20 17 0.44
21 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAATATAAAAAATAAAA
Found at i:6535717 original size:20 final size:19
Alignment explanation
Indices: 6535694--6535736 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
6535684 TTAATATTGT
6535694 TTTTCAAA-TTTTATAAATTA
1 TTTTCAAACTTTT-TAAA-TA
*
6535714 TTTTTAAACTTTTTAAATA
1 TTTTCAAACTTTTTAAATA
6535733 TTTT
1 TTTT
6535737 ATAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTCAAACTTTTTAAATA
Found at i:6535822 original size:14 final size:14
Alignment explanation
Indices: 6535803--6535829 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6535793 TACCATATAT
6535803 TTTTTATAATTTTA
1 TTTTTATAATTTTA
6535817 TTTTTATAATTTT
1 TTTTTATAATTTT
6535830 TTTCTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATAATTTTA
Found at i:6536088 original size:28 final size:26
Alignment explanation
Indices: 6536046--6536099 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
6536036 AGTAATTAAT
* *
6536046 AGTTTATGTATCAAATTGAGACAAAAAA
1 AGTTTAGGTACCAAATTGA-A-AAAAAA
6536074 AGTTTAGGTACCAAATTGAAAAAAAA
1 AGTTTAGGTACCAAATTGAAAAAAAA
6536100 TAAATATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (26 bp):
AGTTTAGGTACCAAATTGAAAAAAAA
Found at i:6540107 original size:3 final size:3
Alignment explanation
Indices: 6540099--6540134 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
6540089 AACAATGACC
* *
6540099 CAT CAT CAT CAT CAT TAT CAT CAT CTT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
6540135 ATGGTTCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (3 bp):
CAT
Found at i:6542563 original size:4 final size:4
Alignment explanation
Indices: 6542554--6542639 Score: 172
Period size: 4 Copynumber: 21.5 Consensus size: 4
6542544 ATCTAATTAT
6542554 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
6542602 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
6542640 GTCACATTTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:6547346 original size:28 final size:27
Alignment explanation
Indices: 6547306--6547362 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
6547296 CATGCCAACC
*
6547306 AATTTAATAATAAAATTAATAATATTAAA
1 AATTGAATAATAAAATT-ATAA-ATTAAA
*
6547335 AATTGAAT-ATAAAATTTTAAATTAAA
1 AATTGAATAATAAAATTATAAATTAAA
6547361 AA
1 AA
6547363 ATAAAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 3 0.12
28 8 0.31
29 7 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
AATTGAATAATAAAATTATAAATTAAA
Found at i:6551951 original size:15 final size:15
Alignment explanation
Indices: 6551927--6551972 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
6551917 ATATAAATAG
*
6551927 AAATAAAAATATAAT
1 AAATAGAAATATAAT
6551942 AAATAGAAATATAAT
1 AAATAGAAATATAAT
6551957 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
6551973 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:6551960 original size:23 final size:23
Alignment explanation
Indices: 6551894--6551960 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
6551884 TATAAAAAGA
*
6551894 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
6551914 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
6551937 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
6551960 A
1 A
6551961 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:6551969 original size:44 final size:44
Alignment explanation
Indices: 6551921--6552007 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
6551911 ATTAGTATAT
6551921 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
6551965 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
6552008 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:6551992 original size:15 final size:14
Alignment explanation
Indices: 6551919--6552005 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
6551909 ATATTAGTAT
*
6551919 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
6551932 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
6551948 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
6551962 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
6551977 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
6551992 ATAAATAATAATAG
1 ATAAATAAAAATAG
6552006 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 34 0.57
16 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:6553067 original size:44 final size:44
Alignment explanation
Indices: 6553023--6553688 Score: 257
Period size: 44 Copynumber: 15.1 Consensus size: 44
6553013 GCTCCACTAT
*
6553023 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAT
1 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAC
* * ** * * * *
6553067 TGCTTAGGGGGATAAG-GCTCACCATCTTC-GATCTGTTCCCCTAT
1 TGCTTAGGGAGATAAGATCT-ATAATTTTCAG-CCTGTTTCCCTAC
* * *
6553111 TGCTTAGGGAGATAAGATCTGTAATTTTCGGCTTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAC
* * * * ** *
6553155 TGCTTAGGGGGATAAG-GCTCACT-GTCTTCAATCTG-CTCCGCTAC
1 TGCTTAGGGAGATAAGATCT-A-TAATTTTCAGCCTGTTTCC-CTAC
* * **
6553199 TACTTAGGGAGATAAGATCTTTAATTTTTGGCCTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAC
* * * * * *
6553243 TGCTTAGGGGGATAAG-GCTCACT-GTCTTC-GATCTG-CTCCGCTAC
1 TGCTTAGGGAGATAAGATCT-A-TAATTTTCAG-CCTGTTTCC-CTAC
* *
6553287 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTACCTAC
1 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAC
* * *** * * *
6553331 TGCTTAGGGGGATAAG-GCTCACCGTCTTC-GATCTG-CTCCACTAC
1 TGCTTAGGGAGATAAGATCT-ATAATTTTCAG-CCTGTTTCC-CTAC
* * * * *
6553375 TGTTTAGGGAGATAATATTTGTAATTTTCAGCCTGTTACCCTAC
1 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAC
* * ** * * *
6553419 TGCTTAAGGG-GTTAAG-GCTCACCATCTTC-GATCTG-CTCCACTAC
1 TGCTT-AGGGAGATAAGATCT-ATAATTTTCAG-CCTGTTTCC-CTAC
* *
6553463 TGCTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTAT-CCTAC
1 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTT-TCCCTAC
** * * * * * * * *
6553507 AACTTAGGGGGTTAAGGT-TCACT-GTCTTC-GATCTGCTTCACTAC
1 TGCTTAGGGAGATAAGATCT-A-TAATTTTCAG-CCTGTTTCCCTAC
* *
6553551 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTAC
1 TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAC
* * * * * * *
6553595 TGCTTATGGG-GTTAA-AGCTCACCATTTTTTA-TCTG-CTCCACTAC
1 TGCTTA-GGGAGATAAGATCT-A-TAATTTTCAGCCTGTTTCC-CTAC
* * *
6553639 TGCTTAGGGAGATAAGATC-AGTAATTTTCAGCTTGTTACTCTAC
1 TGCTTAGGGAGATAAGATCTA-TAATTTTCAGCCTGTTTCCCTAC
6553683 TGCTTA
1 TGCTTA
6553689 AGGGGTTAAG
Statistics
Matches: 431, Mismatches: 143, Indels: 96
0.64 0.21 0.14
Matches are distributed among these distances:
43 48 0.11
44 340 0.79
45 42 0.10
46 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (44 bp):
TGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTAC
Found at i:6553136 original size:88 final size:88
Alignment explanation
Indices: 6553002--6553702 Score: 938
Period size: 88 Copynumber: 8.0 Consensus size: 88
6552992 AAATCTGGTA
* *
6553002 ATCTTC-AGTCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCCCTA
1 ATCTTCGA-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTA
*
6553066 TTGCTTAGGGGGATAAGGCTCACC
65 CTGCTTAGGGGGATAAGGCTCACC
* * * * *
6553090 ATCTTCGATCTGTTCCCCTATTGCTTAGGGAGATAAGATCTGTAATTTTCGGCTTGTTTCCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
*
6553155 TGCTTAGGGGGATAAGGCTCACT
66 TGCTTAGGGGGATAAGGCTCACC
* * * * * **
6553178 GTCTTCAATCTGCTCCGCTACTACTTAGGGAGATAAGATCTTTAATTTTTGGCCTGTTTCCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
*
6553243 TGCTTAGGGGGATAAGGCTCACT
66 TGCTTAGGGGGATAAGGCTCACC
* * *
6553266 GTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTACCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
6553331 TGCTTAGGGGGATAAGGCTCACC
66 TGCTTAGGGGGATAAGGCTCACC
* * * * *
6553354 GTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAATATTTGTAATTTTCAGCCTGTTACCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
* *
6553419 TGCTTAAGGGGTTAAGGCTCACC
66 TGCTTAGGGGGATAAGGCTCACC
*
6553442 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTAT-CCTA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTT-TCCCTA
** * * *
6553506 CAACTTAGGGGGTTAAGGTTCACT
65 CTGCTTAGGGGGATAAGGCTCACC
* * *
6553530 GTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
* * *
6553595 TGCTTATGGGGTTAAAGCTCACC
66 TGCTTAGGGGGATAAGGCTCACC
* ** * * * *
6553618 ATTTTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCAGTAATTTTCAGCTTGTTACTCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
* *
6553683 TGCTTAAGGGGTTAAGGCTC
66 TGCTTAGGGGGATAAGGCTC
6553703 GTATCTTCAA
Statistics
Matches: 548, Mismatches: 62, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
88 547 1.00
89 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (88 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
TGCTTAGGGGGATAAGGCTCACC
Found at i:6553844 original size:132 final size:132
Alignment explanation
Indices: 6553646--6553919 Score: 440
Period size: 132 Copynumber: 2.1 Consensus size: 132
6553636 TACTGCTTAG
*** * *
6553646 GGAGATAAGATCAGTAATTTTCAGCTTGTTACTCTACTGCTTAAGGGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCAGTAATTTTCAGCCCATTACCCTACTGCTTAAGGGGTTAAGGCTCGCATCTTC
*
6553711 AACCTGCTCTCTTGCTACCTCAGAGAGATAAAGCCGGTGGCTAAAATCTACTCCATAGCCGATAC
66 AACCTGCTCTCTTGCTACCTCAGAGAGATAAAGCCGGTGACTAAAATCTACTCCATAGCCGATAC
6553776 AT
131 AT
* *
6553778 GGAGATAAGATCTGTAATTTTCAGCCCATTACCCTACTGCTTAGGGGGTTAAGGCTCGCATCTTC
1 GGAGATAAGATCAGTAATTTTCAGCCCATTACCCTACTGCTTAAGGGGTTAAGGCTCGCATCTTC
* * * *
6553843 AACCTGTTCTCTTGTTACCTCAGAGAGATAAGGCCGGTGACTAAAATCTGCTCCATAGCCGATAC
66 AACCTGCTCTCTTGCTACCTCAGAGAGATAAAGCCGGTGACTAAAATCTACTCCATAGCCGATAC
6553908 AT
131 AT
6553910 GGAGATAAGA
1 GGAGATAAGA
6553920 CTCGCCATTT
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 130 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (132 bp):
GGAGATAAGATCAGTAATTTTCAGCCCATTACCCTACTGCTTAAGGGGTTAAGGCTCGCATCTTC
AACCTGCTCTCTTGCTACCTCAGAGAGATAAAGCCGGTGACTAAAATCTACTCCATAGCCGATAC
AT
Found at i:6553963 original size:177 final size:177
Alignment explanation
Indices: 6553756--6554271 Score: 825
Period size: 177 Copynumber: 2.9 Consensus size: 177
6553746 GGTGGCTAAA
* **
6553756 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCCATTACCCTACTGCTTA
1 ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA
* * * *
6553821 GGGGGTTAAGGCTCGCATCTTCAACCTGTTCTCTTGTTACCTCAGAGAGATAAGGCCGGTGACTA
66 GGGGGTTAAGGCTCGTATCTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTA
*
6553886 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTAG
131 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCAG
* * * ** *
6553933 ATCTGCTCTATAGCCGATACATAGAGATAAGATCTGTATTTTTCAGCCTGTTATTCTACTACTTA
1 ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA
* * *
6553998 GGGGGTTAAGGCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTGTTGGCTA
66 GGGGGTTAAGGCTCGTATCTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTA
* *
6554063 AAATCTGCTCCATAGCTGATACATGGAGATAAGACTCGCCATTTCCG
131 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCAG
* * * *
6554110 ATCTACTCCATAGCCGATACATAGAGATAAGATTTGTAATTTTCAACATGTTACCCTATTGCTTA
1 ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA
6554175 GGGGGTTAAGGCTCGTATCTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTA
66 GGGGGTTAAGGCTCGTATCTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTA
6554240 AAATCTGCTCCATAGCCGATACATGGAGATAA
131 AAATCTGCTCCATAGCCGATACATGGAGATAA
6554272 TATCTGTAAT
Statistics
Matches: 306, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 306 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (177 bp):
ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA
GGGGGTTAAGGCTCGTATCTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTA
AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCAG
Found at i:6558830 original size:19 final size:19
Alignment explanation
Indices: 6558806--6558851 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6558796 TGTAAAGTTT
*
6558806 AATGCACATG-ATGCAATG
1 AATGCAAATGTATGCAATG
*
6558824 CAATGCAAATGTATGGAATG
1 -AATGCAAATGTATGCAATG
6558844 AATGCAAA
1 AATGCAAA
6558852 AGAAAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (19 bp):
AATGCAAATGTATGCAATG
Found at i:6560621 original size:18 final size:16
Alignment explanation
Indices: 6560598--6560659 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
6560588 TCAGTAGTAT
6560598 TCAGTTACTCTATAACAG
1 TCAGTTA-TC-ATAACAG
6560616 TCAGTTATACAATAACAG
1 TCAGTTAT-C-ATAACAG
*
6560634 TCATTTATTCAGTAACAG
1 TCAGTTA-TCA-TAACAG
*
6560652 TCAATTAT
1 TCAGTTAT
6560660 TCCGTAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 34 0.89
19 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (16 bp):
TCAGTTATCATAACAG
Found at i:6560660 original size:18 final size:18
Alignment explanation
Indices: 6560609--6560661 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
6560599 CAGTTACTCT
* *
6560609 ATAACAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
6560627 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
6560645 GTAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
6560662 CGTAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:6560815 original size:6 final size:6
Alignment explanation
Indices: 6560804--6560837 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
6560794 CACCACAACG
*
6560804 GTAACA GTAACA GTAACA GTAACA GTCACA GTAA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAA
6560838 TTGTACACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:6563536 original size:22 final size:23
Alignment explanation
Indices: 6563489--6563536 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6563479 CATTCAAGAT
** *
6563489 AAAATAATATATGAAACTCTTTA
1 AAAATAATATATGAAACAATTCA
6563512 AAAATAATATAT-AAACAATTCA
1 AAAATAATATATGAAACAATTCA
6563534 AAA
1 AAA
6563537 TATATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAATATATGAAACAATTCA
Found at i:6563784 original size:23 final size:23
Alignment explanation
Indices: 6563718--6563784 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
6563708 TATAAGAAGA
*
6563718 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
6563738 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
6563761 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
6563784 A
1 A
6563785 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:6563784 original size:29 final size:28
Alignment explanation
Indices: 6563717--6563814 Score: 69
Period size: 29 Copynumber: 3.4 Consensus size: 28
6563707 ATATAAGAAG
* * *
6563717 AATAATAAT-GAAAATAATATTAGTATATA
1 AATAATAATAG-AAA-AATATAAATAGATA
6563746 AATAGA-AATA-AAAATATAATAAATAGA-A
1 AATA-ATAATAGAAAA-AT-ATAAATAGATA
*
6563774 ATATAATAATAGTAGAAATATAAATAGATA
1 A-ATAATAATAG-AAAAATATAAATAGATA
6563804 AATAATAATAG
1 AATAATAATAG
6563815 TATTAGAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
27 1 0.02
28 8 0.14
29 39 0.70
30 5 0.09
31 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (28 bp):
AATAATAATAGAAAAATATAAATAGATA
Found at i:6563791 original size:17 final size:15
Alignment explanation
Indices: 6563751--6563796 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
6563741 ATATAAATAG
*
6563751 AAATAAAAATATAAT
1 AAATAGAAATATAAT
6563766 AAATAGAAATATAAT
1 AAATAGAAATATAAT
6563781 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
6563797 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:6563796 original size:14 final size:15
Alignment explanation
Indices: 6563776--6563816 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
6563766 AAATAGAAAT
6563776 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
6563791 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
6563805 ATAATAATAGTA
1 ATAATAATAGTA
6563817 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:6563811 original size:15 final size:14
Alignment explanation
Indices: 6563751--6563811 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
6563741 ATATAAATAG
*
6563751 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
6563766 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
6563781 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
6563795 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
6563810 AA
1 AA
6563812 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:6568367 original size:38 final size:39
Alignment explanation
Indices: 6568305--6568389 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
6568295 GGTCCTTAAC
* *
6568305 CCGGATATTTTTCCAGCACTTAGCCTGCGGACTTTAAGT
1 CCGGATATTATTCCAGCACTTAGCCTGCAGACTTTAAGT
6568344 CCGGAT-TTATTCCAGCA-TATAGCCTGCAGACTTTAAGT
1 CCGGATATTATTCCAGCACT-TAGCCTGCAGACTTTAAGT
*
6568382 CCGAATAT
1 CCGGATAT
6568390 CTTCTTTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
37 1 0.02
38 33 0.80
39 7 0.17
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (39 bp):
CCGGATATTATTCCAGCACTTAGCCTGCAGACTTTAAGT
Found at i:6574789 original size:39 final size:39
Alignment explanation
Indices: 6574746--6574886 Score: 148
Period size: 38 Copynumber: 3.7 Consensus size: 39
6574736 TACTAGCATG
* *
6574746 AGCCTGCGGGTCCTTAA-CCCGGATATTTTTCCAGCACT-T
1 AGCCTGCGGGACCTTAAGCCCGGAT-TTATTCCAGCA-TAT
* *
6574785 AGCCTGC-GGACTTTAAGTCCGGATTTATTCCAGCATAT
1 AGCCTGCGGGACCTTAAGCCCGGATTTATTCCAGCATAT
* * *
6574823 AGCCTGC-GGACTTTAAGTCCGGATTTATTCTAGCATAT
1 AGCCTGCGGGACCTTAAGCCCGGATTTATTCCAGCATAT
* *
6574861 AGCCTGC-GGACTTTAAGTCCGGATTT
1 AGCCTGCGGGACCTTAAGCCCGGATTT
6574887 TTTCTTTTAC
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.01
38 81 0.85
39 13 0.14
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (39 bp):
AGCCTGCGGGACCTTAAGCCCGGATTTATTCCAGCATAT
Found at i:6574826 original size:38 final size:38
Alignment explanation
Indices: 6574764--6574886 Score: 203
Period size: 38 Copynumber: 3.2 Consensus size: 38
6574754 GGTCCTTAAC
*
6574764 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGAT-TTATTCCAGCA-TATAGCCTGCGGACTTTAAGT
6574803 CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
*
6574841 CCGGATTTATTCTAGCATATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
6574879 CCGGATTT
1 CCGGATTT
6574887 TTTCTTTTAC
Statistics
Matches: 81, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
37 1 0.01
38 74 0.91
39 6 0.07
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (38 bp):
CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
Found at i:6579102 original size:15 final size:15
Alignment explanation
Indices: 6579082--6579112 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6579072 TTTAACATTT
6579082 AATATATTTATTTCA
1 AATATATTTATTTCA
6579097 AATATATTTATTTCA
1 AATATATTTATTTCA
6579112 A
1 A
6579113 GTATTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
AATATATTTATTTCA
Found at i:6579117 original size:13 final size:14
Alignment explanation
Indices: 6579078--6579125 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
6579068 TTCATTTAAC
6579078 ATTT-AATATATTT
1 ATTTCAATATATTT
6579091 ATTTCAAATATATTT
1 ATTTC-AATATATTT
* *
6579106 ATTTCAA-GTATTC
1 ATTTCAATATATTT
6579119 ATTTCAA
1 ATTTCAA
6579126 ATGTCCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 15 0.48
14 2 0.06
15 14 0.45
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTTCAATATATTT
Found at i:6579171 original size:13 final size:13
Alignment explanation
Indices: 6579153--6579270 Score: 92
Period size: 13 Copynumber: 8.8 Consensus size: 13
6579143 TCTATATTCC
* *
6579153 TATAAATATTTCG
1 TATAAACATTTCA
6579166 TATAAACATTTCA
1 TATAAACATTTCA
* *
6579179 TATATATATTTCCA
1 TATAAACATTT-CA
6579193 TATAAACATTTCA
1 TATAAACATTTCA
*
6579206 TATAACCATTTCA
1 TATAAACATTTCA
* *
6579219 TCTAAACAATTCA
1 TATAAACATTTCA
* * *
6579232 TTTTACCATTTCA
1 TATAAACATTTCA
* *
6579245 TTTACACATTTAACA
1 TATAAACATTT--CA
*
6579260 TATAATCATTT
1 TATAAACATTT
6579271 TGTATATCAC
Statistics
Matches: 82, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
13 61 0.74
14 11 0.13
15 10 0.12
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.43
Consensus pattern (13 bp):
TATAAACATTTCA
Found at i:6579178 original size:40 final size:40
Alignment explanation
Indices: 6579134--6579218 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
6579124 AAATGTCCCT
* * *
6579134 TTTCACATATCTATATTCC-TATAAATATTTCGTATAAACA
1 TTTCACATATATAT-TTCCATATAAACATTTCATATAAACA
* *
6579174 TTTCATATATATATTTCCATATAAACATTTCATATAACCA
1 TTTCACATATATATTTCCATATAAACATTTCATATAAACA
6579214 TTTCA
1 TTTCA
6579219 TCTAAACAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.10
40 35 0.90
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.44
Consensus pattern (40 bp):
TTTCACATATATATTTCCATATAAACATTTCATATAAACA
Found at i:6582549 original size:46 final size:46
Alignment explanation
Indices: 6582482--6582569 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
6582472 GCTTTTCAAC
*
6582482 GAATGATGAATTTTTTTTGGTAAGGTTCTAACTTTAGTGATCCAAA
1 GAATGATGAATTTTTTCTGGTAAGGTTCTAACTTTAGTGATCCAAA
*
6582528 GAATGATGAATTTTTTCTGGTAGGGTTCTAACTTTAGTGATC
1 GAATGATGAATTTTTTCTGGTAAGGTTCTAACTTTAGTGATC
6582570 ATTGTTTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (46 bp):
GAATGATGAATTTTTTCTGGTAAGGTTCTAACTTTAGTGATCCAAA
Found at i:6585584 original size:9 final size:9
Alignment explanation
Indices: 6585570--6585600 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
6585560 GATAAAGTAA
6585570 AATTAAATT
1 AATTAAATT
6585579 AATTAAATT
1 AATTAAATT
6585588 AATTAAAATT
1 AATT-AAATT
6585598 AAT
1 AAT
6585601 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:6586074 original size:29 final size:28
Alignment explanation
Indices: 6586016--6586074 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
6586006 CTATTTCAAA
*
6586016 AATAATATTATTTTAATAAATTTAATTT
1 AATAATAATATTTTAATAAATTTAATTT
*
6586044 AATATATAATATTTT-ATTAATTTAATATT
1 AATA-ATAATATTTTAATAAATTTAAT-TT
6586073 AA
1 AA
6586075 AGTGATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
AATAATAATATTTTAATAAATTTAATTT
Found at i:6586155 original size:61 final size:58
Alignment explanation
Indices: 6586085--6586200 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
6586075 AGTGATTATC
* *
6586085 TTAATATTAAATTAAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
* *
6586146 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
6586201 TTAAATTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:6588799 original size:21 final size:20
Alignment explanation
Indices: 6588773--6588811 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
6588763 AACCCATTAA
6588773 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
6588794 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
6588812 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:6590072 original size:26 final size:26
Alignment explanation
Indices: 6590038--6590108 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
6590028 CCTATTACTT
6590038 TATTCTTATTCTATTTTTATATCATTA
1 TATT-TTATTCTATTTTTATATCATTA
* *
6590065 TATTTTA-TCCACTTTTTATATTATTA
1 TATTTTATTCTA-TTTTTATATCATTA
*
6590091 T-TATTATAT-TATTTTTAT
1 TATTTTAT-TCTATTTTTAT
6590109 TACTATGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 14 0.38
26 18 0.49
27 5 0.14
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTTTATTCTATTTTTATATCATTA
Found at i:6590099 original size:14 final size:14
Alignment explanation
Indices: 6590080--6590110 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6590070 TATCCACTTT
6590080 TTATATTATTATTA
1 TTATATTATTATTA
*
6590094 TTATATTATTTTTA
1 TTATATTATTATTA
6590108 TTA
1 TTA
6590111 CTATGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:6603160 original size:74 final size:72
Alignment explanation
Indices: 6603058--6603392 Score: 351
Period size: 73 Copynumber: 4.6 Consensus size: 72
6603048 AAATGAGTTG
* *
6603058 AGCCTCAGGTCACGCGCTAAGGTATTTTTAATTTATGTTTCAAAAAATTGACTCATATTGCGAGA
1 AGCCTCAGGT-ACACGCTGAGGTATTTTTAATTTATGTTTCAAAAAA-TGACTCATATTGCGAGA
6603123 GGTGAGTCA
64 GGTGAGTCA
* * *
6603132 AGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTTAAAAATTGACTCATATTGCGAGAG
1 AGCCTCAGGT-ACACGCTGAGGTATTTTTAATTTATGTTTCAAAAAATGACTCATATTGCGAGAG
6603197 GTGAGTCA
65 GTGAGTCA
* * *
6603205 AGCCTCAGGT-CACGCTGAGGTA-TTTTAATTCCTTTTATTTC-AAAAATCAGCTCATATTGCGA
1 AGCCTCAGGTACACGCTGAGGTATTTTTAA-T--TTATGTTTCAAAAAATGA-CTCATATTGCGA
* **
6603267 GGGGTGAGTTG
62 GAGGTGAGTCA
** * * *
6603278 AGCCTC-GGGGCACGTTGAGGTATTTTTAGTTTATGTTT-AGAAAAT-ACTCATATTGCGAGAGG
1 AGCCTCAGGTACACGCTGAGGTATTTTTAATTTATGTTTCAAAAAATGACTCATATTGCGAGAGG
**
6603340 TGAGTTG
66 TGAGTCA
* * * *
6603347 AGCTTCAGG-ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAA
1 AGCCTCAGGTACACGCTGAGGTATTTTTAATTTATGTT-TCAAAAAA
6603393 AGAACCAACT
Statistics
Matches: 222, Mismatches: 29, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
69 49 0.22
70 9 0.04
71 29 0.13
72 8 0.04
73 80 0.36
74 47 0.21
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (72 bp):
AGCCTCAGGTACACGCTGAGGTATTTTTAATTTATGTTTCAAAAAATGACTCATATTGCGAGAGG
TGAGTCA
Found at i:6603365 original size:142 final size:147
Alignment explanation
Indices: 6603109--6603377 Score: 388
Period size: 142 Copynumber: 1.9 Consensus size: 147
6603099 AAAAAATTGA
6603109 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTTA
1 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTTA
* *
6603174 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGT-ATTTTAATTCCT
66 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGACACGCTGAGGTAATTTCAATTCCT
6603238 TTTATTTCAAAAATCAG
131 TTTATTTCAAAAATCAG
* ** ** *
6603255 CTCATATTGCGAGGGGTGAGTTGAGCCTC-GG-GGCACGTTGAGGTATTTTTAGTTTATG-TTTA
1 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTTA
** *
6603317 GAAAA-T-ACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGCTGAGGTAATTTCAATT
66 -AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGACACGCTGAGGTAATTTCAATT
6603378 TCTGTTGTCA
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
142 41 0.37
143 13 0.12
144 28 0.25
145 2 0.02
146 26 0.24
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (147 bp):
CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTTA
AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGACACGCTGAGGTAATTTCAATTCCT
TTTATTTCAAAAATCAG
Found at i:6604384 original size:21 final size:20
Alignment explanation
Indices: 6604358--6604396 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
6604348 AACCCATTAA
6604358 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
6604379 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
6604397 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:6628515 original size:17 final size:17
Alignment explanation
Indices: 6628489--6628534 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
6628479 TGACGGGGGT
* *
6628489 TTGGAATGGAGTTGGTA
1 TTGGAGTGGAGATGGTA
6628506 TTGGAGTGGAGATGGTA
1 TTGGAGTGGAGATGGTA
6628523 TTGGAG-GGAGAT
1 TTGGAGTGGAGAT
6628535 ATCGGCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (17 bp):
TTGGAGTGGAGATGGTA
Found at i:6633255 original size:21 final size:21
Alignment explanation
Indices: 6633221--6633262 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6633211 ATATTTAAAT
6633221 ATAAAATATATTGT-TTTTTA
1 ATAAAATATATTGTATTTTTA
*
6633241 ATAATATAGTATTGTATTTTTA
1 ATAAAATA-TATTGTATTTTTA
6633263 TCACTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
ATAAAATATATTGTATTTTTA
Found at i:6638430 original size:12 final size:12
Alignment explanation
Indices: 6638409--6638460 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
6638399 AAATGTACCA
*
6638409 TCTTCATTTTGT
1 TCTTCTTTTTGT
*
6638421 TCTTCTTTTTTT
1 TCTTCTTTTTGT
*
6638433 TATTCTTTTTGT
1 TCTTCTTTTTGT
* * *
6638445 TCCTGTTCTTGT
1 TCTTCTTTTTGT
6638457 TCTT
1 TCTT
6638461 GTTCGTATCT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.04, C:0.17, G:0.08, T:0.71
Consensus pattern (12 bp):
TCTTCTTTTTGT
Found at i:6640753 original size:20 final size:20
Alignment explanation
Indices: 6640728--6640771 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6640718 AAAAGCATTT
*
6640728 CACCGGGAAAGCCCATTGAC
1 CACCGGGAAAACCCATTGAC
* *
6640748 CACCGGGAAAACCCTTTGAT
1 CACCGGGAAAACCCATTGAC
6640768 CACC
1 CACC
6640772 ATTTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.14
Consensus pattern (20 bp):
CACCGGGAAAACCCATTGAC
Done.