Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 201 of 203
Found at i:64293569 original size:176 final size:176
Alignment explanation
Indices: 64293275--64294172 Score: 1769
Period size: 176 Copynumber: 5.1 Consensus size: 176
64293265 TCATTATATT
* * *
64293275 AAATTAAATTAAAATTAATTCTAAAACCATTAATTATGAATATAAAATAAACTTTAATGCAATTA
1 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
64293340 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
66 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
64293405 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
131 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
64293451 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
1 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
64293516 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
66 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
64293581 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
131 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
64293627 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
1 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
64293692 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
66 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
64293757 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
131 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
64293803 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
1 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
64293868 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
66 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
64293933 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
131 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
64293979 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
1 AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
64294044 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
66 TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
64294109 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
131 GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
64294155 AAATTAAATTAAACTTAA
1 AAATTAAATTAAACTTAA
64294173 AGAATTCGCC
Statistics
Matches: 719, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 719 1.00
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (176 bp):
AAATTAAATTAAACTTAATTCTCAAACCACTAATTATGAATATAAAATAAACTTTAATGCAATTA
TTTTATATTGTATAATAATTATTCAAAGTTAATAATTATTTAAATTTATAAAATTTAAAATTAAT
GATTATATAAAATATAATGATGTGATATATTAATTTAATGATATGA
Found at i:64293636 original size:21 final size:22
Alignment explanation
Indices: 64293590--64293636 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
64293580 TGATTATATA
* * *
64293590 AAATATAATGATGTGATATATT
1 AAATTTAATGATATGATAAATT
64293612 -AATTTAATGATATGA-AAATT
1 AAATTTAATGATATGATAAATT
64293632 AAATT
1 AAATT
64293637 AAACTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTTAATGATATGATAAATT
Found at i:64293812 original size:21 final size:22
Alignment explanation
Indices: 64293766--64293812 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
64293756 TGATTATATA
* * *
64293766 AAATATAATGATGTGATATATT
1 AAATTTAATGATATGATAAATT
64293788 -AATTTAATGATATGA-AAATT
1 AAATTTAATGATATGATAAATT
64293808 AAATT
1 AAATT
64293813 AAACTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTTAATGATATGATAAATT
Found at i:64293988 original size:21 final size:22
Alignment explanation
Indices: 64293942--64293988 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
64293932 TGATTATATA
* * *
64293942 AAATATAATGATGTGATATATT
1 AAATTTAATGATATGATAAATT
64293964 -AATTTAATGATATGA-AAATT
1 AAATTTAATGATATGATAAATT
64293984 AAATT
1 AAATT
64293989 AAACTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTTAATGATATGATAAATT
Found at i:64294164 original size:21 final size:22
Alignment explanation
Indices: 64294118--64294164 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
64294108 TGATTATATA
* * *
64294118 AAATATAATGATGTGATATATT
1 AAATTTAATGATATGATAAATT
64294140 -AATTTAATGATATGA-AAATT
1 AAATTTAATGATATGATAAATT
64294160 AAATT
1 AAATT
64294165 AAACTTAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTTAATGATATGATAAATT
Found at i:64294484 original size:19 final size:19
Alignment explanation
Indices: 64294436--64294485 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
64294426 CAAAATTTGA
*
64294436 ATAACTTTTTATTATATTT
1 ATAACATTTTATTATATTT
* *
64294455 ATAATACTTTACTTATATTT
1 ATAACATTTTA-TTATATTT
64294475 -TAACATTTTAT
1 ATAACATTTTAT
64294486 AGCATTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAACATTTTATTATATTT
Found at i:64294594 original size:29 final size:28
Alignment explanation
Indices: 64294535--64294608 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
64294525 TTAATTATCG
* * *
64294535 ATAATTATTATAATTATTACAATTTTATA
1 ATAATTTTTAAAATT-TAACAATTTTATA
* *
64294564 ATCATTTTATAATATTTAACAACTTTT-TA
1 ATAATTTT-TAAAATTTAACAA-TTTTATA
64294593 ATAATTTTTAAAATTT
1 ATAATTTTTAAAATTT
64294609 TTTGAACTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
28 7 0.19
29 20 0.56
30 9 0.25
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (28 bp):
ATAATTTTTAAAATTTAACAATTTTATA
Found at i:64294596 original size:21 final size:19
Alignment explanation
Indices: 64294568--64294610 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
64294558 TTTATAATCA
64294568 TTTTATAATATTTAACAACT
1 TTTTATAATATTTAA-AACT
*
64294588 TTTTAATAATTTTTAAAA-T
1 TTTT-ATAATATTTAAAACT
64294607 TTTT
1 TTTT
64294611 TGAACTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATAATATTTAAAACT
Found at i:64300953 original size:18 final size:18
Alignment explanation
Indices: 64300918--64300970 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
64300908 CTCACAATAA
*
64300918 AAAGTTTG-CATAAATAAC
1 AAAGTTTGCCA-AATTAAC
*
64300936 ATAGTTTGCCAAATTAAC
1 AAAGTTTGCCAAATTAAC
*
64300954 AAAGTTTTCCAAATTAA
1 AAAGTTTGCCAAATTAA
64300971 TACAATTCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 28 0.93
19 2 0.07
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (18 bp):
AAAGTTTGCCAAATTAAC
Found at i:64301003 original size:18 final size:18
Alignment explanation
Indices: 64300982--64301059 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
64300972 ACAATTCACA
*
64300982 ATTTTAATATAGTCCGCC
1 ATTTTAATATAGTCTGCC
* * *
64301000 ATTTTTATATTGTTTGCC
1 ATTTTAATATAGTCTGCC
*
64301018 ATTTTAATACAGTCTGCC
1 ATTTTAATATAGTCTGCC
*
64301036 ATTTTAATATAGTTTGCC
1 ATTTTAATATAGTCTGCC
64301054 ATTTTA
1 ATTTTA
64301060 TAGTACAACT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (18 bp):
ATTTTAATATAGTCTGCC
Found at i:64301037 original size:36 final size:36
Alignment explanation
Indices: 64300982--64301059 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
64300972 ACAATTCACA
* * *
64300982 ATTTTAATATAGTCCGCCATTTTTATATTGTTTGCC
1 ATTTTAATACAGTCCGCCATTTTAATATAGTTTGCC
*
64301018 ATTTTAATACAGTCTGCCATTTTAATATAGTTTGCC
1 ATTTTAATACAGTCCGCCATTTTAATATAGTTTGCC
64301054 ATTTTA
1 ATTTTA
64301060 TAGTACAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (36 bp):
ATTTTAATACAGTCCGCCATTTTAATATAGTTTGCC
Found at i:64302148 original size:14 final size:14
Alignment explanation
Indices: 64302129--64302157 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64302119 GTAAAAACTT
64302129 AGTGAGAATTAATC
1 AGTGAGAATTAATC
64302143 AGTGAGAATTAATC
1 AGTGAGAATTAATC
64302157 A
1 A
64302158 CTTATACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AGTGAGAATTAATC
Found at i:64312634 original size:5 final size:5
Alignment explanation
Indices: 64312624--64312655 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
64312614 CCAATGTCAC
*
64312624 AAGAA AAGAA AAGAA AAGAA AAGAA AACAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
64312656 TTACACAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:64313522 original size:18 final size:19
Alignment explanation
Indices: 64313488--64313543 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
64313478 TTACAAAAAG
*
64313488 AAAATTCAAAATAATTTA-A
1 AAAATTCTAAAT-ATTTATA
64313507 AAAATTCTAAATATTTATA
1 AAAATTCTAAATATTTATA
64313526 AAAATTCTAAAT-TTTATA
1 AAAATTCTAAATATTTATA
64313544 TTTTAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 11 0.31
19 24 0.69
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTCTAAATATTTATA
Found at i:64317356 original size:41 final size:39
Alignment explanation
Indices: 64317301--64317396 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 39
64317291 GAAATTGATC
* * *
64317301 GCATGTTAAGCATGCCCAA-TGTTCTGCTACTATTACTAATT
1 GCATGTTAAACATGCCCAACTATT-T-CTACTA-AACTAATT
*
64317342 GCATGTTAAACATG-CCAACTATTTCTACTAAACTGATT
1 GCATGTTAAACATGCCCAACTATTTCTACTAAACTAATT
64317380 GCATGTTGAAACATGCC
1 GCATGTT-AAACATGCC
64317397 TTCTATACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 13 0.27
39 13 0.27
40 6 0.12
41 16 0.33
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (39 bp):
GCATGTTAAACATGCCCAACTATTTCTACTAAACTAATT
Found at i:64322442 original size:27 final size:27
Alignment explanation
Indices: 64322412--64322487 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
64322402 GACTATCTCG
*
64322412 TGTTTATTATCCTAGCAGACTACTCC-A
1 TGTTTACTATCCTAGCAGACTAC-CCAA
* * *
64322439 TGTTTACTATCTTGGTAGACTACCCAA
1 TGTTTACTATCCTAGCAGACTACCCAA
*
64322466 TGTTTACTGTCCT-GACAGACTA
1 TGTTTACTATCCTAG-CAGACTA
64322488 TTCTGGTTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.08
27 37 0.93
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (27 bp):
TGTTTACTATCCTAGCAGACTACCCAA
Found at i:64325573 original size:39 final size:39
Alignment explanation
Indices: 64325515--64325589 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
64325505 CTTGATTGGT
*
64325515 TGTTTAACGTCACAACACTAATGTGCAAGCATACACGAC
1 TGTTTAACGTCACAACACTAATGTGAAAGCATACACGAC
* *
64325554 TGTTTAACGTCATAGCACTAATGTGAAAGCATACAC
1 TGTTTAACGTCACAACACTAATGTGAAAGCATACAC
64325590 TGCCAATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (39 bp):
TGTTTAACGTCACAACACTAATGTGAAAGCATACACGAC
Found at i:64327574 original size:17 final size:16
Alignment explanation
Indices: 64327547--64327580 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
64327537 ATGCATTAAG
*
64327547 ATTAAAATGCAATGAC
1 ATTAAAATGCAACGAC
64327563 ATTAACAATGCAACGAC
1 ATTAA-AATGCAACGAC
64327580 A
1 A
64327581 AGGTTAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (16 bp):
ATTAAAATGCAACGAC
Found at i:64351820 original size:21 final size:21
Alignment explanation
Indices: 64351793--64351839 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
64351783 AGAAAAATGT
64351793 GACTTGAACCTAAGTTCTCAA
1 GACTTGAACCTAAGTTCTCAA
*
64351814 TACTTGAACCTAAGTTCTCAA
1 GACTTGAACCTAAGTTCTCAA
64351835 GACTT
1 GACTT
64351840 TTTACTAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (21 bp):
GACTTGAACCTAAGTTCTCAA
Found at i:64358185 original size:20 final size:20
Alignment explanation
Indices: 64358160--64358286 Score: 87
Period size: 20 Copynumber: 6.2 Consensus size: 20
64358150 TTGTACGGGA
*
64358160 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGATGCCTCTG
*
64358180 TTTGCACTTCGATGTCTCTG
1 TTTGCACTTCGATGCCTCTG
* * * *
64358200 TTCGCACTACGACGCCGCT-
1 TTTGCACTTCGATGCCTCTG
* *
64358219 TCTTGCACATTC-ATGTCTCTA
1 T-TTGCAC-TTCGATGCCTCTG
* *
64358240 TTTGCACTTCGGTACCTCTG
1 TTTGCACTTCGATGCCTCTG
* *
64358260 TTATGCATCTTTGATACCTCTGG
1 TT-TGCA-CTTCGATGCCTCT-G
64358283 TTTG
1 TTTG
64358287 GTGTAGTTAC
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.05
20 55 0.67
21 7 0.09
22 13 0.16
23 3 0.04
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTGCACTTCGATGCCTCTG
Found at i:64361721 original size:34 final size:34
Alignment explanation
Indices: 64361683--64361751 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
64361673 GATCGATAAA
64361683 GAACATTTTTTACTAATTGAAATGGGTTTAAAAG
1 GAACATTTTTTACTAATTGAAATGGGTTTAAAAG
64361717 GAACATTTTTTACTAATTGAAATGGGTTTAAAAG
1 GAACATTTTTTACTAATTGAAATGGGTTTAAAAG
64361751 G
1 G
64361752 TAATTAGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (34 bp):
GAACATTTTTTACTAATTGAAATGGGTTTAAAAG
Found at i:64371191 original size:10 final size:11
Alignment explanation
Indices: 64371176--64371222 Score: 53
Period size: 10 Copynumber: 4.3 Consensus size: 11
64371166 CTTTTGTCAG
64371176 TTTTAATAA-A
1 TTTTAATAATA
64371186 TTTTAAATAATA
1 TTTT-AATAATA
64371198 TTTT-ATAATA
1 TTTTAATAATA
*
64371208 TTTTTATAATTA
1 TTTTAATAA-TA
64371220 TTT
1 TTT
64371223 AAAAAGCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 14 0.42
11 9 0.27
12 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAATAATA
Found at i:64372152 original size:13 final size:13
Alignment explanation
Indices: 64372134--64372159 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64372124 TTGCATAATA
64372134 AAATGATTATTTT
1 AAATGATTATTTT
64372147 AAATGATTATTTT
1 AAATGATTATTTT
64372160 TCTCATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAATGATTATTTT
Found at i:64372536 original size:13 final size:13
Alignment explanation
Indices: 64372518--64372543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64372508 TTGCATAATA
64372518 AAATGATTATTTT
1 AAATGATTATTTT
64372531 AAATGATTATTTT
1 AAATGATTATTTT
64372544 TCTCATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAATGATTATTTT
Found at i:64375430 original size:91 final size:90
Alignment explanation
Indices: 64375260--64375464 Score: 199
Period size: 91 Copynumber: 2.3 Consensus size: 90
64375250 CCAGTTTGTA
* *
64375260 GATAAACCACCAGTGTTGTAGGTTAATACGCTGTTAGTAGTTATGACTACACAACGAGTTTGCAA
1 GATAAACCACCAGTGTTGTAGGTTAATACGCTGTCAATAGTTATGACTACACAACGAGTTTGCAA
**
64375325 ATAATAGTTGCCAGTATAAGTTATG
66 ATAATAACTGCCAGTATAAGTTATG
* * * * *
64375350 GATAAACCACGAGTGCTTGTAGGTTAATATGTTGTCAATGGTTATGGA-TACACAATG-GTTTTG
1 GATAAACCACCAGTG-TTGTAGGTTAATACGCTGTCAATAGTTAT-GACTACACAACGAG-TTTG
* * *
64375413 CAGATGAA-AACTGCCAG--TAATTTGTAG
63 CAAAT-AATAACTGCCAGTATAAGTTAT-G
64375440 G-TAAACCACCAGTGTTTGTA-GTTAA
1 GATAAACCACCAGTG-TTGTAGGTTAA
64375465 AACTACTAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
88 5 0.05
89 23 0.24
90 17 0.18
91 47 0.49
92 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (90 bp):
GATAAACCACCAGTGTTGTAGGTTAATACGCTGTCAATAGTTATGACTACACAACGAGTTTGCAA
ATAATAACTGCCAGTATAAGTTATG
Found at i:64377361 original size:41 final size:41
Alignment explanation
Indices: 64377160--64377362 Score: 230
Period size: 41 Copynumber: 5.0 Consensus size: 41
64377150 TTGTATAAAA
* * * * * * *
64377160 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTC
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
*
64377201 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGATACATTT
1 CACCGGCATC-AAGCCTGCTAGACATAAAGTCTGAAACATTT
** *
64377242 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
1 CACCGGCATC-AAGCCTGCTAGACATAAAGTCTGAAACATTT
64377283 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
* * * * *
64377324 CATCGACATCAAGCCTCCTAGACGTAAAGTCTAAAACAT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAT
64377363 CTTATTTTCA
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
41 141 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
Found at i:64380186 original size:27 final size:27
Alignment explanation
Indices: 64380155--64380234 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
64380145 CATGTGGCCT
64380155 CCTTAACTCCATGGTTTCATCACAAGA
1 CCTTAACTCCATGGTTTCATCACAAGA
** * **
64380182 CCTTAACTAGA-GGTAT--TCAC--TT
1 CCTTAACTCCATGGTTTCATCACAAGA
*
64380204 CCTTAACTCCATGGTTTCACCACAAGA
1 CCTTAACTCCATGGTTTCATCACAAGA
64380231 CCTT
1 CCTT
64380235 GTTCTAGAAT
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 9 0.24
23 4 0.11
24 4 0.11
25 3 0.08
26 4 0.11
27 13 0.35
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (27 bp):
CCTTAACTCCATGGTTTCATCACAAGA
Found at i:64390602 original size:122 final size:122
Alignment explanation
Indices: 64390385--64390726 Score: 648
Period size: 122 Copynumber: 2.8 Consensus size: 122
64390375 CACATGGACA
64390385 AATTCAACAAGTAATCATATTTCATATACATGTATTATTCATTTCATATATCAATGTATCATGTA
1 AATTCAACAAGTAATCATATTTCATATACATGTATTATTCATTTCATATATCAATGTATCATGTA
*
64390450 ACGTCACTTTCGTGTGTTTCATTTAAATACCTGTAATAGTGCATATCGAACTCATAG
66 ACATCACTTTCGTGTGTTTCATTTAAATACCTGTAATAGTGCATATCGAACTCATAG
64390507 AATTCAACAAGTAATCATATTTCATATACATGTATTATTCATTTCATATATCAATGTATCATGTA
1 AATTCAACAAGTAATCATATTTCATATACATGTATTATTCATTTCATATATCAATGTATCATGTA
* *
64390572 ACATCACTTTCGTGTGTTTCATTTAAATACCTGTAATAGTTCATATCGAACTCATAT
66 ACATCACTTTCGTGTGTTTCATTTAAATACCTGTAATAGTGCATATCGAACTCATAG
*
64390629 AATTCAACAAGTAATCATATTTCATATACATGTATTATTCATTTCGTATATCAATGTATCATGTA
1 AATTCAACAAGTAATCATATTTCATATACATGTATTATTCATTTCATATATCAATGTATCATGTA
64390694 ACATCACTTTCGTGTGTTTCATTTAAATACCTG
66 ACATCACTTTCGTGTGTTTCATTTAAATACCTG
64390727 AACAAGCTTT
Statistics
Matches: 216, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 216 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (122 bp):
AATTCAACAAGTAATCATATTTCATATACATGTATTATTCATTTCATATATCAATGTATCATGTA
ACATCACTTTCGTGTGTTTCATTTAAATACCTGTAATAGTGCATATCGAACTCATAG
Found at i:64391209 original size:25 final size:25
Alignment explanation
Indices: 64391168--64391215 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
64391158 TTCCTGTACA
*
64391168 TGTATGCTCATACGAGCTCTAAATC
1 TGTATGCTCATACGAGCTATAAATC
* *
64391193 TGTATGCTCTTATGAGCTATAAA
1 TGTATGCTCATACGAGCTATAAA
64391216 CGACAAGCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (25 bp):
TGTATGCTCATACGAGCTATAAATC
Found at i:64391248 original size:25 final size:25
Alignment explanation
Indices: 64391220--64391275 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
64391210 TATAAACGAC
* * * *
64391220 AAGCTCCTTCGAGTTGAATAATAGT
1 AAGCTCCTCCGAGCTAAATAACAGT
*
64391245 AAGCTCCTCCGAGCTAAATAACGGT
1 AAGCTCCTCCGAGCTAAATAACAGT
64391270 AAGCTC
1 AAGCTC
64391276 ATGCGATCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
AAGCTCCTCCGAGCTAAATAACAGT
Found at i:64400130 original size:20 final size:20
Alignment explanation
Indices: 64400102--64400156 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
64400092 TTTAACATAA
64400102 CATTCCATTTACTTACTTTC
1 CATTCCATTTACTTACTTTC
*
64400122 CATTTCATTTACTTACTTTC
1 CATTCCATTTACTTACTTTC
64400142 CATTCCATTTACTTA
1 CATTCCATTTACTTA
64400157 GCATAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (20 bp):
CATTCCATTTACTTACTTTC
Found at i:64403875 original size:10 final size:10
Alignment explanation
Indices: 64403856--64403907 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
64403846 GAATCTGTCG
64403856 AAAA-TAATC
1 AAAATTAATC
64403865 AAAATTAATC
1 AAAATTAATC
*
64403875 AAAATTAACTAT
1 AAAATTAA-T-C
*
64403887 AAAATTAATT
1 AAAATTAATC
*
64403897 AAAATTCATC
1 AAAATTAATC
64403907 A
1 A
64403908 TGTTCATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:64420362 original size:50 final size:50
Alignment explanation
Indices: 64420267--64421194 Score: 535
Period size: 50 Copynumber: 18.7 Consensus size: 50
64420257 TTTGCAAATT
* * *
64420267 AAAAGATTAAAGCCACAACGGTGAATCTTACTT-CTCTGACGATGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTC-GACAATGCAGTGG
* * * * * * **
64420317 AACATATTGAAGCTACAACGGCAAATCTCACTTCCTCGACAATGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * *
64420367 AAAAGATTGAAGCCACAACGGTGAATCTTACTT-CTCTGGCGATGCAGTAG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTC-GACAATGCAGTGG
* * * * * * * **
64420417 AATAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGACATTGCAATTT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * *
64420467 AAAAGATTAAAGTCACAACGGTGAATCTTACTT-CTCTGGCAATGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTC-GACAATGCAGTGG
* * * * * * **
64420517 AACAGATTGAAGCTACAACGGCAAATCTCACTTCCTCGACATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * *
64420567 AAAAGATTGAAGCCACAACGGTGAATCTTACTT-CTCTGGCGATACAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTC-GACAATGCAGTGG
* * * * * * * **
64420617 AACAGATTAAAGCTACAACGGCAAATCTTACTTCCCCGACATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* ***
64420667 AAAAGATTGAAGCCACAACGGTGAATCTTAC-T-CT-GGTGATGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * * * * * **
64420714 AACAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGACATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * *
64420764 AAAAGATTGAAGCCACAACGGTGAATCTTAC-TCC-CAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTC-GACAATGCAGTGG
** * * * * * * * * **
64420813 AGTAGATTGAAGCTACAACGGCAAATCTCACTCCCCCGATATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * * *
64420863 AAAAGATTGAAACCACAACGGTGAATCTTAC-TCC-CAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTC-GACAATGCAGTGG
* * * * * * * **
64420912 AACAGATTGAAGCTACAATGGCGGATCTCACTTCCTCGACATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* ** * * *
64420962 AAAATATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CTATGTAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * * * *
64421011 AACAGATTGAAACCACAACGGCGAATCTTCCTTCCCCGACATTGCAGT-C
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
* * * * * * * *
64421060 AAGTAGATTGAAGCTACAACAGTGAATTTTA-TATCC-CTAGCGATGCAGTCG
1 AA-AAGATTGAAGCCACAACGGCGAATCTTACT-TCCTCGA-CAATGCAGTGG
* * * * * * *
64421111 AACAGATTGAAGCTACAATGGCGAGTCTTGCTTTCC-CGACATTGCAACT--
1 AAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCTCGACAATGC-AGTGG
* *
64421160 -AAAGATTGAAGCCGCAACGGCGAATCTTATTTCCT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCT
64421195 TGGCGAGACC
Statistics
Matches: 631, Mismatches: 222, Indels: 52
0.70 0.25 0.06
Matches are distributed among these distances:
47 36 0.06
48 27 0.04
49 116 0.18
50 430 0.68
51 21 0.03
52 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACAATGCAGTGG
Found at i:64420432 original size:100 final size:100
Alignment explanation
Indices: 64420258--64421188 Score: 1220
Period size: 100 Copynumber: 9.4 Consensus size: 100
64420248 TAAACATAGT
* * *
64420258 TTGCAAATT-AAAAGATTAAAGCCACAACGGTGAATCTTACTTCTCTGACGATGCAGTGGAACAT
1 TTGC-AATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAG
*
64420322 ATTGAAGCTACAACGGCAAATCTCACTTCCTCGACA
65 ATTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
* * *
64420358 ATGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTAGAATAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
64420423 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
66 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
* * * *
64420458 TTGCAATTTAAAAGATTAAAGTCACAACGGTGAATCTTACTTCTCTGGCAATGCAGTGGAACAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
*
64420523 TTGAAGCTACAACGGCAAATCTCACTTCCTCGACA
66 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
*
64420558 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATACAGTGGAACAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
* *
64420623 TTAAAGCTACAACGGCAAATCTTACTTCCCCGACA
66 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
*
64420658 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTA---CTCTGGTGATGCAGTGGAACAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
64420720 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
66 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
* * * **
64420755 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTAC-TCCCAGGCGATGCAGCGGAGTAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
* *
64420819 TTGAAGCTACAACGGCAAATCTCACTCCCCCGATA
66 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
* * * *
64420854 TTGCAATTCAAAAGATTGAAACCACAACGGTGAATCTTAC-TCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
* ** *
64420918 TTGAAGCTACAATGGCGGATCTCACTTCCTCGACA
66 TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
* * ** * * *
64420953 TTGCAATTCAAAATATTGAAGCCACAACGGCGAATCTTACTTC-CAAGCTATGTAGCGGAACAGA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
* * *
64421017 TTGAAACCACAACGGCGAATCTTC-CTTCCCCGACA
66 TTGAAGCTACAACGGCAAATC-TCACTTCCCCGACA
* * * * * * * *
64421052 TTGC-AGTCAAGTAGATTGAAGCTACAACAGTGAATTTTA-TATCCCTAGCGATGCAGTCGAACA
1 TTGCAATTCAA-AAGATTGAAGCCACAACGGTGAATCTTACT-TCTCTGGCGATGCAGTGGAACA
* * * ** *
64421115 GATTGAAGCTACAATGGCGAGTCTTGCTTTCCCGACA
64 GATTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
* * *
64421152 TTGCAA--CTAAAGATTGAAGCCGCAACGGCGAATCTTA
1 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTA
64421189 TTTCCTTGGC
Statistics
Matches: 741, Mismatches: 80, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
97 93 0.13
98 28 0.04
99 257 0.35
100 362 0.49
101 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCTGGCGATGCAGTGGAACAGA
TTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
Found at i:64422584 original size:3 final size:3
Alignment explanation
Indices: 64422571--64422622 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
64422561 TATTTTAGTG
* ** * * *
64422571 TTA TCA TTA TTA TTA TTA TTA TTA TCC TTA GTA TTA TTA TTA ATA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64422619 TTA T
1 TTA T
64422623 GACTATCATT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:64422751 original size:31 final size:29
Alignment explanation
Indices: 64422709--64422766 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
64422699 CTTACATATG
* *
64422709 TACATATATACTTATATATTATATATATACA
1 TACATAAATACTCAT-T-TTATATATATACA
64422740 TACATAAATACTCATTTTATATATATA
1 TACATAAATACTCATTTTATATATATA
64422767 TTTATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 1 0.04
31 13 0.52
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (29 bp):
TACATAAATACTCATTTTATATATATACA
Found at i:64423102 original size:16 final size:17
Alignment explanation
Indices: 64423083--64423117 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64423073 TGAGTGAATG
64423083 TTTTA-ATTTTATTCGT
1 TTTTATATTTTATTCGT
*
64423099 TTTTATATTTTATTTGT
1 TTTTATATTTTATTCGT
64423116 TT
1 TT
64423118 GGATGTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTATATTTTATTCGT
Found at i:64426079 original size:50 final size:50
Alignment explanation
Indices: 64426016--64426146 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
64426006 ATGACATATT
* ** * *
64426016 CCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATACCATGTC
1 CCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTC
** * *
64426066 CCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 CCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTC
64426116 CCAAACATGGTCTTACATGGGACCTCTCATA
1 CCAAACATGGTCTTACATGGGACCTCTCATA
64426147 ATCTCAATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTC
Found at i:64433301 original size:17 final size:17
Alignment explanation
Indices: 64433279--64433345 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
64433269 TCACTTTTTT
64433279 ACTTACTCATGAATATA
1 ACTTACTCATGAATATA
64433296 ACTTACT--TG-A-AT-
1 ACTTACTCATGAATATA
*
64433308 A---ACTCATGATTATA
1 ACTTACTCATGAATATA
*
64433322 ACTTACTCATGATTATA
1 ACTTACTCATGAATATA
64433339 ACTTACT
1 ACTTACT
64433346 TAAATAACTC
Statistics
Matches: 41, Mismatches: 1, Indels: 16
0.71 0.02 0.28
Matches are distributed among these distances:
9 3 0.07
11 2 0.05
12 1 0.02
13 4 0.10
14 2 0.05
15 2 0.05
17 27 0.66
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (17 bp):
ACTTACTCATGAATATA
Found at i:64433340 original size:43 final size:43
Alignment explanation
Indices: 64433279--64433372 Score: 161
Period size: 43 Copynumber: 2.2 Consensus size: 43
64433269 TCACTTTTTT
*
64433279 ACTTACTCATGAATATAACTTACTTGAATAACTCATGATTATA
1 ACTTACTCATGAATATAACTTACTTAAATAACTCATGATTATA
* *
64433322 ACTTACTCATGATTATAACTTACTTAAATAACTCATGATTTTA
1 ACTTACTCATGAATATAACTTACTTAAATAACTCATGATTATA
64433365 ACTTACTC
1 ACTTACTC
64433373 CTCCCTTGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (43 bp):
ACTTACTCATGAATATAACTTACTTAAATAACTCATGATTATA
Found at i:64433671 original size:50 final size:50
Alignment explanation
Indices: 64433596--64433788 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 50
64433586 TTTTCTGTAC
* * * **
64433596 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
64433646 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGTACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATCGG
* * *
64433696 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
64433752 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
64433789 TCTCATTCTC
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 3 0.03
50 75 0.64
51 3 0.03
53 2 0.02
56 35 0.30
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:64449130 original size:42 final size:40
Alignment explanation
Indices: 64449037--64449394 Score: 563
Period size: 40 Copynumber: 8.8 Consensus size: 40
64449027 ATTACCACAA
* * * ** *
64449037 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* *
64449077 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTC
64449119 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
*
64449159 GCACAAATGCCTGCGGGTCTTAGCCCGAATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCG--GATATATCAACTC
*
64449201 GCACAAATGCCTGCGGGTCTTAGCCCGAATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCG--GATATATCAACTC
64449243 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
64449283 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
64449323 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
*
64449363 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATAT
64449395 CATTCAAATG
Statistics
Matches: 303, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
40 187 0.62
42 116 0.38
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:64449146 original size:82 final size:80
Alignment explanation
Indices: 64449037--64449394 Score: 563
Period size: 82 Copynumber: 4.4 Consensus size: 80
64449027 ATTACCACAA
* * * ** * * *
64449037 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
64449102 CGGATATATATCAACTC
66 CGG--ATATATCAACTC
64449119 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
64449184 CGAATATATATCAACTC
66 CG--GATATATCAACTC
*
64449201 GCACAAATGCCTGCGGGTCTTAGCCCGAATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAAATGCCTGCGGGTCTTAGCCCG--GATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
64449266 CCCGGATATATCAACTC
64 CCCGGATATATCAACTC
64449283 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
64449348 CGGATATATCAACTC
66 CGGATATATCAACTC
*
64449363 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATAT
64449395 CATTCAAATG
Statistics
Matches: 259, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
80 83 0.32
82 137 0.53
84 39 0.15
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (80 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATCAACTC
Found at i:64457560 original size:40 final size:40
Alignment explanation
Indices: 64457516--64457777 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
64457506 GCTCCTCGTT
* *
64457516 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
64457556 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
64457596 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
64457635 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
64457674 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
64457713 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
64457754 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64457778 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:64461386 original size:55 final size:55
Alignment explanation
Indices: 64461323--64461426 Score: 199
Period size: 55 Copynumber: 1.9 Consensus size: 55
64461313 AATTCTAACA
64461323 ATTTTAATAATAAAATAACATTTAAAACATATAAAATTAAAAGAAATTAGTCTTT
1 ATTTTAATAATAAAATAACATTTAAAACATATAAAATTAAAAGAAATTAGTCTTT
*
64461378 ATTTTAATAATAAAATAACATTTAAAACATATAATATTAAAAGAAATTA
1 ATTTTAATAATAAAATAACATTTAAAACATATAAAATTAAAAGAAATTA
64461427 AAACTTAAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.36
Consensus pattern (55 bp):
ATTTTAATAATAAAATAACATTTAAAACATATAAAATTAAAAGAAATTAGTCTTT
Found at i:64468718 original size:29 final size:29
Alignment explanation
Indices: 64468676--64468744 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
64468666 CATTGACGGG
*
64468676 TGAAATGGGATAACT-TCGGCTATAGACTA
1 TGAAAAGGGATAACTCT-GGCTATAGACTA
* *
64468705 TGAAAAGGGATAACTCTGGCTATCGATTA
1 TGAAAAGGGATAACTCTGGCTATAGACTA
64468734 TGAAAAGGGAT
1 TGAAAAGGGAT
64468745 GGTGACGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 35 0.97
30 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (29 bp):
TGAAAAGGGATAACTCTGGCTATAGACTA
Found at i:64468762 original size:29 final size:30
Alignment explanation
Indices: 64468730--64468922 Score: 160
Period size: 30 Copynumber: 6.5 Consensus size: 30
64468720 CTGGCTATCG
64468730 ATTATGAAAAGGGATGGTGACGACCATC-A
1 ATTATGAAAAGGGATGGTGACGACCATCAA
* *
64468759 ATTATGAAAAGGGATGGTGATGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
* ** *
64468789 ACTATGAAAAGGGATGGCT-TTGACTATC-A
1 ATTATGAAAAGGGATGG-TGACGACCATCAA
* * * * *
64468818 ATCATGAAAAGGGATGACT-TCGGCTATCAA
1 ATTATGAAAAGGGATG-GTGACGACCATCAA
* * * **
64468848 ATTATGAAAAGAGATGGTGACAACCCTTGA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
** * *
64468878 ACAATGAAAAGGGATGGTGAAGATCATCAA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
64468908 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
64468923 AGCTTTGGCC
Statistics
Matches: 129, Mismatches: 30, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
29 51 0.40
30 77 0.60
31 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (30 bp):
ATTATGAAAAGGGATGGTGACGACCATCAA
Found at i:64468854 original size:59 final size:58
Alignment explanation
Indices: 64468704--64468868 Score: 149
Period size: 59 Copynumber: 2.8 Consensus size: 58
64468694 GCTATAGACT
* * *
64468704 ATGAAAAGGGATAAC-TCTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAATT
1 ATGAAAAGGGATGACTTC-GGCTATCAATTATGAAAAGGGATGGTGACGACCATCAATC
* * * * ** *
64468762 ATGAAAAGGGATG-GTGAT-GACCATCGAACTATGAAAAGGGATGGCT-TTGACTATCAATC
1 ATGAAAAGGGATGACT--TCGGCTATC-AATTATGAAAAGGGATGG-TGACGACCATCAATC
*
64468821 ATGAAAAGGGATGACTTCGGCTATCAAATTATGAAAAGAGATGGTGAC
1 ATGAAAAGGGATGACTTCGGCTATC-AATTATGAAAAGGGATGGTGAC
64468869 AACCCTTGAA
Statistics
Matches: 81, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
58 19 0.23
59 59 0.73
60 3 0.04
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (58 bp):
ATGAAAAGGGATGACTTCGGCTATCAATTATGAAAAGGGATGGTGACGACCATCAATC
Found at i:64468907 original size:89 final size:90
Alignment explanation
Indices: 64468753--64468948 Score: 213
Period size: 89 Copynumber: 2.2 Consensus size: 90
64468743 ATGGTGACGA
* ** * **
64468753 CCATC-AATTATGAAAAGGGATGGTGATGACCATCGAACTATGAAAAGGGATGGCTTTGACTATC
1 CCATCAAATTATGAAAAGAGATGGTGACAACCATCGAACAATGAAAAGGGATGGCTAAGACTATC
64468817 -AATCATGAAAAGGGAT-GACTTCGG
66 AAATCATGAAAAGGGATAG-CTTCGG
* * *
64468841 CTATCAAATTATGAAAAGAGATGGTGACAACCCTTGAACAATGAAAAGGGATGG-TGAAGA-TCA
1 CCATCAAATTATGAAAAGAGATGGTGACAACCATCGAACAATGAAAAGGGATGGCT-AAGACT-A
* *
64468904 TCAAATTATGAAAAGGGATAGCTTTGG
64 TCAAATCATGAAAAGGGATAGCTTCGG
**
64468931 CCATCGGATTATGAAAAG
1 CCATCAAATTATGAAAAG
64468949 GGTAGCCTCG
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
88 6 0.07
89 47 0.53
90 35 0.39
91 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (90 bp):
CCATCAAATTATGAAAAGAGATGGTGACAACCATCGAACAATGAAAAGGGATGGCTAAGACTATC
AAATCATGAAAAGGGATAGCTTCGG
Found at i:64489364 original size:13 final size:13
Alignment explanation
Indices: 64489346--64489371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64489336 AGTCAACAAG
64489346 GCATTCCTGATGA
1 GCATTCCTGATGA
64489359 GCATTCCTGATGA
1 GCATTCCTGATGA
64489372 TGCAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
GCATTCCTGATGA
Found at i:64491757 original size:115 final size:115
Alignment explanation
Indices: 64491586--64491997 Score: 542
Period size: 115 Copynumber: 3.6 Consensus size: 115
64491576 TGCTTGAGCA
* * * * *
64491586 TTAGAGGCGCTTATGTCAAAACGCCACTATAGAACGAGAATTAGCGGTGCTTGCATAAAAATGCC
1 TTAGCGGCGCTTATGTCAAAACGCCGCTATAGACCGAGAATTAGCGGCGCTTGCATAAAAACGCC
* *
64491651 GCAAAAGTGTTAATCAAAACGCACCATTTTATCTTGAGCTTTTAGTGGCG
66 GCAAAAGTGTTAATCAAAACACATCATTTTATCTTGAGCTTTTAGTGGCG
* * * * *
64491701 TTAGCGGCGCTTATGTGAAAATGCCGCTATAGACCAAGAATTAACGGCGCTTGCATAAAAATGCC
1 TTAGCGGCGCTTATGTCAAAACGCCGCTATAGACCGAGAATTAGCGGCGCTTGCATAAAAACGCC
64491766 GCAAAAGTGTTAATCAAAACACATCATTTTATCTTGAGCTTTTAGTGGCG
66 GCAAAAGTGTTAATCAAAACACATCATTTTATCTTGAGCTTTTAGTGGCG
* * * **
64491816 TTAGCGACGCTTATGTCAAAATGCCGCTATAGACCGAGAATTAGCGGTGCTTTTAT-AAAACGCC
1 TTAGCGGCGCTTATGTCAAAACGCCGCTATAGACCGAGAATTAGCGGCGCTTGCATAAAAACGCC
* * * *
64491880 GCAAAAGTGTTAAT-AAAAAAAATCATTTTATCTTGAGCTTTTAATGGCA
66 GCAAAAGTGTTAATCAAAACACATCATTTTATCTTGAGCTTTTAGTGGCG
* * * * * * *
64491929 TTAGCGGTGCTTCTATCAAAACGCTAG-TATAGACCTAGAATTAGTGGCGCTTCCATAAAAACGC
1 TTAGCGGCGCTTATGTCAAAACGC-CGCTATAGACCGAGAATTAGCGGCGCTTGCATAAAAACGC
64491993 CGCAA
65 CGCAA
64491998 GGATGCATTT
Statistics
Matches: 262, Mismatches: 33, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
113 74 0.28
114 34 0.13
115 154 0.59
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (115 bp):
TTAGCGGCGCTTATGTCAAAACGCCGCTATAGACCGAGAATTAGCGGCGCTTGCATAAAAACGCC
GCAAAAGTGTTAATCAAAACACATCATTTTATCTTGAGCTTTTAGTGGCG
Found at i:64494210 original size:13 final size:14
Alignment explanation
Indices: 64494194--64494222 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64494184 TTATAAATAT
64494194 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
64494207 TTATAATGGTTTAA
1 TTATAATGGTTTAA
64494221 TT
1 TT
64494223 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:64495080 original size:43 final size:43
Alignment explanation
Indices: 64495019--64495140 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
64495009 GTTTTCTACA
* * * *
64495019 AAAGCACTGCTAACGACCATGGCGTATAGCGGCATTTTATATT
1 AAAGCACTGCTAAAGACCATGACCTATAGCGGCATTTAATATT
* * **
64495062 AAGGCACCGCTAAAGACCATGACCTATAGCGGTGTTTAATATT
1 AAAGCACTGCTAAAGACCATGACCTATAGCGGCATTTAATATT
* * * *
64495105 AAAGCGCTGCTAAAGACCAGGACCTTTCGCGGCATT
1 AAAGCACTGCTAAAGACCATGACCTATAGCGGCATT
64495141 CTATAATGAA
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
AAAGCACTGCTAAAGACCATGACCTATAGCGGCATTTAATATT
Found at i:64495137 original size:86 final size:86
Alignment explanation
Indices: 64494988--64495145 Score: 192
Period size: 86 Copynumber: 1.8 Consensus size: 86
64494978 ATAGTGCCGC
* * ** * *
64494988 AAGACTATGACCTATAGTGGTGTTTTCTACAAAAGCACTGCTAACGACCATGGCGTATAGCGGCA
1 AAGACCATGACCTATAGCGGTGTTTAATACAAAAGCACTGCTAAAGACCATGGCCTATAGCGGCA
*
64495053 TTTTATATTAAGGCACCGCTA
66 TTCTATATTAAGGCACCGCTA
** * * *
64495074 AAGACCATGACCTATAGCGGTGTTTAATATTAAAGCGCTGCTAAAGACCA-GGACCTTTCGCGGC
1 AAGACCATGACCTATAGCGGTGTTTAATACAAAAGCACTGCTAAAGACCATGG-CCTATAGCGGC
64495138 ATTCTATA
65 ATTCTATA
64495146 ATGAAGTGCC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
85 2 0.03
86 57 0.97
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (86 bp):
AAGACCATGACCTATAGCGGTGTTTAATACAAAAGCACTGCTAAAGACCATGGCCTATAGCGGCA
TTCTATATTAAGGCACCGCTA
Found at i:64495204 original size:43 final size:43
Alignment explanation
Indices: 64495068--64495205 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
64495058 TATTAAGGCA
* * ** * * *
64495068 CCGCTAAAGACCATGACCTATAGCGGTGTT-TAATATTAAAGCG
1 CCGCTAAAGACCACGACCTTTAGCGGCATTCT-ATAATGAAGAG
* * * *
64495111 CTGCTAAAGACCAGGACCTTTCGCGGCATTCTATAATGAAGTG
1 CCGCTAAAGACCACGACCTTTAGCGGCATTCTATAATGAAGAG
* *
64495154 CCACTAAAGACTACGACCTTTAGCGGCATTTTCTAT-A-GAAGAG
1 CCGCTAAAGACCACGACCTTTAGCGGCA--TTCTATAATGAAGAG
64495197 CCGCTAAAG
1 CCGCTAAAG
64495206 GGCAAAAAGA
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
43 68 0.89
44 2 0.03
45 6 0.08
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGACCACGACCTTTAGCGGCATTCTATAATGAAGAG
Found at i:64497496 original size:2 final size:2
Alignment explanation
Indices: 64497489--64497518 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
64497479 CATTCCGAAG
64497489 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64497519 CACAAGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64498039 original size:28 final size:29
Alignment explanation
Indices: 64497971--64498045 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
64497961 CATGAGATTG
* *
64497971 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAATTATACA
* *
64498000 GCACTAAGTGTGCGAGTTT-GATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACA
64498028 GCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAGTT
64498046 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTATACA
Found at i:64509320 original size:5 final size:5
Alignment explanation
Indices: 64509310--64509334 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
64509300 TTCGTGATTG
64509310 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
64509335 AGGTTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:64516099 original size:41 final size:41
Alignment explanation
Indices: 64516042--64516400 Score: 298
Period size: 41 Copynumber: 8.6 Consensus size: 41
64516032 GGATCCTAGT
* * *
64516042 GGAATCAACACTTAGCAACCACCTTATAATCAATGATACAG
1 GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
* * *
64516083 GGAATTAGCACATAGCAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCACC-TT-ATAATCAATGATACGG
* * * **
64516125 TGGAATTAGCACTTAGCAATCACCTTATAATCAATGATATAG
1 -GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
* * * *
64516167 GGAATCAACACATAGCAACCTA-TTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACC-ACCTT-ATAATCAATGATACGG
*
64516209 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
* * *
64516251 GAAATCAGCACATACCAACC-CCTT-TCACAGTCAAGGATACGG
1 GGAATCAGCACATAGCAACCACCTTAT-A-A-TCAATGATACGG
* ** * * *
64516293 TGGAATCAGTAGTTAACAACAACATTATAATCAATGATACGG
1 -GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
* * * *
64516335 GGAATCAGCACATAGAAACC-CCTTTTTGATCAATGATTCGG
1 GGAATCAGCACATAGCAACCACC-TTATAATCAATGATACGG
* *
64516376 GGAATCTGCACTTAGCAACC-CCTTA
1 GGAATCAGCACATAGCAACCACCTTA
64516401 CATTCAAAGA
Statistics
Matches: 251, Mismatches: 52, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
39 1 0.00
40 10 0.04
41 103 0.41
42 75 0.30
43 55 0.22
44 6 0.02
45 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
Found at i:64516151 original size:84 final size:84
Alignment explanation
Indices: 64516040--64516400 Score: 478
Period size: 84 Copynumber: 4.3 Consensus size: 84
64516030 AAGGATCCTA
* *
64516040 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAGGGAATTAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
64516105 TTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACG
* * * * **
64516124 GTGGAATTAGCACTTAGCAATCACCTTATAATCAATGATATAGGGAATCAACACATAGCAACCTA
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
64516189 TTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACG
*
64516208 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAC-GGGAAATCAGCACATACCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGG-AATCAGCACATAGCAACCC
*
64516272 CTTTCACAGTCAAGGATACG
65 CTTTCACAATCAAGGATACG
* * * * * * *
64516292 GTGGAATCAGTAGTTAACAACAACATTATAATCAATGATACGGGGAATCAGCACATAGAAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
*** * *
64516357 TTT-TTGATCAATGATTCG
66 TTTCACAATCAAGGATACG
*
64516375 G-GGAATCTGCACTTAGCAACC-CCTTA
1 GTGGAATCAGCACTTAGCAACCACCTTA
64516401 CATTCAAAGA
Statistics
Matches: 240, Mismatches: 35, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
81 4 0.02
82 15 0.06
83 13 0.05
84 205 0.85
85 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAGGATACG
Found at i:64544674 original size:24 final size:22
Alignment explanation
Indices: 64544630--64544675 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
64544620 TTGGGTAAAT
*
64544630 AAATAAATAAAACAAAGTAATC
1 AAATAAATAAAACAAACTAATC
64544652 AAATAAATAAAACACAAACTAATC
1 AAATAAAT-AAA-ACAAACTAATC
64544676 CTATGTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 3 0.14
24 10 0.48
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.17
Consensus pattern (22 bp):
AAATAAATAAAACAAACTAATC
Found at i:64571180 original size:50 final size:50
Alignment explanation
Indices: 64571076--64571314 Score: 316
Period size: 50 Copynumber: 4.7 Consensus size: 50
64571066 AAGAGATCTT
64571076 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--GAGAGGTCCC
* *
64571132 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCCC
* *
64571182 ACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGACGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCCC
* * *
64571232 ATGTAAGACCATGTCTGGGATATGACATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCCC
* * * * *
64571282 CTATAAAACCATGTCTGGTACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
64571315 TGTTATGATC
Statistics
Matches: 165, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 127 0.77
52 1 0.01
53 3 0.02
55 2 0.01
56 32 0.19
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCCC
Found at i:64574276 original size:103 final size:103
Alignment explanation
Indices: 64574002--64574370 Score: 553
Period size: 103 Copynumber: 3.6 Consensus size: 103
64573992 TGTATATAAA
** * *
64574002 AGGGGTTGCTGTGTGCTGATTCCCC-ATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATCT
* *
64574065 TTGAAATGTGAAAGGCGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
64574105 AGGGGTTGCTAAGTGCTGATTCCCCGATTTTATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
*
64574170 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCTG
65 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * * *
64574209 AGGGGTTGCTAAATGCTGATTCTCCGATTCATTGGTGATACTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
*
64574274 TGAAATGAAAAGGGAGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
64574312 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCG
64574371 ATAACGGTTA
Statistics
Matches: 241, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
103 146 0.61
104 54 0.22
105 40 0.17
106 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:64574327 original size:27 final size:28
Alignment explanation
Indices: 64574284--64574336 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
64574274 TGAAATGAAA
*
64574284 AGGGAGTTGCTATGTGCTGATTCCCCCG
1 AGGGAGTTGCTAAGTGCTGATTCCCCCG
64574312 AGGG-GTTGCTAAGTGCTGATTCCCC
1 AGGGAGTTGCTAAGTGCTGATTCCCC
64574337 GATTCAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (28 bp):
AGGGAGTTGCTAAGTGCTGATTCCCCCG
Found at i:64576511 original size:792 final size:792
Alignment explanation
Indices: 64574981--64576561 Score: 3099
Period size: 792 Copynumber: 2.0 Consensus size: 792
64574971 TTTTTATGGT
64574981 GAAATGGTATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTCAATTTGGAGCCCTGTAGCTCC
1 GAAATGGTATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTCAATTTGGAGCCCTGTAGCTCC
64575046 AGATAAAAATAAATTAGCGACTATGACGCAGAAAAACAGCTTGCTGGAAATTGCCTAAACAATAA
66 AGATAAAAATAAATTAGCGACTATGACGCAGAAAAACAGCTTGCTGGAAATTGCCTAAACAATAA
64575111 AGTTATTCATGAATAAGTTTATATTTTGGTGTAGTTATGGGAGTAATTACTTATTTATCATGTGT
131 AGTTATTCATGAATAAGTTTATATTTTGGTGTAGTTATGGGAGTAATTACTTATTTATCATGTGT
64575176 TTACTTACTAAGCTATATGCTTACTCGATTTTATTTTTCTCTTGGTTATAGTGACTTCCAACAAC
196 TTACTTACTAAGCTATATGCTTACTCGATTTTATTTTTCTCTTGGTTATAGTGACTTCCAACAAC
64575241 TCGGAAATTGGAACGAAGTCAGACAATCATCTACACTATCCTTCACATTTGGGGTATTTTACTAC
261 TCGGAAATTGGAACGAAGTCAGACAATCATCTACACTATCCTTCACATTTGGGGTATTTTACTAC
64575306 TAGTGTTCCGAAATTTTATGGCATGTATAGACACTTTATGTAATGTGGGATCATCATGTAAATAT
326 TAGTGTTCCGAAATTTTATGGCATGTATAGACACTTTATGTAATGTGGGATCATCATGTAAATAT
64575371 ATGTTATGGTTCCCTTTTAAATGTAGTGTTTATTAATAGTTAAACTATATGTGTGTTTATACAAA
391 ATGTTATGGTTCCCTTTTAAATGTAGTGTTTATTAATAGTTAAACTATATGTGTGTTTATACAAA
64575436 TGAAATTGGTTGGTATATTGGAATGTGTTCTAAATTTGCAGGAGGTTTAAGCAAAAATAAGTAGG
456 TGAAATTGGTTGGTATATTGGAATGTGTTCTAAATTTGCAGGAGGTTTAAGCAAAAATAAGTAGG
64575501 AATGCTGTCGAAAATTTTTAAAAATTTAGTAATACCTCATACTCTGTTCCGGTAAGGAATACGGG
521 AATGCTGTCGAAAATTTTTAAAAATTTAGTAATACCTCATACTCTGTTCCGGTAAGGAATACGGG
64575566 TAAGGGGTGTTACATTTTAGTGGTATCAGAGCTACAGTTTAGTCGATTCTCGGACCAATAAAATA
586 TAAGGGGTGTTACATTTTAGTGGTATCAGAGCTACAGTTTAGTCGATTCTCGGACCAATAAAATA
*
64575631 CGTGTGGAAGTCAGTCTATACATGCCATATAATTATTGTGATAGTGTGATGATTTCTGACAATTT
651 CGTGTGGAAGTCAGTCTATACATGCCATAAAATTATTGTGATAGTGTGATGATTTCTGACAATTT
64575696 AAAATTTTGTTTTATACAGTAAATGGATCCTGATCGAAGTGTGGCAGATGATGTTGAAAGTAACG
716 AAAATTTTGTTTTATACAGTAAATGGATCCTGATCGAAGTGTGGCAGATGATGTTGAAAGTAACG
* *
64575761 TGTCGGCTCCCA
781 CGCCGGCTCCCA
*
64575773 GAAATGGTATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTCAATTTGGAGCCTTGTAGCTCC
1 GAAATGGTATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTCAATTTGGAGCCCTGTAGCTCC
64575838 AGATAAAAATAAATTAGCGACTATGACGCAGAAAAACAGCTTGCTGGAAATTGCCTAAACAATAA
66 AGATAAAAATAAATTAGCGACTATGACGCAGAAAAACAGCTTGCTGGAAATTGCCTAAACAATAA
64575903 AGTTATTCATGAATAAGTTTATATTTTGGTGTAGTTATGGGAGTAATTACTTATTTATCATGTGT
131 AGTTATTCATGAATAAGTTTATATTTTGGTGTAGTTATGGGAGTAATTACTTATTTATCATGTGT
64575968 TTACTTACTAAGCTATATGCTTACTCGATTTTATTTTTCTCTTGGTTATAGTGACTTCCAACAAC
196 TTACTTACTAAGCTATATGCTTACTCGATTTTATTTTTCTCTTGGTTATAGTGACTTCCAACAAC
64576033 TCGGAAATTGGAACGAAGTCAGACAATCATCTACACTATCCTTCACATTTGGGGTATTTTACTAC
261 TCGGAAATTGGAACGAAGTCAGACAATCATCTACACTATCCTTCACATTTGGGGTATTTTACTAC
64576098 TAGTGTTCCGAAATTTTATGGCATGTATAGACACTTTATGTAATGTGGGATCATCATGTAAATAT
326 TAGTGTTCCGAAATTTTATGGCATGTATAGACACTTTATGTAATGTGGGATCATCATGTAAATAT
64576163 ATGTTATGGTTCCCTTTTAAATGTAGTGTTTATTAATAGTTAAACTATATGTGTGTTTATACAAA
391 ATGTTATGGTTCCCTTTTAAATGTAGTGTTTATTAATAGTTAAACTATATGTGTGTTTATACAAA
64576228 TGAAATTGGTTGGTATATTGGAATGTGTTCTAAATTTGCAGGAGGTTTAAGCAAAAATAAGTAGG
456 TGAAATTGGTTGGTATATTGGAATGTGTTCTAAATTTGCAGGAGGTTTAAGCAAAAATAAGTAGG
64576293 AATGCTGTCGAAAATTTTTAAAAATTTAGTAATACCTCATACTCTGTTCCGGTAAGGAATACGGG
521 AATGCTGTCGAAAATTTTTAAAAATTTAGTAATACCTCATACTCTGTTCCGGTAAGGAATACGGG
* *
64576358 TAAGGGGTGTTACATTTTAGTGGTATCAGAGCTACGGTTTAGTCGGTTCTCGGACCAATAAAATA
586 TAAGGGGTGTTACATTTTAGTGGTATCAGAGCTACAGTTTAGTCGATTCTCGGACCAATAAAATA
64576423 CGTGTGGAAGTCAGTCTATACATGCCATAAAATTATTGTGATAGTGTGATGATTTCTGACAATTT
651 CGTGTGGAAGTCAGTCTATACATGCCATAAAATTATTGTGATAGTGTGATGATTTCTGACAATTT
*
64576488 AAAATTTTGTTTTATATAGTAAATGGATCCTGATCGAAGTGTGGCAGATGATGTTGAAAGTAACG
716 AAAATTTTGTTTTATACAGTAAATGGATCCTGATCGAAGTGTGGCAGATGATGTTGAAAGTAACG
64576553 CGCCGGCTC
781 CGCCGGCTC
64576562 TCGCGCAAGG
Statistics
Matches: 782, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
792 782 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (792 bp):
GAAATGGTATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTCAATTTGGAGCCCTGTAGCTCC
AGATAAAAATAAATTAGCGACTATGACGCAGAAAAACAGCTTGCTGGAAATTGCCTAAACAATAA
AGTTATTCATGAATAAGTTTATATTTTGGTGTAGTTATGGGAGTAATTACTTATTTATCATGTGT
TTACTTACTAAGCTATATGCTTACTCGATTTTATTTTTCTCTTGGTTATAGTGACTTCCAACAAC
TCGGAAATTGGAACGAAGTCAGACAATCATCTACACTATCCTTCACATTTGGGGTATTTTACTAC
TAGTGTTCCGAAATTTTATGGCATGTATAGACACTTTATGTAATGTGGGATCATCATGTAAATAT
ATGTTATGGTTCCCTTTTAAATGTAGTGTTTATTAATAGTTAAACTATATGTGTGTTTATACAAA
TGAAATTGGTTGGTATATTGGAATGTGTTCTAAATTTGCAGGAGGTTTAAGCAAAAATAAGTAGG
AATGCTGTCGAAAATTTTTAAAAATTTAGTAATACCTCATACTCTGTTCCGGTAAGGAATACGGG
TAAGGGGTGTTACATTTTAGTGGTATCAGAGCTACAGTTTAGTCGATTCTCGGACCAATAAAATA
CGTGTGGAAGTCAGTCTATACATGCCATAAAATTATTGTGATAGTGTGATGATTTCTGACAATTT
AAAATTTTGTTTTATACAGTAAATGGATCCTGATCGAAGTGTGGCAGATGATGTTGAAAGTAACG
CGCCGGCTCCCA
Found at i:64584654 original size:26 final size:26
Alignment explanation
Indices: 64584591--64584654 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
64584581 TACATTGTTG
* *
64584591 CTCACACGAGCTGTGAAATGAGTATT
1 CTCACACGAGCTGTGAAATGAGCATA
* * *
64584617 CTCACACAAGCTGTGAAATGGGCCTA
1 CTCACACGAGCTGTGAAATGAGCATA
*
64584643 CTCATACGAGCT
1 CTCACACGAGCT
64584655 ATGGGTCGGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGAGCATA
Found at i:64605147 original size:17 final size:17
Alignment explanation
Indices: 64605125--64605157 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
64605115 GTTAGTGCAC
64605125 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
64605142 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
64605158 AATGTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:64612669 original size:17 final size:17
Alignment explanation
Indices: 64612647--64612680 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64612637 GTTAGGTATA
*
64612647 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
64612664 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
64612681 CATGTTAGTG
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:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:64613553 original size:12 final size:12
Alignment explanation
Indices: 64613536--64613560 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64613526 TTAGTTATCC
64613536 TTAGCATGCATT
1 TTAGCATGCATT
64613548 TTAGCATGCATT
1 TTAGCATGCATT
64613560 T
1 T
64613561 AGTTTTCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TTAGCATGCATT
Found at i:64627825 original size:27 final size:27
Alignment explanation
Indices: 64627795--64627881 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
64627785 TTTATCCAAT
64627795 TTAATTAATTAATTAAAACCCAGATTA
1 TTAATTAATTAATTAAAACCCAGATTA
* * * *
64627822 TTAATGAAATATTTTAAAATTATCC--ATT-
1 TTAATTAATTA-ATT-AAA--ACCCAGATTA
64627850 TTAATTAATTAATTAAAACCCAGATTA
1 TTAATTAATTAATTAAAACCCAGATTA
64627877 TTAAT
1 TTAAT
64627882 GAAATATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
24 3 0.07
26 6 0.13
27 16 0.36
28 11 0.24
29 6 0.13
31 3 0.07
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (27 bp):
TTAATTAATTAATTAAAACCCAGATTA
Found at i:64627838 original size:28 final size:28
Alignment explanation
Indices: 64627807--64627895 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
64627797 AATTAATTAA
64627807 TTAAAACCCAGATTATTAATGAAATATT
1 TTAAAACCCAGATTATTAATGAAATATT
* * * *
64627835 TTAAAATTATCC--ATT-TTAATTAATTA-A
1 TT-AAA--ACCCAGATTATTAATGAAATATT
64627862 TTAAAACCCAGATTATTAATGAAATATT
1 TTAAAACCCAGATTATTAATGAAATATT
64627890 TTAAAA
1 TTAAAA
64627896 TTAATTATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
24 3 0.07
26 6 0.13
27 11 0.24
28 17 0.37
29 6 0.13
31 3 0.07
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.39
Consensus pattern (28 bp):
TTAAAACCCAGATTATTAATGAAATATT
Found at i:64627914 original size:59 final size:55
Alignment explanation
Indices: 64627781--64627898 Score: 218
Period size: 55 Copynumber: 2.1 Consensus size: 55
64627771 ACCAAAGAAC
64627781 AAAATTTATCCAATTTAATTAATTAATTAAAACCCAGATTATTAATGAAATATTTT
1 AAAA-TTATCCAATTTAATTAATTAATTAAAACCCAGATTATTAATGAAATATTTT
*
64627837 AAAATTATCCATTTTAATTAATTAATTAAAACCCAGATTATTAATGAAATATTTT
1 AAAATTATCCAATTTAATTAATTAATTAAAACCCAGATTATTAATGAAATATTTT
64627892 AAAATTA
1 AAAATTA
64627899 ATTATCAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 57 0.93
56 4 0.07
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (55 bp):
AAAATTATCCAATTTAATTAATTAATTAAAACCCAGATTATTAATGAAATATTTT
Found at i:64629916 original size:79 final size:80
Alignment explanation
Indices: 64629739--64629962 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
64629729 TTGAATGATG
* * * * *
64629739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAATCCGGGCTAAGACCCGAAGGCAT
*
64629802 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
64629819 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGACCCGAAGGCATTT
*
64629882 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * * *
64629897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAGACCCGAAGGCATT
64629961 TG
65 TG
64629963 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
78 35 0.27
79 57 0.44
80 36 0.28
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:64629976 original size:40 final size:39
Alignment explanation
Indices: 64629739--64629962 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 39
64629729 TTGAATGATG
* * * *
64629739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
64629779 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
*
64629819 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
64629858 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64629897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64629938 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
64629963 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 74 0.45
40 82 0.50
41 9 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64629993 original size:79 final size:79
Alignment explanation
Indices: 64629739--64629995 Score: 238
Period size: 79 Copynumber: 3.3 Consensus size: 79
64629729 TTGAATGATG
* * * * * * *
64629739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-T-ACTAAATCCGGGCTAAG-CCCGAAGGCAT
** * *
64629802 TTGTGCGAGATACTAAT
63 TTGAACGAGTTACTAAA
* *
64629819 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTG
**
64629883 TGCGAGTTACTAAA
66 AACGAGTTACTAAA
* * *
64629897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAG-CCCGAAGGCATT
*
64629961 TGAACGAG-TAGCTATA
64 TGAACGAGTTA-CTAAA
*
64629977 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
64629996 TACGTGATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
78 32 0.21
79 75 0.49
80 44 0.29
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTG
AACGAGTTACTAAA
Found at i:64634884 original size:226 final size:226
Alignment explanation
Indices: 64634490--64634942 Score: 872
Period size: 226 Copynumber: 2.0 Consensus size: 226
64634480 TTAAAGAGAC
64634490 TTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCA
1 TTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCA
64634555 CCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAATCATTGTTTGCTTTACGAGCGA
66 CCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAATCATTGTTTGCTTTACGAGCGA
64634620 TGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAACCATTA
131 TGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAACCATTA
* *
64634685 TTGATTCATTAAATTCGTGAAGC-CTAGAAAG
196 TTGACTCATCAAATTCGTGAAGCTC-AGAAAG
64634716 TTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCA
1 TTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCA
64634781 CCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAATCATTGTTTGCTTTACGAGCGA
66 CCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAATCATTGTTTGCTTTACGAGCGA
64634846 TGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAACCATTA
131 TGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAACCATTA
64634911 TTGACTCATCAAATTCGTGAAGCTCAGAAAG
196 TTGACTCATCAAATTCGTGAAGCTCAGAAAG
64634942 T
1 T
64634943 CGATGATGAA
Statistics
Matches: 224, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
226 223 1.00
227 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (226 bp):
TTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCA
CCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAATCATTGTTTGCTTTACGAGCGA
TGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAACCATTA
TTGACTCATCAAATTCGTGAAGCTCAGAAAG
Found at i:64646112 original size:39 final size:39
Alignment explanation
Indices: 64646069--64646980 Score: 1702
Period size: 39 Copynumber: 23.3 Consensus size: 39
64646059 GGACTAAGAT
*
64646069 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646108 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646147 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646186 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646225 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646264 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646303 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646342 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646381 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646420 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646459 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646498 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646537 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646576 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646615 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646654 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646693 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646732 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646771 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646810 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
64646849 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
* * * *
64646888 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAG-C
* * *
64646928 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTAGGTC
1 CCGAAGGCATTTGTGTGAGA-TACTAAT-TCCGGGCTAAG-C
64646968 CCGAAGGCATTTG
1 CCGAAGGCATTTG
64646981 AACGAGGAGC
Statistics
Matches: 860, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 814 0.95
40 46 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
Found at i:64659405 original size:27 final size:27
Alignment explanation
Indices: 64659374--64659551 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64659364 TAAATTGTAC
64659374 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
64659401 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64659427 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64659455 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64659483 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64659510 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
64659537 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64659552 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:64659488 original size:82 final size:81
Alignment explanation
Indices: 64659375--64659530 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64659365 AAATTGTACA
* *
64659375 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
64659439 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
64659456 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
64659521 TGCGAGTTGA
65 TGCGAATTGA
64659531 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:64659542 original size:82 final size:81
Alignment explanation
Indices: 64659371--64659551 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
64659361 GATTAAATTG
* *
64659371 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
64659436 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
64659452 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
64659516 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
64659534 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
64659552 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:64664838 original size:42 final size:42
Alignment explanation
Indices: 64664747--64664846 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
64664737 TCTGGTTTAG
* *
64664747 CCAATGATGCACTTACGTGCAAATATATTTGCTTCGATATAT
1 CCAATGATGCACTTACGTGCAAATATATTTGCTTAGATACAT
* * * *
64664789 -TATATGATGCACTTATGTGCTAGTATATTTGCATTAG-TACAT
1 CCA-ATGATGCACTTACGTGCAAATATATTTGC-TTAGATACAT
*
64664831 CCAATGATACACTTAC
1 CCAATGATGCACTTAC
64664847 ATGCCATCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.02
42 41 0.89
43 4 0.09
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (42 bp):
CCAATGATGCACTTACGTGCAAATATATTTGCTTAGATACAT
Found at i:64668734 original size:247 final size:247
Alignment explanation
Indices: 64668284--64668768 Score: 709
Period size: 247 Copynumber: 2.0 Consensus size: 247
64668274 TTCATGCCCA
* * * *
64668284 AACTTAATATCCTTCAAACGGTTACTTTAGACACCTCTAAAACCTGCCATTTAACTCACAAATAT
1 AACTTAATATCCTTCAAACAGTTACGTTAGACACCTCTAAAACATGCCATTTAACTAACAAATAT
* * * *
64668349 AAGTACAAAACATACCATTTCTACTTCGAACAAAAGATCTACTAGTTCACATCCAAATCATCAAT
66 AAGCACAAAACATAACATTTCTACTTCAAACAAAAGATCTACTAATTCACATCCAAATCATCAAT
* * *
64668414 CAAACCATAAGTGTTTACTAACCTAATTAATCAACTTCAAGCATGTTAAATCAATTTCACACATT
131 CAAACCATAAGTGTTTACTAACCTAATTAATCAACTTCAAGCATGTTAAATCAAGTTCAAACATC
* *
64668479 TGATTTCAAACCAACTTAACCATCCAACAATATATACTCAATCTTACCATTT
196 TAATTTCAAACAAACTTAACCATCCAACAATATATACTCAATCTTACCATTT
* *
64668531 AACTTAATATCCTTCAAATAGTTACGTTAGACACCTCTAAAACATGCCATTTAGCTAACAAATAT
1 AACTTAATATCCTTCAAACAGTTACGTTAGACACCTCTAAAACATGCCATTTAACTAACAAATAT
* * *
64668596 AGGCACAAAACATAACATTTCTACTTTAAACAAAAGATCTACTAATTCACATTCAAATCATCAAT
66 AAGCACAAAACATAACATTTCTACTTCAAACAAAAGATCTACTAATTCACATCCAAATCATCAAT
* ** * * * * *
64668661 CAAACCATAAGTTTTTACTCGCGTAATTAATTAATTTCAAGTATGTTTAATCAAGTTCAAACATC
131 CAAACCATAAGTGTTTACTAACCTAATTAATCAACTTCAAGCATGTTAAATCAAGTTCAAACATC
* * *
64668726 TAATTTCAAATAAATTTAAGCATCCAACAATATATACTCAATC
196 TAATTTCAAACAAACTTAACCATCCAACAATATATACTCAATC
64668769 CTTTCAAATA
Statistics
Matches: 209, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
247 209 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (247 bp):
AACTTAATATCCTTCAAACAGTTACGTTAGACACCTCTAAAACATGCCATTTAACTAACAAATAT
AAGCACAAAACATAACATTTCTACTTCAAACAAAAGATCTACTAATTCACATCCAAATCATCAAT
CAAACCATAAGTGTTTACTAACCTAATTAATCAACTTCAAGCATGTTAAATCAAGTTCAAACATC
TAATTTCAAACAAACTTAACCATCCAACAATATATACTCAATCTTACCATTT
Found at i:64670705 original size:27 final size:27
Alignment explanation
Indices: 64670667--64670749 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
64670657 ACAACAAGTG
* * *
64670667 AGAATAGCCTTTATGGAAAACTCTAAA
1 AGAATAACCTTTGTGGAAAACTCTGAA
** *
64670694 AGAATAACCTTTGTGGTGAACTTTGAA
1 AGAATAACCTTTGTGGAAAACTCTGAA
* *
64670721 AGAATATCCTTTGTGGCAAACTCTGAA
1 AGAATAACCTTTGTGGAAAACTCTGAA
64670748 AG
1 AG
64670750 GGATGCCTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (27 bp):
AGAATAACCTTTGTGGAAAACTCTGAA
Found at i:64670784 original size:27 final size:27
Alignment explanation
Indices: 64670728--64670785 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
64670718 GAAAGAATAT
* *
64670728 CCTTTGTGGCAAACTCTGAAAGGGATG
1 CCTTTGTGGCAAACTCTGAAAGGAACG
* *
64670755 CCTTTGTGGCAAATTCTGAATGGAACG
1 CCTTTGTGGCAAACTCTGAAAGGAACG
64670782 CCTT
1 CCTT
64670786 AATGGTGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCAAACTCTGAAAGGAACG
Found at i:64672340 original size:12 final size:12
Alignment explanation
Indices: 64672315--64672348 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64672305 GGATTGCAAG
64672315 TTTCCATTTTCA
1 TTTCCATTTTCA
* *
64672327 TTTTCATTTCCA
1 TTTCCATTTTCA
64672339 TTTCCATTTT
1 TTTCCATTTT
64672349 TGGGAACCTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCCATTTTCA
Found at i:64674183 original size:50 final size:51
Alignment explanation
Indices: 64674104--64674244 Score: 164
Period size: 51 Copynumber: 2.8 Consensus size: 51
64674094 GTTGCTAGGA
* *
64674104 CACG-TGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAATA-ATAGGT
1 CACGATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CCGAATACATAGAT
* * * * *
64674154 CGC-ATGTGTAGTATTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGAT
1 CACGATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATA-CATAGAT
*
64674205 CACGA-GTGTAGTACTATGTGCAGGCTACTATGTGAACCGA
1 CACGATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGA
64674245 GTATCATTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
49 6 0.08
50 32 0.42
51 37 0.49
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATACATAGAT
Found at i:64674228 original size:51 final size:50
Alignment explanation
Indices: 64674104--64674236 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 50
64674094 GTTGCTAGGA
* * * *
64674104 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAATAATAGGT
1 CACGAGTGTAGTACTATGTGCAGGCTACTATGCGTATCCGAATAATAGAT
* * * *
64674154 CGC-ATGTGTAGTATTATGTGCAGGCTACTATGCGTA-CCGAATAGCTTCGAT
1 CACGA-GTGTAGTACTATGTGCAGGCTACTATGCGTATCCGAATA--ATAGAT
64674205 CACGAGTGTAGTACTATGTGCAGGCTACTATG
1 CACGAGTGTAGTACTATGTGCAGGCTACTATG
64674237 TGAACCGAGT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 6 0.09
50 31 0.45
51 31 0.45
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
CACGAGTGTAGTACTATGTGCAGGCTACTATGCGTATCCGAATAATAGAT
Found at i:64679800 original size:51 final size:51
Alignment explanation
Indices: 64679636--64679820 Score: 198
Period size: 51 Copynumber: 3.6 Consensus size: 51
64679626 GAAGTTGCTA
* * *
64679636 GGTCACATGTGTAGTACTATGTGCGGGCTACTACATGTACCGGAATG-ATA-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGAAAAT
* * * * ***
64679686 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAAT-AGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAAAAT
* *
64679736 CGATCACGA-GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT
1 -GGTCAC-ATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAAAAT
*
64679788 GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
64679821 TGTGAATCGA
Statistics
Matches: 109, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 66 0.61
52 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAAAAT
Found at i:64682674 original size:5 final size:5
Alignment explanation
Indices: 64682664--64682735 Score: 144
Period size: 5 Copynumber: 14.4 Consensus size: 5
64682654 ATTCGTTCAT
64682664 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
64682714 TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TA
64682736 ATACATAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:64694608 original size:18 final size:18
Alignment explanation
Indices: 64694585--64694624 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
64694575 TATTGATGGA
*
64694585 AATGGTATGGTA-ACAATG
1 AATGGT-TGGTATAAAATG
64694603 AATGGTTGGTATAAAATG
1 AATGGTTGGTATAAAATG
64694621 AATG
1 AATG
64694625 TAGCATGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.30
Consensus pattern (18 bp):
AATGGTTGGTATAAAATG
Found at i:64696141 original size:20 final size:20
Alignment explanation
Indices: 64696065--64696134 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
64696055 AAGCTTATGA
*
64696065 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* *
64696085 TAAGTAAACGAAATCGAAAG
1 TAAGTAAATGAAATGGAAAG
* *
64696105 TAACTAAATGAAATGGTAAG
1 TAAGTAAATGAAATGGAAAG
64696125 TAAGTAAATG
1 TAAGTAAATG
64696135 GAGTGGTTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:64700818 original size:79 final size:82
Alignment explanation
Indices: 64700707--64700891 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
64700697 GCTACTCGTT
* *
64700707 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64700770 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
64700787 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
64700850 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
64700867 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64700892 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:64700891 original size:40 final size:40
Alignment explanation
Indices: 64700688--64700891 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
64700678 CGGAATTTAA
** *
64700688 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64700728 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
64700768 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64700807 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64700847 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64700887 CCGGA
1 CCGGA
64700892 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64708719 original size:40 final size:40
Alignment explanation
Indices: 64708682--64708907 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
64708672 GCTACTCGTT
* *
64708682 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
64708722 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
64708762 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
64708802 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
64708842 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
64708883 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
64708908 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 156 0.91
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:64715263 original size:57 final size:58
Alignment explanation
Indices: 64715174--64715295 Score: 228
Period size: 58 Copynumber: 2.1 Consensus size: 58
64715164 ATCATTTTCA
64715174 GAAATTTATTTAATTTTCTAAAAACAATAGT-AAAAAAATTATCGATAAACCATGTCAC
1 GAAA-TTATTTAATTTTCTAAAAACAATAGTAAAAAAAATTATCGATAAACCATGTCAC
64715232 GAAATTATTTAATTTTCTAAAAACAATAGTAAAAAAAATTATCGATAAACCATGTCAC
1 GAAATTATTTAATTTTCTAAAAACAATAGTAAAAAAAATTATCGATAAACCATGTCAC
64715290 GAAATT
1 GAAATT
64715296 CCAAACACTC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 26 0.41
58 37 0.59
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.32
Consensus pattern (58 bp):
GAAATTATTTAATTTTCTAAAAACAATAGTAAAAAAAATTATCGATAAACCATGTCAC
Found at i:64715308 original size:57 final size:57
Alignment explanation
Indices: 64715190--64715308 Score: 168
Period size: 58 Copynumber: 2.1 Consensus size: 57
64715180 TATTTAATTT
*** ***
64715190 TCTAAAAACAATAGTAAAAAAATTATCGATAAACCATGTCACGAAATTATTTAATTT
1 TCTAAAAACAATAGTAAAAAAATTATCGATAAACCATGTCACGAAATTACCAAACAC
64715247 TCTAAAAACAATAGTAAAAAAAATTATCGATAAACCATGTCACGAAATT-CCAAACAC
1 TCTAAAAACAATAGT-AAAAAAATTATCGATAAACCATGTCACGAAATTACCAAACAC
64715304 TCTAA
1 TCTAA
64715309 GGCTAAAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 22 0.40
58 33 0.60
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (57 bp):
TCTAAAAACAATAGTAAAAAAATTATCGATAAACCATGTCACGAAATTACCAAACAC
Found at i:64724842 original size:15 final size:17
Alignment explanation
Indices: 64724812--64724844 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
64724802 TGCGTGATGC
64724812 TTAAAACTATTTATTAT
1 TTAAAACTATTTATTAT
64724829 TTAAAAC-A-TTATTAT
1 TTAAAACTATTTATTAT
64724844 T
1 T
64724845 GAGACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAAACTATTTATTAT
Found at i:64726637 original size:17 final size:17
Alignment explanation
Indices: 64726615--64726648 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64726605 CGAAGCCTCG
64726615 ACAATGAGTAATCTGAT
1 ACAATGAGTAATCTGAT
64726632 ACAATGAGTAATCTGAT
1 ACAATGAGTAATCTGAT
64726649 CTCCTATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
ACAATGAGTAATCTGAT
Found at i:64736497 original size:8 final size:8
Alignment explanation
Indices: 64736484--64736511 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
64736474 AAAGATTAAA
64736484 ATAATTTT
1 ATAATTTT
64736492 ATAATTTT
1 ATAATTTT
64736500 ATAATTTT
1 ATAATTTT
64736508 ATAA
1 ATAA
64736512 AAGTATGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATAATTTT
Found at i:64737365 original size:3 final size:3
Alignment explanation
Indices: 64737357--64737386 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
64737347 AAATTGTTTT
*
64737357 TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64737387 AAAGGATAAT
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:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64737751 original size:14 final size:16
Alignment explanation
Indices: 64737727--64737771 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
64737717 TATAATTTTA
*
64737727 ATAAATAAAAAAT-AT
1 ATAAATTAAAAATAAT
64737742 -TAAATTAAAAATAAT
1 ATAAATTAAAAATAAT
64737757 ATAAATT-AAAATAAT
1 ATAAATTAAAAATAAT
64737772 TAAGGGTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 11 0.41
15 10 0.37
16 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATTAAAAATAAT
Found at i:64737768 original size:15 final size:15
Alignment explanation
Indices: 64737727--64737771 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
64737717 TATAATTTTA
64737727 ATAAA-TAAAA-AAT
1 ATAAATTAAAATAAT
64737740 ATTAAATTAAAAATAAT
1 A-TAAATT-AAAATAAT
64737757 ATAAATTAAAATAAT
1 ATAAATTAAAATAAT
64737772 TAAGGGTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 4 0.14
15 9 0.32
16 10 0.36
17 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATTAAAATAAT
Found at i:64738461 original size:16 final size:17
Alignment explanation
Indices: 64738440--64738483 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
64738430 GTGAATCGAG
64738440 TTTCTATTTTTT-ATAT
1 TTTCTATTTTTTGATAT
*
64738456 TTTCTATTCTTTTGATTT
1 TTTCTATT-TTTTGATAT
*
64738474 TTTTTATTTT
1 TTTCTATTTT
64738484 ATAAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTATTTTTTGATAT
Found at i:64739137 original size:3 final size:3
Alignment explanation
Indices: 64739081--64739119 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
64739071 TATTTTCTCC
*
64739081 TTA TTA TTA TTA TTA TTA TTA TTA TTTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
64739120 GGTATTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64740770 original size:6 final size:6
Alignment explanation
Indices: 64740759--64740809 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
64740749 ATCTAATTTT
64740759 CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC
1 CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC
64740807 CAC
1 CAC
64740810 TACCAAACCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.18, C:0.67, G:0.00, T:0.16
Consensus pattern (6 bp):
CACCTC
Found at i:64746528 original size:25 final size:25
Alignment explanation
Indices: 64746494--64746543 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
64746484 ATAGTAATGT
64746494 CTTATAAGGAATAAAAAAAACTAAG
1 CTTATAAGGAATAAAAAAAACTAAG
64746519 CTTATAAGGAATAAAAAAAACTAAG
1 CTTATAAGGAATAAAAAAAACTAAG
64746544 GGTGAGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.08, G:0.12, T:0.20
Consensus pattern (25 bp):
CTTATAAGGAATAAAAAAAACTAAG
Found at i:64747185 original size:8 final size:9
Alignment explanation
Indices: 64747153--64747190 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
64747143 TTTATAATTT
*
64747153 TATATTAAA
1 TATATAAAA
*
64747162 TATATTAAA
1 TATATAAAA
64747171 TATATAAAA
1 TATATAAAA
64747180 TA-ATAAAA
1 TATATAAAA
64747188 TAT
1 TAT
64747191 TATGATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TATATAAAA
Found at i:64749501 original size:7 final size:7
Alignment explanation
Indices: 64749482--64749511 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
64749472 AAATCAAATT
64749482 TAATAAA
1 TAATAAA
64749489 -AATAAA
1 TAATAAA
64749495 TAATAAA
1 TAATAAA
64749502 TAATAAA
1 TAATAAA
64749509 TAA
1 TAA
64749512 AAAAAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:64754384 original size:27 final size:28
Alignment explanation
Indices: 64754275--64754396 Score: 183
Period size: 28 Copynumber: 4.4 Consensus size: 28
64754265 GAGATTGGCG
* *
64754275 CTAAGTGTGCGGGTTTAACTATGTAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
64754303 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
*
64754331 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
* *
64754359 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
*
64754386 CTGAGTGTGCG
1 CTAAGTGTGCG
64754397 GACTTAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 23 0.26
28 66 0.74
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGACTATGTAGCA
Found at i:64759802 original size:48 final size:47
Alignment explanation
Indices: 64759726--64759908 Score: 239
Period size: 48 Copynumber: 3.9 Consensus size: 47
64759716 GTCTCATATC
64759726 GATGCCATATCCTAGATATGGTCTTATACGGGATCTCAAATCGATGCT
1 GATGCCATATCCTAGATATGGTCTTATACGGGATCTCAAATC-ATGCT
* * *
64759774 GATGTCATATCCTAGATATAGTCTTATACGAGATCTCAAATC--G-T
1 GATGCCATATCCTAGATATGGTCTTATACGGGATCTCAAATCATGCT
* * *
64759818 GATGCCATATCCAAGATATGATCTTATACGGGATCTCAAATCAATGCC
1 GATGCCATATCCTAGATATGGTCTTATACGGGATCTCAAATC-ATGCT
* *
64759866 GATGCCATAT-CTCAGGTATGGTCTTATACGGAATCTCAAATCA
1 GATGCCATATCCT-AGATATGGTCTTATACGGGATCTCAAATCA
64759909 ATTCGGCAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
44 38 0.32
45 1 0.01
47 3 0.03
48 75 0.64
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (47 bp):
GATGCCATATCCTAGATATGGTCTTATACGGGATCTCAAATCATGCT
Found at i:64759835 original size:92 final size:90
Alignment explanation
Indices: 64759682--64759907 Score: 269
Period size: 92 Copynumber: 2.5 Consensus size: 90
64759672 AATCTCATAT
* * * * * *
64759682 CGATGCCAATAGCCCAGCTATAGTCTTACACGA-AGTCTCATATCGATGCCATATCCTAGATATG
1 CGATGCC-ATATCTCAGATATAGTCTTATACGAGA-TCTCAAATCGATGCCATATCCAAGATATG
* *
64759746 GTCTTATACGGGATCTCAAATCGATGC
64 ATCTTATACGGGATCTCAAATCAATGC
* *
64759773 TGATGTCATATC-CTAGATATAGTCTTATACGAGATCTCAAATCGTGATGCCATATCCAAGATAT
1 CGATGCCATATCTC-AGATATAGTCTTATACGAGATCTCAAATC--GATGCCATATCCAAGATAT
64759837 GATCTTATACGGGATCTCAAATCAATGC
63 GATCTTATACGGGATCTCAAATCAATGC
* *
64759865 CGATGCCATATCTCAGGTATGGTCTTATACG-GAATCTCAAATC
1 CGATGCCATATCTCAGATATAGTCTTATACGAG-ATCTCAAATC
64759908 AATTCGGCAA
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
89 1 0.01
90 28 0.24
91 7 0.06
92 79 0.68
93 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (90 bp):
CGATGCCATATCTCAGATATAGTCTTATACGAGATCTCAAATCGATGCCATATCCAAGATATGAT
CTTATACGGGATCTCAAATCAATGC
Found at i:64759938 original size:32 final size:31
Alignment explanation
Indices: 64759901--64759987 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 31
64759891 ATACGGAATC
64759901 TCAAATCAATTCGGCAATATATATATACATA
1 TCAAATCAATTCGGCAATATATATATACATA
** *
64759932 TACAAATCAATTCGAAAATGTATATATCTACATA
1 T-CAAATCAATTCGGCAA--TATATATATACATA
64759966 T-AAATCAATTCGGCAATATATA
1 TCAAATCAATTCGGCAATATATA
64759988 AAAAATATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
30 6 0.12
31 1 0.02
32 27 0.56
34 14 0.29
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (31 bp):
TCAAATCAATTCGGCAATATATATATACATA
Found at i:64760646 original size:21 final size:22
Alignment explanation
Indices: 64760615--64760655 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
64760605 AAAATAGGGT
64760615 TGGCTGAAAGTTCAAGCTTCAA
1 TGGCTGAAAGTTCAAGCTTCAA
64760637 TGGCT-AAAGTTCAAGCTTC
1 TGGCTGAAAGTTCAAGCTTC
64760656 TATCTCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (22 bp):
TGGCTGAAAGTTCAAGCTTCAA
Found at i:64761663 original size:20 final size:20
Alignment explanation
Indices: 64761602--64761663 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
64761592 CCGTAGTGCG
* *
64761602 AACAGGGACACCAAAGTGTA
1 AACAGGGGCACCAAAGTGAA
* **
64761622 TACAGGGGCACTGAAGTGAA
1 AACAGGGGCACCAAAGTGAA
64761642 AACAGGGGCACCAAAGTGAA
1 AACAGGGGCACCAAAGTGAA
64761662 AA
1 AA
64761664 TCCCGTACAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.29, T:0.10
Consensus pattern (20 bp):
AACAGGGGCACCAAAGTGAA
Found at i:64763538 original size:38 final size:38
Alignment explanation
Indices: 64763485--64763561 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
64763475 CAAATGTTTT
* *
64763485 TCCCTACATCTCAAAATTCTGTAAAGAATTAATGGTTC
1 TCCCTACATCACAAAATTCTCTAAAGAATTAATGGTTC
64763523 TCCCTACATCACAAAATTCTCTAAAGAATTAATGGTTC
1 TCCCTACATCACAAAATTCTCTAAAGAATTAATGGTTC
64763561 T
1 T
64763562 TCATGATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (38 bp):
TCCCTACATCACAAAATTCTCTAAAGAATTAATGGTTC
Found at i:64786470 original size:27 final size:28
Alignment explanation
Indices: 64786430--64786486 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
64786420 ATATGAATAC
* *
64786430 TTACCGTTCTTTCCC-TTTTCATGCTCG
1 TTACCATTCCTTCCCTTTTTCATGCTCG
64786457 TTACCATTCCTTCCCTTTTTCATGCTCG
1 TTACCATTCCTTCCCTTTTTCATGCTCG
64786485 TT
1 TT
64786487 GAACCACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.09, C:0.33, G:0.09, T:0.49
Consensus pattern (28 bp):
TTACCATTCCTTCCCTTTTTCATGCTCG
Found at i:64801834 original size:77 final size:77
Alignment explanation
Indices: 64801707--64802017 Score: 613
Period size: 77 Copynumber: 4.0 Consensus size: 77
64801697 TTGTTACTAA
64801707 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
1 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
64801772 GAATGCTTGTAT
66 GAATGCTTGTAT
64801784 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
1 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
64801849 GAATGCTTGTAT
66 GAATGCTTGTAT
64801861 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
1 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
64801926 GAATGCTTGTAT
66 GAATGCTTGTAT
*
64801938 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAAAATG
1 GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
64802003 GAATGCTTGTAT
66 GAATGCTTGTAT
64802015 GAT
1 GAT
64802018 TTTAGCCTTA
Statistics
Matches: 233, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 233 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (77 bp):
GATAGTTTGTATGCAAGTATGAATGATGATTTTATCTAAGTGAAAGTATATTATCATGAAGAATG
GAATGCTTGTAT
Found at i:64807813 original size:19 final size:20
Alignment explanation
Indices: 64807784--64807821 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
64807774 TGATGGTTGT
64807784 TTTATATATATATATGATAC
1 TTTATATATATATATGATAC
64807804 TTTA-ATATATATATGATA
1 TTTATATATATATATGATA
64807822 TGTTTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATATATATATATGATAC
Found at i:64807828 original size:21 final size:21
Alignment explanation
Indices: 64807781--64807830 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
64807771 CATTGATGGT
64807781 TGTTTTATATATATATATGATA
1 TGTTTTA-ATATATATATGATA
*
64807803 --CTTTAATATATATATGATA
1 TGTTTTAATATATATATGATA
64807822 TGTTTTAAT
1 TGTTTTAAT
64807831 GAATGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 14 0.58
20 4 0.17
21 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (21 bp):
TGTTTTAATATATATATGATA
Found at i:64808197 original size:17 final size:17
Alignment explanation
Indices: 64808175--64808211 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
64808165 ATTGAAAACC
64808175 CTTCTTGAAATTTAAAA
1 CTTCTTGAAATTTAAAA
**
64808192 CTTCTTGCCATTTAAAA
1 CTTCTTGAAATTTAAAA
64808209 CTT
1 CTT
64808212 GTACAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (17 bp):
CTTCTTGAAATTTAAAA
Done.