Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 25 of 130
Found at i:6463849 original size:25 final size:25
Alignment explanation
Indices: 6463820--6463871 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
6463810 AACCATGCAC
*
6463820 TTCCCACATCTTAAACCTTT-AGCTT
1 TTCCCACATCTCAAA-CTTTCAGCTT
6463845 TTCCCACATCTCAAACTTTCAGCTT
1 TTCCCACATCTCAAACTTTCAGCTT
6463870 TT
1 TT
6463872 TCACGTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.23, C:0.33, G:0.04, T:0.40
Consensus pattern (25 bp):
TTCCCACATCTCAAACTTTCAGCTT
Found at i:6463880 original size:24 final size:24
Alignment explanation
Indices: 6463824--6463902 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
6463814 ATGCACTTCC
* *
6463824 CACATCTTAAACCTTT-AGCTTTTCC
1 CACATCTCAAA-CTTTCAGCTTTT-T
6463849 CACATCTCAAACTTTCAGCTTTTT
1 CACATCTCAAACTTTCAGCTTTTT
* * * *
6463873 CACGTCTCTAACCTTCGGCTCTTTT
1 CACATCTCAAACTTTCAGCT-TTTT
6463898 CACAT
1 CACAT
6463903 TTTGAATCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
24 20 0.44
25 25 0.56
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (24 bp):
CACATCTCAAACTTTCAGCTTTTT
Found at i:6466465 original size:18 final size:18
Alignment explanation
Indices: 6466444--6466480 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6466434 CTTTTTCAAC
*
6466444 TTTTTAAATATATTATAT
1 TTTTTAAATATATAATAT
6466462 TTTTTAAATATATAATAT
1 TTTTTAAATATATAATAT
6466480 T
1 T
6466481 ATAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAAATATATAATAT
Found at i:6466611 original size:26 final size:24
Alignment explanation
Indices: 6466560--6466606 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6466550 ACCATTTGAC
*
6466560 TTATATTTTATATTTTTAAAAATT
1 TTATATTTTATATATTTAAAAATT
6466584 TTATATATTTAT-TATTTAAAAAT
1 TTATAT-TTTATATATTTAAAAAT
6466607 ATTTTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATATTTTATATATTTAAAAATT
Found at i:6467388 original size:22 final size:21
Alignment explanation
Indices: 6467332--6467388 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
6467322 AGGATGATAG
* *
6467332 TTAGTTGGATTTTTTTGTAAA
1 TTAGTTTGTTTTTTTTGTAAA
* *
6467353 TTAGTTTGTGTTTTTTGTTTAA
1 TTAGTTTGTTTTTTTTG-TAAA
6467375 TTAG--TGTTTTTTTT
1 TTAGTTTGTTTTTTTT
6467389 ATGCAGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 9 0.30
21 14 0.47
22 7 0.23
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.67
Consensus pattern (21 bp):
TTAGTTTGTTTTTTTTGTAAA
Found at i:6472803 original size:15 final size:15
Alignment explanation
Indices: 6472783--6472812 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6472773 TATTTGAGTG
6472783 TTTTTATCTTTTATT
1 TTTTTATCTTTTATT
*
6472798 TTTTTATTTTTTATT
1 TTTTTATCTTTTATT
6472813 AGATAACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATCTTTTATT
Found at i:6473454 original size:27 final size:27
Alignment explanation
Indices: 6473424--6473477 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
6473414 AAATAATATA
6473424 AAAATATAG-ATAAA-AGTGATATAGGTT
1 AAAATATAGTATAAACA-T-ATATAGGTT
*
6473451 AAAATTTAGTATAAACATATATAGGTT
1 AAAATATAGTATAAACATATATAGGTT
6473478 TAATTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 17 0.71
28 6 0.25
29 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.15, T:0.33
Consensus pattern (27 bp):
AAAATATAGTATAAACATATATAGGTT
Found at i:6478874 original size:22 final size:22
Alignment explanation
Indices: 6478847--6478889 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6478837 AATATATTTT
*
6478847 ATAAAAATAAATAAAGAAAAAG
1 ATAAAAACAAATAAAGAAAAAG
* *
6478869 ATAAAAACAATTCAAGAAAAA
1 ATAAAAACAAATAAAGAAAAA
6478890 TTTGATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (22 bp):
ATAAAAACAAATAAAGAAAAAG
Found at i:6482765 original size:48 final size:48
Alignment explanation
Indices: 6482678--6482818 Score: 133
Period size: 48 Copynumber: 2.9 Consensus size: 48
6482668 TAAGGCTGGA
* * *
6482678 CCCAAACCATCAGGAGTCAATGATCCCGAATCCAATCTTGAACCCAAG
1 CCCAAACCATCAGGAGTCAATCATCCAGAACCCAATCTTGAACCCAAG
* * **
6482726 CCCATACCATCAGGAGTCACA-CATCCAGAACCCAGTCTTGAA-CCTTG
1 CCCAAACCATCAGGAGTCA-ATCATCCAGAACCCAATCTTGAACCCAAG
* * * * **
6482773 CCCAAGTCCATCTGGCGTCAATGATCCAGAACCCAGCCTTGAACCC
1 CCCAA-ACCATCAGGAGTCAATCATCCAGAACCCAATCTTGAACCC
6482819 CATTTGCGAG
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
47 8 0.11
48 65 0.86
49 3 0.04
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.18
Consensus pattern (48 bp):
CCCAAACCATCAGGAGTCAATCATCCAGAACCCAATCTTGAACCCAAG
Found at i:6487211 original size:15 final size:15
Alignment explanation
Indices: 6487186--6487284 Score: 57
Period size: 15 Copynumber: 6.6 Consensus size: 15
6487176 GCATATTATT
6487186 TATAA-TAATTTTAA
1 TATAATTAATTTTAA
6487200 TATAATTAATTTATAA
1 TATAATTAATTT-TAA
* *
6487216 TA-CATAAATTTTAA
1 TATAATTAATTTTAA
*
6487230 -ATGAAATTTATATTTATA
1 TAT--AATTAAT-TTTA-A
*
6487248 TATAA-TAAGTTTATA
1 TATAATTAATTTTA-A
*
6487263 TATAATT--TTTTAT
1 TATAATTAATTTTAA
6487276 TATAATTAA
1 TATAATTAA
6487285 ATAATTATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 21
0.68 0.09 0.22
Matches are distributed among these distances:
13 8 0.12
14 12 0.18
15 24 0.37
16 12 0.18
17 6 0.09
18 1 0.02
19 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (15 bp):
TATAATTAATTTTAA
Found at i:6495039 original size:56 final size:57
Alignment explanation
Indices: 6494938--6495044 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 57
6494928 AGTATCGTGA
* *
6494938 GTGCTATAACCTTAAATAAAAATATCCTTAGTGAAGTTTAAGATTTTTTTATTGCGG
1 GTGCTATAACCTTAAATAAAAATATCCTTAATCAAGTTTAAGATTTTTTTATTGCGG
** * *
6494995 GTGCTATAACCTT-AATTGAAATATTCTTAATCAAGTTTATGATTTTTTTA
1 GTGCTATAACCTTAAATAAAAATATCCTTAATCAAGTTTAAGATTTTTTTA
6495045 ACAAGAATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
56 31 0.70
57 13 0.30
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (57 bp):
GTGCTATAACCTTAAATAAAAATATCCTTAATCAAGTTTAAGATTTTTTTATTGCGG
Found at i:6502603 original size:13 final size:13
Alignment explanation
Indices: 6502587--6502616 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6502577 ATGTTTTGAT
6502587 TATGAAATTAATG
1 TATGAAATTAATG
*
6502600 TATGAGATTAATG
1 TATGAAATTAATG
6502613 TATG
1 TATG
6502617 CACTGTCGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
TATGAAATTAATG
Found at i:6504698 original size:21 final size:22
Alignment explanation
Indices: 6504673--6504727 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6504663 AATTTCAATT
* *
6504673 ATATT-ATTTTAATAATATTTA
1 ATATTGATTTAAAGAATATTTA
6504694 ATATTGATTTAAAGAATA-TTA
1 ATATTGATTTAAAGAATATTTA
*
6504715 TATATTTATTTAA
1 -ATATTGATTTAA
6504728 TTTATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
ATATTGATTTAAAGAATATTTA
Found at i:6504713 original size:36 final size:36
Alignment explanation
Indices: 6504639--6504715 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
6504629 GATATTTTAC
* * **
6504639 TATTA-TTTAGTAATATTCTAAATTAATTTCAATTA
1 TATTATTTTAATAATATTCTAAATTAATTTAAAGAA
*
6504674 TATTATTTTAATAATATT-TAATATTGATTTAAAGAA
1 TATTATTTTAATAATATTCTAA-ATTAATTTAAAGAA
6504710 TATTAT
1 TATTAT
6504716 ATATTTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 8 0.23
36 27 0.77
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (36 bp):
TATTATTTTAATAATATTCTAAATTAATTTAAAGAA
Found at i:6504777 original size:16 final size:17
Alignment explanation
Indices: 6504756--6504791 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6504746 TTAGTCATTC
*
6504756 TTTTTA-TTTATTATAT
1 TTTTTATTTTATAATAT
6504772 TTTTTATTTTATAATAT
1 TTTTTATTTTATAATAT
6504789 TTT
1 TTT
6504792 ATCTCTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTATAATAT
Found at i:6512906 original size:21 final size:21
Alignment explanation
Indices: 6512872--6512920 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6512862 CCTTTTCCTA
6512872 TTTC-TCTATTTCTCTATTTC
1 TTTCTTCTATTTCTCTATTTC
*
6512892 TTT-TTCTAGTTTCTCTTTTTC
1 TTTCTTCTA-TTTCTCTATTTC
6512913 TTTCTTCT
1 TTTCTTCT
6512921 CTGGTGGCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTCTTCTATTTCTCTATTTC
Found at i:6517784 original size:160 final size:161
Alignment explanation
Indices: 6517517--6517832 Score: 553
Period size: 160 Copynumber: 2.0 Consensus size: 161
6517507 TTGTCAATTT
* *
6517517 TATTATAAAGCTAGTATCACCCTCTATGATCTTAAACAGTATTTACTTCTGTCTTGGGTTGCTAC
1 TATTATAAAGCTAGTATCACCCTCTATGATCTTAAACAGTATTTACTTCTGTCCTAGGTTGCTAC
* * *
6517582 TTTATCAATGTCTCAAAAATAACTGTAACTTTGATATCACTTGTTGGGTATAAAATGATAAACAC
66 TTTATCAATGTATCAAAAATAACTGTAACTCTGATATCACTTGTTGGGTATAAAACGATAAACAC
6517647 AATAACACAAAAGCAATATATTATAATTTGA
131 AATAACACAAAAGCAATATATTATAATTTGA
*
6517678 TATTATAAAGCTAGTATCACCCTCTATGATCTTAAATAGTATTTACTTCTG-CCTAGGTTGCTAC
1 TATTATAAAGCTAGTATCACCCTCTATGATCTTAAACAGTATTTACTTCTGTCCTAGGTTGCTAC
*
6517742 TTTATCAATGTATCAAAAATAACTGTAACTCTGATATCACTTGTTGGGTATAAAACGATAAATAC
66 TTTATCAATGTATCAAAAATAACTGTAACTCTGATATCACTTGTTGGGTATAAAACGATAAACAC
*
6517807 AATAACACAAAAGTAATATATTATAA
131 AATAACACAAAAGCAATATATTATAA
6517833 CAAGCCCATA
Statistics
Matches: 147, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
160 97 0.66
161 50 0.34
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (161 bp):
TATTATAAAGCTAGTATCACCCTCTATGATCTTAAACAGTATTTACTTCTGTCCTAGGTTGCTAC
TTTATCAATGTATCAAAAATAACTGTAACTCTGATATCACTTGTTGGGTATAAAACGATAAACAC
AATAACACAAAAGCAATATATTATAATTTGA
Found at i:6517881 original size:17 final size:17
Alignment explanation
Indices: 6517840--6517880 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
6517830 TAACAAGCCC
*
6517840 ATAATAAATAAACAACA
1 ATAAAAAATAAACAACA
*
6517857 ATAAAAAATTAACAAC-
1 ATAAAAAATAAACAACA
6517873 ATAAAAAA
1 ATAAAAAA
6517881 AAATAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAAAAATAAACAACA
Found at i:6518231 original size:15 final size:14
Alignment explanation
Indices: 6518211--6518272 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 14
6518201 ATCTGATAAC
6518211 TCTTATTTCTCTTTT
1 TCTT-TTTCTCTTTT
*
6518226 TCTTATTTCTCTCTT
1 TCTT-TTTCTCTTTT
**
6518241 TCTTTTTCT-GGTT
1 TCTTTTTCTCTTTT
*
6518254 TCTTTTTTTCTTTT
1 TCTTTTTCTCTTTT
6518268 TCTTT
1 TCTTT
6518273 GACAGCTCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
13 10 0.25
14 12 0.30
15 18 0.45
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.74
Consensus pattern (14 bp):
TCTTTTTCTCTTTT
Found at i:6518245 original size:21 final size:21
Alignment explanation
Indices: 6518220--6518271 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
6518210 CTCTTATTTC
6518220 TCTTTTTCTTATTTCTCTCTT
1 TCTTTTTCTTATTTCTCTCTT
** * *
6518241 TCTTTTTCTGGTTTCTTTTTT
1 TCTTTTTCTTATTTCTCTCTT
6518262 TCTTTTTCTT
1 TCTTTTTCTT
6518272 TGACAGCTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (21 bp):
TCTTTTTCTTATTTCTCTCTT
Found at i:6521820 original size:15 final size:16
Alignment explanation
Indices: 6521802--6521837 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6521792 TAAAATTTTA
6521802 TATTATTTTA-TTATT
1 TATTATTTTAGTTATT
6521817 TATTA-TTTAGTTATT
1 TATTATTTTAGTTATT
6521832 T-TTATT
1 TATTATT
6521838 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTATTTTAGTTATT
Found at i:6522357 original size:3 final size:3
Alignment explanation
Indices: 6522351--6522392 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
6522341 TTATTACTAG
*
6522351 TAA TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6522393 TCATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6522456 original size:12 final size:12
Alignment explanation
Indices: 6522425--6522463 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6522415 AACACAAAAT
6522425 AAATAAAATAG-A
1 AAATAAAA-AGAA
6522437 AAATAAAAAGAA
1 AAATAAAAAGAA
6522449 AAATAAAAAAGAA
1 AAAT-AAAAAGAA
6522462 AA
1 AA
6522464 CCTATGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.08
12 13 0.52
13 10 0.40
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:6522457 original size:13 final size:13
Alignment explanation
Indices: 6522425--6522463 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6522415 AACACAAAAT
*
6522425 AAATAAAATAG-A
1 AAATAAAAAAGAA
6522437 AAAT-AAAAAGAA
1 AAATAAAAAAGAA
6522449 AAATAAAAAAGAA
1 AAATAAAAAAGAA
6522462 AA
1 AA
6522464 CCTATGAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 5 0.21
12 9 0.38
13 10 0.42
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (13 bp):
AAATAAAAAAGAA
Found at i:6522766 original size:19 final size:19
Alignment explanation
Indices: 6522742--6522779 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6522732 CCCAAATTCT
6522742 AGTCACCAAAAAATTCAAA
1 AGTCACCAAAAAATTCAAA
*
6522761 AGTCACCGAAAAATTCAAA
1 AGTCACCAAAAAATTCAAA
6522780 CTTTCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.21, G:0.08, T:0.16
Consensus pattern (19 bp):
AGTCACCAAAAAATTCAAA
Found at i:6523545 original size:40 final size:39
Alignment explanation
Indices: 6523492--6523663 Score: 177
Period size: 40 Copynumber: 4.4 Consensus size: 39
6523482 GTTATGAAAT
* * *
6523492 TTTAAATTCAAAAGGCTCCTATCACTAGAGGCAAAGAAC
1 TTTAAATTCAAAAAGCTCCTTTAACTAGAGGCAAAGAAC
* * * *
6523531 TTTAAATTCAAAAAGCTCATTTAACCAAAGGCAACGAAC
1 TTTAAATTCAAAAAGCTCCTTTAACTAGAGGCAAAGAAC
* *
6523570 TTTAAATATTAAAAAGCT-CTTCTAACTAGAGGCAAAAAAC
1 TTTAAAT-TCAAAAAGCTCCTT-TAACTAGAGGCAAAGAAC
* * *
6523610 TTTAAATGTTAAAAGGCTCCTTTAACTAGAGGCAACA-AAT
1 TTTAAAT-TCAAAAAGCTCCTTTAACTAGAGGCAA-AGAAC
*
6523650 TTTAAATTAAAAAA
1 TTTAAATTCAAAAA
6523664 AAAAACTTAT
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 46 0.41
40 61 0.55
41 4 0.04
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (39 bp):
TTTAAATTCAAAAAGCTCCTTTAACTAGAGGCAAAGAAC
Found at i:6523663 original size:79 final size:78
Alignment explanation
Indices: 6523488--6523663 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 78
6523478 AAAGGTTATG
* * * *
6523488 AAATTTTAAATTCAAAAGGCTCCTATCACTAGAGGCAAAGAACTTTAAATTCAAAAAGCTCATTT
1 AAATTTTAAATTAAAAAAGCTCCTATAACTAGAGGCAAAAAACTTTAAATTCAAAAAGCTCATTT
6523553 AACCAAAGGCAAC
66 AACCAAAGGCAAC
* * * * * * * *
6523566 GAACTTTAAATATTAAAAAGCTCTTCTAACTAGAGGCAAAAAACTTTAAATGTTAAAAGGCTCCT
1 AAATTTTAAAT-TAAAAAAGCTCCTATAACTAGAGGCAAAAAACTTTAAAT-TCAAAAAGCTCAT
* *
6523631 TTAACTAGAGGCAAC
64 TTAACCAAAGGCAAC
6523646 AAATTTTAAATTAAAAAA
1 AAATTTTAAATTAAAAAA
6523664 AAAAACTTAT
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 9 0.11
79 39 0.49
80 32 0.40
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (78 bp):
AAATTTTAAATTAAAAAAGCTCCTATAACTAGAGGCAAAAAACTTTAAATTCAAAAAGCTCATTT
AACCAAAGGCAAC
Found at i:6523937 original size:39 final size:39
Alignment explanation
Indices: 6523857--6523942 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
6523847 ACCAAAGGCT
* * * *
6523857 CTTAAAAGTAAACAGCTCCTCTATCCAGAGGCTATGAAA
1 CTTAAATGTAAAAAGCTCCTCTAACCAGAGGCAATGAAA
*
6523896 CTTAAATGTTAAAAAGCTCCTCTAACCAGAGTCAATG-AA
1 CTTAAATG-TAAAAAGCTCCTCTAACCAGAGGCAATGAAA
6523935 CTTTAAAT
1 C-TTAAAT
6523943 TCAAAATGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.27
Consensus pattern (39 bp):
CTTAAATGTAAAAAGCTCCTCTAACCAGAGGCAATGAAA
Found at i:6529119 original size:39 final size:39
Alignment explanation
Indices: 6529067--6529145 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
6529057 GAGACCTTCA
* **
6529067 TCATAGAAAAAAGTTTCTTTTGAGATCCAAGTTTTTGAC
1 TCATACAAAAAAGTTTCTTTCAAGATCCAAGTTTTTGAC
*
6529106 TCATACAAGAAAGTTTCTTTCAAGATCCAAGTTTTTGAC
1 TCATACAAAAAAGTTTCTTTCAAGATCCAAGTTTTTGAC
6529145 T
1 T
6529146 TTGCCAATAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (39 bp):
TCATACAAAAAAGTTTCTTTCAAGATCCAAGTTTTTGAC
Found at i:6530946 original size:30 final size:33
Alignment explanation
Indices: 6530910--6530969 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
6530900 AACAAGATCC
6530910 TAATTAA-AAATT-ATTTTT-TTATAGTTAAAG
1 TAATTAATAAATTAATTTTTATTATAGTTAAAG
* *
6530940 TAATTAATTAATTAATTTTTATTATGGTTA
1 TAATTAATAAATTAATTTTTATTATAGTTA
6530970 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 4 0.16
32 6 0.24
33 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (33 bp):
TAATTAATAAATTAATTTTTATTATAGTTAAAG
Found at i:6531375 original size:17 final size:18
Alignment explanation
Indices: 6531344--6531377 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6531334 ATCATTATAA
6531344 TTATATTTATCATTTTTC
1 TTATATTTATCATTTTTC
*
6531362 TTAT-TTTATTATTTTT
1 TTATATTTATCATTTTT
6531378 TAGTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATATTTATCATTTTTC
Found at i:6533101 original size:19 final size:18
Alignment explanation
Indices: 6533079--6533142 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
6533069 TCTAATTTAT
6533079 TATTTTTAAGTAATAAAAA
1 TATTTTTAA-TAATAAAAA
*
6533098 TATTATTATAAAAATAAAAA
1 TATT-TT-TAATAATAAAAA
* *
6533118 TAATTTAAATAAATAAAATA
1 TATTTTTAAT-AATAAAA-A
6533138 TATTT
1 TATTT
6533143 ATCAAAGAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 18 0.50
21 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TATTTTTAATAATAAAAA
Found at i:6533115 original size:20 final size:19
Alignment explanation
Indices: 6533090--6533142 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
6533080 ATTTTTAAGT
6533090 AATAAAAATATTATTATAA-A
1 AATAAAAATATT-TTA-AATA
*
6533110 AATAAAAATAATTTAAATA
1 AATAAAAATATTTTAAATA
6533129 AATAAAATATATTT
1 AATAAAA-ATATTT
6533143 ATCAAAGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 2 0.07
19 11 0.38
20 16 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAAAAATATTTTAAATA
Found at i:6534158 original size:253 final size:252
Alignment explanation
Indices: 6533707--6534215 Score: 874
Period size: 253 Copynumber: 2.0 Consensus size: 252
6533697 TTCGAGTTCA
6533707 AATTCGAATTCGAACATAAATAATCGAACTCTTATCGAATATACGAATCGAACTTATTTTTACAT
1 AATTCGAATTCGAACATAAATAATCGAACTCTTATCGAATATACGAATCGAACTTATTTTTACAT
* * *
6533772 ATTAATCGAGCTTAATCGAGCGAGCTCGAGTAGCTTGAATTCGATCACGAATCGAGTTCGAGAAT
66 ATTAATCGAACTTAATCGAGCGAACTCGAGTAGATTGAATTCGATCACGAATCGAGTTCGAGAAT
* * *
6533837 CGAGCTCGAACTTGAAAAATAAAACTCGATCGAGCTCGAATCGAATATCGAACCTCGAGTTATGA
131 CGAGCTCAAACTTGAAAAATAAAACTCGATCGAACTCAAATCGAATATCGAACCTCGAGTTATGA
*
6533902 GTCGAGCTCGAACTTGAGCTTCTCACTATTCGACTCGACTCGACTCGTTTACACTCCT
196 GTCGAGCTCGAACTCGAGCTTCTCACTATTCGACTCGACTCGACTCGTTTACAC-CCT
* * *
6533960 AATTCGAATTCGAGCATAAATAATCGAACTCTTGTCGAGTATACGAATCGAACTTATTTTTACAT
1 AATTCGAATTCGAACATAAATAATCGAACTCTTATCGAATATACGAATCGAACTTATTTTTACAT
6534025 ATTAATCGAACTTAATCGAGCGAACTCGAGTAGATTGAATTCGATCACGAATCGAGTTCGAGAAT
66 ATTAATCGAACTTAATCGAGCGAACTCGAGTAGATTGAATTCGATCACGAATCGAGTTCGAGAAT
* * *
6534090 CGAGCTTAAATTTGAAAAATAAAACTCGATCGAACTCAAATCGAATATCGAACCTCGAGTTGTGA
131 CGAGCTCAAACTTGAAAAATAAAACTCGATCGAACTCAAATCGAATATCGAACCTCGAGTTATGA
* *
6534155 GTCGAGCTTGAACTCGAGCTTCTCACTATTCGATTCGACTCGACTCGTTTACACCCT
196 GTCGAGCTCGAACTCGAGCTTCTCACTATTCGACTCGACTCGACTCGTTTACACCCT
6534212 AATT
1 AATT
6534216 TTACCCCTTG
Statistics
Matches: 241, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
252 7 0.03
253 234 0.97
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (252 bp):
AATTCGAATTCGAACATAAATAATCGAACTCTTATCGAATATACGAATCGAACTTATTTTTACAT
ATTAATCGAACTTAATCGAGCGAACTCGAGTAGATTGAATTCGATCACGAATCGAGTTCGAGAAT
CGAGCTCAAACTTGAAAAATAAAACTCGATCGAACTCAAATCGAATATCGAACCTCGAGTTATGA
GTCGAGCTCGAACTCGAGCTTCTCACTATTCGACTCGACTCGACTCGTTTACACCCT
Found at i:6534908 original size:30 final size:30
Alignment explanation
Indices: 6534870--6535018 Score: 114
Period size: 30 Copynumber: 5.0 Consensus size: 30
6534860 TTATTTATGC
*
6534870 TAAAAATTTATTTAAGTA-ATAATTAAAAAA
1 TAAAAATTTATTTAAATATA-AATTAAAAAA
* * **
6534900 TAATAATTTATTCAAATATAAATTAAAATT
1 TAAAAATTTATTTAAATATAAATTAAAAAA
* *
6534930 TAAAAATTTATTTGAATGTCAAA-T-AAAAA
1 TAAAAATTTATTTAAATAT-AAATTAAAAAA
*
6534959 TAAAAAATTTATTTAAATA-CAA-TAAAAATA
1 T-AAAAATTTATTTAAATATAAATTAAAAA-A
* *
6534989 TAAAATTTTATCTAAATA-AAA-TAATAAAA
1 TAAAAATTTATTTAAATATAAATTAA-AAAA
6535018 T
1 T
6535019 TTAAATCTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
28 3 0.03
29 30 0.31
30 59 0.61
31 4 0.04
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (30 bp):
TAAAAATTTATTTAAATATAAATTAAAAAA
Found at i:6534957 original size:60 final size:59
Alignment explanation
Indices: 6534870--6534999 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 59
6534860 TTATTTATGC
* * *
6534870 TAAAAATTTATTTAAGTAATAATTAAAAA-ATAATAATTTATTCAAATATAAATTAAAATT
1 TAAAAATTTATTTAAGTAATAATTAAAAATA-AAAAATTTATTCAAATA-AAATAAAAATA
* * *
6534930 TAAAAATTTATTTGAATGTCA-AA-TAAAAATAAAAAATTTATTTAAATACAATAAAAATA
1 TAAAAATTTATTT-AA-GTAATAATTAAAAATAAAAAATTTATTCAAATAAAATAAAAATA
*
6534989 TAAAATTTTAT
1 TAAAAATTTAT
6535000 CTAAATAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
59 18 0.30
60 34 0.57
61 5 0.08
62 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (59 bp):
TAAAAATTTATTTAAGTAATAATTAAAAATAAAAAATTTATTCAAATAAAATAAAAATA
Found at i:6538068 original size:10 final size:10
Alignment explanation
Indices: 6538053--6538087 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6538043 ATGATGAAGG
6538053 AGAAAGAAAA
1 AGAAAGAAAA
6538063 AGAAAGAAAA
1 AGAAAGAAAA
*
6538073 GGGAAAGAAAA
1 -AGAAAGAAAA
6538084 AGAA
1 AGAA
6538088 GATGGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:6546096 original size:120 final size:120
Alignment explanation
Indices: 6545932--6546157 Score: 353
Period size: 120 Copynumber: 1.9 Consensus size: 120
6545922 TCCTTATCGT
* * *
6545932 TGGCTATCTCTGTAATATCAAGCTAACAATTAGATAAAAATCAAGTTAAAATAAAATTCTACAAG
1 TGGCTATATCTATAAAATCAAGCTAACAATTAGATAAAAATCAAGTTAAAATAAAATTCTACAAG
*
6545997 GTTATCTTAAACTTACCTCAATACTTTATCATGTTTATTACAAAGTCCTCTTTAC
66 GTTACCTTAAACTTACCTCAATACTTTATCATGTTTATTACAAAGTCCTCTTTAC
* * * *
6546052 TGGCTATATCTATAAAATCGAGCTAATAGTTAGATAAAAATCAAGTTGAAATAAAATTCTACAAG
1 TGGCTATATCTATAAAATCAAGCTAACAATTAGATAAAAATCAAGTTAAAATAAAATTCTACAAG
* * *
6546117 GTTACCTTAAACTTACCTTAATACTTTGTCTTGTTTATTAC
66 GTTACCTTAAACTTACCTCAATACTTTATCATGTTTATTAC
6546158 TTTTGGAGAG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 95 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (120 bp):
TGGCTATATCTATAAAATCAAGCTAACAATTAGATAAAAATCAAGTTAAAATAAAATTCTACAAG
GTTACCTTAAACTTACCTCAATACTTTATCATGTTTATTACAAAGTCCTCTTTAC
Found at i:6569519 original size:27 final size:27
Alignment explanation
Indices: 6569495--6569547 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6569485 CAAAATTATG
6569495 ATAAAAATAGAATAAAATAATATTATAA
1 ATAAAAATA-AATAAAATAATATTATAA
* * *
6569523 ATTAAATTAAATTAAATAATATTAT
1 ATAAAAATAAATAAAATAATATTAT
6569548 CATATCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATAAAAATAAATAAAATAATATTATAA
Found at i:6578829 original size:333 final size:332
Alignment explanation
Indices: 6578047--6579299 Score: 1628
Period size: 333 Copynumber: 3.8 Consensus size: 332
6578037 AATGGATGGC
* *
6578047 TTCAAAATTTTTTCACTAAATATTTTAGGAATTATTAAAGACATCTTCTACTGTAAAATACCTTC
1 TTCAAAATTTTTTCACTAAATATTTTAGGAATTATTAAAGGCATCTTCTACTGTAAAATACTTTC
* * * *
6578112 TATATATCGCTACACATATTATAACACTGTTATTGAAGCCGTATATTTAAGATAAATGCCTTTAA
66 TATATACCGCTACACATATTATAACACTGTTATTGAAGCCATATATTTAAGATAGACGCCTTTAA
* * * *
6578177 TAATTCTTATCACAGTTTATATATAATTACTAAAAGC-AGTTTCAGATAACAATGCCTCCAATAA
131 TAATTCTTATCACAGTTTGTATATAATTACTAAAGGCGA-TTTCAGATAACAACGCCTTCAATAA
* * *
6578241 TTTTTCTAATAAAAGTTTCCAGGATTATTAAAGGCATCTTTTATTATAAGCCGCCTTCGATATAC
195 TTTTCCTAATAAAAGTTT-TAGGATTATTAAAGGCATCTTTTATTATAAGCCGCCTTCAATATAC
* * * * * **
6578306 CATGATGGTAATC-GAAG-ATGAGTATTAAAAAA-GCACTTTCAATTACTAAAGTTGTTTGTTAA
259 CACGATGGTAATCAAAAGCAT--TTATTAAAAAAGGCACCTTCAATTACTGAAGGCGTTTGTTAA
6578368 TAACAGACGCCT
322 TAACAGACG-CT
* * *
6578380 TT-AAAATTTTTTCACTAAATATTTTAAGAATTATTAAAGGTATTTTCTACTGTAAAATAAC-TT
1 TTCAAAATTTTTTCACTAAATATTTTAGGAATTATTAAAGGCATCTTCTACTGTAAAAT-ACTTT
** * *
6578443 CTATATACCATTACACACATTATAACACTGTTATTGAAGGCATATATTTAAGATAGACGCCTTTA
65 CTATATACCGCTACACATATTATAACACTGTTATTGAAGCCATATATTTAAGATAGACGCCTTTA
* * * * *
6578508 ATAATTTTTATTATAGTTTGTATATAATTACTAAAGGCGATTTCAGATAACAACACCTTTAATAA
130 ATAATTCTTATCACAGTTTGTATATAATTACTAAAGGCGATTTCAGATAACAACGCCTTCAATAA
* * *
6578573 TTTTCCTAATAAAAGTTTCTATGATTATTAAAGGCATCTTTTTTTATAAGCCGCCTTCAATATAT
195 TTTTCCTAATAAAAGTTT-TAGGATTATTAAAGGCATCTTTTATTATAAGCCGCCTTCAATATAC
* *
6578638 CACGATGATAATCAAAAGCATTTATTAAAAAAGGTACCTTCAATTACTGAAGGCGTTTGTTAATA
259 CACGATGGTAATCAAAAGCATTTATTAAAAAAGGCACCTTCAATTACTGAAGGCGTTTGTTAATA
*
6578703 ACAGACGTT
324 ACAGACGCT
* * *
6578712 TTCAAAATTTTTCCACTAAATATTTTAGGAATTATTAAAGGCATCTTTTACTGTAACATACTTTC
1 TTCAAAATTTTTTCACTAAATATTTTAGGAATTATTAAAGGCATCTTCTACTGTAAAATACTTTC
* *** * *
6578777 TATATACCGCTACACATATTGTAACACTGTTATTGAAGGTGTATATTTAAGATAGACACCCTTAA
66 TATATACCGCTACACATATTATAACACTGTTATTGAAGCCATATATTTAAGATAGACGCCTTTAA
* *
6578842 TAATTCCTATCATAGTTTGTAATATAATTACTAAAGGCGATTTCAGATAACAACGCCTTCAATAA
131 TAATTCTTATCACAGTTTGT-ATATAATTACTAAAGGCGATTTCAGATAACAACGCCTTCAATAA
* *
6578907 TTTTTCTAATAAAAGTTTTCAGGATTATTAAAGGCATCTTTTATTATAAGCCGTCTTCAATATAC
195 TTTTCCTAATAAAAGTTTT-AGGATTATTAAAGGCATCTTTTATTATAAGCCGCCTTCAATATAC
* *
6578972 CACGATGGTAATCAAAGGCGTTTATT-AAAAAGGCACCTTCAATTACTGAAGGCGTTTGTTAATA
259 CACGATGGTAATCAAAAGCATTTATTAAAAAAGGCACCTTCAATTACTGAAGGCGTTTGTTAATA
* *
6579036 ACAGACACC
324 ACAGACGCT
* * * * *
6579045 TTCAAAATTTTTTTACTAAATATTTT-GAGAATTATTAAAAGCGTCGTCTACTATAAAATACCTT
1 TTCAAAATTTTTTCACTAAATATTTTAG-GAATTATTAAAGGCATCTTCTACTGTAAAATA-CTT
* * *
6579109 T-TATATACCGTTACACATATTGTAACACTGTTATTGAAGCCATATATTTAAGATAGATGCCTTT
64 TCTATATACCGCTACACATATTATAACACTGTTATTGAAGCCATATATTTAAGATAGACGCCTTT
* * * * * *
6579173 AATAATTTTTATCACAGTTTGTATATAATTACTGAAGGTGGTTTTAGATAACAATGCCTTCAAT-
129 AATAATTCTTATCACAGTTTGTATATAATTACTAAAGGCGATTTCAGATAACAACGCCTTCAATA
* * ** * * *
6579237 ATTTTCTCAAAAAAAAAAATTTA-GATTATTAAAGGCGTCTTTTATTATAAGTCACCTTCAATA
194 ATTTTC-C-TAATAAAAGTTTTAGGATTATTAAAGGCATCTTTTATTATAAGCCGCCTTCAATA
6579300 ATTTGTTATA
Statistics
Matches: 807, Mismatches: 100, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
331 41 0.05
332 290 0.36
333 347 0.43
334 129 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (332 bp):
TTCAAAATTTTTTCACTAAATATTTTAGGAATTATTAAAGGCATCTTCTACTGTAAAATACTTTC
TATATACCGCTACACATATTATAACACTGTTATTGAAGCCATATATTTAAGATAGACGCCTTTAA
TAATTCTTATCACAGTTTGTATATAATTACTAAAGGCGATTTCAGATAACAACGCCTTCAATAAT
TTTCCTAATAAAAGTTTTAGGATTATTAAAGGCATCTTTTATTATAAGCCGCCTTCAATATACCA
CGATGGTAATCAAAAGCATTTATTAAAAAAGGCACCTTCAATTACTGAAGGCGTTTGTTAATAAC
AGACGCT
Found at i:6585781 original size:2 final size:2
Alignment explanation
Indices: 6585774--6585801 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6585764 AGTTGTCTAC
6585774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6585802 TTGTATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6587431 original size:2 final size:2
Alignment explanation
Indices: 6587424--6587452 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6587414 GGAAATTTAC
6587424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6587453 GAAATACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6588188 original size:20 final size:20
Alignment explanation
Indices: 6588163--6588200 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6588153 TTTATTTTTT
6588163 AAATAAAGTATTTTTTATCC
1 AAATAAAGTATTTTTTATCC
* *
6588183 AAATAAATTCTTTTTTAT
1 AAATAAAGTATTTTTTAT
6588201 TTTTATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (20 bp):
AAATAAAGTATTTTTTATCC
Found at i:6588222 original size:16 final size:16
Alignment explanation
Indices: 6588201--6588260 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
6588191 TCTTTTTTAT
*
6588201 TTTTATTTAAATAAAC
1 TTTTATTTAAATAAAA
6588217 TTTTATTTCAAATAAAA
1 TTTTATTT-AAATAAAA
* * *
6588234 ATTGATTTATATTAAAA
1 TTTTATTTA-AATAAAA
6588251 TTTTATTTAA
1 TTTTATTTAA
6588261 GTATAAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 10 0.28
17 26 0.72
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTATTTAAATAAAA
Found at i:6589250 original size:27 final size:27
Alignment explanation
Indices: 6589206--6589257 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6589196 GGATTGAAAA
* *
6589206 TAATAATAGAGATTAAATTATTTATTG
1 TAATAATAGAAATTAAATTAATTATTG
6589233 TAATAATA-AAATTAAAATTAATTAT
1 TAATAATAGAAATT-AAATTAATTAT
6589258 AAGATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
TAATAATAGAAATTAAATTAATTATTG
Found at i:6589342 original size:27 final size:27
Alignment explanation
Indices: 6589296--6589347 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
6589286 TAATTAAAAT
6589296 TATTTAATAAAATTTAAAATTATTTAA
1 TATTTAATAAAATTTAAAATTATTTAA
6589323 TATTT-AT-AAATTTAATAAATTATTT
1 TATTTAATAAAATTT-A-AAATTATTT
6589348 TTAAATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTTAATAAAATTTAAAATTATTTAA
Found at i:6589374 original size:16 final size:15
Alignment explanation
Indices: 6589333--6589379 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
6589323 TATTTATAAA
*
6589333 TTTAATAAATTATTT
1 TTTAATAAATAATTT
*
6589348 TTAAATCAAATAATTT
1 TTTAAT-AAATAATTT
6589364 TATTAATAAATAATTT
1 T-TTAATAAATAATTT
6589380 AATTTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 5 0.19
16 18 0.67
17 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAATAAATAATTT
Found at i:6589391 original size:8 final size:8
Alignment explanation
Indices: 6589378--6589404 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6589368 AATAAATAAT
6589378 TTAATTTA
1 TTAATTTA
6589386 TTAATTTA
1 TTAATTTA
6589394 TTAATTTA
1 TTAATTTA
6589402 TTA
1 TTA
6589405 CATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTAATTTA
Found at i:6590879 original size:26 final size:25
Alignment explanation
Indices: 6590850--6590910 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
6590840 AATTATTGTA
*
6590850 ATTTAATTATGATATAATATTTAATT
1 ATTTAATTATGATATAA-ATATAATT
*
6590876 ATTTAATTGATTATATAAATATAATT
1 ATTTAATT-ATGATATAAATATAATT
*
6590902 -TTTTATTAT
1 ATTTAATTAT
6590911 AATCAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 2 0.06
25 6 0.19
26 15 0.48
27 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (25 bp):
ATTTAATTATGATATAAATATAATT
Found at i:6592645 original size:72 final size:70
Alignment explanation
Indices: 6592442--6592646 Score: 221
Period size: 72 Copynumber: 2.8 Consensus size: 70
6592432 AACAATTATT
* * ** * * * *
6592442 ATGTTTTTAAGATAAAAAATGTAGTGTATATTAAAATTTTATTTTCTAAATTTTAAAATGTTAAT
1 ATGTTTTTAAGATAAAAAAAGTAATAAATGTTGAAA-TTTATTTT-TAAAATTTAAAATTTTAAT
*
6592507 AAAAATC
64 AAAAATA
* * * * *
6592514 ATATTTTTAAAATTAAAAACGTAATAAATGTTGAAATTATATTTTTGAAAATTTTAAATTTTAAT
1 ATGTTTTTAAGATAAAAAAAGTAATAAATGTTGAAATT-TATTTTT-AAAATTTAAAATTTTAAT
6592579 AAAAATA
64 AAAAATA
*
6592586 ATGTTTTTAAGATAAAAAAAATAATAAATGTTGAAACTTTATTTTTAAAATTCTAAAATTT
1 ATGTTTTTAAGATAAAAAAAGTAATAAATGTTGAAA-TTTATTTTTAAAATT-TAAAATTT
6592647 CAACAAAGAC
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
71 9 0.08
72 99 0.90
73 2 0.02
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.43
Consensus pattern (70 bp):
ATGTTTTTAAGATAAAAAAAGTAATAAATGTTGAAATTTATTTTTAAAATTTAAAATTTTAATAA
AAATA
Found at i:6593016 original size:35 final size:37
Alignment explanation
Indices: 6592976--6593045 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
6592966 TAAAATTAAA
6592976 ATAAAAAGT-AAA-ATATCTATTTAATATTATTACAC
1 ATAAAAAGTAAAATATATCTATTTAATATTATTACAC
** *
6593011 ATAAAATTTAAAATATATTTATTTAATATTATTAC
1 ATAAAAAGTAAAATATATCTATTTAATATTATTAC
6593046 TTATAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 7 0.23
36 3 0.10
37 20 0.67
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (37 bp):
ATAAAAAGTAAAATATATCTATTTAATATTATTACAC
Found at i:6595074 original size:23 final size:23
Alignment explanation
Indices: 6595019--6595078 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
6595009 AAAAATTAAA
*
6595019 ATTAATAATAAAATTATTTTAATT
1 ATTAATTA-AAAATTATTTTAATT
6595043 A-TAATTAAAAATTATTATT-ATT
1 ATTAATTAAAAATTATT-TTAATT
6595065 ATTAATTAAAAATT
1 ATTAATTAAAAATT
6595079 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 13 0.39
23 19 0.58
24 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAATTAAAAATTATTTTAATT
Found at i:6595101 original size:14 final size:13
Alignment explanation
Indices: 6595066--6595101 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
6595056 ATTATTATTA
6595066 TTAATTAAAAATT
1 TTAATTAAAAATT
*
6595079 TTAAATAAAAATT
1 TTAATTAAAAATT
6595092 TTATATTAAA
1 TTA-ATTAAA
6595102 TAAATGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAATTAAAAATT
Found at i:6595705 original size:2 final size:2
Alignment explanation
Indices: 6595698--6595725 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6595688 TGCAGTTTGA
6595698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6595726 TTGTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6597933 original size:2 final size:2
Alignment explanation
Indices: 6597926--6597957 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6597916 GTTGGGATGA
*
6597926 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6597958 TGGATCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6598602 original size:11 final size:11
Alignment explanation
Indices: 6598579--6598612 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
6598569 TTTATGTTAT
6598579 TAATTTATAAAA
1 TAATTT-TAAAA
6598591 TAATTTTAAAA
1 TAATTTTAAAA
6598602 TAATTATTAAA
1 TAATT-TTAAA
6598613 TTAGTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:6598816 original size:18 final size:19
Alignment explanation
Indices: 6598783--6598821 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6598773 TAAATTAAAA
* *
6598783 ATATTATTTGTATCATGTC
1 ATATTATTTATATCATATC
6598802 ATATT-TTTATATCATATC
1 ATATTATTTATATCATATC
6598820 AT
1 AT
6598822 CGTATCGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (19 bp):
ATATTATTTATATCATATC
Found at i:6599006 original size:2 final size:2
Alignment explanation
Indices: 6598999--6599029 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6598989 CAACTTGTTA
6598999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6599030 CTAACTACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6599392 original size:10 final size:11
Alignment explanation
Indices: 6599374--6599405 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
6599364 TTGACACTTT
6599374 TTAAATTTAAA
1 TTAAATTTAAA
6599385 TT-AATTTAAA
1 TTAAATTTAAA
6599395 TTAAATTTAAA
1 TTAAATTTAAA
6599406 ATTTAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:6613818 original size:144 final size:146
Alignment explanation
Indices: 6613571--6614126 Score: 535
Period size: 145 Copynumber: 3.8 Consensus size: 146
6613561 GAAAAGGGCA
* * ** * * * *
6613571 AAATTACCAAAATACCCTTATAGGGGGTATTTTCATAATTT-GATTTTTTCAAGTTCGGATTTTT
1 AAATTACCAAAATACCCTTTTA-AGGGTATTTTCATAATTTGGCCTTTCTCAAGCTCAGATTTTC
* * ** * * * *
6613635 GTGAAATTTTTTGGATCTTAATTTTATAATATTTTATGATTTTTAATGCATTTAAAATCATCGCA
65 ATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTAGTGCATTTAAAATCATAGCA
* * *
6613700 ATACCTCGTGAA-TGATG
130 GTACCTTGAGAAGTG-TG
** * *
6613717 AAATTACTGAAATACCCTTTTAAGGGTATTTTCATAATTTGG-CTTCCTC-AGCTCAGATTTTCG
1 AAATTACCAAAATACCCTTTTAAGGGTATTTTCATAATTTGGCCTTTCTCAAGCTCAGATTTTCA
* * * * * *
6613780 TGAAACTTTGCAGATTTTAATTTTATAATATTTCATGATTTTTGGTG-AGTTTGAAACCATAGCA
66 TGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTAGTGCA-TTTAAAATCATAGCA
* *
6613844 GTACATTGGGAAGTGTG
130 GTACCTTGAGAAGTGTG
* * * *
6613861 AAATTATCAAAATA-CCTTTTAAGGGTTATTTT-AGTAATTTGGTCTTT-TCGAGCTC-GAAATT
1 AAATTACCAAAATACCCTTTTAAGGG-TATTTTCA-TAATTTGGCCTTTCTCAAGCTCAG-ATTT
* * * * *
6613922 TCACGAAAC-TTTCTAGATCTTAATTTCATAATATTTTATGATTTTTGGTGCATTTGAAATTATA
63 TCATGAAACTTTTC-AGATCTTAATTTCATAATATTTCATGATTTTTAGTGCATTTAAAATCATA
*
6613986 GCAGTACCTTAAGAAGTGTG
127 GCAGTACCTTGAGAAGTGTG
* * * * *
6614006 AAATTACCAAAATACCCTTTTAGGGGTATTTTCGTAATTTGGCCTTTCT-GAG-TTAGGATTTTT
1 AAATTACCAAAATACCCTTTTAAGGGTATTTTCATAATTTGGCCTTTCTCAAGCTCA-GATTTTC
6614069 ATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTAGTGC-TTTAAAATC
65 ATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTAGTGCATTTAAAATC
6614127 CCAAAAATGA
Statistics
Matches: 341, Mismatches: 53, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
143 13 0.04
144 111 0.33
145 180 0.53
146 37 0.11
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (146 bp):
AAATTACCAAAATACCCTTTTAAGGGTATTTTCATAATTTGGCCTTTCTCAAGCTCAGATTTTCA
TGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTAGTGCATTTAAAATCATAGCAG
TACCTTGAGAAGTGTG
Found at i:6617649 original size:38 final size:37
Alignment explanation
Indices: 6617572--6617651 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 37
6617562 CTATCCCATG
* * *
6617572 CATCTTAATAGATAGTACATGCATCCTATCTGATATA
1 CATCATAATAGATAATACATGCATCCTATCTCATATA
* *
6617609 CATCATAATAAGATAATACATGCATTGC-ATCTCATTTA
1 CATCATAAT-AGATAATACATGCA-TCCTATCTCATATA
6617647 CATCA
1 CATCA
6617652 GTGGATAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 8 0.22
38 26 0.72
39 2 0.06
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (37 bp):
CATCATAATAGATAATACATGCATCCTATCTCATATA
Found at i:6618849 original size:23 final size:23
Alignment explanation
Indices: 6618817--6618860 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6618807 TATATAACTA
*
6618817 ATTATATATTTTTAGCATAAAATT
1 ATTATATATTATTAGCA-AAAATT
6618841 ATTAT-TATTATTAGCAAAAA
1 ATTATATATTATTAGCAAAAA
6618861 CTTTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (23 bp):
ATTATATATTATTAGCAAAAATT
Found at i:6620278 original size:20 final size:20
Alignment explanation
Indices: 6620253--6620291 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6620243 GGATGAAATC
6620253 TCATCCAAGGGTCAAAGCTT
1 TCATCCAAGGGTCAAAGCTT
*
6620273 TCATCCAAGGGTTAAAGCT
1 TCATCCAAGGGTCAAAGCT
6620292 CCTCCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (20 bp):
TCATCCAAGGGTCAAAGCTT
Found at i:6620990 original size:144 final size:145
Alignment explanation
Indices: 6620506--6621047 Score: 535
Period size: 145 Copynumber: 3.7 Consensus size: 145
6620496 TTAAAGCATT
* * * * ** *
6620506 AAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTATCGTGAAAAT-TCGAGTTTGGGAAG
1 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCT-GAACTTGGAAAG
* * * * *
6620570 TTCAAATTACGAAAATACCCCTATAAGGGTGTTTTGGTAATTTCACACTTTCC-GGGGTACTGCA
65 ATCAAATTACAAAAATACCCTTATAAGGGTATTTTGGTAATTTCAC-CTTTCCTGGGGTACTGCT
* * *
6620634 ATGATTTCAGATACACC
129 GTGATTTCAAATGCACC
* * * * * *
6620651 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCGTGAAATTCCT--AGTTCGGGAA
1 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAAT-CTGAACTT-GGAAA
* * * * *
6620714 GGTCGAATTACAAAAATACCCCTTA-AAAGGTATTTTGGTAATTTCGAAC-TTACTGGGGTACTG
64 GATCAAATTACAAAAATA-CCCTTATAAGGGTATTTTGGTAATTTC-ACCTTTCCTGGGGTACTG
* *
6620777 CTGTGGTTTCAAACT-CATC
127 CTGTGATTTCAAA-TGCACC
* * *
6620796 AAAAATCATAAAATATTATAAAATTGAAATTTGAAAAGTTTCATGAAAATCTGAACTTGGAAA-A
1 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCTGAACTTGGAAAGA
* * * *
6620860 GCCAAATTACAAAAATACCCTTAGAAGGGTATTTTTGTAATTTCACCTTTCCTGGGGTATTGCTG
66 -TCAAATTACAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACCTTTCCTGGGGTACTGCTG
*
6620925 TGATTTTAAATGCA-C
130 TGATTTCAAATGCACC
* ** * *
6620940 TAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCACAAAAATCTGAGCTCGGAAAGA
1 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCTGAACTTGGAAAGA
* * * *
6621005 TCAAATCATAGAAATGCCCTCTATAAGGGTATTTTGGTAATTT
66 TCAAATTACAAAAATACCCT-TATAAGGGTATTTTGGTAATTT
6621048 TGCCTACCTA
Statistics
Matches: 331, Mismatches: 51, Indels: 30
0.80 0.12 0.07
Matches are distributed among these distances:
144 87 0.26
145 233 0.70
146 10 0.03
147 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (145 bp):
AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCTGAACTTGGAAAGA
TCAAATTACAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACCTTTCCTGGGGTACTGCTGT
GATTTCAAATGCACC
Found at i:6621038 original size:290 final size:290
Alignment explanation
Indices: 6620506--6621047 Score: 648
Period size: 290 Copynumber: 1.9 Consensus size: 290
6620496 TTAAAGCATT
* * * ** *
6620506 AAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTATCGTGAAAATTCGAGTTTGGGAAGT
1 AAAAATCATAAAATATTATAAAATTAAGATCTGAAAAGTATCATGAAAATTCGAACTTGGAAAGT
* * * *
6620571 TCAAATTACGAAAATACCCCTATAAGGGTGTTTTGGTAATTTCACACTTTCCGGGGTACTGCAAT
66 CCAAATTACAAAAATACCCCTAGAAGGGTATTTTGGTAATTTCACACTTTCCGGGGTACTGCAAT
* * * *** *
6620636 GATTTCAGATACACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCGTGAAATT
131 GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCACAAAAAT
* * * * *
6620701 CCTAGTTCGGGAAGGTCGAATTACAAAAATACCCCTTAAAAGGTATTTTGGTAATTTCGAACTTA
196 CCTAGCTCGGAAAGATCAAATCACAAAAATACCCCTTAAAAGGTATTTTGGTAATTTCGAACTTA
6620766 CTGGGGTACTGCTGTGGTTTCAAACTCATC
261 CTGGGGTACTGCTGTGGTTTCAAACTCATC
* *
6620796 AAAAATCATAAAATATTATAAAATTGAA-ATTTGAAAAGTTTCATGAAAA-TCTGAACTTGGAAA
1 AAAAATCATAAAATATTATAAAATT-AAGATCTGAAAAGTATCATGAAAATTC-GAACTTGG-AA
* * *
6620859 AG-CCAAATTACAAAAATACCCTTAGAAGGGTATTTTTGTAATTTCAC-CTTTCCTGGGGTATTG
63 AGTCCAAATTACAAAAATACCCCTAGAAGGGTATTTTGGTAATTTCACACTTTCC-GGGGTACTG
** * * *
6620922 CTGTGATTTTAAATGCA-CTAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCACAA
127 CAATGATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCACAA
* * * *
6620986 AAAT-CTGAGCTCGGAAAGATCAAATCATAGAAAT-GCCCTCTATAAGGGTATTTTGGTAATTT
192 AAATCCT-AGCTCGGAAAGATCAAATCACAAAAATACCCCT-TA-AAAGGTATTTTGGTAATTT
6621048 TGCCTACCTA
Statistics
Matches: 209, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
288 6 0.03
289 74 0.35
290 124 0.59
291 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (290 bp):
AAAAATCATAAAATATTATAAAATTAAGATCTGAAAAGTATCATGAAAATTCGAACTTGGAAAGT
CCAAATTACAAAAATACCCCTAGAAGGGTATTTTGGTAATTTCACACTTTCCGGGGTACTGCAAT
GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCACAAAAAT
CCTAGCTCGGAAAGATCAAATCACAAAAATACCCCTTAAAAGGTATTTTGGTAATTTCGAACTTA
CTGGGGTACTGCTGTGGTTTCAAACTCATC
Found at i:6624454 original size:6 final size:6
Alignment explanation
Indices: 6624447--6624482 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
6624437 TACACACACC
*
6624447 TGCACC TGCACA TGCACA TGCACA TGCACA TGCACA
1 TGCACA TGCACA TGCACA TGCACA TGCACA TGCACA
6624483 CATGCAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.36, G:0.17, T:0.17
Consensus pattern (6 bp):
TGCACA
Found at i:6624691 original size:16 final size:16
Alignment explanation
Indices: 6624670--6624702 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6624660 TCTTTCCTAC
6624670 CTAAGGTGGTTGAAGA
1 CTAAGGTGGTTGAAGA
6624686 CTAAGGTGGTTGAAGA
1 CTAAGGTGGTTGAAGA
6624702 C
1 C
6624703 GATGTGAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.09, G:0.36, T:0.24
Consensus pattern (16 bp):
CTAAGGTGGTTGAAGA
Found at i:6633672 original size:26 final size:25
Alignment explanation
Indices: 6633643--6633697 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
6633633 AAAGATTTTT
*
6633643 AAAGGAAAAAGTTGAAAA-AAATAAAA
1 AAAGGAAAAAATT-AAAACAAA-AAAA
*
6633669 AAAGTAAAAAATTAAAACAAAAAAA
1 AAAGGAAAAAATTAAAACAAAAAAA
6633694 AAAG
1 AAAG
6633698 ATATGAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (25 bp):
AAAGGAAAAAATTAAAACAAAAAAA
Found at i:6635091 original size:6 final size:6
Alignment explanation
Indices: 6635080--6635112 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6635070 TGGTGCGGAA
6635080 GGCTAT GGCTAT GGCTAT GGCTAT GGCTAT GGC
1 GGCTAT GGCTAT GGCTAT GGCTAT GGCTAT GGC
6635113 GAAGCATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.18, G:0.36, T:0.30
Consensus pattern (6 bp):
GGCTAT
Found at i:6648753 original size:13 final size:13
Alignment explanation
Indices: 6648710--6648754 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
6648700 TGGAGTTCAA
* *
6648710 TTTTTTATTTGCT
1 TTTTTTTTTTTCT
**
6648723 TTTTCCTTTTTCT
1 TTTTTTTTTTTCT
6648736 TTTTTTTTTTTCT
1 TTTTTTTTTTTCT
6648749 TTTTTT
1 TTTTTT
6648755 AGTTTAGTGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:6652012 original size:17 final size:17
Alignment explanation
Indices: 6651990--6652029 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
6651980 TTTAGAGTTA
6651990 CATACCTTGTTGCAACC
1 CATACCTTGTTGCAACC
6652007 CATACCTTGTTGCAACC
1 CATACCTTGTTGCAACC
6652024 CATACC
1 CATACC
6652030 ATAATAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.28
Consensus pattern (17 bp):
CATACCTTGTTGCAACC
Found at i:6653426 original size:20 final size:21
Alignment explanation
Indices: 6653381--6653438 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
6653371 AAAATAATAT
* *
6653381 AAAATAACAATAATATCATGA
1 AAAATAACAAAAAAATCATGA
**
6653402 AAAATAATTAAAAAATCAT-A
1 AAAATAACAAAAAAATCATGA
6653422 AAAATAACAAAAAAATC
1 AAAATAACAAAAAAATC
6653439 TACACAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATAACAAAAAAATCATGA
Found at i:6653436 original size:21 final size:20
Alignment explanation
Indices: 6653370--6653438 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 20
6653360 AATTATTACC
*
6653370 AAAAATAATATAAAATAACAA
1 AAAAATCATA-AAAATAACAA
* * **
6653391 TAATATCATGAAAAATAATTA
1 AAAAATCAT-AAAAATAACAA
6653412 AAAAATCATAAAAATAACAA
1 AAAAATCATAAAAATAACAA
6653432 AAAAATC
1 AAAAATC
6653439 TACACAAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.42
21 21 0.55
22 1 0.03
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.22
Consensus pattern (20 bp):
AAAAATCATAAAAATAACAA
Found at i:6656707 original size:20 final size:20
Alignment explanation
Indices: 6656679--6656717 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6656669 ACAATTCTTT
6656679 CAAAATTAATAGTATGGATC
1 CAAAATTAATAGTATGGATC
*
6656699 CAAATTTAATAGTATGGAT
1 CAAAATTAATAGTATGGAT
6656718 GGATGATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
CAAAATTAATAGTATGGATC
Found at i:6656861 original size:19 final size:19
Alignment explanation
Indices: 6656823--6656868 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6656813 TCAAAGGAAT
6656823 TGAAAAGAAAATACAAAAA
1 TGAAAAGAAAATACAAAAA
*
6656842 TGAAAGGAAAATA-AATAAA
1 TGAAAAGAAAATACAA-AAA
*
6656861 TAAAAAGA
1 TGAAAAGA
6656869 TATCTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.72, C:0.02, G:0.13, T:0.13
Consensus pattern (19 bp):
TGAAAAGAAAATACAAAAA
Found at i:6658459 original size:13 final size:14
Alignment explanation
Indices: 6658428--6658458 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6658418 TTACTCTATC
6658428 TTTTT-CTTAGATA
1 TTTTTACTTAGATA
6658441 TTTTTACTTAGATA
1 TTTTTACTTAGATA
6658455 TTTT
1 TTTT
6658459 AGAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTTTACTTAGATA
Found at i:6660236 original size:69 final size:69
Alignment explanation
Indices: 6660125--6660263 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
6660115 CATGCATGGG
* * *
6660125 TAAAGAGGTAGATAATATGGGCAAAAATACTATGACAATCTTAAATTGCACCCTTTGATAATTTA
1 TAAAGAGGCAGATAATATGAGCAAAAATACTAAGACAATCTTAAATTGCACCCTTTGATAATTTA
6660190 AAGA
66 AAGA
*
6660194 TAAAGAGGCAGATAATATGAGCAAAAATACTAAGACAATCTTAAATTGGACCCTTTGATAATTTA
1 TAAAGAGGCAGATAATATGAGCAAAAATACTAAGACAATCTTAAATTGCACCCTTTGATAATTTA
6660259 AAGA
66 AAGA
6660263 T
1 T
6660264 CAACCACAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (69 bp):
TAAAGAGGCAGATAATATGAGCAAAAATACTAAGACAATCTTAAATTGCACCCTTTGATAATTTA
AAGA
Found at i:6660899 original size:65 final size:65
Alignment explanation
Indices: 6660829--6660958 Score: 233
Period size: 65 Copynumber: 2.0 Consensus size: 65
6660819 CCCAAAACGA
* *
6660829 TCTGACCCAACGTCTAAAAAGGATTGAAGAGGATGAAACCTTTATTTAAATTAAAAAACTTTCTT
1 TCTGACCCAACGTCTAAAAAGGATTGAAGAGGATAAAAACTTTATTTAAATTAAAAAACTTTCTT
*
6660894 TCTGACCCAACGTCTAAATAGGATTGAAGAGGATAAAAACTTTATTTAAATTAAAAAACTTTCTT
1 TCTGACCCAACGTCTAAAAAGGATTGAAGAGGATAAAAACTTTATTTAAATTAAAAAACTTTCTT
6660959 ACTTTTCTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.32
Consensus pattern (65 bp):
TCTGACCCAACGTCTAAAAAGGATTGAAGAGGATAAAAACTTTATTTAAATTAAAAAACTTTCTT
Found at i:6664278 original size:10 final size:10
Alignment explanation
Indices: 6664259--6664323 Score: 53
Period size: 10 Copynumber: 6.1 Consensus size: 10
6664249 TATGAAATAC
6664259 AAAA-AAAAA
1 AAAACAAAAA
6664268 AAAACAAAAA
1 AAAACAAAAA
6664278 ATAATACAAAATA
1 A-AA-ACAAAA-A
6664291 CAAAA-AAAATA
1 -AAAACAAAA-A
6664302 CAAAACAAAAA
1 -AAAACAAAAA
*
6664313 AGAACAAAAA
1 AAAACAAAAA
6664323 A
1 A
6664324 TAGAAAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
9 4 0.08
10 16 0.33
11 14 0.29
12 11 0.22
13 3 0.06
14 1 0.02
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.06
Consensus pattern (10 bp):
AAAACAAAAA
Found at i:6664290 original size:33 final size:35
Alignment explanation
Indices: 6664253--6664332 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
6664243 ATAAAATATG
* * *
6664253 AAATACAAAAAAAA-A-AAAACAAAAAATAATACA
1 AAATACAAAAAAAATACAAAACAAAAAAGAACAAA
6664286 AAATACAAAAAAAATACAAAACAAAAAAGAACAAA
1 AAATACAAAAAAAATACAAAACAAAAAAGAACAAA
*
6664321 AAATAGAAAAAA
1 AAATACAAAAAA
6664333 TTGAGGATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 14 0.34
34 1 0.02
35 26 0.63
ACGTcount: A:0.81, C:0.09, G:0.03, T:0.07
Consensus pattern (35 bp):
AAATACAAAAAAAATACAAAACAAAAAAGAACAAA
Found at i:6665176 original size:19 final size:17
Alignment explanation
Indices: 6665129--6665177 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
6665119 AATTTAAATT
6665129 TTTTAATTTTTTTTATA
1 TTTTAATTTTTTTTATA
* *
6665146 TATT-ATTATTTTTATTA
1 TTTTAATTTTTTTTA-TA
6665163 TTTTAAGTTTTTTTT
1 TTTTAA-TTTTTTTT
6665178 TTTTTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 9 0.36
17 8 0.32
18 1 0.04
19 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTAATTTTTTTTATA
Found at i:6665472 original size:16 final size:16
Alignment explanation
Indices: 6665445--6665493 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
6665435 TGATAATAAG
*
6665445 TTTTCATAAAAAAAGAA
1 TTTTTATAAAAAAA-AA
*
6665462 TTTTT-T-AAAAAATA
1 TTTTTATAAAAAAAAA
6665476 TTTTTATAAAAAAAAA
1 TTTTTATAAAAAAAAA
6665492 TT
1 TT
6665494 ATGTTTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 10 0.37
17 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTTTATAAAAAAAAA
Found at i:6665473 original size:15 final size:15
Alignment explanation
Indices: 6665453--6665490 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6665443 AGTTTTCATA
6665453 AAAAAAGAATTTTT-T
1 AAAAAA-AATTTTTAT
*
6665468 AAAAAATATTTTTAT
1 AAAAAAAATTTTTAT
6665483 AAAAAAAA
1 AAAAAAAA
6665491 ATTATGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAAAAAATTTTTAT
Found at i:6665656 original size:29 final size:30
Alignment explanation
Indices: 6665596--6665658 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
6665586 TCGTGTTTTC
*
6665596 TAAAATCAAAACCCTAAACCTTCAATACCT
1 TAAAATCAAAACCCTAAACCTTCAATAACT
*
6665626 TAAAATC-AAACCCTAAAATCTTCAA-AACT
1 TAAAATCAAAACCCT-AAACCTTCAATAACT
6665655 TAAA
1 TAAA
6665659 TCCAAACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (30 bp):
TAAAATCAAAACCCTAAACCTTCAATAACT
Found at i:6665664 original size:29 final size:30
Alignment explanation
Indices: 6665596--6665665 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
6665586 TCGTGTTTTC
* *
6665596 TAAAATCAAAACCCTAAACCTTCAATACCT
1 TAAAATCCAAACCCTAAACCTTCAATAACT
*
6665626 TAAAAT-CAAACCCTAAAATCTTCAA-AACT
1 TAAAATCCAAACCCT-AAACCTTCAATAACT
6665655 T-AAATCCAAAC
1 TAAAATCCAAAC
6665666 TATTAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.11
29 16 0.46
30 15 0.43
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (30 bp):
TAAAATCCAAACCCTAAACCTTCAATAACT
Found at i:6672308 original size:15 final size:16
Alignment explanation
Indices: 6672290--6672324 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6672280 ATTCAAACCC
*
6672290 TTAAAAT-TTGAATCT
1 TTAAAATCTTGAAACT
6672305 TTAAAATCTTGAAACT
1 TTAAAATCTTGAAACT
6672321 TTAA
1 TTAA
6672325 TCTTTAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (16 bp):
TTAAAATCTTGAAACT
Found at i:6677399 original size:18 final size:18
Alignment explanation
Indices: 6677376--6677428 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
6677366 AGAAACATAA
6677376 TTTTTTTTATAAAAATTT
1 TTTTTTTTATAAAAATTT
**
6677394 TTTTTTTTA-AAAAGGTT
1 TTTTTTTTATAAAAATTT
* *
6677411 CTTTTTTTATGAAAATTT
1 TTTTTTTTATAAAAATTT
6677429 ATTATCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTTTTTATAAAAATTT
Found at i:6681029 original size:15 final size:14
Alignment explanation
Indices: 6681011--6681046 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
6681001 TATTTTGCTT
*
6681011 AAAAAAATAAACAA
1 AAAAAAAAAAACAA
6681025 AAAAATAAAAAACAA
1 AAAAA-AAAAAACAA
6681040 AAAAAAA
1 AAAAAAA
6681047 TGATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.89, C:0.06, G:0.00, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:6682244 original size:109 final size:109
Alignment explanation
Indices: 6682116--6682905 Score: 1023
Period size: 109 Copynumber: 7.2 Consensus size: 109
6682106 TCGGTCGTCG
* * * *
6682116 TTAATATTTGATTCGTGATTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCTT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
*
6682181 AGTCGCTTTTATTTCTTTGACTTACGATTCAGTCTCAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCTCAGTTATCT
* * * *
6682225 TTAATTTTTGACTCTTGATTTAATCTCGATCATTCTTATAACTTCTCGACTTACGGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
** * * * ** *
6682290 AGTCATTTTTATTTATCTGACTTACGGTTCAGTCT-TGATCGTCA
66 AGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCTCAG-TTATCT
* * * * *
6682334 TTAATATTTGATTTGTGGTTTAATC-CTGATCATTCTTATATCTTCTCGACTTACGATTTAATCC
1 TTAATCTTTGACTCGTGGTTTAATCTC-GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCC
* *
6682398 TAGTCACTTTTATTTCTTTGACTTACGGTTCATTCTCAGTTATCT
65 TAGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCTCAGTTATCT
* * * * * *
6682443 TTAATATTTGATTCGTGGTTTAATCCCGATCATTCTTATAGCTTATCAACTTATGGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* *
6682508 AGTCGCTTTTATTTCTTTAACTTGCGGTTCAGTC-CTAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCTC-AGTTATCT
* * * *
6682552 TTAATCTTTGACTTGTGGTTTAATCCCGATCATTCTTATAGCTTCTCGACTTATGGTTTAATTCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
** * *
6682617 AGTCATTTTTATTTCTGTGACTTGCGGTTCAGTCTCAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCTCAGTTATCT
*
6682661 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTTTCGACTTACGGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* ** * ** *
6682726 AGTCGCTTTTATTT-TCCTGACTTGTGGTTCAGTC-CCGATCGTCA
66 AGTCGCTTTTATTTCT-TTGACTTACGGTTCAGTCTCAG-TTATCT
* * * *
6682770 TTAATCTTTGATTCGTGGTTTAATCCCGATCATTCTTATAGCTTCTTGACTTACGATTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
*
6682835 AGTCGTTTTTATTTCTTTGACTTACGGTTCAGTCTCAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCTCAGTTATCT
6682879 TTAATCTTTGACTCGTGGTTTAATCTC
1 TTAATCTTTGACTCGTGGTTTAATCTC
6682906 AATCTTTTTA
Statistics
Matches: 594, Mismatches: 77, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
108 6 0.01
109 582 0.98
110 6 0.01
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (109 bp):
TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
AGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCTCAGTTATCT
Found at i:6683003 original size:102 final size:102
Alignment explanation
Indices: 6682885--6683292 Score: 600
Period size: 102 Copynumber: 4.0 Consensus size: 102
6682875 ATCTTTAATC
* * *
6682885 TTTGACTCGTGGTTTAATCTCAATCTTTTTATTCTTCGATTCACGATTTAATCTCGATCTCTTTA
1 TTTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTA
*
6682950 ATTTAAAATCGCAGTTTAATCTCGATTGTTGTTATTT
66 ATTTAAAATCACAGTTTAATCTCGATTGTTGTTATTT
* * * * *
6682987 TTTGACTCATGATTTAATCTCGATCTTTTTATTCTTCGATTCGCGGTTCAATCACGATCTTTTTA
1 TTTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTA
* *
6683052 ATTTAAAATCATAGTTTAATCTCGATTGTTGTCATTT
66 ATTTAAAATCACAGTTTAATCTCGATTGTTGTTATTT
* * * * *
6683089 TTTGACTCGTTGTTTAATCTTGATCTTTTTATTCTTTGATTCGCGGTTCAATCTTGATCTCTTTA
1 TTTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTA
*
6683154 ATTTAAAATCACAGTTTAATCTCGATTGTTGTTGTTAT
66 ATTTAAAATCACAGTTTAATCTCGATTGTTGTTATT-T
* * *
6683192 CTTCTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTTGATTCGCGATTCAATCCCGATCTTTT
1 -TT-TGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTT
6683257 TAATTTAAAATCACAGTTTAATCTTCGATTGTTGTT
64 TAATTTAAAATCACAGTTTAATC-TCGATTGTTGTT
6683293 GTTAACCCCT
Statistics
Matches: 274, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
102 181 0.66
103 1 0.00
104 2 0.01
105 78 0.28
106 12 0.04
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (102 bp):
TTTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTA
ATTTAAAATCACAGTTTAATCTCGATTGTTGTTATTT
Found at i:6683142 original size:34 final size:34
Alignment explanation
Indices: 6682878--6683258 Score: 198
Period size: 34 Copynumber: 11.1 Consensus size: 34
6682868 CTCAGTTATC
* * * *
6682878 TTTAATCTTTGACTCGTGGTTTAATCTCAATCTT
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCTT
* * * *
6682912 TTTATTCTTCGATTCACGATTTAATCTCGATCTC
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCTT
* ** * *
6682946 TTTAAT-TTAAAATCGCAGTTTAATCTCGAT-TGT
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCT-T
* * ** *
6682979 TGTTATTTTTTGACTCATGATTTAATCTCGATCTT
1 T-TTATTCTTTGATTCGCGGTTTAATCTCGATCTT
* * *
6683014 TTTATTCTTCGATTCGCGGTTCAATCACGATCTT
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCTT
* ** * ***
6683048 TTTAAT-TTAAAATCATAGTTTAATCTCGAT-TGT
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCT-T
* * * ** *
6683081 TGTCATTTTTTGACTCGTTGTTTAATCTTGATCTT
1 T-TTATTCTTTGATTCGCGGTTTAATCTCGATCTT
* * *
6683116 TTTATTCTTTGATTCGCGGTTCAATCTTGATCTC
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCTT
* ** * * *
6683150 TTTAAT-TTAAAATCACAGTTTAATCTCGAT-TGT
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCT-T
* * *
6683183 TGTTGTTATCTTCTGACTCGTGGTTTAATCTCGATCTT
1 T-TT-AT-TCTT-TGATTCGCGGTTTAATCTCGATCTT
* * *
6683221 TTTATTCTTTGATTCGCGATTCAATCCCGATCTT
1 TTTATTCTTTGATTCGCGGTTTAATCTCGATCTT
6683255 TTTA
1 TTTA
6683259 ATTTAAAATC
Statistics
Matches: 253, Mismatches: 79, Indels: 30
0.70 0.22 0.08
Matches are distributed among these distances:
32 3 0.01
33 55 0.22
34 125 0.49
35 43 0.17
36 4 0.02
37 4 0.02
38 18 0.07
39 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (34 bp):
TTTATTCTTTGATTCGCGGTTTAATCTCGATCTT
Found at i:6683391 original size:175 final size:175
Alignment explanation
Indices: 6683196--6683584 Score: 573
Period size: 175 Copynumber: 2.2 Consensus size: 175
6683186 TGTTATCTTC
* * * * *
6683196 TGACTCGTGGTTTAATCTCGATCTTTTTATTCTTTGATTCGCGATTCAATCCCGATCTTTTTAAT
1 TGACTCGCGATTTAATCTCGATCTCTTTATTCTTTGATTCACGATTCAATCCCGATCTCTTTAAT
* * *
6683261 TTAAAATCACAGTTTAATCTTCGATTGTTGTTGTTAACCCCTGACTCGTGGTTTATTCTTGATCT
66 TTAAAATCACAGTTTAATC-TCAATTGTTGTTGTTAACCCCTGACTCGTGATTTATTCTCGATCT
6683326 TCTTA-TTTTTTGACTTGTGATTCAATCCAAATTAACGTCATTTTT
130 TCTTATTTTTTTGACTTGTGATTCAATCCAAATTAACGTCATTTTT
* * * *
6683371 TGACTCGCGATTTAATCTCGATCTCTTTATTCTTCGATTTACGGTTCAATCTCGATCTCTTTAAT
1 TGACTCGCGATTTAATCTCGATCTCTTTATTCTTTGATTCACGATTCAATCCCGATCTCTTTAAT
** * *
6683436 TTAAAATCGTAGTTTAATCTCAATTGTTGTTGTTAACCTCTGACTCGTGATTTATTCTCGATGTT
66 TTAAAATCACAGTTTAATCTCAATTGTTGTTGTTAACCCCTGACTCGTGATTTATTCTCGATCTT
* *
6683501 CTTATTTTTTTGACTTGTGATTCAATCTAAGTTAACGTCATTTTT
131 CTTATTTTTTTGACTTGTGATTCAATCCAAATTAACGTCATTTTT
* * *
6683546 TGATTCACGATTTAATCCCGATCTCTTTATTCTTTGATT
1 TGACTCGCGATTTAATCTCGATCTCTTTATTCTTTGATT
6683585 TATGGTTTAA
Statistics
Matches: 191, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
174 45 0.24
175 146 0.76
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (175 bp):
TGACTCGCGATTTAATCTCGATCTCTTTATTCTTTGATTCACGATTCAATCCCGATCTCTTTAAT
TTAAAATCACAGTTTAATCTCAATTGTTGTTGTTAACCCCTGACTCGTGATTTATTCTCGATCTT
CTTATTTTTTTGACTTGTGATTCAATCCAAATTAACGTCATTTTT
Found at i:6683990 original size:29 final size:28
Alignment explanation
Indices: 6683950--6684012 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
6683940 TATTAAATAT
* *
6683950 AAAATACGAAATAGAAAAAAATACCAAAA
1 AAAATACAAAATACAAAAAAATA-CAAAA
*
6683979 ATAATACAAAATACAAAAAAATACAAAA
1 AAAATACAAAATACAAAAAAATACAAAA
6684007 AAAATA
1 AAAATA
6684013 GAACAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.75, C:0.10, G:0.03, T:0.13
Consensus pattern (28 bp):
AAAATACAAAATACAAAAAAATACAAAA
Found at i:6684001 original size:17 final size:19
Alignment explanation
Indices: 6683967--6684006 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
6683957 GAAATAGAAA
6683967 AAAATACCAAAAATAATAC
1 AAAATACCAAAAATAATAC
6683986 AAAATA-CAAAAA-AATAC
1 AAAATACCAAAAATAATAC
6684003 AAAA
1 AAAA
6684007 AAAATAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 6 0.29
19 6 0.29
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAATACCAAAAATAATAC
Found at i:6684010 original size:12 final size:12
Alignment explanation
Indices: 6683993--6684031 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
6683983 TACAAAATAC
*
6683993 AAAAAAATA-CA
1 AAAAAAATAGAA
6684004 AAAAAAATAGAA
1 AAAAAAATAGAA
*
6684016 CAAAAAATAGAA
1 AAAAAAATAGAA
6684028 AAAA
1 AAAA
6684032 TCGAAGATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (12 bp):
AAAAAAATAGAA
Found at i:6684020 original size:10 final size:10
Alignment explanation
Indices: 6683958--6684009 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
6683948 ATAAAATACG
*
6683958 AAATAGAAAA
1 AAATACAAAA
6683968 AAATACCAAAA
1 AAATA-CAAAA
6683979 ATAATAC---A
1 A-AATACAAAA
6683987 AAATACAAAA
1 AAATACAAAA
6683997 AAATACAAAA
1 AAATACAAAA
6684007 AAA
1 AAA
6684010 ATAGAACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
7 5 0.14
8 2 0.06
10 19 0.53
11 6 0.17
12 4 0.11
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.12
Consensus pattern (10 bp):
AAATACAAAA
Found at i:6684030 original size:10 final size:10
Alignment explanation
Indices: 6683958--6684031 Score: 53
Period size: 10 Copynumber: 7.2 Consensus size: 10
6683948 ATAAAATACG
6683958 AAATAGAAAA
1 AAATAGAAAA
**
6683968 AAATA-CCAA
1 AAATAGAAAA
*
6683977 AAATA-ATACA
1 AAATAGA-AAA
*
6683987 AAATACAAAA
1 AAATAGAAAA
*
6683997 AAATACAAAAA
1 AAATA-GAAAA
6684008 AAATAGAACAAA
1 AAATAG-A-AAA
6684020 AAATAGAAAA
1 AAATAGAAAA
6684030 AA
1 AA
6684032 TCGAAGATGG
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
9 7 0.14
10 23 0.45
11 12 0.24
12 9 0.18
ACGTcount: A:0.77, C:0.08, G:0.04, T:0.11
Consensus pattern (10 bp):
AAATAGAAAA
Found at i:6684410 original size:19 final size:18
Alignment explanation
Indices: 6684368--6684414 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
6684358 TGCACGAAAA
**
6684368 AAAAAACAAAAGTCAGTTT
1 AAAAAA-AAAAGTCAGAAT
6684387 AAAAAAAAAAGTCAGAAT
1 AAAAAAAAAAGTCAGAAT
6684405 ACAAAAAAAA
1 A-AAAAAAAA
6684415 TATAGTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.13
Consensus pattern (18 bp):
AAAAAAAAAAGTCAGAAT
Found at i:6685527 original size:29 final size:28
Alignment explanation
Indices: 6685489--6685557 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
6685479 CCTAAAATCA
* *
6685489 AAACCCTAAACCTTCAATACCTTAAAACC
1 AAACCTTAAACCTTCAA-AACTTAAAACC
* *
6685518 AAACCTTAAAATCTTCAAAACTTAAATCC
1 AAACCTT-AAACCTTCAAAACTTAAAACC
6685547 AAACCCTTAAA
1 AAA-CCTTAAA
6685558 ATCTGAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (28 bp):
AAACCTTAAACCTTCAAAACTTAAAACC
Found at i:6685534 original size:30 final size:30
Alignment explanation
Indices: 6685500--6685561 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
6685490 AACCCTAAAC
*
6685500 CTTCAATACCTTAAAACCAAA-CCTTAAAAT
1 CTTCAA-AACTTAAAACCAAACCCTTAAAAT
*
6685530 CTTCAAAACTTAAATCCAAACCCTTAAAAT
1 CTTCAAAACTTAAAACCAAACCCTTAAAAT
6685560 CT
1 CT
6685562 GAATTTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (30 bp):
CTTCAAAACTTAAAACCAAACCCTTAAAAT
Found at i:6685537 original size:22 final size:24
Alignment explanation
Indices: 6685486--6685543 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
6685476 GTTCCTAAAA
*
6685486 TCAAAACCCTAAACCTTCAATACCT
1 TCAAAA-CCTAAACCTTCAAAACCT
*
6685511 T-AAAACC-AAACCTT-AAAATCT
1 TCAAAACCTAAACCTTCAAAACCT
*
6685532 TCAAAACTTAAA
1 TCAAAACCTAAA
6685544 TCCAAACCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.21
22 12 0.43
23 5 0.18
24 4 0.14
25 1 0.04
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (24 bp):
TCAAAACCTAAACCTTCAAAACCT
Found at i:6688096 original size:15 final size:15
Alignment explanation
Indices: 6688043--6688099 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
6688033 GTTTTCGCAT
*
6688043 AAAAAGAAAGAAAATAA
1 AAAAAGAAA-AAAA-AG
6688060 ATAAAAGAAAAAAAAG
1 A-AAAAGAAAAAAAAG
* *
6688076 AAAAAGAAAAGAGAG
1 AAAAAGAAAAAAAAG
*
6688091 AGAAAGAAA
1 AAAAAGAAA
6688100 GAAGGAATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 20 0.57
16 2 0.06
17 5 0.14
18 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:6692082 original size:11 final size:11
Alignment explanation
Indices: 6692066--6692137 Score: 58
Period size: 11 Copynumber: 6.3 Consensus size: 11
6692056 ATTTTTTATT
*
6692066 TTTTATCTATA
1 TTTTATATATA
*
6692077 TTTTATAGATA
1 TTTTATATATA
6692088 TTATATATATATA
1 TT-T-TATATATA
*
6692101 TATTTCTATATA
1 T-TTTATATATA
6692113 TTATT-TATATA
1 TT-TTATATATA
6692124 -TTTAGTATATA
1 TTTTA-TATATA
6692135 TTT
1 TTT
6692138 ATGAGATTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
9 2 0.04
10 1 0.02
11 24 0.48
12 13 0.26
13 9 0.18
14 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (11 bp):
TTTTATATATA
Found at i:6693059 original size:16 final size:16
Alignment explanation
Indices: 6693038--6693070 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6693028 TTACCGCACA
6693038 TGTAAATAAGGTGCTC
1 TGTAAATAAGGTGCTC
6693054 TGTAAATAAGGTGCTC
1 TGTAAATAAGGTGCTC
6693070 T
1 T
6693071 AACTAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (16 bp):
TGTAAATAAGGTGCTC
Found at i:6695754 original size:21 final size:21
Alignment explanation
Indices: 6695730--6695769 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6695720 TTTTAAGAGA
* *
6695730 GTCTTTTATTTGTTTATCATT
1 GTCTTTCATTTGTCTATCATT
6695751 GTCTTTCATTTGTCTATCA
1 GTCTTTCATTTGTCTATCA
6695770 CTATAGGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (21 bp):
GTCTTTCATTTGTCTATCATT
Found at i:6698998 original size:7 final size:7
Alignment explanation
Indices: 6698986--6699013 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6698976 TATATACCCT
6698986 AGAATAA
1 AGAATAA
6698993 AGAATAA
1 AGAATAA
6699000 AGAATAA
1 AGAATAA
6699007 AGAATAA
1 AGAATAA
6699014 GACAAGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AGAATAA
Found at i:6702283 original size:37 final size:36
Alignment explanation
Indices: 6702226--6702307 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
6702216 ATTGTACAAT
* *
6702226 ATTTGTTCTTCTATTCTTTTAGAGAAGTATTATCATG
1 ATTTATTCTTCTATTCTTTTAGA-AAATATTATCATG
* * *
6702263 ATTTATTCTTCTATTTTTTTAGAAAATATTTTCATT
1 ATTTATTCTTCTATTCTTTTAGAAAATATTATCATG
*
6702299 ACTTATTCT
1 ATTTATTCT
6702308 ACCATATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 18 0.46
37 21 0.54
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (36 bp):
ATTTATTCTTCTATTCTTTTAGAAAATATTATCATG
Found at i:6702424 original size:72 final size:72
Alignment explanation
Indices: 6702294--6702496 Score: 182
Period size: 72 Copynumber: 2.8 Consensus size: 72
6702284 GAAAATATTT
* * * ** *
6702294 TCATTACTTATTCTACC-ATAT-TTAAGAAAACAT-CATCATTACTAATTCTACTATTTTTTAAA
1 TCATTACTTATTCT-CCTATTTCTTAAGGAAACATAC-CCATTACTTGTTCTCCTA-TTTTTAAA
* *
6702356 GAAAAAC-TTT
63 -AAAAACAATC
* * *
6702366 TGATTACTTATTCTCCTACTTTCTTAAGGAAA-ATACCCATTGCTTGTTCTCCTATTTTTTAAAA
1 TCATTACTTATTCTCCTA-TTTCTTAAGGAAACATACCCATTACTTGTTCTCCTATTTTTAAAAA
6702430 AAACAATC
65 AAACAATC
* * * * *
6702438 TCATTACTTATTCTCCTATTTTTTATGGAAACATTCGCATTACTTGTTCTCATATTTTT
1 TCATTACTTATTCTCCTATTTCTTAAGGAAACATACCCATTACTTGTTCTCCTATTTTT
6702497 CTTAAAAGAA
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
71 19 0.18
72 62 0.58
73 17 0.16
74 9 0.08
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (72 bp):
TCATTACTTATTCTCCTATTTCTTAAGGAAACATACCCATTACTTGTTCTCCTATTTTTAAAAAA
AACAATC
Found at i:6702452 original size:36 final size:36
Alignment explanation
Indices: 6702265--6702535 Score: 135
Period size: 36 Copynumber: 7.5 Consensus size: 36
6702255 TTATCATGAT
* * * * * *
6702265 TTATTCTTCTATTTTTTTAGAAAATATTTTCATTAC
1 TTATTCTCCTATTTTTTAAAAAAACAATCTCATTAC
* *
6702301 TTATTCTACC-A-TATTTAAGAAAAC-ATCATCATTAC
1 TTATTCT-CCTATTTTTTAAAAAAACAATC-TCATTAC
* * * * *
6702336 TAATTCTACTATTTTTTAAAGAAAA-ACTTTTGATTAC
1 TTATTCTCCTATTTTTTAAA-AAAACA-ATCTCATTAC
* ** * *
6702373 TTATTCTCCTACTTTCTT-AAGGAA-AATACCCATTGC
1 TTATTCTCCTA-TTTTTTAAAAAAACAAT-CTCATTAC
*
6702409 TTGTTCTCCTATTTTTTAAAAAAACAATCTCATTAC
1 TTATTCTCCTATTTTTTAAAAAAACAATCTCATTAC
*** * *
6702445 TTATTCTCCTATTTTTTATGGAAACATTCGCATTAC
1 TTATTCTCCTATTTTTTAAAAAAACAATCTCATTAC
* * * *
6702481 TTGTTCTCATATTTTTCTTAAAAGAAACACTCTTATTA-
1 TTATTCTCCTA-TTTT-TTAAAA-AAACAATCTCATTAC
*
6702519 TTAATT-TTCTATTTTTT
1 TT-ATTCTCCTATTTTTT
6702536 TTAGGGAAAC
Statistics
Matches: 174, Mismatches: 46, Indels: 30
0.70 0.18 0.12
Matches are distributed among these distances:
34 2 0.01
35 30 0.17
36 82 0.47
37 33 0.19
38 14 0.08
39 13 0.07
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.48
Consensus pattern (36 bp):
TTATTCTCCTATTTTTTAAAAAAACAATCTCATTAC
Found at i:6702611 original size:48 final size:47
Alignment explanation
Indices: 6702533--6702832 Score: 168
Period size: 48 Copynumber: 6.3 Consensus size: 47
6702523 TTTTCTATTT
* **
6702533 TTTTTAGGGAAACACTTACTTA-CATATTCCTTTTAATAATTTTTTAC
1 TTTTTAAGGAAACACTCCCTTATC-TATTCCTTTTAATAATTTTTTAC
* * * *
6702580 TTTTTAAGGAAGCATTCCCATTATCTATTCCTTTTAATAATTTTCCTAT
1 TTTTTAAGGAAACACTCCC-TTATCTATTCCTTTTAATAATTTT-TTAC
* * *
6702629 TTTTTAGGGAAATACTCCCTTATCTATTCCTTTGAAT-A-TTTTT-C
1 TTTTTAAGGAAACACTCCCTTATCTATTCCTTTTAATAATTTTTTAC
* * ** * *
6702673 TTTTTTCAGGGAAACACTCCCATTACCT-TTTTTTTTTATAATTTTTCTAT
1 -TTTTT-AAGGAAACACTCCC-TTATCTATTCCTTTTAATAATTTTT-TAC
** ** * *
6702723 TTTTTAAAAAAACACTCATTTACCTATTTCTTTTAATAATCTTTTT--
1 TTTTTAAGGAAACACTCCCTTATCTATTCCTTTTAATAAT-TTTTTAC
* * * * * *
6702769 TTTTTTA-GAAACATTCTCATTA-CTTATTCTTTTTAATAACTTTTCTAT
1 TTTTTAAGGAAACACTC-CCTTATC-TATTCCTTTTAATAA-TTTTTTAC
*
6702817 TTCTTTAGGGAAACAC
1 TT-TTTAAGGAAACAC
6702833 GGTCATTACA
Statistics
Matches: 195, Mismatches: 39, Indels: 35
0.72 0.14 0.13
Matches are distributed among these distances:
45 14 0.07
46 49 0.25
47 28 0.14
48 67 0.34
49 31 0.16
50 6 0.03
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.51
Consensus pattern (47 bp):
TTTTTAAGGAAACACTCCCTTATCTATTCCTTTTAATAATTTTTTAC
Found at i:6702746 original size:47 final size:46
Alignment explanation
Indices: 6702684--6702873 Score: 125
Period size: 48 Copynumber: 4.0 Consensus size: 46
6702674 TTTTTCAGGG
*
6702684 AAACACTCCCATTACCTTTTTTTTTTATAATTTTTCTATTTTTTAAAA
1 AAACACT--CATTACCTTTTTTTTTAATAATTTTTCTATTTTTTAAAA
* *
6702732 AAACACTCATTTACCTATTTCTTTTAATAATCTTTT-T-TTTTTTAGAA
1 AAACACTCA-TTACCT-TTTTTTTTAATAAT-TTTTCTATTTTTTAAAA
* ** * ***
6702779 ACATTCTCATTA-CTTATTCTTTTTAATAACTTTTCTATTTCTTTAGGG
1 AAACACTCATTACCTT-TT-TTTTTAATAATTTTTCTATTT-TTTAAAA
* * * * *
6702827 AAACACGGTCATTACATATTCTTTTTGATAATTCTACTATTTTTTAA
1 AAACAC--TCATTACCT-TTTTTTTTAATAATTTTTCTATTTTTTAA
6702874 GGAGACGCTT
Statistics
Matches: 110, Mismatches: 20, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
44 1 0.01
45 8 0.07
46 15 0.14
47 24 0.22
48 28 0.25
49 8 0.07
50 23 0.21
51 2 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.04, T:0.52
Consensus pattern (46 bp):
AAACACTCATTACCTTTTTTTTTAATAATTTTTCTATTTTTTAAAA
Found at i:6702851 original size:95 final size:93
Alignment explanation
Indices: 6702511--6702859 Score: 316
Period size: 94 Copynumber: 3.7 Consensus size: 93
6702501 AAAGAAACAC
* * *
6702511 TCTTATTATTAATTTTCTATTTTTTTTAGGGAAACACTTACTTACATATTCCTTTTAATAATTTT
1 TCTTTTTAATAATTTTCTA--TTTTTTAGGGAAACACTCACTTACATATTCCTTTTAATAATTTT
*
6702576 TTACTTTTTAAGGAAGCATTCCCATTA-TCTAT
64 TT--TTTTTAAGGAAACATTCCCATTACT-TAT
* * * *
6702608 TCCTTTTAATAATTTTCCTATTTTTTAGGGAAATACTCCCTTATC-TATTCCTTTGAAT-ATTTT
1 TCTTTTTAATAATTTT-CTATTTTTTAGGGAAACACTCACTTA-CATATTCCTTTTAATAATTTT
* *
6702671 TCTTTTTTCAGGGAAACACTCCCATTACCTT-T
64 T-TTTTTT-AAGGAAACATTCCCATTA-CTTAT
* *** * * *
6702703 T-TTTTTTATAATTTTTCTATTTTTTAAAAAAACACTCATTTACCTATTTCTTTTAATAATCTTT
1 TCTTTTTAATAA-TTTTCTATTTTTTAGGGAAACACTCACTTACATATTCCTTTTAATAAT-TTT
* *
6702767 TTTTTTTTA-GAAACATTCTCATTACTTAT
64 TTTTTTTAAGGAAACATTCCCATTACTTAT
* *
6702796 TCTTTTTAATAACTTTTCTATTTCTTTAGGGAAACACGGTCA-TTACATATTCTTTTTGATAATT
1 TCTTTTTAATAA-TTTTCTATTT-TTTAGGGAAACAC--TCACTTACATATTCCTTTTAATAATT
6702860 CTACTATTTT
Statistics
Matches: 204, Mismatches: 33, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
92 3 0.01
93 16 0.08
94 63 0.31
95 46 0.23
96 55 0.27
97 18 0.09
98 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.52
Consensus pattern (93 bp):
TCTTTTTAATAATTTTCTATTTTTTAGGGAAACACTCACTTACATATTCCTTTTAATAATTTTTT
TTTTTAAGGAAACATTCCCATTACTTAT
Found at i:6703517 original size:15 final size:15
Alignment explanation
Indices: 6703497--6703538 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
6703487 GCCGTTTACG
6703497 GAACAACTATTCA-A
1 GAACAACTATTCACA
*
6703511 TGAACAACTCTTCACA
1 -GAACAACTATTCACA
6703527 GAACAACTATTC
1 GAACAACTATTC
6703539 TTGAAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (15 bp):
GAACAACTATTCACA
Found at i:6708650 original size:43 final size:42
Alignment explanation
Indices: 6708601--6708697 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 42
6708591 TTTTTTTTTT
*
6708601 TAACTTTTGTAGTGTTTTTGGGTAATCTTTGTAAG-AATTATGG
1 TAACTTTTGTAGTGTTTTT-GGTAACCTTTGTAAGAAATT-TGG
* * *
6708644 TGACTTTTATAGTGTTTTTTGTAACCTTTGTAAGAAATTTGG
1 TAACTTTTGTAGTGTTTTTGGTAACCTTTGTAAGAAATTTGG
6708686 TAACCTTTTGTA
1 TAA-CTTTTGTA
6708698 AAATTTGGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 18 0.39
43 28 0.61
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (42 bp):
TAACTTTTGTAGTGTTTTTGGTAACCTTTGTAAGAAATTTGG
Found at i:6708701 original size:20 final size:21
Alignment explanation
Indices: 6708664--6708717 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
6708654 AGTGTTTTTT
6708664 GTAACCTTTGTAAGAAATTTG
1 GTAACCTTTGTAAGAAATTTG
6708685 GTAACCTTTTGT-A-AAATTTGG
1 GTAACC-TTTGTAAGAAATTT-G
*
6708706 GTAAACTTTGTA
1 GTAACCTTTGTA
6708718 GTGTCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 11 0.38
21 13 0.45
22 5 0.17
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (21 bp):
GTAACCTTTGTAAGAAATTTG
Found at i:6709769 original size:17 final size:18
Alignment explanation
Indices: 6709747--6709781 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6709737 CTAAATGATA
*
6709747 AAAATTTTGA-TTTAAAT
1 AAAATTTTAATTTTAAAT
6709764 AAAATTTTAATTTTAAAT
1 AAAATTTTAATTTTAAAT
6709782 TTTATGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAAATTTTAATTTTAAAT
Found at i:6713837 original size:17 final size:17
Alignment explanation
Indices: 6713811--6713873 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
6713801 ATGGGCCTAT
6713811 TTTTTAATTTTTATTTTG
1 TTTTT-ATTTTTATTTTG
*
6713829 TTTTTATTTTTATTTTA
1 TTTTTATTTTTATTTTG
* **
6713846 TTATTATTACTATTTTCG
1 TTTTTATTTTTATTTT-G
6713864 TTTATTATTT
1 TTT-TTATTT
6713874 ATTTTTATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 24 0.67
18 7 0.19
19 5 0.14
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTTATTTTG
Found at i:6714725 original size:3 final size:3
Alignment explanation
Indices: 6714670--6714707 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6714660 TTTCATTAAT
6714670 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6714708 TCTAAATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6714753 original size:6 final size:6
Alignment explanation
Indices: 6714742--6714775 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6714732 CCTTAAATTT
6714742 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
6714776 GTTTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:6714862 original size:61 final size:60
Alignment explanation
Indices: 6714792--6714922 Score: 185
Period size: 61 Copynumber: 2.2 Consensus size: 60
6714782 TTTTTTTTTG
* * *
6714792 AAATCAAAATT-TC-AGAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAAAATTATCAAG-AAAAAATA-TTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTT-A
*
6714853 AAATAAAAATTATCAAGAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAATAAAAATTATCAAGAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTA
6714913 AAATAAAAAT
1 AAATAAAAAT
6714923 ATTTTAATGC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
60 11 0.17
61 41 0.64
62 10 0.16
63 2 0.03
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (60 bp):
AAATAAAAATTATCAAGAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTA
Done.