Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 54 of 129
Found at i:7709617 original size:24 final size:24
Alignment explanation
Indices: 7709576--7709627 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
7709566 TTGTCATAGC
7709576 AAAAAGGCATGAGTAATAA-ACAT
1 AAAAAGGCATGAGTAATAATACAT
* * *
7709599 AAAAAGGTATTAGTAAATAATTCAT
1 AAAAAGGCATGAGT-AATAATACAT
7709624 AAAA
1 AAAA
7709628 CATTTATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.50
24 5 0.21
25 7 0.29
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (24 bp):
AAAAAGGCATGAGTAATAATACAT
Found at i:7715297 original size:25 final size:25
Alignment explanation
Indices: 7715263--7715313 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7715253 TAAACTAGCC
7715263 GTTGGAGTTGCTTTAGGGCATACTT
1 GTTGGAGTTGCTTTAGGGCATACTT
7715288 GTTGGAGTTGCTTTAGGGCATACTT
1 GTTGGAGTTGCTTTAGGGCATACTT
7715313 G
1 G
7715314 ATCAATCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.33, T:0.39
Consensus pattern (25 bp):
GTTGGAGTTGCTTTAGGGCATACTT
Found at i:7716734 original size:31 final size:31
Alignment explanation
Indices: 7716694--7716752 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
7716684 CATATAACAA
* *
7716694 AATGGTCATTTTATCCCATAAATAATGAACC
1 AATGATCATTTTACCCCATAAATAATGAACC
*
7716725 AATGATCATTTTACCCCATAAATCATGA
1 AATGATCATTTTACCCCATAAATAATGA
7716753 GTATTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (31 bp):
AATGATCATTTTACCCCATAAATAATGAACC
Found at i:7718021 original size:20 final size:19
Alignment explanation
Indices: 7717992--7718029 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7717982 ATTTTTAAAT
*
7717992 TAAAATTTACATAGAAAAAC
1 TAAAAATTACAT-GAAAAAC
7718012 TAAAAATTACATGAAAAA
1 TAAAAATTACATGAAAAA
7718030 TCAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (19 bp):
TAAAAATTACATGAAAAAC
Found at i:7721286 original size:23 final size:24
Alignment explanation
Indices: 7721248--7721295 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7721238 TTATTGAATC
7721248 AAAAGATGCAATTTTTGATAAAAA
1 AAAAGATGCAATTTTTGATAAAAA
7721272 AAAAGATGCAATTTTTGATAAAAA
1 AAAAGATGCAATTTTTGATAAAAA
7721296 TAGATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (24 bp):
AAAAGATGCAATTTTTGATAAAAA
Found at i:7724455 original size:15 final size:17
Alignment explanation
Indices: 7724435--7724471 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
7724425 CTTAGCCAAC
*
7724435 AAAAAAA-TAATAG-AA
1 AAAAAAAGTAAAAGCAA
7724450 AAAAAAAGTAAAAGCAA
1 AAAAAAAGTAAAAGCAA
7724467 AAAAA
1 AAAAA
7724472 GCATAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 7 0.37
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAAAGTAAAAGCAA
Found at i:7725262 original size:7 final size:7
Alignment explanation
Indices: 7725247--7725277 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7725237 CCCCTGACAT
*
7725247 CATTTGC
1 CATTAGC
7725254 CATTAGC
1 CATTAGC
7725261 CATTAGC
1 CATTAGC
7725268 CATTAGC
1 CATTAGC
7725275 CAT
1 CAT
7725278 CCCTTCTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (7 bp):
CATTAGC
Found at i:7726695 original size:16 final size:16
Alignment explanation
Indices: 7726661--7726695 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7726651 ACAAATCTGC
*
7726661 AAATGAATAGAAAGAA
1 AAATGAATAGAAAAAA
*
7726677 AAATGAATGGAAAAAA
1 AAATGAATAGAAAAAA
7726693 AAA
1 AAA
7726696 AAAAATTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (16 bp):
AAATGAATAGAAAAAA
Found at i:7729460 original size:18 final size:20
Alignment explanation
Indices: 7729413--7729457 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7729403 TAACTTTGTA
*
7729413 TTTATAATAAAAAATAATAT
1 TTTATATTAAAAAATAATAT
7729433 TTTATATTAAAAAATAATAT
1 TTTATATTAAAAAATAATAT
7729453 TTTAT
1 TTTAT
7729458 TAATTTAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTATATTAAAAAATAATAT
Found at i:7732318 original size:20 final size:20
Alignment explanation
Indices: 7732295--7732333 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
7732285 CTTACTTGAG
7732295 TTCCT-GTTCTTTCACTTTTT
1 TTCCTAGTT-TTTCACTTTTT
7732315 TTCCTAGTTTTTCACTTTT
1 TTCCTAGTTTTTCACTTTT
7732334 AGTCTCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.08, C:0.23, G:0.05, T:0.64
Consensus pattern (20 bp):
TTCCTAGTTTTTCACTTTTT
Found at i:7736500 original size:185 final size:183
Alignment explanation
Indices: 7736183--7736553 Score: 521
Period size: 185 Copynumber: 2.0 Consensus size: 183
7736173 CAAGGTGTTG
* *
7736183 TTTTGATGTCTTGTAAACATTTAAAACCTTTTCTATTTTGTTTCTTTGAAAGCTCCTTTGTTTTA
1 TTTTGATGTCTTGTAAACATTTAAAACCTTTTCTATTTTGTTTCTTTGAAAGCTCCTATCTTTTA
* * ** * *
7736248 ACAGCAAAATAAGGTCTTTCTTTTATTCCCAAACTAGTAACTACCGTTCAAAAATGGAAGCATGT
66 ACAGAAAAATAAGGTCTTTCTTTTATTCCCAAACCAACAACTACCATTCAAAAATGAAAGCATGT
* * *
7736313 GCAATCCAAGTAAAAAAAATTGAAACTCTTTCTTTAAGTAGTAAATGTTTTCTTT
131 GCAATCCAAAT-AAAAAAATTGAAACTCTTTCCTTAAGTAGTAAATGCTTT-TTT
**
7736368 TTTTGATGT-TATGTAAATGTTTAAAACCTTTTCTATTTTGTTTCTTTGAAAGCTCCTATCTTTT
1 TTTTGATGTCT-TGTAAACATTTAAAACCTTTTCTATTTTGTTTCTTTGAAAGCTCCTATCTTTT
* * ** *
7736432 AACAGAAAAATGAGGTTTTTCTTTTATTTGCAAACCAACAGCTACCATTCAAAAATGAAAAG-AT
65 AACAGAAAAATAAGGTCTTTCTTTTATTCCCAAACCAACAACTACCATTCAAAAATG-AAAGCAT
*
7736496 GTGCAATCCAAATAAAAAAATTGAAACTTTTTCCTTAAGTAGTAAATGCTTTTTT
129 GTGCAATCCAAATAAAAAAATTGAAACTCTTTCCTTAAGTAGTAAATGCTTTTTT
7736551 TTT
1 TTT
7736554 GTTTTCATAG
Statistics
Matches: 165, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
183 6 0.04
184 37 0.22
185 119 0.72
186 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.41
Consensus pattern (183 bp):
TTTTGATGTCTTGTAAACATTTAAAACCTTTTCTATTTTGTTTCTTTGAAAGCTCCTATCTTTTA
ACAGAAAAATAAGGTCTTTCTTTTATTCCCAAACCAACAACTACCATTCAAAAATGAAAGCATGT
GCAATCCAAATAAAAAAATTGAAACTCTTTCCTTAAGTAGTAAATGCTTTTTT
Found at i:7737643 original size:46 final size:46
Alignment explanation
Indices: 7737579--7737718 Score: 165
Period size: 46 Copynumber: 3.1 Consensus size: 46
7737569 ATTTTAGAAT
* * * *
7737579 CTCAATAATTTTTTAAAATAAATTTAAAAGTTTTTTTAAGCAAAGG
1 CTCAATAACTTTTGAAAATAAATTTAAAAGCTTATTTAAGCAAAGG
* **
7737625 CTCAATAACTTTTGAAAATAAATTTAAAAACTCCTTTAAGCAAAGG
1 CTCAATAACTTTTGAAAATAAATTTAAAAGCTTATTTAAGCAAAGG
* * * * *
7737671 TTCGACAAC-TTTGAAAATAAATTTAAAAGCTTATTTAAGTAAAAG
1 CTCAATAACTTTTGAAAATAAATTTAAAAGCTTATTTAAGCAAAGG
7737716 CTC
1 CTC
7737719 GACAACTGTA
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
45 33 0.42
46 46 0.58
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.35
Consensus pattern (46 bp):
CTCAATAACTTTTGAAAATAAATTTAAAAGCTTATTTAAGCAAAGG
Found at i:7737733 original size:45 final size:45
Alignment explanation
Indices: 7737593--7737725 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 45
7737583 ATAATTTTTT
* * * *
7737593 AAAATAAATTTAAAAGTTTTTTTAAGCAAAGGCTCAATAACTTTTG
1 AAAATAAATTTAAAAGCTTATTTAAGCAAAGGCTCGACAAC-TTTG
* ** *
7737639 AAAATAAATTTAAAAACTCCTTTAAGCAAAGGTTCGACAACTTTG
1 AAAATAAATTTAAAAGCTTATTTAAGCAAAGGCTCGACAACTTTG
* *
7737684 AAAATAAATTTAAAAGCTTATTTAAGTAAAAGCTCGACAACT
1 AAAATAAATTTAAAAGCTTATTTAAGCAAAGGCTCGACAACT
7737726 GTAAAAATCT
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 40 0.54
46 34 0.46
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (45 bp):
AAAATAAATTTAAAAGCTTATTTAAGCAAAGGCTCGACAACTTTG
Found at i:7739493 original size:57 final size:57
Alignment explanation
Indices: 7739372--7739503 Score: 138
Period size: 57 Copynumber: 2.3 Consensus size: 57
7739362 ATTCAAATAA
* * * ** **
7739372 TCAGATATTACCATCGAGTAAATACAAATGATTTTGGATATCACCACCGAGGAGAAC
1 TCAGATATCACCATTGAGTAAATACAAATGACTTCAGATATCACCACCGAAAAGAAC
** * * * *
7739429 TTGGATATCACCATTGAGTGAATGCAGATGACTTCAGATATCACCACCGAAAAGACC
1 TCAGATATCACCATTGAGTAAATACAAATGACTTCAGATATCACCACCGAAAAGAAC
*
7739486 TCAGATATCGCCATTGAG
1 TCAGATATCACCATTGAG
7739504 AAAGGATGCA
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (57 bp):
TCAGATATCACCATTGAGTAAATACAAATGACTTCAGATATCACCACCGAAAAGAAC
Found at i:7750680 original size:150 final size:148
Alignment explanation
Indices: 7750392--7750690 Score: 499
Period size: 150 Copynumber: 2.0 Consensus size: 148
7750382 GTTTATTTTA
7750392 TAGTTCTTTCAATGTTGTTTCAATTTCTAGTGCATATTCATGCAATTTTACACAATTTCACTATT
1 TAGTTCTTTCAATGTTGTTTCAATTTCTAGTGCATATTCATGCAATTTTACACAATTTCACTATT
* *
7750457 ATTACTTGTACGGTATGTGCATTTATAAATTTGACCCAATCAAATATTTGTCCTTTCATTTTCCA
66 ATTACTTGTACGGTATGTGCACTTATAAATTTGACCCAATCAAATATTTATCCTTTCATTTTCCA
7750522 ATGCTTTCCACTCAATCC
131 ATGCTTTCCACTCAATCC
* *
7750540 TAGTTCTTTCAATGTTTTTTTTCAATTTCTAGTGCATATTCATGTAATTTTACACAATTTCACTA
1 TAGTTCTTTCAATG--TTGTTTCAATTTCTAGTGCATATTCATGCAATTTTACACAATTTCACTA
* * * * *
7750605 TTATTACTTGTATGGTATGTGCACTTATAGATTTGACCCAATTAGATATTTATCCTTTCATTTTT
64 TTATTACTTGTACGGTATGTGCACTTATAAATTTGACCCAATCAAATATTTATCCTTTCATTTTC
7750670 CAATGCTTTCCACTCAATCC
129 CAATGCTTTCCACTCAATCC
7750690 T
1 T
7750691 TTTTTCTTTT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
148 14 0.10
150 126 0.90
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (148 bp):
TAGTTCTTTCAATGTTGTTTCAATTTCTAGTGCATATTCATGCAATTTTACACAATTTCACTATT
ATTACTTGTACGGTATGTGCACTTATAAATTTGACCCAATCAAATATTTATCCTTTCATTTTCCA
ATGCTTTCCACTCAATCC
Found at i:7750716 original size:26 final size:27
Alignment explanation
Indices: 7750687--7750756 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
7750677 TTCCACTCAA
7750687 TCCTTT-TTTCTTTTCTTTTCCTTATT
1 TCCTTTCTTTCTTTTCTTTTCCTTATT
** *
7750713 TCCTTTGGTTCTTTT-TTTTCCTTTTT
1 TCCTTTCTTTCTTTTCTTTTCCTTATT
7750739 TCCTTTCTTTC-TTTCTTT
1 TCCTTTCTTTCTTTTCTTT
7750757 CATTTTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 3 0.08
26 28 0.74
27 7 0.18
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (27 bp):
TCCTTTCTTTCTTTTCTTTTCCTTATT
Found at i:7750737 original size:8 final size:8
Alignment explanation
Indices: 7750687--7750777 Score: 53
Period size: 8 Copynumber: 11.0 Consensus size: 8
7750677 TTCCACTCAA
7750687 TCCTTTTT
1 TCCTTTTT
*
7750695 TCTTTTCTTT
1 TC-CTT-TTT
*
7750705 TCCTTATT
1 TCCTTTTT
*
7750713 TCCTTTGGT
1 TCCTTT-TT
*
7750722 TCTTTTTTT
1 TC-CTTTTT
7750731 TCCTTTTT
1 TCCTTTTT
7750739 TCCTTTCTT
1 TCCTTT-TT
7750748 T-CTTTCTT
1 TCCTTT-TT
*
7750756 T-CATTTT
1 TCCTTTTT
*
7750763 T-CATTTT
1 TCCTTTTT
7750770 TCCTTTTT
1 TCCTTTTT
7750778 CTTATTTTCT
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
7 10 0.15
8 36 0.54
9 13 0.19
10 8 0.12
ACGTcount: A:0.03, C:0.22, G:0.02, T:0.73
Consensus pattern (8 bp):
TCCTTTTT
Found at i:7754697 original size:20 final size:21
Alignment explanation
Indices: 7754663--7754703 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7754653 TTTAAATACG
*
7754663 AAAAATGATAGAAATGAATGC
1 AAAAATGATAGAAATAAATGC
*
7754684 AAAAATGAT-TAAATAAATGC
1 AAAAATGATAGAAATAAATGC
7754704 GAAAGGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAAATGATAGAAATAAATGC
Found at i:7756081 original size:29 final size:29
Alignment explanation
Indices: 7756047--7756104 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
7756037 TTAGAAATAA
*
7756047 GATGAAAATCTTAAGTATCGAAACATTTT
1 GATGAAAATCTTAAGTATCAAAACATTTT
*
7756076 GATGAAAATTTTAAGTATCAAAACATTTT
1 GATGAAAATCTTAAGTATCAAAACATTTT
7756105 TTAATTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (29 bp):
GATGAAAATCTTAAGTATCAAAACATTTT
Found at i:7772606 original size:6 final size:6
Alignment explanation
Indices: 7772591--7772627 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
7772581 AGTGACAACA
7772591 AAAT-T AAATGT AAATGT AAATGT AAATGT AAATGT AA
1 AAATGT AAATGT AAATGT AAATGT AAATGT AAATGT AA
7772628 TGAAAGGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (6 bp):
AAATGT
Found at i:7773178 original size:16 final size:16
Alignment explanation
Indices: 7773139--7773184 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
7773129 AATTTTATTT
*
7773139 ATTAGTTAAAATTATA
1 ATTATTTAAAATTATA
*
7773155 ATTTTTTAAAATTTATA
1 ATTATTTAAAA-TTATA
7773172 A-TATTT-AAATTAT
1 ATTATTTAAAATTAT
7773185 TGATACAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 3 0.12
16 13 0.50
17 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTATTTAAAATTATA
Found at i:7773335 original size:16 final size:16
Alignment explanation
Indices: 7773314--7773345 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7773304 AATCTTATCT
7773314 TTAAAATAAAATATAA
1 TTAAAATAAAATATAA
*
7773330 TTAAAATATAATATAA
1 TTAAAATAAAATATAA
7773346 AATAATCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAATAAAATATAA
Found at i:7773336 original size:11 final size:12
Alignment explanation
Indices: 7773319--7773349 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
7773309 TATCTTTAAA
7773319 ATAAAATATAAT
1 ATAAAATATAAT
7773331 -TAAAATATAAT
1 ATAAAATATAAT
7773342 ATAAAATA
1 ATAAAATA
7773350 ATCATTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAAATATAAT
Found at i:7775467 original size:2 final size:2
Alignment explanation
Indices: 7775460--7775486 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7775450 TATAATAATA
7775460 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 A
7775487 CTCATGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7779281 original size:19 final size:16
Alignment explanation
Indices: 7779236--7779284 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 16
7779226 ATTTGATTTA
7779236 TTAA-TTTTTTAA-AT
1 TTAATTTTTTTAATAT
7779250 TTAATTTTTTTAATAT
1 TTAATTTTTTTAATAT
7779266 TTATATATTATTTTAATAT
1 TTA-AT-TT-TTTTAATAT
7779285 AATTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
16 5 0.17
17 2 0.07
18 2 0.07
19 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTTTTTTAATAT
Found at i:7779289 original size:22 final size:21
Alignment explanation
Indices: 7779264--7779311 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
7779254 TTTTTTTAAT
*
7779264 ATTTAT-ATATTATTTTAATATA
1 ATTTATAATA-TATTTAAATA-A
*
7779286 ATTTTTAATATATTTAAATAA
1 ATTTATAATATATTTAAATAA
7779307 ATTTA
1 ATTTA
7779312 ATTATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.23
22 14 0.64
23 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATAATATATTTAAATAA
Found at i:7779312 original size:31 final size:31
Alignment explanation
Indices: 7779245--7779318 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
7779235 ATTAATTTTT
*
7779245 TAAATTTAAT-T--TTTTTAATATTTATATA
1 TAAATTTAATATAATTTTTAATATTTATAAA
* *
7779273 TTATTTTAATATAATTTTTAATATATT-TAAA
1 TAAATTTAATATAATTTTTAATAT-TTATAAA
7779304 TAAATTTAATTATAA
1 TAAATTTAA-TATAA
7779319 AATAATTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
28 8 0.22
29 1 0.03
31 20 0.56
32 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TAAATTTAATATAATTTTTAATATTTATAAA
Found at i:7780975 original size:22 final size:22
Alignment explanation
Indices: 7780950--7781012 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
7780940 ACTGACAAAA
7780950 ATATAATTATAGTTTCATGTCC
1 ATATAATTATAGTTTCATGTCC
** *
7780972 ATATAGATT-TAGTAACATGTCT
1 ATATA-ATTATAGTTTCATGTCC
*
7780994 ATATAATTATAATTTCATG
1 ATATAATTATAGTTTCATG
7781013 AATAATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 3 0.09
22 27 0.82
23 3 0.09
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (22 bp):
ATATAATTATAGTTTCATGTCC
Found at i:7781052 original size:101 final size:101
Alignment explanation
Indices: 7780849--7781042 Score: 228
Period size: 101 Copynumber: 1.9 Consensus size: 101
7780839 TCATGTACAT
* * * *
7780849 ATATAGTTATAGTTTTATGTACATATAGATATAGTAAAATGTACTTATAGTTTAATTTCATGTAC
1 ATATAATTATAGTTTCATGTACATATAGATATAGTAAAATGTACTTATAATTTAATTTCATGAAC
* * *
7780914 AATACACTACTAGAAAATAAATTATTACTGACAAAA
66 AATACACTACCAAAAAATAAAGTATTACTGACAAAA
* * *
7780950 ATATAATTATAGTTTCATGTCCATATAGATTTAGTAACATGT-CTATATAATTATAATTTCATGA
1 ATATAATTATAGTTTCATGTACATATAGATATAGTAAAATGTACT-TATAATT-TAATTTCATGA
* * * * *
7781014 ATAATATATTACCAAAAAATGACGTATTA
64 ACAATACACTACCAAAAAATAAAGTATTA
7781043 TGGATAAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
100 2 0.03
101 43 0.57
102 31 0.41
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (101 bp):
ATATAATTATAGTTTCATGTACATATAGATATAGTAAAATGTACTTATAATTTAATTTCATGAAC
AATACACTACCAAAAAATAAAGTATTACTGACAAAA
Found at i:7783652 original size:10 final size:10
Alignment explanation
Indices: 7783637--7783671 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
7783627 TAAGGAATAC
*
7783637 ATACATACAT
1 ATACATATAT
7783647 ATACATATAT
1 ATACATATAT
*
7783657 ATATATATAT
1 ATACATATAT
7783667 ATACA
1 ATACA
7783672 ACACACATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (10 bp):
ATACATATAT
Found at i:7793635 original size:11 final size:11
Alignment explanation
Indices: 7793619--7793644 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7793609 ATTTTTATTA
7793619 TTTTAGTTTAG
1 TTTTAGTTTAG
7793630 TTTTAGTTTAG
1 TTTTAGTTTAG
7793641 TTTT
1 TTTT
7793645 TTTTTTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTTAGTTTAG
Found at i:7794673 original size:18 final size:19
Alignment explanation
Indices: 7794647--7794688 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
7794637 TTTTATTTTT
*
7794647 TATTTTCTAT-TTTTTATA
1 TATTGTCTATCTTTTTATA
*
7794665 TATTGTCTATCCTTTTTTTA
1 TATTGTCTAT-CTTTTTATA
7794685 TATT
1 TATT
7794689 TTTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTGTCTATCTTTTTATA
Found at i:7794699 original size:8 final size:9
Alignment explanation
Indices: 7794678--7794708 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7794668 TGTCTATCCT
7794678 TTTTTTATA
1 TTTTTTATA
7794687 TTTTTTATA
1 TTTTTTATA
*
7794696 TTTTTTGTA
1 TTTTTTATA
7794705 TTTT
1 TTTT
7794709 GTATTTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTTATA
Found at i:7795100 original size:22 final size:26
Alignment explanation
Indices: 7795048--7795097 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
7795038 CTTTTAGTGT
7795048 AATTTTGATTATAATATATTGGCATG
1 AATTTTGATTATAATATATTGGCATG
*
7795074 AATTTT-ATTATGATAT-TT-GCATG
1 AATTTTGATTATAATATATTGGCATG
7795097 A
1 A
7795098 TTTATCTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 2 0.09
25 9 0.39
26 6 0.26
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (26 bp):
AATTTTGATTATAATATATTGGCATG
Found at i:7795821 original size:43 final size:43
Alignment explanation
Indices: 7795754--7795874 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 43
7795744 ATTATTTATG
* **
7795754 ATTTTTCATGTGCACTAACCTATTTGTTATTTTGTA-ACTTGTA
1 ATTTTTCATGTGTACTAATTTATTTGTTATTTTGTAGA-TTGTA
* * * *
7795797 ATTTTTTATGTGTACTAATTTATTTATTTTATTTTGTAGATTTTG
1 ATTTTTCATGTGTACTAATTTA-TT-TGTTATTTTGTAGATTGTA
* *
7795842 ATTTTTCATGTATAATAATTTATTTGATTATTT
1 ATTTTTCATGTGTACTAATTTATTTG-TTATTT
7795875 GGATTGGCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
43 19 0.30
44 10 0.16
45 33 0.52
46 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.59
Consensus pattern (43 bp):
ATTTTTCATGTGTACTAATTTATTTGTTATTTTGTAGATTGTA
Found at i:7804791 original size:3 final size:3
Alignment explanation
Indices: 7804785--7804824 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
7804775 TGTAATAATC
7804785 ATT ATT ATT ATT ATT ATT AATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
7804825 TTGGTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7804805 original size:22 final size:22
Alignment explanation
Indices: 7804780--7804824 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7804770 ATGCATGTAA
7804780 TAATCATTATTATTATTATTAT
1 TAATCATTATTATTATTATTAT
*
7804802 TAATTATTATTATTATTATTAT
1 TAATCATTATTATTATTATTAT
7804824 T
1 T
7804825 TTGGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATCATTATTATTATTATTAT
Found at i:7804809 original size:19 final size:19
Alignment explanation
Indices: 7804785--7804822 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7804775 TGTAATAATC
7804785 ATTATTATTATTATTATTA
1 ATTATTATTATTATTATTA
7804804 ATTATTATTATTATTATTA
1 ATTATTATTATTATTATTA
7804823 TTTTGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTATTATTATTATTATTA
Found at i:7806599 original size:19 final size:19
Alignment explanation
Indices: 7806552--7806588 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7806542 GGTCGTGGAC
*
7806552 TTCACCTAAGATTTAGGGA
1 TTCACCTAGGATTTAGGGA
7806571 TTCACCTAGGATTTAGGG
1 TTCACCTAGGATTTAGGG
7806589 TTTCGTCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (19 bp):
TTCACCTAGGATTTAGGGA
Found at i:7806734 original size:26 final size:25
Alignment explanation
Indices: 7806717--7806767 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
7806707 TAGGATTTTG
*
7806717 TTTTAAGGTTTTACTTTAGTGTTTCA
1 TTTTAAGGTTTCACTTTAG-GTTTCA
*
7806743 TTTTAGGGTTTCACTTTAGGGTTTC
1 TTTTAAGGTTTCACTTTA-GGTTTC
7806768 GGGTTTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.16, C:0.10, G:0.20, T:0.55
Consensus pattern (25 bp):
TTTTAAGGTTTCACTTTAGGTTTCA
Found at i:7806773 original size:20 final size:20
Alignment explanation
Indices: 7806748--7806787 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7806738 TTTCATTTTA
*
7806748 GGGTTTCACTTTAGGGTTTC
1 GGGTTTCACATTAGGGTTTC
7806768 GGGTTTCACATTAGGGTTTC
1 GGGTTTCACATTAGGGTTTC
7806788 AAGGTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.30, T:0.42
Consensus pattern (20 bp):
GGGTTTCACATTAGGGTTTC
Found at i:7807341 original size:11 final size:10
Alignment explanation
Indices: 7807318--7807356 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
7807308 TTTTACCTAC
7807318 TATTTTTATTT
1 TATTTTTA-TT
7807329 TATTATTTATT
1 TATT-TTTATT
*
7807340 TATTTTTATA
1 TATTTTTATT
7807350 TATTTTT
1 TATTTTT
7807357 TAATATTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 12 0.46
11 10 0.38
12 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TATTTTTATT
Found at i:7807343 original size:16 final size:17
Alignment explanation
Indices: 7807320--7807358 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7807310 TTACCTACTA
7807320 TTTTTA-TTTTAT-TAT
1 TTTTTATTTTTATATAT
7807335 TTATTTATTTTTATATAT
1 TT-TTTATTTTTATATAT
7807353 TTTTTA
1 TTTTTA
7807359 ATATTCCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.10
16 4 0.19
17 10 0.48
18 5 0.24
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTTATATAT
Found at i:7807554 original size:3 final size:3
Alignment explanation
Indices: 7807546--7807602 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
7807536 CTACCATCTA
* * *
7807546 TAT TAT TAT TAT TGT TAT TAT CAT CAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
7807592 TAT TAT T-T TAT
1 TAT TAT TAT TAT
7807603 GATATATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7807584 original size:19 final size:18
Alignment explanation
Indices: 7807560--7807614 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
7807550 ATTATTATTG
7807560 TTATTATCATCATTATTTA
1 TTATTATCAT-ATTATTTA
*
7807579 TTATTATTATTATTA-TTA
1 TTATTATCA-TATTATTTA
*
7807597 TT-TTATGATA-TATTTA
1 TTATTATCATATTATTTA
7807613 TT
1 TT
7807615 TATTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 2 0.06
16 7 0.22
17 5 0.16
18 5 0.16
19 12 0.38
20 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTATCATATTATTTA
Found at i:7809437 original size:109 final size:105
Alignment explanation
Indices: 7809222--7809440 Score: 393
Period size: 109 Copynumber: 2.0 Consensus size: 105
7809212 TGCCACTATG
7809222 CTTTCAATTTTTCAGTTTTGTTGTTTACACGGCATGCATGCATTTTTTTCCCAAATTTTTTTTTG
1 CTTTCAATTTTTCAGTTTTGTTGTTTACACGGCATGCATGCATTTTTTTCCCAAATTTTTTTTTG
7809287 GCTTTCATATATTCATGCACAATGTAGCCGCATTAACGCT
66 GCTTTCATATATTCATGCACAATGTAGCCGCATTAACGCT
*
7809327 CTTTCAATTTTTCAGTTTTGTTGTTTACACGGCATGCATGCATTTTTTTTCCCAATTTTTTTTTT
1 CTTTCAATTTTTCAGTTTTGTTGTTTACACGGCATGCATGCA-TTTTTTTCCCAA---ATTTTTT
7809392 TTTGGCTTTCATATATTCATGCACAATGTAGCCGCATTAACGCT
62 TTTGGCTTTCATATATTCATGCACAATGTAGCCGCATTAACGCT
7809436 CTTTC
1 CTTTC
7809441 TAGGCCGTGT
Statistics
Matches: 109, Mismatches: 1, Indels: 4
0.96 0.01 0.04
Matches are distributed among these distances:
105 42 0.39
106 12 0.11
109 55 0.50
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (105 bp):
CTTTCAATTTTTCAGTTTTGTTGTTTACACGGCATGCATGCATTTTTTTCCCAAATTTTTTTTTG
GCTTTCATATATTCATGCACAATGTAGCCGCATTAACGCT
Found at i:7809594 original size:16 final size:16
Alignment explanation
Indices: 7809566--7809621 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
7809556 TGGGCCAAGC
*
7809566 TATTTTTTTATATTTA
1 TATTTTATTATATTTA
*
7809582 TAATTTATTATATTT-
1 TATTTTATTATATTTA
* *
7809597 TATTTTATAATAATTA
1 TATTTTATTATATTTA
7809613 TATTTTATT
1 TATTTTATT
7809622 TGATTTTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTATTATATTTA
Found at i:7809612 original size:21 final size:22
Alignment explanation
Indices: 7809571--7809622 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
7809561 CAAGCTATTT
*
7809571 TTTTATATTTATAATTTATTATA
1 TTTTAT-TTTATAATTAATTATA
7809594 TTTTATTTTATAA-TAATTATA
1 TTTTATTTTATAATTAATTATA
7809615 TTTTATTT
1 TTTTATTT
7809623 GATTTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 15 0.54
22 7 0.25
23 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTTTATAATTAATTATA
Found at i:7811327 original size:10 final size:10
Alignment explanation
Indices: 7811311--7811346 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
7811301 AGCTCTTACT
7811311 CTCTTGATTC
1 CTCTTGATTC
*
7811321 ATCTTGATTC
1 CTCTTGATTC
*
7811331 CTCTTGTTTC
1 CTCTTGATTC
7811341 CTCTTG
1 CTCTTG
7811347 CTTCTTGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.08, C:0.28, G:0.11, T:0.53
Consensus pattern (10 bp):
CTCTTGATTC
Found at i:7811627 original size:21 final size:21
Alignment explanation
Indices: 7811603--7811666 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
7811593 GCTTGAAAAG
7811603 CCTTCCTTGAGGGGATTGATC
1 CCTTCCTTGAGGGGATTGATC
7811624 CCTTCCTTGAGGGGATTGATC
1 CCTTCCTTGAGGGGATTGATC
* * *
7811645 CCTTGCTTG-GGTGATCGATC
1 CCTTCCTTGAGGGGATTGATC
7811665 CC
1 CC
7811667 CTATGTGGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 11 0.28
21 29 0.73
ACGTcount: A:0.12, C:0.27, G:0.28, T:0.33
Consensus pattern (21 bp):
CCTTCCTTGAGGGGATTGATC
Found at i:7811666 original size:20 final size:20
Alignment explanation
Indices: 7811603--7811689 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 20
7811593 GCTTGAAAAG
* *
7811603 CCTTCCTTGAGGGGATTGATC
1 CCTTGCTTG-GGGGATCGATC
* *
7811624 CCTTCCTTGAGGGGATTGATC
1 CCTTGCTTG-GGGGATCGATC
*
7811645 CCTTGCTTGGGTGATCGATCC
1 CCTTGCTTGGGGGATCGAT-C
*
7811666 CCTATG-TGGGGGGATCGATC
1 CCT-TGCTTGGGGGATCGATC
7811686 CCTT
1 CCTT
7811690 TTCTGGATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.02
20 12 0.20
21 44 0.75
22 2 0.03
ACGTcount: A:0.13, C:0.25, G:0.30, T:0.32
Consensus pattern (20 bp):
CCTTGCTTGGGGGATCGATC
Found at i:7813075 original size:16 final size:16
Alignment explanation
Indices: 7813054--7813088 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7813044 ATACAAGCTC
*
7813054 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
7813070 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
7813086 ATA
1 ATA
7813089 TGTCATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:7814754 original size:16 final size:16
Alignment explanation
Indices: 7814733--7814794 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
7814723 GGTAAAAATA
7814733 TATGTATTTTTACAAG
1 TATGTATTTTTACAAG
**
7814749 TATGTA-TGCTA-AA-
1 TATGTATTTTTACAAG
*
7814762 AAT--ATTTTTACAAG
1 TATGTATTTTTACAAG
7814776 TATGTATTTTTACAAG
1 TATGTATTTTTACAAG
7814792 TAT
1 TAT
7814795 TTTTACAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
11 1 0.03
12 3 0.09
13 4 0.11
14 4 0.11
15 3 0.09
16 20 0.57
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.47
Consensus pattern (16 bp):
TATGTATTTTTACAAG
Found at i:7818813 original size:22 final size:22
Alignment explanation
Indices: 7818783--7818825 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7818773 TCCCGTTCTA
7818783 TACTCTACTCATTAATTTGATG
1 TACTCTACTCATTAATTTGATG
*
7818805 TACTGTACTCATTAATTTGAT
1 TACTCTACTCATTAATTTGAT
7818826 CGTAACGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (22 bp):
TACTCTACTCATTAATTTGATG
Found at i:7825653 original size:23 final size:24
Alignment explanation
Indices: 7825627--7825671 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
7825617 AAGCTTGAAT
*
7825627 TGAATTAAAAATAAAA-TAAAACA
1 TGAATTAAAAAGAAAACTAAAACA
*
7825650 TGAATTTAAAAGAAAACTAAAA
1 TGAATTAAAAAGAAAACTAAAA
7825672 TTTAACCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (24 bp):
TGAATTAAAAAGAAAACTAAAACA
Found at i:7828685 original size:24 final size:23
Alignment explanation
Indices: 7828658--7828739 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 23
7828648 TGAGCTGGTT
7828658 TTGTTACATTTTGCTATGATTTGA
1 TTGTTACATTTTGCTATGATTT-A
7828682 TTGTTACATTTTATAGCTA-G--TT-
1 TTGTTACA-TTT-T-GCTATGATTTA
7828704 TTGTTACATTTTGCTATGATTTTA
1 TTGTTACATTTTGCTATGA-TTTA
*
7828728 TTGTTGCATTTT
1 TTGTTACATTTT
7828740 ATAGTAAACT
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
19 4 0.08
20 2 0.04
21 3 0.06
22 8 0.16
23 2 0.04
24 21 0.43
25 3 0.06
26 2 0.04
27 4 0.08
ACGTcount: A:0.20, C:0.09, G:0.15, T:0.57
Consensus pattern (23 bp):
TTGTTACATTTTGCTATGATTTA
Found at i:7828712 original size:46 final size:46
Alignment explanation
Indices: 7828650--7828743 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
7828640 TAGTTTATTG
*
7828650 AGCTGGTTTTGTTACATTTTGCTATGATTTGATTGTTACATTTTAT
1 AGCTAGTTTTGTTACATTTTGCTATGATTTGATTGTTACATTTTAT
* *
7828696 AGCTAGTTTTGTTACATTTTGCTATGATTTTATTGTTGCATTTTAT
1 AGCTAGTTTTGTTACATTTTGCTATGATTTGATTGTTACATTTTAT
7828742 AG
1 AG
7828744 TAAACTTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (46 bp):
AGCTAGTTTTGTTACATTTTGCTATGATTTGATTGTTACATTTTAT
Found at i:7831915 original size:37 final size:36
Alignment explanation
Indices: 7831831--7831923 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
7831821 TTTTTTTGGT
* * * *
7831831 TTTTTTTCTTTTTATTTTAGCTATTTTTGGCTTTTTCA
1 TTTTTTTC-TTTT-TCTTAGCCACTTTTGGCTTTTGCA
*
7831869 TTTCATTTCTTTTTCTTAGCCACTTTTGGCTTTTGCAA
1 TTT-TTTTCTTTTTCTTAGCCACTTTTGGCTTTTGC-A
*
7831907 TTTTTTTCTTTTCCTTA
1 TTTTTTTCTTTTTCTTA
7831924 TTCCTTATGC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 31 0.67
38 11 0.24
39 4 0.09
ACGTcount: A:0.11, C:0.16, G:0.08, T:0.66
Consensus pattern (36 bp):
TTTTTTTCTTTTTCTTAGCCACTTTTGGCTTTTGCA
Found at i:7834446 original size:21 final size:21
Alignment explanation
Indices: 7834421--7834472 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
7834411 TTTCTAGCCT
*
7834421 AGGTTATAGGTGTTGCTATAA
1 AGGTTATAGGTGTTACTATAA
*
7834442 GGGTTATAGGTGTTACTATAA
1 AGGTTATAGGTGTTACTATAA
7834463 AGGTTATAGG
1 AGGTTATAGG
7834473 ATGGTTTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.37
Consensus pattern (21 bp):
AGGTTATAGGTGTTACTATAA
Found at i:7840540 original size:15 final size:14
Alignment explanation
Indices: 7840504--7840554 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
7840494 TTTTAGCTTG
*
7840504 TTTCTTTTCTTTCT
1 TTTCTTTTTTTTCT
7840518 TTTCTTTTGTTTTCT
1 TTTCTTTT-TTTTCT
7840533 CTTT-TTTTTTTTC-
1 -TTTCTTTTTTTTCT
*
7840546 ATTCTTTTT
1 TTTCTTTTT
7840555 CCAAGCTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 5 0.16
14 13 0.41
15 9 0.28
16 3 0.09
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTTTCT
Found at i:7845036 original size:21 final size:21
Alignment explanation
Indices: 7845012--7845063 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
7845002 CAAAGTACTA
7845012 CAAATATGATAATATCTTGAC
1 CAAATATGATAATATCTTGAC
*
7845033 CAAATATGATAATATCTTGGC
1 CAAATATGATAATATCTTGAC
7845054 CAAATATGAT
1 CAAATATGAT
7845064 TCCGCTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (21 bp):
CAAATATGATAATATCTTGAC
Found at i:7846110 original size:24 final size:22
Alignment explanation
Indices: 7846066--7846211 Score: 78
Period size: 20 Copynumber: 6.9 Consensus size: 22
7846056 AATTTGTATA
7846066 ACTAATATTTAATTGCATGATT
1 ACTAATATTTAATTGCATGATT
*
7846088 ACTAATATTATTATTTGCATGA-T
1 ACTAATA-T-TTAATTGCATGATT
* * *
7846111 AAT-ATATTTATTTGCATGTTT
1 ACTAATATTTAATTGCATGATT
** *
7846132 TTTTAT-TGTTAATTGCATGA-T
1 ACTAATAT-TTAATTGCATGATT
* * *
7846153 AAT-ATATTTTATTACATGATT
1 ACTAATATTTAATTGCATGATT
*
7846174 --T-ATATTGTTAATTGCATGGTT
1 ACTAATA-T-TTAATTGCATGATT
7846195 A-T-ATATTTAATTGCATG
1 ACTAATATTTAATTGCATG
7846212 TTTTATATTG
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
19 4 0.04
20 35 0.35
21 20 0.20
22 26 0.26
23 4 0.04
24 11 0.11
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (22 bp):
ACTAATATTTAATTGCATGATT
Found at i:7846115 original size:20 final size:20
Alignment explanation
Indices: 7846092--7846331 Score: 124
Period size: 20 Copynumber: 11.8 Consensus size: 20
7846082 ATGATTACTA
* *
7846092 ATATTATTATTTGCATGATA
1 ATATTATTAATTGCATGATT
* *
7846112 ATA-TATTTATTTGCATGTTTTT
1 ATATTA-TTAATTGCATG--ATT
* *
7846134 TTATTGTTAATTGCATGATAAT
1 ATATTATTAATTGCATGAT--T
*
7846156 ATATT-TT-ATTACATGATTT
1 ATATTATTAATTGCATGA-TT
* *
7846175 ATATTGTTAATTGCATGGTT
1 ATATTATTAATTGCATGATT
*
7846195 ATA-TATTTAATTGCATGTTTT
1 ATATTA-TTAATTGCATG-ATT
* *
7846216 ATATTGTTAATTGCATGATA
1 ATATTATTAATTGCATGATT
*
7846236 ATA-TATATATATATGCATAATTT
1 ATATTAT-TA-AT-TGCATGA-TT
* *
7846259 ATATTGTTAATTGCATGATC
1 ATATTATTAATTGCATGATT
*
7846279 ATA-TA-T-A-TG-ATGTTTT
1 ATATTATTAATTGCATG-ATT
*
7846295 ATATTGTTAATTGCATGATT
1 ATATTATTAATTGCATGATT
7846315 ATA-TATTTAATTGCATG
1 ATATTA-TTAATTGCATG
7846332 TCTATTTGTA
Statistics
Matches: 169, Mismatches: 27, Indels: 48
0.69 0.11 0.20
Matches are distributed among these distances:
15 3 0.02
16 6 0.04
17 2 0.01
18 2 0.01
19 14 0.08
20 69 0.41
21 37 0.22
22 27 0.16
23 7 0.04
24 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATATTATTAATTGCATGATT
Found at i:7846199 original size:41 final size:41
Alignment explanation
Indices: 7846070--7846331 Score: 275
Period size: 41 Copynumber: 6.4 Consensus size: 41
7846060 TGTATAACTA
* * *
7846070 ATATTTAATTGCATGATTACTAATATTATTATTTGCATGATAAT
1 ATATTTTATTGCATGATT--T-ATATTGTTAATTGCATGATAAT
* *
7846114 ATA-TTTATTTGCATGTTTTTTTATTGTTAATTGCATGATAAT
1 ATATTTTA-TTGCATG-ATTTATATTGTTAATTGCATGATAAT
* * *
7846156 ATATTTTATTACATGATTTATATTGTTAATTGCATGGTTAT
1 ATATTTTATTGCATGATTTATATTGTTAATTGCATGATAAT
* *
7846197 ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAAT
1 ATATTTTATTGCATGATTTATATTGTTAATTGCATGATAAT
* * *
7846238 ATATATATATATGCATAATTTATATTGTTAATTGCATGATCAT
1 ATAT-TTTAT-TGCATGATTTATATTGTTAATTGCATGATAAT
* *
7846281 ATA---TA-TG-ATGTTTTATATTGTTAATTGCATGATTAT
1 ATATTTTATTGCATGATTTATATTGTTAATTGCATGATAAT
*
7846317 ATATTTAATTGCATG
1 ATATTTTATTGCATG
7846332 TCTATTTGTA
Statistics
Matches: 184, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
36 29 0.16
37 2 0.01
39 3 0.02
40 2 0.01
41 65 0.35
42 31 0.17
43 40 0.22
44 10 0.05
45 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (41 bp):
ATATTTTATTGCATGATTTATATTGTTAATTGCATGATAAT
Found at i:7846317 original size:120 final size:123
Alignment explanation
Indices: 7846070--7846332 Score: 338
Period size: 120 Copynumber: 2.1 Consensus size: 123
7846060 TGTATAACTA
* * ** *
7846070 ATATTTAATTGCATGATTACTAATATTATTATTTGCATGATAATATATTTATTTGCATGTTTTTT
1 ATATTTAATTGCATG-TTA-TAATATTATTAATTGCATGATAATATATTTATATGCATGAATTTA
*
7846135 TATTGTTAATTGCATGATAATATATTTTATTACATGATTTATATTGTTAATTGCATGGTTAT
64 TATTGTTAATTGCATGATAATATA--TTATTACATGATTTATATTGTTAATTGCATGATTAT
* *
7846197 ATATTTAATTGCATGTT-TTATATTGTTAATTGCATGATAATATATATATATATGCAT-AATTTA
1 ATATTTAATTGCATGTTATAATATTATTAATTGCATGATAATATAT-T-TATATGCATGAATTTA
* * *
7846260 TATTGTTAATTGCATGATCATATA-TA-T-GATGTTTTATATTGTTAATTGCATGATTAT
64 TATTGTTAATTGCATGATAATATATTATTACATGATTTATATTGTTAATTGCATGATTAT
7846317 ATATTTAATTGCATGT
1 ATATTTAATTGCATGT
7846333 CTATTTGTAT
Statistics
Matches: 123, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
120 43 0.35
121 1 0.01
122 2 0.02
124 25 0.20
125 27 0.22
126 10 0.08
127 15 0.12
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (123 bp):
ATATTTAATTGCATGTTATAATATTATTAATTGCATGATAATATATTTATATGCATGAATTTATA
TTGTTAATTGCATGATAATATATTATTACATGATTTATATTGTTAATTGCATGATTAT
Found at i:7846426 original size:19 final size:20
Alignment explanation
Indices: 7846379--7846453 Score: 75
Period size: 19 Copynumber: 3.8 Consensus size: 20
7846369 TTCTATGATT
*
7846379 ATTAATATATTTATTTGCATG
1 ATTATTATATTTA-TTGCATG
*
7846400 ATTATTAT-TATTATTGGATG
1 ATTATTATAT-TTATTGCATG
7846420 ATT-TTATATTTATTGCATG
1 ATTATTATATTTATTGCATG
*
7846439 A-TATGATATTATATT
1 ATTATTATATT-TATT
7846454 AATTTTGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.02
19 20 0.43
20 15 0.33
21 10 0.22
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (20 bp):
ATTATTATATTTATTGCATG
Found at i:7846556 original size:19 final size:19
Alignment explanation
Indices: 7846546--7846585 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
7846536 ATTATATTTA
*
7846546 ATTTGCATGA-TATTATAT
1 ATTTACATGATTATTATAT
7846564 ATTTACATGATTATTAT-T
1 ATTTACATGATTATTATAT
7846582 ATTT
1 ATTT
7846586 CATTGTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTTACATGATTATTATAT
Found at i:7847743 original size:27 final size:27
Alignment explanation
Indices: 7847679--7847744 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
7847669 AAATTTATGT
7847679 TATTCCTTGTATA-TATTTTTGCATAC
1 TATTCCTTGTATATTATTTTTGCATAC
* * * *
7847705 TAAT-CTTTTATATTGTTCTTTGTATA-
1 TATTCCTTGTATATTATT-TTTGCATAC
7847731 TATTCCTTGTATAT
1 TATTCCTTGTATAT
7847745 GTTAGCTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 7 0.23
26 9 0.29
27 15 0.48
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (27 bp):
TATTCCTTGTATATTATTTTTGCATAC
Found at i:7849595 original size:20 final size:21
Alignment explanation
Indices: 7849557--7849595 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
7849547 CTATAAAGCC
*
7849557 AAAGACATGGTAGAAAAAGTT
1 AAAGACATGGAAGAAAAAGTT
*
7849578 AAAGA-ATGGAAGACAAAG
1 AAAGACATGGAAGAAAAAG
7849596 GTACCACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.56, C:0.05, G:0.26, T:0.13
Consensus pattern (21 bp):
AAAGACATGGAAGAAAAAGTT
Found at i:7854658 original size:43 final size:42
Alignment explanation
Indices: 7854598--7854772 Score: 149
Period size: 43 Copynumber: 4.1 Consensus size: 42
7854588 GAATAATCTT
**
7854598 ATTTTATTTTTCAAAGTTCCAAAGTGTTAGTTATGG-GAAAGC
1 ATTTTATTTTTCAAAGTTCCAAAGCCTTAGTTATGGAG-AAGC
* * * *
7854640 ATTTTATTTTTTCAAAGTTTCAAAACCTTAGTTGTGGAGGAGC
1 ATTTTA-TTTTTCAAAGTTCCAAAGCCTTAGTTATGGAGAAGC
* * * * *
7854683 ATTTTATTTTTAAAAGTTCCAAAGCCTCAATTGTAGG-GGAGC
1 ATTTTATTTTTCAAAGTTCCAAAGCCTTAGTTAT-GGAGAAGC
* * * *
7854725 ATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTGTGG-GAGAGC
1 ATTTTATTTTTC-AAAGTTCCAAAGCCTTAGTTATGGAGA-AGC
7854768 ATTTT
1 ATTTT
7854773 GTTGGGAACT
Statistics
Matches: 112, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
42 48 0.43
43 63 0.56
44 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (42 bp):
ATTTTATTTTTCAAAGTTCCAAAGCCTTAGTTATGGAGAAGC
Found at i:7854700 original size:85 final size:85
Alignment explanation
Indices: 7854598--7854772 Score: 230
Period size: 85 Copynumber: 2.1 Consensus size: 85
7854588 GAATAATCTT
* ** * *
7854598 ATTTTATTTTTCAAAGTTCCAAAGTGTTAGTTAT-GGGAAAGCATTTTATTTTTTC-AAAGTTTC
1 ATTTTATTTTTAAAAGTTCCAAAGCCTCAATTATAGGG-AAGCATTTTA-TTTTTCAAAAGTTTC
*
7854661 AAAACCTTAGTTGT-GGAGGAGC
64 AAAACCTCAGTTGTGGGA-GAGC
* *
7854683 ATTTTATTTTTAAAAGTTCCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCAAAAGTTTCAA
1 ATTTTATTTTTAAAAGTTCCAAAGCCTCAATTATAGGGAAGCATTTTATTTTTCAAAAGTTTCAA
7854748 AACCTCAGTTGTGGGAGAGC
66 AACCTCAGTTGTGGGAGAGC
7854768 ATTTT
1 ATTTT
7854773 GTTGGGAACT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
84 6 0.08
85 67 0.85
86 6 0.08
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (85 bp):
ATTTTATTTTTAAAAGTTCCAAAGCCTCAATTATAGGGAAGCATTTTATTTTTCAAAAGTTTCAA
AACCTCAGTTGTGGGAGAGC
Found at i:7854858 original size:101 final size:100
Alignment explanation
Indices: 7854684--7854873 Score: 267
Period size: 101 Copynumber: 1.9 Consensus size: 100
7854674 TGGAGGAGCA
*
7854684 TTTTATTTTTAAAAGTTCCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCAAAAGTTTCAAA
1 TTTTATTTTTAAAACTTCCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCAAAAGTTTCAAA
**
7854749 ACCTCAGTTGTGGGAGAGCATTTTGTTGGGAACTT
66 ACCTCAGTTGTAAGAGAGCATTTTGTTGGGAACTT
* * * *
7854784 TTTTATTTTTCAAACCTTTCAATGCCTCAATTGT-GGGGATGCA-TTTATTTTTCAAAATTTTTC
1 TTTTATTTTT-AAAACTTCCAAAGCCTCAATTGTAGGGGA-GCATTTTATTTTTCAAAA-GTTTC
*
7854847 AAAGCCTCAGTTGTAAGAGAGCATTTT
63 AAAACCTCAGTTGTAAGAGAGCATTTT
7854874 ATTTTTCAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
100 29 0.37
101 50 0.63
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (100 bp):
TTTTATTTTTAAAACTTCCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCAAAAGTTTCAAA
ACCTCAGTTGTAAGAGAGCATTTTGTTGGGAACTT
Found at i:7854913 original size:43 final size:43
Alignment explanation
Indices: 7854784--7854916 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 43
7854774 TTGGGAACTT
* * *
7854784 TTTTATTTTTCAAACCTTTCAATGCCTCAATTGTGGGGATGCA
1 TTTTATTTTTCAAAACTTTCAAAGCCTCAATTGTGGGGAAGCA
* * **
7854827 -TTTATTTTTCAAAATTTTTCAAAGCCTCAGTTGT-AAGAGAGCA
1 TTTTATTTTTCAAAA-CTTTCAAAGCCTCAATTGTGGGGA-AGCA
* *
7854870 TTTTATTTTTCAAAAGTTTCAAAGCCTCAATTATGGGGAAGCA
1 TTTTATTTTTCAAAACTTTCAAAGCCTCAATTGTGGGGAAGCA
7854913 TTTT
1 TTTT
7854917 CCAAAAAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
42 15 0.20
43 43 0.58
44 16 0.22
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (43 bp):
TTTTATTTTTCAAAACTTTCAAAGCCTCAATTGTGGGGAAGCA
Found at i:7855282 original size:20 final size:20
Alignment explanation
Indices: 7855247--7855284 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7855237 AAGTCAAGTT
*
7855247 AGTAAAAAACTGAAAAAAGG
1 AGTAAAAAACTAAAAAAAGG
*
7855267 AGTAAAAAATTAAAAAAA
1 AGTAAAAAACTAAAAAAA
7855285 AAGTGGGATT
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:0.71, C:0.03, G:0.13, T:0.13
Consensus pattern (20 bp):
AGTAAAAAACTAAAAAAAGG
Found at i:7855928 original size:21 final size:20
Alignment explanation
Indices: 7855903--7856311 Score: 143
Period size: 21 Copynumber: 20.2 Consensus size: 20
7855893 ATATATTTAT
7855903 TTGCATGTTTTATAATGTTAA
1 TTGCATG-TTTATAATGTTAA
* * *
7855924 TTGCATGATAATATAT-TTTA
1 TTGCATGTTTATA-ATGTTAA
** *
7855944 TTATATGATTTATATTGTTAA
1 TTGCATG-TTTATAATGTTAA
7855965 TTGCATGATTATATAA--TTAA
1 TTGCATG-TT-TATAATGTTAA
*
7855985 TTGCATGTTTTATATTGTTAA
1 TTGCATG-TTTATAATGTTAA
* *
7856006 TTGCATG---ATAATATATAT
1 TTGCATGTTTATAATGT-TAA
* *
7856024 TTGCAAGATTTATATTGTTAA
1 TTGCATG-TTTATAATGTTAA
* * * *
7856045 TTGCAAGATTAT-AT-ATAT
1 TTGCATGTTTATAATGTTAA
* *
7856063 TTGCATGTTTTATATTGTTAC
1 TTGCATG-TTTATAATGTTAA
* *
7856084 TTGCATGATTATATAT-TTAT
1 TTGCATGTTTATA-ATGTTAA
** *
7856104 TTGCATGACTATACAT-TTTA
1 TTGCATGTTTATA-ATGTTAA
* *
7856124 TTGCATGATTTATATTGTTAC
1 TTGCATG-TTTATAATGTTAA
* *
7856145 TTGCATG-ATATATAT-TTAT
1 TTGCATGTTTATA-ATGTTAA
* * *
7856164 TTGCATGATCTACATTGTTAA
1 TTGCATG-TTTATAATGTTAA
* *
7856185 TTGCATGATCTATATTGTTAA
1 TTGCATG-TTTATAATGTTAA
*** *
7856206 TTGCACAATTATATAT-TTAT
1 TTGCATGTTTATA-ATGTTAA
7856226 TTGCATGTTT-TACATTGTTAA
1 TTGCATGTTTATA-A-TGTTAA
* *
7856247 TTGCATGATTAGATAT-TTAA
1 TTGCATGTTTATA-ATGTTAA
7856267 -TGACATGTTT-TACATTGTTAA
1 TTG-CATGTTTATA-A-TGTTAA
*
7856288 TTGCATGATTATATAT-TTAA
1 TTGCATGTTTATA-ATGTTAA
7856308 TTGC
1 TTGC
7856312 CTGTCTATTT
Statistics
Matches: 289, Mismatches: 69, Indels: 61
0.69 0.16 0.15
Matches are distributed among these distances:
17 5 0.02
18 16 0.06
19 30 0.10
20 99 0.34
21 123 0.43
22 16 0.06
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
TTGCATGTTTATAATGTTAA
Found at i:7855938 original size:41 final size:41
Alignment explanation
Indices: 7855883--7856311 Score: 425
Period size: 41 Copynumber: 10.6 Consensus size: 41
7855873 ACATTATAAT
* * *
7855883 TTGCAAGATAATATATTTATTTGCATGTTTTATAATGTTAA
1 TTGCATGATTATATATTTATTTGCATGTTTTATATTGTTAA
* *
7855924 TTGCATGATAATATATTTTATTAT--ATGATTTATATTGTTAA
1 TTGCATGATTATATA-TTTATT-TGCATGTTTTATATTGTTAA
* *
7855965 TTGCATGATTATATAATTAATTGCATGTTTTATATTGTTAA
1 TTGCATGATTATATATTTATTTGCATGTTTTATATTGTTAA
* * *
7856006 TTGCATGA-TA-ATATATATTTGCAAGATTTATATTGTTAA
1 TTGCATGATTATATATTTATTTGCATGTTTTATATTGTTAA
* *
7856045 TTGCAAGATTATATA--TATTTGCATGTTTTATATTGTTAC
1 TTGCATGATTATATATTTATTTGCATGTTTTATATTGTTAA
* * *
7856084 TTGCATGATTATATATTTATTTGCATGACTATACATT-TT-A
1 TTGCATGATTATATATTTATTTGCATG-TTTTATATTGTTAA
* * * *
7856124 TTGCATGATT-TATATTGTTACTTGCATGATATATA-T-TTAT
1 TTGCATGATTATATA-T-TTATTTGCATGTTTTATATTGTTAA
* * * *
7856164 TTGCATGATCTACAT-TGTTAATTGCATGATCTATATTGTTAA
1 TTGCATGAT-TATATAT-TTATTTGCATGTTTTATATTGTTAA
** *
7856206 TTGCACAATTATATATTTATTTGCATGTTTTACATTGTTAA
1 TTGCATGATTATATATTTATTTGCATGTTTTATATTGTTAA
* * *
7856247 TTGCATGATTAGATATTTA-ATGACATGTTTTACATTGTTAA
1 TTGCATGATTATATATTTATTTG-CATGTTTTATATTGTTAA
*
7856288 TTGCATGATTATATATTTAATTGC
1 TTGCATGATTATATATTTATTTGC
7856312 CTGTCTATTT
Statistics
Matches: 327, Mismatches: 42, Indels: 38
0.80 0.10 0.09
Matches are distributed among these distances:
39 74 0.23
40 53 0.16
41 172 0.53
42 27 0.08
43 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (41 bp):
TTGCATGATTATATATTTATTTGCATGTTTTATATTGTTAA
Found at i:7855988 original size:61 final size:60
Alignment explanation
Indices: 7855903--7856311 Score: 293
Period size: 61 Copynumber: 6.7 Consensus size: 60
7855893 ATATATTTAT
* **
7855903 TTGCATG-TTTTATAATGTTAATTGCATGATAATATATTTTATTATATGATTTATATTGTTAA
1 TTGCATGATTATAT-AT-TTAATTGCATGAT-ATATATTTTATTGCATGATTTATATTGTTAA
* * * * * *
7855965 TTGCATGATTATATAATTAATTGCATGTTTTATATTGTTAATTGCATGA-TAATA-T-ATAT
1 TTGCATGATTATATATTTAATTGCATGATATATATT-TT-ATTGCATGATTTATATTGTTAA
* * * * *
7856024 TTGCAAGATT-TATATTGTTAATTGCAAGAT-TATA-TATATTTGCATGTTTTATATTGTTAC
1 TTGCATGATTATATA-T-TTAATTGCATGATATATATTTTA-TTGCATGATTTATATTGTTAA
* * *
7856084 TTGCATGATTATATATTTATTTGCATGACTATACATTTTATTGCATGATTTATATTGTTAC
1 TTGCATGATTATATATTTAATTGCATGA-TATATATTTTATTGCATGATTTATATTGTTAA
* * * *
7856145 TTGCATGA-TATATATTTATTTGCATGATCTACATTGTTAATTGCATGATCTATATTGTTAA
1 TTGCATGATTATATATTTAATTGCATGATATATATT-TT-ATTGCATGATTTATATTGTTAA
** * * * * *
7856206 TTGCACAATTATATATTTATTTGCATGTTTTACATTGTTAATTGCATGA-TTAGATAT-TTAA
1 TTGCATGATTATATATTTAATTGCATGATATATATT-TT-ATTGCATGATTTATAT-TGTTAA
* * *
7856267 -TGACATG-TTTTACATTGTTAATTGCATGATTATATATTTAATTGC
1 TTG-CATGATTATATA-T-TTAATTGCATGA-TATATATTTTATTGC
7856312 CTGTCTATTT
Statistics
Matches: 284, Mismatches: 42, Indels: 43
0.77 0.11 0.12
Matches are distributed among these distances:
56 1 0.00
57 8 0.03
58 9 0.03
59 33 0.12
60 59 0.21
61 95 0.33
62 68 0.24
63 11 0.04
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (60 bp):
TTGCATGATTATATATTTAATTGCATGATATATATTTTATTGCATGATTTATATTGTTAA
Found at i:7856168 original size:40 final size:40
Alignment explanation
Indices: 7855923--7856210 Score: 150
Period size: 39 Copynumber: 7.2 Consensus size: 40
7855913 TATAATGTTA
* ** *
7855923 ATTGCATGATAATATATT-TT-ATTATATGATTTATATTGTT
1 ATTGCATGAT-TTATATTGTTAATTGCATGATATATATT-TT
** * *
7855963 AATTGCATGA-TTATATAATTAATTGCATGTTTTATATTGTT
1 -ATTGCATGATTTATATTGTTAATTGCATGATATATATT-TT
* * * * *
7856004 AATTGCATGA-TAATA-T-ATATTTGCAAGATTTATATTGTT
1 -ATTGCATGATTTATATTGTTAATTGCATGATATATATT-TT
* * * * *
7856043 AATTGCAAGA-TTATA-T-ATATTTGCATGTTTTATATTGTT
1 -ATTGCATGATTTATATTGTTAATTGCATGATATATATT-TT
* *
7856082 ACTTGCATGA-TTATATAT-TTATTTGCATGACTATACATTTT
1 A-TTGCATGATTTATAT-TGTTAATTGCATGA-TATATATTTT
*
7856123 ATTGCATGATTTATATTGTTACTTGCATGATATATA-TTT
1 ATTGCATGATTTATATTGTTAATTGCATGATATATATTTT
* * *
7856162 ATTTGCATGATCTACATTGTTAATTGCATGATCTATATTGTT
1 A-TTGCATGATTTATATTGTTAATTGCATGATATATATT-TT
7856204 AATTGCA
1 -ATTGCA
7856211 CAATTATATA
Statistics
Matches: 209, Mismatches: 26, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.00
39 75 0.36
40 47 0.22
41 72 0.34
42 13 0.06
43 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (40 bp):
ATTGCATGATTTATATTGTTAATTGCATGATATATATTTT
Found at i:7856396 original size:32 final size:32
Alignment explanation
Indices: 7856320--7856385 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
7856310 GCCTGTCTAT
* * **
7856320 TTGTATAATTATTAATTTATTTATTTGTGTGA
1 TTGTATAGTTATTAATATATTTATTTGCATGA
*
7856352 TTGTATGGTTATTAATATATTTATTTGCATGA
1 TTGTATAGTTATTAATATATTTATTTGCATGA
7856384 TT
1 TT
7856386 TAATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.58
Consensus pattern (32 bp):
TTGTATAGTTATTAATATATTTATTTGCATGA
Found at i:7856410 original size:19 final size:19
Alignment explanation
Indices: 7856368--7856416 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
7856358 GGTTATTAAT
*
7856368 ATATTTATTTGCATGATTTA
1 ATATTTA-TTGCATGATATA
*
7856388 ATATTTATTGCATGATATG
1 ATATTTATTGCATGATATA
7856407 ATATTATATT
1 ATATT-TATT
7856417 AATTTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (19 bp):
ATATTTATTGCATGATATA
Found at i:7857667 original size:12 final size:12
Alignment explanation
Indices: 7857622--7857673 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
7857612 TATTTTTCAC
*
7857622 AATATTATTTTA
1 AATAATATTTTA
*
7857634 AAT-TTATTTTA
1 AATAATATTTTA
7857645 AATACAT-TTTTA
1 AATA-ATATTTTA
7857657 AATAATATTTTA
1 AATAATATTTTA
*
7857669 CATAA
1 AATAA
7857674 AACATATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 13 0.37
12 21 0.60
13 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
AATAATATTTTA
Found at i:7858108 original size:26 final size:25
Alignment explanation
Indices: 7858042--7858110 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
7858032 TTCACTTAAA
* *
7858042 GTTTTAGTTTTAGGGTTCCGTTTTAGG
1 GTTTTAG-TTTA-GGTTTCATTTTAGG
*
7858069 GTTTCA-TTTGAGGTTTCATTTTCAGG
1 GTTTTAGTTT-AGGTTTCATTTT-AGG
7858095 GTTTTAGTTTAGGTTT
1 GTTTTAGTTTAGGTTT
7858111 GATTATCGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
25 12 0.34
26 15 0.43
27 8 0.23
ACGTcount: A:0.13, C:0.07, G:0.26, T:0.54
Consensus pattern (25 bp):
GTTTTAGTTTAGGTTTCATTTTAGG
Found at i:7858136 original size:13 final size:13
Alignment explanation
Indices: 7858049--7858137 Score: 76
Period size: 12 Copynumber: 7.0 Consensus size: 13
7858039 AAAGTTTTAG
* *
7858049 TTTTAGGGTTCCG
1 TTTTAGGGTTTCA
7858062 TTTTAGGGTTTCA
1 TTTTAGGGTTTCA
*
7858075 TTTGA-GGTTTCA
1 TTTTAGGGTTTCA
*
7858087 TTTTCAGGGTTTTA
1 TTTT-AGGGTTTCA
* *
7858101 GTTTA-GGTTTGA
1 TTTTAGGGTTTCA
* *
7858113 TTAT-CGGTTTCA
1 TTTTAGGGTTTCA
7858125 TTTTAGGGTTTCA
1 TTTTAGGGTTTCA
7858138 GTTTGGGATT
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
12 27 0.45
13 24 0.40
14 9 0.15
ACGTcount: A:0.15, C:0.09, G:0.25, T:0.52
Consensus pattern (13 bp):
TTTTAGGGTTTCA
Found at i:7858533 original size:3 final size:3
Alignment explanation
Indices: 7858525--7858583 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
7858515 AAAATTTTAT
7858525 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7858573 TTA TTA TTA TT
1 TTA TTA TTA TT
7858584 TTGAGTTGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7859250 original size:243 final size:243
Alignment explanation
Indices: 7858785--7859270 Score: 850
Period size: 244 Copynumber: 2.0 Consensus size: 243
7858775 GCTAATTTGC
7858785 TTAAAAGAAATTTTACTAAGCTAAATAACTCCTAAAACCAATTAAAGAAAGGTTTAAACAAAATT
1 TTAAAAGAAATTTTACTAAGCTAAATAACTCCTAAAACCAATTAAAGAAAGGTTTAAACAAAATT
** *
7858850 TAAAACAAAAAAAATACAAAAAGAAGTGAGCTAAACGGCCAAGGATCTAACAACTGAGAAACTAA
66 TAAAACAAAAAAAATACAAAAAGAAGTGAGCTAAACAACCAAGGATCTAACAACTAAGAAACTAA
* *
7858915 AACTAAAAAGTAGGTTTTAAATTTTATGAGCAAATGATGAAGATATCAAAGCCAAGCATGGAAGA
131 AACTAAAAAGTAGGTTTTAAATTTTATGAGCAAAGGATGAAGATATCAAAGCCAAGCATGAAAGA
*
7858980 TTTATGCATAACATGCTCAGAAAAGGTCCAAAGAGGTTACCTTTCTTG
196 TTTATGCATAACATGCTCAGAAAAGGTCCAAAGAGATTACCTTTCTTG
*
7859028 TTAAAAGAAATTTTGCTAAGCTAAATAACTCCTAAAACCAATTAAAGAAAGGTTTAAACAAAATT
1 TTAAAAGAAATTTTACTAAGCTAAATAACTCCTAAAACCAATTAAAGAAAGGTTTAAACAAAATT
* *
7859093 TAAAACAAAAAAAAAATAC-AAAAGAAGTGAGCTAAACAACCAAGGATCTAACAATTAAGAAATT
66 TAAAAC--AAAAAAAATACAAAAAGAAGTGAGCTAAACAACCAAGGATCTAACAACTAAGAAACT
7859157 AAAACTAAAAAGTAGGTTTTAAATTTTATGAGCAAAGGATGAAGATATCAAAGCCAAGCATGAAA
129 AAAACTAAAAAGTAGGTTTTAAATTTTATGAGCAAAGGATGAAGATATCAAAGCCAAGCATGAAA
*
7859222 GATTTATGCATAACATGCTCAG-AAAGGTCCAAAGAGATTACTTTTCTTG
194 GATTTATGCATAACATGCTCAGAAAAGGTCCAAAGAGATTACCTTTCTTG
7859271 AGAGCTTCAG
Statistics
Matches: 231, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
243 95 0.41
244 125 0.54
245 11 0.05
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.24
Consensus pattern (243 bp):
TTAAAAGAAATTTTACTAAGCTAAATAACTCCTAAAACCAATTAAAGAAAGGTTTAAACAAAATT
TAAAACAAAAAAAATACAAAAAGAAGTGAGCTAAACAACCAAGGATCTAACAACTAAGAAACTAA
AACTAAAAAGTAGGTTTTAAATTTTATGAGCAAAGGATGAAGATATCAAAGCCAAGCATGAAAGA
TTTATGCATAACATGCTCAGAAAAGGTCCAAAGAGATTACCTTTCTTG
Found at i:7860023 original size:7 final size:7
Alignment explanation
Indices: 7859965--7860031 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
7859955 TTAGTTTTAA
*
7859965 AATTTGT
1 AATTTTT
*
7859972 AATTTGT
1 AATTTTT
*
7859979 AATTTGT
1 AATTTTT
7859986 AATTTTT
1 AATTTTT
7859993 AATGTTTT
1 AAT-TTTT
**
7860001 AA-TAAT
1 AATTTTT
7860007 AATTTTTTT
1 AA--TTTTT
7860016 AATTTTT
1 AATTTTT
7860023 AATTTTT
1 AATTTTT
7860030 AA
1 AA
7860032 AATTTTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
6 4 0.08
7 37 0.73
8 6 0.12
9 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (7 bp):
AATTTTT
Found at i:7860028 original size:15 final size:15
Alignment explanation
Indices: 7859971--7860040 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
7859961 TTAAAATTTG
* *
7859971 TAATTTGTAA-TTTG
1 TAATTTTTAATTTTT
*
7859985 TAATTTTTAATGTTT
1 TAATTTTTAATTTTT
**
7860000 TAA-TAATAATTTTTT
1 TAATTTTTAA-TTTTT
7860015 TAATTTTTAATTTTT
1 TAATTTTTAATTTTT
* *
7860030 AAAATTTTAAT
1 TAATTTTTAAT
7860041 ATTATTATTA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
14 13 0.30
15 26 0.60
16 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (15 bp):
TAATTTTTAATTTTT
Found at i:7860059 original size:21 final size:20
Alignment explanation
Indices: 7860033--7860082 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
7860023 AATTTTTAAA
7860033 ATTTTAATAT-TATTATTATTT
1 ATTTTAATATATA-TATT-TTT
*
7860054 ATTTTATTATATATATTTTT
1 ATTTTAATATATATATTTTT
7860074 ATGTTTAAT
1 AT-TTTAAT
7860083 GGACAACTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 18 0.72
22 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTAATATATATATTTTT
Found at i:7860693 original size:32 final size:34
Alignment explanation
Indices: 7860655--7860940 Score: 150
Period size: 32 Copynumber: 8.7 Consensus size: 34
7860645 ATTTCAAAGC
* * *
7860655 TAGCTAATTTGAGCTTAAAT-TTTTATT-GGTGT
1 TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
7860687 TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
1 TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
* * * * * *
7860721 CAACTAAATTGGGCTTAAAAC-TTAATTGGATGC
1 TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
* * * **
7860754 CAACTAAATTGGGTTTAAA--TTTCATTATGT-T
1 TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
** * *
7860785 TCAAATAAACT-GGCTTAAAAT-TTT-ATTGGGTGC
1 T-AGCTAAATTGGGCTT-AAATCTTTCATTGGGTGT
* * * * *
7860818 TAGGTAATTTGGGCTTAAAAC-TTCATTAGGTGC
1 TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
* * *
7860851 CAGCT-AATCTGGGTTTAAATCTTTTCA-TGAGTGT
1 TAGCTAAAT-TGGGCTTAAATC-TTTCATTGGGTGT
* * * * *
7860885 CAGATAAACTAGGCTTAAA--TTTCATTGGGTGC
1 TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
*
7860917 TAGATAAATTGGGCTTAAATCTTT
1 TAGCTAAATTGGGCTTAAATCTTT
7860941 TCATGAGTGC
Statistics
Matches: 192, Mismatches: 45, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
31 9 0.05
32 72 0.38
33 63 0.33
34 42 0.22
35 6 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (34 bp):
TAGCTAAATTGGGCTTAAATCTTTCATTGGGTGT
Found at i:7860733 original size:16 final size:16
Alignment explanation
Indices: 7860712--7860767 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
7860702 TAAATCTTTC
7860712 ATTGGGTGTCAACTAA
1 ATTGGGTGTCAACTAA
* *
7860728 ATTGGGCT-TAAAACTTA
1 ATTGGG-TGT-CAACTAA
* *
7860745 ATTGGATGCCAACTAA
1 ATTGGGTGTCAACTAA
7860761 ATTGGGT
1 ATTGGGT
7860768 TTAAATTTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (16 bp):
ATTGGGTGTCAACTAA
Found at i:7860833 original size:33 final size:33
Alignment explanation
Indices: 7860667--7861007 Score: 118
Period size: 33 Copynumber: 10.5 Consensus size: 33
7860657 GCTAATTTGA
* * * * *
7860667 GCTTAAATTTTTATT-GGTGTTAGCTAAATTGG
1 GCTTAAAATTTCATTGGGTGCTAGATAAACTGG
* *
7860699 GCTTAAATCTTTCATTGGGTG-TCA-ACTAAATTGG
1 GCTTAAA-ATTTCATTGGGTGCT-AGA-TAAACTGG
* * * * *
7860733 GCTTAAAACTTAATTGGATGCCA-ACTAAATTGG
1 GCTTAAAATTTCATTGGGTGCTAGA-TAAACTGG
* ** * *
7860766 G-TTTAAATTTCATTATGT-TTCAAATAAACT-G
1 GCTTAAAATTTCATTGGGTGCT-AGATAAACTGG
* * **
7860797 GCTTAAAATTTTATTGGGTGCTAGGTAATTTGG
1 GCTTAAAATTTCATTGGGTGCTAGATAAACTGG
* * * * *
7860830 GCTTAAAACTTCATTAGGTGCCAGCTAATCTGG
1 GCTTAAAATTTCATTGGGTGCTAGATAAACTGG
* * * *
7860863 GTTTAAATCTTTTCA-TGAGTG-TCAGATAAACTAG
1 GCTTAAA--ATTTCATTGGGTGCT-AGATAAACTGG
*
7860897 GCTT-AAATTTCATTGGGTGCTAGATAAATTGG
1 GCTTAAAATTTCATTGGGTGCTAGATAAACTGG
* * * * **
7860929 GCTTAAATCTTTTCA-TGAGTGCCAGATATAC-CA
1 GCTTAAA--ATTTCATTGGGTGCTAGATAAACTGG
* * *
7860962 CCTT-AAATTTCATT-GGTACTAGATAATCTGG
1 GCTTAAAATTTCATTGGGTGCTAGATAAACTGG
*
7860993 GCTT-AAATTTTATTG
1 GCTTAAAATTTCATTG
7861008 AGAGCCAGTT
Statistics
Matches: 224, Mismatches: 64, Indels: 42
0.68 0.19 0.13
Matches are distributed among these distances:
30 14 0.06
31 20 0.09
32 62 0.28
33 72 0.32
34 47 0.21
35 9 0.04
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (33 bp):
GCTTAAAATTTCATTGGGTGCTAGATAAACTGG
Found at i:7860909 original size:66 final size:65
Alignment explanation
Indices: 7860829--7861046 Score: 214
Period size: 66 Copynumber: 3.4 Consensus size: 65
7860819 AGGTAATTTG
* * * *
7860829 GGCTTAAAACTTCATTAGGTGCCAGCTAATCTGGGTTTAAATCTTTTCATGAGTGTCAGATAAAC
1 GGCTT-AAATTTCATT-GGTGCCAGATAATCTGGGCTTAAATCTTTTCATGAGTGCCAGATAAAC
7860894 TA
64 TA
* *
7860896 GGCTTAAATTTCATTGGGTGCTAGATAAAT-TGGGCTTAAATCTTTTCATGAGTGCCAGATATAC
1 GGCTTAAATTTCATT-GGTGCCAGAT-AATCTGGGCTTAAATCTTTTCATGAGTGCCAGATAAAC
*
7860960 CA
64 TA
* * * * * *
7860962 -CCTTAAATTTCATTGGTACTAGATAATCTGGGCTTAAA--TTTT-ATTGAGAGCCAGTTACACT
1 GGCTTAAATTTCATTGGTGCCAGATAATCTGGGCTTAAATCTTTTCA-TGAGTGCCAGATAAACT
7861023 A
65 A
*
7861024 GG-TCTAAGTTTCATTGGTGCCAG
1 GGCT-TAAATTTCATTGGTGCCAG
7861047 CTATACTGGA
Statistics
Matches: 128, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
61 1 0.01
62 19 0.15
63 19 0.15
64 19 0.15
65 13 0.10
66 49 0.38
67 8 0.06
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (65 bp):
GGCTTAAATTTCATTGGTGCCAGATAATCTGGGCTTAAATCTTTTCATGAGTGCCAGATAAACTA
Found at i:7861273 original size:33 final size:33
Alignment explanation
Indices: 7861112--7861273 Score: 93
Period size: 34 Copynumber: 4.9 Consensus size: 33
7861102 CATGAGTGTT
* ** *
7861112 AGCTAAATTAGGCTTAAAACTTCATTG-TTACCA
1 AGCTAAACTAGGCTTAAATTTTCATTGAGTA-CA
* * * *
7861145 A-CTAGACTAGGCTTAAATCTTCATTTGTGT--T
1 AGCTAAACTAGGCTTAAATTTTCA-TTGAGTACA
* * *
7861176 AGCTATACTACGCTTAAATCTTTTCA-TGAGTGCA
1 AGCTAAACTAGGCTTAAA--TTTTCATTGAGTACA
* *
7861210 AGCTAAACTAGGCTTAAAATTTT-TTATGAGTACC
1 AGCTAAACTAGGCTT-AAATTTTCAT-TGAGTACA
* *
7861244 AGCTAAGCTTGGCTTAAATTTTCATTGAGT
1 AGCTAAACTAGGCTTAAATTTTCATTGAGT
7861274 GCCAAATAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
31 1 0.01
32 37 0.37
33 20 0.20
34 39 0.39
35 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (33 bp):
AGCTAAACTAGGCTTAAATTTTCATTGAGTACA
Found at i:7861326 original size:34 final size:33
Alignment explanation
Indices: 7861150--7861427 Score: 149
Period size: 34 Copynumber: 8.4 Consensus size: 33
7861140 TACCAACTAG
* ** * *
7861150 ACTAGGCTTAAAT-CTTCATTTGTGTTAGCTAT
1 ACTAGGCTTAAATCCTTTATGAGTGCTAGCTAA
* * *
7861182 ACTACGCTTAAATCTTTTCATGAGTGCAAGCTAA
1 ACTAGGCTTAAATCCTTT-ATGAGTGCTAGCTAA
** * *
7861216 ACTAGGCTTAAAATTTTTTATGAGTACCAGCTAA
1 ACTAGGCTT-AAATCCTTTATGAGTGCTAGCTAA
* * * **
7861250 GCTTGGCTTAAAT--TTTCATTGAGTGCCAAATAA
1 ACTAGGCTTAAATCCTTT-A-TGAGTGCTAGCTAA
** *
7861283 TTTGGGCTTAAATCCTTTAATGAGTGCTAGCTAA
1 ACTAGGCTTAAATCCTTT-ATGAGTGCTAGCTAA
* * *
7861317 ACT-GAGCTTAATTCC--TATCAATGCTAGCTAA
1 ACTAG-GCTTAAATCCTTTATGAGTGCTAGCTAA
* * *
7861348 ACTAGGCTTAAATCTTTTTTGGAGTGCCAGCTAA
1 ACTAGGCTTAAATCCTTTAT-GAGTGCTAGCTAA
* *
7861382 ACTAGGCTTAAAAT-TTTTATG-GATGCTAACTAA
1 ACTAGGCTT-AAATCCTTTATGAG-TGCTAGCTAA
* *
7861415 GCTGGGCTTAAAT
1 ACTAGGCTTAAAT
7861428 TTTCACTGAG
Statistics
Matches: 192, Mismatches: 40, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
31 27 0.14
32 20 0.10
33 46 0.24
34 83 0.43
35 16 0.08
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (33 bp):
ACTAGGCTTAAATCCTTTATGAGTGCTAGCTAA
Found at i:7861725 original size:22 final size:22
Alignment explanation
Indices: 7861628--7861729 Score: 111
Period size: 22 Copynumber: 4.6 Consensus size: 22
7861618 ACTTTTTCAA
*
7861628 CTAATCTCGGCTTATGTGCCAAG
1 CTAATCTGGGCTTATGTGCC-AG
7861651 -TAGA-CTGGGCTTATGTGCCAG
1 CTA-ATCTGGGCTTATGTGCCAG
* *
7861672 CTAATTTGGGCTTATGTGCTAG
1 CTAATCTGGGCTTATGTGCCAG
* *
7861694 CTAATTTGGGCTTTTGTGCCAG
1 CTAATCTGGGCTTATGTGCCAG
7861716 CT-ATACTGGGCTTA
1 CTAAT-CTGGGCTTA
7861730 AATTTTGATT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.07
22 62 0.91
23 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (22 bp):
CTAATCTGGGCTTATGTGCCAG
Found at i:7862321 original size:7 final size:7
Alignment explanation
Indices: 7862304--7862348 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
7862294 TAGAGCCACA
7862304 TTTATTTT
1 TTTA-TTT
7862312 TTTATTT
1 TTTATTT
7862319 TTTATTT
1 TTTATTT
*
7862326 TTTATTA
1 TTTATTT
7862333 TTTATTT
1 TTTATTT
7862340 TTATATTT
1 TT-TATTT
7862348 T
1 T
7862349 AGATTGATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 24 0.71
8 10 0.29
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:7862359 original size:22 final size:21
Alignment explanation
Indices: 7862312--7862353 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7862302 CATTTATTTT
**
7862312 TTTATTTTTTATTTTTTATTA
1 TTTATTTTTTATTTTAGATTA
7862333 TTTATTTTTATATTTTAGATT
1 TTTATTTTT-TATTTTAGATT
7862354 GATTATCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTATTTTTTATTTTAGATTA
Found at i:7862359 original size:29 final size:29
Alignment explanation
Indices: 7862303--7862359 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
7862293 TTAGAGCCAC
* ** **
7862303 ATTTATTTTTTTATTTTTTATTTTTTATT
1 ATTTATTTTTATATTTTAGATTGATTATT
7862332 ATTTATTTTTATATTTTAGATTGATTAT
1 ATTTATTTTTATATTTTAGATTGATTAT
7862360 CACACCATGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (29 bp):
ATTTATTTTTATATTTTAGATTGATTATT
Found at i:7864053 original size:20 final size:20
Alignment explanation
Indices: 7864031--7864067 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
7864021 AAAACTTTCT
7864031 TTTTTTTTC-CTTTTTTTAA
1 TTTTTTTTCTCTTTTTTTAA
7864050 TTTTTTTTCTCTTTTTTT
1 TTTTTTTTCTCTTTTTTT
7864068 TCAAGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTCTCTTTTTTTAA
Found at i:7864069 original size:11 final size:10
Alignment explanation
Indices: 7864026--7864068 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7864016 AACGCAAAAC
7864026 TTTCTTTTTT
1 TTTCTTTTTT
*
7864036 TTTCCTTTTT
1 TTTCTTTTTT
**
7864046 TTAATTTTTT
1 TTTCTTTTTT
7864056 TTCTCTTTTTT
1 TT-TCTTTTTT
7864067 TT
1 TT
7864069 CAAGGCATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:7865753 original size:4 final size:4
Alignment explanation
Indices: 7865739--7865816 Score: 102
Period size: 4 Copynumber: 19.5 Consensus size: 4
7865729 TGGATACATA
* * * *
7865739 AATG GATG AATG AATG CATG AATG AATG AGTG AATG AATG CATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
* *
7865787 AATG AGTG AATG AATG CATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AA
7865817 ATGACAAGGC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.44, C:0.04, G:0.28, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:7865772 original size:24 final size:24
Alignment explanation
Indices: 7865745--7865815 Score: 142
Period size: 24 Copynumber: 3.0 Consensus size: 24
7865735 CATAAATGGA
7865745 TGAATGAATGCATGAATGAATGAG
1 TGAATGAATGCATGAATGAATGAG
7865769 TGAATGAATGCATGAATGAATGAG
1 TGAATGAATGCATGAATGAATGAG
7865793 TGAATGAATGCATGAATGAATGA
1 TGAATGAATGCATGAATGAATGA
7865816 AATGACAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.25
Consensus pattern (24 bp):
TGAATGAATGCATGAATGAATGAG
Found at i:7869087 original size:26 final size:26
Alignment explanation
Indices: 7869047--7869101 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
7869037 TCATTTAGCA
* * * *
7869047 TTTCATTTTAGGGTTTTAGTTTAGGG
1 TTTCATTTAAAGGTTGTACTTTAGGG
*
7869073 TTTCATTTAAAGGTTGTACTTTGGGG
1 TTTCATTTAAAGGTTGTACTTTAGGG
7869099 TTT
1 TTT
7869102 TGATTTATGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.05, G:0.25, T:0.53
Consensus pattern (26 bp):
TTTCATTTAAAGGTTGTACTTTAGGG
Found at i:7869486 original size:3 final size:3
Alignment explanation
Indices: 7869480--7869528 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
7869470 TTTTTAAATT
*
7869480 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7869528 T
1 T
7869529 ATTTTGAGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7871013 original size:14 final size:14
Alignment explanation
Indices: 7870996--7871057 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 14
7870986 TTAGTTTTAA
7870996 AATTTTTAATTTTT
1 AATTTTTAATTTTT
7871010 AATTTTTAATGTTTT
1 AATTTTTAAT-TTTT
** *
7871025 AA-TAATATTTTTT
1 AATTTTTAATTTTT
*
7871038 TATTTGTTAATTTTT
1 AATTT-TTAATTTTT
7871053 AATTT
1 AATTT
7871058 ATTTAATCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
13 5 0.14
14 15 0.41
15 17 0.46
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
AATTTTTAATTTTT
Found at i:7871015 original size:6 final size:7
Alignment explanation
Indices: 7870996--7871057 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
7870986 TTAGTTTTAA
7870996 AATTTTT
1 AATTTTT
7871003 AATTTTT
1 AATTTTT
7871010 AATTTTT
1 AATTTTT
7871017 AATGTTTT
1 AAT-TTTT
**
7871025 AA-TAAT
1 AATTTTT
*
7871031 ATTTTTT
1 AATTTTT
*
7871038 TATTTGTT
1 AATTT-TT
7871046 AATTTTT
1 AATTTTT
7871053 AATTT
1 AATTT
7871058 ATTTAATCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
6 3 0.07
7 29 0.66
8 12 0.27
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:7871075 original size:3 final size:3
Alignment explanation
Indices: 7871067--7871111 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
7871057 TATTTAATCT
7871067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
7871112 TGTGTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7877626 original size:8 final size:8
Alignment explanation
Indices: 7877615--7877659 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
7877605 GATTTAAAGA
7877615 TTTATTTT
1 TTTATTTT
7877623 TTTATTTT
1 TTTATTTT
**
7877631 TTGGCTTTT
1 TT-TATTTT
*
7877640 TTCATTTT
1 TTTATTTT
7877648 TTTATTTT
1 TTTATTTT
7877656 TTTA
1 TTTA
7877660 AGCTTTTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
8 25 0.81
9 6 0.19
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (8 bp):
TTTATTTT
Found at i:7877658 original size:26 final size:25
Alignment explanation
Indices: 7877618--7877672 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
7877608 TTAAAGATTT
*
7877618 ATTTTTTTATTTTTT-GGCTTTTTTC
1 ATTTTTTTATTTTTTAAGC-TTTTTC
7877643 ATTTTTTTATTTTTTTAAGCTTTTTC
1 ATTTTTTTA-TTTTTTAAGCTTTTTC
7877669 ATTT
1 ATTT
7877673 CTAATGATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 9 0.33
26 16 0.59
27 2 0.07
ACGTcount: A:0.13, C:0.07, G:0.05, T:0.75
Consensus pattern (25 bp):
ATTTTTTTATTTTTTAAGCTTTTTC
Found at i:7878219 original size:25 final size:25
Alignment explanation
Indices: 7878191--7878367 Score: 230
Period size: 25 Copynumber: 7.1 Consensus size: 25
7878181 CATATAAAAT
* *
7878191 AAATGACACAATTTAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
7878216 AAATGACATAATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
*
7878241 AAATGACATAAGTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
*
7878266 AAATGAAATAATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* * * * *
7878291 CAATGATATATTTACAATACGCATG
1 AAATGACATAATTAAAATATGCATG
* *
7878316 AAATGATATAATTAAAATATACATG
1 AAATGACATAATTAAAATATGCATG
* *
7878341 AAATAACATAATTAAAA-AAGCATG
1 AAATGACATAATTAAAATATGCATG
7878365 AAA
1 AAA
7878368 CGTAAAACAC
Statistics
Matches: 133, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 8 0.06
25 125 0.94
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.27
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATG
Found at i:7878443 original size:37 final size:36
Alignment explanation
Indices: 7878400--7878471 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
7878390 AATATTTCAT
*
7878400 TTTCATTTT-TCTTCATTTTTGTCACTTTTCCATTTTG
1 TTTCATTTTAT-TTCATATTT-TCACTTTTCCATTTTG
* *
7878437 TTTCATTTTATTTTATATTTTCATTTTTCCATTTT
1 TTTCATTTTATTTCATATTTTCACTTTTCCATTTT
7878472 TGTAGATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 14 0.45
37 16 0.52
38 1 0.03
ACGTcount: A:0.14, C:0.15, G:0.03, T:0.68
Consensus pattern (36 bp):
TTTCATTTTATTTCATATTTTCACTTTTCCATTTTG
Found at i:7879055 original size:43 final size:41
Alignment explanation
Indices: 7879000--7879096 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 41
7878990 TTTTTTTTTT
* * *
7879000 CTTTTGTTTTAAAACAAGAAATAAATCAAATTTAAAACAAAA
1 CTTTTTTTTTAAAACAA-AAACAAATCAAATTCAAAACAAAA
*
7879042 CTTTTTCTTTTAAAAACAAAACCAAATCAAATTCAAAACAAAA
1 CTTTTT-TTTT-AAAACAAAAACAAATCAAATTCAAAACAAAA
7879085 CTTTTTTTTTAA
1 CTTTTTTTTTAA
7879097 TTTTTGAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.04
42 9 0.18
43 31 0.63
44 7 0.14
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.35
Consensus pattern (41 bp):
CTTTTTTTTTAAAACAAAAACAAATCAAATTCAAAACAAAA
Found at i:7879406 original size:21 final size:21
Alignment explanation
Indices: 7879382--7879422 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7879372 ATAACATGTG
7879382 ATGAATGCATGACAATATAAT
1 ATGAATGCATGACAATATAAT
* **
7879403 ATGAGTGCATGGTAATATAA
1 ATGAATGCATGACAATATAA
7879423 AAATTCACGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (21 bp):
ATGAATGCATGACAATATAAT
Found at i:7879516 original size:7 final size:7
Alignment explanation
Indices: 7879506--7879739 Score: 90
Period size: 7 Copynumber: 35.7 Consensus size: 7
7879496 TTTAAATTAA
7879506 GGTTTAG
1 GGTTTAG
7879513 GG-TTAG
1 GGTTTAG
**
7879519 ATTTTAG
1 GGTTTAG
7879526 GGTTT-G
1 GGTTTAG
*
7879532 GGTTTAC
1 GGTTTAG
7879539 GG-TTAG
1 GGTTTAG
*
7879545 GTTTTA-
1 GGTTTAG
* *
7879551 AGATT-G
1 GGTTTAG
* *
7879557 GGTTAAA
1 GGTTTAG
7879564 GGTTTAG
1 GGTTTAG
*
7879571 GG-TTAT
1 GGTTTAG
*
7879577 GTTTTAG
1 GGTTTAG
7879584 GGTTT-G
1 GGTTTAG
7879590 GGTTTAG
1 GGTTTAG
*
7879597 GATTTAG
1 GGTTTAG
*
7879604 GATTT-G
1 GGTTTAG
*
7879610 GCTTTA-
1 GGTTTAG
*
7879616 GGTTTAA
1 GGTTTAG
*
7879623 GG-TTAA
1 GGTTTAG
7879629 GG-TTAG
1 GGTTTAG
*
7879635 GGTTCAG
1 GGTTTAG
7879642 GG-TT-G
1 GGTTTAG
* *
7879647 GGATATGG
1 GG-TTTAG
7879655 GGTTT-G
1 GGTTTAG
*
7879661 GATTTAG
1 GGTTTAG
7879668 GGTTTAG
1 GGTTTAG
7879675 GGTTTAG
1 GGTTTAG
7879682 GGTTTTA-
1 GG-TTTAG
*
7879689 -ATTTAG
1 GGTTTAG
*
7879695 AGTTTA-
1 GGTTTAG
* *
7879701 GATTTGG
1 GGTTTAG
*
7879708 GGTTTGG
1 GGTTTAG
7879715 GGTTTAG
1 GGTTTAG
7879722 GGTTT-G
1 GGTTTAG
* *
7879728 GATGTAG
1 GGTTTAG
7879735 GGTTT
1 GGTTT
7879740 TAGTTTAAGG
Statistics
Matches: 167, Mismatches: 41, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
5 7 0.04
6 62 0.37
7 91 0.54
8 7 0.04
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:7879537 original size:13 final size:13
Alignment explanation
Indices: 7879506--7879739 Score: 84
Period size: 13 Copynumber: 17.9 Consensus size: 13
7879496 TTTAAATTAA
*
7879506 GGTTTAGGGTTAG
1 GGTTTAGGGTTTG
**
7879519 ATTTTAGGGTTTG
1 GGTTTAGGGTTTG
* *
7879532 GGTTTACGGTTAG
1 GGTTTAGGGTTTG
* * *
7879545 GTTTTA-AGATTG
1 GGTTTAGGGTTTG
* *
7879557 GGTTAAAGGTTTAG
1 GGTTTAGGGTTT-G
* *
7879571 GG-TTATGTTTTAG
1 GGTTTAGGGTTT-G
7879584 GGTTT-GGGTTTAG
1 GGTTTAGGGTTT-G
* *
7879597 GATTTAGGATTTG
1 GGTTTAGGGTTTG
* *
7879610 GCTTTA-GGTTTAA
1 GGTTTAGGGTTT-G
* *
7879623 GG-TTAAGGTTAG
1 GGTTTAGGGTTTG
*
7879635 GGTTCAGGG-TTG
1 GGTTTAGGGTTTG
* *
7879647 GGATATGGGGTTTG
1 GG-TTTAGGGTTTG
*
7879661 GATTTAGGGTTTAG
1 GGTTTAGGGTTT-G
*
7879675 GGTTTAGGGTTTT
1 GGTTTAGGGTTTG
** * *
7879688 AATTTAGAGTTTA
1 GGTTTAGGGTTTG
* *
7879701 GATTTGGGGTTTGG
1 GGTTTAGGGTTT-G
7879715 GGTTTAGGGTTTG
1 GGTTTAGGGTTTG
* *
7879728 GATGTAGGGTTT
1 GGTTTAGGGTTT
7879740 TAGTTTAAGG
Statistics
Matches: 159, Mismatches: 51, Indels: 22
0.69 0.22 0.09
Matches are distributed among these distances:
12 20 0.13
13 103 0.65
14 36 0.23
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.44
Consensus pattern (13 bp):
GGTTTAGGGTTTG
Found at i:7879602 original size:20 final size:19
Alignment explanation
Indices: 7879579--7879626 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
7879569 AGGGTTATGT
*
7879579 TTTAGGGTTTGGGTTTAGG
1 TTTAGGGTTTGGCTTTAGG
*
7879598 ATTTAGGATTTGGCTTTAGG
1 -TTTAGGGTTTGGCTTTAGG
*
7879618 TTTAAGGTT
1 TTTAGGGTT
7879627 AAGGTTAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (19 bp):
TTTAGGGTTTGGCTTTAGG
Found at i:7885054 original size:60 final size:60
Alignment explanation
Indices: 7884960--7885082 Score: 210
Period size: 60 Copynumber: 2.0 Consensus size: 60
7884950 ATAGAATCCA
* * *
7884960 AACAAGTAATATAGAATGAATAAAGTATTATTCCCACAGAGTTTGAAATATATGGAAGTG
1 AACAAGTAATATAGAATGAATAAAGTATTATTCCCACAAAGTTTGAAATATATAGAAATG
*
7885020 AACAAGTAATATAGAATGAATAAAGTATTGTTCCCACAAAGTTTGAAATATATAGAAATG
1 AACAAGTAATATAGAATGAATAAAGTATTATTCCCACAAAGTTTGAAATATATAGAAATG
7885080 AAC
1 AAC
7885083 TTAGAATTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (60 bp):
AACAAGTAATATAGAATGAATAAAGTATTATTCCCACAAAGTTTGAAATATATAGAAATG
Found at i:7888921 original size:26 final size:26
Alignment explanation
Indices: 7888865--7888923 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
7888855 TTATTTATTT
* * *
7888865 ATTATTTTTATTCTATAATTATATAA
1 ATTATTTTTATACTATAATTAAAGAA
7888891 ATTATTTATTATACTA-AATTAAAGAA
1 ATTATTT-TTATACTATAATTAAAGAA
*
7888917 TTTATTT
1 ATTATTT
7888924 GAAAATTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTATTTTTATACTATAATTAAAGAA
Found at i:7894236 original size:22 final size:22
Alignment explanation
Indices: 7894196--7894237 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7894186 CTAGGATAGG
* * *
7894196 TATGTTTTGATTTTTTTTTTTT
1 TATGTTTTAAGTTTGTTTTTTT
7894218 TATGTTTTAAGTTTGTTTTT
1 TATGTTTTAAGTTTGTTTTT
7894238 ATATAGATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (22 bp):
TATGTTTTAAGTTTGTTTTTTT
Found at i:7895390 original size:145 final size:145
Alignment explanation
Indices: 7895144--7895407 Score: 334
Period size: 145 Copynumber: 1.8 Consensus size: 145
7895134 TGGGTCATCA
*
7895144 TGAGATTGGATTTTTATGAAACTTTTCAGATTTAAATTTTATAATATTTCATGATTTTTAGTGCA
1 TGAGATTGGATTTTTATAAAACTTTTCAGATTTAAATTTTATAATATTTCATGATTTTTAGTGCA
* * * ** ** * *
7895209 TTTGAAATTATAGTAGTACTCCGAAAAGTGTGAAATTACCAAAATACCCTTATATGGGTATTCTT
66 TTTGAAATCACAGCAACACTCCGAAAAGCATAAAATTACCAAAATAACCTTATATGGGTATTCTT
7895274 GTAGTTTGGCCTTCT
131 GTAGTTTGGCCTTCT
* * * *
7895289 TGAGTTTGGATTTTTATAAAACTTTTTAGATCTT-AATTTTATAATATTTTATGATTTTTGGTGC
1 TGAGATTGGATTTTTATAAAACTTTTCAGAT-TTAAATTTTATAATATTTCATGATTTTTAGTGC
** **
7895353 ATTTGAAATCACAGCAACAC-CTCGGGAAGCATAAAATTATGAAAATAACCTTATA
65 ATTTGAAATCACAGCAACACTC-CGAAAAGCATAAAATTACCAAAATAACCTTATA
7895408 AGGATATTTC
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
144 1 0.01
145 96 0.97
146 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (145 bp):
TGAGATTGGATTTTTATAAAACTTTTCAGATTTAAATTTTATAATATTTCATGATTTTTAGTGCA
TTTGAAATCACAGCAACACTCCGAAAAGCATAAAATTACCAAAATAACCTTATATGGGTATTCTT
GTAGTTTGGCCTTCT
Done.