Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 109 of 120
Found at i:15832715 original size:17 final size:17
Alignment explanation
Indices: 15832682--15832715 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15832672 ATATATTTTC
* *
15832682 AATAAAAAAATTTAAAA
1 AATAAAAAAAATAAAAA
15832699 AATAAAAAAAATAAAAA
1 AATAAAAAAAATAAAAA
15832716 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AATAAAAAAAATAAAAA
Found at i:15836778 original size:20 final size:20
Alignment explanation
Indices: 15836719--15836780 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
15836709 TAATGGATGG
**
15836719 AAAAAGATGAAAAAAAATAA
1 AAAAAGATGAAAAAAAAGGA
* * *
15836739 AAAAAAATG-AAAGAATGGA
1 AAAAAGATGAAAAAAAAGGA
* *
15836758 AAAAAGATGAAAATAAGGGA
1 AAAAAGATGAAAAAAAAGGA
15836778 AAA
1 AAA
15836781 GAAAAACTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.10
Consensus pattern (20 bp):
AAAAAGATGAAAAAAAAGGA
Found at i:15838079 original size:21 final size:21
Alignment explanation
Indices: 15838047--15838086 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15838037 TAAGTTCTCA
*
15838047 AATGAAAGTCTTTGAATTTCG
1 AATGAAAGTCTTTAAATTTCG
15838068 AATGTAAA-TCTTTAAATTT
1 AATG-AAAGTCTTTAAATTT
15838087 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (21 bp):
AATGAAAGTCTTTAAATTTCG
Found at i:15838178 original size:79 final size:80
Alignment explanation
Indices: 15838082--15838247 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 80
15838072 TAAATCTTTA
* ** *
15838082 AATTTTAAATAAGAATCTTTGAGGTGTGAAACCC-AAAATTTATCGAATGTGAATCTTTAAACTC
1 AATTTTAAATAAGAATCTTTGAGGTGTGAAACCCTAAAATTTATCAAATAAGAATCCTTAAACTC
15838146 AAATGAGAA-TATTTG
66 AAATGAGAAGT-TTTG
* * * *
15838161 AATTTTAAATGATAATCTTTGAGGTGTGAAACCCTAAGATTTATCAAATAAGAATCCTTGAACTC
1 AATTTTAAATAAGAATCTTTGAGGTGTGAAACCCTAAAATTTATCAAATAAGAATCCTTAAACTC
*
15838226 GAATGAGAAGTTTTG
66 AAATGAGAAGTTTTG
15838241 AACTTTT
1 AA-TTTT
15838248 GGATGTGAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 32 0.43
80 38 0.51
81 5 0.07
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (80 bp):
AATTTTAAATAAGAATCTTTGAGGTGTGAAACCCTAAAATTTATCAAATAAGAATCCTTAAACTC
AAATGAGAAGTTTTG
Found at i:15838574 original size:27 final size:29
Alignment explanation
Indices: 15838527--15838580 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
15838517 CTGTTTAGAG
15838527 GAGCAATTTATTTTTTCAAAGTTGTGGAA
1 GAGCAATTTATTTTTTCAAAGTTGTGGAA
15838556 GAGC-ATTTA-TTTTTCAAAGTTGTGG
1 GAGCAATTTATTTTTTCAAAGTTGTGG
15838581 TGCTTCTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.64
28 5 0.20
29 4 0.16
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (29 bp):
GAGCAATTTATTTTTTCAAAGTTGTGGAA
Found at i:15838604 original size:69 final size:69
Alignment explanation
Indices: 15838492--15838622 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 69
15838482 CAAGAAGTCT
*
15838492 TTTATTTTTTAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGAAG
1 TTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGAAG
15838557 AGCA
66 AGCA
* * *
15838561 TTTATTTTTCAAAGTTGTGGTGCTTCTGTTTAGAGGAGTAATTTATTTTTTCAAAGTTGTGG
1 TTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGG
15838623 TGCCTCTGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.47
Consensus pattern (69 bp):
TTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGAAG
AGCA
Found at i:15838618 original size:42 final size:40
Alignment explanation
Indices: 15838560--15838805 Score: 285
Period size: 42 Copynumber: 6.0 Consensus size: 40
15838550 GTGGAAGAGC
*
15838560 ATTTATTTTTCAAAGTTGTGGTGCTTCTGTTTAGAGGAGTA
1 ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG-A
* * *
15838601 ATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAAAAGAGC
1 ATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGA
* *
15838642 ATTTATTTTTCAAAGTTGTGGTGCCTTTGTTTAGATGAGTA
1 ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG-A
*
15838683 ATTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCA
1 ATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG-A
* * * * *
15838725 TTTTGTTTTTCAAAAGTTATGATGCCTCTGTTTAGAGAAGCA
1 ATTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAG-A
* * * *
15838767 TTTTATTTTTCAAAGTTATGGTGTCTCTGTTTATAGGAG
1 ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
15838806 GTTTGTTTAC
Statistics
Matches: 178, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
40 31 0.17
41 45 0.25
42 102 0.57
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (40 bp):
ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGA
Found at i:15838691 original size:82 final size:81
Alignment explanation
Indices: 15838554--15838799 Score: 325
Period size: 82 Copynumber: 3.0 Consensus size: 81
15838544 AAAGTTGTGG
15838554 AAGAGCATTTATTTTTCAAAGTTGTGGTG-CTTCTGTTTAGAGGAGTAATTTATTTTTTCAAAGT
1 AAGAGCATTTATTTTTCAAAGTTGTGGTGCCTT-TGTTTAGA-GAGTAATTTATTTTTTCAAAGT
15838618 TGTGGTGCCTCTGTTTAA
64 TGTGGTGCCTCTGTTTAA
15838636 AAGAGCATTTATTTTTCAAAGTTGTGGTGCCTTTGTTTAGATGAGTAATTTATTTTTTCAAAGTT
1 AAGAGCATTTATTTTTCAAAGTTGTGGTGCCTTTGTTTAGA-GAGTAATTTATTTTTTCAAAGTT
* *
15838701 GTGGTGCCTCTATTTAG
65 GTGGTGCCTCTGTTTAA
* * * * * * *
15838718 AGGAGCATTTTGTTTTTCAAAAGTTATGATGCCTCTGTTTAGAGAAGCATTTTA-TTTTTCAAAG
1 AAGAGCA-TTTATTTTTC-AAAGTTGTGGTGCCTTTGTTTAGAG-AGTAATTTATTTTTTCAAAG
* *
15838782 TTATGGTGTCTCTGTTTA
63 TTGTGGTGCCTCTGTTTA
15838800 TAGGAGGTTT
Statistics
Matches: 147, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
82 81 0.55
83 38 0.26
84 28 0.19
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.46
Consensus pattern (81 bp):
AAGAGCATTTATTTTTCAAAGTTGTGGTGCCTTTGTTTAGAGAGTAATTTATTTTTTCAAAGTTG
TGGTGCCTCTGTTTAA
Found at i:15839422 original size:15 final size:15
Alignment explanation
Indices: 15839399--15839436 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15839389 TAATTTTACT
15839399 AAAAAAT-AAAAATA
1 AAAAAATAAAAAATA
15839413 AAAAAGATAAAAAATA
1 AAAAA-ATAAAAAATA
15839429 AAATAAAT
1 AAA-AAAT
15839437 TTGTGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.24
15 2 0.10
16 12 0.57
17 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:15840067 original size:57 final size:56
Alignment explanation
Indices: 15839988--15840164 Score: 139
Period size: 57 Copynumber: 3.1 Consensus size: 56
15839978 AAAATATATA
15839988 TAAAAAGAAATAA-AAAAT-TTTCTAAATAAGCCCAAATGGTGAAAAATTTAGAAATTC
1 TAAAAA-AAA-AAGAAAATATTTCTAAATAAGCCCAAATGGTGAAAAATTTA-AAATTC
* * * * *
15840045 TAAAAAAAAAAGAAAATATTTCTAAAT-TGACCCAGATAGTGGAAAATTTAAAAATC
1 TAAAAAAAAAAGAAAATATTTCTAAATAAG-CCCAAATGGTGAAAAATTTAAAATTC
* * * * * *
15840101 CAATAAAATAAAAGAAAAAAAATTT-TAAATAGGCTCAAATGATGAAAATTTTAAAAATTC
1 TAA-AAAA-AAAAG--AAAATATTTCTAAATAAGCCCAAATGGTGAAAAATTT-AAAATTC
15840161 -AAAA
1 TAAAA
15840165 GAGAAAATAT
Statistics
Matches: 96, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
55 2 0.02
56 16 0.17
57 36 0.38
58 7 0.07
59 20 0.21
60 15 0.16
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (56 bp):
TAAAAAAAAAAGAAAATATTTCTAAATAAGCCCAAATGGTGAAAAATTTAAAATTC
Found at i:15848809 original size:32 final size:32
Alignment explanation
Indices: 15848773--15848840 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
15848763 ATTCCTTCTA
15848773 ATAATTTATTTAGATTAACATGAGGTGATCTT
1 ATAATTTATTTAGATTAACATGAGGTGATCTT
*
15848805 ATAATTTATTTAGATTAATATGAGGTGATCTT
1 ATAATTTATTTAGATTAACATGAGGTGATCTT
15848837 ATAA
1 ATAA
15848841 GAGTAGTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (32 bp):
ATAATTTATTTAGATTAACATGAGGTGATCTT
Found at i:15857545 original size:5 final size:5
Alignment explanation
Indices: 15857535--15857560 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15857525 GCATGAACGG
15857535 CCCTT CCCTT CCCTT CCCTT CCCTT C
1 CCCTT CCCTT CCCTT CCCTT CCCTT C
15857561 TCTCTCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (5 bp):
CCCTT
Found at i:15860672 original size:2 final size:2
Alignment explanation
Indices: 15860665--15860695 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15860655 CTCACAGTCC
15860665 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
15860696 AAATATCGGA
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:15871848 original size:2 final size:2
Alignment explanation
Indices: 15871841--15871867 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15871831 CTCTTTGAAG
15871841 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
15871868 ATCAAGAAAA
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:15872620 original size:16 final size:16
Alignment explanation
Indices: 15872599--15872633 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
15872589 AGAGAGTAGA
15872599 GGAGGCTTTGCTGTAT
1 GGAGGCTTTGCTGTAT
15872615 GGAGGCTTTGCTGTAT
1 GGAGGCTTTGCTGTAT
15872631 GGA
1 GGA
15872634 ATATCCTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.40, T:0.34
Consensus pattern (16 bp):
GGAGGCTTTGCTGTAT
Found at i:15881034 original size:30 final size:29
Alignment explanation
Indices: 15880978--15881038 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
15880968 AATTGAATCA
* * *
15880978 TTAAATATTTATTTTCATCCATTTAAACTT
1 TTAAATATCTATTTTCAGCCAATTAAA-TT
*
15881008 TTAAATATCTATTTTTAGCCAATTAAATT
1 TTAAATATCTATTTTCAGCCAATTAAATT
15881037 TT
1 TT
15881039 CACAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.52
Consensus pattern (29 bp):
TTAAATATCTATTTTCAGCCAATTAAATT
Found at i:15881492 original size:29 final size:28
Alignment explanation
Indices: 15881447--15881505 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
15881437 ATTAAAACTA
** *
15881447 TTATTTATAATTTAAATTTGATCAATAT
1 TTATTTATAATAAAAATTTGATAAATAT
*
15881475 TTATTTAATAATAAAAATTTTATAAATAT
1 TTATTT-ATAATAAAAATTTGATAAATAT
15881504 TT
1 TT
15881506 TTATTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TTATTTATAATAAAAATTTGATAAATAT
Found at i:15881516 original size:15 final size:15
Alignment explanation
Indices: 15881491--15881533 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15881481 AATAATAAAA
*
15881491 ATTTTATAAATATTT
1 ATTTAATAAATATTT
*
15881506 TTATTAA-AAATATTT
1 AT-TTAATAAATATTT
15881521 ATTTAATAAATAT
1 ATTTAATAAATAT
15881534 ATCATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.17
15 16 0.70
16 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATAAATATTT
Found at i:15886551 original size:23 final size:22
Alignment explanation
Indices: 15886500--15886563 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
15886490 ATTTATATTA
15886500 TAAAATATTAAATATATTTTTAT
1 TAAAAT-TTAAATATATTTTTAT
* * *
15886523 T-TAATTTATATATAATTTTTGT
1 TAAAATTTAAATAT-ATTTTTAT
15886545 TAAAATTTTAAATTATATT
1 TAAAA-TTTAAA-TATATT
15886564 ATTTTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 7 0.22
22 11 0.34
23 3 0.09
24 8 0.25
25 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TAAAATTTAAATATATTTTTAT
Found at i:15890225 original size:20 final size:20
Alignment explanation
Indices: 15890186--15890225 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15890176 ATAACTATTA
*
15890186 AAATTTTAATTTTAATAATT
1 AAATTTTAATTTTAACAATT
*
15890206 AAATTTTAATTTTGACAATT
1 AAATTTTAATTTTAACAATT
15890226 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
AAATTTTAATTTTAACAATT
Found at i:15890611 original size:17 final size:17
Alignment explanation
Indices: 15890570--15890612 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15890560 ATTATTATAT
15890570 TAAAAATAAAAATTTAAA
1 TAAAAA-AAAAATTTAAA
* **
15890588 TAGAAAAAAAATTTTGA
1 TAAAAAAAAAATTTAAA
15890605 TAAAAAAA
1 TAAAAAAA
15890613 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
TAAAAAAAAAATTTAAA
Found at i:15891650 original size:19 final size:21
Alignment explanation
Indices: 15891609--15891654 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
15891599 GTAAATAAAA
**
15891609 AAATTATATATAGTAAATTTT
1 AAATTATATATAGTAAAAATT
15891630 AAATTAT-TATA-TAAAAATT
1 AAATTATATATAGTAAAAATT
15891649 AAATTA
1 AAATTA
15891655 AATTTCGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 4 0.17
21 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATTATATATAGTAAAAATT
Found at i:15895750 original size:16 final size:18
Alignment explanation
Indices: 15895726--15895772 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
15895716 AAAAATTTTA
15895726 AATTATTTATTTA-ATTT
1 AATTATTTATTTATATTT
*
15895743 AA-TATTTATATATATTT
1 AATTATTTATTTATATTT
*
15895760 AATTTTTTATTTA
1 AATTATTTATTTA
15895773 CATAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 9 0.36
17 8 0.32
18 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTATTTATTTATATTT
Found at i:15898507 original size:29 final size:29
Alignment explanation
Indices: 15898467--15898551 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
15898457 TAAAAATTTA
*
15898467 ATAATCATTTAAATTTTAAATATTTTATT
1 ATAATCAATTAAATTTTAAATATTTTATT
** *
15898496 ATAATCAATTAAACATTAAATTTTTTATT
1 ATAATCAATTAAATTTTAAATATTTTATT
* *
15898525 TTGAATCAATTCAATTCTTAAATATTT
1 AT-AATCAATTAAATT-TTAAATATTT
15898552 ATTTTTATCT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 26 0.58
30 10 0.22
31 9 0.20
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (29 bp):
ATAATCAATTAAATTTTAAATATTTTATT
Found at i:15898553 original size:30 final size:28
Alignment explanation
Indices: 15898468--15898597 Score: 93
Period size: 30 Copynumber: 4.4 Consensus size: 28
15898458 AAAAATTTAA
* *
15898468 TAATCATTTAAATT-TTAAATATTTTATTA
1 TAATCAATT-AATTCTTAAATA-TTTATTT
* *
15898497 TAATCAATTAA-ACATTAAATTTTTTATTT
1 TAATCAATTAATTC-TTAAA-TATTTATTT
15898526 TGAATCAATTCAATTCTTAAATATTTATTT
1 T-AATCAATT-AATTCTTAAATATTTATTT
* * *
15898556 TTATCTAATTTAATCCTTAAATATATATTTT
1 TAATC-AA-TTAATTCTTAAATATTTA-TTT
*
15898587 TATTCAATTAA
1 TAATCAATTAA
15898598 ACTCTAGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
28 2 0.02
29 27 0.33
30 36 0.44
31 15 0.19
32 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (28 bp):
TAATCAATTAATTCTTAAATATTTATTT
Found at i:15900616 original size:2 final size:2
Alignment explanation
Indices: 15900609--15900645 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15900599 AATGCATCTT
15900609 TA TA TA TA 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 TA TA TA TA T
15900646 TACCGCCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15902367 original size:21 final size:21
Alignment explanation
Indices: 15902325--15902367 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15902315 TTAGTAAAAG
* *
15902325 ATTAAAATTTTAATTTTAATA
1 ATTAAAATTTAAAATTTAATA
*
15902346 ATTAAAATTTAAAATTTGATA
1 ATTAAAATTTAAAATTTAATA
15902367 A
1 A
15902368 AATAAAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAAATTTAAAATTTAATA
Found at i:15908942 original size:22 final size:23
Alignment explanation
Indices: 15908890--15908952 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
15908880 TAATTTTACT
*
15908890 TATTAATAAATAATATTATAATC
1 TATTAATAAATATTATTATAATC
15908913 TATTAATAAATATTATTAT-AT-
1 TATTAATAAATATTATTATAATC
15908934 TAATTAATAAATATTATTA
1 T-ATTAATAAATATTATTA
15908953 ATAAATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 1 0.03
22 19 0.50
23 18 0.47
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATAAATATTATTATAATC
Found at i:15908980 original size:35 final size:35
Alignment explanation
Indices: 15908913--15908981 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
15908903 TATTATAATC
*
15908913 TATTAATAAATATTATTATATTAATTAATAAATAT
1 TATTAATAAATATTATTATAATAATTAATAAATAT
* *
15908948 TATTAATAAATA-TATTTTAATATATTACTAAATA
1 TATTAATAAATATTATTATAATA-ATTAATAAATA
15908982 ATATGAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 8 0.27
35 22 0.73
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (35 bp):
TATTAATAAATATTATTATAATAATTAATAAATAT
Found at i:15909074 original size:36 final size:36
Alignment explanation
Indices: 15909034--15909104 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
15909024 ATTACCATAA
*
15909034 TTTTTAATATTAAATAATATTATTAA-AATATAATTAT
1 TTTTTAATATT-AATAATATTAATAATAA-ATAATTAT
*
15909071 TTTTTAATATTAATAATTTTAATAATAAATAATT
1 TTTTTAATATTAATAATATTAATAATAAATAATT
15909105 TCAATATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 18 0.58
37 13 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TTTTTAATATTAATAATATTAATAATAAATAATTAT
Found at i:15909092 original size:15 final size:15
Alignment explanation
Indices: 15909072--15909112 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
15909062 TATAATTATT
*
15909072 TTTTAATATTAATAA
1 TTTTAATATAAATAA
15909087 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
15909103 TTTCAATATA
1 TTTTAATATA
15909113 CTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:15909110 original size:25 final size:26
Alignment explanation
Indices: 15909082--15909147 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
15909072 TTTTAATATT
15909082 AATAATTTTAATAATAAATA-ATTTC
1 AATAATTTTAATAATAAATATATTTC
* * *
15909107 AATATACTTTAATAATAAATATTTTTT
1 AATA-ATTTTAATAATAAATATATTTC
15909134 AAT-ATTTTAATAAT
1 AATAATTTTAATAAT
15909148 TATATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 14 0.40
26 15 0.43
27 6 0.17
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAATTTTAATAATAAATATATTTC
Found at i:15909707 original size:21 final size:21
Alignment explanation
Indices: 15909683--15909741 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
15909673 AATAAATATT
15909683 ATCATTATTAATTTTAATTTC
1 ATCATTATTAATTTTAATTTC
** *
15909704 ATCATT-TTAAACTTAATTTT
1 ATCATTATTAATTTTAATTTC
*
15909724 ATCGTTA-TAATATTTAAT
1 ATCATTATTAAT-TTTAAT
15909742 CTAATCTCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (21 bp):
ATCATTATTAATTTTAATTTC
Found at i:15915960 original size:17 final size:17
Alignment explanation
Indices: 15915932--15915964 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15915922 AATACAATTA
15915932 ATTTATATAATTATTGAT
1 ATTTATATAATT-TTGAT
15915950 ATTTA-ATAATTTTGA
1 ATTTATATAATTTTGA
15915965 AATTCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTATATAATTTTGAT
Found at i:15927517 original size:25 final size:27
Alignment explanation
Indices: 15927479--15927545 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
15927469 ATTTTAAATA
15927479 TAAAAAAGTAAAAATTTT-A-A-ATGTT
1 TAAAAAA-TAAAAATTTTGAGACATGTT
*
15927504 TAAAAAATATAAAATTTTGAGACATTTT
1 TAAAAAATA-AAAATTTTGAGACATGTT
15927532 TAAAAAATGAAAAA
1 TAAAAAAT-AAAAA
15927546 AATAAAAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 2 0.06
25 15 0.42
26 1 0.03
27 1 0.03
28 16 0.44
29 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (27 bp):
TAAAAAATAAAAATTTTGAGACATGTT
Found at i:15929544 original size:18 final size:18
Alignment explanation
Indices: 15929518--15929567 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
15929508 TGCAAAAAAG
15929518 TTAAAATTATTTAGT-AT
1 TTAAAATTATTTAGTAAT
* *
15929535 TTATAAATTAATAAGTAAT
1 TTA-AAATTATTTAGTAAT
15929554 TTAAAAGTTATTTA
1 TTAAAA-TTATTTA
15929568 AAATATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.12
18 13 0.50
19 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (18 bp):
TTAAAATTATTTAGTAAT
Found at i:15930679 original size:30 final size:29
Alignment explanation
Indices: 15930643--15930713 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
15930633 TATTAAACTC
15930643 AAATAAATTATTAAATTTTAATCTGTATTT
1 AAATAAATT-TTAAATTTTAATCTGTATTT
** *
15930673 AAATAAATTTTGTCATTTTAATTTGTATTT
1 AAATAAATTTT-AAATTTTAATCTGTATTT
15930703 AAATAAATTTT
1 AAATAAATTTT
15930714 TAACAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (29 bp):
AAATAAATTTTAAATTTTAATCTGTATTT
Found at i:15935817 original size:2 final size:2
Alignment explanation
Indices: 15935810--15935843 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
15935800 TATGTTGTAA
* *
15935810 AT AT AT AT AA AT AT AA 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 AT
15935844 TAACTTGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:15937564 original size:22 final size:22
Alignment explanation
Indices: 15937541--15937581 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15937531 TCTTAATTTA
*
15937541 AAATTATG-TGAAAATAAAATT
1 AAATTAAGATGAAAATAAAATT
*
15937562 AAATTAAGATGAAATTAAAA
1 AAATTAAGATGAAAATAAAA
15937582 ATAGCCTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATTAAGATGAAAATAAAATT
Found at i:15938233 original size:52 final size:52
Alignment explanation
Indices: 15938147--15938302 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
15938137 TATAACCATA
* * * *
15938147 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTT-TGCTTGTAAGT
1 CAAACTTACCTATTAAGAATCCATCTCCTCTTAGAATTCTTCT-CTTGCAAGT
* *
15938199 CAAACTTACCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCTTGCAAGT
* * * *
15938251 CAAACTTACCTATTAAGAATCC-TCTTTCTCTTAAAATTCTTTTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCCATC-TCCTCTTAGAATTCTTCTCTTGCAAGT
15938303 TTTCTTGTCC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 1 0.01
52 88 0.98
53 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:15938344 original size:11 final size:11
Alignment explanation
Indices: 15938328--15938366 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
15938318 GCAATATCTG
*
15938328 ACAAATCCCAA
1 ACAAATCTCAA
*
15938339 ACAAATCTCTA
1 ACAAATCTCAA
15938350 ACAAATCTCAA
1 ACAAATCTCAA
15938361 ACAAAT
1 ACAAAT
15938367 TTCTTATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:15940669 original size:23 final size:22
Alignment explanation
Indices: 15940624--15940666 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15940614 TTAAATGATG
*
15940624 TTTTTTAAATAAAATTTATAAT
1 TTTTTTAAATAAAATTGATAAT
* *
15940646 TTTTTTTATTAAAATTGATAA
1 TTTTTTAAATAAAATTGATAA
15940667 ATTGAAAGTT
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:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTTTAAATAAAATTGATAAT
Found at i:15941105 original size:37 final size:37
Alignment explanation
Indices: 15941003--15941132 Score: 93
Period size: 37 Copynumber: 3.4 Consensus size: 37
15940993 TTCTATCGTA
* *
15941003 TTTATTTTATATTAAATATGTATAAAATATAAAATTATTGATT
1 TTTATTTT-TATTAAA-AT-T-TTAAATATAAAATAATT--TT
* * * * *
15941046 ATAATTTTTATTGATATATTAAATATAAAATAATTTT
1 TTTATTTTTATTAAAATTTTAAATATAAAATAATTTT
*
15941083 TTTATTTTTATTAAAATTTTAAAT-T-ATATAATTTT
1 TTTATTTTTATTAAAATTTTAAATATAAAATAATTTT
*
15941118 TATATTATATTATTA
1 TTTATT-T-TTATTA
15941133 TATCATGTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
35 14 0.20
36 2 0.03
37 27 0.38
39 15 0.21
41 2 0.03
42 5 0.07
43 6 0.08
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (37 bp):
TTTATTTTTATTAAAATTTTAAATATAAAATAATTTT
Found at i:15941485 original size:10 final size:8
Alignment explanation
Indices: 15941444--15941473 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
15941434 ACAGAAACCC
15941444 AAAAAATT
1 AAAAAATT
15941452 AAAAAATT
1 AAAAAATT
15941460 AAAAAATT
1 AAAAAATT
15941468 AAAAAA
1 AAAAAA
15941474 AATTGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAAATT
Found at i:15946420 original size:25 final size:25
Alignment explanation
Indices: 15946388--15946438 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15946378 CATTAAAATT
15946388 ATTTAAGATTAAATTTTAATCATTA
1 ATTTAAGATTAAATTTTAATCATTA
15946413 ATTTAAGATTAAATTTTAATCATTA
1 ATTTAAGATTAAATTTTAATCATTA
15946438 A
1 A
15946439 AATTAAGTTT
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:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTTAAGATTAAATTTTAATCATTA
Found at i:15951005 original size:20 final size:22
Alignment explanation
Indices: 15950965--15951007 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
15950955 GATTTAAAAT
*
15950965 TTTAATAATAATTATAAATATA
1 TTTAATAATAATTAAAAATATA
15950987 TTTAATAA-AA-TAAAAATATA
1 TTTAATAATAATTAAAAATATA
15951007 T
1 T
15951008 ATTTCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 2 0.10
22 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAATAATAATTAAAAATATA
Found at i:15951008 original size:22 final size:22
Alignment explanation
Indices: 15950965--15951011 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15950955 GATTTAAAAT
* *
15950965 TTTAATAATAATTATAAATATA
1 TTTAATAATAATAAAAAATATA
15950987 TTTAATAA-AATAAAAATATATA
1 TTTAATAATAATAAAAA-ATATA
15951009 TTT
1 TTT
15951012 CATATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAATAATAATAAAAAATATA
Found at i:15956255 original size:28 final size:28
Alignment explanation
Indices: 15956223--15956276 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
15956213 AATTAACATT
*
15956223 TTTAATTTTATTATTTACTTTTAATATG
1 TTTAATTTTATCATTTACTTTTAATATG
15956251 TTTAATTTTATCATTTACTTTTAATA
1 TTTAATTTTATCATTTACTTTTAATA
15956277 AACAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTAATTTTATCATTTACTTTTAATATG
Found at i:15956576 original size:12 final size:12
Alignment explanation
Indices: 15956559--15956592 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15956549 ACAAACTCGA
15956559 AAATATATATAT
1 AAATATATATAT
15956571 AAATATATATAT
1 AAATATATATAT
*
15956583 ATATAT-TATA
1 AAATATATATA
15956593 ATGATATTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATATATAT
Found at i:15957619 original size:26 final size:25
Alignment explanation
Indices: 15957568--15957616 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15957558 AGGGTATTTA
*
15957568 TTTTTTAATTAAAATCGAGGTTAAT
1 TTTTTTAATTAAAATCGAAGTTAAT
15957593 TTTTTTAAATTAAAATC-AAGTTAA
1 TTTTTT-AATTAAAATCGAAGTTAA
15957617 ATTGTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (25 bp):
TTTTTTAATTAAAATCGAAGTTAAT
Found at i:15959746 original size:7 final size:7
Alignment explanation
Indices: 15959734--15959761 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15959724 TATAACTAGC
15959734 GTTTGAA
1 GTTTGAA
15959741 GTTTGAA
1 GTTTGAA
15959748 GTTTGAA
1 GTTTGAA
15959755 GTTTGAA
1 GTTTGAA
15959762 ATGAGCTAAT
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:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
GTTTGAA
Found at i:15959987 original size:19 final size:17
Alignment explanation
Indices: 15959944--15959987 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
15959934 TAAGTTATTA
15959944 AATATTATTTAAAATAT
1 AATATTATTTAAAATAT
* *
15959961 ACTTTTATGTTAAAAATAT
1 AATATTAT-TT-AAAATAT
15959980 AATATTAT
1 AATATTAT
15959988 CCTCATTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 13 0.62
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
AATATTATTTAAAATAT
Found at i:15964033 original size:70 final size:72
Alignment explanation
Indices: 15963892--15964042 Score: 198
Period size: 70 Copynumber: 2.1 Consensus size: 72
15963882 TGATAATAAA
* * * * *
15963892 TAATTTTGAAAAATAATTTATTTTTCATATTTTTAACAAAAATTACATTTTTATTTTAAAATATT
1 TAATTATGAAAAATAATATATTTTTCATAATTTTAACAAAAATTACATTTTTATTTTAAAACATC
15963957 ATTTTTT
66 ATTTTTT
* *
15963964 TAATTATGAAAAAT-ATATATTTTTGA-AATTTTAACAAAAATTACTTTTTTATTTTAAAAACAT
1 TAATTATGAAAAATAATATATTTTTCATAATTTTAACAAAAATTACATTTTTATTTT-AAAACAT
15964027 CATTTTTAT
65 CATTTTT-T
15964036 TGAATTA
1 T-AATTA
15964043 AAATTTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
70 27 0.39
71 22 0.32
72 15 0.22
73 5 0.07
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (72 bp):
TAATTATGAAAAATAATATATTTTTCATAATTTTAACAAAAATTACATTTTTATTTTAAAACATC
ATTTTTT
Found at i:15964428 original size:21 final size:20
Alignment explanation
Indices: 15964380--15964434 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 20
15964370 AATTATTTTC
15964380 ATATTATTTTATAAAAAAT-
1 ATATTATTTTATAAAAAATA
*
15964399 -TATTATATTTTTAAGATAAATA
1 ATATTAT-TTTATAA-A-AAATA
*
15964421 ATATTATTATATAA
1 ATATTATTTTATAA
15964435 TTTCAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 1 0.04
21 4 0.14
22 5 0.18
23 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATTATTTTATAAAAAATA
Found at i:15977413 original size:12 final size:13
Alignment explanation
Indices: 15977386--15977410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15977376 TCTCCTTTCT
15977386 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
15977399 TTTTTTTTTCAA
1 TTTTTTTTTCAA
15977411 TTTATTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:15992087 original size:29 final size:29
Alignment explanation
Indices: 15992041--15992147 Score: 78
Period size: 31 Copynumber: 3.6 Consensus size: 29
15992031 ATAATAAGTT
*
15992041 ATAATATTAAAATTATTATATTCTAATTAAA
1 ATAATATTTAAA--ATTATATTCTAATTAAA
* * *
15992072 ATAATATTTAAGATTACAATTC-AA--ACA
1 ATAATATTTAAAATTA-TATTCTAATTAAA
* *
15992099 A-AATATTAAAAATTATGATATTGTAATTAAA
1 ATAATATTTAAAA-T-T-ATATTCTAATTAAA
15992130 ATAATATTTAAAATTATA
1 ATAATATTTAAAATTATA
15992148 CTAAAATACA
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
26 9 0.16
27 4 0.07
28 4 0.07
29 12 0.21
30 5 0.09
31 14 0.24
32 10 0.17
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (29 bp):
ATAATATTTAAAATTATATTCTAATTAAA
Found at i:15996229 original size:24 final size:24
Alignment explanation
Indices: 15996201--15996260 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
15996191 CAATTCACTT
15996201 ATATATATAAAAT-AAAAATAAAA
1 ATATATATAAAATAAAAAATAAAA
* *
15996224 ATTATATATGTAAATAAAAAATAAAG
1 A-TATATAT-AAAATAAAAAATAAAA
15996250 ATA-ATATAAAA
1 ATATATATAAAA
15996261 GTAAGAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 6 0.19
26 10 0.32
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (24 bp):
ATATATATAAAATAAAAAATAAAA
Found at i:15996237 original size:26 final size:26
Alignment explanation
Indices: 15996199--15996257 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
15996189 TTCAATTCAC
15996199 TTATATATATAAA-ATAAAAATAAAAA
1 TTATATATATAAATA-AAAAATAAAAA
* *
15996225 TTATATATGTAAATAAAAAATAAAGA
1 TTATATATATAAATAAAAAATAAAAA
*
15996251 TAATATA
1 TTATATA
15996258 AAAGTAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
TTATATATATAAATAAAAAATAAAAA
Found at i:15996339 original size:33 final size:33
Alignment explanation
Indices: 15996310--15996376 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
15996300 TTTAATTTTT
* * *
15996310 ATAGATATGTGAATTAATTTATATATAATTCAC
1 ATAGATATATAAATTAATTTATATATAATTTAC
* *
15996343 ATATATATATAAATTAATTTATATCTAATTTAC
1 ATAGATATATAAATTAATTTATATATAATTTAC
15996376 A
1 A
15996377 CATATATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (33 bp):
ATAGATATATAAATTAATTTATATATAATTTAC
Found at i:15996390 original size:35 final size:33
Alignment explanation
Indices: 15996321--15996402 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
15996311 TAGATATGTG
*
15996321 AATTAATTTATATATAATTCACATATATATATA
1 AATTAATTTATATATAATTCACATATATAAATA
*
15996354 AATTAATTTATATCTAATTTACACATATATAAATA
1 AATTAATTTATATATAA-TT-CACATATATAAATA
15996389 AA--AATTTTATATAT
1 AATTAA-TTTATATAT
15996403 TTGTGAATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 18 0.42
34 10 0.23
35 15 0.35
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (33 bp):
AATTAATTTATATATAATTCACATATATAAATA
Found at i:15998491 original size:120 final size:120
Alignment explanation
Indices: 15998293--15998695 Score: 395
Period size: 120 Copynumber: 3.3 Consensus size: 120
15998283 CCTTTTTTAA
* * * * **
15998293 AAATTTTTATTTCAAGAAAAATTGATACTTTCAACTTTTCTTTAAAATATTTCTTTTTTGATGAT
1 AAATTTTTATTTTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAA-A-TGC-TTTTTGAAAAT
* * *
15998358 TTTATCTTGAAGAAAATTTAATATTTTCAACTTTTCCTCAAAGATATTTTTT-TATTT
63 TTTATTTTTAAGAAAATTTAATATTTTCAACTTTTCCTCAAAGATATTTTTTATATTG
** * * *
15998415 TTATTTTTATTCTAAAAAAAAATTGATACTTTTAACTTTTCCTTAAAAACGCTTTTTGAAAATTT
1 AAATTTTTATT-TTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAATGCTTTTTGAAAATTT
* * * *
15998480 TATTTTTAAGAAAAAATTGATACTTTCAACTTTTCCTC-AAGATATTTTTTAGAATTG
65 TATTTTTAAG-AAAATTTAATATTTTCAACTTTTCCTCAAAGATATTTTTTA-TATTG
* ** * * * *
15998537 AAAATTTTATTTTCGAGAAAATTGATACTTTCAACTTTTCCTCAAAAATGC-TTTTAAAAATTTC
1 AAATTTTTATTTTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAATGCTTTTTGAAAATTTT
* * * * *
15998601 GTTTTTAAGGAAAATTGACA-CTTTT-AATTTTTTCTCAAA-ATATTTTTTATAATTG
66 ATTTTTAA-GAAAATTTA-ATATTTTCAACTTTTCCTCAAAGATATTTTTTAT-ATTG
*
15998656 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT
1 AAATTTTTA-TTTTAAAAAAAATTGATACTTTCAACTTTT
15998696 TCTCAAGAAT
Statistics
Matches: 229, Mismatches: 43, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
119 31 0.14
120 85 0.37
121 60 0.26
122 21 0.09
123 32 0.14
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (120 bp):
AAATTTTTATTTTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAATGCTTTTTGAAAATTTT
ATTTTTAAGAAAATTTAATATTTTCAACTTTTCCTCAAAGATATTTTTTATATTG
Found at i:15998649 original size:57 final size:60
Alignment explanation
Indices: 15998474--15998709 Score: 207
Period size: 63 Copynumber: 3.9 Consensus size: 60
15998464 CGCTTTTTGA
* * * *
15998474 AAATTTT-ATTTTTAAGAAAAAATTGATACTTTCAACTTTTCCTCAAGATATTTTTTAGAATT
1 AAATTTTCATTTTTAAG-GAAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTATAA-T
** * *
15998536 GAAAATTTT-ATTTTCGA-GAAAATTGATACTTTCAACTTTTCCTCAAAA-ATGCTTT-TAA-
1 --AAATTTTCATTTTTAAGGAAAATTGATACTTTCAACTTTTTCTCAAAATAT-TTTTATAAT
* * * *
15998594 AAA-TTTCGTTTTTAAGGAAAATTGACACTTTTAATTTTTTCTCAAAATATTTTTTATAATT
1 AAATTTTCATTTTTAAGGAAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTATAA-T
* *
15998655 GAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAGAATATTT
1 -AAATTTTCATTTTTAAGGAAAATTGATACTTTCAACTTTTTCTCAA-AATATTT
15998710 CTTTTTTTTT
Statistics
Matches: 141, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
55 3 0.02
56 8 0.06
57 27 0.19
58 4 0.03
59 4 0.03
60 3 0.02
61 4 0.03
62 32 0.23
63 39 0.28
64 17 0.12
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (60 bp):
AAATTTTCATTTTTAAGGAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTATAAT
Found at i:15998745 original size:65 final size:63
Alignment explanation
Indices: 15998293--15998760 Score: 332
Period size: 62 Copynumber: 7.6 Consensus size: 63
15998283 CCTTTTTTAA
* *
15998293 AAATTTTTA-TTTCAAGAAAAATTGATACTTTCAAC-TTTTCTTTAAAATATTTCTTT-T--TTG
1 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAATATTT-TTTATAATTG
* * * * * * * *
15998353 ATGA-TTTTATCTTGAAGAAAATTTAATATTTTCAACTTTTCCTCAAAGATATTTTTT-T-ATTT
1 A-AATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAA-ATATTTTTTATAATTG
** * * * * * * ***
15998415 TTATTTTTATTCTAAAAAAAAATTGATACTTTTAACTTTTCCTTAAAA-A-CGCTT-T--TTG
1 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTATAATTG
* * * *
15998473 AAAATTTTATTTTTAAGAAAAAATTGATACTTTCAACTTTTCCTCAAGATATTTTTTAGAATTG
1 AAATTTTTATTTTTAAG-AAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTATAATTG
* ** * **
15998537 AAAATTTTATTTTCGAG-AAAATTGATACTTTCAACTTTTCCTCAAAA-ATGCTTT-TAA---
1 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTATAATTG
** * * * *
15998594 AAA-TTTCGTTTTTAAGGAAAATTGACACTTTTAATTTTTTCTCAAAATATTTTTTATAATTG
1 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTATAATTG
* **
15998656 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAGAATATTTCTTTTTTTTTT
1 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAA-AATA-TT-TTTTATAATT
15998721 G
63 G
*
15998722 CAAA-TTTTA-TTTTAAGAAAAATTGATACCTTCAACTTTT
1 -AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT
15998761 CCTTAAAAAA
Statistics
Matches: 322, Mismatches: 63, Indels: 41
0.76 0.15 0.10
Matches are distributed among these distances:
56 9 0.03
57 29 0.09
58 18 0.06
59 34 0.11
60 10 0.03
61 39 0.12
62 78 0.24
63 36 0.11
64 22 0.07
65 31 0.10
66 13 0.04
67 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.49
Consensus pattern (63 bp):
AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTATAATTG
Found at i:16000078 original size:86 final size:85
Alignment explanation
Indices: 15999931--16000246 Score: 346
Period size: 86 Copynumber: 3.7 Consensus size: 85
15999921 ACTAAATAAA
* * * * *
15999931 GATCTAGCATAGGCCGAAATCCAAAACAAAATGACCTGGATTGAATCGAAGTTTGAAATAAACAA
1 GATCTAGCATAGGTCGAAATCAAAAACAAAATGACCTGGATTGAACCAAAGTCTGAAATAAACAA
* *
15999996 CTTGGACTGA-ATCAAAGAAG
66 CTTGGACTGAGCT-GAAGAAG
* * * *
16000016 GATCTAGCATAGGTTGAAATCTAAAAATAAAATGACTTGGATTGAACCAAAGTCTGAAATAAATA
1 GATCTAGCATAGGTCGAAATC-AAAAACAAAATGACCTGGATTGAACCAAAGTCTGAAATAAACA
*
16000081 AGTTGGACTGAGCTGAAGAAG
65 ACTTGGACTGAGCTGAAGAAG
* * * * * *
16000102 AATCTAGCATAGGTCGAAACCCAAAAATAAAATGACCTGGATTGAACCGAAGTTTGAAATACACA
1 GATCTAGCATAGGTCGAAA-TCAAAAACAAAATGACCTGGATTGAACCAAAGTCTGAAATAAACA
* * *
16000167 ATTTGGATTGAGCTGAAGAAT
65 ACTTGGACTGAGCTGAAGAAG
* * * * * * *
16000188 GATCTGGCATAAGTCAAAATCCAAAACAAAATGACTTGGACTGAATCAAAGTCTGAAAT
1 GATCTAGCATAGGTCGAAATCAAAAACAAAATGACCTGGATTGAACCAAAGTCTGAAAT
16000247 GAATAATTTA
Statistics
Matches: 193, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
85 51 0.26
86 140 0.73
87 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (85 bp):
GATCTAGCATAGGTCGAAATCAAAAACAAAATGACCTGGATTGAACCAAAGTCTGAAATAAACAA
CTTGGACTGAGCTGAAGAAG
Found at i:16000240 original size:171 final size:171
Alignment explanation
Indices: 15999932--16000252 Score: 439
Period size: 172 Copynumber: 1.9 Consensus size: 171
15999922 CTAAATAAAG
* *
15999932 ATCTAGCATAGGCCGAAATCCAAAACAAAATGACCTGGATTGAATCGAAGTTTGAAATAAACAAC
1 ATCTAGCATAGGCCGAAACCCAAAACAAAATGACCTGGATTGAACCGAAGTTTGAAATAAACAAC
* ** * *
15999997 TTGGACTGAATCAAAGAAGGATCTAGCATAGGTTGAAATCTAAAAATAAAATGACTTGGATTGAA
66 TTGGACTGAATCAAAGAAGGATCTAGCATAAGTCAAAATCTAAAAACAAAATGACTTGGACTGAA
16000062 CCAAAGTCTGAAATAAATAAGTTGGACTGAGCTGAAGAAGA
131 CCAAAGTCTGAAATAAATAAGTTGGACTGAGCTGAAGAAGA
* * *
16000103 ATCTAGCATAGGTCGAAACCCAAAAATAAAATGACCTGGATTGAACCGAAGTTTGAAATACACAA
1 ATCTAGCATAGGCCGAAACCC-AAAACAAAATGACCTGGATTGAACCGAAGTTTGAAATAAACAA
* * * * * * *
16000168 TTTGGATTG-AGCTGAAGAATGATCTGGCATAAGTCAAAATC-CAAAACAAAATGACTTGGACTG
65 CTTGGACTGAATC-AAAGAAGGATCTAGCATAAGTCAAAATCTAAAAACAAAATGACTTGGACTG
* *
16000231 AATCAAAGTCTGAAATGAATAA
129 AACCAAAGTCTGAAATAAATAA
16000253 TTTAGACTAA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
171 60 0.47
172 69 0.53
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (171 bp):
ATCTAGCATAGGCCGAAACCCAAAACAAAATGACCTGGATTGAACCGAAGTTTGAAATAAACAAC
TTGGACTGAATCAAAGAAGGATCTAGCATAAGTCAAAATCTAAAAACAAAATGACTTGGACTGAA
CCAAAGTCTGAAATAAATAAGTTGGACTGAGCTGAAGAAGA
Found at i:16008267 original size:15 final size:15
Alignment explanation
Indices: 16008243--16008279 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
16008233 TTATTTTGTT
*
16008243 AAATGAAATGAATGA
1 AAATGCAATGAATGA
*
16008258 GAATGCAATGAATGA
1 AAATGCAATGAATGA
16008273 AAATGCA
1 AAATGCA
16008280 TGCATGTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.19
Consensus pattern (15 bp):
AAATGCAATGAATGA
Found at i:16010453 original size:4 final size:4
Alignment explanation
Indices: 16010444--16010469 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16010434 AAGGGAAACA
16010444 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
16010470 AACATCACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:16011539 original size:16 final size:15
Alignment explanation
Indices: 16011520--16011552 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
16011510 ACTTTTCATC
16011520 AAAAATATT-TTTTTT
1 AAAAA-ATTCTTTTTT
16011535 AAAAAATTCTTTTTT
1 AAAAAATTCTTTTTT
16011550 AAA
1 AAA
16011553 GAAAATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
AAAAAATTCTTTTTT
Found at i:16011802 original size:126 final size:123
Alignment explanation
Indices: 16011586--16012064 Score: 446
Period size: 118 Copynumber: 3.9 Consensus size: 123
16011576 AAATCCTTTT
** * * *
16011586 TTGAAAATTTTATT-TCAATTAAAATTGATACTTTCAACTTTTCTTTAAAATATTTCTTTTTTGA
1 TTGAAAATTTTATTCTCAAAGAAAATTGATACTTTCAATTTTTCTTCAAAA-A-TGC--TTTTGA
** * *
16011650 CGATTTTATTTTGAAGAAAAATTGATATTTTCAACTTTTCCTCAAAGATATTTTTTTTGAAAAA
62 AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAGATATTTTTTTT--AAAA
***
16011714 TT-TTTATGTTTATTCTCAAAGAAAATTGATACTTTCAATTTTTCTTCAAAAATGCTCTTTGAAA
1 TTGAAAAT-TTTATTCTCAAAGAAAATTGATACTTTCAATTTTTCTTCAAAAATGCT-TTTGAAA
*
16011778 ATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAGATA--TTTTTTAGAA
64 ATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAGATATTTTTTTTAAAA
* * * * *
16011835 TTGAAAATTTTATTTTCGAGGAAAATTGATACTTTTAACTTTTTC-TCAAAAATGCTTTTCAAAA
1 TTGAAAATTTTATTCTCAAAGAAAATTGATACTTTCAA-TTTTTCTTCAAAAATGCTTTTGAAAA
* * * *
16011899 TTTCA-TTTTAAG-AAAATTGATACTTTCAATTTTTCCTCAAA-ATA--TTTTCTATAA
65 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAGATATTTTTTTTAAAA
* * * **
16011953 TTGAAAATTTTATT-T-TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATATTTT
1 TTGAAAATTTTATTCTCAAAG-AAAATTGATACTTTCAATTTTTCTTC---AA-A-A-ATGCTTT
* *
16012016 TTAGAAATTTTA-TTTTAAGAAAAATTGATACCTTCAACTTTTCCTCAAA
59 TGA-AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAA
16012065 AAAAAAATTA
Statistics
Matches: 300, Mismatches: 35, Indels: 35
0.81 0.09 0.09
Matches are distributed among these distances:
116 7 0.02
117 19 0.06
118 50 0.17
119 9 0.03
120 13 0.04
121 43 0.14
122 9 0.03
123 13 0.04
124 14 0.05
125 34 0.11
126 44 0.15
127 4 0.01
128 9 0.03
129 32 0.11
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (123 bp):
TTGAAAATTTTATTCTCAAAGAAAATTGATACTTTCAATTTTTCTTCAAAAATGCTTTTGAAAAT
TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAGATATTTTTTTTAAAA
Found at i:16011866 original size:63 final size:59
Alignment explanation
Indices: 16011586--16012064 Score: 377
Period size: 63 Copynumber: 7.8 Consensus size: 59
16011576 AAATCCTTTT
* ** * * *
16011586 TTGAAAATTTTATTTCAATTAAAATTGATACTTTCAACTTTTCTTTAAAATATTTCTTT-T
1 TTGAAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTC-CTCAAATATTT-TTTAA
** *
16011646 TTGACGATTTTATTTTGAAGAAAAATTGATATTTTCAACTTTTCCTCAAAGATATTTTTT--
1 TTGAAAATTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTC-AA-ATATTTTTTAA
* * * * ** *
16011706 TTGAAAAATTTTTATGTTTATTCTCAAAGAAAATTGATACTTTCAATTTTTCTTCAAAAATGCTC
1 TTG-AAAA-TTTTAT-TTTA-----AGA-AAAATTGATACTTTCAACTTTTCCTCAAATATTTTT
16011771 T--
57 TAA
16011772 TTGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAGATATTTTTTAGAA
1 TTGAAAATTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAA-ATATTTTTT--AA
* * * * * **
16011835 TTGAAAATTTTATTTTCGAGGAAAATTGATACTTTTAACTTTTTCTCAAA-AATGCTT--
1 TTGAAAATTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAATATTTTTTAA
* * *
16011892 TTCAAAATTTCATTTTAAG-AAAATTGATACTTTCAATTTTTCCTCAAAATATTTTCTATAA
1 TTGAAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAATATTTT-T-TAA
16011953 TTGAAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATATTT--
1 TTGAAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTC--AAATAT-T-T-TTTAA
* *
16012015 TTTAGAAATTTTATTTTAAGAAAAATTGATACCTTCAACTTTTCCTCAAA
1 TTGA-AAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAA
16012065 AAAAAAATTA
Statistics
Matches: 342, Mismatches: 46, Indels: 61
0.76 0.10 0.14
Matches are distributed among these distances:
55 23 0.07
56 5 0.01
57 16 0.05
58 27 0.08
59 8 0.02
60 17 0.05
61 55 0.16
62 46 0.13
63 91 0.27
64 11 0.03
65 7 0.02
66 9 0.03
67 4 0.01
68 23 0.07
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (59 bp):
TTGAAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAATATTTTTTAA
Found at i:16012042 original size:180 final size:176
Alignment explanation
Indices: 16011732--16012066 Score: 451
Period size: 180 Copynumber: 1.9 Consensus size: 176
16011722 TTTATTCTCA
* *
16011732 AAGAAAATTGATACTTTCAATTTTTCTTCAAAAATGCTCTTTGAAAATTTTATTTTTAAGAAAAA
1 AAGAAAATTGATACTTTCAATTTTTCCTCAAAAATGCTATTTGAAAATTTTATTTTTAAGAAAAA
* * * * *
16011797 TTGATACTTTCAACTTTTCCTCAAGATATTTTTTAGAATTGAAAATTTTATTTTCGAGGAAAATT
66 TTGATACTTTCAACTTTTCCTCAAAATATTATATAGAATTGAAAATTTTATTTTCAAGAAAAATT
* * *
16011862 GATACTTTTAACTTTTTCTCAAAAATGCTTTTCAAAATTTCATTTT
131 GATACCTTCAACTTTTCCTCAAAAATGCTTTTCAAAATTTCATTTT
*
16011908 AAGAAAATTGATACTTTCAATTTTTCCTCAAAATATTTTCTATAATTGAAAATTTTA-TTTTAAG
1 AAGAAAATTGATACTTTCAATTTTTCCTCAAAA-A--TGCTAT--TTGAAAATTTTATTTTTAAG
*** *
16011972 AAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATATATATTTTTTAGAAATTTTATTTT-AAG
61 AAAAATTGATACTTTCAACTTTTCCTCAAAATAT-TATATAGAATTGA-AAATTTTATTTTCAAG
16012035 AAAAATTGATACCTTCAACTTTTCCTCAAAAA
124 AAAAATTGATACCTTCAACTTTTCCTCAAAAA
16012067 AAAAATTAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
176 32 0.23
177 1 0.01
179 6 0.04
180 74 0.54
181 24 0.18
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.44
Consensus pattern (176 bp):
AAGAAAATTGATACTTTCAATTTTTCCTCAAAAATGCTATTTGAAAATTTTATTTTTAAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAATATTATATAGAATTGAAAATTTTATTTTCAAGAAAAATT
GATACCTTCAACTTTTCCTCAAAAATGCTTTTCAAAATTTCATTTT
Found at i:16013378 original size:15 final size:15
Alignment explanation
Indices: 16013358--16013391 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16013348 AAAGGATTCA
16013358 AAAGGAAACCCATTT
1 AAAGGAAACCCATTT
*
16013373 AAAGGAAACCCTTTT
1 AAAGGAAACCCATTT
16013388 AAAG
1 AAAG
16013392 AGCTAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (15 bp):
AAAGGAAACCCATTT
Found at i:16013540 original size:22 final size:22
Alignment explanation
Indices: 16013509--16013551 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
16013499 TCCAATTTTT
*
16013509 AAAAATAAAAAAATCCTTTCAA
1 AAAAAAAAAAAAATCCTTTCAA
16013531 AAAAAAAAAAAAATCCTTTCA
1 AAAAAAAAAAAAATCCTTTCA
16013552 TAAATCATGT
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:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAAAAAAAAATCCTTTCAA
Found at i:16024870 original size:29 final size:28
Alignment explanation
Indices: 16024792--16024894 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 28
16024782 GAATTTCTTT
*
16024792 TTAAAAATTTAAAAAAATTAATGTAAGTATAA
1 TTAAAAA-TT-AAAAAATT-AT-TAAATATAA
**
16024824 TT-AAAATTAAAATTTTATTAAATCATAA
1 TTAAAAATTAAAAAATTATTAAAT-ATAA
16024852 TTAAAAATTAAAAAATTATTTAAATA-AGA
1 TTAAAAATTAAAAAATTA-TTAAATATA-A
16024881 -TAAAAATATAAAAA
1 TTAAAAAT-TAAAAA
16024895 TTTTCCTTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
27 4 0.07
28 16 0.26
29 27 0.44
30 8 0.13
31 4 0.07
32 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
TTAAAAATTAAAAAATTATTAAATATAA
Found at i:16025590 original size:11 final size:11
Alignment explanation
Indices: 16025556--16025603 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
16025546 TGATAATCTA
16025556 AAATATAATAT
1 AAATATAATAT
*
16025567 AGTAATATGATAT
1 A--AATATAATAT
16025580 AAATATAATAT
1 AAATATAATAT
* *
16025591 AAAAATAAAAT
1 AAATATAATAT
16025602 AA
1 AA
16025604 GAAAATAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
13 10 0.32
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (11 bp):
AAATATAATAT
Found at i:16032139 original size:2 final size:2
Alignment explanation
Indices: 16032120--16032153 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
16032110 GCTTTAATTC
* *
16032120 AT AT AA AT AT AA 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 AT
16032154 TATTCCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:16034949 original size:13 final size:15
Alignment explanation
Indices: 16034925--16034958 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
16034915 ATTTTATCTC
16034925 TTTTTAAGATTTTT-
1 TTTTTAAGATTTTTA
16034939 TTTTTAA-ATTTTTA
1 TTTTTAAGATTTTTA
16034953 TTTTTA
1 TTTTTA
16034959 TTAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTAAGATTTTTA
Found at i:16039579 original size:102 final size:103
Alignment explanation
Indices: 16039379--16039583 Score: 376
Period size: 102 Copynumber: 2.0 Consensus size: 103
16039369 AACTGATTGA
* *
16039379 AGGTCCTTGAGAGCAAAGCTAGGCATACATTAACGAATTGTTCGAACTGCTAAGAAACTAATTAA
1 AGGTCCTTGAGAGCAAAGCTAGGCATACATTAACGAATTGTTCCAACCGCTAAGAAACTAATTAA
*
16039444 ATCCGGAATTTCATAGTGATGATTATAAGCAGGCACAT
66 ATCCGGAATTTCATAGTGATGATTATAAACAGGCACAT
16039482 AGGTCCTTGAGAGCAAAGCTAGGCATACATTAACGAATTGTTCCAACCGCT-AGAAACTAATTAA
1 AGGTCCTTGAGAGCAAAGCTAGGCATACATTAACGAATTGTTCCAACCGCTAAGAAACTAATTAA
16039546 ATCCGGAATTTCATAGTGATGATTATAAACAGGCACAT
66 ATCCGGAATTTCATAGTGATGATTATAAACAGGCACAT
16039584 CATCAATGGG
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 50 0.51
103 49 0.49
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (103 bp):
AGGTCCTTGAGAGCAAAGCTAGGCATACATTAACGAATTGTTCCAACCGCTAAGAAACTAATTAA
ATCCGGAATTTCATAGTGATGATTATAAACAGGCACAT
Found at i:16044353 original size:26 final size:26
Alignment explanation
Indices: 16044323--16044373 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16044313 AAAGATGTCA
16044323 GAAAAAGAAAATCCCAGACTAGATGG
1 GAAAAAGAAAATCCCAGACTAGATGG
*
16044349 GAAAAAGAAAATCCTAGACTAGATG
1 GAAAAAGAAAATCCCAGACTAGATG
16044374 TAGCCCAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (26 bp):
GAAAAAGAAAATCCCAGACTAGATGG
Found at i:16046429 original size:79 final size:79
Alignment explanation
Indices: 16046298--16046453 Score: 294
Period size: 79 Copynumber: 2.0 Consensus size: 79
16046288 AGAAAGTCCG
* *
16046298 TGTTATGCTCCCATTTCATCATGTTAGAGGAGTTATAATGGTTCAGTCATACAAGGGATGAATTT
1 TGTTATGCTCCCATTTCATCATGTTAGAGGAGTTACAAGGGTTCAGTCATACAAGGGATGAATTT
16046363 TGAGTGTGTATGCA
66 TGAGTGTGTATGCA
16046377 TGTTATGCTCCCATTTCATCATGTTAGAGGAGTTACAAGGGTTCAGTCATACAAGGGATGAATTT
1 TGTTATGCTCCCATTTCATCATGTTAGAGGAGTTACAAGGGTTCAGTCATACAAGGGATGAATTT
16046442 TGAGTGTGTATG
66 TGAGTGTGTATG
16046454 AGTGTGTGCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (79 bp):
TGTTATGCTCCCATTTCATCATGTTAGAGGAGTTACAAGGGTTCAGTCATACAAGGGATGAATTT
TGAGTGTGTATGCA
Found at i:16049615 original size:5 final size:5
Alignment explanation
Indices: 16049606--16049644 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
16049596 CTTTAAAAAA
* * *
16049606 CTTTC TTTTC CATTC TTTTC CTTTC CTTTC CTTTC CTTT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
16049645 ATTAATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (5 bp):
CTTTC
Found at i:16051862 original size:7 final size:7
Alignment explanation
Indices: 16051850--16051874 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16051840 CCGAAAGACT
16051850 AAAAGAA
1 AAAAGAA
16051857 AAAAGAA
1 AAAAGAA
16051864 AAAAGAA
1 AAAAGAA
16051871 AAAA
1 AAAA
16051875 AAACATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:16055052 original size:12 final size:12
Alignment explanation
Indices: 16055015--16055057 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
16055005 TCCGAACGGA
16055015 GGTGATGATGAT
1 GGTGATGATGAT
* *
16055027 GGTCATGATCAT
1 GGTGATGATGAT
*
16055039 GGTGATGTTGAT
1 GGTGATGATGAT
16055051 GGTGATG
1 GGTGATG
16055058 GTGGTGGTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.21, C:0.05, G:0.40, T:0.35
Consensus pattern (12 bp):
GGTGATGATGAT
Found at i:16057070 original size:55 final size:55
Alignment explanation
Indices: 16056977--16057137 Score: 160
Period size: 55 Copynumber: 2.9 Consensus size: 55
16056967 TAAATAAATT
* ** * * * * **
16056977 AAAAGATTATTTAAGGTATTTTTGTTGAAAATTGTCTTAAATAATCTTTTTTTAA
1 AAAAGATTATTTAAAGTATTTTTAATAAAAAATATCTTAAATAATCTTTATAAAA
* *
16057032 TAAAGATTATTTAAAGTATTTTTAATCAAAAATATCTTAAATAATCTTTATAAAA
1 AAAAGATTATTTAAAGTATTTTTAATAAAAAATATCTTAAATAATCTTTATAAAA
* * * *
16057087 AAATAAATTATTTAAAATATTTTTTAATAAAAAAACACCTTAAATAATCTT
1 AAA-AGATTATTTAAAGTA-TTTTTAAT-AAAAAATATCTTAAATAATCTT
16057138 ATTATATTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
55 47 0.54
56 13 0.15
57 8 0.09
58 19 0.22
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (55 bp):
AAAAGATTATTTAAAGTATTTTTAATAAAAAATATCTTAAATAATCTTTATAAAA
Found at i:16057154 original size:34 final size:33
Alignment explanation
Indices: 16057116--16057184 Score: 97
Period size: 31 Copynumber: 2.1 Consensus size: 33
16057106 TTTTTTAATA
*
16057116 AAAAAACACCTTAAATAATCTTATTATAT-TTTTT
1 AAAAAA-A-CTTAAATAATCCTATTATATATTTTT
16057150 -AAAAAACTTAAATAATCCTATTATATATTTTT
1 AAAAAAACTTAAATAATCCTATTATATATTTTT
16057182 AAA
1 AAA
16057185 GAAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 19 0.59
32 6 0.19
33 7 0.22
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (33 bp):
AAAAAAACTTAAATAATCCTATTATATATTTTT
Found at i:16057162 original size:31 final size:32
Alignment explanation
Indices: 16057125--16057184 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
16057115 AAAAAAACAC
*
16057125 CTTAAATAATCTTATTATAT-TTTTTAAAAAA
1 CTTAAATAATCCTATTATATATTTTTAAAAAA
16057156 CTTAAATAATCCTATTATATATTTTTAAA
1 CTTAAATAATCCTATTATATATTTTTAAA
16057185 GAAATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.48
Consensus pattern (32 bp):
CTTAAATAATCCTATTATATATTTTTAAAAAA
Found at i:16060555 original size:56 final size:56
Alignment explanation
Indices: 16060487--16060593 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 56
16060477 ATTTGTAGAG
16060487 ATAGATACATACATTCAATGTGAACCA-CTTGGAAATCGCATTCATCATATATTTGT
1 ATAGATACATACATTCAATGTGAACCATC-TGGAAATCGCATTCATCATATATTTGT
* *
16060543 ATAGATACATACATTCAATGTGAAGCATCTGGAAATGGCATTCATCATATA
1 ATAGATACATACATTCAATGTGAACCATCTGGAAATCGCATTCATCATATA
16060594 AAAGATTACA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
56 47 0.98
57 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (56 bp):
ATAGATACATACATTCAATGTGAACCATCTGGAAATCGCATTCATCATATATTTGT
Found at i:16065568 original size:29 final size:29
Alignment explanation
Indices: 16065519--16065579 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
16065509 TATTAAATTT
*
16065519 AAAATAAATTAATACAATTTATTAAAATAA
1 AAAATAAATTAATACAATTTAGTAAAA-AA
*
16065549 AAAATAAATTAAGT-C-TTTTAGTAAAAAA
1 AAAATAAATTAA-TACAATTTAGTAAAAAA
16065577 AAA
1 AAA
16065580 CACTGGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.18
29 9 0.32
30 13 0.46
31 1 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAATAAATTAATACAATTTAGTAAAAAA
Found at i:16065687 original size:36 final size:36
Alignment explanation
Indices: 16065646--16065716 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
16065636 TTTTGTACTT
* *
16065646 TAATTTACAGCTGCAATTCTTTCACGCTTGTACGAC
1 TAATTTACAGCTACAATTCTTTCACACTTGTACGAC
*
16065682 TAATTTACAGCTACAATTCTTTCATACTTGTACGA
1 TAATTTACAGCTACAATTCTTTCACACTTGTACGA
16065717 ATAGTCTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (36 bp):
TAATTTACAGCTACAATTCTTTCACACTTGTACGAC
Found at i:16066202 original size:15 final size:16
Alignment explanation
Indices: 16066174--16066223 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
16066164 TGCTACAATC
*
16066174 AATAATGTAT-TAAAT
1 AATAATTTATATAAAT
16066189 AATAATTT-TATAAAT
1 AATAATTTATATAAAT
* *
16066204 ATTTATTTCATATAAAT
1 AATAATTT-ATATAAAT
16066221 AAT
1 AAT
16066224 TGACAGATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.04
15 18 0.64
17 9 0.32
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
AATAATTTATATAAAT
Found at i:16067416 original size:28 final size:27
Alignment explanation
Indices: 16067347--16067424 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 27
16067337 AAATTAAATT
16067347 AATTTAAT-T-TATATAATTA-TTTTAA
1 AATTTAATATCTA-ATAATTATTTTTAA
16067372 AATTTAATATCTAATAAGTTTATTTTTAA
1 AATTTAATATCTAATAA--TTATTTTTAA
* *
16067401 ATTTTAATAT-TTATAATTATTTTT
1 AATTTAATATCTAATAATTATTTTT
16067425 TTTTTTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
25 8 0.17
26 13 0.28
27 2 0.04
28 8 0.17
29 15 0.33
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (27 bp):
AATTTAATATCTAATAATTATTTTTAA
Found at i:16068305 original size:5 final size:5
Alignment explanation
Indices: 16068295--16068319 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16068285 TTTTTTAGTA
16068295 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
16068320 TTATTGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:16085927 original size:2 final size:2
Alignment explanation
Indices: 16085920--16085945 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16085910 TTCATAATTC
16085920 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
16085946 GAAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16086607 original size:17 final size:18
Alignment explanation
Indices: 16086587--16086627 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
16086577 TAATATATTT
*
16086587 TAAAATATAATATTT-AA
1 TAAAATATAAAATTTAAA
*
16086604 T-AAATTTAAAATTTAAA
1 TAAAATATAAAATTTAAA
16086621 TAAAATA
1 TAAAATA
16086628 CTTACATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATATAAAATTTAAA
Found at i:16089571 original size:59 final size:56
Alignment explanation
Indices: 16089472--16089932 Score: 491
Period size: 59 Copynumber: 7.7 Consensus size: 56
16089462 TTTTTTGTAG
* *
16089472 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTG-AAATTT--ATTTCT-AA
* *
16089531 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TTTTTTTTG-AAATTTATTTCTAA
*
16089590 GGAAAATTGATAC-TTCAACTTTTCCCCAAAAATATATTTTTTTGAAATTTTGCATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAA-AT-TTTTTTTGAAA-TTT--A-TTTCTAA
16089652 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTTGGAAATTTATTTTTCTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCC--AAA-A-A-TTTTTTTT-GAAATTTA--TTTC---T
16089717 AA
55 AA
* *
16089719 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATTTTTTTT-GAAATTTATTTCTAA
* *
16089778 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT---TTTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGAAATTTATTTCTAA
*
16089832 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTG-AAATTTATTTCTAA
*
16089890 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-T-TTTTTT
16089933 TTTTGGAATT
Statistics
Matches: 358, Mismatches: 18, Indels: 52
0.84 0.04 0.12
Matches are distributed among these distances:
54 52 0.15
57 2 0.01
58 71 0.20
59 100 0.28
60 2 0.01
61 15 0.04
62 23 0.06
63 15 0.04
64 24 0.07
65 16 0.04
66 8 0.02
67 30 0.08
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (56 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTATTTCTAA
Found at i:16089904 original size:112 final size:114
Alignment explanation
Indices: 16089718--16089936 Score: 374
Period size: 112 Copynumber: 1.9 Consensus size: 114
16089708 TTTTCTTTTA
*
16089718 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGAGGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTAAGGAAA
16089783 ATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTTTTATTTCTG
66 ATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTTTATTTCTG
16089831 AGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA-TTTTTTT-GAAAATTTATTTCTAAGGA
1 AGGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTAAGGA
*
16089893 AAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTT
64 AAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTTT
16089937 GGAATTTTTT
Statistics
Matches: 101, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
111 1 0.01
112 55 0.54
113 38 0.38
114 7 0.07
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (114 bp):
AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTTTATTTCTG
Found at i:16090420 original size:20 final size:20
Alignment explanation
Indices: 16090395--16090432 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16090385 GAACACCGGT
*
16090395 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
16090415 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
16090433 CACCGGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:16090438 original size:19 final size:20
Alignment explanation
Indices: 16090396--16090440 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
16090386 AACACCGGTG
* *
16090396 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
16090416 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
16090435 CCGGAA
1 CCGGAA
16090441 GTTGGTCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:16090508 original size:31 final size:31
Alignment explanation
Indices: 16090473--16090544 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
16090463 TCTGGGATTC
* ** *
16090473 TTCGCCGGAAACTTCAATGTTGGCCGGAATT
1 TTCGCCGGAAAATTCAAACTTCGCCGGAATT
16090504 TTCGCCGGAAAATTCAAACTTCGCCGGAATT
1 TTCGCCGGAAAATTCAAACTTCGCCGGAATT
*
16090535 TTCGTCGGAA
1 TTCGCCGGAA
16090545 TCTGGAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (31 bp):
TTCGCCGGAAAATTCAAACTTCGCCGGAATT
Found at i:16090592 original size:26 final size:24
Alignment explanation
Indices: 16090553--16090606 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
16090543 AATCTGGAAA
*
16090553 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
16090578 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
16090603 TTTC
1 TTTC
16090607 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:16093571 original size:28 final size:27
Alignment explanation
Indices: 16093504--16093573 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
16093494 ATTTTATCGT
*
16093504 TTTATTTAAATAAATTTTTATATTTTA
1 TTTATCTAAATAAATTTTTATATTTTA
* *
16093531 TTATACCTCAATAAATTTTTAT-TTTTAA
1 TT-TATCTAAATAAATTTTTATATTTT-A
16093559 TGTTATCTAAATAAA
1 T-TTATCTAAATAAA
16093574 CTCTTGCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.17
28 28 0.80
29 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (27 bp):
TTTATCTAAATAAATTTTTATATTTTA
Found at i:16099077 original size:21 final size:21
Alignment explanation
Indices: 16099053--16099092 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16099043 TATATTAGAT
* *
16099053 ATTATCCAAATTTAAATTTTG
1 ATTATCAAAATTAAAATTTTG
*
16099074 ATTATTAAAATTAAAATTT
1 ATTATCAAAATTAAAATTT
16099093 AATATTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTATCAAAATTAAAATTTTG
Found at i:16101062 original size:70 final size:70
Alignment explanation
Indices: 16100949--16101087 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 70
16100939 TCTAAGCAAA
* *
16100949 TAAGTCTACAAATAAGTTACAACAAACCAACAACAATATATATGTTGCCTTCACATATTATGTCT
1 TAAGTCCACAAATAAGTTACAACAAACCAACAACAATACATATGTTGCCTTCACATATTATGTCT
16101014 TCAAC
66 TCAAC
*
16101019 TAAGTCCACAAATAAGTTACAACAAACCTAA-AACAATACATATGTTGCCTTTACATATTATGTC
1 TAAGTCCACAAATAAGTTACAACAAACC-AACAACAATACATATGTTGCCTTCACATATTATGTC
16101083 TTCAA
65 TTCAA
16101088 ATGAACATTG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 63 0.97
71 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (70 bp):
TAAGTCCACAAATAAGTTACAACAAACCAACAACAATACATATGTTGCCTTCACATATTATGTCT
TCAAC
Found at i:16104041 original size:30 final size:30
Alignment explanation
Indices: 16104005--16104066 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
16103995 CTAAGATCTA
* *
16104005 AATTGATCCTATACATGCAGTAACTAAAAC
1 AATTGATCATACACATGCAGTAACTAAAAC
16104035 AATTGATCATACACATGCAGTAACTAAAAC
1 AATTGATCATACACATGCAGTAACTAAAAC
16104065 AA
1 AA
16104067 ACAAACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (30 bp):
AATTGATCATACACATGCAGTAACTAAAAC
Found at i:16105946 original size:154 final size:151
Alignment explanation
Indices: 16105655--16106113 Score: 658
Period size: 155 Copynumber: 3.0 Consensus size: 151
16105645 TTTTACAAGT
* * *
16105655 AATTAGTTGTTGGAAATGATTCTCATATTGACTCTAATAC-TTTAGCAGAAAATTGAGAAAATTT
1 AATTAATTATTGGAAATTATTCTCA-ATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAA-TT
*
16105719 CCCTCACCTCAAGAGTATGCAAGAAAACTAACTGTTTCACTTGCAGGGGCTCCGTCGTCGGATTA
64 CCCTCACCTCAAGAGTATGCAAGAAAACT-ACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTA
* *
16105784 TTTAAAAGAAAAATCAAAATCATCC
128 ATT-AAAGAAAAATCAAAATCAGCC
*
16105809 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTTGAGAAAATTC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAA-TTGAGAAAATTC
16105874 CCTCACCTCAAGAGTATGCAAGAAAAAAACTACTGTTTCAC-TGCAGAGGCTCCGTCGTCGGATT
65 CCTCACCTCAAGAGTATGCAAG---AAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATT
16105938 AATTAAAG-AAAATCAAAATCAGCC
127 AATTAAAGAAAAATCAAAATCAGCC
*
16105962 ACAGTAATTATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAA
1 A-ATTAATTA-T-T-GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAA
* *
16106027 TTCCCGTCACCTCAAGAGTATGCAAG-AAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGA
62 TTCCC-TCACCTCAAGAGTATGCAAGAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGA
*
16106091 TTAATTAAA-AAAAATCAAGATCA
125 TTAATTAAAGAAAAATCAAAATCA
16106114 AAATCAAAGT
Statistics
Matches: 280, Mismatches: 12, Indels: 25
0.88 0.04 0.08
Matches are distributed among these distances:
153 38 0.14
154 75 0.27
155 76 0.27
156 25 0.09
157 66 0.24
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (151 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
CTCACCTCAAGAGTATGCAAGAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATT
AAAGAAAAATCAAAATCAGCC
Found at i:16106149 original size:10 final size:10
Alignment explanation
Indices: 16106125--16106177 Score: 55
Period size: 8 Copynumber: 5.8 Consensus size: 10
16106115 AATCAAAGTC
16106125 AAAAAAAATT
1 AAAAAAAATT
16106135 AAAAAAAATT
1 AAAAAAAATT
16106145 CAAAAAAAA--
1 -AAAAAAAATT
16106154 AAAAAAAA--
1 AAAAAAAATT
16106162 AAAAAAAA--
1 AAAAAAAATT
16106170 AAAAAAAA
1 AAAAAAAA
16106178 CCTGGAGCGG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
8 24 0.57
10 10 0.24
11 8 0.19
ACGTcount: A:0.91, C:0.02, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:16106149 original size:21 final size:21
Alignment explanation
Indices: 16106123--16106177 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
16106113 AAAATCAAAG
**
16106123 TCAAAAAAAATTAAAAAAAAT
1 TCAAAAAAAAAAAAAAAAAAT
16106144 TCAAAAAAAAAAAAAAAAAA-
1 TCAAAAAAAAAAAAAAAAAAT
16106164 --AAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAAA
16106178 CCTGGAGCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 14 0.44
21 18 0.56
ACGTcount: A:0.87, C:0.04, G:0.00, T:0.09
Consensus pattern (21 bp):
TCAAAAAAAAAAAAAAAAAAT
Found at i:16106150 original size:1 final size:1
Alignment explanation
Indices: 16106146--16106177 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
16106136 AAAAAAATTC
16106146 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16106178 CCTGGAGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16106538 original size:19 final size:20
Alignment explanation
Indices: 16106503--16106548 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
16106493 GAACACCGGT
* *
16106503 GCCGGATTCTGGGAAATTTG
1 GCCGGAATCTGGGAAATTTC
16106523 GCCGGAATCT-GGAAATTTC
1 GCCGGAATCTGGGAAATTTC
16106542 GCCGGAA
1 GCCGGAA
16106549 GTTGGCCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (20 bp):
GCCGGAATCTGGGAAATTTC
Found at i:16106595 original size:20 final size:19
Alignment explanation
Indices: 16106572--16106612 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16106562 TCGCCGGTTT
*
16106572 CTGGGATTCTTCGCCGGAAA
1 CTGGG-TTCGTCGCCGGAAA
*
16106592 CTGGGTTGGTCGCCGGAAA
1 CTGGGTTCGTCGCCGGAAA
16106611 CT
1 CT
16106613 TCAAAGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (19 bp):
CTGGGTTCGTCGCCGGAAA
Found at i:16106641 original size:31 final size:31
Alignment explanation
Indices: 16106601--16106670 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
16106591 ACTGGGTTGG
*
16106601 TCGCCGGAAACTTCAAAGTTCGCCGGAATTGT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATT-T
*
16106633 T-GCCGGAAAATTCAAATTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
16106663 TCGCCGGA
1 TCGCCGGA
16106671 TTCTGGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 2 0.06
31 32 0.91
32 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
Found at i:16107105 original size:3 final size:3
Alignment explanation
Indices: 16107097--16107130 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16107087 GATAATTAAA
16107097 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16107131 GATAAACCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:16107838 original size:21 final size:21
Alignment explanation
Indices: 16107797--16107838 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16107787 GCAAGAATAA
* *
16107797 GTTGTGTAAAAATAGGTTGCT
1 GTTGTGTAAAAATAAGCTGCT
16107818 GTTGTG-AAAGAATAAGCTGCT
1 GTTGTGTAAA-AATAAGCTGCT
16107839 ATTTCATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (21 bp):
GTTGTGTAAAAATAAGCTGCT
Found at i:16108437 original size:19 final size:19
Alignment explanation
Indices: 16108415--16108458 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16108405 CAAGAAAGCC
* *
16108415 AAAAAATCTTGCAAAAAAA
1 AAAAAACCTTACAAAAAAA
*
16108434 AAAAACCCTTACAAAAAAA
1 AAAAAACCTTACAAAAAAA
16108453 AAAAAA
1 AAAAAA
16108459 AACCCTACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.73, C:0.14, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAAAACCTTACAAAAAAA
Found at i:16109260 original size:3 final size:3
Alignment explanation
Indices: 16109248--16109317 Score: 74
Period size: 3 Copynumber: 23.7 Consensus size: 3
16109238 AATAAACCTT
* * *
16109248 ATA A-A ATA ATA ATA ATA A-A A-A ATA ATTA ATA ATTA ATG ATT ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A-TA ATA ATA ATA
16109292 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
16109318 GGTGTCTAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
2 6 0.10
3 47 0.80
4 6 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16109408 original size:9 final size:9
Alignment explanation
Indices: 16109387--16109441 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
16109377 ATTTTTTAAA
16109387 AAAAATTAAT
1 AAAAA-TAAT
*
16109397 AAAAATAGT
1 AAAAATAAT
16109406 AAAAATAAT
1 AAAAATAAT
16109415 -AAAATAAT
1 AAAAATAAT
* *
16109423 AAAATTGAT
1 AAAAATAAT
16109432 AAAAA-AAT
1 AAAAATAAT
16109440 AA
1 AA
16109442 TTAAAAAGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
8 12 0.32
9 21 0.55
10 5 0.13
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (9 bp):
AAAAATAAT
Found at i:16109433 original size:17 final size:17
Alignment explanation
Indices: 16109388--16109441 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
16109378 TTTTTTAAAA
*
16109388 AAAATTAATAAAAATAGT
1 AAAATTAAT-AAAATAAT
*
16109406 AAAAATAATAAAATAAT
1 AAAATTAATAAAATAAT
* *
16109423 AAAATTGATAAAAAAAT
1 AAAATTAATAAAATAAT
16109440 AA
1 AA
16109442 TTAAAAAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 23 0.74
18 8 0.26
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAATTAATAAAATAAT
Found at i:16109455 original size:21 final size:20
Alignment explanation
Indices: 16109410--16109458 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
16109400 AATAGTAAAA
* *
16109410 ATAATAAAATAATAAAATTG
1 ATAAAAAAATAATAAAAGTG
16109430 ATAAAAAAATAATTAAAAAGTG
1 ATAAAAAAATAA-T-AAAAGTG
16109452 -TAAAAAA
1 ATAAAAAA
16109459 TGAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.44
21 8 0.32
22 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (20 bp):
ATAAAAAAATAATAAAAGTG
Found at i:16109807 original size:24 final size:23
Alignment explanation
Indices: 16109772--16109816 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
16109762 GAGTATTTAT
*
16109772 AAAAACTTTTCAATATAATAAAA
1 AAAAACTTTTCAATACAATAAAA
*
16109795 AAAAATTTCTTCAATACAATAA
1 AAAAACTT-TTCAATACAATAA
16109817 CATTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAACTTTTCAATACAATAAAA
Found at i:16109845 original size:201 final size:201
Alignment explanation
Indices: 16109480--16109855 Score: 429
Period size: 203 Copynumber: 1.9 Consensus size: 201
16109470 TCCAATAATA
* **
16109480 AGATTCTAAAGTATTCTGAGTAGTGATATCTATGAAATCTCTAAGTAAGAAGATTTTTTTAAATA
1 AGATTCTAAAGTATTCTGAGTAGTGACATCTACAAAATCTCTAAGTAAGAAGATTTTTTTAAATA
* * *** * *
16109545 CTATCAACGTATTAGAGCATTTATAAAAAATTTTTAATACAACAAAAAACTTTCCTTTTTGCTAT
66 CTACCAACGTATTAGAGCATTTATAAAAAATTTTCAATACAACAAAAAAAAAT-CTTCTTGCAAT
* **
16109610 AAAATAAAAATAAAAATTAATTAATTTATTAAAAAT-AATAAAAATGAGGAAAAAAATTTTATTC
130 AAAATAAAAATAAAAATAAAAAAATTTATTAAAAATAAATAAAAATGAGGAAAAAAATTTTATTC
16109674 GATGATG
195 GATGATG
* *
16109681 AGATTCTAAAGTATT-TCGAGTAGTGACATTTTACAAAATCTTTAAGTGAA-AAGATTTTCTTTA
1 AGATTCTAAAGTATTCT-GAGTAGTGACA-TCTACAAAATCTCTAAGT-AAGAAGATTTT-TTTA
* * * * * *
16109744 AATACTACCAATGTATTTGAGTATTTATAAAAACTTTTCAATATAATAAAAAAAAAT-TTCTT-C
62 AATACTACCAACGTATTAGAGCATTTATAAAAAATTTTCAATACAACAAAAAAAAATCTTCTTGC
* * * *
16109807 AATACAATAACATTAAAAATAAAAAATATTTTTTAAAAATGAAATAAAA
127 AATAAAATAAAAATAAAAATAAAAAA-ATTTATTAAAAAT-AAATAAAA
16109856 CACGTACATC
Statistics
Matches: 143, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
200 21 0.15
201 41 0.29
202 22 0.15
203 59 0.41
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (201 bp):
AGATTCTAAAGTATTCTGAGTAGTGACATCTACAAAATCTCTAAGTAAGAAGATTTTTTTAAATA
CTACCAACGTATTAGAGCATTTATAAAAAATTTTCAATACAACAAAAAAAAATCTTCTTGCAATA
AAATAAAAATAAAAATAAAAAAATTTATTAAAAATAAATAAAAATGAGGAAAAAAATTTTATTCG
ATGATG
Done.