Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 59 of 64
Found at i:9714304 original size:10 final size:10
Alignment explanation
Indices: 9714270--9714311 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
9714260 CTGTTAGATT
9714270 TTTTTTAAAA
1 TTTTTTAAAA
**
9714280 -TTTTTAATC
1 TTTTTTAAAA
*
9714289 TATTTTAAAA
1 TTTTTTAAAA
9714299 TTTTTTAAAA
1 TTTTTTAAAA
9714309 TTT
1 TTT
9714312 ATTATTTATC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:9714370 original size:15 final size:17
Alignment explanation
Indices: 9714337--9714373 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
9714327 GAAAATTATA
9714337 TTAAA-TTATAAATTTT
1 TTAAATTTATAAATTTT
9714353 TTAAATTTAT-AA-TTT
1 TTAAATTTATAAATTTT
9714368 TTAAAT
1 TTAAAT
9714374 ATCAATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 7 0.35
17 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTATAAATTTT
Found at i:9714490 original size:25 final size:25
Alignment explanation
Indices: 9714462--9714521 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
9714452 TTAGATTTTG
*
9714462 TTTAATATATATTTTTTTA-AATGAA
1 TTTAA-ATATATTTATTTACAATGAA
* **
9714487 TTTAAATAAATTTATTTACTTTGAA
1 TTTAAATATATTTATTTACAATGAA
9714512 TTTAAATATA
1 TTTAAATATA
9714522 AAAAATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTAAATATATTTATTTACAATGAA
Found at i:9720728 original size:14 final size:15
Alignment explanation
Indices: 9720709--9720738 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9720699 TACTTTAACT
9720709 CAAGCAGAAA-CAAG
1 CAAGCAGAAAGCAAG
9720723 CAAGCAGAAAGCAAG
1 CAAGCAGAAAGCAAG
9720738 C
1 C
9720739 GTGATGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (15 bp):
CAAGCAGAAAGCAAG
Found at i:9724458 original size:11 final size:11
Alignment explanation
Indices: 9724442--9724481 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9724432 AAATTTTAAA
9724442 TTATATTATAT
1 TTATATTATAT
*
9724453 TTATATCATAT
1 TTATATTATAT
*
9724464 TTATATTTTAT
1 TTATATTATAT
9724475 ATTATAT
1 -TTATAT
9724482 CATCAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATATTATAT
Found at i:9725941 original size:22 final size:22
Alignment explanation
Indices: 9725904--9725950 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
9725894 GTCGACACAA
*
9725904 AAATATAAAATATATTTTTTATT
1 AAATATAAAATATA-TTATTATT
*
9725927 AAAT-TAATATATATTATTATT
1 AAATATAAAATATATTATTATT
9725948 AAA
1 AAA
9725951 ATTTTAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 8 0.36
23 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATAAAATATATTATTATT
Found at i:9730657 original size:2 final size:2
Alignment explanation
Indices: 9730650--9730682 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9730640 TTTCAAGATA
*
9730650 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9730683 ACAGATGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9734067 original size:25 final size:26
Alignment explanation
Indices: 9734016--9734067 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
9734006 TAATTCAAAA
** * *
9734016 TTAATTGTTTAAATTTTGATTTGATT
1 TTAATTGTTTAAATTTAAATGTAATT
9734042 TTAATT-TTTAAATTTAAATGTAATT
1 TTAATTGTTTAAATTTAAATGTAATT
9734067 T
1 T
9734068 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (26 bp):
TTAATTGTTTAAATTTAAATGTAATT
Found at i:9749866 original size:18 final size:19
Alignment explanation
Indices: 9749833--9749869 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9749823 CTTCAGAAGA
*
9749833 AAGTTCTTTCCCTATGATT
1 AAGTTCTTTACCTATGATT
9749852 AAGTT-TTTACCTATGATT
1 AAGTTCTTTACCTATGATT
9749870 GAAGATAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (19 bp):
AAGTTCTTTACCTATGATT
Found at i:9755244 original size:22 final size:21
Alignment explanation
Indices: 9755201--9755248 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
9755191 AGAATAAAAA
9755201 AATAATATGATTTAAAATTTT
1 AATAATATGATTTAAAATTTT
*
9755222 AATAATTATTATTTATAAA-TTT
1 AATAA-TATGATTTA-AAATTTT
9755244 AATAA
1 AATAA
9755249 AATAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 16 0.67
23 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AATAATATGATTTAAAATTTT
Found at i:9762825 original size:14 final size:15
Alignment explanation
Indices: 9762788--9762826 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9762778 GATTCAGTTA
9762788 TATTTATT-TAAATT
1 TATTTATTATAAATT
9762802 TATTTGATTAT-AATT
1 TATTT-ATTATAAATT
9762817 TATTTATTAT
1 TATTTATTAT
9762827 TTATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 12 0.52
16 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TATTTATTATAAATT
Found at i:9777053 original size:28 final size:29
Alignment explanation
Indices: 9777021--9777102 Score: 125
Period size: 28 Copynumber: 2.9 Consensus size: 29
9777011 TGTGTTAACA
*
9777021 TCTTTTTTTACTCTTCCTAGAAAACCT-T
1 TCTTTTTTTAATCTTCCTAGAAAACCTGT
9777049 TCTTTTTTTAATCTTCCTAGAAAA-CTGT
1 TCTTTTTTTAATCTTCCTAGAAAACCTGT
9777077 TCTTTTTTTAATCTTCCCT-GAAAACC
1 TCTTTTTTTAATCTT-CCTAGAAAACC
9777103 CACAGGTTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
27 2 0.04
28 44 0.88
29 4 0.08
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (29 bp):
TCTTTTTTTAATCTTCCTAGAAAACCTGT
Found at i:9787597 original size:2 final size:2
Alignment explanation
Indices: 9787590--9787617 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9787580 AAAATAAACA
9787590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9787618 TTGCAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9787827 original size:18 final size:17
Alignment explanation
Indices: 9787806--9787853 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
9787796 TTATTTTAAA
*
9787806 TTATTTATTTATATATAT
1 TTATATATTTATATA-AT
*
9787824 TTATATATTTATTTAAT
1 TTATATATTTATATAAT
9787841 TT-TATATTTATAT
1 TTATATATTTATAT
9787854 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 10 0.37
17 4 0.15
18 13 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATATTTATATAAT
Found at i:9787872 original size:20 final size:21
Alignment explanation
Indices: 9787847--9787892 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9787837 TAATTTTATA
9787847 TTTATA-TTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
**
9787867 TTTATATTTTTAAAATAATAT
1 TTTATATTTAAAAAATAATAT
9787888 TTTAT
1 TTTAT
9787893 TAATTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:9787899 original size:22 final size:21
Alignment explanation
Indices: 9787857--9787900 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
9787847 TTTATATTAA
*
9787857 AAAATAATATTTTATATTTTT
1 AAAATAATATTTTATAATTTT
9787878 AAAATAATATTTTATTAATTTT
1 AAAATAATATTTTA-TAATTTT
9787900 A
1 A
9787901 GGTGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAAATAATATTTTATAATTTT
Found at i:9788603 original size:12 final size:13
Alignment explanation
Indices: 9788557--9788625 Score: 58
Period size: 12 Copynumber: 5.7 Consensus size: 13
9788547 AAATTAATAC
*
9788557 AAATAAAAAATAT
1 AAATAAAAATTAT
*
9788570 AAA-AATAA-TAT
1 AAATAAAAATTAT
* *
9788581 AATTTAAAATT-T
1 AAATAAAAATTAT
*
9788593 TAATAAAAATTAT
1 AAATAAAAATTAT
9788606 AAAT-AAAA-TAT
1 AAATAAAAATTAT
9788617 AAATAAAAA
1 AAATAAAAA
9788626 ATATTTTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
11 12 0.27
12 24 0.55
13 8 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAAAATTAT
Found at i:9788684 original size:38 final size:40
Alignment explanation
Indices: 9788642--9788741 Score: 91
Period size: 40 Copynumber: 2.5 Consensus size: 40
9788632 TATATTTTTT
9788642 TATAAATACGAATTATAATATAT-AAT-TTTTATGTAAAA
1 TATAAATACGAATTATAATATATCAATATTTTATGTAAAA
* * * * * *
9788680 TAT-AATACAAATAAATAATCTATCGATATTTTATTTAATA
1 TATAAATACGAAT-TATAATATATCAATATTTTATGTAAAA
9788720 TA-AATATACGAATTATTAATAT
1 TATAA-ATACGAATTA-TAATAT
9788742 TATTTTACAG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
37 8 0.17
38 11 0.23
39 2 0.04
40 14 0.30
41 12 0.26
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (40 bp):
TATAAATACGAATTATAATATATCAATATTTTATGTAAAA
Found at i:9792242 original size:3 final size:3
Alignment explanation
Indices: 9792236--9792263 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9792226 CCACCACCAA
9792236 CAG CAG CAG CAG CAG CAG CAG CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG C
9792264 GCTGGAGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:9793128 original size:45 final size:45
Alignment explanation
Indices: 9793077--9793166 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
9793067 CTCTTGAAGG
9793077 CCGAGATTGGCTTGGGTTGTCAATGTGTCATATGTAGGAAATGCA
1 CCGAGATTGGCTTGGGTTGTCAATGTGTCATATGTAGGAAATGCA
*
9793122 CCGAGATTGGCTTGGGTTGTCAGTGTGTCATATGTAGGAAATGCA
1 CCGAGATTGGCTTGGGTTGTCAATGTGTCATATGTAGGAAATGCA
9793167 TTCTGCTGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.31
Consensus pattern (45 bp):
CCGAGATTGGCTTGGGTTGTCAATGTGTCATATGTAGGAAATGCA
Found at i:9793340 original size:69 final size:69
Alignment explanation
Indices: 9793211--9793342 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 69
9793201 CCATGGTTCC
* * * *
9793211 TAAATCAGATGTGCCAGGCATTGTTGTGAAAGCTCCTAAATTAGCCGGGGCCTGCTCATACAGCA
1 TAAATCAGATGGGCCAGACATCGTTGTGAAAGCTCCTAAATTAGCCGGGGCCTGCCCATACAGCA
9793276 TTGG
66 TTGG
* **
9793280 TAAATCAGATGGGCCAGACATCGTTGTGAAAG-TGCCTAAATTAGCTGGGGGTTGCCCATACAG
1 TAAATCAGATGGGCCAGACATCGTTGTGAAAGCT-CCTAAATTAGCCGGGGCCTGCCCATACAG
9793343 AGTTGCATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (69 bp):
TAAATCAGATGGGCCAGACATCGTTGTGAAAGCTCCTAAATTAGCCGGGGCCTGCCCATACAGCA
TTGG
Found at i:9793853 original size:2 final size:2
Alignment explanation
Indices: 9793846--9793872 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9793836 TCTAATTAGA
9793846 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
9793873 ATAAATGTAT
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:9796160 original size:148 final size:148
Alignment explanation
Indices: 9795892--9796199 Score: 508
Period size: 148 Copynumber: 2.1 Consensus size: 148
9795882 AAATCTACAC
** * *
9795892 AAGCCGACAAACTTGCAGTTGTTATCATCGGATACATTATTGAAGAAGTTACGCAATTTAACATT
1 AAGCCGACAAACTTGCAGTTGTTATCATCAAATACATTATTGAAGAAGTTACACAATTTAACATG
*
9795957 CATCATCAAAGCTAAAGTAAAACCATGAGAACGCAACATAAGGCATTAAACGGAAGTGTATCTGA
66 AATCATCAAAGCTAAAGTAAAACCATGAGAACGCAACATAAGGCATTAAACGGAAGTGTATCTGA
9796022 AAAAGCACGACAAAGGAG
131 AAAAGCACGACAAAGGAG
* *
9796040 AAGCCGACAAACTTGCAGTTGTTATCATCAAATACATTATTGAATAAGTTACATAATTTAACATG
1 AAGCCGACAAACTTGCAGTTGTTATCATCAAATACATTATTGAAGAAGTTACACAATTTAACATG
* * *
9796105 AATCATCAATGCTAAAGTAAAACCATGAGAACGCGACATAAGGCATTAAACGGAAGTGTATTTGA
66 AATCATCAAAGCTAAAGTAAAACCATGAGAACGCAACATAAGGCATTAAACGGAAGTGTATCTGA
* *
9796170 AAGAGCACGACAAAGTAG
131 AAAAGCACGACAAAGGAG
9796188 AAGCCGACAAAC
1 AAGCCGACAAAC
9796200 CTTCCACAAG
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
148 148 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (148 bp):
AAGCCGACAAACTTGCAGTTGTTATCATCAAATACATTATTGAAGAAGTTACACAATTTAACATG
AATCATCAAAGCTAAAGTAAAACCATGAGAACGCAACATAAGGCATTAAACGGAAGTGTATCTGA
AAAAGCACGACAAAGGAG
Found at i:9798860 original size:13 final size:13
Alignment explanation
Indices: 9798842--9798887 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
9798832 TAATTTAATT
9798842 TTAATTGAATTGA
1 TTAATTGAATTGA
9798855 TTAATTGAATTGA
1 TTAATTGAATTGA
*
9798868 TTTAATTTG-ATTAA
1 -TTAA-TTGAATTGA
9798882 TTAATT
1 TTAATT
9798888 ATTAAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.07
13 17 0.57
14 8 0.27
15 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (13 bp):
TTAATTGAATTGA
Found at i:9801076 original size:20 final size:20
Alignment explanation
Indices: 9801039--9801077 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9801029 GGAGGGATTT
* **
9801039 TGGGTTTTTTTTTTTTTTTG
1 TGGGTTTTGTTTGCTTTTTG
9801059 TGGGTTTTGTTTGCTTTTT
1 TGGGTTTTGTTTGCTTTTT
9801078 TTCTTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.23, T:0.74
Consensus pattern (20 bp):
TGGGTTTTGTTTGCTTTTTG
Found at i:9801078 original size:21 final size:20
Alignment explanation
Indices: 9801039--9801078 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9801029 GGAGGGATTT
**
9801039 TGGGTTTTTTTTTTTTTTTG
1 TGGGTTTTTTTGCTTTTTTG
9801059 TGGGTTTTGTTTGCTTTTTT
1 TGGGTTTT-TTTGCTTTTTT
9801079 TCTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.00, C:0.03, G:0.23, T:0.75
Consensus pattern (20 bp):
TGGGTTTTTTTGCTTTTTTG
Found at i:9819004 original size:22 final size:21
Alignment explanation
Indices: 9818963--9819035 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 21
9818953 TATATATTTA
9818963 AATATTTATA-TTTAAAAAAT
1 AATATTTATATTTTAAAAAAT
9818983 AATATTTATATTTTAAAAAAAT
1 AATATTTATATTTT-AAAAAAT
**
9819005 AATATTTATATATTTTTAAAAT
1 AATATTTATAT-TTTAAAAAAT
9819027 AATATTTAT
1 AATATTTAT
9819036 TAATTTAGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.21
21 3 0.06
22 32 0.67
23 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTATATTTTAAAAAAT
Found at i:9820504 original size:29 final size:27
Alignment explanation
Indices: 9820418--9820502 Score: 97
Period size: 29 Copynumber: 3.2 Consensus size: 27
9820408 ATAATAAATC
*
9820418 ATAAAATAATTTTAAA-ATAT-AAAAA
1 ATAAAATAATTTTAAATATTTAAAAAA
*
9820443 AT-AAA-AATTTTAAATATTCAAAAAA
1 ATAAAATAATTTTAAATATTTAAAAAA
9820468 ATAAAACATAATTTTAAATCATTTAAAAAA
1 AT-AAA-ATAATTTTAAAT-ATTTAAAAAA
9820498 ATAAA
1 ATAAA
9820503 CAAACAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 9 0.18
24 5 0.10
25 9 0.18
27 2 0.04
28 1 0.02
29 13 0.26
30 11 0.22
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (27 bp):
ATAAAATAATTTTAAATATTTAAAAAA
Found at i:9820631 original size:29 final size:30
Alignment explanation
Indices: 9820557--9820633 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
9820547 ATCAAAATAA
*
9820557 AATTTTTAATTTATACTTAAATAAATACTC
1 AATTTTTAATTTATATTTAAATAAATACTC
* * *
9820587 AACTTTTAATTTATATTTAAATAAA-ATTT
1 AATTTTTAATTTATATTTAAATAAATACTC
*
9820616 AATTTTTAATTCATATTT
1 AATTTTTAATTTATATTT
9820634 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 18 0.44
30 23 0.56
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (30 bp):
AATTTTTAATTTATATTTAAATAAATACTC
Found at i:9824464 original size:19 final size:18
Alignment explanation
Indices: 9824431--9824472 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
9824421 TAAAAAATTA
9824431 ATAAAATATTTTTT-AAT
1 ATAAAATATTTTTTAAAT
9824448 ATAAAATATTATTTTTAAAT
1 ATAAAATA-T-TTTTTAAAT
9824468 ATAAA
1 ATAAA
9824473 TATAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 1 0.05
19 5 0.23
20 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAAAATATTTTTTAAAT
Found at i:9828953 original size:132 final size:131
Alignment explanation
Indices: 9828792--9829149 Score: 382
Period size: 134 Copynumber: 2.7 Consensus size: 131
9828782 TAATATTCTT
* * * * *
9828792 AATATAAAAGAGATTATTTAAAACGTTTTTAAACAAAAAAAAATCTTAAATGATCTCTTTATA-T
1 AATATAAAAGAGATTATTTAAGA-TTTTTTTAAC-AAAAAAAATCTTAAATAATATCTTTATATT
* * *
9828856 TTTATAATATAATTTTATTATTTAAGGTGTTTCTCT-AAAAAAATACTTTAAATAATATTTTTTA
64 TTTATAATATAACTTTATTATTTAAGGTATTT-TCTAAAAAAAATACTTTAAATAATATTCTTTA
9828920 CAAA
128 CAAA
* ** *
9828924 AATATAAAAGAGATTATTTATGATTTTTTTTGCCAAAAAAATCTTAAATAATATCCTTTATATTT
1 AATATAAAAGAGATTATTTAAGATTTTTTTAACAAAAAAAATCTTAAATAATAT-CTTTATATTT
* * *
9828989 TTATAATGTAACTTTATTATTTAAGGTATTTTTTAGAAAAAAAATGCTTTAAATAATATTCTTTA
65 TTATAATATAACTTTATTATTTAAGGTATTTTCT--AAAAAAAATACTTTAAATAATATTCTTTA
*
9829054 TAAA
128 CAAA
* * * *** *
9829058 AATAT-AAAGGGTCTTATTTAAGATTTTTTTTA-TTGAAAAATGCTTTAAATAATGTCTTTTATA
1 AATATAAAAGAG-ATTATTTAAGATTTTTTTAACAAAAAAAAT-C-TTAAATAATATC-TTTATA
*
9829121 TTTTTATAATATAACATTATTATTTAAGG
62 TTTTTATAATATAACTTTATTATTTAAGG
9829150 CATCATATAT
Statistics
Matches: 191, Mismatches: 26, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
130 18 0.09
131 15 0.08
132 51 0.27
133 11 0.06
134 53 0.28
135 43 0.23
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (131 bp):
AATATAAAAGAGATTATTTAAGATTTTTTTAACAAAAAAAATCTTAAATAATATCTTTATATTTT
TATAATATAACTTTATTATTTAAGGTATTTTCTAAAAAAAATACTTTAAATAATATTCTTTACAA
A
Found at i:9829046 original size:70 final size:69
Alignment explanation
Indices: 9828958--9829149 Score: 184
Period size: 65 Copynumber: 2.9 Consensus size: 69
9828948 TTTTTTTGCC
* *
9828958 AAAAAAAT-C-TTAAATAATATCCTTTATATTTTTATAATGTAACTTTATTATTTAAGGTATTTT
1 AAAAAAATGCTTTAAATAATATCCTTTATATTTTTATAATATAACATTATTATTTAAGGTATTTT
9829021 TTAGA
66 TTA-A
* * * * * *
9829026 AAAAAAATGCTTTAAATAATATTCTTTATA-----AAAATATAA-AGGGTCTTATTTAAGATTTT
1 AAAAAAATGCTTTAAATAATATCCTTTATATTTTTATAATATAACA--TTATTATTTAAGGTATT
*
9829085 TTTTAT
64 TTTTAA
** * *
9829091 TGAAAAATGCTTTAAATAATGTCTTTTATATTTTTATAATATAACATTATTATTTAAGG
1 AAAAAAATGCTTTAAATAATATCCTTTATATTTTTATAATATAACATTATTATTTAAGG
9829150 CATCATATAT
Statistics
Matches: 96, Mismatches: 18, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
65 32 0.33
66 18 0.19
68 8 0.08
69 11 0.11
70 26 0.27
71 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (69 bp):
AAAAAAATGCTTTAAATAATATCCTTTATATTTTTATAATATAACATTATTATTTAAGGTATTTT
TTAA
Found at i:9829143 original size:135 final size:132
Alignment explanation
Indices: 9828792--9829149 Score: 393
Period size: 132 Copynumber: 2.7 Consensus size: 132
9828782 TAATATTCTT
* ** ** * *
9828792 AATATAAAAGAGATTATTTAAAACGTTTTTAAACAAAAAAAAATCTTAAATGATCTC-TTTATA-
1 AATATAAAAGAGATTATTTAAGATTTTTTTTGAC--AAAAAAATCTTAAATAATGTCTTTTATAT
* * *
9828855 TTTTATAATATAATTTTATTATTTAAGGTGTTTCTCTAAAAAAATACTTTAAATAATATTTTTTA
64 TTTTATAATATAACTTTATTATTTAAGGTATTTCTCTAAAAAAATACTTTAAATAATATTCTTTA
9828920 CAAA
129 CAAA
* * * *
9828924 AATATAAAAGAGATTATTTATGATTTTTTTTGCCAAAAAAATCTTAAATAATATCCTTTATATTT
1 AATATAAAAGAGATTATTTAAGATTTTTTTTGACAAAAAAATCTTAAATAATGTCTTTTATATTT
* * *
9828989 TTATAATGTAACTTTATTATTTAAGGTATTT-TTTAGAAAAAAAATGCTTTAAATAATATTCTTT
66 TTATAATATAACTTTATTATTTAAGGTATTTCTCT---AAAAAAATACTTTAAATAATATTCTTT
*
9829053 ATAAA
128 ACAAA
* * ***
9829058 AATAT-AAAGGGTCTTATTTAAGATTTTTTTT-ATTGAAAAATGCTTTAAATAATGTCTTTTATA
1 AATATAAAAGAG-ATTATTTAAGATTTTTTTTGACAAAAAAAT-C-TTAAATAATGTCTTTTATA
*
9829121 TTTTTATAATATAACATTATTATTTAAGG
63 TTTTTATAATATAACTTTATTATTTAAGG
9829150 CATCATATAT
Statistics
Matches: 191, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
130 19 0.10
131 8 0.04
132 57 0.30
133 11 0.06
134 52 0.27
135 44 0.23
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (132 bp):
AATATAAAAGAGATTATTTAAGATTTTTTTTGACAAAAAAATCTTAAATAATGTCTTTTATATTT
TTATAATATAACTTTATTATTTAAGGTATTTCTCTAAAAAAATACTTTAAATAATATTCTTTACA
AA
Found at i:9834965 original size:15 final size:15
Alignment explanation
Indices: 9834945--9834975 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9834935 TTTAATTTAT
9834945 ACTATCTTTGAAAAA
1 ACTATCTTTGAAAAA
9834960 ACTATCTTTGAAAAA
1 ACTATCTTTGAAAAA
9834975 A
1 A
9834976 TATTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (15 bp):
ACTATCTTTGAAAAA
Found at i:9835188 original size:25 final size:25
Alignment explanation
Indices: 9835160--9835236 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
9835150 TTTTAATTAT
9835160 AACATTTCATTATTTGTGATTTTAG
1 AACATTTCATTATTTGTGATTTTAG
* * * *
9835185 AACACTTC-TTAATTATGATATGTTAT
1 AACATTTCATTATTTGTGAT-T-TTAG
* * *
9835211 AACCTTTTATTGTTTGTGATTTTAG
1 AACATTTCATTATTTGTGATTTTAG
9835236 A
1 A
9835237 GCACTCTTGA
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
24 9 0.24
25 12 0.32
26 9 0.24
27 8 0.21
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.51
Consensus pattern (25 bp):
AACATTTCATTATTTGTGATTTTAG
Found at i:9835211 original size:51 final size:51
Alignment explanation
Indices: 9835156--9835259 Score: 147
Period size: 51 Copynumber: 2.0 Consensus size: 51
9835146 TTTTTTTTAA
*
9835156 TTATAACATTTCATTATTTGTGATTTTAGAACACTTCTT-AATTATGATATG
1 TTATAACATTTCATTATTTGTGATTTTAGAACAC-TCTTGAACTATGATATG
* * * *
9835207 TTATAACCTTTTATTGTTTGTGATTTTAGAGCACTCTTGAACTATGATATG
1 TTATAACATTTCATTATTTGTGATTTTAGAACACTCTTGAACTATGATATG
9835258 TT
1 TT
9835260 TATTATCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 4 0.09
51 43 0.91
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (51 bp):
TTATAACATTTCATTATTTGTGATTTTAGAACACTCTTGAACTATGATATG
Found at i:9835945 original size:16 final size:17
Alignment explanation
Indices: 9835918--9835949 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9835908 TTAATTTATT
9835918 GATTTGTTTTTCTTTTA
1 GATTTGTTTTTCTTTTA
9835935 GATTT-TTTTTCTTTT
1 GATTTGTTTTTCTTTT
9835950 CTTTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.75
Consensus pattern (17 bp):
GATTTGTTTTTCTTTTA
Found at i:9836247 original size:23 final size:23
Alignment explanation
Indices: 9836216--9836270 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
9836206 GTAGAGATAG
* *
9836216 TTTTAGAATTTTTAAGTTTTTTT
1 TTTTAGAATTTTGAAGTTATTTT
*
9836239 TTTTCGAATTTTGAAGTTATTTT
1 TTTTAGAATTTTGAAGTTATTTT
9836262 TTTCTAGAA
1 TTT-TAGAA
9836271 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.62
Consensus pattern (23 bp):
TTTTAGAATTTTGAAGTTATTTT
Found at i:9852837 original size:12 final size:12
Alignment explanation
Indices: 9852820--9852845 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9852810 TTAATATATA
9852820 AAAATTAATTTT
1 AAAATTAATTTT
9852832 AAAATTAATTTT
1 AAAATTAATTTT
9852844 AA
1 AA
9852846 CATATATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAATTAATTTT
Found at i:9855354 original size:13 final size:13
Alignment explanation
Indices: 9855336--9855362 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9855326 CTGTCGATGG
9855336 TATTTTTGGTGTC
1 TATTTTTGGTGTC
9855349 TATTTTTGGTGTC
1 TATTTTTGGTGTC
9855362 T
1 T
9855363 TAGTTGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.22, T:0.63
Consensus pattern (13 bp):
TATTTTTGGTGTC
Found at i:9866755 original size:21 final size:21
Alignment explanation
Indices: 9866730--9866769 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9866720 ATCTATTTAA
9866730 AAATTTATATCAAAATTTATT
1 AAATTTATATCAAAATTTATT
* *
9866751 AAATTTCTTTCAAAATTTA
1 AAATTTATATCAAAATTTA
9866770 CACATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTTATATCAAAATTTATT
Found at i:9870165 original size:15 final size:15
Alignment explanation
Indices: 9870146--9870190 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
9870136 TATGGCGTAC
9870146 AGACATACGGCGGCG
1 AGACATACGGCGGCG
* * *
9870161 GGACATACGGCTGCC
1 AGACATACGGCGGCG
*
9870176 AGACATACTGCGGCG
1 AGACATACGGCGGCG
9870191 TGGCCGGTGG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.36, T:0.11
Consensus pattern (15 bp):
AGACATACGGCGGCG
Found at i:9871354 original size:2 final size:2
Alignment explanation
Indices: 9871347--9871371 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9871337 TTTCTTTGTT
9871347 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 T
9871372 TTGAGATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9872668 original size:2 final size:2
Alignment explanation
Indices: 9872656--9872703 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
9872646 TTTCTTTGTT
* * *
9872656 TA TA TA CA TA TA TA TA TA TA TT TGA GA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
9872699 TA TA T
1 TA TA T
9872704 TTGAGATGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9872688 original size:27 final size:27
Alignment explanation
Indices: 9872656--9872710 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
9872646 TTTCTTTGTT
9872656 TATATACATATATATATATATTTGAGA
1 TATATACATATATATATATATTTGAGA
*
9872683 TATATATATATATATATATATTTGAGA
1 TATATACATATATATATATATTTGAGA
9872710 T
1 T
9872711 GTCTTAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (27 bp):
TATATACATATATATATATATTTGAGA
Found at i:9874425 original size:52 final size:52
Alignment explanation
Indices: 9874339--9874495 Score: 210
Period size: 52 Copynumber: 3.0 Consensus size: 52
9874329 TATAACCATA
* * *
9874339 CAAACTTACCCATTAAGAAT-CTTTCTCCTCTTAGAATTCTTCTCATGTAAGT
1 CAAACTTACCTATTAAGAATCCCTT-TCCTCTTAGAATTCTTCTCTTGTAAGT
* * *
9874391 CAAACTTAACTATTAAGAATCCCTTTCCTTTTAGAATTATTCTCTTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
* *
9874443 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTAGAATTCTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
9874495 C
1 C
9874496 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 85 0.92
53 7 0.08
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
Found at i:9874891 original size:25 final size:25
Alignment explanation
Indices: 9874863--9874916 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
9874853 GAACCTTCGG
9874863 CTCTTTTCACATCTTGAATCTTCAA
1 CTCTTTTCACATCTTGAATCTTCAA
* * *
9874888 CTCTTTTCACGTTTTGAATCTTCAG
1 CTCTTTTCACATCTTGAATCTTCAA
9874913 CTCT
1 CTCT
9874917 GATACCACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.46
Consensus pattern (25 bp):
CTCTTTTCACATCTTGAATCTTCAA
Found at i:9875545 original size:52 final size:51
Alignment explanation
Indices: 9875459--9875615 Score: 163
Period size: 52 Copynumber: 3.0 Consensus size: 51
9875449 TATAACCATA
* * * **
9875459 CAAACTTACCCATTAAAAATCTCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCT-TTTCCTCTTAGAATTCTTCTCCTACAAGT
* * * * *
9875511 CAAACTTGCCTATTAAGAATCTATTTCCTTTTAGAATTATTATCTTACAAGT
1 CAAACTTACCTATTAAGAATCT-TTTCCTCTTAGAATTCTTCTCCTACAAGT
**
9875563 CAAACTTACCTATTAAGAATCTTCATT-CTCTTAGAATTCTTCTTTTACAAGT
1 CAAACTTACCTATTAAGAATCTT--TTCCTCTTAGAATTCTTCTCCTACAAGT
9875615 C
1 C
9875616 TTATTATCCA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
51 1 0.01
52 84 0.97
53 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCTTTTCCTCTTAGAATTCTTCTCCTACAAGT
Found at i:9876175 original size:5 final size:5
Alignment explanation
Indices: 9876162--9876237 Score: 53
Period size: 5 Copynumber: 13.8 Consensus size: 5
9876152 AATTTATTTT
* * *
9876162 TTAAT TTAAA TTAAA TTTAA TAAAA TTTTAAA TTTTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA --TTAAA --TTAAA TTAAA TTAAA
*
9876211 TTAAA TTTAAA TAAATA TATAAA TTAA
1 TTAAA -TTAAA TTAA-A T-TAAA TTAA
9876238 TAATATTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
5 37 0.63
6 9 0.15
7 13 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TTAAA
Found at i:9876189 original size:29 final size:30
Alignment explanation
Indices: 9876157--9876218 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
9876147 TTTGAAATTT
* *
9876157 ATTTTTTAA-TTTAAATTAAATTTAATAAA
1 ATTTTTAAATTTTAAATTAAATTAAATAAA
*
9876186 A-TTTTAAATTTTAAATTAAATTAAATTAA
1 ATTTTTAAATTTTAAATTAAATTAAATAAA
9876215 ATTT
1 ATTT
9876219 AAATAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 20 0.71
30 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTTTAAATTTTAAATTAAATTAAATAAA
Found at i:9877275 original size:9 final size:9
Alignment explanation
Indices: 9877254--9877305 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
9877244 GTGTAAACAC
9877254 TATTTTGTAT
1 TATTTT-TAT
9877264 TATTTTTAT
1 TATTTTTAT
*
9877273 TATTATTAT
1 TATTTTTAT
*
9877282 TATTTCTAT
1 TATTTTTAT
* *
9877291 CATTATTA-
1 TATTTTTAT
9877299 TATTTTT
1 TATTTTT
9877306 TCTTTTTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
8 5 0.15
9 23 0.68
10 6 0.18
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (9 bp):
TATTTTTAT
Found at i:9877284 original size:18 final size:18
Alignment explanation
Indices: 9877261--9877305 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
9877251 CACTATTTTG
*
9877261 TATTATTTTTATTATTAT
1 TATTATTTTTATCATTAT
*
9877279 TATTATTTCTATCATTAT
1 TATTATTTTTATCATTAT
9877297 TA-TATTTTT
1 TATTATTTTT
9877306 TCTTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATTTTTATCATTAT
Found at i:9877323 original size:14 final size:14
Alignment explanation
Indices: 9877304--9877339 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9877294 TATTATATTT
*
9877304 TTTCTTTTTCTTTC
1 TTTCTTTTTCCTTC
9877318 TTTCTTTTTCCTTC
1 TTTCTTTTTCCTTC
9877332 TTT-TTTTT
1 TTTCTTTTT
9877340 TTTGTTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTCTTTTTCCTTC
Found at i:9878301 original size:12 final size:14
Alignment explanation
Indices: 9878274--9878305 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
9878264 TCACTGAATC
9878274 GATCGGACCTCGTT
1 GATCGGACCTCGTT
9878288 GATCGGA-C-CGTT
1 GATCGGACCTCGTT
9878300 GATCGG
1 GATCGG
9878306 TCTGATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 1 0.06
14 7 0.39
ACGTcount: A:0.16, C:0.25, G:0.34, T:0.25
Consensus pattern (14 bp):
GATCGGACCTCGTT
Found at i:9878475 original size:25 final size:25
Alignment explanation
Indices: 9878427--9878484 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 25
9878417 TGATAATTTT
9878427 AAAATAAACTTAAAAAATAATAATA
1 AAAATAAACTTAAAAAATAATAATA
*
9878452 AAAATAAACCTTAAATAATTTAATTAATA
1 AAAATAAA-CTTAAA-AA-ATAA-TAATA
9878481 AAAA
1 AAAA
9878485 AATGTAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.29
26 6 0.21
27 2 0.07
28 3 0.11
29 9 0.32
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAATAAACTTAAAAAATAATAATA
Found at i:9884732 original size:34 final size:34
Alignment explanation
Indices: 9884694--9884783 Score: 135
Period size: 34 Copynumber: 2.6 Consensus size: 34
9884684 TGTGCATCTT
* **
9884694 TTTAAGAAAAAACATTTGTTTCTCATGAACATCA
1 TTTAAGAAAAGACATTTGCATCTCATGAACATCA
**
9884728 TTTAAGAAAAGACATTTGCATCTCATGAGTATCA
1 TTTAAGAAAAGACATTTGCATCTCATGAACATCA
9884762 TTTAAGAAAAGACATTTGCATC
1 TTTAAGAAAAGACATTTGCATC
9884784 ATAATGGTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (34 bp):
TTTAAGAAAAGACATTTGCATCTCATGAACATCA
Found at i:9885220 original size:66 final size:66
Alignment explanation
Indices: 9885141--9885289 Score: 192
Period size: 66 Copynumber: 2.3 Consensus size: 66
9885131 TTACATATTC
* * * * * *
9885141 TCGATGGTAATATCCGAGTGA-TAATATTTGATTTATATTTTTTAGATGATGATATTCGAGTTTC
1 TCGATGGTGATATCCGAGT-ATTAAGACTTAAATTACATTTTTTAGATGATGATATTCGAGTTTC
9885205 CT
65 CT
* * * *
9885207 TCGATGGTGATATCCGAGTATTAAGGCTTAAATTACATTTTTTCGATGGTGATATTCGAGTTTCT
1 TCGATGGTGATATCCGAGTATTAAGACTTAAATTACATTTTTTAGATGATGATATTCGAGTTTCC
9885272 T
66 T
9885273 TCGATGGTGATATCCGA
1 TCGATGGTGATATCCGA
9885290 AGTCATTTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 71 0.99
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (66 bp):
TCGATGGTGATATCCGAGTATTAAGACTTAAATTACATTTTTTAGATGATGATATTCGAGTTTCC
T
Found at i:9885327 original size:165 final size:165
Alignment explanation
Indices: 9885086--9885386 Score: 442
Period size: 165 Copynumber: 1.8 Consensus size: 165
9885076 GCCTGTTCTT
* * *
9885086 GATGGTGATATTCGAGTTTCTTTCGATGGTGATATCCTAAGTTATTTACATATTCTCGATGGTAA
1 GATGGTGATATTCGAGTTTCTTTCGATGGTGATATCCGAAGTCATTTACATATTCTCGATGGCAA
* * * * *
9885151 TATCCGAGTGATAATATTTGATTTATATTTT-TTAGATGATGATATTCGAGTTTCCTTCGATGGT
66 TATCCGAGTGATAAGATTTGATATACATTTTCTCA-ACGATGATATTCGAGTTTCCTTCGATGGT
9885215 GATATCCGAGTATTAAGGCTTAAATTACATTTTTTC
130 GATATCCGAGTATTAAGGCTTAAATTACATTTTTTC
* * *
9885251 GATGGTGATATTCGAGTTTCTTTCGATGGTGATATCCGAAGTCATTTGCATATTCTTGGTGGCAA
1 GATGGTGATATTCGAGTTTCTTTCGATGGTGATATCCGAAGTCATTTACATATTCTCGATGGCAA
* * * * *
9885316 TATCTGAGTGATAAGGTTTGATATGCATTTTCTCAACGATGATATTTGATTTTCCTTCGATGGTG
66 TATCCGAGTGATAAGATTTGATATACATTTTCTCAACGATGATATTCGAGTTTCCTTCGATGGTG
9885381 ATATCC
131 ATATCC
9885387 AAAGTCATTT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
165 117 0.98
166 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (165 bp):
GATGGTGATATTCGAGTTTCTTTCGATGGTGATATCCGAAGTCATTTACATATTCTCGATGGCAA
TATCCGAGTGATAAGATTTGATATACATTTTCTCAACGATGATATTCGAGTTTCCTTCGATGGTG
ATATCCGAGTATTAAGGCTTAAATTACATTTTTTC
Found at i:9885469 original size:97 final size:97
Alignment explanation
Indices: 9885208--9885483 Score: 315
Period size: 99 Copynumber: 2.8 Consensus size: 97
9885198 GAGTTTCCTT
* *
9885208 CGATGGTGATATCCGAGTATTAAGGCTTAAATTACATTTTTTCGATGGTGATATTCGAGTTTCTT
1 CGATGGTGATATCCGAGTATTAAGGCTTAAATTGCATTTTTTCGATGGTGATATTCGAGTTTCCT
* *
9885273 TCGATGGTGATATCCGAAGTCATTTGCATATT
66 TCGATGGTGATATCCAAAGTCATTTGCATATG
* * ** * * * * * *
9885305 C-TTGGTGGCAATATCTGAGTGA-TAAGG-TTTGATATGCATTTTCTCAACGATGATATTTGATT
1 CGATGGT-G--ATATCCGAGT-ATTAAGGCTTAAAT-TGCATTTTTTCGATGGTGATATTCGAGT
*
9885367 TTCCTTCGATGGTGATATCCAAAGTCATTTGCATCTG
61 TTCCTTCGATGGTGATATCCAAAGTCATTTGCATATG
* * *
9885404 CGATAGTGATATCCGAGTATTAAGGCTTAAATTGTATTTTTTTGATGGTGATATTCGAGTTTCCT
1 CGATGGTGATATCCGAGTATTAAGGCTTAAATTGCATTTTTTCGATGGTGATATTCGAGTTTCCT
*
9885469 TTGATGGTGATATCC
66 TCGATGGTGATATCC
9885484 GACTATTAAA
Statistics
Matches: 142, Mismatches: 29, Indels: 16
0.76 0.16 0.09
Matches are distributed among these distances:
96 5 0.04
97 55 0.39
98 8 0.06
99 70 0.49
100 4 0.03
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (97 bp):
CGATGGTGATATCCGAGTATTAAGGCTTAAATTGCATTTTTTCGATGGTGATATTCGAGTTTCCT
TCGATGGTGATATCCAAAGTCATTTGCATATG
Found at i:9885518 original size:66 final size:66
Alignment explanation
Indices: 9885404--9885551 Score: 206
Period size: 66 Copynumber: 2.2 Consensus size: 66
9885394 TTTGCATCTG
* * * * **
9885404 CGATAGTGATATCCGAGTATTAAGGCTTAAATTGTATTTTTTTGATGGTGATATTCGAGTTTCCT
1 CGATGGTGATATCCGACTATTAAAGCTTAAATTGCATTTTTTCAATGGTGATATTCGAGTTTCCT
9885469 T
66 T
* * *
9885470 TGATGGTGATATCCGACTATTAAAGCTTTAATTGCATTTTTTCAATGGTGATATTTGAGTTTCCT
1 CGATGGTGATATCCGACTATTAAAGCTTAAATTGCATTTTTTCAATGGTGATATTCGAGTTTCCT
9885535 T
66 T
*
9885536 CGGTGGTGATATCCGA
1 CGATGGTGATATCCGA
9885552 AGTCATTTAC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (66 bp):
CGATGGTGATATCCGACTATTAAAGCTTAAATTGCATTTTTTCAATGGTGATATTCGAGTTTCCT
T
Found at i:9885624 original size:42 final size:42
Alignment explanation
Indices: 9885576--9885657 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
9885566 TCTCAGTAGT
* *
9885576 GATATCCGAGTGTTAAAG-TTTGATTTGTATTTTCTCGATGAC
1 GATATCCGAGTGTTAAAGCTTT-AATTGCATTTTCTCGATGAC
*
9885618 GATATCCTAGTGTTAAAGCTTTAATTGCATTTTCTCGATG
1 GATATCCGAGTGTTAAAGCTTTAATTGCATTTTCTCGATG
9885658 GTGATATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 33 0.92
43 3 0.08
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (42 bp):
GATATCCGAGTGTTAAAGCTTTAATTGCATTTTCTCGATGAC
Found at i:9885695 original size:25 final size:24
Alignment explanation
Indices: 9885647--9885695 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9885637 TTTAATTGCA
**
9885647 TTTTCTCGATGGTGATATTTAAGT
1 TTTTCTCGATGGTGATATCGAAGT
*
9885671 TTTTTTCGATGGTGATATCCGAAGT
1 TTTTCTCGATGGTGATAT-CGAAGT
9885696 CATTTGCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.47
Consensus pattern (24 bp):
TTTTCTCGATGGTGATATCGAAGT
Found at i:9885745 original size:99 final size:99
Alignment explanation
Indices: 9885618--9885953 Score: 351
Period size: 99 Copynumber: 3.4 Consensus size: 99
9885608 TCTCGATGAC
*
9885618 GATATCCT-AGTGTTAAAGCTTTAATTGCATTTTCTCGATGGTGATATTTAAGTTTTTTTCGATG
1 GATAT-CTGAGTGTTAAAGCTTTAATTGCATTTTCTCGATGGTGATATTTAAGTTTCTTTCGATG
*
9885682 GTGATATCCGAAGTCATTTGCATATTCTCGGTGGT
65 GTGATATCCGAAGTCATTTGCATATTCTCAGTGGT
* * * * * *
9885717 GATATCTGAGTATTAAAGCTTCAATTGCATTTTCTTGATGGTGATATTCAAGTTTCCTTCAATGG
1 GATATCTGAGTGTTAAAGCTTTAATTGCATTTTCTCGATGGTGATATTTAAGTTTCTTTCGATGG
* * * *
9885782 TGATATTCGAAGCCATTTACATATTCCCAGTGGT
66 TGATATCCGAAGTCATTTGCATATTCTCAGTGGT
* * * * * ** * *
9885816 GATATGC-AAGTGTTAAGAG-TTGATTTGCATATCCTTTAATGGTGATATTTGAGTTTCTTTCGG
1 GATAT-CTGAGTGTTAA-AGCTTTAATTGCATTTTC-TCGATGGTGATATTTAAGTTTCTTTCGA
* *
9885879 TGGCGATATCCGAAGTCA-TTGCATATTCTCTGTGGT
63 TGGTGATATCCGAAGTCATTTGCATATTCTCAGTGGT
* *
9885915 GATAT-TCGAGTGTT-AAGGTTTAATTTACATTTTCTCGAT
1 GATATCT-GAGTGTTAAAGCTTTAA-TTGCATTTTCTCGAT
9885954 AATGACATCC
Statistics
Matches: 191, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
97 2 0.01
98 9 0.05
99 140 0.73
100 40 0.21
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.42
Consensus pattern (99 bp):
GATATCTGAGTGTTAAAGCTTTAATTGCATTTTCTCGATGGTGATATTTAAGTTTCTTTCGATGG
TGATATCCGAAGTCATTTGCATATTCTCAGTGGT
Found at i:9885763 original size:141 final size:141
Alignment explanation
Indices: 9885469--9885763 Score: 401
Period size: 141 Copynumber: 2.1 Consensus size: 141
9885459 CGAGTTTCCT
* *
9885469 TTGATGGTGATATCCGACTATTAAAGCTTTAATTGCATTTTTTCAATGGTGATATTTGAGTTTCC
1 TTGATGGTGATATCCGACTATTAAAGCTTTAATTGCATTTTCTCAATGGTGATATTTAAGTTTCC
* * * *
9885534 TTCGGTGGTGATATCCGAAGTCATTTACATATTCTCAGTAGTGATATCCGAGTGTTAAAGTTTGA
66 TTCGATGGTGATATCCGAAGTCATTTACATATTCTCAGTAGTGATATCCGAGTATTAAAGCTTCA
* *
9885599 TTTGTATTTTC
131 ATTGCATTTTC
* ** * * * * **
9885610 TCGATGACGATATCCTAGTGTTAAAGCTTTAATTGCATTTTCTCGATGGTGATATTTAAGTTTTT
1 TTGATGGTGATATCCGACTATTAAAGCTTTAATTGCATTTTCTCAATGGTGATATTTAAGTTTCC
* * * *
9885675 TTCGATGGTGATATCCGAAGTCATTTGCATATTCTCGGTGGTGATATCTGAGTATTAAAGCTTCA
66 TTCGATGGTGATATCCGAAGTCATTTACATATTCTCAGTAGTGATATCCGAGTATTAAAGCTTCA
9885740 ATTGCATTTTC
131 ATTGCATTTTC
9885751 TTGATGGTGATAT
1 TTGATGGTGATAT
9885764 TCAAGTTTCC
Statistics
Matches: 130, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
141 130 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (141 bp):
TTGATGGTGATATCCGACTATTAAAGCTTTAATTGCATTTTCTCAATGGTGATATTTAAGTTTCC
TTCGATGGTGATATCCGAAGTCATTTACATATTCTCAGTAGTGATATCCGAGTATTAAAGCTTCA
ATTGCATTTTC
Found at i:9886269 original size:49 final size:49
Alignment explanation
Indices: 9886120--9886256 Score: 204
Period size: 49 Copynumber: 2.8 Consensus size: 49
9886110 CTAGGATAGT
*
9886120 TTTTTTCAAGATGAATTTTTTAAAGTTATTGAGCCTTTGCTTAGAAGAG-
1 TTTTTTCAAGATGAA-TTTTTAAAGTTATTGAGCCTCTGCTTAGAAGAGC
* *
9886169 TCTTTTTCAAGATGAATTTTTAAAGTTATTGAGTCTCTGCTTAGATGAGC
1 T-TTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAAGAGC
* *
9886219 TTTTTTCAAGATGAATTTTTGAAGTTATTAAGCCTCTG
1 TTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTG
9886257 ATTTGAGGAG
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
49 65 0.81
50 15 0.19
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (49 bp):
TTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAAGAGC
Found at i:9886452 original size:32 final size:33
Alignment explanation
Indices: 9886411--9886473 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
9886401 GTATTATTTG
*
9886411 TATTATTATTATT-TCTTTCTTTCTTTTTCTAT
1 TATTATTATTATTATATTTCTTTCTTTTTCTAT
*
9886443 TATTATTATTATTATATTTTTTTCTTTTTCT
1 TATTATTATTATTATATTTCTTTCTTTTTCT
9886474 TTCTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (33 bp):
TATTATTATTATTATATTTCTTTCTTTTTCTAT
Found at i:9886453 original size:38 final size:36
Alignment explanation
Indices: 9886397--9886477 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 36
9886387 GTAAACACTA
*
9886397 TTTTGTATTATTTGTATTATTATTATTTCTTTCTTTCT
1 TTTTCTATTATTTGTATTATTA-TATTTCTTTCTTT-T
*
9886435 TTTTCTATTATTAT-TATTATTATATTTTTTTCTTTT
1 TTTTCTATTATT-TGTATTATTATATTTCTTTCTTTT
9886471 TCTTTCT
1 T-TTTCT
9886478 TTCTTTTTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
36 2 0.05
37 17 0.44
38 19 0.49
39 1 0.03
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (36 bp):
TTTTCTATTATTTGTATTATTATATTTCTTTCTTTT
Found at i:9886478 original size:10 final size:10
Alignment explanation
Indices: 9886473--9886512 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
9886463 TTTCTTTTTC
*
9886473 TTTCTTTCTT
1 TTTCCTTCTT
9886483 TTTCCTTCTT
1 TTTCCTTCTT
9886493 TTTCCTTCTT
1 TTTCCTTCTT
9886503 TTT-CTTCTT
1 TTTCCTTCTT
9886512 T
1 T
9886513 CCTGTTCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTCCTTCTT
Found at i:9886482 original size:14 final size:14
Alignment explanation
Indices: 9886422--9886493 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 14
9886412 ATTATTATTA
9886422 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
* *
9886436 TTTCTATTATTATTATT
1 TTTCT-TT-CT-TTCTT
* *
9886453 ATTATATTTTTTTCTT
1 -TT-TCTTTCTTTCTT
9886469 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
*
9886483 TTTCCTTCTTT
1 TTTCTTTCTTT
9886494 TTCCTTCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 25 0.54
15 4 0.09
16 5 0.11
17 6 0.13
18 4 0.09
19 2 0.04
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:9886486 original size:20 final size:20
Alignment explanation
Indices: 9886461--9886513 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
9886451 TTATTATATT
*
9886461 TTTTTCTTTTTCTTTCTTTC
1 TTTTTCTTTTTCTTTCCTTC
*
9886481 TTTTTCCTTCTT-TTTCCTTC
1 TTTTT-CTTTTTCTTTCCTTC
9886501 TTTTTCTTCTTTC
1 TTTTTCTT-TTTC
9886514 CTGTTCTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.11
20 19 0.70
21 5 0.19
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTCTTTTTCTTTCCTTC
Found at i:9886520 original size:19 final size:19
Alignment explanation
Indices: 9886470--9886520 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
9886460 TTTTTTCTTT
9886470 TTCTTT-CTTTCTTTTTCC
1 TTCTTTCCTTTCTTTTTCC
9886488 TTCTTTTTCC-TTCTTTTT-C
1 TTC--TTTCCTTTCTTTTTCC
9886507 TTCTTTCCTGTTCT
1 TTCTTTCCT-TTCT
9886521 GATCAGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 5 0.18
18 3 0.11
19 8 0.29
20 11 0.39
21 1 0.04
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (19 bp):
TTCTTTCCTTTCTTTTTCC
Found at i:9886794 original size:23 final size:24
Alignment explanation
Indices: 9886751--9886795 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
9886741 AAAAAAAGTG
*
9886751 GATCGATTAAAAAAGAGAGAAAGA
1 GATCGATTAAAAAAGACAGAAAGA
9886775 GATCGA-TAAAAAA-ACCAGAAA
1 GATCGATTAAAAAAGA-CAGAAA
9886796 CCCTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.05
23 12 0.63
24 6 0.32
ACGTcount: A:0.60, C:0.09, G:0.20, T:0.11
Consensus pattern (24 bp):
GATCGATTAAAAAAGACAGAAAGA
Found at i:9891482 original size:16 final size:16
Alignment explanation
Indices: 9891444--9891482 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9891434 AATAAAGTTT
*
9891444 TTTTTTTTACATTTTA
1 TTTTTTTTAAATTTTA
**
9891460 TACTTTTTAAATTTTA
1 TTTTTTTTAAATTTTA
9891476 TTTTTTT
1 TTTTTTT
9891483 AATTTATTGA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTTTAAATTTTA
Found at i:9894057 original size:2 final size:2
Alignment explanation
Indices: 9894050--9894083 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9894040 AGTTTCACAA
9894050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9894084 AAATAGGCGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9894391 original size:11 final size:12
Alignment explanation
Indices: 9894363--9894405 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
9894353 ATGTTCATAG
9894363 AAAATTTTGAAG-
1 AAAATTTT-AAGA
9894375 AAAATTTT-AGA
1 AAAATTTTAAGA
9894386 AAAATTTTAAGA
1 AAAATTTTAAGA
9894398 AAAATTTT
1 AAAATTTT
9894406 TTCTTCAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.07
11 8 0.28
12 19 0.66
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (12 bp):
AAAATTTTAAGA
Found at i:9897193 original size:2 final size:2
Alignment explanation
Indices: 9897186--9897215 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9897176 TAATGGAGTT
9897186 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9897216 AGTAATGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9898652 original size:21 final size:22
Alignment explanation
Indices: 9898608--9898653 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9898598 GAATTAAAAT
* * *
9898608 TTTAATAATAATTATATATGTA
1 TTTAATAATAATTAAAAATATA
9898630 TTTAATAA-AATTAAAAATATA
1 TTTAATAATAATTAAAAATATA
9898651 TTT
1 TTT
9898654 TATATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTAATAATAATTAAAAATATA
Found at i:9898655 original size:22 final size:23
Alignment explanation
Indices: 9898606--9898655 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
9898596 GTGAATTAAA
* * *
9898606 ATTTTAATAATAATTATATATGT
1 ATTTTAATAATAATTAAAAATAT
9898629 A-TTTAATAA-AATTAAAAATAT
1 ATTTTAATAATAATTAAAAATAT
9898650 ATTTTA
1 ATTTTA
9898656 TATTTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 12 0.52
23 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTTAATAATAATTAAAAATAT
Found at i:9898761 original size:38 final size:37
Alignment explanation
Indices: 9898690--9898769 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 37
9898680 AACACATAAT
*
9898690 TTTTATATAAAATATGATATAAATATATAAAATCAATA
1 TTTTACATAAAATATGATATAAATATATAAAATCAA-A
* * * *
9898728 TTTTACATAAAATAATTATATGAAT-TATTAAATCTAA
1 TTTTACATAAAAT-ATGATATAAATATATAAAATCAAA
9898765 TTTTA
1 TTTTA
9898770 ACCGTGAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 6 0.17
38 21 0.58
39 9 0.25
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (37 bp):
TTTTACATAAAATATGATATAAATATATAAAATCAAA
Found at i:9901533 original size:14 final size:14
Alignment explanation
Indices: 9901514--9901543 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9901504 TTAGGCCAGG
9901514 AAGCAATGGTAATC
1 AAGCAATGGTAATC
9901528 AAGCAATGGTAATC
1 AAGCAATGGTAATC
9901542 AA
1 AA
9901544 ATGTTGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (14 bp):
AAGCAATGGTAATC
Found at i:9905173 original size:22 final size:22
Alignment explanation
Indices: 9905147--9905189 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9905137 TGTATATTTA
9905147 TATTTGTAT-CTCTAGAATTAAG
1 TATTTGTATCCT-TAGAATTAAG
9905169 TATTTGTATCCTTAGAATTAA
1 TATTTGTATCCTTAGAATTAA
9905190 TGAATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (22 bp):
TATTTGTATCCTTAGAATTAAG
Found at i:9909048 original size:22 final size:22
Alignment explanation
Indices: 9909023--9909066 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9909013 TGTATATTTA
*
9909023 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9909045 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9909067 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:9918814 original size:24 final size:26
Alignment explanation
Indices: 9918782--9918829 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
9918772 CTTATTATAT
9918782 TTTTTTAAT-TTTAATTTT-TCTCAA
1 TTTTTTAATATTTAATTTTCTCTCAA
9918806 TTTTTTAATATTTAATTTTCTCTC
1 TTTTTTAATATTTAATTTTCTCTC
9918830 TCTCTGCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTTTAATATTTAATTTTCTCTCAA
Found at i:9918818 original size:26 final size:25
Alignment explanation
Indices: 9918782--9918829 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
9918772 CTTATTATAT
*
9918782 TTTTTTAATTTTAATTTT-TCTCAA
1 TTTTTTAAATTTAATTTTCTCTCAA
9918806 TTTTTTAATATTTAATTTTCTCTC
1 TTTTTTAA-ATTTAATTTTCTCTC
9918830 TCTCTGCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTTAAATTTAATTTTCTCTCAA
Found at i:9918938 original size:21 final size:21
Alignment explanation
Indices: 9918913--9918957 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
9918903 ACATAAACTC
*
9918913 AAAACAGAG-AAGAAAAATAAA
1 AAAACAGAGCAA-AAAAAGAAA
9918934 AAAACAGAGCAAAAAAAGAAA
1 AAAACAGAGCAAAAAAAGAAA
9918955 AAA
1 AAA
9918958 GAATCAGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.02
Consensus pattern (21 bp):
AAAACAGAGCAAAAAAAGAAA
Found at i:9919496 original size:12 final size:12
Alignment explanation
Indices: 9919479--9919520 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
9919469 AACAAAAAGA
9919479 TTATTTCTTTTT
1 TTATTTCTTTTT
*
9919491 TTATTT-TTTCT
1 TTATTTCTTTTT
*
9919502 TTATTTTCTTATT
1 TTA-TTTCTTTTT
9919515 TTATTT
1 TTATTT
9919521 TGACTGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 7 0.28
12 12 0.48
13 6 0.24
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (12 bp):
TTATTTCTTTTT
Found at i:9928165 original size:18 final size:18
Alignment explanation
Indices: 9928117--9928171 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
9928107 ATTTTTATAT
*
9928117 TAATACAAATTATAAAATA
1 TAATATAAA-TATAAAATA
* **
9928136 TAATTTTCATATAAAATA
1 TAATATAAATATAAAATA
9928154 TAATATAAATATATAAAT
1 TAATATAAATATA-AAAT
9928172 TATCAATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATATAAATATAAAATA
Found at i:9928863 original size:13 final size:14
Alignment explanation
Indices: 9928836--9928864 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9928826 TTATTTTAGT
9928836 TTATTCAATTAAAA
1 TTATTCAATTAAAA
9928850 TTATTCAA-TAAAA
1 TTATTCAATTAAAA
9928863 TT
1 TT
9928865 GAATTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
TTATTCAATTAAAA
Found at i:9929215 original size:15 final size:16
Alignment explanation
Indices: 9929187--9929219 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9929177 GCTCTATTTG
9929187 AATTGACAACGAAATT
1 AATTGACAACGAAATT
*
9929203 AATT-ACAATGAAATT
1 AATTGACAACGAAATT
9929218 AA
1 AA
9929220 AAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (16 bp):
AATTGACAACGAAATT
Found at i:9929274 original size:20 final size:20
Alignment explanation
Indices: 9929249--9929291 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
9929239 TATAGTTATG
9929249 ATTAAAATAAAATT-ATTAAA
1 ATTAAAA-AAAATTAATTAAA
9929269 ATTAAAAAAAATTAATTAAA
1 ATTAAAAAAAATTAATTAAA
9929289 ATT
1 ATT
9929292 TTATATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTAAAAAAAATTAATTAAA
Found at i:9930163 original size:32 final size:32
Alignment explanation
Indices: 9930124--9930196 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
9930114 TTTTAGTGTG
9930124 ATATTTAAATTATAAATTTATTAATTA-ATA-TA
1 ATATTTAAA-TA-AAATTTATTAATTATATATTA
* *
9930156 ATATTTAAATAATATTTATTTATTATATATTA
1 ATATTTAAATAAAATTTATTAATTATATATTA
*
9930188 TTATTTAAA
1 ATATTTAAA
9930197 ATTAATTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 12 0.33
31 5 0.14
32 19 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
ATATTTAAATAAAATTTATTAATTATATATTA
Found at i:9936225 original size:2 final size:2
Alignment explanation
Indices: 9936218--9936247 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
9936208 TTGAGTCGAT
9936218 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
9936248 TTGAATTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9936292 original size:27 final size:28
Alignment explanation
Indices: 9936257--9936312 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
9936247 TTTGAATTCG
* *
9936257 ATTTAATTTGATATTATATAAAA-TAAT
1 ATTTAATTTGAAATAATATAAAATTAAT
* *
9936284 ATTTGATTTGAAATAATTTAAAATTAAT
1 ATTTAATTTGAAATAATATAAAATTAAT
9936312 A
1 A
9936313 AAATATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTTAATTTGAAATAATATAAAATTAAT
Found at i:9942022 original size:26 final size:26
Alignment explanation
Indices: 9941986--9942038 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
9941976 TTGGGATTGA
9941986 AAGGCAATGAATGCATATCTTTCTGC
1 AAGGCAATGAATGCATATCTTTCTGC
9942012 AAGGCAATGAATGCATATCTTTCTGC
1 AAGGCAATGAATGCATATCTTTCTGC
9942038 A
1 A
9942039 TGCAGGCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (26 bp):
AAGGCAATGAATGCATATCTTTCTGC
Found at i:9944765 original size:6 final size:6
Alignment explanation
Indices: 9944754--9944780 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9944744 AGTTCTGTTC
9944754 TAATTA TAATTA TAATTA TAATTA TAA
1 TAATTA TAATTA TAATTA TAATTA TAA
9944781 CAAACTCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:9950782 original size:23 final size:23
Alignment explanation
Indices: 9950751--9950797 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
9950741 CACATTTCCT
*
9950751 TTTTATAAT-ATTAAATGAAAAA
1 TTTTATAATGATTAAATAAAAAA
*
9950773 TTTTATTAATGATTAGATAAAAAA
1 TTTTA-TAATGATTAAATAAAAAA
9950797 T
1 T
9950798 CACAAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
TTTTATAATGATTAAATAAAAAA
Found at i:9955490 original size:19 final size:19
Alignment explanation
Indices: 9955465--9955509 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
9955455 TATAAATATC
* *
9955465 ATATTAAATATTTTTTTATA
1 ATATTAAAGA-TTATTTATA
9955485 AT-TTAAAGATTATTTATA
1 ATATTAAAGATTATTTATA
9955503 ATATTAA
1 ATATTAA
9955510 TCTGAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
19 10 0.45
20 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATTAAAGATTATTTATA
Found at i:9963135 original size:1 final size:1
Alignment explanation
Indices: 9963129--9963157 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
9963119 ACAGGAAACT
9963129 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9963158 CTAAACTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9966381 original size:29 final size:30
Alignment explanation
Indices: 9966301--9966388 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
9966291 AAAATTCAAT
*
9966301 AATCAATTAAACCCTTAATATTTTA-TTAC
1 AATCAATTAAACCCTTAATATTTTATTTTC
* * ** *
9966330 AATTAATT-TAGTCATACATATTTTATTTTC
1 AATCAATTAAACCCTTA-ATATTTTATTTTC
9966360 AATCAATTAAACCCTTAA-ATTTTTATTTT
1 AATCAATTAAACCCTTAATA-TTTTATTTT
9966389 TACTCTATTA
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
28 4 0.09
29 16 0.36
30 20 0.45
31 4 0.09
ACGTcount: A:0.38, C:0.14, G:0.01, T:0.48
Consensus pattern (30 bp):
AATCAATTAAACCCTTAATATTTTATTTTC
Found at i:9968205 original size:12 final size:13
Alignment explanation
Indices: 9968183--9968216 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
9968173 GACACGATAT
9968183 AAAAATCATATAA
1 AAAAATCATATAA
9968196 AAAAAT-ATATAA
1 AAAAATCATATAA
9968208 AAAAA-CATA
1 AAAAATCATA
9968217 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATCATATAA
Found at i:9968273 original size:23 final size:22
Alignment explanation
Indices: 9968226--9968266 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9968216 AATTTAAAAT
9968226 TTTAATAAATATTATAAATAAA
1 TTTAATAAATATTATAAATAAA
9968248 TTTAATAAA-ATTA-AAATAA
1 TTTAATAAATATTATAAATAA
9968267 TATATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAATAAATATTATAAATAAA
Found at i:9968321 original size:14 final size:14
Alignment explanation
Indices: 9968291--9968348 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
9968281 TCAAATTAAG
9968291 ATAAATTATGATA-A
1 ATAAATTAT-ATATA
9968305 ATAAATTATATATA
1 ATAAATTATATATA
*
9968319 ATATAA-TATAAATA
1 ATA-AATTATATATA
*
9968333 TACAAATTATA-ATA
1 -ATAAATTATATATA
9968347 AT
1 AT
9968349 TCAAGTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.11
14 25 0.68
15 8 0.22
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
ATAAATTATATATA
Found at i:9969858 original size:35 final size:36
Alignment explanation
Indices: 9969819--9969894 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
9969809 TTTATATTTG
9969819 ATAAATAAAATTATA-ATAAAATA-AA-ATAAATTATA
1 ATAAAT-AAATTATATATAAAATATAATATAAA-TATA
* *
9969854 ATAAATAATTTTTATATAAAATATAATATAAATATA
1 ATAAATAAATTATATATAAAATATAATATAAATATA
9969890 A-AAAT
1 ATAAAT
9969895 TATTAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
34 6 0.17
35 18 0.50
36 7 0.19
37 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (36 bp):
ATAAATAAATTATATATAAAATATAATATAAATATA
Found at i:9969859 original size:10 final size:10
Alignment explanation
Indices: 9969826--9969859 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9969816 TTGATAAATA
9969826 AAATTATAAT
1 AAATTATAAT
* *
9969836 AAAATAAAAT
1 AAATTATAAT
9969846 AAATTATAAT
1 AAATTATAAT
9969856 AAAT
1 AAAT
9969860 AATTTTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTATAAT
Found at i:9974060 original size:17 final size:17
Alignment explanation
Indices: 9974038--9974070 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9974028 TTATTATATT
*
9974038 ATTTCTCTGCCCAACCC
1 ATTTCTCTCCCCAACCC
9974055 ATTTCTCTCCCCAACC
1 ATTTCTCTCCCCAACC
9974071 AACCCCAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.48, G:0.03, T:0.30
Consensus pattern (17 bp):
ATTTCTCTCCCCAACCC
Found at i:9975274 original size:7 final size:7
Alignment explanation
Indices: 9975250--9975285 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
9975240 TTAATAAACC
9975250 AAATTTAA
1 AAATTT-A
9975258 AAAGTTTA
1 AAA-TTTA
9975266 AAATTTA
1 AAATTTA
9975273 AAATTTA
1 AAATTTA
9975280 AAATTT
1 AAATTT
9975286 TTATTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 17 0.63
8 7 0.26
9 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:9976782 original size:7 final size:7
Alignment explanation
Indices: 9976770--9976806 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
9976760 TGGGAGGAGA
9976770 AACTTAC
1 AACTTAC
9976777 AACTTAC
1 AACTTAC
9976784 AACTTAC
1 AACTTAC
9976791 AACTTAC
1 AACTTAC
*
9976798 AACCTAC
1 AACTTAC
9976805 AA
1 AA
9976807 GCCTAGGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (7 bp):
AACTTAC
Found at i:9986924 original size:32 final size:29
Alignment explanation
Indices: 9986881--9986943 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
9986871 ATAATTTAAA
*
9986881 ATATAATTTTAATAATACGACAAAAAAATTAT
1 ATATAAATTTAATAA-A--ACAAAAAAATTAT
*
9986913 ATATAAATTTAATAAAATAAAAAAATTAT
1 ATATAAATTTAATAAAACAAAAAAATTAT
9986942 AT
1 AT
9986944 TTTATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 14 0.48
31 1 0.03
32 14 0.48
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (29 bp):
ATATAAATTTAATAAAACAAAAAAATTAT
Found at i:9995412 original size:16 final size:17
Alignment explanation
Indices: 9995391--9995424 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9995381 GAATAGGATG
*
9995391 AATTTTTATTTG-TTTT
1 AATTTTGATTTGATTTT
9995407 AATTTTGATTTGATTTT
1 AATTTTGATTTGATTTT
9995424 A
1 A
9995425 TAAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
AATTTTGATTTGATTTT
Found at i:9995554 original size:16 final size:17
Alignment explanation
Indices: 9995535--9995572 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9995525 ATATAATATT
*
9995535 TATAAAATAT-TTTTAA
1 TATAAAATATATTTAAA
*
9995551 TATAAATTATATTTAAA
1 TATAAAATATATTTAAA
9995568 TATAA
1 TATAA
9995573 TAGTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATAAAATATATTTAAA
Found at i:9996490 original size:21 final size:21
Alignment explanation
Indices: 9996466--9996512 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9996456 AATAATTATA
*
9996466 TAAATT-AATTGAGTTAAATTT
1 TAAATTCAATTGA-TGAAATTT
*
9996487 TAAATTCAATTTATGAAATTT
1 TAAATTCAATTGATGAAATTT
9996508 TAAAT
1 TAAAT
9996513 GATTGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (21 bp):
TAAATTCAATTGATGAAATTT
Found at i:10003521 original size:4 final size:4
Alignment explanation
Indices: 10003512--10003556 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
10003502 TAATATTGTC
*
10003512 TACA TACA TACA TACA TACA TACA TACA TATA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T
10003557 CAATCTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:10008072 original size:30 final size:31
Alignment explanation
Indices: 10008018--10008093 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
10008008 CTTTTAGTTT
* *
10008018 TGATATCACTTATTAAAGATCACCATAACTC
1 TGATATCACTTGTTAAAGATCACCACAACTC
**
10008049 TGATATCACTTGTTGGA-ATCACCACAACTC
1 TGATATCACTTGTTAAAGATCACCACAACTC
10008079 T-ACTATCACTTGTTA
1 TGA-TATCACTTGTTA
10008094 GGTCAAATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 24 0.62
31 14 0.36
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (31 bp):
TGATATCACTTGTTAAAGATCACCACAACTC
Found at i:10010739 original size:21 final size:21
Alignment explanation
Indices: 10010594--10010740 Score: 159
Period size: 21 Copynumber: 7.0 Consensus size: 21
10010584 TACAAGACCT
* * *
10010594 CACAACAACTTTCAGTTCAAA
1 CACAACAGCTTCCAATTCAAA
* * ** *
10010615 TACAATAGCTTATAGTTCAAA
1 CACAACAGCTTCCAATTCAAA
*
10010636 TACAACAGCTTCCAATTCAAA
1 CACAACAGCTTCCAATTCAAA
* *
10010657 CACAACAGCTTTCAGTTCAAA
1 CACAACAGCTTCCAATTCAAA
10010678 CACAACAGCTTCCAATTCAAA
1 CACAACAGCTTCCAATTCAAA
* *
10010699 CACAACAGCTTCCAGTTCAAT
1 CACAACAGCTTCCAATTCAAA
* *
10010720 CACAACAGCTTTCAACTCAAA
1 CACAACAGCTTCCAATTCAAA
10010741 AAATGTTGTC
Statistics
Matches: 106, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 106 1.00
ACGTcount: A:0.41, C:0.29, G:0.07, T:0.24
Consensus pattern (21 bp):
CACAACAGCTTCCAATTCAAA
Found at i:10010740 original size:63 final size:63
Alignment explanation
Indices: 10010593--10010733 Score: 201
Period size: 63 Copynumber: 2.2 Consensus size: 63
10010583 CTACAAGACC
* * * * * *
10010593 TCACAACAACTTTCAGTTCAAATACAATAGCTTATAGTTCAAATACAACAGCTTCCAATTCAA
1 TCACAACAGCTTTCAGTTCAAACACAACAGCTTACAATTCAAACACAACAGCTTCCAATTCAA
* * *
10010656 ACACAACAGCTTTCAGTTCAAACACAACAGCTTCCAATTCAAACACAACAGCTTCCAGTTCAA
1 TCACAACAGCTTTCAGTTCAAACACAACAGCTTACAATTCAAACACAACAGCTTCCAATTCAA
10010719 TCACAACAGCTTTCA
1 TCACAACAGCTTTCA
10010734 ACTCAAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.25
Consensus pattern (63 bp):
TCACAACAGCTTTCAGTTCAAACACAACAGCTTACAATTCAAACACAACAGCTTCCAATTCAA
Found at i:10011411 original size:17 final size:15
Alignment explanation
Indices: 10011366--10011412 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
10011356 ATGAAATAAT
10011366 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
10011379 ATAATATATAACAAC
1 AAAATATATAACAAC
10011394 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
10011411 AA
1 AA
10011413 TATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:10016148 original size:57 final size:56
Alignment explanation
Indices: 10016087--10016212 Score: 163
Period size: 51 Copynumber: 2.3 Consensus size: 56
10016077 GAAGGATGCA
* *
10016087 GAGCTGAAGCTGAAGAATGATGTTAATATTGAGGACTTAAAATTAATAAAAGACAT
1 GAGCTGAAGCTGAAGAATGATGTTAATATTAAGGACTTAAAATTAACAAAAGACAT
* *
10016143 ----TG-AGCTGAAGAATGATGTTAATGTTAAGGACTTAAAATTAGCAAAAGACAGT
1 GAGCTGAAGCTGAAGAATGATGTTAATATTAAGGACTTAAAATTAACAAAAGACA-T
*
10016195 GAGCTGAAGCTAAAGAAT
1 GAGCTGAAGCTGAAGAAT
10016213 AATAATTTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
51 44 0.75
52 3 0.05
56 2 0.03
57 10 0.17
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (56 bp):
GAGCTGAAGCTGAAGAATGATGTTAATATTAAGGACTTAAAATTAACAAAAGACAT
Found at i:10016154 original size:51 final size:51
Alignment explanation
Indices: 10016094--10016203 Score: 175
Period size: 51 Copynumber: 2.2 Consensus size: 51
10016084 GCAGAGCTGA
* * *
10016094 AGCTGAAGAATGATGTTAATATTGAGGACTTAAAATTAATAAAAGACATTG
1 AGCTGAAGAATGATGTTAATATTAAGGACTTAAAATTAACAAAAGACAGTG
* *
10016145 AGCTGAAGAATGATGTTAATGTTAAGGACTTAAAATTAGCAAAAGACAGTG
1 AGCTGAAGAATGATGTTAATATTAAGGACTTAAAATTAACAAAAGACAGTG
10016196 AGCTGAAG
1 AGCTGAAG
10016204 CTAAAGAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (51 bp):
AGCTGAAGAATGATGTTAATATTAAGGACTTAAAATTAACAAAAGACAGTG
Found at i:10017358 original size:15 final size:15
Alignment explanation
Indices: 10017334--10017367 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10017324 TTCGAAGGAA
10017334 GAAAGCTAAATAGAT
1 GAAAGCTAAATAGAT
* *
10017349 GAAAGTTAAATGGAT
1 GAAAGCTAAATAGAT
10017364 GAAA
1 GAAA
10017368 ACAAGTGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.21
Consensus pattern (15 bp):
GAAAGCTAAATAGAT
Found at i:10020961 original size:17 final size:17
Alignment explanation
Indices: 10020931--10020982 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
10020921 ATTATGTATA
*
10020931 TTATA-TTTATTTAATT
1 TTATATTTTAATTAATT
**
10020947 TTATATTTTAATTAAAA
1 TTATATTTTAATTAATT
*
10020964 TAATATTTT-ATTAATT
1 TTATATTTTAATTAATT
10020980 TTA
1 TTA
10020983 GATCAAGTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATTTTAATTAATT
Done.