Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 12 of 131
Found at i:3061440 original size:2 final size:2
Alignment explanation
Indices: 3061433--3061457 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3061423 TAATCATGAA
3061433 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 A
3061458 CACACACACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3067588 original size:17 final size:17
Alignment explanation
Indices: 3067566--3067607 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3067556 TTAATTATTT
3067566 TATTTTATATTGATATA
1 TATTTTATATTGATATA
* *
3067583 TATTTTAATATTTATTTA
1 TATTTT-ATATTGATATA
3067601 -ATTTTAT
1 TATTTTAT
3067608 GTTTACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTTTATATTGATATA
Found at i:3068818 original size:14 final size:15
Alignment explanation
Indices: 3068793--3068822 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3068783 ATTATTTTAA
3068793 TAAAATAATAAAATT
1 TAAAATAATAAAATT
3068808 TAAAA-AATAAAATT
1 TAAAATAATAAAATT
3068822 T
1 T
3068823 GTAAACTTTG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAATAATAAAATT
Found at i:3070269 original size:25 final size:25
Alignment explanation
Indices: 3070212--3070270 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
3070202 TCCTTTTATC
*
3070212 TATTTTTTTAAATATTTTAAAATTA
1 TATTTTTTTAAATATTTAAAAATTA
* * * *
3070237 TGTCTTTTTTCAGTATTTAAAAATTT
1 TAT-TTTTTTAAATATTTAAAAATTA
3070263 TATTTTTT
1 TATTTTTT
3070271 ATGATTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (25 bp):
TATTTTTTTAAATATTTAAAAATTA
Found at i:3076972 original size:17 final size:19
Alignment explanation
Indices: 3076950--3076988 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3076940 TGATATTTTT
3076950 AAATA-TTTATA-TTTAAA
1 AAATATTTTATATTTTAAA
3076967 AAATATTTTATATTTTAAA
1 AAATATTTTATATTTTAAA
3076986 AAA
1 AAA
3076989 ATAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATATTTTATATTTTAAA
Found at i:3082551 original size:29 final size:25
Alignment explanation
Indices: 3082507--3082560 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 25
3082497 ATTCTTAAAT
3082507 TTTAAAATTAAAATAAAATATATTATA
1 TTTAAAATTAAAAT-AAATA-ATTATA
3082534 TTTAATAATTTAAAATAAATAATTATA
1 TTTAA-AA-TTAAAATAAATAATTATA
3082561 ACTATCGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 11 0.44
28 7 0.28
29 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTAAAATTAAAATAAATAATTATA
Found at i:3082845 original size:21 final size:20
Alignment explanation
Indices: 3082807--3082847 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3082797 ATTTCCTTCA
*
3082807 TTTTTTTTTCCTTGTTTTTT
1 TTTTTTTTTCCTTCTTTTTT
*
3082827 TTTTTTTTTTCTATCTTTTTT
1 TTTTTTTTTCCT-TCTTTTTT
3082848 CCGTGTTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTCCTTCTTTTTT
Found at i:3083593 original size:22 final size:23
Alignment explanation
Indices: 3083554--3083612 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
3083544 AAGTAATGTT
*
3083554 ATAATTATTATATTAATAAAATA
1 ATAATTATTATATAAATAAAATA
3083577 ATAATT-TTATATAAATAATATATTA
1 ATAATTATTATATAAATAA-A-A-TA
*
3083602 ATAAATATTAT
1 ATAATTATTAT
3083613 TATATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 11 0.37
23 7 0.23
24 1 0.03
25 7 0.23
26 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAATTATTATATAAATAAAATA
Found at i:3083594 original size:17 final size:15
Alignment explanation
Indices: 3083562--3083608 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
3083552 TTATAATTAT
3083562 TATATTAATAAAATAA
1 TATATTAAT-AAATAA
*
3083578 TAATTTTATATAAATAA
1 T-ATATTA-ATAAATAA
3083595 TATATTAATAAATA
1 TATATTAATAAATA
3083609 TTATTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.26
16 6 0.22
17 12 0.44
18 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATATTAATAAATAA
Found at i:3083750 original size:30 final size:29
Alignment explanation
Indices: 3083714--3083771 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
3083704 CCAAAGATAT
**
3083714 TTTTAAATTTAATAAATAAAAAAATAAAAA
1 TTTTAAAAATAATAAAT-AAAAAATAAAAA
*
3083744 TTTTAAAAATATTAAATAAAAAATAAAA
1 TTTTAAAAATAATAAATAAAAAATAAAA
3083772 CATAGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
TTTTAAAAATAATAAATAAAAAATAAAAA
Found at i:3084157 original size:17 final size:18
Alignment explanation
Indices: 3084130--3084163 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3084120 ATATTTTTTA
3084130 TAATCTAAAAAAATTAAT
1 TAATCTAAAAAAATTAAT
3084148 TAAT-TAAAAAAATTAA
1 TAATCTAAAAAAATTAA
3084164 AATTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCTAAAAAAATTAAT
Found at i:3085352 original size:3 final size:3
Alignment explanation
Indices: 3085344--3085382 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
3085334 AATGCTAAAG
3085344 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3085383 GAATAATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3085665 original size:16 final size:16
Alignment explanation
Indices: 3085644--3085800 Score: 97
Period size: 17 Copynumber: 9.5 Consensus size: 16
3085634 TTTTCAAAAT
*
3085644 CCTAAAATTTGAAACC
1 CCTAAAATCTGAAACC
* *
3085660 CCTAAAAATCTAAAATC
1 CCT-AAAATCTGAAACC
* *
3085677 CCTTAAATCT-CAACC
1 CCTAAAATCTGAAACC
3085692 CCTAAAATCTGAAACC
1 CCTAAAATCTGAAACC
3085708 CTCATAAAAT-TCGAAACC
1 C-C-TAAAATCT-GAAACC
* *
3085726 CCTAAAAAT-TCAAAATC
1 CCT-AAAATCT-GAAACC
* *
3085743 TCTTAAATCT-AAACC
1 CCTAAAATCTGAAACC
*
3085758 GCTAAAATCTGAAACCC
1 CCTAAAATCTGAAA-CC
**
3085775 CCATAAAATCCAAAATCC
1 CC-TAAAATCTGAAA-CC
3085793 CCTAAAAT
1 CCTAAAAT
3085801 TCAAAATCCC
Statistics
Matches: 112, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
15 24 0.21
16 22 0.20
17 39 0.35
18 27 0.24
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.23
Consensus pattern (16 bp):
CCTAAAATCTGAAACC
Found at i:3085675 original size:32 final size:32
Alignment explanation
Indices: 3085637--3085764 Score: 100
Period size: 32 Copynumber: 3.9 Consensus size: 32
3085627 TTCTTAATTT
*
3085637 TCAAAATCCTAAAATTTGAAACCCCTAAAAATC
1 TCAAAATCCTAAAATCT-AAACCCCTAAAAATC
* *
3085670 T-AAAATCCCTTAAATCTCAACCCCT-AAAATC
1 TCAAAAT-CCTAAAATCTAAACCCCTAAAAATC
* * * *
3085701 TGAAACCCTCATAAAATTCGAAACCCCTAAAAAT-
1 TCAAA--ATCCTAAAA-TCTAAACCCCTAAAAATC
* *
3085735 TCAAAATCTCTTAAATCTAAACCGCTAAAA
1 TCAAAATC-CTAAAATCTAAACCCCTAAAA
3085765 TCTGAAACCC
Statistics
Matches: 74, Mismatches: 14, Indels: 15
0.72 0.14 0.15
Matches are distributed among these distances:
31 7 0.09
32 30 0.41
33 18 0.24
34 14 0.19
35 5 0.07
ACGTcount: A:0.46, C:0.27, G:0.03, T:0.24
Consensus pattern (32 bp):
TCAAAATCCTAAAATCTAAACCCCTAAAAATC
Found at i:3085717 original size:18 final size:17
Alignment explanation
Indices: 3085645--3085784 Score: 75
Period size: 16 Copynumber: 8.5 Consensus size: 17
3085635 TTTCAAAATC
*
3085645 CTAAAATTTGAAACCC-
1 CTAAAATCTGAAACCCT
*
3085661 CTAAAAATCTAAAATCCCT
1 CT-AAAATCTGAAA-CCCT
*
3085680 -T-AAATCT-CAACCC-
1 CTAAAATCTGAAACCCT
3085693 CTAAAATCTGAAACCCT
1 CTAAAATCTGAAACCCT
3085710 CATAAAAT-TCGAAACCC-
1 C-TAAAATCT-GAAACCCT
* **
3085727 CTAAAAAT-TCAAAATCT
1 CT-AAAATCTGAAACCCT
* *
3085744 CTTAAATCT-AAA-CCG
1 CTAAAATCTGAAACCCT
*
3085759 CTAAAATCTGAAACCCC
1 CTAAAATCTGAAACCCT
3085776 CATAAAATC
1 C-TAAAATC
3085785 CAAAATCCCC
Statistics
Matches: 97, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
14 4 0.04
15 17 0.18
16 28 0.29
17 24 0.25
18 24 0.25
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.24
Consensus pattern (17 bp):
CTAAAATCTGAAACCCT
Found at i:3085724 original size:66 final size:66
Alignment explanation
Indices: 3085646--3085810 Score: 226
Period size: 66 Copynumber: 2.5 Consensus size: 66
3085636 TTCAAAATCC
* * *
3085646 TAAAATTTGAAACCCCTAAAAATCTAAAATCCCTTAAATCTCAACCCCTAAAATCTGAAACCCTC
1 TAAAATTCGAAACCCCTAAAAATCTAAAATCCCTTAAATCTAAACCCCTAAAATCTGAAACCCCC
3085711 A
66 A
* *
3085712 TAAAATTCGAAACCCCTAAAAAT-TCAAAATCTCTTAAATCTAAACCGCTAAAATCTGAAACCCC
1 TAAAATTCGAAACCCCTAAAAATCT-AAAATCCCTTAAATCTAAACCCCTAAAATCTGAAACCCC
3085776 CA
65 CA
* * *
3085778 TAAAATCCAAAATCCCCTAAAATTC-AAAATCCC
1 TAAAATTCGAAA-CCCCTAAAAATCTAAAATCCC
3085811 AAACCTTTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
65 1 0.01
66 76 0.87
67 10 0.11
ACGTcount: A:0.45, C:0.28, G:0.03, T:0.23
Consensus pattern (66 bp):
TAAAATTCGAAACCCCTAAAAATCTAAAATCCCTTAAATCTAAACCCCTAAAATCTGAAACCCCC
A
Found at i:3085800 original size:17 final size:17
Alignment explanation
Indices: 3085759--3085810 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
3085749 ATCTAAACCG
** *
3085759 CTAAAATCTGAAACCCC
1 CTAAAATCCAAAATCCC
3085776 CATAAAATCCAAAATCCC
1 C-TAAAATCCAAAATCCC
*
3085794 CTAAAATTCAAAATCCC
1 CTAAAATCCAAAATCCC
3085811 AAACCTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (17 bp):
CTAAAATCCAAAATCCC
Found at i:3097276 original size:14 final size:12
Alignment explanation
Indices: 3097253--3097295 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 12
3097243 TATTTTACTT
3097253 AAAAAAATAAATA
1 AAAAAAATAAA-A
3097266 AAAAAATATAAAACA
1 AAAAAA-AT-AAA-A
3097281 AAAAAAATAAAA
1 AAAAAAATAAAA
3097293 AAA
1 AAA
3097296 GGAAGTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 4 0.15
13 9 0.33
14 4 0.15
15 10 0.37
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:3098712 original size:171 final size:171
Alignment explanation
Indices: 3098506--3099223 Score: 939
Period size: 171 Copynumber: 4.2 Consensus size: 171
3098496 CCAGTCATTT
* * * * *
3098506 ATTTTTTGACTCACGATTTAATCTCGATATCTTTATCTTTCGATTCGTGATTCAATCTCGATCTC
1 ATTTTTTGACTCGCGGTTTAATCTCGATCTCTTTATCTTTCGATTCGCGGTTCAATCTCGATCTC
*
3098571 TTTAATTTAAAATTACAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCC-AG
66 TTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCCGA-
*
3098635 TCTTATTATTTTCAGACTTGTGATTCAATCCAAGTTAACGTC
130 TCTTCTTATTTTCAGACTTGTGATTCAATCCAAGTTAACGTC
* * * *
3098677 ATTTTTTGACTCGCGGTTTAATCTCTATCTCTTTATCCTTT-GATTTGTGGTTCAATC-CTAATC
1 ATTTTTTGACTCGCGGTTTAATCTCGATCTCTTTAT-CTTTCGATTCGCGGTTCAATCTC-GATC
* *
3098740 TCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTATCTTCTGACTTGTGGTTCAATCCC-
64 TCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCCG
*
3098804 AGTCTTCTTATTTTCAGACTTGTGATTCAATCCAAGTTAACGTT
129 A-TCTTCTTATTTTCAGACTTGTGATTCAATCCAAGTTAACGTC
* * * * * * *
3098848 ATTTTCTAACTCGCTGTTTAATCTCGATCTTTTTATCCTTCGATTCACGGTTCATTCTCGATCTC
1 ATTTTTTGACTCGCGGTTTAATCTCGATCTCTTTATCTTTCGATTCGCGGTTCAATCTCGATCTC
* *
3098913 TTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCTCGAT
66 TTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCCGAT
*
3098978 CTTCTTATTTTCAGACTTGTGATTCAATCCAAGTTAACATC
131 CTTCTTATTTTCAGACTTGTGATTCAATCCAAGTTAACGTC
* * * * *
3099019 ATTTTCTGACTTGCGGTTTAATC-CG-TCTCTTTATC-CTCTGATTCGCGGTTCAATCTTGCTCT
1 ATTTTTTGACTCGCGGTTTAATCTCGATCTCTTTATCTTTC-GATTCGCGGTTCAATCTCGATCT
* * * * * * *
3099081 TTTTAATTCAAAATCATAGTTTAATCTCGGTTATTGTTATCCTTTGACTCGTGG-TCTAATCTCG
65 CTTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTC-AATCCCG
* * *
3099145 ATCTCCTTATTTTCGGACTTGTGATTCAATCCAAGTTAATGTC
129 ATCTTCTTATTTTCAGACTTGTGATTCAATCCAAGTTAACGTC
* * * *
3099188 ATTTTTTGATTCGCGATTTAATCCCGATCTTTTTAT
1 ATTTTTTGACTCGCGGTTTAATCTCGATCTCTTTAT
3099224 TCTCTAATTC
Statistics
Matches: 486, Mismatches: 52, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
168 4 0.01
169 142 0.29
170 8 0.02
171 326 0.67
172 6 0.01
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (171 bp):
ATTTTTTGACTCGCGGTTTAATCTCGATCTCTTTATCTTTCGATTCGCGGTTCAATCTCGATCTC
TTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCCGAT
CTTCTTATTTTCAGACTTGTGATTCAATCCAAGTTAACGTC
Found at i:3099275 original size:34 final size:34
Alignment explanation
Indices: 3099204--3099284 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
3099194 TGATTCGCGA
*
3099204 TTTAATCCCGATCTTTTTATTCTCTAATTCATGG
1 TTTAATCCCGATCTTTTTATTCTCTAATTCATAG
* * * **
3099238 TTTAATCTCGATCTTTTTATTCTTTGATTTGTAG
1 TTTAATCCCGATCTTTTTATTCTCTAATTCATAG
*
3099272 TTTAATCCTGATC
1 TTTAATCCCGATC
3099285 CTTAGTATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (34 bp):
TTTAATCCCGATCTTTTTATTCTCTAATTCATAG
Found at i:3099460 original size:35 final size:35
Alignment explanation
Indices: 3099404--3099684 Score: 128
Period size: 35 Copynumber: 7.9 Consensus size: 35
3099394 CAATCGATTC
* * * *
3099404 TTTAC-TTCTCGAGTTGTGATTTAACCCCAGTCGCT
1 TTTACTTTCT-GACTTGCGATTTAATCCCAGTCGTT
*
3099439 TTTACTTTCTGACTTGCGATTTAATCCCAGTCATT
1 TTTACTTTCTGACTTGCGATTTAATCCCAGTCGTT
* * * * *
3099474 CCTATAGTTTCTCAACTTGCAATTTAATCCCAATCGTT
1 --TTTACTTTCT-GACTTGCGATTTAATCCCAGTCGTT
*
3099512 TTTA-TTTCTTTGACTTAC-AGTTTAA-CCCAGTCGTT
1 TTTACTTTC--TGACTTGCGA-TTTAATCCCAGTCGTT
* * * *
3099547 TTTATTTTTTTGACTTGCGATTTAATCCTAGTCATT
1 TTTA-CTTTCTGACTTGCGATTTAATCCCAGTCGTT
* * * * * * * *
3099583 CCTATAGTTTCTCAACTTGTGGTTTAATCCTAATCATT
1 --TTTACTTTCT-GACTTGCGATTTAATCCCAGTCGTT
* * * * *
3099621 TTTATTTCTCTAACTTAC-AGTTTAA--CCTGTCATT
1 TTTACTT-TCTGACTTGCGA-TTTAATCCCAGTCGTT
*
3099655 TTTA-TTTCTGACTTACGATTTAATCCCAGT
1 TTTACTTTCTGACTTGCGATTTAATCCCAGT
3099685 TGTCTTTAAT
Statistics
Matches: 191, Mismatches: 36, Indels: 39
0.72 0.14 0.15
Matches are distributed among these distances:
32 14 0.07
33 3 0.02
34 14 0.07
35 55 0.29
36 41 0.21
37 19 0.10
38 45 0.24
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (35 bp):
TTTACTTTCTGACTTGCGATTTAATCCCAGTCGTT
Found at i:3099499 original size:38 final size:36
Alignment explanation
Indices: 3099450--3099684 Score: 106
Period size: 38 Copynumber: 6.6 Consensus size: 36
3099440 TTACTTTCTG
*
3099450 ACTTGCGATTTAATCCCAGTCATTCCTATAGTTTCTCA
1 ACTTGCAATTTAATCCCAGTCATT--TATAGTTTCTCA
* * * **
3099488 ACTTGCAATTTAATCCCAATCGTTTTTA-TTTCTTTG
1 ACTTGCAATTTAATCCCAGTCATTTATAGTTTC-TCA
* * * * * * **
3099524 ACTTACAGTTTAA-CCCAGTCGTTTTTATTTTTTTG
1 ACTTGCAATTTAATCCCAGTCATTTATAGTTTCTCA
* *
3099559 ACTTGCGATTTAATCCTAGTCATTCCTATAGTTTCTCA
1 ACTTGCAATTTAATCCCAGTCATT--TATAGTTTCTCA
*** * * *
3099597 ACTTGTGGTTTAATCCTAATCATTTTTA-TTTCTCTA
1 ACTTGCAATTTAATCCCAGTCATTTATAGTTTCTC-A
* * * * *
3099633 ACTTACAGTTTAA--CCTGTCATTTTTA-TTTCT-G
1 ACTTGCAATTTAATCCCAGTCATTTATAGTTTCTCA
* *
3099665 ACTTACGATTTAATCCCAGT
1 ACTTGCAATTTAATCCCAGT
3099685 TGTCTTTAAT
Statistics
Matches: 155, Mismatches: 34, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
32 11 0.07
34 19 0.12
35 36 0.23
36 40 0.26
38 49 0.32
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (36 bp):
ACTTGCAATTTAATCCCAGTCATTTATAGTTTCTCA
Found at i:3099562 original size:109 final size:107
Alignment explanation
Indices: 3099423--3099684 Score: 364
Period size: 109 Copynumber: 2.4 Consensus size: 107
3099413 CGAGTTGTGA
*
3099423 TTTAACCCCAGTCGCTTTTACTTTCTGACTTGCGATTTAATCCCAGTCATTCCTATAGTTTCTCA
1 TTTAA-CCCAGTCGTTTTTA-TTTCTGACTTGCGATTTAATCCCAGTCATTCCTATAGTTTCTCA
* * *
3099488 ACTTGCAATTTAATCCCAATCGTTTTTATTTCTTTGACTTACAG
64 ACTTGCAATTTAATCCCAATCATTTTTATTTCTCTAACTTACAG
* *
3099532 TTTAACCCAGTCGTTTTTATTTTTTTGACTTGCGATTTAATCCTAGTCATTCCTATAGTTTCTCA
1 TTTAACCCAGTCGTTTTTA--TTTCTGACTTGCGATTTAATCCCAGTCATTCCTATAGTTTCTCA
*** *
3099597 ACTTGTGGTTTAATCCTAATCATTTTTATTTCTCTAACTTACAG
64 ACTTGCAATTTAATCCCAATCATTTTTATTTCTCTAACTTACAG
* * *
3099641 TTTAA-CCTGTCATTTTTATTTCTGACTTACGATTTAATCCCAGT
1 TTTAACCCAGTCGTTTTTATTTCTGACTTGCGATTTAATCCCAGT
3099685 TGTCTTTAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
106 23 0.17
108 24 0.18
109 89 0.65
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (107 bp):
TTTAACCCAGTCGTTTTTATTTCTGACTTGCGATTTAATCCCAGTCATTCCTATAGTTTCTCAAC
TTGCAATTTAATCCCAATCATTTTTATTTCTCTAACTTACAG
Found at i:3099644 original size:36 final size:36
Alignment explanation
Indices: 3099450--3099663 Score: 136
Period size: 35 Copynumber: 5.9 Consensus size: 36
3099440 TTACTTTCTG
* *
3099450 ACTTGC-GATTTAATCCCAGTCATTCCTATAGTTTCTC-A
1 ACTTGCAG-TTTAATCCTAGTCATT--TTTA-TTTCTCTA
* * * * * *
3099488 ACTTGCAATTTAATCCCAATCGTTTTTATTTCTTTG
1 ACTTGCAGTTTAATCCTAGTCATTTTTATTTCTCTA
* * * * * *
3099524 ACTTACAGTTTAA-CCCAGTCGTTTTTATTTTTTTG
1 ACTTGCAGTTTAATCCTAGTCATTTTTATTTCTCTA
*
3099559 ACTTGC-GATTTAATCCTAGTCATTCCTATAGTTTCTC-A
1 ACTTGCAG-TTTAATCCTAGTCATT--TTTA-TTTCTCTA
** *
3099597 ACTTGTGGTTTAATCCTAATCATTTTTATTTCTCTA
1 ACTTGCAGTTTAATCCTAGTCATTTTTATTTCTCTA
*
3099633 ACTTACAGTTTAA-CCT-GTCATTTTTATTTCT
1 ACTTGCAGTTTAATCCTAGTCATTTTTATTTCT
3099664 GACTTACGAT
Statistics
Matches: 143, Mismatches: 24, Indels: 22
0.76 0.13 0.12
Matches are distributed among these distances:
34 15 0.10
35 44 0.31
36 36 0.25
38 43 0.30
39 5 0.03
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (36 bp):
ACTTGCAGTTTAATCCTAGTCATTTTTATTTCTCTA
Found at i:3099911 original size:18 final size:16
Alignment explanation
Indices: 3099883--3099927 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
3099873 TACATTTTTT
3099883 ATAATTTAAAAAAATTA
1 ATAA-TTAAAAAAATTA
3099900 ATTAATT-AAAAAATTA
1 A-TAATTAAAAAAATTA
3099916 A-AATTAAAAAAA
1 ATAATTAAAAAAA
3099928 AAAAAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.15
15 6 0.23
16 10 0.38
17 3 0.12
18 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATTAAAAAAATTA
Found at i:3099920 original size:14 final size:15
Alignment explanation
Indices: 3099891--3099926 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
3099881 TTATAATTTA
3099891 AAAAAATTAATTAATT
1 AAAAAATTAA-TAATT
3099907 AAAAAATTAA-AATT
1 AAAAAATTAATAATT
3099921 AAAAAA
1 AAAAAA
3099927 AAAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.50
16 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATTAATAATT
Found at i:3100724 original size:28 final size:28
Alignment explanation
Indices: 3100692--3100751 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
3100682 ATATAGAAAA
* * *
3100692 CATAGAAG-CAAAACGATGTTGTTTTAAG
1 CATAG-AGCCAAAACGACGTCGTTTCAAG
*
3100720 CATAGGGCCAAAACGACGTCGTTTCAAG
1 CATAGAGCCAAAACGACGTCGTTTCAAG
3100748 CATA
1 CATA
3100752 AGAGGATCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (28 bp):
CATAGAGCCAAAACGACGTCGTTTCAAG
Found at i:3101156 original size:3 final size:3
Alignment explanation
Indices: 3101148--3101186 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3101138 AATGCTAAAG
*
3101148 ATA ATA ATA ATA ATA ATA ATA A-A ATA AT- AGA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3101187 TATTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 3 0.09
3 29 0.91
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:3101504 original size:17 final size:16
Alignment explanation
Indices: 3101439--3101536 Score: 90
Period size: 17 Copynumber: 5.9 Consensus size: 16
3101429 TTTTCAAAAT
*
3101439 CCTAAAATCCGAAACC
1 CCTAAAATCCAAAACC
** *
3101455 TTTAAAAATCCAAAATC
1 CCT-AAAATCCAAAACC
*
3101472 CCTTAAATCC-AAACC
1 CCTAAAATCCAAAACC
3101487 CCTAAAATCCGAAAACCC
1 CCTAAAATCC-AAAA-CC
3101505 CCATAAAATCCAAAACCC
1 CC-TAAAATCCAAAA-CC
*
3101523 CCCAAAATCCAAAA
1 CCTAAAATCCAAAA
3101537 TCCCAAACCT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
15 13 0.19
16 7 0.10
17 26 0.39
18 13 0.19
19 8 0.12
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.15
Consensus pattern (16 bp):
CCTAAAATCCAAAACC
Found at i:3101632 original size:14 final size:13
Alignment explanation
Indices: 3101613--3101664 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 13
3101603 CCTCAAATTT
3101613 TAAAATCGAAACCC
1 TAAAATC-AAACCC
3101627 TAAAATCCTTCAAACCTC
1 TAAAA----TCAAACC-C
3101645 TAAAATCAAACCC
1 TAAAATCAAACCC
3101658 TAAAATC
1 TAAAATC
3101665 TATTTTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 8 0.24
14 12 0.36
17 5 0.15
18 8 0.24
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (13 bp):
TAAAATCAAACCC
Found at i:3113905 original size:2 final size:2
Alignment explanation
Indices: 3113898--3113932 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3113888 TAATCATGAA
3113898 AT AT 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 AT AT A
3113933 CACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3120024 original size:37 final size:35
Alignment explanation
Indices: 3119983--3120077 Score: 88
Period size: 37 Copynumber: 2.6 Consensus size: 35
3119973 TTAGAGTCAA
3119983 ATTTTAAATAAATTTATTTAATTTAATATAT-ATAATTAT
1 ATTTT-AAT-AATTTATTTAATTTAATAT-TGAT-A-TAT
* * *
3120022 TTTTTAATTAA-TTATTTTATTTTATATTGATATAT
1 ATTTTAA-TAATTTATTTAATTTAATATTGATATAT
3120057 ATTTTAAT-ATTTATTTAATTT
1 ATTTTAATAATTTATTTAATTT
3120078 TATGTTTACA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
33 1 0.02
34 11 0.23
35 9 0.19
36 2 0.04
37 16 0.33
38 4 0.08
39 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (35 bp):
ATTTTAATAATTTATTTAATTTAATATTGATATAT
Found at i:3120061 original size:17 final size:17
Alignment explanation
Indices: 3120039--3120080 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3120029 TTAATTATTT
3120039 TATTTTATATTGATATA
1 TATTTTATATTGATATA
* *
3120056 TATTTTAATATTTATTTA
1 TATTTT-ATATTGATATA
3120074 -ATTTTAT
1 TATTTTAT
3120081 GTTTACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTTTATATTGATATA
Found at i:3121280 original size:15 final size:15
Alignment explanation
Indices: 3121256--3121286 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3121246 ATTATTGTAA
*
3121256 TAAAATAATAAAATT
1 TAAAAAAATAAAATT
3121271 TAAAAAAATAAAATT
1 TAAAAAAATAAAATT
3121286 T
1 T
3121287 GTAAACTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAAAATAAAATT
Found at i:3134682 original size:29 final size:25
Alignment explanation
Indices: 3134636--3134690 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 25
3134626 AATTTTTAAA
3134636 ATTTAAAATTAAAATAAAATATATTAT
1 ATTTAAAATTAAAAT-AAATA-ATTAT
3134663 ATTTAATAATTTAAAATAAATAATTAT
1 ATTTAA-AA-TTAAAATAAATAATTAT
3134690 A
1 A
3134691 ATTATCGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 12 0.46
28 7 0.27
29 7 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAAATTAAAATAAATAATTAT
Found at i:3135731 original size:15 final size:15
Alignment explanation
Indices: 3135678--3135751 Score: 85
Period size: 15 Copynumber: 4.7 Consensus size: 15
3135668 AAGTAATGTC
*
3135678 ATAATTATTATATTA
1 ATAAATATTATATTA
* *
3135693 ATAAAATAATAATTTTA
1 AT-AAAT-ATTATATTA
3135710 TATAAATATTATATTA
1 -ATAAATATTATATTA
*
3135726 ATAAATAATATATTA
1 ATAAATATTATATTA
3135741 ATAAATATTAT
1 ATAAATATTAT
3135752 TATATTATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
15 26 0.53
16 10 0.20
17 11 0.22
18 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAAATATTATATTA
Found at i:3135753 original size:33 final size:34
Alignment explanation
Indices: 3135680--3135758 Score: 103
Period size: 33 Copynumber: 2.4 Consensus size: 34
3135670 GTAATGTCAT
*
3135680 AATTATTATATTAATAAAATAATAATTTTATATA
1 AATTATTATATTAATAAAATAATAATTTAATATA
3135714 AA-TATTATATTAAT-AAATAAT-ATATTAATA-A
1 AATTATTATATTAATAAAATAATAAT-TTAATATA
3135745 ATATTATTATATTA
1 A-ATTATTATATTA
3135759 TTATTAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
31 4 0.10
32 13 0.32
33 22 0.54
34 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
AATTATTATATTAATAAAATAATAATTTAATATA
Found at i:3135887 original size:30 final size:30
Alignment explanation
Indices: 3135851--3135911 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
3135841 ATCCAAAGAT
**
3135851 ATTTTTAAATTTAATAAATAAAAAAATAAA
1 ATTTTTAAAAATAATAAATAAAAAAATAAA
* *
3135881 ATTTTTAAAAATATTAAATATAAAAATAAA
1 ATTTTTAAAAATAATAAATAAAAAAATAAA
3135911 A
1 A
3135912 CATAGAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
ATTTTTAAAAATAATAAATAAAAAAATAAA
Found at i:3136431 original size:19 final size:19
Alignment explanation
Indices: 3136403--3136439 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3136393 GGTACCGCTG
* *
3136403 GCCACTCACACCTTGCCAA
1 GCCACCCACACCCTGCCAA
3136422 GCCACCCACACCCTGCCA
1 GCCACCCACACCCTGCCA
3136440 CTACCCTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.54, G:0.11, T:0.11
Consensus pattern (19 bp):
GCCACCCACACCCTGCCAA
Found at i:3137522 original size:3 final size:3
Alignment explanation
Indices: 3137514--3137572 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
3137504 AATGCTAAAG
*
3137514 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3137562 ATA ATA ATA AT
1 ATA ATA ATA AT
3137573 GATGATGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3137868 original size:32 final size:32
Alignment explanation
Indices: 3137832--3137892 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
3137822 TCTTAATTTT
* *
3137832 CAAAA-TCCTAAAATTCGAAACCCCTAAAAATC
1 CAAAATTCATAAAA-TCCAAACCCCTAAAAATC
*
3137864 CAAAATTCATTAAATCCAAACCCCTAAAA
1 CAAAATTCATAAAATCCAAACCCCTAAAA
3137893 TTTGAAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 19 0.76
33 6 0.24
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.20
Consensus pattern (32 bp):
CAAAATTCATAAAATCCAAACCCCTAAAAATC
Found at i:3137951 original size:30 final size:30
Alignment explanation
Indices: 3137908--3137991 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
3137898 AACCCCCATA
* *
3137908 AAATCCAAAACCCCCAAACCTTTAAACTCTT
1 AAATCC-AAACCCCCAAACCTTCAAACCCTT
*
3137939 AAATCCAAACCCCCTAAA-ATTCAAACCCTT
1 AAATCCAAACCCCC-AAACCTTCAAACCCTT
* *
3137969 AAAT-CAAAACTCCAAACC-TCAAA
1 AAATCCAAACCCCCAAACCTTCAAA
3137992 TTTTAAAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
28 8 0.18
29 7 0.16
30 21 0.47
31 9 0.20
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (30 bp):
AAATCCAAACCCCCAAACCTTCAAACCCTT
Found at i:3138014 original size:14 final size:14
Alignment explanation
Indices: 3137995--3138042 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
3137985 CCTCAAATTT
*
3137995 TAAAATCGAAACCC
1 TAAAATCAAAACCC
* *
3138009 TAAAATCTTCAAACTC
1 TAAAATC--AAAACCC
3138025 TAAAATCAAAACCC
1 TAAAATCAAAACCC
3138039 TAAA
1 TAAA
3138043 TCTATTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 16 0.57
16 12 0.43
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAAATCAAAACCC
Found at i:3145900 original size:20 final size:20
Alignment explanation
Indices: 3145875--3145915 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3145865 TTTCGTTACC
3145875 ATTCTCTTTGCCCTTGCCAA
1 ATTCTCTTTGCCCTTGCCAA
*
3145895 ATTCTCTTTGCCCTTGTCAA
1 ATTCTCTTTGCCCTTGCCAA
3145915 A
1 A
3145916 ATCAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (20 bp):
ATTCTCTTTGCCCTTGCCAA
Found at i:3150606 original size:36 final size:37
Alignment explanation
Indices: 3150530--3150611 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 37
3150520 TTTGGCTTAT
* * *
3150530 GGTTTAATCTCAGTCATTTCTTTATTTTTTGACTTGC
1 GGTTTAATCTCAATCATCTCTTTATTTTCTGACTTGC
3150567 GGTTTAATCTCAATC-TCT-TTTATTTCTCTGACTTGC
1 GGTTTAATCTCAATCATCTCTTTATTT-TCTGACTTGC
*
3150603 GGTTCAATC
1 GGTTTAATC
3150612 CTAGTAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 7 0.17
36 19 0.47
37 14 0.35
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (37 bp):
GGTTTAATCTCAATCATCTCTTTATTTTCTGACTTGC
Found at i:3150693 original size:34 final size:34
Alignment explanation
Indices: 3150638--3150726 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
3150628 TTTGGCTCGT
* *
3150638 GATTTAATCCCTG-TCAT-TTTATTTTTTGACTCAC
1 GATTTAATCCC-GATC-TCTTTATCTTTCGACTCAC
* *
3150672 GATTTAATCCCGATCTCTTTATCTTTCGATTCGC
1 GATTTAATCCCGATCTCTTTATCTTTCGACTCAC
* *
3150706 GATTCAATCCTGATCTCTTTA
1 GATTTAATCCCGATCTCTTTA
3150727 ATTTAAAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 2 0.04
34 45 0.96
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (34 bp):
GATTTAATCCCGATCTCTTTATCTTTCGACTCAC
Found at i:3150894 original size:171 final size:168
Alignment explanation
Indices: 3150660--3151390 Score: 722
Period size: 171 Copynumber: 4.4 Consensus size: 168
3150650 GTCATTTTAT
* * * * *
3150660 TTTTTGACTCACGATTTAATCCCGATCTCTTTATCTTTCGATTCGCGATTCAATCCTGATCTCTT
1 TTTTTGACTCGCGATTTAATCTCGATCTATTTATCCTTCGATTCGCGGTTCAATCCTGATCTCTT
* * * *
3150725 TAATTTAAAATCGTAGTTTAATCTCGATTATTGTTATCCTCTAACTTGTGGTTCAATCCCAGTCT
66 TAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAAT-CCAGTCT
3150790 TTTTATTTTTAGACTTGTGATTCAATCCAAGTTAACGTCA
130 TTTTATTTTT-GACTTGTGATTCAATCCAAGTTAACGTCA
* * * *
3150830 TTGTTTGACTCGC-AGTTTAATTTC-AGTCTATTTATCCTTCGATTTGTGGTTCAATCCCGATCT
1 TT-TTTGACTCGCGA-TTTAATCTCGA-TCTATTTATCCTTCGATTCGCGGTTCAATCCTGATCT
*
3150893 CTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCTGA
63 CTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCAG-
* * * *
3150958 TCTTCTTATTTTCGGACTTGTGATTCAATTCAAGTTAACATCA
127 TCTTTTTATTTT-TGACTTGTGATTCAATCCAAGTTAACGTCA
* * *
3151001 TTTTTTAACTCGCGATTTAATCTCGATCTTTTTATCC-TCTGATTCACGGTTCAATCCTGATCTC
1 -TTTTTGACTCGCGATTTAATCTCGATCTATTTATCCTTC-GATTCGCGGTTCAATCCTGATCTC
* * * *
3151065 TTTAATTTAAAATCATA-TGTAATCTCGAATGTTGTTATCATCTGACTCGTGGTTCAATCTAGGT
64 TTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCA-GT
3151129 -TTTCTTATTTTTGAACTTGTGATTCAATCCAAGTTAACGTCA
128 CTTT-TTATTTTTG-ACTTGTGATTCAATCCAAGTTAACGTCA
* *
3151171 TTTTCTGACTCGCGATTTAATCCCGATCTCTTTAT-C--C---TC-C-G-------C---TCTCT
1 TTTT-TGACTCGCGATTTAATCTCGATCTATTTATCCTTCGATTCGCGGTTCAATCCTGATCTCT
* * * * *
3151218 TTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATCCTTTGACTTGTAG-TCTAATCTC-GA
65 TTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTC-AATC-CAG-
* * *
3151281 TCTCTTTATTTTCGAACTTGTGA-TCAATTCAAGTTAACGTCAA
127 TCTTTTTATTTTTG-ACTTGTGATTCAATCCAAGTTAACGTC-A
* * * * * * * * *
3151324 TTTTTAATTCGCGATTTAATCTCGATCTTTTTATTCTTCAATTCGTGGTTTAATCTTGATCTTTT
1 TTTTTGACTCGCGATTTAATCTCGATCTATTTATCCTTCGATTCGCGGTTCAATCCTGATCTCTT
3151389 TA
66 TA
3151391 TTCTCTGATT
Statistics
Matches: 468, Mismatches: 56, Indels: 74
0.78 0.09 0.12
Matches are distributed among these distances:
152 65 0.14
153 57 0.12
154 2 0.00
155 2 0.00
158 2 0.00
160 1 0.00
162 1 0.00
163 1 0.00
164 2 0.00
168 1 0.00
169 8 0.02
170 116 0.25
171 206 0.44
172 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.45
Consensus pattern (168 bp):
TTTTTGACTCGCGATTTAATCTCGATCTATTTATCCTTCGATTCGCGGTTCAATCCTGATCTCTT
TAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCAGTCTT
TTTATTTTTGACTTGTGATTCAATCCAAGTTAACGTCA
Found at i:3151164 original size:170 final size:173
Alignment explanation
Indices: 3150658--3151209 Score: 730
Period size: 171 Copynumber: 3.2 Consensus size: 173
3150648 CTGTCATTTT
* * *
3150658 ATTTTTTGACTCACGATTTAATCCCGATCTCTTTAT-CTTTCGATTCGCGATTCAATCCTGATCT
1 ATTTTTTGACTCGCGATTTAATCCCGATCTCTTTATCCTCTCGATTCGCGGTTCAATCCTGATCT
* * * * *
3150722 CTTTAATTTAAAATCGTAGTTTAATCTCGATTATTGTTATCCTCTAACTTGTGGTTCAATCCCA-
66 CTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCTAG
3150786 GTCTTT-TTATTTTT-AGACTTGTGATTCAATCCAAGTTAACGTC
131 GT-TTTCTTATTTTTGA-ACTTGTGATTCAATCCAAGTTAACGTC
* ** * * * *
3150829 ATTGTTTGACTCGC-AGTTTAATTTC-AGTCTATTTATCCT-TCGATTTGTGGTTCAATCCCGAT
1 ATTTTTTGACTCGCGA-TTTAATCCCGA-TCTCTTTATCCTCTCGATTCGCGGTTCAATCCTGAT
3150891 CTCTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCT
64 CTCTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCT
* * * * * *
3150956 -GATCTTCTTATTTTCGGACTTGTGATTCAATTCAAGTTAACATC
129 AGGTTTTCTTATTTTTGAACTTGTGATTCAATCCAAGTTAACGTC
* * * *
3151000 ATTTTTTAACTCGCGATTTAATCTCGATCTTTTTATCCTCT-GATTCACGGTTCAATCCTGATCT
1 ATTTTTTGACTCGCGATTTAATCCCGATCTCTTTATCCTCTCGATTCGCGGTTCAATCCTGATCT
* * *
3151064 CTTTAATTTAAAATCATA-TGTAATCTCGAATGTTGTTATCATCTGACTCGTGGTTCAAT-CTAG
66 CTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCTAG
3151127 GTTTTCTTATTTTTGAACTTGTGATTCAATCCAAGTTAACGTC
131 GTTTTCTTATTTTTGAACTTGTGATTCAATCCAAGTTAACGTC
*
3151170 ATTTTCTGACTCGCGATTTAATCCCGATCTCTTTATCCTC
1 ATTTTTTGACTCGCGATTTAATCCCGATCTCTTTATCCTC
3151210 CGCTCTCTTT
Statistics
Matches: 330, Mismatches: 41, Indels: 21
0.84 0.10 0.05
Matches are distributed among these distances:
169 2 0.01
170 116 0.35
171 207 0.63
172 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (173 bp):
ATTTTTTGACTCGCGATTTAATCCCGATCTCTTTATCCTCTCGATTCGCGGTTCAATCCTGATCT
CTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTCAATCCTAG
GTTTTCTTATTTTTGAACTTGTGATTCAATCCAAGTTAACGTC
Found at i:3151350 original size:152 final size:152
Alignment explanation
Indices: 3151061--3151357 Score: 377
Period size: 152 Copynumber: 2.0 Consensus size: 152
3151051 TCAATCCTGA
* *
3151061 TCTCTTTAATTTAAAATCATATGTAATCTCGAATGTTGTTATCATCTGACTCGTGGTTCAATCTA
1 TCTCTTTAATTCAAAATCATATGTAATCTCGAATGTTGTTATCATCTGACTCGTAGTTCAATCTA
* * * *
3151126 GGTTTTCTTATTTTTGAACTTGTGATTCAATCCAAGTTAACGTCATTTTCTGACTCGCGATTTAA
66 GATTCTCTTATTTTCGAACTTGTGATTCAATCCAAGTTAACGTCATTTTCTAACTCGCGATTTAA
3151191 TCCCGATCTCTTTATCCTCCGC
131 TCCCGATCTCTTTATCCTCCGC
* * * * * *
3151213 TCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATCCTTTGACTTGTAG-TCTAATC
1 TCTCTTTAATTCAAAATCATA-TGTAATCTCGAATGTTGTTATCATCTGACTCGTAGTTC-AATC
* * *
3151277 TCGA-TCTCTTTATTTTCGAACTTGTGA-TCAATTCAAGTTAACGTCAATTTT-TAATTCGCGAT
64 TAGATTCTC-TTATTTTCGAACTTGTGATTCAATCCAAGTTAACGTC-ATTTTCTAACTCGCGAT
* *
3151339 TTAATCTCGATCTTTTTAT
127 TTAATCCCGATCTCTTTAT
3151358 TCTTCAATTC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
152 67 0.54
153 57 0.46
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (152 bp):
TCTCTTTAATTCAAAATCATATGTAATCTCGAATGTTGTTATCATCTGACTCGTAGTTCAATCTA
GATTCTCTTATTTTCGAACTTGTGATTCAATCCAAGTTAACGTCATTTTCTAACTCGCGATTTAA
TCCCGATCTCTTTATCCTCCGC
Found at i:3151376 original size:34 final size:34
Alignment explanation
Indices: 3151329--3151394 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
3151319 GTCAATTTTT
3151329 AATTCGCGATTTAATCTCGATCTTTTTATTCTTC
1 AATTCGCGATTTAATCTCGATCTTTTTATTCTTC
* * *
3151363 AATTCGTGGTTTAATCTTGATCTTTTTATTCT
1 AATTCGCGATTTAATCTCGATCTTTTTATTCT
3151395 CTGATTCACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.53
Consensus pattern (34 bp):
AATTCGCGATTTAATCTCGATCTTTTTATTCTTC
Found at i:3151408 original size:34 final size:34
Alignment explanation
Indices: 3151329--3151409 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
3151319 GTCAATTTTT
* *
3151329 AATTCGCGATTTAATCTCGATCTTTTTATTCTTC
1 AATTCACGGTTTAATCTCGATCTTTTTATTCTTC
** *
3151363 AATTCGTGGTTTAATCTTGATCTTTTTATTC-TC
1 AATTCACGGTTTAATCTCGATCTTTTTATTCTTC
*
3151396 TGATTCACGGTTTA
1 -AATTCACGGTTTA
3151410 GTCCATCTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (34 bp):
AATTCACGGTTTAATCTCGATCTTTTTATTCTTC
Found at i:3151632 original size:36 final size:36
Alignment explanation
Indices: 3151586--3151771 Score: 189
Period size: 36 Copynumber: 5.1 Consensus size: 36
3151576 TAGTTTCTCA
* *
3151586 ACTTGTGGTTTAATCCCAATCGTTTTTATTTCTTTG
1 ACTTGCGGTTTAATCCCAGTCGTTTTTATTTCTTTG
* *
3151622 ACTTGCGGTTTAACCCCAGTCGTTTTTATTTTTTTG
1 ACTTGCGGTTTAATCCCAGTCGTTTTTATTTCTTTG
** * * * **
3151658 ACTTGCAATTTAATCTCAGTCATTCATATAATTTC-TCA
1 ACTTGCGGTTTAATCCCAGTCGTT--T-TTATTTCTTTG
*
3151696 ACTTGCGGTTTAATCCCAATCGTTTTTATTT-TTCTG
1 ACTTGCGGTTTAATCCCAGTCGTTTTTATTTCTT-TG
*
3151732 ACTTACGGTTTAA-CCTCAGTCGTTTTTATTTCTTTG
1 ACTTGCGGTTTAATCC-CAGTCGTTTTTATTTCTTTG
3151768 ACTT
1 ACTT
3151772 ATGATTCAAT
Statistics
Matches: 120, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
35 8 0.07
36 84 0.70
37 2 0.02
38 21 0.17
39 5 0.04
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (36 bp):
ACTTGCGGTTTAATCCCAGTCGTTTTTATTTCTTTG
Found at i:3151693 original size:110 final size:110
Alignment explanation
Indices: 3151542--3151771 Score: 358
Period size: 110 Copynumber: 2.1 Consensus size: 110
3151532 TCACTTTTAC
* * *
3151542 TTTTTGACTTGAGATTTAATTCCAGTCATTCCTATAGTTTCTCAACTTGTGGTTTAATCCCAATC
1 TTTTTGACTTGAGATTTAATTCCAGTCATTCATATAATTTCTCAACTTGCGGTTTAATCCCAATC
*
3151607 GTTTTTATTTCTT-TGACTTGCGGTTTAACCCCAGTCGTTTTTATT
66 GTTTTTATTT-TTCTGACTTACGGTTTAACCCCAGTCGTTTTTATT
3151652 TTTTTGACTTGCA-ATTTAA-TCTCAGTCATTCATATAATTTCTCAACTTGCGGTTTAATCCCAA
1 TTTTTGACTTG-AGATTTAATTC-CAGTCATTCATATAATTTCTCAACTTGCGGTTTAATCCCAA
*
3151715 TCGTTTTTATTTTTCTGACTTACGGTTTAACCTCAGTCGTTTTTATT
64 TCGTTTTTATTTTTCTGACTTACGGTTTAACCCCAGTCGTTTTTATT
*
3151762 TCTTTGACTT
1 TTTTTGACTT
3151772 ATGATTCAAT
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
109 4 0.04
110 106 0.95
111 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (110 bp):
TTTTTGACTTGAGATTTAATTCCAGTCATTCATATAATTTCTCAACTTGCGGTTTAATCCCAATC
GTTTTTATTTTTCTGACTTACGGTTTAACCCCAGTCGTTTTTATT
Found at i:3152029 original size:17 final size:15
Alignment explanation
Indices: 3151987--3152035 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 15
3151977 ACATTTTTTA
3151987 TAATTTTAAAAAAAT
1 TAATTTTAAAAAAAT
3152002 TAATTAATTAAAAAAAT
1 TAATT--TTAAAAAAAT
3152019 TAAAATTTTAAATAAAA
1 T--AATTTTAAA-AAAA
3152036 AAAAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.17
17 16 0.55
18 4 0.14
19 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATTTTAAAAAAAT
Found at i:3153183 original size:3 final size:3
Alignment explanation
Indices: 3153177--3153284 Score: 93
Period size: 3 Copynumber: 36.7 Consensus size: 3
3153167 TTAATTGTTT
* *
3153177 TAA TAA TAA TAA AAA TGAA -AG TAA GTAA -AA TAA TAA TAA -AA -AA
1 TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* **
3153220 TATA TAT TAA -AA TGC TAA -AGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
3153265 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
3153285 GAATAATTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
2 10 0.12
3 67 0.78
4 9 0.10
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:3153577 original size:32 final size:32
Alignment explanation
Indices: 3153541--3153689 Score: 142
Period size: 31 Copynumber: 4.6 Consensus size: 32
3153531 CTTAATTTTC
3153541 AAAAT-CCTAAAATCCAAAACCCCTAAAAATAA
1 AAAATCCCTAAAATCC-AAACCCCTAAAAATAA
* **
3153573 AAAATCCCTTAAATCCAAACCCCT-AAAATCT
1 AAAATCCCTAAAATCCAAACCCCTAAAAATAA
* *
3153604 GAAACCCTCATAAAATCCGAAACCCCTAAAAATAA
1 AAAATCC-C-TAAAATCC-AAACCCCTAAAAATAA
* * **
3153639 AAAATCCCTTAAATCCAAA-CCCTTAAAATCT
1 AAAATCCCTAAAATCCAAACCCCTAAAAATAA
*
3153670 AAAACCCCTCAAAATCCAAA
1 AAAATCCCT-AAAATCCAAA
3153690 ATCTCAAACC
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
31 27 0.28
32 26 0.27
33 23 0.24
34 9 0.09
35 10 0.11
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.18
Consensus pattern (32 bp):
AAAATCCCTAAAATCCAAACCCCTAAAAATAA
Found at i:3153589 original size:33 final size:32
Alignment explanation
Indices: 3153541--3153666 Score: 141
Period size: 32 Copynumber: 3.9 Consensus size: 32
3153531 CTTAATTTTC
*
3153541 AAAAT-CCTAAAATCCAAAACCCCTAAAAATAA
1 AAAATCCCTTAAATCC-AAACCCCTAAAAATAA
**
3153573 AAAATCCCTTAAATCCAAACCCCT-AAAATCT
1 AAAATCCCTTAAATCCAAACCCCTAAAAATAA
*
3153604 GAAA-CCCTCATAAAATCCGAAACCCCTAAAAATAA
1 AAAATCCCT--T-AAATCC-AAACCCCTAAAAATAA
*
3153639 AAAATCCCTTAAATCCAAACCCTTAAAA
1 AAAATCCCTTAAATCCAAACCCCTAAAA
3153667 TCTAAAACCC
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
30 4 0.05
31 8 0.10
32 25 0.32
33 21 0.27
34 9 0.11
35 8 0.10
36 4 0.05
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.18
Consensus pattern (32 bp):
AAAATCCCTTAAATCCAAACCCCTAAAAATAA
Found at i:3153627 original size:66 final size:66
Alignment explanation
Indices: 3153548--3153690 Score: 236
Period size: 66 Copynumber: 2.2 Consensus size: 66
3153538 TTCAAAATCC
*
3153548 TAAAATCCAAAACCCCTAAAAATAAAAAATCCCTTAAATCCAAACCCCTAAAATCTGAAACCCTC
1 TAAAATCCAAAACCCCTAAAAATAAAAAATCCCTTAAATCCAAACCCCTAAAATCTAAAACCCTC
3153613 A
66 A
* *
3153614 TAAAATCCGAAACCCCTAAAAATAAAAAATCCCTTAAATCCAAACCCTTAAAATCTAAAACCC-C
1 TAAAATCCAAAACCCCTAAAAATAAAAAATCCCTTAAATCCAAACCCCTAAAATCTAAAACCCTC
3153678 -
66 A
3153678 TCAAAATCCAAAA
1 T-AAAATCCAAAA
3153691 TCTCAAACCT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
64 1 0.01
65 11 0.15
66 60 0.83
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.18
Consensus pattern (66 bp):
TAAAATCCAAAACCCCTAAAAATAAAAAATCCCTTAAATCCAAACCCCTAAAATCTAAAACCCTC
A
Found at i:3153691 original size:48 final size:47
Alignment explanation
Indices: 3153540--3153692 Score: 121
Period size: 48 Copynumber: 3.1 Consensus size: 47
3153530 TCTTAATTTT
* * * *
3153540 CAAAAT-CCTAAAATCCAAAACCCCTAAAAATAAAAAATCCCTTAAATC
1 CAAAATCCCTAAAATCC-AAA-CCCTTAAAATCAAAAACCCCTAAAATC
* * ** *
3153588 C-AAACCCCTAAAATCTGAAACCCTCATAAAATCCGAAACCCCTAAAAATA
1 CAAAATCCCTAAAATC-CAAACCCT--TAAAATCAAAAACCCCT-AAAATC
* * *
3153638 AAAAATCCCTTAAATCCAAACCCTTAAAATCTAAAACCCCTCAAAATC
1 CAAAATCCCTAAAATCCAAACCCTTAAAATCAAAAACCCCT-AAAATC
3153686 CAAAATC
1 CAAAATC
3153693 TCAAACCTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
47 7 0.09
48 39 0.48
49 12 0.15
50 11 0.14
51 12 0.15
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.18
Consensus pattern (47 bp):
CAAAATCCCTAAAATCCAAACCCTTAAAATCAAAAACCCCTAAAATC
Found at i:3153728 original size:15 final size:15
Alignment explanation
Indices: 3153708--3153753 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
3153698 CCTTTAAACT
3153708 CTTAAATCCAAACCC
1 CTTAAATCCAAACCC
*
3153723 CTTAAAATTCAAA-CC
1 CTT-AAATCCAAACCC
*
3153738 CTTAAATCAAAACCC
1 CTTAAATCCAAACCC
3153753 C
1 C
3153754 AAACCTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.27
15 11 0.42
16 8 0.31
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (15 bp):
CTTAAATCCAAACCC
Found at i:3153735 original size:16 final size:15
Alignment explanation
Indices: 3153711--3153752 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
3153701 TTAAACTCTT
3153711 AAATCCAAACCCCTTA
1 AAATCCAAA-CCCTTA
*
3153727 AAATTCAAACCCTT-
1 AAATCCAAACCCTTA
*
3153741 AAATCAAAACCC
1 AAATCCAAACCC
3153753 CAAACCTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
15 5 0.22
16 8 0.35
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATCCAAACCCTTA
Found at i:3153801 original size:30 final size:29
Alignment explanation
Indices: 3153703--3153814 Score: 93
Period size: 30 Copynumber: 3.8 Consensus size: 29
3153693 TCAAACCTTT
* *
3153703 AAACTCTTAAATCCAAACCCCTTAAAA-TTC
1 AAACTCTAAAAT-CAAAACCC-TAAAACTTC
* * * *
3153733 AAACCCTTAAATCAAAACCC-CAAACCTC
1 AAACTCTAAAATCAAAACCCTAAAACTTC
* * *
3153761 AAATTTTAAAATCGAAACCCTAAAATCTTC
1 AAACTCTAAAATCAAAACCCTAAAA-CTTC
*
3153791 AAACTCTAAAATCAAAACCTTAAA
1 AAACTCTAAAATCAAAACCCTAAA
3153815 TCTATTTCAA
Statistics
Matches: 64, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
27 3 0.05
28 17 0.27
29 10 0.16
30 34 0.53
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (29 bp):
AAACTCTAAAATCAAAACCCTAAAACTTC
Found at i:3154206 original size:25 final size:23
Alignment explanation
Indices: 3154178--3154223 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
3154168 CTGTTTGATG
*
3154178 ATAAAATATTTTATAATAAAAAAGA
1 ATAAAACATTTT-TAA-AAAAAAGA
*
3154203 ATAATACATTTTTAAAAAAAA
1 ATAAAACATTTTTAAAAAAAA
3154224 TTTTATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 3 0.16
25 10 0.53
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAAAACATTTTTAAAAAAAAGA
Found at i:3160572 original size:3 final size:3
Alignment explanation
Indices: 3160564--3160592 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3160554 AGGTTTGGTT
3160564 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3160593 TTATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3160597 original size:3 final size:3
Alignment explanation
Indices: 3160591--3160629 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
3160581 ATAATAATAA
3160591 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3160630 GTTTCTTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3167929 original size:19 final size:18
Alignment explanation
Indices: 3167902--3167944 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
3167892 AAAAATAATT
3167902 AAAAA-ATATAAAATATA
1 AAAAATATATAAAATATA
*
3167919 AATAAATATATCAAATATA
1 AA-AAATATATAAAATATA
3167938 AAAAATA
1 AAAAATA
3167945 AACGATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 13 0.57
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATATAAAATATA
Found at i:3168495 original size:29 final size:30
Alignment explanation
Indices: 3168462--3168529 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
3168452 TTATTACAAT
* *
3168462 CAAATAAGAC-TTTAA-CTTTAATTTGTATC
1 CAAATAAGACTTTTAATCATTAAGTT-TATC
*
3168491 TAAATAAG-CTTTTAATCATTAAGTTTATC
1 CAAATAAGACTTTTAATCATTAAGTTTATC
3168520 CAAATAAGAC
1 CAAATAAGAC
3168530 CATAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 23 0.72
30 8 0.25
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.38
Consensus pattern (30 bp):
CAAATAAGACTTTTAATCATTAAGTTTATC
Found at i:3174252 original size:27 final size:27
Alignment explanation
Indices: 3174221--3174276 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
3174211 CTAAAGAATC
* *
3174221 AATATTTAATTAAATATATTCAACATA
1 AATATATAATTAAATAAATTCAACATA
*
3174248 AATATATAATTAAATAAATTTAACATA
1 AATATATAATTAAATAAATTCAACATA
3174275 AA
1 AA
3174277 ATTAGATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
AATATATAATTAAATAAATTCAACATA
Found at i:3174936 original size:21 final size:22
Alignment explanation
Indices: 3174912--3174973 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 22
3174902 GACGAATGAT
3174912 AAAATTATTTTAATAA-AATTA
1 AAAATTATTTTAATAATAATTA
3174933 AAAA--ATTTT-ATAATAATTA
1 AAAATTATTTTAATAATAATTA
*
3174952 ATGAAATTATTATTAAAAATAA
1 A--AAATTATT-TTAATAATAA
3174974 AATTTAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
18 4 0.12
19 11 0.33
21 7 0.21
23 3 0.09
24 2 0.06
25 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATTATTTTAATAATAATTA
Found at i:3174942 original size:19 final size:19
Alignment explanation
Indices: 3174918--3174986 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
3174908 TGATAAAATT
3174918 ATTTTAATAAAATTAAAAA
1 ATTTTAATAAAATTAAAAA
*
3174937 ATTTT-ATAATAATTAATGAA
1 ATTTTAATAA-AATTAA-AAA
* *
3174957 ATTATTATTAAAA--ATAAA
1 ATT-TTAATAAAATTAAAAA
3174975 A-TTTAATAAAAT
1 ATTTTAATAAAAT
3174987 AAATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
16 8 0.20
17 1 0.03
18 7 0.17
19 12 0.30
20 5 0.12
21 4 0.10
22 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (19 bp):
ATTTTAATAAAATTAAAAA
Found at i:3187876 original size:20 final size:20
Alignment explanation
Indices: 3187853--3187893 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3187843 ACCATTTTAC
*
3187853 TCAATTCTTTTCTCTTTTGT
1 TCAATTCTTTTCTCTGTTGT
3187873 TCAATTCTTTTCTCTGTTGT
1 TCAATTCTTTTCTCTGTTGT
3187893 T
1 T
3187894 ACTTGCGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.07, T:0.63
Consensus pattern (20 bp):
TCAATTCTTTTCTCTGTTGT
Found at i:3193590 original size:3 final size:3
Alignment explanation
Indices: 3193582--3193611 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3193572 TTTGTAGCCA
*
3193582 CAG CAG CAG CAG CAG CAG CAT CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
3193612 AACCAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.30, T:0.03
Consensus pattern (3 bp):
CAG
Found at i:3200021 original size:10 final size:11
Alignment explanation
Indices: 3199994--3200020 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3199984 TTTTAATGTC
3199994 AAAAAATTATA
1 AAAAAATTATA
3200005 AAAAAATTATA
1 AAAAAATTATA
3200016 AAAAA
1 AAAAA
3200021 TAAACATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:3201461 original size:3 final size:3
Alignment explanation
Indices: 3201453--3201485 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3201443 TTCATTTACA
3201453 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3201486 TACTAATCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3207482 original size:19 final size:20
Alignment explanation
Indices: 3207451--3207507 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 20
3207441 TTACATATTT
3207451 TATT-ATAATTTTAAAATTA
1 TATTAATAATTTTAAAATTA
3207470 TATTAATAA-TTT-AAATTA
1 TATTAATAATTTTAAAATTA
*
3207488 TA-TAA-AATTTTAAAAATA
1 TATTAATAATTTTAAAATTA
3207506 TA
1 TA
3207508 ATTTTGACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 2 0.06
17 6 0.18
18 15 0.44
19 7 0.21
20 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTAATAATTTTAAAATTA
Found at i:3215304 original size:7 final size:7
Alignment explanation
Indices: 3215292--3215317 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3215282 GATTTCAAAC
3215292 TAAATTA
1 TAAATTA
3215299 TAAATTA
1 TAAATTA
3215306 TAAATTA
1 TAAATTA
3215313 TAAAT
1 TAAAT
3215318 GATATATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAAATTA
Found at i:3215326 original size:14 final size:14
Alignment explanation
Indices: 3215292--3215326 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3215282 GATTTCAAAC
*
3215292 TAAATTATAAATTA
1 TAAATTATAAATGA
3215306 TAAATTATAAATGA
1 TAAATTATAAATGA
*
3215320 TATATTA
1 TAAATTA
3215327 GGATTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
TAAATTATAAATGA
Found at i:3215476 original size:20 final size:21
Alignment explanation
Indices: 3215435--3215476 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3215425 TTAAGATCGA
*
3215435 ATTAAATTTAAATATTTTTAT
1 ATTAAATTTAAATATATTTAT
3215456 ATTAAATTTAAATA-ATTTAT
1 ATTAAATTTAAATATATTTAT
3215476 A
1 A
3215477 AATTTAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAAATTTAAATATATTTAT
Found at i:3215678 original size:24 final size:24
Alignment explanation
Indices: 3215623--3215681 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
3215613 TTTGATTTTT
* *
3215623 ATTTCAAGTTAATTTAAATTAAAA
1 ATTTCAAATTAAATTAAATTAAAA
* **
3215647 AATT-AAATTAAATTAAATTTTAA
1 ATTTCAAATTAAATTAAATTAAAA
3215670 ATTTCAAATTAA
1 ATTTCAAATTAA
3215682 CTGAAACTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTTCAAATTAAATTAAATTAAAA
Found at i:3227463 original size:31 final size:30
Alignment explanation
Indices: 3227413--3227472 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
3227403 AGTGGTTATA
*
3227413 ATTATTTAATTATGTTATAATTTATTAATTG
1 ATTATTTAATTATGTTATAATAT-TTAATTG
*
3227444 ATTATTTAA-TATTTATATAATATTTAATT
1 ATTATTTAATTATGT-TATAATATTTAATT
3227473 ACAGGTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
ATTATTTAATTATGTTATAATATTTAATTG
Found at i:3229827 original size:30 final size:30
Alignment explanation
Indices: 3229788--3229844 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
3229778 TTATTTATTT
* * *
3229788 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
3229818 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
3229845 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:3229847 original size:21 final size:22
Alignment explanation
Indices: 3229817--3229868 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
3229807 GATATTTTTA
3229817 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
3229837 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
3229859 AATATTTTAT
1 AATATTTTAT
3229869 TAATTTCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:3231009 original size:55 final size:55
Alignment explanation
Indices: 3230870--3230982 Score: 163
Period size: 55 Copynumber: 2.1 Consensus size: 55
3230860 TATTAATTTG
* * * * * *
3230870 TTTATTTAATTACAAGTTGTTAAAATTTTTAACTTAATATTTTAGTGTTTGAATA
1 TTTATTTCATTAAAAGTTATTAGAGTTTTTAACTTAATATTTTAGTGTTTAAATA
*
3230925 TTTATTTCATTAAAAGTTATTAGAGTTTTTAATTTAATATTTTAGTGTTTAAATA
1 TTTATTTCATTAAAAGTTATTAGAGTTTTTAACTTAATATTTTAGTGTTTAAATA
3230980 TTT
1 TTT
3230983 TTATTAGATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.55
Consensus pattern (55 bp):
TTTATTTCATTAAAAGTTATTAGAGTTTTTAACTTAATATTTTAGTGTTTAAATA
Found at i:3231599 original size:28 final size:28
Alignment explanation
Indices: 3231553--3231610 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
3231543 TAAAAGTTGC
* **
3231553 TTTTTAAAAAATTTTAATTAT-TGTTTTA
1 TTTTTAAAAAAATAAAATTATAT-TTTTA
3231581 TTTTTAAAAAAATAAAATTATATTTTTA
1 TTTTTAAAAAAATAAAATTATATTTTTA
3231609 TT
1 TT
3231611 ACAAAAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTTAAAAAAATAAAATTATATTTTTA
Found at i:3235971 original size:11 final size:11
Alignment explanation
Indices: 3235931--3235984 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
3235921 CAATACAGTA
3235931 TAAAATTTGAAT
1 TAAAATTT-AAT
*
3235943 TAAAATATAAT
1 TAAAATTTAAT
3235954 TAAAAATTTAAT
1 T-AAAATTTAAT
* *
3235966 TTAAATTTTAT
1 TAAAATTTAAT
*
3235977 CAAAATTT
1 TAAAATTT
3235985 TTTTAATTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
11 18 0.51
12 17 0.49
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
TAAAATTTAAT
Found at i:3235981 original size:23 final size:24
Alignment explanation
Indices: 3235932--3235981 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
3235922 AATACAGTAT
*
3235932 AAAATTTGAATTAAAATATAATTA
1 AAAATTTGAATTAAAATATAATCA
* * *
3235956 AAAATTT-AATTTAAATTTTATCA
1 AAAATTTGAATTAAAATATAATCA
3235979 AAA
1 AAA
3235982 TTTTTTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAATTTGAATTAAAATATAATCA
Found at i:3238140 original size:24 final size:24
Alignment explanation
Indices: 3238105--3238167 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 24
3238095 CTAATTAAAA
3238105 ATAA-TAATAAAAATTATTGT-ATTT
1 ATAATTAA-AAAAATTATTGTCA-TT
3238129 ATAATTAAAAAAATTATTGTCATT
1 ATAATTAAAAAAATTATTGTCATT
*
3238153 ATGATTAAAAAAATT
1 ATAATTAAAAAAATT
3238168 TTAATAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 32 0.89
25 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (24 bp):
ATAATTAAAAAAATTATTGTCATT
Found at i:3238177 original size:14 final size:14
Alignment explanation
Indices: 3238156--3238204 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
3238146 TGTCATTATG
3238156 ATTAAAAAAATTTT
1 ATTAAAAAAATTTT
*
3238170 AAT-AAAAAATTTAT
1 ATTAAAAAAATTT-T
*
3238184 ATTAAATAAATTTT
1 ATTAAAAAAATTTT
3238198 ATTAAAA
1 ATTAAAA
3238205 TTGACATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 9 0.31
14 12 0.41
15 8 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAAAAAATTTT
Found at i:3242689 original size:18 final size:17
Alignment explanation
Indices: 3242661--3242736 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 17
3242651 GTATGTTGAA
3242661 ATTATTTATTATT-AAA-
1 ATTA-TTATTATTAAAAT
*
3242677 ATTATTATTATTAAAAA
1 ATTATTATTATTAAAAT
*
3242694 ATTAATTATATTTTAATAAT
1 ATT-ATTAT-TATTAA-AAT
* *
3242714 AATATTTAATATTAAAAT
1 ATTA-TTATTATTAAAAT
3242732 ATTAT
1 ATTAT
3242737 GTTAATTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
15 8 0.17
16 7 0.15
17 4 0.08
18 11 0.23
19 11 0.23
20 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATTATTATTAAAAT
Found at i:3242693 original size:16 final size:16
Alignment explanation
Indices: 3242659--3242692 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
3242649 TAGTATGTTG
3242659 AAATTATTTATTATTA
1 AAATTATTTATTATTA
3242675 AAATTA-TTATTATTA
1 AAATTATTTATTATTA
3242690 AAA
1 AAA
3242693 AATTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTATTTATTATTA
Found at i:3242746 original size:18 final size:17
Alignment explanation
Indices: 3242705--3242748 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
3242695 TTAATTATAT
3242705 TTTAATAATAATATTTAA
1 TTTAA-AATAATATTTAA
*
3242723 TATTAAAATATTATGTTAA
1 T-TTAAAATAATAT-TTAA
3242742 TTTAAAA
1 TTTAAAA
3242749 ATACTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTAAAATAATATTTAA
Found at i:3242749 original size:19 final size:18
Alignment explanation
Indices: 3242705--3242751 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
3242695 TTAATTATAT
*
3242705 TTTAATAATAATATTTAA
1 TTTAAAAATAATATTTAA
*
3242723 TATT-AAAATATTATGTTAA
1 T-TTAAAAATAATAT-TTAA
3242742 TTTAAAAATA
1 TTTAAAAATA
3242752 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAAAAATAATATTTAA
Found at i:3242861 original size:44 final size:45
Alignment explanation
Indices: 3242802--3242942 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 45
3242792 ATATATTGTA
*
3242802 ATATTATTTATTAATATATTATATTACTAGTATATTATTTATTAAT
1 ATATTA-TTATTAATATATTATATTAATAGTATATTATTTATTAAT
* *
3242848 ATATTATTA-TAATAT-TTTTAATTAATA-TAATAATATTTATTAAT
1 ATATTATTATTAATATATTAT-ATTAATAGT-ATATTATTTATTAAT
* * * * *
3242892 ATAATATTATTTATTAGTATAATTATTATTAGTATATTATTAATATAAT
1 ATATTATTA-TTAATA-TATTA-TATTAATAGTATATTATTTAT-TAAT
3242941 AT
1 AT
3242943 TATTTATAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
43 4 0.05
44 34 0.45
45 3 0.04
46 10 0.13
47 1 0.01
48 16 0.21
49 8 0.11
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (45 bp):
ATATTATTATTAATATATTATATTAATAGTATATTATTTATTAAT
Found at i:3242899 original size:62 final size:60
Alignment explanation
Indices: 3242833--3242961 Score: 163
Period size: 62 Copynumber: 2.1 Consensus size: 60
3242823 TATTACTAGT
*
3242833 ATATTATTTATTAATAT-ATTATTA-TAATATTTTTAATTAATATAATAATATTTATTAATATA
1 ATATTATTTATTAATATAATTATTATTAATA-TATT-ATTAATATAATAATATTTA-TAA-ATA
* * *
3242895 ATATTATTTATTAGTATAATTATTATTAGTATATTATTAATATAATATTATTTATAAATA
1 ATATTATTTATTAATATAATTATTATTAATATATTATTAATATAATAATATTTATAAATA
*
3242955 AAATTAT
1 ATATTAT
3242962 GCTCAAAAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
60 9 0.15
61 3 0.05
62 34 0.57
63 10 0.17
64 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (60 bp):
ATATTATTTATTAATATAATTATTATTAATATATTATTAATATAATAATATTTATAAATA
Found at i:3242931 original size:11 final size:11
Alignment explanation
Indices: 3242787--3242944 Score: 91
Period size: 11 Copynumber: 14.5 Consensus size: 11
3242777 TTATATTATC
3242787 TATTAATATAT
1 TATTAATATAT
*
3242798 T-GTAATATTATT
1 TATTAATA-TA-T
3242810 TATTAATATAT
1 TATTAATATAT
* *
3242821 TA-TATTACTAG
1 TATTAATA-TAT
*
3242832 TA-TATTAT-T
1 TATTAATATAT
3242841 TATTAATATAT
1 TATTAATATAT
3242852 TATT-ATAATAT
1 TATTAAT-ATAT
* *
3242863 TTTTAAT-TAA
1 TATTAATATAT
3242873 TA-TAATAATATT
1 TATTAAT-ATA-T
*
3242885 TATTAATATAA
1 TATTAATATAT
*
3242896 TATT-ATTTAT
1 TATTAATATAT
3242906 TAGTATAAT-TAT
1 TA-T-TAATATAT
*
3242918 TATTAGTATAT
1 TATTAATATAT
*
3242929 TATTAATATAA
1 TATTAATATAT
3242940 TATTA
1 TATTA
3242945 TTTATAAATA
Statistics
Matches: 115, Mismatches: 16, Indels: 32
0.71 0.10 0.20
Matches are distributed among these distances:
9 6 0.05
10 29 0.25
11 52 0.45
12 17 0.15
13 11 0.10
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TATTAATATAT
Found at i:3242954 original size:18 final size:18
Alignment explanation
Indices: 3242800--3242921 Score: 97
Period size: 18 Copynumber: 6.6 Consensus size: 18
3242790 TAATATATTG
3242800 TAATATTATTTATTAATA
1 TAATATTATTTATTAATA
* *
3242818 TATTA-TA-TTACTAGTATA
1 TAATATTATTTATTA--ATA
* * *
3242836 TTATTTATTAATATATTATTA
1 -TA-ATATT-ATTTATTAATA
3242857 TAATATT-TTTAATTAATA
1 TAATATTATTT-ATTAATA
*
3242875 TAATAATATTTATTAATA
1 TAATATTATTTATTAATA
*
3242893 TAATATTATTTATTAGTA
1 TAATATTATTTATTAATA
3242911 TAATTATTATT
1 TAA-TATTATT
3242922 AGTATATTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
16 5 0.06
17 4 0.05
18 45 0.54
19 16 0.19
20 5 0.06
21 3 0.04
22 1 0.01
23 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATATTATTTATTAATA
Found at i:3251040 original size:2 final size:2
Alignment explanation
Indices: 3251033--3251058 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3251023 CTATGTCATG
3251033 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
3251059 GCTATATTTT
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):
TA
Found at i:3256198 original size:2 final size:2
Alignment explanation
Indices: 3256191--3256216 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3256181 TCTCCCATTT
3256191 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
3256217 ATGTTGTGTC
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):
TA
Found at i:3256642 original size:16 final size:16
Alignment explanation
Indices: 3256621--3256654 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3256611 CCCCAACAGA
3256621 TTAGAAGCTGAAAAGG
1 TTAGAAGCTGAAAAGG
3256637 TTAGAAGCTGAAAAGG
1 TTAGAAGCTGAAAAGG
3256653 TT
1 TT
3256655 GTACGTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (16 bp):
TTAGAAGCTGAAAAGG
Found at i:3261545 original size:21 final size:21
Alignment explanation
Indices: 3261519--3261583 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
3261509 AATTAAGTTT
3261519 TGGATTCGTTAATGATTTGCG
1 TGGATTCGTTAATGATTTGCG
*
3261540 TGGATTAAC-TTAATTAAGTTT---
1 TGGATT--CGTTAA-TGA-TTTGCG
3261561 TGGATTCGTTAATGATTTGCG
1 TGGATTCGTTAATGATTTGCG
3261582 TG
1 TG
3261584 AATTAACTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
18 3 0.09
19 3 0.09
20 4 0.12
21 14 0.41
22 4 0.12
23 3 0.09
24 3 0.09
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.45
Consensus pattern (21 bp):
TGGATTCGTTAATGATTTGCG
Found at i:3261560 original size:42 final size:42
Alignment explanation
Indices: 3261496--3261621 Score: 234
Period size: 42 Copynumber: 3.0 Consensus size: 42
3261486 ACGTGAATTA
3261496 CGTGAATTAACTGAATTAAGTTTTGGATTCGTTAATGATTTG
1 CGTGAATTAACTGAATTAAGTTTTGGATTCGTTAATGATTTG
* *
3261538 CGTGGATTAACTTAATTAAGTTTTGGATTCGTTAATGATTTG
1 CGTGAATTAACTGAATTAAGTTTTGGATTCGTTAATGATTTG
3261580 CGTGAATTAACTGAATTAAGTTTTGGATTCGTTAATGATTTG
1 CGTGAATTAACTGAATTAAGTTTTGGATTCGTTAATGATTTG
3261622 ATGTTCATAG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (42 bp):
CGTGAATTAACTGAATTAAGTTTTGGATTCGTTAATGATTTG
Found at i:3264233 original size:33 final size:34
Alignment explanation
Indices: 3264179--3264242 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
3264169 TTTGACATCT
*
3264179 TAAAAAAAAAAGTAATCAAATTCTATCCAAACAA
1 TAAAAAAAAAAGTAATCAAATTATATCCAAACAA
* * *
3264213 TAAAAAATAAA-TAATTAAATTATATTCAAA
1 TAAAAAAAAAAGTAATCAAATTATATCCAAA
3264243 TAATGAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 16 0.62
34 10 0.38
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (34 bp):
TAAAAAAAAAAGTAATCAAATTATATCCAAACAA
Found at i:3274820 original size:28 final size:28
Alignment explanation
Indices: 3274785--3274842 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
3274775 CTTATTAAGA
3274785 AAATGGCAATACACAATCTAGATGAAAT
1 AAATGGCAATACACAATCTAGATGAAAT
*
3274813 AAATGGCAATACACAGTCTAGATGAAAT
1 AAATGGCAATACACAATCTAGATGAAAT
3274841 AA
1 AA
3274843 GTCTACAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (28 bp):
AAATGGCAATACACAATCTAGATGAAAT
Found at i:3289238 original size:33 final size:33
Alignment explanation
Indices: 3289200--3289265 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
3289190 GCCAACTGTC
3289200 TGAAAAAGATCTTCTTAACAAAAGAAATTAGTA
1 TGAAAAAGATCTTCTTAACAAAAGAAATTAGTA
* *
3289233 TGAAAAATATCTTCTTAAGAAAAGAAATTAGTA
1 TGAAAAAGATCTTCTTAACAAAAGAAATTAGTA
3289266 AAATGTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.29
Consensus pattern (33 bp):
TGAAAAAGATCTTCTTAACAAAAGAAATTAGTA
Found at i:3293805 original size:3 final size:3
Alignment explanation
Indices: 3293797--3293837 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3293787 CAACTTTACA
3293797 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3293838 AGGGCTTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3295295 original size:18 final size:18
Alignment explanation
Indices: 3295272--3295315 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
3295262 TGTTTTTATT
*
3295272 TATTTTAATTTTAAAATA
1 TATTTTAATATTAAAATA
3295290 TATTTTAAAATATTAAAATA
1 TATTTT--AATATTAAAATA
3295310 T-TTTTA
1 TATTTTA
3295316 TATGACTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 6 0.26
19 4 0.17
20 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTTAATATTAAAATA
Found at i:3296115 original size:2 final size:2
Alignment explanation
Indices: 3296108--3296140 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3296098 ATATTACATT
*
3296108 TA TA TA TA TT TA -A 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 TA TA
3296141 AATTGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3299692 original size:32 final size:32
Alignment explanation
Indices: 3299656--3299723 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
3299646 TAATACAATA
*
3299656 AGTTAATGACATTACTCCTCCGTTTTGAGTTT
1 AGTTAATGACATTACTCCTCCGCTTTGAGTTT
*
3299688 AGTTAATGACATTACTCCTTCGCTTTGAGTTT
1 AGTTAATGACATTACTCCTCCGCTTTGAGTTT
3299720 AGTT
1 AGTT
3299724 GTGTAGGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (32 bp):
AGTTAATGACATTACTCCTCCGCTTTGAGTTT
Found at i:3305747 original size:22 final size:25
Alignment explanation
Indices: 3305719--3305764 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
3305709 TTTCAACACA
3305719 AAAGGAG-AA-TATCA-ACACTTCG
1 AAAGGAGAAAGTATCACACACTTCG
3305741 AAAGGAGAAAGTATCACACACTTC
1 AAAGGAGAAAGTATCACACACTTC
3305765 CCATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
24 5 0.24
25 7 0.33
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (25 bp):
AAAGGAGAAAGTATCACACACTTCG
Found at i:3308339 original size:21 final size:21
Alignment explanation
Indices: 3308315--3308354 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3308305 ATCTTAGCAC
3308315 ATTAAAT-TAATTTATTTTAAA
1 ATTAAATGT-ATTTATTTTAAA
3308336 ATTAAATGTATTTATTTTA
1 ATTAAATGTATTTATTTTA
3308355 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
ATTAAATGTATTTATTTTAAA
Found at i:3308494 original size:34 final size:33
Alignment explanation
Indices: 3308416--3308601 Score: 101
Period size: 34 Copynumber: 5.4 Consensus size: 33
3308406 AACAAAAGTT
* **
3308416 TATATATTTTCAAAAATAAAATTTTCAAAAATATAA
1 TATA-ATTTTTAAAAATTCAATTTT-AAAAA-ATAA
* *
3308452 GATGATTTTTAAAAATTC-ATTCTTAAAAACATAA
1 TATAATTTTTAAAAATTCAATT-TTAAAAA-ATAA
* * *
3308486 TATAATTTTGAAAAA-TCAATTTTCAAAAATTA
1 TATAATTTTTAAAAATTCAATTTTAAAAAATAA
* * *
3308518 TATTAAATTTTTAAAAATTTACTTTT-AAAAATTA
1 TA-T-AATTTTTAAAAATTCAATTTTAAAAAATAA
* * *
3308552 TATTATTTTCTCAAAAA-TAAATTGCTAAAAATATAA
1 TATAATTTT-T-AAAAATTCAATT-TTAAAAA-ATAA
* *
3308588 TATAACTTTCAAAA
1 TATAATTTTTAAAA
3308602 GTATAATTTT
Statistics
Matches: 118, Mismatches: 22, Indels: 22
0.73 0.14 0.14
Matches are distributed among these distances:
32 10 0.08
33 15 0.13
34 58 0.49
35 23 0.19
36 12 0.10
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (33 bp):
TATAATTTTTAAAAATTCAATTTTAAAAAATAA
Found at i:3316487 original size:37 final size:37
Alignment explanation
Indices: 3316445--3316521 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
3316435 ATACATTTTA
*
3316445 AGATTTGATATGCATGCTTGTGTGGTTCATACTTCAT
1 AGATTTGATATGCATGCTTGTATGGTTCATACTTCAT
*
3316482 AGATTTGATATGCATGCTTGTATGGTTCATACTTCTT
1 AGATTTGATATGCATGCTTGTATGGTTCATACTTCAT
3316519 AGA
1 AGA
3316522 CACAACAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (37 bp):
AGATTTGATATGCATGCTTGTATGGTTCATACTTCAT
Found at i:3326632 original size:28 final size:28
Alignment explanation
Indices: 3326601--3326657 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
3326591 ATAGAATAAG
*
3326601 TCTATCACGTGATAAAAATGAAAAAAAA
1 TCTATCACATGATAAAAATGAAAAAAAA
* **
3326629 TCTATCTCATGATAAATTTGAAAAAAAA
1 TCTATCACATGATAAAAATGAAAAAAAA
3326657 T
1 T
3326658 TTTAATTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.28
Consensus pattern (28 bp):
TCTATCACATGATAAAAATGAAAAAAAA
Found at i:3327893 original size:19 final size:17
Alignment explanation
Indices: 3327853--3327885 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3327843 AAAGAAATGA
*
3327853 ATAAAACAAAAAATTAT
1 ATAATACAAAAAATTAT
3327870 ATAATACAAAAAATTA
1 ATAATACAAAAAATTA
3327886 ATTATAATCA
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:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAATACAAAAAATTAT
Found at i:3328435 original size:26 final size:26
Alignment explanation
Indices: 3328384--3328445 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
3328374 GTAGATCTTG
*
3328384 ATTTCAATTTAAATAATTATCCAAAAT
1 ATTT-AATTTAAATAATTATCCAAAAA
*
3328411 ATTTAATTTAAATAATTTAT-TAAAAA
1 ATTTAATTTAAATAA-TTATCCAAAAA
*
3328437 ATTTTATTT
1 ATTTAATTT
3328446 GATAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTAATTTAAATAATTATCCAAAAA
Found at i:3328561 original size:2 final size:2
Alignment explanation
Indices: 3328549--3328577 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3328539 GTATGTTGTA
3328549 AT AT A- 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 AT
3328578 TAGATTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3335741 original size:16 final size:17
Alignment explanation
Indices: 3335705--3335740 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3335695 GTACAGTATG
*
3335705 AAACTAGCAGTATGAAA
1 AAACTAGCAGTACGAAA
*
3335722 AAACTAGCATTACGAAA
1 AAACTAGCAGTACGAAA
3335739 AA
1 AA
3335741 CCTTTCTCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (17 bp):
AAACTAGCAGTACGAAA
Found at i:3337450 original size:143 final size:143
Alignment explanation
Indices: 3337192--3337484 Score: 586
Period size: 143 Copynumber: 2.0 Consensus size: 143
3337182 AATAATCACA
3337192 TTTCAAATAAGGAAATTTTATATTTATAATAAAATATGATAGAATTCTAAATTTCCCAAGTAAAT
1 TTTCAAATAAGGAAATTTTATATTTATAATAAAATATGATAGAATTCTAAATTTCCCAAGTAAAT
3337257 TTTAGGATTTTTTTTTACCTTAAAAAATGAAAAAATCTGATGTAAAAACTTATTTAAGTTGGATC
66 TTTAGGATTTTTTTTTACCTTAAAAAATGAAAAAATCTGATGTAAAAACTTATTTAAGTTGGATC
3337322 ACATAATATTAAT
131 ACATAATATTAAT
3337335 TTTCAAATAAGGAAATTTTATATTTATAATAAAATATGATAGAATTCTAAATTTCCCAAGTAAAT
1 TTTCAAATAAGGAAATTTTATATTTATAATAAAATATGATAGAATTCTAAATTTCCCAAGTAAAT
3337400 TTTAGGATTTTTTTTTACCTTAAAAAATGAAAAAATCTGATGTAAAAACTTATTTAAGTTGGATC
66 TTTAGGATTTTTTTTTACCTTAAAAAATGAAAAAATCTGATGTAAAAACTTATTTAAGTTGGATC
3337465 ACATAATATTAAT
131 ACATAATATTAAT
3337478 TTTCAAA
1 TTTCAAA
3337485 AAATTAAAAC
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 150 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (143 bp):
TTTCAAATAAGGAAATTTTATATTTATAATAAAATATGATAGAATTCTAAATTTCCCAAGTAAAT
TTTAGGATTTTTTTTTACCTTAAAAAATGAAAAAATCTGATGTAAAAACTTATTTAAGTTGGATC
ACATAATATTAAT
Found at i:3338042 original size:21 final size:21
Alignment explanation
Indices: 3338018--3338064 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3338008 ATATGATATG
3338018 AAAATAAT-ATAAAAATTTTAA
1 AAAAT-ATGATAAAAATTTTAA
*
3338039 AAAATATGATTAAAATTTTAA
1 AAAATATGATAAAAATTTTAA
*
3338060 TAAAT
1 AAAAT
3338065 TTTATAAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATATGATAAAAATTTTAA
Found at i:3340018 original size:2 final size:2
Alignment explanation
Indices: 3340013--3340038 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3340003 TGTATGTGTG
3340013 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
3340039 AAACTGTACT
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):
TA
Done.