Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 50 of 202
Found at i:14867634 original size:3 final size:3
Alignment explanation
Indices: 14867626--14867714 Score: 126
Period size: 3 Copynumber: 29.3 Consensus size: 3
14867616 AATTTATTCC
14867626 ATA ATA ATA 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 ATA ATA ATA
* * *
14867674 ATA ATA ATA AT- ATAA ACA ATA ATA GTA ATTA ATA ATT ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA ATA A
14867715 CTATAAATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
2 2 0.03
3 71 0.92
4 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14868647 original size:40 final size:42
Alignment explanation
Indices: 14868600--14868684 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 42
14868590 TTTTATCCTA
*
14868600 GAAAAAA-AAATTAAAATAG-GAGAAGATAATATTGGGTTGTT
1 GAAAAAAGAATTTAAAA-AGAGAGAAGATAATATTGGGTTGTT
*
14868641 GAAAAAAGAATTTAAAAAGATGAGAAGATAATCTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGA-GAGAAGATAATATTGGGTTGTT
14868684 G
1 G
14868685 GATTTACCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 9 0.23
42 8 0.21
43 22 0.56
ACGTcount: A:0.48, C:0.01, G:0.24, T:0.27
Consensus pattern (42 bp):
GAAAAAAGAATTTAAAAAGAGAGAAGATAATATTGGGTTGTT
Found at i:14870051 original size:19 final size:20
Alignment explanation
Indices: 14870029--14870067 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14870019 TCATTAATAA
14870029 ATTTATT-AATTTTTAACCG
1 ATTTATTGAATTTTTAACCG
*
14870048 ATTTATTGATTTTTTAACCG
1 ATTTATTGAATTTTTAACCG
14870068 CAATCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTTATTGAATTTTTAACCG
Found at i:14872540 original size:11 final size:11
Alignment explanation
Indices: 14872524--14872550 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14872514 AATAATTTTT
14872524 TAAAATTTTAA
1 TAAAATTTTAA
14872535 TAAAATTTTAA
1 TAAAATTTTAA
14872546 TAAAA
1 TAAAA
14872551 AAAGGAGAGT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:14882624 original size:579 final size:577
Alignment explanation
Indices: 14881525--14883249 Score: 3004
Period size: 579 Copynumber: 3.0 Consensus size: 577
14881515 ATCATATAAG
* **
14881525 GGAGACATGTTGGAAGCTACACAAAAAATTGGTGGATTGAAAGTCAAGTAGATCAACCCAAGATA
1 GGAGACATGTTGGAAGCT--ACAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATA
*
14881590 GCAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCTCTTCACC
64 GCAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACC
*
14881655 AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTTTACCGCTAC
129 AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTAC
14881720 ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCAT
194 ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCAT
*
14881785 GAACATTGGATCATATGACAGGAAATGGGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
259 GAACATTGGATCATATGACAGGAGATGGGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
*
14881850 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAGTTCAAATATCAC
324 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCAC
*
14881915 CTGGAGTCATTCTTAAATCTGTGTTTTATGTTCCTAATCTTGATTGTAATATGATTTCCATCTGT
389 CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATCTTGATTGTAATATGATTTCCATCTGT
* * * *
14881980 AAATCAACTCGTGATAACCATTGTTTAGCAAAATTCTTTCCAAATGTGTGTGTTTTTCTGGAATT
454 AAATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATT
14882045 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
519 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
*** *
14882104 GGAGACATGTTGGAAGCTATGCAAAAAATTGGCATATTGGAAGTCAAACAGATCAACCGAAGATA
1 GGAGACATGTTGGAAGCTA--CAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATA
* * * *
14882169 GCAATGCAAACTCAACCAATATCACGAGGGAACGATAATGCACAACTGAATCCAACCCCTTCACT
64 GCAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACC
* *
14882234 AAGGAACAACTAGATATGCTAAAATTGTTTCTAAACAACACTATAACACAACACTCTACCGCTAC
129 AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTAC
* *
14882299 ACCAGCCATAAGTTTACATGTTAAGTTAGTTAAATTACAATAAAAATAGTTGATCGTTGACTCAC
194 ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCAT
* *
14882364 GAACATTGGATCATATGACAAGAGATGTGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
259 GAACATTGGATCATATGACAGGAGATGGGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
*
14882429 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATAAGACCAGATCAATTCAAATATCAC
324 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCAC
14882494 CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATCTTGATTGTAATATGATTTCCATCTGT
389 CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATCTTGATTGTAATATGATTTCCATCTGT
* *
14882559 AAATTAACTCGTGATAGCCATTTTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATT
454 AAATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATT
14882624 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
519 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
14882683 GGAGACATGTTGGAAGCTACACAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATAG
1 GGAGACATGTTGGAAGCTACA-AAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATAG
* *
14882748 CAATGCAAACTCAACTAATGTAACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACCA
65 CAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACCA
* * * **
14882813 AGTAACAGCTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACATTCTATTGCTACA
130 AGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTACA
* * *
14882878 CTAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAACAGTTGATCGTTAACTCATG
195 CCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCATG
*
14882943 AACATTGGATCATATGACAGGAGATGGGACACTTTTCGTTGACTATCAACTGTGTCACTCTAATC
260 AACATTGGATCATATGACAGGAGATGGGACACTTTTCGTTGACTATCAACTGTGTCACTTTAATC
14883008 TCAAGGTTAAG--TGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCACC
325 TCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCACC
* *
14883071 TGGAATCATTCTTAAATCTGTGTTTTATGCTCCTAATCTTGATTGTAATATGATTTCCATATGTA
390 TGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATCTTGATTGTAATATGATTTCCATCTGTA
14883136 AATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATTG
455 AATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATTG
*
14883201 GTTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACC
520 GGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACC
14883250 TCTTCAAGCC
Statistics
Matches: 1083, Mismatches: 60, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
576 225 0.21
577 3 0.00
578 289 0.27
579 566 0.52
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (577 bp):
GGAGACATGTTGGAAGCTACAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATAGC
AATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACCAA
GGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTACAC
CAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCATGA
ACATTGGATCATATGACAGGAGATGGGACACTTTTCGTTGACTATCAACTGTGTCACTTTAATCT
CAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCACCT
GGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATCTTGATTGTAATATGATTTCCATCTGTAA
ATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATTGG
GTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
Found at i:14883980 original size:20 final size:18
Alignment explanation
Indices: 14883930--14884034 Score: 65
Period size: 20 Copynumber: 5.7 Consensus size: 18
14883920 CTACAAGATA
14883930 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
*
14883947 ATTATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
14883967 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
* *
14883986 ACTATTAAGATAAATA-TT
1 AATATTAA-ATTAATATTT
*
14884004 AA-ATTAAATTTAATATTA
1 AATATTAAA-TTAATATTT
14884022 AACTATTAAATTA
1 AA-TATTAAATTA
14884035 GTAATATTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
16 1 0.01
17 20 0.30
18 6 0.09
19 14 0.21
20 26 0.39
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:14887109 original size:81 final size:81
Alignment explanation
Indices: 14886972--14887136 Score: 267
Period size: 81 Copynumber: 2.0 Consensus size: 81
14886962 TTCACATGAT
* * * *
14886972 TTATTCAGTCGTGATAAAGGTTATGAATAACATGAGTGACCAAGTCCCTTGCGGGAGATTAACAA
1 TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACCAAATCCCTTGCGGGAGATTAACAA
*
14887037 GTGGATGGGAATGTGA
66 GTGGATGAGAATGTGA
* *
14887053 TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACTAAATCCCTTGGGGGAGATTAACAA
1 TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACCAAATCCCTTGCGGGAGATTAACAA
14887118 GTGGATGAGAATGTGA
66 GTGGATGAGAATGTGA
14887134 TTA
1 TTA
14887137 ACGGAGGATT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (81 bp):
TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACCAAATCCCTTGCGGGAGATTAACAA
GTGGATGAGAATGTGA
Found at i:14897178 original size:14 final size:14
Alignment explanation
Indices: 14897147--14897188 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
14897137 TCCTGATTGG
*
14897147 TTTATTGATTTA-T
1 TTTATTTATTTATT
*
14897160 TTTATTTGTTTATT
1 TTTATTTATTTATT
14897174 TTTATTTATTTATT
1 TTTATTTATTTATT
14897188 T
1 T
14897189 CTTTTTGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:14897183 original size:4 final size:4
Alignment explanation
Indices: 14897147--14897209 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
14897137 TCCTGATTGG
* * *
14897147 TTTA TTGA TTTA TTTTA TTTG TTTA -TT- TTTA TTTA TTTA TTTC TTT-
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
14897193 TTGGTA TTTA TTTA TTT
1 TT--TA TTTA TTTA TTT
14897210 TTATCTCTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
3 6 0.12
4 35 0.73
5 5 0.10
6 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:14901272 original size:76 final size:76
Alignment explanation
Indices: 14901173--14901330 Score: 244
Period size: 76 Copynumber: 2.1 Consensus size: 76
14901163 GTTGTGTGAG
*** * *
14901173 ACACACGGCCTGGTGACATGGTTGTGTGTTATTTGATGAATTATTTAGGGTGCAAGTCAGTGAGT
1 ACACACGGCCTGACAACACGGTTGTGTGTCATTTGATGAATTATTTAGGGTGCAAGTCAGTGAGT
14901238 TACACGGCCTA
66 TACACGGCCTA
* *
14901249 ACACACGGCCTGACAACACGGTTGTGTGTCATTTGATGAATTATTTAGGGTGCAATTTAGTGAGT
1 ACACACGGCCTGACAACACGGTTGTGTGTCATTTGATGAATTATTTAGGGTGCAAGTCAGTGAGT
14901314 TACACGGCCTA
66 TACACGGCCTA
*
14901325 ATACAC
1 ACACAC
14901331 AGGCGTGTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (76 bp):
ACACACGGCCTGACAACACGGTTGTGTGTCATTTGATGAATTATTTAGGGTGCAAGTCAGTGAGT
TACACGGCCTA
Found at i:14908353 original size:9 final size:9
Alignment explanation
Indices: 14908339--14908369 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14908329 GTTAAAAGAA
14908339 TCGAGTTAT
1 TCGAGTTAT
*
14908348 TCGAGTTAA
1 TCGAGTTAT
14908357 TCGAGTTAT
1 TCGAGTTAT
14908366 TCGA
1 TCGA
14908370 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14908438 original size:9 final size:9
Alignment explanation
Indices: 14908424--14908457 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
14908414 GTTTTCGAAT
14908424 TCGAATAAC
1 TCGAATAAC
*
14908433 TCGAATAAT
1 TCGAATAAC
14908442 TCGAATAAC
1 TCGAATAAC
14908451 TCGAATA
1 TCGAATA
14908458 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:14908442 original size:18 final size:18
Alignment explanation
Indices: 14908421--14908457 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14908411 TGAGTTTTCG
14908421 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
14908439 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
14908457 A
1 A
14908458 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:14919450 original size:2 final size:2
Alignment explanation
Indices: 14919443--14919470 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14919433 ACATGAATTA
14919443 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
14919471 GACAGTATCT
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:14920562 original size:29 final size:30
Alignment explanation
Indices: 14920503--14920566 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
14920493 AAAATTAGAA
14920503 ATGAACTTTGATCTAATGTGCAATGTCATAC
1 ATGAACTTTGATCT-ATGTGCAATGTCATAC
* * *
14920534 ATGAACTTTGATCT-TGTGCGATTTTATAC
1 ATGAACTTTGATCTATGTGCAATGTCATAC
14920563 ATGA
1 ATGA
14920567 CATTTTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 16 0.53
31 14 0.47
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (30 bp):
ATGAACTTTGATCTATGTGCAATGTCATAC
Found at i:14922608 original size:21 final size:22
Alignment explanation
Indices: 14922551--14922597 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 22
14922541 TGTATGATAC
14922551 TTGAATAGATTGTTTTTTTTTTGT
1 TTGAATAGA-T-TTTTTTTTTTGT
14922575 TTGAATAGATTTTTTTTTTTGT
1 TTGAATAGATTTTTTTTTTTGT
14922597 T
1 T
14922598 AAACGACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 13 0.57
23 1 0.04
24 9 0.39
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (22 bp):
TTGAATAGATTTTTTTTTTTGT
Found at i:14926602 original size:43 final size:44
Alignment explanation
Indices: 14926521--14926626 Score: 160
Period size: 43 Copynumber: 2.4 Consensus size: 44
14926511 TATCCTAGAT
** * *
14926521 ATGGTCTTACATGTTATAATCATATACGATGCCAATGTCTCAGAC
1 ATGGTCTTACATGAAAT-CTCATATACGATGCCAATGTCCCAGAC
14926566 ATGGTCTTACATGAAATCTCATAT-CGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGAAATCTCATATACGATGCCAATGTCCCAGAC
14926609 ATGGTCTTACATGAAATC
1 ATGGTCTTACATGAAATC
14926627 ATACCTCGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
43 36 0.63
44 6 0.11
45 15 0.26
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (44 bp):
ATGGTCTTACATGAAATCTCATATACGATGCCAATGTCCCAGAC
Found at i:14929625 original size:26 final size:26
Alignment explanation
Indices: 14929590--14929686 Score: 87
Period size: 26 Copynumber: 3.8 Consensus size: 26
14929580 TGAGCTCTTA
*
14929590 TGAGCGTCCCG-TTATATGGCTCTTCG
1 TGAGCTTCCCGATTA-ATGGCTCTTCG
*
14929616 TGAGCTTCCCGATTCAA-GGCTCTTTG
1 TGAGCTTCCCGATT-AATGGCTCTTCG
** *
14929642 TGAGCTTCATGATTAATGGCTCTCCG
1 TGAGCTTCCCGATTAATGGCTCTTCG
*
14929668 -AAGCTTCCCGA-T-ATGGCTC
1 TGAGCTTCCCGATTAATGGCTC
14929687 GCTTGAACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
23 7 0.12
24 1 0.02
25 10 0.17
26 37 0.63
27 3 0.05
28 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCGATTAATGGCTCTTCG
Found at i:14929834 original size:25 final size:25
Alignment explanation
Indices: 14929746--14929850 Score: 104
Period size: 25 Copynumber: 4.2 Consensus size: 25
14929736 TACCTATTGT
* * *
14929746 TGGCTCACATAAGTTTCCTGATA-A
1 TGGCTCACATGAGCTTCCTGTTATA
** *
14929770 TGGCTCTTATGAGCTTTCTGTTATA
1 TGGCTCACATGAGCTTCCTGTTATA
** * * *
14929795 CAGCCCAGATTAGCTTCCTGTTATA
1 TGGCTCACATGAGCTTCCTGTTATA
14929820 TGGCTCACATGAGCTTCCTGTTATA
1 TGGCTCACATGAGCTTCCTGTTATA
14929845 TGGCTC
1 TGGCTC
14929851 GAGAGATGGC
Statistics
Matches: 62, Mismatches: 18, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
24 17 0.27
25 45 0.73
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCTGTTATA
Found at i:14931880 original size:5 final size:5
Alignment explanation
Indices: 14931870--14931906 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
14931860 GAAGATGATG
*
14931870 ATTTT ATTTT AGTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
14931907 GATTAGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:14933662 original size:293 final size:293
Alignment explanation
Indices: 14933128--14934303 Score: 1755
Period size: 293 Copynumber: 4.0 Consensus size: 293
14933118 TACTATCGGA
* *
14933128 GAAATTAAAAGTAAGCTAGCATCAATTTTCACTTCAATAATCTATTATAATAGAATCTATTTGCC
1 GAAATTAAAAGTAATCTAGCATCAATTTTCACTTCAATAATCTATTATAATAGAATCTATTTGGC
* * * ** * * *
14933193 TTGATTGTGTCCTTATCTGCACTTGTTTAGAATTTTTTCCTATCTTTTTTCGAACAACATTAGAG
66 TTGCTTGTGTCCCTATCTACACTTGTTTAGAAGGTTTTCCTCTCTTCTTTCGAACAACATCAGAG
* * *
14933258 TGTTGTTGCATAATTTGGCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATTTAAGGCCTTT
131 TGTTGTTGCATAATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTT
* * * * *
14933323 CTATGAATATTGATATTGGGATGTATCAGATTATCCAATATTCCTTACAGCAGTAATGTTTCACA
196 CCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGCAGTAATGTTTCAAA
14933388 GATTTGTTAAGTTCTTGCCCACATCATGGTTTT
261 GATTTGTTAAGTTCTTGCCCACATCATGGTTTT
* * *
14933421 GAAATTAAAAGTAATCTAGCATCAATTTGT-ACTTCAATCATATATTATAATAGAATCTGTTTGG
1 GAAATTAAAAGTAATCTAGCATCAATTT-TCACTTCAATAATCTATTATAATAGAATCTATTTGG
* * * * * * * *
14933485 CTTTCTTATGTCTCTATATGCACTTGTTTAGAAGGTTTTTCC-CTCTCCTTTCGAATAGCATCAG
65 CTTGCTTGTGTCCCTATCTACACTTGTTTAGAAGG-TTTTCCTCTCTTCTTTCGAACAACATCAG
* *
14933549 AGTGTTGTTGCATAATTTGTCTTGTCGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCT
129 AGTGTTGTTGCATAATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCT
14933614 TTCCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGCAGTAATGTTTCA
194 TTCCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGCAGTAATGTTTCA
* **
14933679 AAGATTTATTAAGTTCTTGCCCACATCATTTTTTT
259 AAGATTTGTTAAGTTCTTGCCCACATCATGGTTTT
* *
14933714 GAAATTAAAAGTTAGT-TAGCATCAATTTTCACTTCAATCATCTATTATAATAGAATCTATTTGG
1 GAAATTAAAAG-TAATCTAGCATCAATTTTCACTTCAATAATCTATTATAATAGAATCTATTTGG
* * * * * *
14933778 CTTGCTTGTATCCCTATCTACACTTGTTTAAAAGGTTTTCCTTTCTTCTATCGAACAATATTAGA
65 CTTGCTTGTGTCCCTATCTACACTTGTTTAGAAGGTTTTCCTCTCTTCTTTCGAACAACATCAGA
* * * * *
14933843 GTTTTGTTGCATAATTTGCCTTGTTGTCATAGCTTTTTTCCCCTCCCACTTCAATCTAGGGCCTT
130 GTGTTGTTGCATAATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTT
* * * *
14933908 TCCATGAATGTTGATATTGGGATGTATCAGATTATTCAATCTTCCTTATAGTAATAATGTTTCAA
195 TCCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGCAGTAATGTTTCAA
14933973 AGATTTGTTAAGTTCTTGCCCACATCATGGTTTT
260 AGATTTGTTAAGTTCTTGCCCACATCATGGTTTT
* *
14934007 GAAATTAAACGTAATCTAGCATCAATTTACACTTCAATAATCTATTATAATAGAATCTATTTGGC
1 GAAATTAAAAGTAATCTAGCATCAATTTTCACTTCAATAATCTATTATAATAGAATCTATTTGGC
* * * *
14934072 TTACTTGTGTCCCTATCTACACTTGTTTAGAAGGTTTTCCTCTCTTCTTTCAAATAGCATCAGAG
66 TTGCTTGTGTCCCTATCTACACTTGTTTAGAAGGTTTTCCTCTCTTCTTTCGAACAACATCAGAG
* * *
14934137 TGTTGTTGCATAATTTGCCTTGTTTTCATAGCCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTT
131 TGTTGTTGCATAATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTT
*
14934202 CCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGTAGTAATGTTTCAAA
196 CCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGCAGTAATGTTTCAAA
14934267 GATTTGTTAAGTTCTTGCCCACATCATGGTTTT
261 GATTTGTTAAGTTCTTGCCCACATCATGGTTTT
14934300 GAAA
1 GAAA
14934304 ATTGGCGGAC
Statistics
Matches: 794, Mismatches: 83, Indels: 12
0.89 0.09 0.01
Matches are distributed among these distances:
292 10 0.01
293 774 0.97
294 10 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (293 bp):
GAAATTAAAAGTAATCTAGCATCAATTTTCACTTCAATAATCTATTATAATAGAATCTATTTGGC
TTGCTTGTGTCCCTATCTACACTTGTTTAGAAGGTTTTCCTCTCTTCTTTCGAACAACATCAGAG
TGTTGTTGCATAATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTT
CCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGCAGTAATGTTTCAAA
GATTTGTTAAGTTCTTGCCCACATCATGGTTTT
Found at i:14936074 original size:3 final size:3
Alignment explanation
Indices: 14936066--14936103 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14936056 ATTAACTAGA
14936066 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 AA
14936104 ATACCTAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14940850 original size:25 final size:25
Alignment explanation
Indices: 14940822--14940875 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
14940812 CCAACTGGAT
* *
14940822 AGTTTATCAAACAATAAAG-TAAAAG
1 AGTTTACCAAAAAATAAAGCT-AAAG
*
14940847 AGTTTCCCAAAAAATAAAGCTAAAG
1 AGTTTACCAAAAAATAAAGCTAAAG
14940872 AGTT
1 AGTT
14940876 AAAAAGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (25 bp):
AGTTTACCAAAAAATAAAGCTAAAG
Found at i:14941334 original size:21 final size:22
Alignment explanation
Indices: 14941308--14941394 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 22
14941298 TTATTTAATT
14941308 TTTTTA-AATTTTAAAAAAATA
1 TTTTTAGAATTTTAAAAAAATA
*
14941329 TTTTTAGAATTTTTAATAATTTTAATGA
1 TTTTTAGAA-TTTTAA-AA---AAAT-A
14941357 TTTTT--AATTTT--AAAAATA
1 TTTTTAGAATTTTAAAAAAATA
14941375 GTTTTTAGAATTTTAAAAAA
1 -TTTTTAGAATTTTAAAAAA
14941395 TTAATTAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 22
0.68 0.03 0.29
Matches are distributed among these distances:
18 1 0.02
19 8 0.15
21 12 0.23
22 4 0.08
23 10 0.19
24 2 0.04
25 4 0.08
26 2 0.04
27 3 0.06
28 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTTAGAATTTTAAAAAAATA
Found at i:14941474 original size:12 final size:12
Alignment explanation
Indices: 14941457--14941481 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14941447 TAGCAAAGTT
14941457 AAAAAAATATTA
1 AAAAAAATATTA
14941469 AAAAAAATATTA
1 AAAAAAATATTA
14941481 A
1 A
14941482 CTTTTCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAAATATTA
Found at i:14943556 original size:18 final size:18
Alignment explanation
Indices: 14943515--14943563 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
14943505 ATACTTACAG
* *
14943515 ATTTTTAT-TTAATATAT
1 ATTTTTATATTTATATAC
*
14943532 ATATTTATATTTATATAC
1 ATTTTTATATTTATATAC
14943550 ATTTTTATACTTTA
1 ATTTTTATA-TTTA
14943564 CGATTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATATTTATATAC
Found at i:14944136 original size:106 final size:106
Alignment explanation
Indices: 14943861--14944189 Score: 435
Period size: 106 Copynumber: 3.1 Consensus size: 106
14943851 AGGAAGGTTT
14943861 TTTCTAAA-TAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTT
1 TTTC-AAAGTAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTT
* * *
14943925 TCGATTTCTCGTTCGACCAAGTAGCTAAATATCCTTTTTAAAC
65 TCGATTTCTCGTTCGACCAAATAGCCAAATATCC-TTTTAAAA
* * * *
14943968 TTTTAAAATAAGGCAATATTTCGCGTTTAGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTT
1 TTTCAAAGTAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
* * * *
14944033 CGACTCCTTGTTTGACCAAATAGCCAAATATCCTTTTAAAA
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * * * *
14944074 TTTCAAAGTGAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
* * * *
14944139 TGATTTCTCGTTCGACTAAATAGCCAAATACCCTCTTAAAA
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
*
14944180 CTTCAAAGTA
1 TTTCAAAGTA
14944190 TGGTTTCCTT
Statistics
Matches: 191, Mismatches: 30, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
106 106 0.55
107 85 0.45
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (106 bp):
TTTCAAAGTAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:14951952 original size:19 final size:19
Alignment explanation
Indices: 14951928--14951966 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
14951918 AAAATTTTCG
14951928 AGAAAAAAAAAAGGTGAAA
1 AGAAAAAAAAAAGGTGAAA
*
14951947 AGAAAAAAAAAAGTTGAAA
1 AGAAAAAAAAAAGGTGAAA
14951966 A
1 A
14951967 CCGCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AGAAAAAAAAAAGGTGAAA
Found at i:14955810 original size:66 final size:65
Alignment explanation
Indices: 14955740--14956058 Score: 222
Period size: 66 Copynumber: 5.2 Consensus size: 65
14955730 AAATATATTT
14955740 AATATTAATTATTTCAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAA
14955805 G
65 G
* * *
14955806 AATATTAATTA-TTAAGA--A--TTTTAT--TA-AAT-TA-TAT-ATTTTAATTAAAAT-ATAT-
1 AATATTAATTATTTAA-ATTATCTTTTATAGTATAATATATTATGA-TTTGAGTAAATTCATATA
**
14955858 TT
64 AG
* *
14955860 AATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAA
14955925 G
65 G
* * ** * * *
14955926 AATATTAATTATTAAGAATT-T-TATTA-A--ATTGTATATT-TTAATT-A-T-AATAT-ATTTA
1 AATATTAATTATTTA-AATTATCTTTTATAGTATAATATATTATGATTTGAGTAAAT-TCATATA
*
14955981 AT
64 AG
* * * *
14955983 AATAATT-A-T-GTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AAT-ATTAATTATTTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAA
14956045 G
65 G
14956046 AATATTAATTATT
1 AATATTAATTATT
14956059 AAGAATTTTA
Statistics
Matches: 189, Mismatches: 32, Indels: 65
0.66 0.11 0.23
Matches are distributed among these distances:
54 13 0.07
55 9 0.05
56 21 0.11
57 16 0.08
58 8 0.04
59 17 0.09
60 8 0.04
61 17 0.09
62 7 0.04
63 16 0.08
64 19 0.10
65 12 0.06
66 26 0.14
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (65 bp):
AATATTAATTATTTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
Found at i:14955851 original size:18 final size:17
Alignment explanation
Indices: 14955823--14955857 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14955813 ATTATTAAGA
*
14955823 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14955840 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14955858 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14955904 original size:120 final size:120
Alignment explanation
Indices: 14955702--14956119 Score: 748
Period size: 120 Copynumber: 3.5 Consensus size: 120
14955692 AATTATTTTA
* *
14955702 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
*
14955766 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
14955822 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
14955887 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * *
14955942 AATTTTATTAAATTGTATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
14956007 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
14956062 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
14956120 ATGATTAAAT
Statistics
Matches: 286, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 279 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14955982 original size:15 final size:15
Alignment explanation
Indices: 14955957--14955998 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
14955947 TATTAAATTG
14955957 TATATTTTAATTATAA
1 TATA-TTTAATTATAA
*
14955973 TATATTTAATAATAA
1 TATATTTAATTATAA
14955988 T-TATGTTAATT
1 TATAT-TTAATT
14955999 TATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 3 0.13
15 16 0.70
16 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATATTTAATTATAA
Found at i:14956091 original size:18 final size:17
Alignment explanation
Indices: 14956063--14956097 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14956053 ATTATTAAGA
*
14956063 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14956080 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14956098 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14956288 original size:39 final size:40
Alignment explanation
Indices: 14956245--14956349 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
14956235 TTCCATTATG
14956245 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
14956284 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
14956329 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
14956350 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:14956343 original size:45 final size:44
Alignment explanation
Indices: 14956243--14956352 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
14956233 TTTTCCATTA
14956243 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
14956282 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
14956327 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
14956353 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:14956352 original size:16 final size:16
Alignment explanation
Indices: 14956331--14956368 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14956321 TTGATTTGCT
*
14956331 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
14956347 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
14956363 AATACA
1 ATTACA
14956369 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:14957122 original size:17 final size:17
Alignment explanation
Indices: 14957084--14957129 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
14957074 TATTTTTTAA
14957084 AAAATAATTTTTTTGTT
1 AAAATAATTTTTTTGTT
*
14957101 CAAATAAATTTTTTTG-T
1 AAAAT-AATTTTTTTGTT
*
14957118 AAAATTATTTTT
1 AAAATAATTTTT
14957130 CGAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 9 0.36
18 10 0.40
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
AAAATAATTTTTTTGTT
Found at i:14958383 original size:21 final size:20
Alignment explanation
Indices: 14958338--14958379 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14958328 TTTATAATTT
*
14958338 TACTTGTAAACTCCTAAAAA
1 TACTTGTAAACTCCAAAAAA
14958358 TACTTGTAAACTCCAAAAAA
1 TACTTGTAAACTCCAAAAAA
14958378 TA
1 TA
14958380 ACTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTTGTAAACTCCAAAAAA
Found at i:14965150 original size:31 final size:29
Alignment explanation
Indices: 14965112--14965224 Score: 118
Period size: 31 Copynumber: 3.7 Consensus size: 29
14965102 TAATCACATC
14965112 AATATTAAATTAATAAAATATTATCAAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
** * * *
14965143 AATATTAAATTTAATTTAATATCTCATATT
1 AATATTAAA-TTAATAAAATATATCAGATA
14965173 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
*
14965204 AATATTAAATTCATTAAAATA
1 AATATTAAATT-AATAAAATA
14965225 ATATTATCTT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.13
30 15 0.22
31 26 0.39
32 17 0.25
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
AATATTAAATTAATAAAATATATCAGATA
Found at i:14966067 original size:118 final size:118
Alignment explanation
Indices: 14965912--14966144 Score: 430
Period size: 118 Copynumber: 2.0 Consensus size: 118
14965902 TGTTGAGCTA
**
14965912 GCGAAAAGACCAATCGAACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATTG
1 GCGAAAAGACCAATCGAACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATCA
14965977 TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTAATT
66 TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTAATT
* *
14966030 GCGAAGAGACCAATCGAACTTATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATCA
1 GCGAAAAGACCAATCGAACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATCA
14966095 TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTA
66 TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTA
14966145 CCATGATTGG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (118 bp):
GCGAAAAGACCAATCGAACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATCA
TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTAATT
Found at i:14968046 original size:31 final size:29
Alignment explanation
Indices: 14968011--14968068 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
14968001 AATAATATTT
*
14968011 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
14968042 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
14968069 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:14969572 original size:30 final size:30
Alignment explanation
Indices: 14969536--14969595 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
14969526 CTATTGTATG
14969536 ATCATTCTTGAAATTTTGGATAAAAAACAT
1 ATCATTCTTGAAATTTTGGATAAAAAACAT
14969566 ATCATTCTTGAAATTTTGGATAAAAAACAT
1 ATCATTCTTGAAATTTTGGATAAAAAACAT
14969596 TGTATGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
ATCATTCTTGAAATTTTGGATAAAAAACAT
Found at i:14970832 original size:57 final size:57
Alignment explanation
Indices: 14970763--14970893 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 57
14970753 ATCACTTTAA
* * * *
14970763 TATTAAATTAATATAATA-TTTATC-AAGATAAATATT-ATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAA-AGTTTATCTAAGATAAACATTAATTAAATTAAATATTAAA--G
*
14970820 TATTAAAATAATAGAAAGTTTATCTATAAGATAAACATTAAATTAAATTAAATATTAAAG
1 TATTAAAATAATATAAAGTTTATC--TAAGATAAACATT-AATTAAATTAAATATTAAAG
14970880 TATTAAAATAATAT
1 TATTAAAATAATAT
14970894 TATTTTTGGA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
56 1 0.02
57 20 0.32
60 24 0.39
62 17 0.27
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (57 bp):
TATTAAAATAATATAAAGTTTATCTAAGATAAACATTAATTAAATTAAATATTAAAG
Found at i:14972539 original size:27 final size:25
Alignment explanation
Indices: 14972498--14972563 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 25
14972488 TTTGGTTGTC
**
14972498 TAGAGCTTCCCGATTAAAGGCTCTT
1 TAGAGCTTCTTGATTAAAGGCTCTT
*
14972523 TCATGAGCTTCTTGATTAATGGCTCTT
1 T-A-GAGCTTCTTGATTAAAGGCTCTT
*
14972550 TAGAGCTACTTGAT
1 TAGAGCTTCTTGAT
14972564 ATATGGCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 12 0.34
26 2 0.06
27 21 0.60
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (25 bp):
TAGAGCTTCTTGATTAAAGGCTCTT
Found at i:14972609 original size:25 final size:24
Alignment explanation
Indices: 14972496--14972635 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 24
14972486 TATTTGGTTG
* *
14972496 TCTAGAGCTTCCCGATTAAAGGCTC
1 TCTAGAGCTTCCTGA-TAATGGCTC
* *
14972521 TTTCATGAGCTTCTTGATTAATGGCTC
1 TCT-A-GAGCTTCCTGA-TAATGGCTC
* * *
14972548 TTTAGAGCTACTTGATATATGGCTC
1 TCTAGAGCTTCCTGATA-ATGGCTC
* *
14972573 GCTTGAGCTTCCTGACTAATGGCTC
1 TCTAGAGCTTCCTGA-TAATGGCTC
* * *
14972598 TCTGGAGCTTCCCGATATTGGCT-
1 TCTAGAGCTTCCTGATAATGGCTC
*
14972621 TGCAAGAGCTTCCTG
1 T-CTAGAGCTTCCTG
14972636 TTATATGCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.01
24 19 0.20
25 48 0.52
26 4 0.04
27 21 0.23
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (24 bp):
TCTAGAGCTTCCTGATAATGGCTC
Found at i:14972615 original size:50 final size:49
Alignment explanation
Indices: 14972524--14972635 Score: 125
Period size: 50 Copynumber: 2.3 Consensus size: 49
14972514 AAGGCTCTTT
* * * **
14972524 CATGAGCTTCTTGATTAATGGCTCTTTAGAGCTACTTGATATATGGCTCG
1 CATGAGCTTCCTGACTAATGGCTCTCTAGAGCTACCCGATAT-TGGCTCG
* * * *
14972574 CTTGAGCTTCCTGACTAATGGCTCTCTGGAGCTTCCCGATATTGGCTTG
1 CATGAGCTTCCTGACTAATGGCTCTCTAGAGCTACCCGATATTGGCTCG
*
14972623 CAAGAGCTTCCTG
1 CATGAGCTTCCTG
14972636 TTATATGCTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 17 0.33
50 34 0.67
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (49 bp):
CATGAGCTTCCTGACTAATGGCTCTCTAGAGCTACCCGATATTGGCTCG
Found at i:14972678 original size:25 final size:25
Alignment explanation
Indices: 14972602--14972670 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
14972592 TGGCTCTCTG
14972602 GAGCTTCCCGA-TAT-TGGCTTGCAA
1 GAGCTTCCCGATTATAT-GCTTGCAA
* *
14972626 GAGCTTCCTG-TTATATGCTTGGAA
1 GAGCTTCCCGATTATATGCTTGCAA
14972650 GAGCTTCCCGATTATATGCTT
1 GAGCTTCCCGATTATATGCTT
14972671 ACATGAGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
24 28 0.72
25 11 0.28
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGATTATATGCTTGCAA
Found at i:14979186 original size:41 final size:41
Alignment explanation
Indices: 14979112--14979323 Score: 316
Period size: 41 Copynumber: 5.1 Consensus size: 41
14979102 CTTAATTTAA
* *
14979112 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* * **
14979154 CAAATCATCAACACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
14979195 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* * *
14979236 CAGATCATCGGCACTTAGCCTACTAGGTTTAAAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
14979277 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
14979318 CAGATC
1 CAGATC
14979324 GCATAAGATA
Statistics
Matches: 152, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 149 0.98
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:14979254 original size:82 final size:82
Alignment explanation
Indices: 14979112--14979323 Score: 352
Period size: 82 Copynumber: 2.6 Consensus size: 82
14979102 CTTAATTTAA
* *
14979112 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCATCAACACTTAGCCTGC
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCAACACTTAGCCTAC
*
14979177 TAGGTTTATAACCTGATT
65 TAGGTTTAAAACCTGATT
* * **
14979195 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCATCGGCACTTAGCCTACT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCAACACTTAGCCTACT
14979260 AGGTTTAAAACCTGATT
66 AGGTTTAAAACCTGATT
14979277 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATC
14979324 GCATAAGATA
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 116 0.97
83 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (82 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCAACACTTAGCCTACT
AGGTTTAAAACCTGATT
Found at i:14979766 original size:2 final size:2
Alignment explanation
Indices: 14979759--14979793 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14979749 AATATTTGAT
*
14979759 AC AC AC AC AC AC AC AC AG AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
14979794 TATATATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.46, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14986233 original size:25 final size:25
Alignment explanation
Indices: 14986074--14986247 Score: 99
Period size: 25 Copynumber: 6.9 Consensus size: 25
14986064 TGAGCATTCT
*
14986074 GATTAATGGCTCTCTTAAGCTTCCC
1 GATTAATGGCTCTCTTGAGCTTCCC
* * *
14986099 -ATTTATGGCTCATATT-AGCTTCCA
1 GATTAATGGCTC-TCTTGAGCTTCCC
*
14986123 GA-TAATTGGCTCT-TCGGAGCTTCCC
1 GATTAA-TGGCTCTCT-TGAGCTTCCC
* * * ***
14986148 AATTAAAGGCTCTTTCATGAGCTTTAT
1 GATTAATGGCTC--TCTTGAGCTTCCC
* *
14986175 GATTAATGGCT-TTTTGGAGCTACCC
1 GATTAATGGCTCTCTT-GAGCTTCCC
14986200 GA-TATATGGCTCTCTTGAGCTTCCC
1 GATTA-ATGGCTCTCTTGAGCTTCCC
* * *
14986225 GATTAATGGTTCACATGAGCTTC
1 GATTAATGGCTCTCTTGAGCTTC
14986248 TCATTATAAG
Statistics
Matches: 110, Mismatches: 26, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
23 1 0.01
24 24 0.22
25 61 0.55
26 8 0.07
27 16 0.15
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (25 bp):
GATTAATGGCTCTCTTGAGCTTCCC
Found at i:14986294 original size:25 final size:25
Alignment explanation
Indices: 14986215--14986294 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
14986205 ATGGCTCTCT
* *
14986215 TGAGCTTCCCGATTA-ATGGTTCACA
1 TGAGCTTCCTGATTATAT-GCTCACA
* *
14986240 TGAGCTT-CTCATTATAAGGCTCGA-A
1 TGAGCTTCCTGATTAT-ATGCTC-ACA
*
14986265 AGAGCTTCCTGATTATATGCTCACA
1 TGAGCTTCCTGATTATATGCTCACA
14986290 TGAGC
1 TGAGC
14986295 ATTCTTGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
24 6 0.14
25 27 0.64
26 9 0.21
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCTGATTATATGCTCACA
Found at i:14988776 original size:11 final size:12
Alignment explanation
Indices: 14988746--14988778 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14988736 ATCACAAGTT
14988746 AATTAATTCACA
1 AATTAATTCACA
*
14988758 AATGAATTCA-A
1 AATTAATTCACA
14988769 AATTAATTCA
1 AATTAATTCA
14988779 TCTTGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:14990251 original size:40 final size:40
Alignment explanation
Indices: 14990196--14990276 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
14990186 TGATAAGTAG
14990196 AATATCATCGACATACAAAACGAGGAAGACCACATTTTTT
1 AATATCATCGACATACAAAACGAGGAAGACCACATTTTTT
14990236 AATATCATCGACATACAAAACGAGGAAGACCACATTTTTT
1 AATATCATCGACATACAAAACGAGGAAGACCACATTTTTT
14990276 A
1 A
14990277 CTTTTATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (40 bp):
AATATCATCGACATACAAAACGAGGAAGACCACATTTTTT
Found at i:14996390 original size:15 final size:15
Alignment explanation
Indices: 14996370--14996404 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
14996360 TTTTAGGTCT
14996370 AGGTTTTAATGTTTA
1 AGGTTTTAATGTTTA
14996385 AGG-TTTAATGTTTA
1 AGGTTTTAATGTTTA
*
14996399 GGGTTT
1 AGGTTT
14996405 AGGGATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (15 bp):
AGGTTTTAATGTTTA
Found at i:14996393 original size:14 final size:14
Alignment explanation
Indices: 14996374--14996405 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14996364 AGGTCTAGGT
14996374 TTTAATGTTTAAGG
1 TTTAATGTTTAAGG
*
14996388 TTTAATGTTTAGGG
1 TTTAATGTTTAAGG
14996402 TTTA
1 TTTA
14996406 GGGATTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (14 bp):
TTTAATGTTTAAGG
Found at i:14997595 original size:30 final size:30
Alignment explanation
Indices: 14997561--14997620 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
14997551 CTTATATAAA
14997561 GTTTTATGTTCTTAATATGTCAATTAAGGG
1 GTTTTATGTTCTTAATATGTCAATTAAGGG
14997591 GTTTTATGTTCTTAATATGTCAATTAAGGG
1 GTTTTATGTTCTTAATATGTCAATTAAGGG
14997621 AAATAAGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (30 bp):
GTTTTATGTTCTTAATATGTCAATTAAGGG
Found at i:14999839 original size:48 final size:49
Alignment explanation
Indices: 14999781--14999877 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 49
14999771 AGTCATTTTC
* * * *
14999781 ATTTTGGAGAAAATCATATTCATTTCCAAATGATTT-T-ATTTCTCCATT
1 ATTTTAGAGAAAACCATAATCATTTCCAAATG-TTTCTCATTTATCCATT
*
14999829 ATTTTAGAGAAAACCTTAATCATTTCCAAATGTTTCTCATTTATCCATT
1 ATTTTAGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTATCCATT
14999878 TTCACCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 3 0.07
48 29 0.69
49 10 0.24
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.44
Consensus pattern (49 bp):
ATTTTAGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTATCCATT
Found at i:15000467 original size:18 final size:21
Alignment explanation
Indices: 15000421--15000462 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15000411 TATTTAGATA
*
15000421 GTTTCAATTTATTATTGGTGT
1 GTTTCAATTTATTAGTGGTGT
15000442 GTTTCAATTTATTAGTGGTGT
1 GTTTCAATTTATTAGTGGTGT
15000463 TCAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (21 bp):
GTTTCAATTTATTAGTGGTGT
Found at i:15003066 original size:190 final size:190
Alignment explanation
Indices: 15002743--15003119 Score: 736
Period size: 190 Copynumber: 2.0 Consensus size: 190
15002733 ACAAAATTTT
15002743 TGGACGGGAATTACAAGTTTCGGGCTTTTAATTCTAGTTTAAATCATATTGAGTTCGGGTTTTAG
1 TGGACGGGAATTACAAGTTTCGGGCTTTTAATTCTAGTTTAAATCATATTGAGTTCGGGTTTTAG
15002808 GCTTAATTTTTATTATATAAGAGCCCAATATTGTATTTATCAACTCTTATTATTTTATTATTCCA
66 GCTTAATTTTTATTATATAAGAGCCCAATATTGTATTTATCAACTCTTATTATTTTATTATTCCA
15002873 AAATTGTGATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTATATCAACAAGAAATTC
131 AAATTGTGATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTATATCAACAAGAAATTC
* *
15002933 TGGACGGGAATTACAAGTTTCGGGCTTTTAATTCTAGTTTAAATCGTATTGGGTTCGGGTTTTAG
1 TGGACGGGAATTACAAGTTTCGGGCTTTTAATTCTAGTTTAAATCATATTGAGTTCGGGTTTTAG
15002998 GCTTAATTTTTATTATATAAGAGCCCAATATTGTATTTATCAACTCTTATTATTTTATTATTCCA
66 GCTTAATTTTTATTATATAAGAGCCCAATATTGTATTTATCAACTCTTATTATTTTATTATTCCA
15003063 AAATTGTGATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTATATCAACAAGAAA
131 AAATTGTGATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTATATCAACAAGAAA
15003120 GTTTAGTTTA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 185 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (190 bp):
TGGACGGGAATTACAAGTTTCGGGCTTTTAATTCTAGTTTAAATCATATTGAGTTCGGGTTTTAG
GCTTAATTTTTATTATATAAGAGCCCAATATTGTATTTATCAACTCTTATTATTTTATTATTCCA
AAATTGTGATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTATATCAACAAGAAATTC
Found at i:15015031 original size:23 final size:26
Alignment explanation
Indices: 15014979--15015033 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
15014969 AGCTTATTCC
*
15014979 GAGCTGAAGAACGGTAAGCTCCATCA
1 GAGCTGAAGAACGGTAAGCTCCATAA
15015005 -AGCT-AA-AACGGTAAGCT-CATAA
1 GAGCTGAAGAACGGTAAGCTCCATAA
15015027 GAGCTGA
1 GAGCTGA
15015034 TATATTGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.15
23 15 0.58
24 3 0.12
25 4 0.15
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.16
Consensus pattern (26 bp):
GAGCTGAAGAACGGTAAGCTCCATAA
Found at i:15023717 original size:16 final size:18
Alignment explanation
Indices: 15023696--15023728 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15023686 TTAAACGCAA
15023696 AATTAA-AC-AAATTCAC
1 AATTAATACTAAATTCAC
15023712 AATTAATACTAAATTCA
1 AATTAATACTAAATTCA
15023729 TTCTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (18 bp):
AATTAATACTAAATTCAC
Found at i:15025232 original size:16 final size:15
Alignment explanation
Indices: 15025195--15025226 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
15025185 GTATAAGTAT
15025195 ATATAAATATATAAA
1 ATATAAATATATAAA
15025210 ATATAAAGTATATAAA
1 ATATAAA-TATATAAA
15025226 A
1 A
15025227 GTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
ATATAAATATATAAA
Found at i:15025440 original size:12 final size:12
Alignment explanation
Indices: 15025423--15025460 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15025413 TATAGAAAAT
15025423 ATGATAATAATA
1 ATGATAATAATA
*
15025435 ATGATAGTAAATA
1 ATGATAAT-AATA
15025448 ATG-TAATAATA
1 ATGATAATAATA
15025459 AT
1 AT
15025461 AGTAATAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:15025446 original size:24 final size:24
Alignment explanation
Indices: 15025414--15025460 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15025404 ATGTATATGT
15025414 ATAGAAAAT-ATGATAATAATAATG
1 ATAGAAAATAATG-TAATAATAATG
*
15025438 ATAGTAAATAATGTAATAATAAT
1 ATAGAAAATAATGTAATAATAAT
15025461 AGTAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATGTAATAATAATG
Found at i:15025475 original size:21 final size:21
Alignment explanation
Indices: 15025428--15025477 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
15025418 AAAATATGAT
*
15025428 AATAATAATGATAGTAAATAA
1 AATAATAATAATAGTAAATAA
**
15025449 TGTAATAATAATAGT-AATAGA
1 AATAATAATAATAGTAAATA-A
15025470 AATAATAA
1 AATAATAA
15025478 ATAAAAACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (21 bp):
AATAATAATAATAGTAAATAA
Found at i:15027587 original size:309 final size:308
Alignment explanation
Indices: 15026842--15028057 Score: 1679
Period size: 309 Copynumber: 3.9 Consensus size: 308
15026832 AAGACTTGTA
* * ** ** *
15026842 TCTTCGATCTA-TT-TCGCCAATATATGAGAAGACAAGATCTACTTTCTT--ATCTACTTTGCCC
1 TCTTCGATCTACTTCACGCCAATACAT--GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGC
* * * * *
15026903 CAATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
64 CGATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCACACCAATACAGGAAGACAAGATCT
* * * * *
15026968 GCTATCTTCGATCTACTTCACGTCAATACATAAAGACAAGATCTGCTATCTTCGATCTACTTTAC
129 GCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC-TT--
* * * * *
15027033 CACTTCATGTCAATACATGAAGACAAGATCCATTATC-TCTGATCTACTTCATGTCAATACATGA
191 CA---C--GCCAATACATGAAGACAAGATCTATTTTCTTC-GATCTACTTCACGCCAATACATGA
* * * *
15027097 AGACAAGATCTGCTATCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCTT
250 AGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *** * * * *
15027156 TCTTCGATCTACTTCGCCACCAGTATGGGAATACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCC
* * * * * *
15027221 AATACATGAAGACAAGGTCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
65 GATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCACACCAATACAGGAAGACAAGATCTG
15027286 CTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
130 CTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
* * *
15027351 CCGATACATGAAGACAAGATCTGTTTTCTTCTATCTACTTCACGCCAATACATGAAGACAAGATC
195 CCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
15027416 TGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
260 TGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027465 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCTG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCG
* * * **
15027530 ATACATGAAGACAAGATTTGCTTTCTTCAATTTACTTCACCACCAGTATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCA-CACCAATACAGGAAGACAAGATCTG
* *
15027595 CTTTCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
130 CTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
* * * * *
15027660 CCAATACATGAAGACAAGATCTGTTTTATTCGATCTACTTCACGCCAATACATAAAGATAATATC
195 CCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
15027725 TGTTTTCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTT
260 TGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027774 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGTTTTCTTCGATCTACTTCACGCCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCG
* ** *
15027839 ATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATATG
66 ATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCA-CACCAATACAGGAAGACAAGATCTG
15027904 CTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
130 CTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
15027969 CCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGAGT
195 CCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGA-T
15028034 -TGTTTTCTTCGATCTACTTCACGC
259 CTGTTTTCTTCGATCTACTTCACGC
15028058 TAAAGGTGCT
Statistics
Matches: 820, Mismatches: 74, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
308 72 0.09
309 575 0.70
310 3 0.00
311 1 0.00
314 13 0.02
315 20 0.02
316 2 0.00
317 134 0.16
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (308 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCG
ATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCACACCAATACAGGAAGACAAGATCTGC
TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGC
CAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
GTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
Found at i:15028056 original size:44 final size:44
Alignment explanation
Indices: 15026842--15028057 Score: 1607
Period size: 44 Copynumber: 27.4 Consensus size: 44
15026832 AAGACTTGTA
* * **
15026842 TCTTCGATCTA-TT-TCGCCAATATATGAGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACAT--GAAGACAAGATCTGTTT
** * * *
15026886 TCTT--ATCTACTTTGCCCCAATACATAAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
15026928 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *
15026972 TCTTCGATCTACTTCACGTCAATACATAAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* ** *
15027016 TCTTCGATCTACTTTACCACTTCATGTCAATACATGAAGACAAGATCCATTA
1 TCTTCGATCTAC-TT--CA---C--GCCAATACATGAAGACAAGATCTGTTT
* * * *
15027068 TC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTA
1 TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
15027112 TCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *** * * *
15027156 TCTTCGATCTACTTCGCCACCAGTATGGGAATACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGTTT
* * * *
15027201 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGGTCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027245 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
15027289 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027333 TCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027377 TCTTCTATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
15027421 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
15027465 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
** * *
15027509 TCTTCGATCTACTTCACGCTGATACATGAAGACAAGATTTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * * *** *
15027553 TCTTCAATTTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTT
* *
15027598 TCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
15027642 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *
15027686 TATTCGATCTACTTCACGCCAATACATAAAGATAATATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027730 TCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027774 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
15027818 TCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *** * *
15027862 TCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATATGCTT
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTT
15027907 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
15027951 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
15027995 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGAGT-TGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGA-TCTGTTT
15028039 TCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCACGC
15028058 TAAAGGTGCT
Statistics
Matches: 1046, Mismatches: 108, Indels: 36
0.88 0.09 0.03
Matches are distributed among these distances:
42 24 0.02
43 2 0.00
44 870 0.83
45 109 0.10
47 2 0.00
49 2 0.00
50 1 0.00
51 4 0.00
52 32 0.03
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
Found at i:15030582 original size:44 final size:44
Alignment explanation
Indices: 15030509--15030762 Score: 395
Period size: 44 Copynumber: 5.8 Consensus size: 44
15030499 CATGAGCACC
*
15030509 TCTACTTC-CGCCAATACATGAAGATAAGATCTGTTTTCTTCGA
1 TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGA
* * *
15030552 TCTACTTCACGCCGATACATAAAGACAAGATCTGCTTTCTTCGA
1 TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGA
*** *
15030596 TCTACTTCAC-CACTAATATGGGAAGACAAGATCTGCTTTCTTCGA
1 TCTACTTCACGC-C-AATACATGAAGACAAGATCTGTTTTCTTCGA
*
15030641 TCTACTTCACGCCAATACATGAAGACAAGATATGTTTTCTTCGA
1 TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGA
15030685 TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGA
1 TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGA
15030729 TCTACTTCACGCCAATACATGAAGACAAGATCTG
1 TCTACTTCACGCCAATACATGAAGACAAGATCTG
15030763 CTGCCTTTCA
Statistics
Matches: 192, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
43 9 0.05
44 145 0.76
45 37 0.19
46 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGA
Found at i:15030680 original size:89 final size:88
Alignment explanation
Indices: 15030509--15030764 Score: 381
Period size: 89 Copynumber: 2.9 Consensus size: 88
15030499 CATGAGCACC
* * * *
15030509 TCTACTTC-CGCCAATACATGAAGATAAGATCTGTTTTCTTCGATCTACTTCACGCCGATACATA
1 TCTACTTCACGCCAATACAGGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATG
*
15030573 AAGACAAGATCTGCTTTCTTCGA
66 AAGACAAGATATGCTTTCTTCGA
** *
15030596 TCTACTTCAC-CACTAATATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
1 TCTACTTCACGC-C-AATACAGGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACA
*
15030660 TGAAGACAAGATATGTTTTCTTCGA
64 TGAAGACAAGATATGCTTTCTTCGA
*
15030685 TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATG
1 TCTACTTCACGCCAATACAGGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATG
*
15030750 AAGACAAGATCTGCT
66 AAGACAAGATATGCT
15030765 GCCTTTCAAC
Statistics
Matches: 150, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
87 9 0.06
88 63 0.42
89 77 0.51
90 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (88 bp):
TCTACTTCACGCCAATACAGGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATG
AAGACAAGATATGCTTTCTTCGA
Found at i:15037012 original size:16 final size:15
Alignment explanation
Indices: 15036975--15037006 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
15036965 GTATAAGTAT
15036975 ATATAAATATATAAA
1 ATATAAATATATAAA
15036990 ATATAAAGTATATAAA
1 ATATAAA-TATATAAA
15037006 A
1 A
15037007 GTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
ATATAAATATATAAA
Found at i:15040457 original size:25 final size:25
Alignment explanation
Indices: 15040429--15040510 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
15040419 CTTATGAGCA
15040429 TCCCGATTAATGGCTCTCCGAAGCT
1 TCCCGATTAATGGCTCTCCGAAGCT
* * **
15040454 TCCCGATAAAAAGGCTCTCTTATGAGCT
1 TCCCGAT-TAATGGCTCTCCGA--AGCT
** **
15040482 TCTTGATTAATGGCTCTCCGGTGCT
1 TCCCGATTAATGGCTCTCCGAAGCT
15040507 TCCC
1 TCCC
15040511 AATATTGGCT
Statistics
Matches: 40, Mismatches: 14, Indels: 6
0.67 0.23 0.10
Matches are distributed among these distances:
25 12 0.30
26 10 0.25
27 9 0.22
28 9 0.22
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTCCGAAGCT
Found at i:15040531 original size:24 final size:24
Alignment explanation
Indices: 15040504--15040558 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
15040494 GCTCTCCGGT
*
15040504 GCTTCCCAAT-ATTGGCTCACATGA
1 GCTTCCCAATCA-CGGCTCACATGA
* *
15040528 GCTTCCCGATCACGGCTCTCATGA
1 GCTTCCCAATCACGGCTCACATGA
15040552 GCTTCCC
1 GCTTCCC
15040559 GTTAGATGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.27
Consensus pattern (24 bp):
GCTTCCCAATCACGGCTCACATGA
Found at i:15041107 original size:12 final size:12
Alignment explanation
Indices: 15041092--15041128 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
15041082 CACTATCCAT
*
15041092 CGGCCTAGTACA
1 CGGCCTAGCACA
15041104 CGGCCTAGCACA
1 CGGCCTAGCACA
*
15041116 CAGCCTAGCACA
1 CGGCCTAGCACA
15041128 C
1 C
15041129 AAGCGTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.27, C:0.41, G:0.22, T:0.11
Consensus pattern (12 bp):
CGGCCTAGCACA
Found at i:15045514 original size:51 final size:51
Alignment explanation
Indices: 15045459--15045675 Score: 371
Period size: 51 Copynumber: 4.3 Consensus size: 51
15045449 GATCACATTT
*
15045459 ATCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
*
15045510 ATCACTTGTCACTTGTCACTGACCAGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
* * *
15045561 ATCGCTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
* *
15045612 ATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
15045663 ATCACTTGTCACT
1 ATCACTTGTCACT
15045676 GATCAGAAGT
Statistics
Matches: 157, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 157 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
Found at i:15049476 original size:41 final size:40
Alignment explanation
Indices: 15049382--15049628 Score: 250
Period size: 41 Copynumber: 6.1 Consensus size: 40
15049372 TTTGGGCTAC
* * *
15049382 GTGCCTAGCAGGCTTTGTGCCG-GTGA-TAT-T-TGGGTTCT
1 GTGCCTAGCAGGCTTTGTGTCGTGT-ATTATATCAGGCTT-T
* *
15049420 GTGCCTAGCAGGCTTTGTGTCAGTGTATTATATTACGCTTT
1 GTGCCTAGCAGGCTTTGTGTC-GTGTATTATATCAGGCTTT
* * * *
15049461 GTGCCTAACAGGCTTTGTGTCGGTGTATAATATCGGGCTCT
1 GTGCCTAGCAGGCTTTGTGTC-GTGTATTATATCAGGCTTT
* * * *
15049502 GTACCTAGCAGGCTTTGTGTCGATATACTATATTAGGCTTT
1 GTGCCTAGCAGGCTTTGTGTCG-TGTATTATATCAGGCTTT
* * * *
15049543 GTGCCTAGAAGGCTTTGTGCCAGTGCATTATATCACGCTTT
1 GTGCCTAGCAGGCTTTGTGTC-GTGTATTATATCAGGCTTT
15049584 GTGCCTAGCAGGCTTTGTGTCGATGTATTATATCAGGCTTT
1 GTGCCTAGCAGGCTTTGTGTCG-TGTATTATATCAGGCTTT
15049625 GTGC
1 GTGC
15049629 TGGTATGTTA
Statistics
Matches: 170, Mismatches: 31, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
38 20 0.12
39 2 0.01
40 7 0.04
41 137 0.81
42 4 0.02
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (40 bp):
GTGCCTAGCAGGCTTTGTGTCGTGTATTATATCAGGCTTT
Found at i:15049522 original size:82 final size:80
Alignment explanation
Indices: 15049382--15049628 Score: 302
Period size: 82 Copynumber: 3.0 Consensus size: 80
15049372 TTTGGGCTAC
* * *
15049382 GTGCCTAGCAGGCTTTGTGCCGGTGATAT-TTGGGTTCTGTGCCTAGCAGGCTTTGTGTC-AGTG
1 GTGCCTAACAGGCTTTGTGCCGGTGATATATCGGGCTCTGTGCCTAGCAGGCTTTGTGTCGA-TG
*
15049445 TATTATATTACGCTTT
65 TATTATATTAGGCTTT
* *
15049461 GTGCCTAACAGGCTTTGTGTCGGTGTATAATATCGGGCTCTGTACCTAGCAGGCTTTGTGTCGAT
1 GTGCCTAACAGGCTTTGTGCCGGTG-AT-ATATCGGGCTCTGTGCCTAGCAGGCTTTGTGTCGAT
* *
15049526 ATACTATATTAGGCTTT
64 GTATTATATTAGGCTTT
* ** *
15049543 GTGCCTAGA-AGGCTTTGTGCCAGTGCATTATATCACGCTTTGTGCCTAGCAGGCTTTGTGTCGA
1 GTGCCTA-ACAGGCTTTGTGCCGGTG-A-TATATCGGGCTCTGTGCCTAGCAGGCTTTGTGTCGA
*
15049607 TGTATTATATCAGGCTTT
63 TGTATTATATTAGGCTTT
15049625 GTGC
1 GTGC
15049629 TGGTATGTTA
Statistics
Matches: 144, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
79 23 0.16
80 2 0.01
81 2 0.01
82 114 0.79
83 3 0.02
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (80 bp):
GTGCCTAACAGGCTTTGTGCCGGTGATATATCGGGCTCTGTGCCTAGCAGGCTTTGTGTCGATGT
ATTATATTAGGCTTT
Found at i:15059655 original size:8 final size:7
Alignment explanation
Indices: 15059625--15059654 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
15059615 AGAAAACCAG
15059625 TGTTCTTT
1 TGTT-TTT
15059633 TGTTTTT
1 TGTTTTT
15059640 TGTTTTT
1 TGTTTTT
15059647 TGTTTTT
1 TGTTTTT
15059654 T
1 T
15059655 TTAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.83
Consensus pattern (7 bp):
TGTTTTT
Found at i:15059920 original size:20 final size:21
Alignment explanation
Indices: 15059883--15059921 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15059873 TTAATTTTTC
* *
15059883 TATTTTTAATGATTATTAATT
1 TATTTTTAATAATAATTAATT
15059904 TATTTTTAA-AATAATTAA
1 TATTTTTAATAATAATTAA
15059922 ACCGTGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
TATTTTTAATAATAATTAATT
Found at i:15064436 original size:17 final size:16
Alignment explanation
Indices: 15064387--15064458 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 16
15064377 TAATCACTCT
*
15064387 AATATTAAATTAATAA
1 AATATTAAATTAATTA
*
15064403 AATACT--ATTAATATA
1 AATATTAAATTAAT-TA
15064418 AATATTAAATTAAATTA
1 AATATTAAATT-AATTA
15064435 AATATTAAATCT-ATTAA
1 AATATTAAAT-TAATT-A
15064452 AATATTA
1 AATATTA
15064459 TTATTATTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 8 0.17
17 23 0.49
18 4 0.09
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:15068842 original size:97 final size:97
Alignment explanation
Indices: 15068671--15068867 Score: 306
Period size: 97 Copynumber: 2.0 Consensus size: 97
15068661 ATCAGACACA
* *
15068671 ATAACATGTTCAGATATCACATGTCCTCATCCAACACAGCAACACAGAAATGAATCATCAAAATT
1 ATAACATATTCAGATATCACATGTCCTCATCCAAAACAGCAACACAGAAATGAATCATCAAAATT
* *
15068736 AACAAAGCATGGATTATACTTGAATAAATCAC
66 AACAAAGCATGGATCATACCTGAATAAATCAC
* *
15068768 ATAACATATTCAGATATCACATGT-CTACATCCAAAATAGCCACACAGAAATGAATCATCAAAAT
1 ATAACATATTCAGATATCACATGTCCT-CATCCAAAACAGCAACACAGAAATGAATCATCAAAAT
* *
15068832 TAACAGAGCATGGATCCTACCTGAATAAATCAC
65 TAACAAAGCATGGATCATACCTGAATAAATCAC
15068865 ATA
1 ATA
15068868 CCTTAAACAT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 2 0.02
97 89 0.98
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (97 bp):
ATAACATATTCAGATATCACATGTCCTCATCCAAAACAGCAACACAGAAATGAATCATCAAAATT
AACAAAGCATGGATCATACCTGAATAAATCAC
Found at i:15069846 original size:17 final size:19
Alignment explanation
Indices: 15069826--15069866 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
15069816 GAAGAGAAGC
15069826 AAAAATA-AAAGAAAT-AG
1 AAAAATAGAAAGAAATGAG
*
15069843 -AAAATAGAAAGGAATGAG
1 AAAAATAGAAAGAAATGAG
15069861 AAAAAT
1 AAAAAT
15069867 GTTTTGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 2 0.10
19 5 0.25
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (19 bp):
AAAAATAGAAAGAAATGAG
Found at i:15080927 original size:18 final size:17
Alignment explanation
Indices: 15080906--15080948 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
15080896 TTCCCAAAAT
*
15080906 ATTATTTATTTATTTAAA
1 ATTATTTATTTAATT-AA
*
15080924 ATTAATTAATTTAATTAA
1 ATT-ATTTATTTAATTAA
15080942 ATTATTT
1 ATTATTT
15080949 TCCCAACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 8 0.38
19 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTTATTTAATTAA
Found at i:15085575 original size:21 final size:21
Alignment explanation
Indices: 15085541--15085581 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15085531 GGGGGAAAGT
*
15085541 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
15085562 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
15085582 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:15085576 original size:29 final size:30
Alignment explanation
Indices: 15085517--15085576 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15085507 GAGGGGAGGG
* * **
15085517 GAGTAAAAGTTTTGGGGGGAAAGTGGGAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
15085547 GAGTAAAAGTTTTGAGGGAAAAGT-AAAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
15085576 G
1 G
15085577 GTTTGGGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (30 bp):
GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
Found at i:15088649 original size:23 final size:23
Alignment explanation
Indices: 15088623--15088676 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
15088613 GCAGAATATA
15088623 ATACCATAAATTC-ATACTCAGAC
1 ATACCATAAATTCAATAC-CAGAC
**
15088646 ATACC-TTGATTCAATACCAGAC
1 ATACCATAAATTCAATACCAGAC
15088668 ATATCCATA
1 ATA-CCATA
15088677 CTGATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.52
23 11 0.44
24 1 0.04
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.28
Consensus pattern (23 bp):
ATACCATAAATTCAATACCAGAC
Found at i:15089202 original size:27 final size:27
Alignment explanation
Indices: 15089172--15089246 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
15089162 AAGGTGAACC
*
15089172 ATATAGAGTACACCACAAAGGCCATAT
1 ATATAGAGTATACCACAAAGGCCATAT
* * *
15089199 ATATAAAGTATGCCACAAAGGCTATAT
1 ATATAGAGTATACCACAAAGGCCATAT
*
15089226 ATACAGAGTATACCACAAAGG
1 ATATAGAGTATACCACAAAGG
15089247 TGATTCATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (27 bp):
ATATAGAGTATACCACAAAGGCCATAT
Found at i:15093575 original size:64 final size:65
Alignment explanation
Indices: 15093470--15093599 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
15093460 GTCCAATAAA
* *
15093470 CATTGGGCTGTCATTGCACATTCCCCATAACGCGCGATAACC-AAACAGCTTGGGTTCAAATCAT
1 CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
* *
15093534 CATTGGGCTGTCATTGCACACTCCCCCTAACGCGCGTTAACCAAAACAGCTTGGGTCCAAATCAT
1 CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
15093599 C
1 C
15093600 TGATAGTTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 39 0.64
65 22 0.36
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (65 bp):
CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
Found at i:15106807 original size:2 final size:2
Alignment explanation
Indices: 15106802--15106827 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15106792 GTGTGTGCAC
15106802 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
15106828 ACCTATGAAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15113711 original size:3 final size:3
Alignment explanation
Indices: 15113698--15113731 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
15113688 GTGACTATTT
15113698 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
15113732 GAAGAAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15114673 original size:30 final size:30
Alignment explanation
Indices: 15114596--15114674 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
15114586 CACCACTAAC
* * *
15114596 CATTTTTCGTTACAGACGTAACAAATGTAT
1 CATTTTCCGTTACAGACTTAACAAAGGTAT
15114626 CATTTTCCGTTACAGACTTAACAAAGGTA-
1 CATTTTCCGTTACAGACTTAACAAAGGTAT
15114655 CTATTTTCCGTTACAGACTT
1 C-ATTTTCCGTTACAGACTT
15114675 CCATTTTCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 1 0.02
30 44 0.98
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (30 bp):
CATTTTCCGTTACAGACTTAACAAAGGTAT
Found at i:15114719 original size:17 final size:17
Alignment explanation
Indices: 15114681--15114722 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15114671 ACTTCCATTT
*
15114681 TCCATCCCCCTCTCCCA
1 TCCATCTCCCTCTCCCA
15114698 TCCATCTCCCTCTCCCCA
1 TCCATCTCCCTCT-CCCA
15114716 -CCATCTC
1 TCCATCTC
15114723 TCCCCTACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.12, C:0.62, G:0.00, T:0.26
Consensus pattern (17 bp):
TCCATCTCCCTCTCCCA
Found at i:15117284 original size:34 final size:34
Alignment explanation
Indices: 15117241--15117309 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
15117231 TCGCACTACA
15117241 AGTAGCATCTTCAGTTGCAACTGAAGGAAAAACT
1 AGTAGCATCTTCAGTTGCAACTGAAGGAAAAACT
15117275 AGTAGCATCTTCAGTTGCAACTGAAGGAAAAACT
1 AGTAGCATCTTCAGTTGCAACTGAAGGAAAAACT
15117309 A
1 A
15117310 TCATTGAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (34 bp):
AGTAGCATCTTCAGTTGCAACTGAAGGAAAAACT
Found at i:15118825 original size:7 final size:7
Alignment explanation
Indices: 15118809--15118838 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15118799 ATAGTAAAAC
*
15118809 TATCATA
1 TATCAAA
15118816 TATCAAA
1 TATCAAA
15118823 TATCAAA
1 TATCAAA
15118830 TATCAAA
1 TATCAAA
15118837 TA
1 TA
15118839 ATAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (7 bp):
TATCAAA
Found at i:15121096 original size:20 final size:20
Alignment explanation
Indices: 15121073--15121140 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
15121063 CCTCTGTATA
*
15121073 GTTCTGTTCTGCTCTGCTTT
1 GTTCTGTTATGCTCTGCTTT
15121093 GTTCTGTTATGCTCTGC-TT
1 GTTCTGTTATGCTCTGCTTT
* * *
15121112 GATT-TGTTTTGTTTTGCTTT
1 G-TTCTGTTATGCTCTGCTTT
15121132 GTTCTGTTA
1 GTTCTGTTA
15121141 GTTCAGTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 15 0.38
20 25 0.62
ACGTcount: A:0.04, C:0.16, G:0.21, T:0.59
Consensus pattern (20 bp):
GTTCTGTTATGCTCTGCTTT
Found at i:15121119 original size:24 final size:25
Alignment explanation
Indices: 15121080--15121129 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
15121070 ATAGTTCTGT
*
15121080 TCTGCTCTGCTTTGTTCTGTTATGC
1 TCTGCTCTGATTTGTTCTGTTATGC
* *
15121105 TCTGCT-TGATTTGTTTTGTTTTGC
1 TCTGCTCTGATTTGTTCTGTTATGC
15121129 T
1 T
15121130 TTGTTCTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.04, C:0.18, G:0.20, T:0.58
Consensus pattern (25 bp):
TCTGCTCTGATTTGTTCTGTTATGC
Found at i:15122659 original size:11 final size:11
Alignment explanation
Indices: 15122636--15122671 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
15122626 AACAAATCAT
15122636 CTCTCATATTTC
1 CTCTCA-ATTTC
15122648 CTCTCAATTTC
1 CTCTCAATTTC
15122659 CTCTCAATTTC
1 CTCTCAATTTC
15122670 CT
1 CT
15122672 TCCAAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.17, C:0.36, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:15122765 original size:51 final size:51
Alignment explanation
Indices: 15122651--15122771 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 51
15122641 ATATTTCCTC
* * *
15122651 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCATAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCATAAACCCATATTTAATT
** ***
15122702 AAAAACCCCTCTCAATTTCATTCCAAAAATCTC-TCAAACCCATATTTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCAT-AAACCCATATTTAATT
*
15122753 TCAATTTGCTCTCAATTTC
1 TCAATTTCCTCTCAATTTC
15122772 CTTTTTTAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
50 1 0.02
51 54 0.98
ACGTcount: A:0.33, C:0.27, G:0.01, T:0.39
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCATTCCAAAAATCTCATAAACCCATATTTAATT
Found at i:15124584 original size:18 final size:18
Alignment explanation
Indices: 15124558--15124592 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15124548 AGGTGCGTTT
* *
15124558 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
15124576 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
15124593 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:15125082 original size:71 final size:71
Alignment explanation
Indices: 15124994--15125248 Score: 483
Period size: 71 Copynumber: 3.6 Consensus size: 71
15124984 TATTTAAATT
*
15124994 TATTATTTGATGTAATAAAATAGAATTTTATTTGATGTAATACGCATAGAAAGTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTCGAGTTA
15125059 TTTTGA
66 TTTTGA
*
15125065 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACACATAGAAAGTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTCGAGTTA
15125130 TTTTGA
66 TTTTGA
*
15125136 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTTGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTCGAGTTA
15125201 TTTTGA
66 TTTTGA
15125207 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATA
15125249 AAAACCCTAA
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 180 1.00
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTCGAGTTA
TTTTGA
Found at i:15125195 original size:26 final size:25
Alignment explanation
Indices: 15124996--15125251 Score: 131
Period size: 25 Copynumber: 10.7 Consensus size: 25
15124986 TTTAAATTTA
*
15124996 TTATTTGATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAAGT
**
15125021 TTATTTGATGTAATACGCATAGAAAGT
1 TTATTTGATGTAATA-AAATAG-AAGT
* ** *
15125048 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
15125066 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
*
15125092 TTATTTGATGTAATACACATAGAAAGT
1 TTATTTGATGTAATA-AAATAG-AAGT
* ** *
15125119 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
15125137 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
**
15125163 TTATTTGATGTAATACGCATAGAAAGT
1 TTATTTGATGTAATA-AAATAG-AAGT
** *
15125190 TT-TTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
15125208 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
15125234 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
15125252 ACCCTAACCT
Statistics
Matches: 171, Mismatches: 30, Indels: 60
0.66 0.11 0.23
Matches are distributed among these distances:
18 3 0.02
19 9 0.05
20 13 0.08
21 13 0.08
23 6 0.04
24 9 0.05
25 72 0.42
26 29 0.17
27 17 0.10
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:15125289 original size:29 final size:29
Alignment explanation
Indices: 15125251--15125721 Score: 482
Period size: 29 Copynumber: 16.7 Consensus size: 29
15125241 ATGTAATAAA
*
15125251 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
15125280 AA-CCTAAACC---C-TAATTAAAAACCCT
1 AACCCT-AACCTAACTTAATTAAAAACCCT
15125305 AA-CCTAAACC---C-TAATTAAAAACCCT
1 AACCCT-AACCTAACTTAATTAAAAACCCT
*
15125330 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
15125359 AGCCCTAACCTAACTTAATTAAAAACCCA
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
15125388 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
15125417 AACCCTAACTTAACTTAATTAAAAAAATCCT
1 AACCCTAACCTAACTTAATT--AAAAACCCT
* * *
15125448 AACCCTAAACTAATTTAATTACAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
15125477 AACACTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* **
15125506 AACCCTAACATAACCCAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
* *
15125535 AA-CTTCAACCTAATTTAATTAAAAAACCCT
1 AACCCT-AACCTAACTTAATT-AAAAACCCT
* *
15125565 AACCCTAACCTAATTTAATTAAAAACCAT
1 AACCCTAACCTAACTTAATTAAAAACCCT
15125594 AA-CCTAAACC---C-TAATT-AAAACCCT
1 AACCCT-AACCTAACTTAATTAAAAACCCT
* *
15125618 AACCCTAGCCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACTTAATTAAAAACCCT
15125647 AA-CCTAAACC---C-TAATTAAAAACCCT
1 AACCCT-AACCTAACTTAATTAAAAACCCT
* *
15125672 AACCCTAATCTAAACCCTAATTAAAAACCCT
1 AACCCTAACCT-AA-CTTAATTAAAAACCCT
15125703 AACCCTAACCTAACTTAAT
1 AACCCTAACCTAACTTAAT
15125722 AATTTTTCAT
Statistics
Matches: 374, Mismatches: 42, Indels: 52
0.80 0.09 0.11
Matches are distributed among these distances:
24 12 0.03
25 72 0.19
26 6 0.02
28 16 0.04
29 189 0.51
30 28 0.07
31 51 0.14
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (29 bp):
AACCCTAACCTAACTTAATTAAAAACCCT
Found at i:15125290 original size:12 final size:12
Alignment explanation
Indices: 15125273--15125318 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
15125263 ATTTAATTAA
15125273 AAACCCTAACCT
1 AAACCCTAACCT
*
15125285 AAACCCTAA-TT
1 AAACCCTAACCT
15125296 AAAAACCCTAACCT
1 --AAACCCTAACCT
15125310 AAACCCTAA
1 AAACCCTAA
15125319 TTAAAAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 1 0.03
12 18 0.62
13 9 0.31
14 1 0.03
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (12 bp):
AAACCCTAACCT
Found at i:15125303 original size:13 final size:13
Alignment explanation
Indices: 15125266--15125331 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
15125256 TAACCTAATT
15125266 TAATTAAAAACCC
1 TAATTAAAAACCC
*
15125279 TAACCT--AAACCC
1 TAA-TTAAAAACCC
15125291 TAATTAAAAACCC
1 TAATTAAAAACCC
*
15125304 TAACCT--AAACCC
1 TAA-TTAAAAACCC
15125316 TAATTAAAAACCC
1 TAATTAAAAACCC
15125329 TAA
1 TAA
15125332 CCCTAACCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
11 2 0.05
12 18 0.42
13 21 0.49
14 2 0.05
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (13 bp):
TAATTAAAAACCC
Found at i:15125461 original size:118 final size:112
Alignment explanation
Indices: 15125251--15125721 Score: 530
Period size: 118 Copynumber: 4.2 Consensus size: 112
15125241 ATGTAATAAA
* *
15125251 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCT-A-A-ACCCTAATTAAAAACCCTAACCTAA
1 AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCTAA
*
15125312 ACCCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
66 AACCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
15125359 AGCCCTAACCTAACTTAATTAAAAACCCAAACCCTAACATAACCTAATTAAAAACCCTAACCCTA
1 AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAA-CCTA
* * * *
15125424 ACTTAACTTAATTAAAAAAATCCTAACCCTAAACTAATTTAATTACAAACCCT
65 A---AACCTAATT--AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * * *
15125477 AACACTAACCTAAATTAATTAAAAACCCTAACCCTAACATAACCCAATTAAAAACCCTAACTTCA
1 AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCT-A
** *
15125542 ACCTAATTTAATTAAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCAT
65 A---AACCTAATT-AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * **
15125594 AA-CCTAAACC---C-TAATT-AAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAACCTA
1 AACCCT-AACCTAACTTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCTA
* * **
15125653 AACCCTAATTAAAAACCCTAACCCTAATCTAAACCCTAATTAAAAACCCT
65 AAACCTAATTAAAAACCCTAACCCTAACCT-AA-TTTAATTAAAAACCCT
15125703 AACCCTAACCTAACTTAAT
1 AACCCTAACCTAACTTAAT
15125722 AATTTTTCAT
Statistics
Matches: 308, Mismatches: 36, Indels: 33
0.82 0.10 0.09
Matches are distributed among these distances:
107 19 0.06
108 36 0.12
109 22 0.07
110 4 0.01
111 3 0.01
112 56 0.18
113 14 0.05
116 9 0.03
117 43 0.14
118 102 0.33
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (112 bp):
AACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCTAA
AACCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:15125644 original size:23 final size:25
Alignment explanation
Indices: 15125580--15125706 Score: 114
Period size: 25 Copynumber: 4.7 Consensus size: 25
15125570 TAACCTAATT
*
15125580 TAATTAAAAACCATAACCTAAACCC
1 TAATTAAAAACCCTAACCTAAACCC
**
15125605 TAATT-AAAACCCTAACCCTAGCCTAA-TT
1 TAATTAAAAACCCTAA-CCTA----AACCC
15125633 TAATTAAAAACCCTAACCTAAACCC
1 TAATTAAAAACCCTAACCTAAACCC
15125658 TAATTAAAAACCCTAACCCTAATCTAAACCC
1 TAATTAAAAACCCTAA--C----CTAAACCC
15125689 TAATTAAAAACCCTAACC
1 TAATTAAAAACCCTAACC
15125707 CTAACCTAAC
Statistics
Matches: 84, Mismatches: 5, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
24 11 0.13
25 26 0.31
27 1 0.01
28 9 0.11
29 13 0.15
31 24 0.29
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (25 bp):
TAATTAAAAACCCTAACCTAAACCC
Found at i:15125670 original size:13 final size:13
Alignment explanation
Indices: 15125633--15125704 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 13
15125623 TAGCCTAATT
15125633 TAATTAAAAACCC
1 TAATTAAAAACCC
*
15125646 TAACCT--AAACCC
1 TAA-TTAAAAACCC
15125658 TAATTAAAAACCC
1 TAATTAAAAACCC
*
15125671 TAACCCTAATCTAAACCC
1 TAA--TTAA---AAACCC
15125689 TAATTAAAAACCC
1 TAATTAAAAACCC
15125702 TAA
1 TAA
15125705 CCCTAACCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
11 1 0.02
12 9 0.19
13 21 0.45
14 1 0.02
15 3 0.06
16 3 0.06
18 9 0.19
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (13 bp):
TAATTAAAAACCC
Found at i:15125781 original size:55 final size:55
Alignment explanation
Indices: 15125715--15125834 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 55
15125705 CCCTAACCTA
* * *
15125715 ACTTAATAATTTTTCATAAT-T-TGATAATTTTACTAACCATTAACACAATTTTTTG
1 ACTTAATAATTTTAC-T-ATGTATGATAATTTTAATAACCATTAACACAAATTTTTG
* *
15125770 ACTTAATAATTTTACTGTGTGCATGATAATTTTAATAACTATTAACACAAATTTTTG
1 ACTTAATAATTTTACTATGT--ATGATAATTTTAATAACCATTAACACAAATTTTTG
15125827 ACTTAATA
1 ACTTAATA
15125835 CTGGTACTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
53 1 0.02
54 2 0.04
55 14 0.25
57 39 0.70
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (55 bp):
ACTTAATAATTTTACTATGTATGATAATTTTAATAACCATTAACACAAATTTTTG
Found at i:15128831 original size:13 final size:15
Alignment explanation
Indices: 15128803--15128837 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15128793 AATGATGTTT
15128803 TTTATTTTTTATATA
1 TTTATTTTTTATATA
*
15128818 TTTATTTTTAATAT-
1 TTTATTTTTTATATA
15128832 TTTATT
1 TTTATT
15128838 ATGCCTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTATATA
Found at i:15131636 original size:18 final size:18
Alignment explanation
Indices: 15131586--15131636 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
15131576 ATGAAAAAAC
15131586 ATTTGGAAATTGAATAACG
1 ATTTGGAAA-TGAATAACG
* *
15131605 ATTTGTAAATGAATAATG
1 ATTTGGAAATGAATAACG
* *
15131623 TTTTGGAAACGAAT
1 ATTTGGAAATGAAT
15131637 GACTCGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
ATTTGGAAATGAATAACG
Found at i:15135537 original size:2 final size:2
Alignment explanation
Indices: 15135476--15135526 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
15135466 AGGAAAATTC
15135476 TA TA TA TA TA TA 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 TA TA TA TA TA TA
15135518 TA TA TA TA T
1 TA TA TA TA T
15135527 TCATAATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15135839 original size:2 final size:2
Alignment explanation
Indices: 15135834--15135859 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15135824 TACAAGACCT
15135834 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
15135860 AAGTCTGCCA
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:15141849 original size:31 final size:33
Alignment explanation
Indices: 15141786--15141853 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
15141776 TCTAACCAAT
15141786 GTGTCTGAATCATGCGATATAAACATTATTTAA
1 GTGTCTGAATCATGCGATATAAACATTATTTAA
* * *
15141819 GTGTTTGAATCATG-G-TATGAACCTTATTTAA
1 GTGTCTGAATCATGCGATATAAACATTATTTAA
15141850 GTGT
1 GTGT
15141854 ATACCAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 18 0.56
32 1 0.03
33 13 0.41
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (33 bp):
GTGTCTGAATCATGCGATATAAACATTATTTAA
Found at i:15147290 original size:24 final size:26
Alignment explanation
Indices: 15147259--15147306 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
15147249 AATTTTTAAT
*
15147259 AAATTTAAT-TTTTTA-TATTTATTA
1 AAATTTAATATTTTCATTATTTATTA
15147283 AAATTTAATATTTTCATTATTTAT
1 AAATTTAATATTTTCATTATTTAT
15147307 AATTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 5 0.24
26 7 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
AAATTTAATATTTTCATTATTTATTA
Found at i:15147551 original size:92 final size:86
Alignment explanation
Indices: 15147336--15147543 Score: 231
Period size: 87 Copynumber: 2.4 Consensus size: 86
15147326 TAAGAGTAGG
* * *
15147336 GGCTTAATTGC-TTTTTTGAAAAAATTTGAGGGTTTTTTAATATATTTTGAAAGTTCAAGTATCC
1 GGCTTAATTGCTTTTTTTGAAAAAATTTGAGGCTTTTTTAATACATTTTGAAAGTTCAAGTAGCC
* **
15147400 AATTGAATGGAAAAAAAGCAA
66 AATTGAATGAAAAAAAAAAAA
* * * * *
15147421 GGCTTAATTGCTTTTTTTTAAGAAGTTTGAGGGCTTTTTTGATGCATTTTGAAAGTTCAAGT-GC
1 GGCTTAATTGCTTTTTTTGAAAAAATTTGA-GGCTTTTTTAATACATTTTGAAAGTTCAAGTAGC
*
15147485 ACAATTGAGTGTAAAAAAAAAAAAGA
65 -CAATTGAATG--AAAAAAAAAAA-A
15147511 GGAGCTTAATTGCTTTTTTTGAAAAAATTTGAG
1 -G-GCTTAATTGCTTTTTTTGAAAAAATTTGAG
15147544 AACTTTTTAT
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
85 11 0.11
86 16 0.16
87 36 0.36
89 8 0.08
90 1 0.01
91 2 0.02
92 26 0.26
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (86 bp):
GGCTTAATTGCTTTTTTTGAAAAAATTTGAGGCTTTTTTAATACATTTTGAAAGTTCAAGTAGCC
AATTGAATGAAAAAAAAAAAA
Found at i:15162255 original size:16 final size:16
Alignment explanation
Indices: 15162208--15162258 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
15162198 TGGTTCACTA
*
15162208 TAATGGAATAGAGTTA
1 TAATGGAATAGAGTTG
*
15162224 TAATTGAATAGAGTTG
1 TAATGGAATAGAGTTG
15162240 TAATGGAATAGAGTTG
1 TAATGGAATAGAGTTG
15162256 TAA
1 TAA
15162259 ACAGTAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.33
Consensus pattern (16 bp):
TAATGGAATAGAGTTG
Found at i:15162530 original size:61 final size:58
Alignment explanation
Indices: 15162444--15162570 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 58
15162434 TTTTAATAAG
* * * * * *
15162444 ATTATTGTTAAATATATTTTCATAAAAATAATATTAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATACAATTTAAT-AAAATAATA-T--ATAATTTAATAACATTCTTAACATA
*
15162505 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAACATA
15162563 ATTATTAT
1 ATTATTAT
15162571 AATATGAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 14 0.24
58 15 0.26
59 1 0.02
60 9 0.16
61 19 0.33
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAACATA
Found at i:15162593 original size:58 final size:58
Alignment explanation
Indices: 15162444--15162600 Score: 142
Period size: 58 Copynumber: 2.7 Consensus size: 58
15162434 TTTTAATAAG
* * * * * * *
15162444 ATTATTGTTAAATATATTTTCATAAAAATAATATTAAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAATACAATTT-A-AAAAAT-ATAATATATAATTTAATAACATTTTAACATA
* *
15162505 ATTATTATTAAATACAATTTAATAAA-ATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAAAAAATATAATATATAATTTAATAACATT-TTAACATA
*
15162563 ATTATTA-T-AATATGAA-TTAAAAAATCATAATATATAAT
1 ATTATTATTAAATA-CAATTTAAAAAAT-ATAATATATAAT
15162601 ATTATAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
56 11 0.14
57 22 0.27
58 26 0.32
59 4 0.05
60 1 0.01
61 17 0.21
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAAAAAATATAATATATAATTTAATAACATTTTAACATA
Found at i:15162609 original size:23 final size:21
Alignment explanation
Indices: 15162578--15162620 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15162568 TATAATATGA
15162578 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
15162601 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
15162621 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:15165332 original size:16 final size:16
Alignment explanation
Indices: 15165311--15165344 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
15165301 TTGATCGACT
15165311 GTGGGCCTTCCATAGG
1 GTGGGCCTTCCATAGG
15165327 GTGGGCCTTCCATAGG
1 GTGGGCCTTCCATAGG
15165343 GT
1 GT
15165345 CGGTATGGGC
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:0.12, C:0.24, G:0.38, T:0.26
Consensus pattern (16 bp):
GTGGGCCTTCCATAGG
Done.