Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 74 of 130
Found at i:15239566 original size:13 final size:14
Alignment explanation
Indices: 15239537--15239567 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15239527 TGTATTTGTA
15239537 TTTTTACTTTAATT
1 TTTTTACTTTAATT
*
15239551 TTTTTAGTTTAATT
1 TTTTTACTTTAATT
15239565 TTT
1 TTT
15239568 ATTTTTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTACTTTAATT
Found at i:15240343 original size:11 final size:11
Alignment explanation
Indices: 15240300--15240394 Score: 52
Period size: 11 Copynumber: 8.3 Consensus size: 11
15240290 TTATCTGATT
15240300 ATTTTTGCATG
1 ATTTTTGCATG
15240311 ATTTATTG--T-
1 ATTT-TTGCATG
* **
15240320 ACTTTTGTTTG
1 ATTTTTGCATG
15240331 ATTTTTGCATG
1 ATTTTTGCATG
*
15240342 ATTATTGCATG
1 ATTTTTGCATG
* *
15240353 ATATTTTTCATTAT
1 AT-TTTTGCA-T-G
15240367 ATTTATTTGCATG
1 A-TT-TTTGCATG
15240380 ATTTATTGCATG
1 ATTT-TTGCATG
15240392 ATT
1 ATT
15240395 ATTTAATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 2 0.03
11 25 0.39
12 20 0.31
13 2 0.03
14 3 0.05
15 6 0.09
ACGTcount: A:0.22, C:0.07, G:0.14, T:0.57
Consensus pattern (11 bp):
ATTTTTGCATG
Found at i:15240388 original size:12 final size:12
Alignment explanation
Indices: 15240329--15240394 Score: 57
Period size: 12 Copynumber: 5.4 Consensus size: 12
15240319 TACTTTTGTT
15240329 TGATTT-TTGCA
1 TGATTTATTGCA
15240340 TGA-TTATTGCA
1 TGATTTATTGCA
*
15240351 TGATATT-TTTCA
1 TGAT-TTATTGCA
*
15240363 TTATATTTATTTGCA
1 -T-GATTTA-TTGCA
15240378 TGATTTATTGCA
1 TGATTTATTGCA
15240390 TGATT
1 TGATT
15240395 ATTTAATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
10 2 0.05
11 11 0.25
12 14 0.32
13 10 0.23
14 3 0.07
15 4 0.09
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.55
Consensus pattern (12 bp):
TGATTTATTGCA
Found at i:15241062 original size:25 final size:26
Alignment explanation
Indices: 15241013--15241066 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
15241003 CATTAACCCA
* *
15241013 TTTGTTTATTTTTGTAGCTTATGATT
1 TTTGTTTAGTTTTGTAGATTATGATT
*
15241039 TTTGTTT-GTTTTGTAGATTTTGATT
1 TTTGTTTAGTTTTGTAGATTATGATT
15241064 TTT
1 TTT
15241067 CATGTGCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.13, C:0.02, G:0.17, T:0.69
Consensus pattern (26 bp):
TTTGTTTAGTTTTGTAGATTATGATT
Found at i:15243689 original size:14 final size:14
Alignment explanation
Indices: 15243670--15243696 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15243660 TAAAATTCTT
15243670 TAAAAAAATAAAAC
1 TAAAAAAATAAAAC
15243684 TAAAAAAATAAAA
1 TAAAAAAATAAAA
15243697 AATAATAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAAAAAATAAAAC
Found at i:15243999 original size:21 final size:22
Alignment explanation
Indices: 15243975--15244019 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
15243965 CTCAATAACT
15243975 TGAAAATTTGTAAAAA-G-TATC
1 TGAAAATTT-TAAAAATGTTATC
*
15243996 TGAAAGTTTTAAAAATGTTATC
1 TGAAAATTTTAAAAATGTTATC
15244018 TG
1 TG
15244020 GGGTACATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (22 bp):
TGAAAATTTTAAAAATGTTATC
Found at i:15245696 original size:19 final size:19
Alignment explanation
Indices: 15245672--15245729 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
15245662 TAAGGCTTTG
*
15245672 GGGTTTCATTTAGGGTTTA
1 GGGTTTCATCTAGGGTTTA
*
15245691 GGGTTTTATCTAGGGTTTA
1 GGGTTTCATCTAGGGTTTA
* *
15245710 GGGTTTGACCTAGGGTTTA
1 GGGTTTCATCTAGGGTTTA
15245729 G
1 G
15245730 TTACCGAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.16, C:0.07, G:0.34, T:0.43
Consensus pattern (19 bp):
GGGTTTCATCTAGGGTTTA
Found at i:15245798 original size:13 final size:13
Alignment explanation
Indices: 15245753--15245839 Score: 62
Period size: 13 Copynumber: 7.2 Consensus size: 13
15245743 AAGGTTTTAA
15245753 TTAGGGTTTCATT
1 TTAGGGTTTCATT
***
15245766 TTACAATTTCATT
1 TTAGGGTTTCATT
*
15245779 TTA-GGTTTCACT
1 TTAGGGTTTCATT
15245791 TTAGGG-----TT
1 TTAGGGTTTCATT
*
15245799 TTA-GTTTTCATT
1 TTAGGGTTTCATT
*
15245811 TTAGGTTTTCATT
1 TTAGGGTTTCATT
*
15245824 TTAAGGTTTCATT
1 TTAGGGTTTCATT
15245837 TTA
1 TTA
15245840 ATATTTTTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
12 14 0.25
13 38 0.67
ACGTcount: A:0.20, C:0.09, G:0.15, T:0.56
Consensus pattern (13 bp):
TTAGGGTTTCATT
Found at i:15245802 original size:20 final size:19
Alignment explanation
Indices: 15245777--15245819 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15245767 TACAATTTCA
15245777 TTTTAGGTTTCACTTTAGGG
1 TTTTAGGTTTCACTTTA-GG
* *
15245797 TTTTAGTTTTCATTTTAGG
1 TTTTAGGTTTCACTTTAGG
15245816 TTTT
1 TTTT
15245820 CATTTTAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.14, C:0.07, G:0.19, T:0.60
Consensus pattern (19 bp):
TTTTAGGTTTCACTTTAGG
Found at i:15245840 original size:13 final size:14
Alignment explanation
Indices: 15245802--15245840 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
15245792 TAGGGTTTTA
15245802 GTTTTCATTTT-AG
1 GTTTTCATTTTAAG
15245815 GTTTTCATTTTAAG
1 GTTTTCATTTTAAG
15245829 G-TTTCATTTTAA
1 GTTTTCATTTTAA
15245841 TATTTTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
GTTTTCATTTTAAG
Found at i:15246197 original size:62 final size:63
Alignment explanation
Indices: 15246131--15246260 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 63
15246121 AAATTGTAAA
* * * * *
15246131 GGATTATTAAAGGTATTTT-TGATCAAAAAATACCTTCAATGAT-CCTTTC-ATTTTTTATGAGG
1 GGATTATTAAAGGTGTTTTGTG--CAAAAAACACCTTCAATAATCCCCTCCAATTTTTTATGAGG
* *
15246193 GGATTATTGAAGGTGTTTTGTGCAAAAAACACCTTTAATAATCCCCTCCAATTTTTTATGAGG
1 GGATTATTAAAGGTGTTTTGTGCAAAAAACACCTTCAATAATCCCCTCCAATTTTTTATGAGG
15246256 GGATT
1 GGATT
15246261 TCAAGCAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
61 17 0.29
62 21 0.36
63 20 0.34
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (63 bp):
GGATTATTAAAGGTGTTTTGTGCAAAAAACACCTTCAATAATCCCCTCCAATTTTTTATGAGG
Found at i:15246824 original size:61 final size:60
Alignment explanation
Indices: 15246677--15246826 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 60
15246667 ATTGAAGGCG
* * * *
15246677 TTTTTGATAAAAAAACGCCTTCAATAATCCTCTATATTTTTTAGGAGAATTATTAAAAGTA
1 TTTTTGCT-AAAAAACGCCTTCAATAATCCTCTATATTTTTTAGAACAATTATTAAAAGCA
* * * *
15246738 TTTTTGGTAAAAAACGCCTTCAATAATCACT-TTTATTTTTTATGAACAGATTATTTAAGGCA
1 TTTTTGCTAAAAAACGCCTTCAATAATC-CTCTATATTTTTTA-GAACA-ATTATTAAAAGCA
**
15246800 TTTTTGCT-TGAAACGCCTTCAATAATC
1 TTTTTGCTAAAAAACGCCTTCAATAATC
15246827 TCTCATAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
60 30 0.39
61 29 0.38
62 17 0.22
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (60 bp):
TTTTTGCTAAAAAACGCCTTCAATAATCCTCTATATTTTTTAGAACAATTATTAAAAGCA
Found at i:15246965 original size:65 final size:62
Alignment explanation
Indices: 15246814--15247015 Score: 223
Period size: 62 Copynumber: 3.2 Consensus size: 62
15246804 TGCTTGAAAC
*
15246814 GCCTTCAATAATC-TCTCATAAAAAATTAGAAG-GGATTATTGAAGGTATTTTTTGCACAAAAT
1 GCCTTCAATAATCTTCTC-TAAAAAATT-GAAGAGGATTATTGAAGGTATTTTTTGCAAAAAAT
* *
15246876 GCCTTCAATAATCCTT-T-TATAAAAATTGAAGAGGATTATTAAAGGTATTTTTTTTTGTAAAAA
1 GCCTTCAATAAT-CTTCTCTA-AAAAATTGAAGAGGATTATTGAAGGTA---TTTTTTGCAAAAA
15246939 AT
61 AT
* ** ***
15246941 GCCTTCAATAATCTTCTCTAAAAAATTTAAGAGGATTATTGAAGGCGTTTTTTGCCTGAAAT
1 GCCTTCAATAATCTTCTCTAAAAAATTGAAGAGGATTATTGAAGGTATTTTTTGCAAAAAAT
*
15247003 ACCTTCAATAATC
1 GCCTTCAATAATC
15247016 CTTTTTGCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
61 6 0.05
62 56 0.47
63 2 0.02
64 4 0.03
65 49 0.41
66 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (62 bp):
GCCTTCAATAATCTTCTCTAAAAAATTGAAGAGGATTATTGAAGGTATTTTTTGCAAAAAAT
Found at i:15249562 original size:20 final size:19
Alignment explanation
Indices: 15249525--15249564 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15249515 ATTTAAATTC
* *
15249525 ATTTTTATTTCTTTTAATA
1 ATTTTTATTTATTATAATA
15249544 ATTTTTATTTAATTATAATA
1 ATTTTTATTT-ATTATAATA
15249564 A
1 A
15249565 ATATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTATTTATTATAATA
Found at i:15250384 original size:17 final size:19
Alignment explanation
Indices: 15250349--15250384 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
15250339 TTTATTATTA
15250349 TTATTATTATTTGATCTTT
1 TTATTATTATTTGATCTTT
15250368 TTATT-TTATTT-ATCTTT
1 TTATTATTATTTGATCTTT
15250385 CTTGCATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (19 bp):
TTATTATTATTTGATCTTT
Found at i:15250421 original size:16 final size:16
Alignment explanation
Indices: 15250397--15250434 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15250387 TGCATGAATC
*
15250397 TAAAATGTAT-AAACAG
1 TAAATTGTATCAAA-AG
15250413 TAAATTGTATCAAAAG
1 TAAATTGTATCAAAAG
15250429 TAAATT
1 TAAATT
15250435 AATGTATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (16 bp):
TAAATTGTATCAAAAG
Found at i:15252136 original size:12 final size:13
Alignment explanation
Indices: 15252119--15252152 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
15252109 AAAGGTATAT
15252119 TTTTATTGGGCC-
1 TTTTATTGGGCCA
15252131 TTTTATTGGGCCA
1 TTTTATTGGGCCA
*
15252144 TTTAATTGG
1 TTTTATTGG
15252153 ACTTACGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.15, C:0.12, G:0.24, T:0.50
Consensus pattern (13 bp):
TTTTATTGGGCCA
Found at i:15252820 original size:35 final size:35
Alignment explanation
Indices: 15252744--15252821 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
15252734 TCGTATGTTG
* * *
15252744 AAAAATAAGGATGACCAAGATTGAATCACAGGTTA
1 AAAAATAAGGATGACCAAGACTGAATCACAAGTCA
*
15252779 AAAAATAAGGATGACTC-AGACTGAGTCACAAGTCA
1 AAAAATAAGGATGAC-CAAGACTGAATCACAAGTCA
*
15252814 AGAAATAA
1 AAAAATAA
15252822 AGAACAATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 36 0.97
36 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (35 bp):
AAAAATAAGGATGACCAAGACTGAATCACAAGTCA
Found at i:15252944 original size:35 final size:36
Alignment explanation
Indices: 15252915--15252987 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
15252905 ACTGAGTTAT
* *
15252915 AAGTCAAGAAA-TAACAATGACTAGGACTGAACTAC
1 AAGTCAAGAAACAAAAAATGACTAGGACTGAACTAC
15252950 AAGTCAAGAAACAAAAAATGACTAGGACT-AAGCTAC
1 AAGTCAAGAAACAAAAAATGACTAGGACTGAA-CTAC
15252986 AA
1 AA
15252988 ATTGAGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.15
Consensus pattern (36 bp):
AAGTCAAGAAACAAAAAATGACTAGGACTGAACTAC
Found at i:15252977 original size:36 final size:35
Alignment explanation
Indices: 15252915--15253146 Score: 107
Period size: 35 Copynumber: 6.6 Consensus size: 35
15252905 ACTGAGTTAT
* *
15252915 AAGTCAAGAAATAACAATGACTAGGACTGAA-CTAC
1 AAGTCAAGAAAAAAAAATGACTAGGACT-AAGCTAC
15252950 AAGTCAAGAAACAAAAAATGACTAGGACTAAGCTAC
1 AAGTCAAGAAA-AAAAAATGACTAGGACTAAGCTAC
* ** * * * * *
15252986 AAATTGAGAAATAAAAATGACCAAGACTAAAC-AGT
1 AAGTCAAGAAAAAAAAATGACTAGGACTAAGCTA-C
* * * * *
15253021 AAGCCAAGAAACAAAAATAACTAGGATTGAGCTACC
1 AAGTCAAGAAAAAAAAATGACTAGGACTAAGCTA-C
* ** * *
15253057 AA-T--TGAAAATAATGATGACCAAGACTAAGCTAC
1 AAGTCAAGAAAA-AAAAATGACTAGGACTAAGCTAC
* * * * * *
15253090 AACTCAGGAAACAAAAAGATGACCAAGA-TGAAACCAC
1 AAGTCAAGAAA-AAAAA-ATGACTAGGACT-AAGCTAC
*
15253127 AAGTCAAGAAACAAAAATGA
1 AAGTCAAGAAAAAAAAATGA
15253147 TTGAGATTGA
Statistics
Matches: 145, Mismatches: 41, Indels: 22
0.70 0.20 0.11
Matches are distributed among these distances:
33 7 0.05
34 17 0.12
35 55 0.38
36 41 0.28
37 25 0.17
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.15
Consensus pattern (35 bp):
AAGTCAAGAAAAAAAAATGACTAGGACTAAGCTAC
Found at i:15253101 original size:69 final size:70
Alignment explanation
Indices: 15252921--15253106 Score: 198
Period size: 69 Copynumber: 2.7 Consensus size: 70
15252911 TTATAAGTCA
* * * * * *
15252921 AGAAATAACAATGACTAGGACTGAACTACAAGTCAAGAAACAAAAAATGACTAGGACTAAGCTAC
1 AGAAATAAAAATGACCAAGACTAAACTACAACTCAAGAAAC-AAAAATAACTAGGACTAAGCTAC
15252986 AAATTG
65 AAATTG
* * *
15252992 AGAAATAAAAATGACCAAGACTAAACAGTA-AGC-CAAGAAACAAAAATAACTAGGATTGAGCTA
1 AGAAATAAAAATGACCAAGACTAAAC--TACAACTCAAGAAACAAAAATAACTAGGACTAAGCTA
*
15253055 CCAATTG
64 CAAATTG
** * *
15253062 A-AAATAATGATGACCAAGACTAAGCTACAACTCAGGAAACAAAAA
1 AGAAATAAAAATGACCAAGACTAAACTACAACTCAAGAAACAAAAA
15253107 GATGACCAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
67 2 0.02
68 2 0.02
69 33 0.34
70 26 0.27
71 30 0.31
72 1 0.01
73 2 0.02
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (70 bp):
AGAAATAAAAATGACCAAGACTAAACTACAACTCAAGAAACAAAAATAACTAGGACTAAGCTACA
AATTG
Found at i:15253112 original size:37 final size:37
Alignment explanation
Indices: 15253070--15253143 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
15253060 TGAAAATAAT
* * *
15253070 GATGACCAAGACT-AAGCTACAACTCAGGAAACAAAAA
1 GATGACCAAGA-TGAAACCACAACTCAAGAAACAAAAA
*
15253107 GATGACCAAGATGAAACCACAAGTCAAGAAACAAAAA
1 GATGACCAAGATGAAACCACAACTCAAGAAACAAAAA
15253144 TGATTGAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.54, C:0.20, G:0.16, T:0.09
Consensus pattern (37 bp):
GATGACCAAGATGAAACCACAACTCAAGAAACAAAAA
Found at i:15255148 original size:15 final size:16
Alignment explanation
Indices: 15255107--15255148 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
15255097 AAAAAAAAAC
15255107 TCAAGAAAAACATATTTA
1 TCAAGAAAAACATA--TA
*
15255125 TCAACAAAAACATA-A
1 TCAAGAAAAACATATA
15255140 TCAAGAAAA
1 TCAAGAAAA
15255149 TTTCATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
18 13 0.59
ACGTcount: A:0.62, C:0.14, G:0.05, T:0.19
Consensus pattern (16 bp):
TCAAGAAAAACATATA
Found at i:15261324 original size:10 final size:11
Alignment explanation
Indices: 15261297--15261330 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15261287 ACTTTTGACC
15261297 AAATAAAATAA
1 AAATAAAATAA
15261308 AAATAAAA-AA
1 AAATAAAATAA
*
15261318 CAATAAAATAA
1 AAATAAAATAA
15261329 AA
1 AA
15261331 TGAACAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:15261925 original size:44 final size:44
Alignment explanation
Indices: 15261783--15262072 Score: 200
Period size: 44 Copynumber: 6.5 Consensus size: 44
15261773 TGAAAAAAAG
* * *
15261783 TTTTAAAAAAAATACTCGAAAGTTTTAAAGATGATACCCTA-AGGT
1 TTTTAAAAAAGATACTTGAAAGTTTTAAA-ATGATA-CTTAGAGGT
* * * * * * * * *
15261828 TTTTAGAAATGATAC-TCAGAGGTTTTATAATGACACCTACAAG-
1 TTTTAAAAAAGATACTTGA-AAGTTTTAAAATGATACTTAGAGGT
* * *
15261871 TTTTCAAAAAGGTACTCGAAAGTTTTAAAAATGATACTTAGAGGT
1 TTTTAAAAAAGATACTTGAAAGTTTT-AAAATGATACTTAGAGGT
* *
15261916 TTAT-AAAAAGATACTTGAAAGTTTCTAAGATGATACCTT-GAGGT
1 TTTTAAAAAAGATACTTGAAAGTTT-TAAAATGATA-CTTAGAGGT
* * * *
15261960 TTTTAGAGATA-ATA-TCT-AAACGTTTTAAAATGACATTTAGAGGT
1 TTTTA-AAAAAGATACT-TGAAA-GTTTTAAAATGATACTTAGAGGT
* ** *
15262004 TTTTAAAAAATATACTTGAAAGTTTTAAAAATGATACCCAAAGGT
1 TTTTAAAAAAGATACTTGAAAGTTTT-AAAATGATACTTAGAGGT
*
15262049 TTTTGAAAAAGATACTTGAAAGTT
1 TTTTAAAAAAGATACTTGAAAGTT
15262073 CTAAGAGATT
Statistics
Matches: 189, Mismatches: 40, Indels: 32
0.72 0.15 0.12
Matches are distributed among these distances:
43 26 0.14
44 86 0.46
45 74 0.39
46 3 0.02
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (44 bp):
TTTTAAAAAAGATACTTGAAAGTTTTAAAATGATACTTAGAGGT
Found at i:15262028 original size:23 final size:22
Alignment explanation
Indices: 15262002--15262072 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
15261992 ACATTTAGAG
15262002 GTTTTTAAAAAATATACTTGAAA
1 GTTTTT-AAAAATATACTTGAAA
**
15262025 G-TTTTAAAAATGATAC-CCAAA
1 GTTTTTAAAAAT-ATACTTGAAA
*
15262046 GGTTTTTGAAAAAGATACTTGAAA
1 -GTTTTT-AAAAATATACTTGAAA
15262070 GTT
1 GTT
15262073 CTAAGAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 9 0.24
22 9 0.24
23 12 0.32
24 8 0.21
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (22 bp):
GTTTTTAAAAATATACTTGAAA
Found at i:15262040 original size:22 final size:22
Alignment explanation
Indices: 15261779--15262072 Score: 89
Period size: 22 Copynumber: 13.3 Consensus size: 22
15261769 TCTTTGAAAA
** *
15261779 AAAGTTTTAAAAAAAATACTCG
1 AAAGTTTTAAAAATGATACTTG
* *
15261801 AAAGTTTTAAAGATGATACCCT-
1 AAAGTTTTAAAAATGATA-CTTG
* * *
15261823 AAGGTTTTTAGAAATGATAC-TC
1 AAAG-TTTTAAAAATGATACTTG
* * * *
15261845 AGAGGTTTT-ATAATGACACCT-
1 A-AAGTTTTAAAAATGATACTTG
* *
15261866 ACAAGTTTTCAAAAA-GGTACTCG
1 A-AAGTTTT-AAAAATGATACTTG
15261889 AAAGTTTTAAAAATGATACTT-
1 AAAGTTTTAAAAATGATACTTG
*
15261910 AGAGGTTTATAAAAA-GATACTTG
1 A-AAGTTT-TAAAAATGATACTTG
*
15261933 AAAGTTTCT-AAGATGATACCTTG
1 AAAGTTT-TAAAAATGATA-CTTG
* * * *
15261956 -AGGTTTTTAGAGATAATA-TCT-
1 AAAG-TTTTAAAAATGATACT-TG
* *
15261977 AAACGTTTT-AAAATGACA-TTT
1 AAA-GTTTTAAAAATGATACTTG
*
15261998 AGAGGTTTTTAAAAAAT-ATACTTG
1 A-AAG-TTTT-AAAAATGATACTTG
**
15262022 AAAGTTTTAAAAATGATAC-CC
1 AAAGTTTTAAAAATGATACTTG
15262043 AAAGGTTTTTGAAAAA-GATACTTG
1 AAA-G-TTTT-AAAAATGATACTTG
15262067 AAAGTT
1 AAAGTT
15262073 CTAAGAGATT
Statistics
Matches: 202, Mismatches: 40, Indels: 60
0.67 0.13 0.20
Matches are distributed among these distances:
20 1 0.00
21 42 0.21
22 87 0.43
23 56 0.28
24 16 0.08
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (22 bp):
AAAGTTTTAAAAATGATACTTG
Found at i:15265152 original size:33 final size:33
Alignment explanation
Indices: 15265099--15265168 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
15265089 TAGTATCAAG
**
15265099 CTTAAGAATGAAGAAAAACTCATTAGGAAAGAA
1 CTTAAGAATGAAGAAAAACTCACCAGGAAAGAA
15265132 CTTAAGAAT-AA-AAAGGAACTCACCAGGAAAGAA
1 CTTAAGAATGAAGAAA--AACTCACCAGGAAAGAA
15265165 CTTA
1 CTTA
15265169 TTTATCTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 3 0.09
32 2 0.06
33 28 0.85
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (33 bp):
CTTAAGAATGAAGAAAAACTCACCAGGAAAGAA
Found at i:15266968 original size:15 final size:15
Alignment explanation
Indices: 15266948--15266979 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15266938 GTGGAGCTCG
*
15266948 AAAAAAAATAAGAAA
1 AAAAAAAAAAAGAAA
15266963 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
15266978 AA
1 AA
15266980 GCCATGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:15267006 original size:17 final size:16
Alignment explanation
Indices: 15266949--15267017 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
15266939 TGGAGCTCGA
15266949 AAAAAAATAAGAAAAA-
1 AAAAAAA-AAGAAAAAG
15266965 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
* **
15266981 CCATGAAAAAGAAAAAG
1 -AAAAAAAAAGAAAAAG
*
15266998 AGAAAAAAAA-AAGAAG
1 A-AAAAAAAAGAAAAAG
15267014 AAAA
1 AAAA
15267018 GGAAAACAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 11 0.26
16 13 0.30
17 19 0.44
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:15271285 original size:16 final size:16
Alignment explanation
Indices: 15271264--15271312 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
15271254 AAAACATGCA
15271264 TTTTTCATCTTTCTTT
1 TTTTTCATCTTTCTTT
15271280 TTTTTCAT-TTT-TTT
1 TTTTTCATCTTTCTTT
*
15271294 TAATTTCA-CTTCTCTTT
1 T-TTTTCATCTT-TCTTT
15271311 TT
1 TT
15271313 CTCTTGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 9 0.33
17 4 0.15
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTCATCTTTCTTT
Found at i:15272761 original size:17 final size:17
Alignment explanation
Indices: 15272739--15272772 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15272729 TAGATGGGTA
15272739 ATAAGGTAGGTACAAGG
1 ATAAGGTAGGTACAAGG
* *
15272756 ATAAGGTTGGTATAAGG
1 ATAAGGTAGGTACAAGG
15272773 TAAAACCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.24
Consensus pattern (17 bp):
ATAAGGTAGGTACAAGG
Found at i:15276491 original size:41 final size:41
Alignment explanation
Indices: 15276412--15276492 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
15276402 TAAAAGTAAT
* *
15276412 TTTAAATGAAGATCAATATAGGCCATCACTAAAAGTAAAAC
1 TTTAAATGAAGATCAATAAAAGCCATCACTAAAAGTAAAAC
* * * *
15276453 TTTAAATGAAGGTCAATAAAAGCCTTCATTAAATGTAAAA
1 TTTAAATGAAGATCAATAAAAGCCATCACTAAAAGTAAAA
15276493 GATATAATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (41 bp):
TTTAAATGAAGATCAATAAAAGCCATCACTAAAAGTAAAAC
Found at i:15282925 original size:12 final size:12
Alignment explanation
Indices: 15282887--15283048 Score: 119
Period size: 12 Copynumber: 13.1 Consensus size: 12
15282877 AAACACACCC
15282887 TTCAGCAAACCA
1 TTCAGCAAACCA
* **
15282899 CTCAAAAACACCA
1 TTCAGCAA-ACCA
*
15282912 TTTAGCAAACCA
1 TTCAGCAAACCA
* *
15282924 TTCAGAAATACTA
1 TTCAGCAA-ACCA
*
15282937 TTAAGCAAACCA
1 TTCAGCAAACCA
* *
15282949 TTTAGAAATACCA
1 TTCAGCAA-ACCA
15282962 TTCAGCAAACCA
1 TTCAGCAAACCA
* *
15282974 CTCAGAAACACCA
1 TTCAGCAA-ACCA
15282987 TTCAGCAAACCA
1 TTCAGCAAACCA
15282999 TTCAG-AAACACGA
1 TTCAGCAAAC-C-A
* *
15283012 TTCAGCATACGA
1 TTCAGCAAACCA
* *
15283024 TTCAGCATACGA
1 TTCAGCAAACCA
*
15283036 TTCAGCATACCA
1 TTCAGCAAACCA
15283048 T
1 T
15283049 ATCATATAAT
Statistics
Matches: 119, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
11 4 0.03
12 69 0.58
13 43 0.36
14 3 0.03
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.20
Consensus pattern (12 bp):
TTCAGCAAACCA
Found at i:15283026 original size:25 final size:25
Alignment explanation
Indices: 15282881--15283028 Score: 179
Period size: 25 Copynumber: 5.9 Consensus size: 25
15282871 ATGCTCAAAC
* * *
15282881 ACACCCTTCAGCAAACCACTCAAAA
1 ACACCATTCAGCAAACCATTCAGAA
*
15282906 ACACCATTTAGCAAACCATTCAGAA
1 ACACCATTCAGCAAACCATTCAGAA
* * * *
15282931 ATACTATTAAGCAAACCATTTAGAA
1 ACACCATTCAGCAAACCATTCAGAA
* *
15282956 ATACCATTCAGCAAACCACTCAGAA
1 ACACCATTCAGCAAACCATTCAGAA
15282981 ACACCATTCAGCAAACCATTCAGAA
1 ACACCATTCAGCAAACCATTCAGAA
* * *
15283006 ACACGATTCAGCATACGATTCAG
1 ACACCATTCAGCAAACCATTCAG
15283029 CATACGATTC
Statistics
Matches: 106, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 106 1.00
ACGTcount: A:0.43, C:0.29, G:0.09, T:0.19
Consensus pattern (25 bp):
ACACCATTCAGCAAACCATTCAGAA
Found at i:15283677 original size:62 final size:61
Alignment explanation
Indices: 15283550--15283679 Score: 147
Period size: 62 Copynumber: 2.1 Consensus size: 61
15283540 GTAAAAATCA
* * * *
15283550 CCTTTAATAATTATGTACAAAAATTAAAAGGAATTAGTGAAGGCATTTGTTCTAAAAAAATG
1 CCTTCAATAATTATGTACAAAAATCAAAAGGAATTAGTGAA-GAATTTGTTCTAAAAAAACG
* * *
15283612 CCTTCAATAATTATGTACATAAATCAGAAA-GAATTAGTGAA-AATGTTTTTCTAGAATAAACG
1 CCTTCAATAATTATGTACAAAAATCA-AAAGGAATTAGTGAAGAAT-TTGTTCTA-AAAAAACG
15283674 CCTTCA
1 CCTTCA
15283680 CTAACTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 2 0.03
61 7 0.12
62 46 0.79
63 3 0.05
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (61 bp):
CCTTCAATAATTATGTACAAAAATCAAAAGGAATTAGTGAAGAATTTGTTCTAAAAAAACG
Found at i:15283942 original size:124 final size:125
Alignment explanation
Indices: 15283643--15284037 Score: 440
Period size: 124 Copynumber: 3.2 Consensus size: 125
15283633 AATCAGAAAG
* * * *
15283643 AATTAGTGAAAATGTTTTTCTAGAATAAACGCCTTCACTAACTA-TCTTAAAATTTAAGTTGTGA
1 AATTAGTGAAAGTGTTTTTCTAGAATAAACACCTTCACTAA-TAGTCTTAAAATTTGAGTTATGA
* * * * *
15283707 AAAATTGAAAGG-GTTTCTCATTGGAAGACACCTTTAATAATCCCAAAAATTTTTAAGAGAA
65 AAAATT-AAAGGCATTTTTCACTGGAAAACACATTTAATAATCCCAAAAATTTTTAAGAGAA
* ** * **
15283768 AATTAGTAAAAGCATTTTTCTAGAATAAACACCCTCACTAACCGTCTTAAAATTTGAGTTATGAA
1 AATTAGTGAAAGTGTTTTTCTAGAATAAACACCTTCACTAATAGTCTTAAAATTTGAGTTATGAA
* * *
15283833 AAATTAAAGGCATTTTTCACTGGAAAACACATTTACTAATTCTAAAAATTTTTTAA-A-AA
66 AAATTAAAGGCATTTTTCACTGGAAAACACATTTAATAATCCCAAAAA-TTTTTAAGAGAA
* *
15283892 AATTAGTGAAGGTGTTTTTCTAGAATAAACACCTTCACTAATAGTATTAAAATTTGAGTTATGAA
1 AATTAGTGAAAGTGTTTTTCTAGAATAAACACCTTCACTAATAGTCTTAAAATTTGAGTTATGAA
* * * ** * * * *
15283957 AAATTGAAGGCATTTTTCACTAGAAGATGCCTTTAATAAT-CTAAAAAATTTTAAAAGAA
66 AAATTAAAGGCATTTTTCACTGGAAAACACATTTAATAATCCCAAAAATTTTTAAGAGAA
* *
15284016 AATTATTGAAAGCGTTTGTTCT
1 AATTAGTGAAAGTGTTT-TTCT
15284038 CAAAAAATGT
Statistics
Matches: 227, Mismatches: 37, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
122 6 0.03
123 8 0.04
124 113 0.50
125 93 0.41
126 7 0.03
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (125 bp):
AATTAGTGAAAGTGTTTTTCTAGAATAAACACCTTCACTAATAGTCTTAAAATTTGAGTTATGAA
AAATTAAAGGCATTTTTCACTGGAAAACACATTTAATAATCCCAAAAATTTTTAAGAGAA
Found at i:15284098 original size:186 final size:184
Alignment explanation
Indices: 15283892--15284795 Score: 1053
Period size: 186 Copynumber: 4.9 Consensus size: 184
15283882 TTTTTAAAAA
* * *
15283892 AATTAGTGAAGGTGTTTTTCTAGAATAAACACCTTCACTAATAGTATTAAAATTTGAGTTATGAA
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAACA-TCTTAAAATTTGAGTTATGAA
* *
15283957 AAATTGAAGGCATTTTTCACTAGAAGATGCCTTTAATAATCTAAAAAATTTTAAAAGAAAATTAT
65 AAATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAAA-AAAATTAT
** *
15284022 TGAAAGCGTTTGTTCTCAAAAAATGTATTCAATAATTATGTACATAAATTAGAGGG
129 TGAAAGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAATTAGAAGG
** * * *
15284078 AATTAGTGAAGGCATTTTTCTAGAATAAATGCATTCACTAAACATCTTAAAATTTGAGTTATGGA
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACT-AACATCTTAAAATTTGAGTTATGAA
** * * * *
15284143 AAATTGAAAACATTTTTCAATGGAATACGCCGTTAATAATCTCAAAAATTTTAAAAAGAAATTAT
65 AAATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAAAA-AAATTAT
* * * *
15284208 TGAAAGTGTTTATTCTCAAAAAATACCTTCAATTATTATGTACATAAATTAGAAGG
129 TGAAAGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAATTAGAAGG
* * * * * * *
15284264 AATTAGTGAAGGTGTTTTTCTAGAATAAGCGTCTTGACTAACTATCTTAAATTTTGAATTGTAAA
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAAC-ATCTTAAAATTTGAGTTATGAA
* * *
15284329 AAATTGAAGGCATTTTTCACTGGAAGACGCTTTTAATAATC-CTAAAAATTTTAAGAGAAAATTA
65 AAATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTC-AAAAATTTTAA-AAAAAATTA
* * * * **
15284393 TTGAAGGTGTTTGTTCTCAAAGAATGCCTTCAATAATTATGTACGTAAATTAGAATA
128 TTGAAAGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAATTAGAAGG
* * * * * *
15284450 AATTAGTGAAGGTATTTTTCTAAAATAAACACATTCACTAACCGTCTTAAAATTTGAG-TAGTGG
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAA-CATCTTAAAATTTGAGTTA-TGA
* *** * *
15284514 AACATTGATTACATTTTTCACTAAAAGACACCTTTAATAATCTCAAAAATTTTAAAACAAAATTA
64 AAAATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAAA-AAAATTA
* * * * * *
15284579 AT-AAAGGCATTTGTTCTCAAAAAATACCTTGAATTATTATGTACGA-AAATTAGAAAG
128 TTGAAA-GCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTAC-ATAAATTAGAAGG
** * *
15284636 AATTAGTGAAGACGCTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTGAA
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAA-CATCTTAAAATTTGAGTTATGAA
* * * *
15284701 ATATTGAAGGCATTTTTCACTAGAAGACGCTTTTAATAATCCCAAAAATTTTTAAAAAAATTATT
65 AAATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAAAAAAATTATT
*
15284766 -AAACGCATTTGTTCTCAAAAAATGCCTTCA
130 GAAA-GCGTTTGTTCTCAAAAAATGCCTTCA
15284796 CTAACTGTCC
Statistics
Matches: 600, Mismatches: 106, Indels: 25
0.82 0.15 0.03
Matches are distributed among these distances:
185 44 0.07
186 548 0.91
187 8 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (184 bp):
AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAACATCTTAAAATTTGAGTTATGAAA
AATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAAAAAAATTATTG
AAAGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAATTAGAAGG
Found at i:15284598 original size:372 final size:371
Alignment explanation
Indices: 15283892--15284795 Score: 1223
Period size: 372 Copynumber: 2.4 Consensus size: 371
15283882 TTTTTAAAAA
* * *
15283892 AATTAGTGAAGGTGTTTTTCTAGAATAAACACCTTCACTAA-TAGTATTAAAATTTGAGTTATGA
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAACTA-TCTTAAAATTTGAGTTGTGA
* *
15283956 AAAATTGAAGGCATTTTTCACTAGAAGATGCCTTTAATAAT-CTAAAAAATTTTAAAAGAAAATT
65 AAAATTGAAGGCATTTTTCACTAGAAGACGCTTTTAATAATCCT-AAAAATTTT-AAAGAAAATT
** * *
15284020 ATTGAAAGCGTTTGTTCTCAAAAAATGTATTCAATAATTATGTACATAAATTAGAGGGAATTAGT
128 ATTGAAAGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAATTAGAAGAAATTAGT
* **
15284085 GAAGGCATTTTTCTAGAATAAATGCATTCACTAAACATCTTAAAATTTGAGTTATGGAAAATTGA
193 GAAGGCATTTTTCTAAAATAAACACATTCACTAAACATCTTAAAATTTGAGTTATGGAAAATTGA
** * * *
15284150 AAACATTTTTCAATGGAATACGCCGTTAATAATCTCAAAAATTTTAAAAAGAAATTATTGAAAGT
258 AAACATTTTTCAATAAAAGACACCGTTAATAATCTCAAAAATTTTAAAAAGAAATTAATGAAAGT
*
15284215 GTTTATTCTCAAAAAATACCTTCAATTATTATGTAC-ATAAATTAGAAGG
323 GTTTATTCTCAAAAAATACCTTCAATTATTATGTACGA-AAATTAGAAAG
* * * * * *
15284264 AATTAGTGAAGGTGTTTTTCTAGAATAAGCGTCTTGACTAACTATCTTAAATTTTGAATTGTAAA
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAACTATCTTAAAATTTGAGTTGTGAA
*
15284329 AAATTGAAGGCATTTTTCACTGGAAGACGCTTTTAATAATCCTAAAAATTTTAAGAGAAAATTAT
66 AAATTGAAGGCATTTTTCACTAGAAGACGCTTTTAATAATCCTAAAAATTTTAA-AGAAAATTAT
* * * * *
15284394 TGAAGGTGTTTGTTCTCAAAGAATGCCTTCAATAATTATGTACGTAAATTAGAATAAATTAGTGA
130 TGAAAGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAATTAGAAGAAATTAGTGA
* * * * *
15284459 AGGTATTTTTCTAAAATAAACACATTCACTAACCGTCTTAAAATTTGAG-TAGTGGAACATTGAT
195 AGGCATTTTTCTAAAATAAACACATTCACTAAACATCTTAAAATTTGAGTTA-TGGAAAATTGAA
* * *
15284523 TACATTTTTCACTAAAAGACACCTTTAATAATCTCAAAAATTTTAAAACA-AAATTAAT-AAAG-
259 AACATTTTTCAATAAAAGACACCGTTAATAATCTCAAAAATTTTAAAA-AGAAATTAATGAAAGT
* *
15284585 GCATTTGTTCTCAAAAAATACCTTGAATTATTATGTACGAAAATTAGAAAG
323 G--TTTATTCTCAAAAAATACCTTCAATTATTATGTACGAAAATTAGAAAG
** * *
15284636 AATTAGTGAAGACGCTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTGAA
1 AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAACTATCTTAAAATTTGAGTTGTGAA
* *
15284701 ATATTGAAGGCATTTTTCACTAGAAGACGCTTTTAATAATCCCAAAAATTTTTAAA-AAAATTAT
66 AAATTGAAGGCATTTTTCACTAGAAGACGCTTTTAATAATCCTAAAAA-TTTTAAAGAAAATTAT
*
15284765 T-AAACGCATTTGTTCTCAAAAAATGCCTTCA
130 TGAAA-GCGTTTGTTCTCAAAAAATGCCTTCA
15284796 CTAACTGTCC
Statistics
Matches: 465, Mismatches: 57, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
370 3 0.01
371 40 0.09
372 410 0.88
373 12 0.03
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (371 bp):
AATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTCACTAACTATCTTAAAATTTGAGTTGTGAA
AAATTGAAGGCATTTTTCACTAGAAGACGCTTTTAATAATCCTAAAAATTTTAAAGAAAATTATT
GAAAGCGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAATTAGAAGAAATTAGTGAA
GGCATTTTTCTAAAATAAACACATTCACTAAACATCTTAAAATTTGAGTTATGGAAAATTGAAAA
CATTTTTCAATAAAAGACACCGTTAATAATCTCAAAAATTTTAAAAAGAAATTAATGAAAGTGTT
TATTCTCAAAAAATACCTTCAATTATTATGTACGAAAATTAGAAAG
Found at i:15293330 original size:12 final size:14
Alignment explanation
Indices: 15293313--15293344 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
15293303 GATGACAATT
15293313 AAAAAAC-TAAA-A
1 AAAAAACTTAAAGA
15293325 AAAAAACTTAAAGA
1 AAAAAACTTAAAGA
15293339 AAAAAA
1 AAAAAA
15293345 GAGAGAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 4 0.22
14 7 0.39
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAAACTTAAAGA
Found at i:15298795 original size:21 final size:22
Alignment explanation
Indices: 15298760--15298802 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15298750 TATTTTAAAA
*
15298760 AATTTTCACATTTTTTATTTTT
1 AATTTTCACATTTTTAATTTTT
*
15298782 AATTTTTA-ATTTTTAATTTTT
1 AATTTTCACATTTTTAATTTTT
15298803 TTTGAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
AATTTTCACATTTTTAATTTTT
Found at i:15298819 original size:7 final size:7
Alignment explanation
Indices: 15298769--15298802 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
15298759 AAATTTTCAC
*
15298769 ATTTTTT
1 ATTTTTA
15298776 ATTTTTA
1 ATTTTTA
15298783 ATTTTTA
1 ATTTTTA
15298790 ATTTTTA
1 ATTTTTA
15298797 ATTTTT
1 ATTTTT
15298803 TTTGAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
ATTTTTA
Found at i:15298834 original size:5 final size:5
Alignment explanation
Indices: 15298824--15298857 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
15298814 ACTTTTTGCC
15298824 AAATA AAATA AAATA AAA-A ACAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA A-AATA AAATA AAAT
15298858 GAATAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 2 0.07
5 23 0.85
6 2 0.07
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:15299634 original size:2 final size:2
Alignment explanation
Indices: 15299629--15299655 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15299619 GTGTGTATAT
15299629 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
15299656 GATATGGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15301613 original size:13 final size:13
Alignment explanation
Indices: 15301581--15301620 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
15301571 AATTTTATAT
*
15301581 ATTTAATAAATAAA
1 ATTTAATAAA-ATA
*
15301595 ATTTAATAAAATC
1 ATTTAATAAAATA
15301608 ATTTAATAAAATA
1 ATTTAATAAAATA
15301621 TTCAAATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTAATAAAATA
Found at i:15301852 original size:18 final size:18
Alignment explanation
Indices: 15301805--15301855 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
15301795 CAATTAAAAA
15301805 TAATTTAATAATAAACTAAT
1 TAATTTAAT--TAAACTAAT
** *
15301825 TAATCAAATTAAATTAAT
1 TAATTTAATTAAACTAAT
15301843 TAATTTAATTAAA
1 TAATTTAATTAAA
15301856 ACCTTAAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 19 0.73
20 7 0.27
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATTTAATTAAACTAAT
Found at i:15305457 original size:2 final size:2
Alignment explanation
Indices: 15305450--15305480 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15305440 GCTATAAGTT
15305450 AC AC AC AC AC AC AC 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 A
15305481 TATATATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15309575 original size:88 final size:88
Alignment explanation
Indices: 15309426--15309594 Score: 293
Period size: 88 Copynumber: 1.9 Consensus size: 88
15309416 ACCCTATAAA
* *
15309426 ATATACTCAAAATTGATACCTCGATAATGGTCCACATATTGCATACCGATCCAAACATGAAACTA
1 ATATACTCAAAATTAATACCTCGATAATGGTCCACATATTGCATACCGATCCAAACATGAAACCA
15309491 GTTTGGTAAAAAAAAAAAAAAAG
66 GTTTGGTAAAAAAAAAAAAAAAG
* * *
15309514 ATATACTCATAATTAATCCCTTGATAATGGTCCACATATTGCATACCGATCCAAACATGAAACCA
1 ATATACTCAAAATTAATACCTCGATAATGGTCCACATATTGCATACCGATCCAAACATGAAACCA
15309579 GTTTGGTAAAAAAAAA
66 GTTTGGTAAAAAAAAA
15309595 TAGATGTTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.25
Consensus pattern (88 bp):
ATATACTCAAAATTAATACCTCGATAATGGTCCACATATTGCATACCGATCCAAACATGAAACCA
GTTTGGTAAAAAAAAAAAAAAAG
Found at i:15311218 original size:13 final size:14
Alignment explanation
Indices: 15311184--15311221 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
15311174 ATAATTGATG
15311184 ATAAATT-ATCATT
1 ATAAATTAATCATT
15311197 ATGAAATTAAT-ATT
1 AT-AAATTAATCATT
15311211 ATAAATTAATC
1 ATAAATTAATC
15311222 CAATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.45
14 10 0.45
15 2 0.09
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (14 bp):
ATAAATTAATCATT
Found at i:15311911 original size:47 final size:47
Alignment explanation
Indices: 15311842--15311940 Score: 191
Period size: 47 Copynumber: 2.1 Consensus size: 47
15311832 ACACGATTAT
15311842 CAAGTTGCTAAACCCAAGGATCCTATAGGGCAATGAAATGGGTTTGG
1 CAAGTTGCTAAACCCAAGGATCCTATAGGGCAATGAAATGGGTTTGG
15311889 CAAGTTGCTAAACCCAAGGATCCTATAGGGCAATGAAATGGGTTTGG
1 CAAGTTGCTAAACCCAAGGATCCTATAGGGCAATGAAATGGGTTTGG
15311936 -AAGTT
1 CAAGTT
15311941 TGAAGGTTGG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 5 0.10
47 47 0.90
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (47 bp):
CAAGTTGCTAAACCCAAGGATCCTATAGGGCAATGAAATGGGTTTGG
Found at i:15315316 original size:14 final size:14
Alignment explanation
Indices: 15315290--15315335 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
15315280 GAGGTATGTG
*
15315290 AAAAAATAGAGAAA
1 AAAAAAAAGAGAAA
15315304 AAAAGAAAA-AGAAA
1 AAAA-AAAAGAGAAA
15315318 AAAAAAAAGAGAAA
1 AAAAAAAAGAGAAA
15315332 AAAA
1 AAAA
15315336 CCATCTTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 4 0.14
14 22 0.76
15 3 0.10
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (14 bp):
AAAAAAAAGAGAAA
Found at i:15315318 original size:12 final size:12
Alignment explanation
Indices: 15315302--15315335 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
15315292 AAAATAGAGA
15315302 AAAAAAGAAAAAG
1 AAAAAA-AAAAAG
15315315 AAAAAAAAAAAG
1 AAAAAAAAAAAG
15315327 AGAAAAAAA
1 A-AAAAAAA
15315336 CCATCTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:15322621 original size:3 final size:3
Alignment explanation
Indices: 15322613--15322663 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
15322603 TCTAGAGATC
15322613 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15322661 TAT
1 TAT
15322664 CTACTTATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15328082 original size:19 final size:19
Alignment explanation
Indices: 15328046--15328083 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15328036 AATTCAAAAA
*
15328046 TTATTTATAATATTAATTT
1 TTATTTATAATATAAATTT
15328065 TTATTTA-AATTATAAATTT
1 TTATTTATAA-TATAAATTT
15328084 ATCAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATATAAATTT
Found at i:15328266 original size:3 final size:3
Alignment explanation
Indices: 15328260--15328286 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15328250 TAAACTTAAA
15328260 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
15328287 CACTAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15329041 original size:33 final size:32
Alignment explanation
Indices: 15328998--15329062 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
15328988 GGGGCTAAGC
15328998 CTAGGCTGCATGGTAATAACGTTAGGTTCAAA
1 CTAGGCTGCATGGTAATAACGTTAGGTTCAAA
* *
15329030 CTAGGCCTGCATGGTACTAAGGTTAGGTTCAAA
1 CTAGG-CTGCATGGTAATAACGTTAGGTTCAAA
15329063 TTACATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (32 bp):
CTAGGCTGCATGGTAATAACGTTAGGTTCAAA
Found at i:15332768 original size:2 final size:2
Alignment explanation
Indices: 15332763--15332787 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15332753 AAAAAAAAAA
15332763 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15332788 AAGCTAACGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15341918 original size:18 final size:20
Alignment explanation
Indices: 15341881--15341918 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
15341871 TTGTTTTAGT
15341881 TTCTTACTTTCTCTATATAA
1 TTCTTACTTTCTCTATATAA
*
15341901 TTCTT-CTTTTTC-ATATAA
1 TTCTTACTTTCTCTATATAA
15341919 GGCAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (20 bp):
TTCTTACTTTCTCTATATAA
Found at i:15342413 original size:13 final size:13
Alignment explanation
Indices: 15342395--15342419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15342385 TTATTTTCGA
15342395 AAAAGAAGAAAAG
1 AAAAGAAGAAAAG
15342408 AAAAGAAGAAAA
1 AAAAGAAGAAAA
15342420 TTCAAACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGAAGAAAAG
Found at i:15344295 original size:22 final size:23
Alignment explanation
Indices: 15344262--15344304 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
15344252 TTTGATATCA
15344262 CTTTCTTTTTTT-TATTTTTGCCC
1 CTTTCTTTTTTTCT-TTTTTGCCC
15344285 CTTT-TTTTTTTCTTTTTTGC
1 CTTTCTTTTTTTCTTTTTTGC
15344305 AAACTAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.74
Consensus pattern (23 bp):
CTTTCTTTTTTTCTTTTTTGCCC
Found at i:15350601 original size:18 final size:19
Alignment explanation
Indices: 15350562--15350601 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15350552 GAAAAGGATT
*
15350562 AGATTATTCTAAACAGAAA
1 AGATTATTCTAAAAAGAAA
*
15350581 AGATTATT-TAAAAAGATA
1 AGATTATTCTAAAAAGAAA
15350599 AGA
1 AGA
15350602 GTACTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (19 bp):
AGATTATTCTAAAAAGAAA
Found at i:15353376 original size:3 final size:3
Alignment explanation
Indices: 15353368--15353407 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
15353358 ATTTTGATGA
15353368 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15353408 TGGGTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15357929 original size:7 final size:7
Alignment explanation
Indices: 15357917--15357953 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
15357907 TTTTAGCAAT
15357917 TTTTTTC
1 TTTTTTC
15357924 TTTTTT-
1 TTTTTTC
*
15357930 TTTTTAC
1 TTTTTTC
15357937 TTTTTTC
1 TTTTTTC
15357944 TTTTTT-
1 TTTTTTC
15357950 TTTT
1 TTTT
15357954 AGCCTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 9 0.33
7 18 0.67
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:15358552 original size:143 final size:143
Alignment explanation
Indices: 15358289--15358694 Score: 430
Period size: 143 Copynumber: 2.8 Consensus size: 143
15358279 GATTTTAAAA
* * *
15358289 CACTAAAAATCATAAAATATTATAAAATTGAGATGC-AAAAAGTTTTATGAAAATT-TGAGCTCG
1 CACTAAAAATCATAAAATATTATAAAATTAAGAT-CTAAAAAGTTTAATG-AAATTCTAAGCTCG
* * ** * *
15358352 ATAAA-GTCAAATTACTAAGATACCCTTATAAAAATATTTTGGTAATTTCACACTTTTGAG-GTA
64 A-AAAGGTCAAATTACAAAAATACCCTTATAAGGATATTTTAGTAATTTCACAATTTTGAGTGT-
*
15358415 CTATTGTAATTTCAAATG
127 -TACTGTAATTTCAAATG
* *
15358433 CA-TCAAAAATCATTAAATATTATAAAATTAAGATCTAAAAAGTTTAATG-AATTCTTAGCTCGA
1 CACT-AAAAATCATAAAATATTATAAAATTAAGATCTAAAAAGTTTAATGAAATTCTAAGCTCGA
* * * * *
15358496 GAAGGTCAAATTACAAAAATACTCTTATAGGGATATTTTAGTAATTTCATAATTTTGAGTGTTGC
65 AAAGGTCAAATTACAAAAATACCCTTATAAGGATATTTTAGTAATTTCACAATTTTGAGTGTTAC
*
15358561 TGTGATTTCAAATG
130 TGTAATTTCAAATG
* * * * * * *
15358575 CACTAAAAATAATGAAATATTATAAAATTAAGA-CTTGAAAATTTTCATGAAAATCGAAGCTCGA
1 CACTAAAAATCATAAAATATTATAAAATTAAGATC-TAAAAAGTTTAATGAAATTCTAAGCTCGA
* * * * *
15358639 AAAGATAAAATTACGAAAATACCCTTATAAGGATATTTTCGTAATTTCACACTTTT
65 AAAGGTCAAATTACAAAAATACCCTTATAAGGATATTTTAGTAATTTCACAATTTT
15358695 TTAGTACAAA
Statistics
Matches: 220, Mismatches: 34, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
141 1 0.00
142 60 0.27
143 115 0.52
144 44 0.20
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (143 bp):
CACTAAAAATCATAAAATATTATAAAATTAAGATCTAAAAAGTTTAATGAAATTCTAAGCTCGAA
AAGGTCAAATTACAAAAATACCCTTATAAGGATATTTTAGTAATTTCACAATTTTGAGTGTTACT
GTAATTTCAAATG
Found at i:15359129 original size:9 final size:9
Alignment explanation
Indices: 15359115--15359158 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
15359105 TCCAATTTTA
15359115 TTTTTATTG
1 TTTTTATTG
15359124 TTTTTATT-
1 TTTTTATTG
15359132 TTTGTTATTG
1 TTT-TTATTG
*
15359142 TTCTTATTG
1 TTTTTATTG
*
15359151 TCTTTATT
1 TTTTTATT
15359159 TATTGAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.10
9 25 0.83
10 2 0.07
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (9 bp):
TTTTTATTG
Found at i:15359908 original size:49 final size:47
Alignment explanation
Indices: 15359822--15359915 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
15359812 TAGGCCCTGA
* * *
15359822 CCAATCCTACTGCCAAATAGACCCCACCCTTTAACAAAGAGCCCCAG
1 CCAACCCTACTGCCAAATAAACCCCACCCTTTAACAAAAAGCCCCAG
* *
15359869 CCAACCCTATTGCCAAATAAATCCACCA-CCTCTTGACAAAAAGCCCC
1 CCAACCCTACTGCCAAATAAA-CC-CCACCCT-TTAACAAAAAGCCCC
15359916 TTTGCGTACC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 18 0.46
48 5 0.13
49 16 0.41
ACGTcount: A:0.35, C:0.40, G:0.09, T:0.16
Consensus pattern (47 bp):
CCAACCCTACTGCCAAATAAACCCCACCCTTTAACAAAAAGCCCCAG
Found at i:15361131 original size:236 final size:235
Alignment explanation
Indices: 15360724--15361258 Score: 648
Period size: 235 Copynumber: 2.3 Consensus size: 235
15360714 TGATGTTTTT
* * *
15360724 TTTTTTATTTTAGATGACGTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGA-CGAATTTT
1 TTTTCTATTTTAGGTGACGTTATAATTTTGTCACTAATTTAAAATTTTATCTGTGATC-AATTTT
* ** * * *
15360788 TTCTAATAGATTTTATATGACATTATTAATTTCTATCATAAATTAAACACTTTAGTTAACTATTA
65 TTCTAATAGATTTTAGACAACATTATCAATTTCTATCACAAATGAAACACTTTAGTTAACTATTA
* * *
15360853 ATGATATTACAATCTCGTCACATTAATGTATGGTGATATATGATGATAATATAAATGTCACAAAC
130 ATGACATTACAATCTCGTCACATTAATGTATGGTCATATATGATGATAACATAAATGTCACAAAC
*
15360918 TTTTACCATCAAATTTATTTGGTA-AAAATTTTTTTTGTGATG
195 TTTTACCATCAAATTTATTTGG-AGAAAA-TTTTTTTATGATG
* *
15360960 TTTTGTATTTTAGGTTACGTT-TAAATTTTGTCACTAATTTAAAATTTTATCTGTGATCAATTTT
1 TTTTCTATTTTAGGTGACGTTAT-AATTTTGTCACTAATTTAAAATTTTATCTGTGATCAATTTT
* * * * *
15361024 TT-TAATAGATTTTAGGCAACGTTATCAATTTTTATCACAAATGGAATACTTTAGTTAACTATTA
65 TTCTAATAGATTTTAGACAACATTATCAATTTCTATCACAAATGAAACACTTTAGTTAACTATTA
* * * * * * **
15361088 ATGACATTGCAATTTTGTCACCTTTATTTTATGG-CACTATATGATGATAACATAAATGTCATTA
130 ATGACATTACAATCTCGTCA-CATTAATGTATGGTCA-TATATGATGATAACATAAATGTCACAA
*** *
15361152 ACTTTTATTGTCAATTTTATTTGGAGAAAATTTTTTTATGATG
193 ACTTTTACCATCAAATTTATTTGGAGAAAATTTTTTTATGATG
* * * * *
15361195 TTTTCTATTTTAAGTGACATTATAAGTTTGTTACTAATTTAAAATTTTATCTGTGATGAATTTT
1 TTTTCTATTTTAGGTGACGTTATAATTTTGTCACTAATTTAAAATTTTATCTGTGATCAATTTT
15361259 AATAACGTTA
Statistics
Matches: 255, Mismatches: 38, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
235 137 0.54
236 117 0.46
237 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (235 bp):
TTTTCTATTTTAGGTGACGTTATAATTTTGTCACTAATTTAAAATTTTATCTGTGATCAATTTTT
TCTAATAGATTTTAGACAACATTATCAATTTCTATCACAAATGAAACACTTTAGTTAACTATTAA
TGACATTACAATCTCGTCACATTAATGTATGGTCATATATGATGATAACATAAATGTCACAAACT
TTTACCATCAAATTTATTTGGAGAAAATTTTTTTATGATG
Found at i:15361782 original size:203 final size:203
Alignment explanation
Indices: 15361302--15362016 Score: 559
Period size: 203 Copynumber: 3.5 Consensus size: 203
15361292 TTTATCTTTC
* * * *
15361302 GTCACTAATATATCAAATTTAATCATTTATTTTGTGACAATTATAGCCTTTAATGACA-TTTTTT
1 GTCATTAATATAT-TAATTTTATCATTTATTTTGTGATAATTATAGCCTTTAATGACATTTTTTT
* * * *
15361366 CATAAATATCTAACGAAAACTAACATCACAAAAAAATAAAAGTACAATGTAACATTTAATTTTAT
65 TATAAATAGCTAACGAAAACTAACATCACAAAAAAATAAAAGCACAAGGTAACATTTAATTTTAT
* * ** * * *
15361431 TGTCACATTTGATGTTATCTTATAACCATTTGTGATAATAATTATGTTACCAATACTATGACGAT
130 TATCACATTTGATATTATCTTATAACCATTCATGACAATAATTATGTCACAAATACTATGACGAT
15361496 TTACTTTTT
195 TTACTTTTT
* * * * *
15361505 GTCATTAATATATTAATTTTATCGTTTATTTTATAATAATTATAACCTTTAATGACATTCTTCTT
1 GTCATTAATATATTAATTTTATCATTTATTTTGTGATAATTATAGCCTTTAATGACATT-TTTTT
* * * ** * * * *
15361570 TATAAATAGCTGATGAAAATTAAGGTCA-TATAAAA-AAAAGCATAAGGTAACATTTGATTTTAT
65 TATAAATAGCTAACGAAAACTAACATCACAAAAAAATAAAAGCACAAGGTAACATTTAATTTTAT
* * * * * * * *
15361633 TATCACGTTTGATATTATCTTATAATCATTCATGACGATAATTGTGTCATAAATATTGTGACGGT
130 TATCACATTTGATATTATCTTATAACCATTCATGACAATAATTATGTCACAAATACTATGACGAT
15361698 TTAGC-TTTT
195 TTA-CTTTTT
* * * *
15361707 GTCACTT-ATTTATTGGATTTTATCATTTATTTTGTGATGATTATAGCCTTTAATAACATTTTTG
1 GTCA-TTAATATATT-AATTTTATCATTTATTTTGTGATAATTATAGCCTTTAATGACATTTTT-
* * * * * * * * *
15361771 TTTATAAATAGCTACCGAAAACTAACGTTAC--AAAAATTAATGCATAAGGTGATATTTGATTTT
63 TTTATAAATAGCTAACGAAAACTAACATCACAAAAAAATAAAAGCACAAGGTAACATTTAATTTT
* * * * * * * ** * * ***
15361834 ATTGTTACAGTAGACATTATCTTACAATCATTGGTGACAATAACTT-TGTCACTATTACTGCAAC
128 ATTATCACATTTGATATTATCTTATAACCATTCATGACAATAA-TTATGTCACAAATACTATGAC
*
15361898 GATTTACTTTTC
192 GATTTACTTTTT
* * * * * * ** * *
15361910 ATCACTAATATATCATATTTTTTTC-TTTTTTTTGTGACAAAGATAGCCTTCAATGACTTTTTTT
1 GTCATTAATATAT--TAATTTTATCATTTATTTTGTGATAATTATAGCCTTTAATGAC-ATTTTT
* * *
15361974 TTTCATAAATAGTTGACGAAAACTAACGTCACAAAAAAA-AAAA
63 TTT-ATAAATAGCTAACGAAAACTAACATCACAAAAAAATAAAA
15362017 CATAGGGTGA
Statistics
Matches: 400, Mismatches: 95, Indels: 32
0.76 0.18 0.06
Matches are distributed among these distances:
202 136 0.34
203 194 0.49
204 62 0.16
205 3 0.01
206 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (203 bp):
GTCATTAATATATTAATTTTATCATTTATTTTGTGATAATTATAGCCTTTAATGACATTTTTTTT
ATAAATAGCTAACGAAAACTAACATCACAAAAAAATAAAAGCACAAGGTAACATTTAATTTTATT
ATCACATTTGATATTATCTTATAACCATTCATGACAATAATTATGTCACAAATACTATGACGATT
TACTTTTT
Found at i:15363476 original size:6 final size:6
Alignment explanation
Indices: 15363465--15363493 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15363455 TATTCTTACC
15363465 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
15363494 ATGATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:15364702 original size:20 final size:19
Alignment explanation
Indices: 15364674--15364731 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
15364664 TTTTGCATAA
15364674 ATTTACATGACTAATATTAT
1 ATTTACATGA-TAATATTAT
* *
15364694 ATTTGCATGATTAATACTAT
1 ATTTACATGA-TAATATTAT
15364714 ATTTACATGATAAT-TTAT
1 ATTTACATGATAATATTAT
15364732 TTGCTTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 26 0.79
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (19 bp):
ATTTACATGATAATATTAT
Found at i:15364799 original size:20 final size:20
Alignment explanation
Indices: 15364754--15364856 Score: 98
Period size: 20 Copynumber: 5.1 Consensus size: 20
15364744 TATTTGTATG
** *
15364754 ATTAATATATTTTTATTATTT
1 ATTAATATATTTGCATGA-TT
*
15364775 ATTAATATATTTGCATGACT
1 ATTAATATATTTGCATGATT
*
15364795 ATTAATATGTTTGCATGATT
1 ATTAATATATTTGCATGATT
* * **
15364815 ATTAATTTATCTAAATGATT
1 ATTAATATATTTGCATGATT
* *
15364835 ATTAATTTATTTGCTTGATT
1 ATTAATATATTTGCATGATT
15364855 AT
1 AT
15364857 CAATTTATTA
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
20 52 0.78
21 15 0.22
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTAATATATTTGCATGATT
Found at i:15364952 original size:53 final size:53
Alignment explanation
Indices: 15364889--15365183 Score: 412
Period size: 53 Copynumber: 5.6 Consensus size: 53
15364879 GCATGATTAT
15364889 TATTATTATATATTTAATTGCATGTTTATTTGCATAATTTATATTATTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTGCATAATTTATATTATTATTTG
* * ** *
15364942 TATTAGTATATATTTAATGGTGTGTTTATTTGCATGATTTATATTATTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTGCATAATTTATATTATTATTTG
* *
15364995 TATTATTATATATTTAATTGTATGCTTATTTGCATAATTTATATTATTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTGCATAATTTATATTATTATTTG
* *
15365048 TATTATTATATATTTAATTGTC-TGTTTATTTACATGATTTATATTATTATTTG
1 TATTATTATATATTTAATTG-CATGTTTATTTGCATAATTTATATTATTATTTG
* * * * *
15365101 CATGATTATATATTTAATTGCATGTTTATTTGCATAAGTTATATTGTTAATTG
1 TATTATTATATATTTAATTGCATGTTTATTTGCATAATTTATATTATTATTTG
* * * *
15365154 CATGATTATATATTTAATTACATGATTATT
1 TATTATTATATATTTAATTGCATGTTTATT
15365184 AATTTATTTA
Statistics
Matches: 217, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.00
53 216 1.00
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.56
Consensus pattern (53 bp):
TATTATTATATATTTAATTGCATGTTTATTTGCATAATTTATATTATTATTTG
Found at i:15365098 original size:21 final size:22
Alignment explanation
Indices: 15365073--15365114 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15365063 AATTGTCTGT
15365073 TTATTTACATGATT-TATATTA
1 TTATTTACATGATTATATATTA
*
15365094 TTATTTGCATGATTATATATT
1 TTATTTACATGATTATATATT
15365115 TAATTGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (22 bp):
TTATTTACATGATTATATATTA
Found at i:15365111 original size:20 final size:20
Alignment explanation
Indices: 15365072--15365192 Score: 66
Period size: 20 Copynumber: 6.3 Consensus size: 20
15365062 TAATTGTCTG
*
15365072 TTTATTTACATGATT-TATA
1 TTTATTTGCATGATTATATA
15365091 TTATTATTTGCATGATTATATA
1 -T-TTATTTGCATGATTATATA
*
15365113 TTTAATTGCATG--------
1 TTTATTTGCATGATTATATA
*
15365125 TTTATTTGCATAAGTTATAT-
1 TTTATTTGCATGA-TTATATA
*
15365145 TGTTAATTGCATGATTATATA
1 T-TTATTTGCATGATTATATA
* *
15365166 TTTAATTACATGATTAT-TAA
1 TTTATTTGCATGATTATAT-A
15365186 TTTATTT
1 TTTATTT
15365193 ATTTGATGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
12 10 0.12
19 1 0.01
20 40 0.50
21 25 0.31
22 4 0.05
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTATTTGCATGATTATATA
Found at i:15365151 original size:33 final size:32
Alignment explanation
Indices: 15365093--15365162 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
15365083 GATTTATATT
*
15365093 ATTATTTGCATGATTATATATTTAATTGCATG
1 ATTATTTGCATAATTATATATTTAATTGCATG
*
15365125 TTTATTTGCATAAGTTATAT-TGTTAATTGCATG
1 ATTATTTGCATAA-TTATATAT-TTAATTGCATG
15365158 ATTAT
1 ATTAT
15365163 ATATTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.36
33 21 0.64
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (32 bp):
ATTATTTGCATAATTATATATTTAATTGCATG
Found at i:15365288 original size:24 final size:23
Alignment explanation
Indices: 15365260--15365315 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
15365250 TTGCATAATT
15365260 TTATATTTATTGCATAATATGATGA
1 TTATATTTATTGCATAAT-TGAT-A
*
15365285 -TATATGTTATTGCATGATTGATA
1 TTATAT-TTATTGCATAATTGATA
15365308 TTATATTT
1 TTATATTT
15365316 GAATGATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 3 0.11
24 14 0.50
25 11 0.39
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (23 bp):
TTATATTTATTGCATAATTGATA
Found at i:15365435 original size:20 final size:18
Alignment explanation
Indices: 15365395--15365439 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
15365385 TATATTTTTG
*
15365395 TGATTATATTTGATTTCA
1 TGATTATATTTGATTTAA
*
15365413 TGATTATATATGTGCTTTAA
1 TGATTATAT-T-TGATTTAA
15365433 TGATTAT
1 TGATTAT
15365440 TAATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 1 0.04
20 13 0.57
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (18 bp):
TGATTATATTTGATTTAA
Found at i:15365487 original size:16 final size:16
Alignment explanation
Indices: 15365440--15365493 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
15365430 TAATGATTAT
15365440 TAATATATTTGCATGGTA
1 TAATATATTTGCAT-G-A
**
15365458 TTTTATATTATTGCATGA
1 TAATATA-T-TTGCATGA
15365476 TAATATATTTGCATGA
1 TAATATATTTGCATGA
15365492 TA
1 TA
15365494 TTAAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 10 0.33
17 1 0.03
18 11 0.37
19 2 0.07
20 6 0.20
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (16 bp):
TAATATATTTGCATGA
Found at i:15366772 original size:19 final size:20
Alignment explanation
Indices: 15366744--15366781 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15366734 AACAAACATA
15366744 AAAAAGAATAAAAGTTTTTT
1 AAAAAGAATAAAAGTTTTTT
*
15366764 AAAAA-AATAAAGGTTTTT
1 AAAAAGAATAAAAGTTTTT
15366782 CTTAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAAAGAATAAAAGTTTTTT
Found at i:15366780 original size:18 final size:20
Alignment explanation
Indices: 15366744--15366781 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
15366734 AACAAACATA
*
15366744 AAAAAGAATAAAAGTTTTTT
1 AAAAAGAATAAAAGGTTTTT
15366764 AAAAA-AAT-AAAGGTTTTT
1 AAAAAGAATAAAAGGTTTTT
15366782 CTTAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAAAGAATAAAAGGTTTTT
Found at i:15367026 original size:39 final size:37
Alignment explanation
Indices: 15366957--15367030 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
15366947 CATTTAAAAT
**
15366957 ATATATAATAAGATAATACATGTACCCCATCTCATGC
1 ATATATAATAAGATAATACATACACCCCATCTCATGC
**
15366994 ATATCATAAGTAAGATAATACATACATTCCATCTCAT
1 ATAT-ATAA-TAAGATAATACATACACCCCATCTCAT
15367031 CTGTTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 4 0.13
38 4 0.13
39 23 0.74
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (37 bp):
ATATATAATAAGATAATACATACACCCCATCTCATGC
Found at i:15373607 original size:86 final size:85
Alignment explanation
Indices: 15373499--15373660 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 85
15373489 CACTTACGTA
* * ** *
15373499 TGCATCATAAGAAAGATATTTGATTTGCATGTTAC-AAAAACAAAAAAGATGTTCGTATTTGTAT
1 TGCATCATAAGAAAGAAATTTGATTT-CAT-ATACTAAAAACAAAAAAGACATTCGTATTTGTAA
15373563 CACTTGCATTCACATTAACATG
64 CACTTGCATTCACATTAACATG
* * *
15373585 TGCATCATGAGAAAGAAATTTGATTTTATATACTGTAAAAATAAAAAAGACATTCGTATTTGTAA
1 TGCATCATAAGAAAGAAATTTGATTTCATATAC--TAAAAACAAAAAAGACATTCGTATTTGTAA
15373650 CACTTGCATTC
64 CACTTGCATTC
15373661 GCACTTACAT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
84 3 0.05
85 2 0.03
86 24 0.37
87 36 0.55
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (85 bp):
TGCATCATAAGAAAGAAATTTGATTTCATATACTAAAAACAAAAAAGACATTCGTATTTGTAACA
CTTGCATTCACATTAACATG
Found at i:15374147 original size:32 final size:32
Alignment explanation
Indices: 15374106--15374166 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
15374096 ATAAAATTTT
*
15374106 AGCCCAGTTTAGCTGGCACTTAGATCAAATTA
1 AGCCCAGTTTAGCTGGCACCTAGATCAAATTA
*
15374138 AGCCTAGTTTAGCTGGCACCTAGATCAAA
1 AGCCCAGTTTAGCTGGCACCTAGATCAAA
15374167 CTAAACTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (32 bp):
AGCCCAGTTTAGCTGGCACCTAGATCAAATTA
Found at i:15374186 original size:32 final size:32
Alignment explanation
Indices: 15374150--15374244 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
15374140 CCTAGTTTAG
*
15374150 CTGGCACCTAGATCAAACTAAACTCAATCAAA
1 CTGGCACCTAGATCAAACTAAACCCAATCAAA
* * *
15374182 CTGGCACCAATATCAAACTAAACCCAATCAAG
1 CTGGCACCTAGATCAAACTAAACCCAATCAAA
* * **
15374214 TTGGCA-CTCAGATCAAGCTACGCCCAATCAA
1 CTGGCACCT-AGATCAAACTAAACCCAATCAA
15374245 GCTTGCACTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 1 0.02
32 51 0.98
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.18
Consensus pattern (32 bp):
CTGGCACCTAGATCAAACTAAACCCAATCAAA
Found at i:15374211 original size:15 final size:15
Alignment explanation
Indices: 15374161--15374212 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15374151 TGGCACCTAG
*
15374161 ATCAAACTAAACTCA
1 ATCAAACTAAACCCA
** *
15374176 ATCAAACTGGCACCAA
1 ATCAAACT-AAACCCA
15374192 TATCAAACTAAACCCA
1 -ATCAAACTAAACCCA
15374208 ATCAA
1 ATCAA
15374213 GTTGGCACTC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 13 0.46
16 7 0.25
17 8 0.29
ACGTcount: A:0.50, C:0.29, G:0.04, T:0.17
Consensus pattern (15 bp):
ATCAAACTAAACCCA
Found at i:15374319 original size:32 final size:32
Alignment explanation
Indices: 15374276--15374356 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
15374266 TAAGCCTAGT
* *
15374276 GCAAATTAAACTAAGCCCATTCAAGTTGGCATC
1 GCAAATCAAACTAAGCCCAATCAAGTTGGCA-C
*
15374309 -CAAATCAAACTAAACCCAATCAAGTTGGCAC
1 GCAAATCAAACTAAGCCCAATCAAGTTGGCAC
* *
15374340 GTAGATCAAACTAAGCC
1 GCAAATCAAACTAAGCC
15374357 TAGTATAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.02
32 40 0.98
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.20
Consensus pattern (32 bp):
GCAAATCAAACTAAGCCCAATCAAGTTGGCAC
Found at i:15374672 original size:22 final size:21
Alignment explanation
Indices: 15374638--15374701 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
15374628 TCGAGATTTG
*
15374638 TAAGACCTTTAGGTATAATATC
1 TAAGA-CTCTAGGTATAATATC
* *
15374660 TAAGACTACTAGGCATAATCTC
1 TAAGACT-CTAGGTATAATATC
* * *
15374682 TCAGACTCTAGATAAAATAT
1 TAAGACTCTAGGTATAATAT
15374702 TTTAAACTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (21 bp):
TAAGACTCTAGGTATAATATC
Found at i:15378375 original size:7 final size:6
Alignment explanation
Indices: 15378353--15378407 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 6
15378343 AAGAGAAATG
15378353 AAAG-A AAA-AA AAAGAA TAAAGAA TAAAGAAA AATAGAA AGAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA -AAAGAA -AAAG-AA AA-AGAA A-AAGAA AAAGAA
15378404 AAAG
1 AAAG
15378408 GGAAAGTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
5 7 0.16
6 11 0.25
7 21 0.48
8 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:15378390 original size:22 final size:21
Alignment explanation
Indices: 15378359--15378406 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
15378349 AATGAAAGAA
15378359 AAAAAAAGAATA-AAGAATAAAG
1 AAAAAAAGAA-AGAAGAA-AAAG
*
15378381 AAAAATAGAAAGAAGAAAAAG
1 AAAAAAAGAAAGAAGAAAAAG
15378402 AAAAA
1 AAAAA
15378407 GGGAAAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (21 bp):
AAAAAAAGAAAGAAGAAAAAG
Found at i:15378412 original size:21 final size:22
Alignment explanation
Indices: 15378371--15378413 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15378361 AAAAAGAATA
*
15378371 AAGAATAAAGAAAAATAGAAAG
1 AAGAATAAAGAAAAAGAGAAAG
*
15378393 AAGAA-AAAGAAAAAGGGAAAG
1 AAGAATAAAGAAAAAGAGAAAG
15378414 TTATTTAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (22 bp):
AAGAATAAAGAAAAAGAGAAAG
Found at i:15381997 original size:15 final size:14
Alignment explanation
Indices: 15381960--15381999 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
15381950 ATCACTTAAA
15381960 TTTTTAATCTTATT
1 TTTTTAATCTTATT
*
15381974 TTTATAATCTTATT
1 TTTTTAATCTTATT
15381988 TTTTTCAATCTT
1 TTTTT-AATCTT
15382000 TAATTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTAATCTTATT
Found at i:15382035 original size:29 final size:27
Alignment explanation
Indices: 15381961--15382035 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
15381951 TCACTTAAAT
* *
15381961 TTTTAATCTTATTTTTATAATCTTATTT
1 TTTTAATCTT-TTTTTACAATCTTATTG
* *
15381989 TTTTCAATCTTTAATTTACATATTTTATTG
1 TTTT-AATCTTT-TTTTACA-ATCTTATTG
15382019 TTTTAATCTCTTTTTTA
1 TTTTAATCT-TTTTTTA
15382036 TTGTTTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.13
29 20 0.53
30 13 0.34
ACGTcount: A:0.24, C:0.09, G:0.01, T:0.65
Consensus pattern (27 bp):
TTTTAATCTTTTTTTACAATCTTATTG
Found at i:15387893 original size:11 final size:11
Alignment explanation
Indices: 15387876--15388202 Score: 65
Period size: 11 Copynumber: 29.4 Consensus size: 11
15387866 ATAAATATTA
15387876 AATATTAATTT
1 AATATTAATTT
* *
15387887 AACATT-ATTA
1 AATATTAATTT
*
15387897 AATAGTAATTT
1 AATATTAATTT
*
15387908 AATATT-ATTA
1 AATATTAATTT
15387918 AATATTAATTT
1 AATATTAATTT
*
15387929 AATA--ATTTT
1 AATATTAATTT
*
15387938 AGCTATT-ATTT
1 A-ATATTAATTT
* * *
15387949 AATAAT-GTTA
1 AATATTAATTT
15387959 AATATT-ATTGAAT
1 AATATTAATT---T
15387972 AATATTAAATATT
1 AATATT-AAT-TT
*
15387985 AATA-TAATAATA
1 AATATTAAT--TT
15387997 AATATTAATTT
1 AATATTAATTT
*
15388008 AATA-T-ATTA
1 AATATTAATTT
*
15388017 AATTTTAATTT
1 AATATTAATTT
* * *
15388028 AAAAAT-ATTG
1 AATATTAATTT
*
15388038 AATATTGATTT
1 AATATTAATTT
* * *
15388049 ATTAAT-ATTA
1 AATATTAATTT
*
15388059 AATATTGATTAAT
1 AATATTAATT--T
*
15388072 AATATTAAATACT
1 AATATT-AAT-TT
15388085 AATATGATAATATT
1 AATAT--TAAT-TT
15388099 AA-ATTTAAATTT
1 AATA-TT-AATTT
* *
15388111 AATAATAGTTT
1 AATATTAATTT
15388122 AATATT-ATGTT
1 AATATTAAT-TT
15388133 AATGA-T-ATTT
1 AAT-ATTAATTT
**
15388143 AAATATTGTTTT
1 -AATATTAATTT
* *
15388155 AATCTTATTTT
1 AATATTAATTT
* *
15388166 AATAATATTTT
1 AATATTAATTT
* *
15388177 AATATGATTTT
1 AATATTAATTT
* *
15388188 TATATTATTTT
1 AATATTAATTT
15388199 AATA
1 AATA
15388203 ATATTTTAAA
Statistics
Matches: 232, Mismatches: 53, Indels: 62
0.67 0.15 0.18
Matches are distributed among these distances:
9 11 0.05
10 50 0.22
11 108 0.47
12 17 0.07
13 32 0.14
14 10 0.04
15 3 0.01
16 1 0.00
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (11 bp):
AATATTAATTT
Found at i:15387897 original size:21 final size:21
Alignment explanation
Indices: 15387869--15388149 Score: 274
Period size: 21 Copynumber: 13.6 Consensus size: 21
15387859 TAATAAAATA
*
15387869 AATATTAAATATTAATTTAAC
1 AATATTAAATATTAATTTAAT
* *
15387890 ATTATTAAATAGTAATTTAAT
1 AATATTAAATATTAATTTAAT
*
15387911 ATTATTAAATATTAATTTAAT
1 AATATTAAATATTAATTTAAT
* **
15387932 AATTTTAGCTATT-ATTTAAT
1 AATATTAAATATTAATTTAAT
* *
15387952 AATGTTAAATATT-ATTGAAT
1 AATATTAAATATTAATTTAAT
15387972 AATATTAAATATTAA--T-AT
1 AATATTAAATATTAATTTAAT
*
15387990 AATAATAAATATTAATTTAAT
1 AATATTAAATATTAATTTAAT
* *
15388011 -ATATTAAATTTTAATTTAAA
1 AATATTAAATATTAATTTAAT
* * *
15388031 AATATTGAATATTGATTTATT
1 AATATTAAATATTAATTTAAT
*
15388052 AATATTAAATATTGA-TTAAT
1 AATATTAAATATTAATTTAAT
* * *
15388072 AATATTAAATACTAATATGAT
1 AATATTAAATATTAATTTAAT
15388093 AATATTAAAT-TTAAATTTAAT
1 AATATTAAATATT-AATTTAAT
*
15388114 AATAGTTTAATATT-ATGTTAAT
1 AATA-TTAAATATTAAT-TTAAT
*
15388136 GATATTTAAATATT
1 AATA-TTAAATATT
15388150 GTTTTAATCT
Statistics
Matches: 214, Mismatches: 36, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
18 16 0.07
20 71 0.33
21 104 0.49
22 21 0.10
23 2 0.01
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (21 bp):
AATATTAAATATTAATTTAAT
Found at i:15388027 original size:120 final size:122
Alignment explanation
Indices: 15387864--15388117 Score: 304
Period size: 120 Copynumber: 2.1 Consensus size: 122
15387854 TTAATTAATA
* * *
15387864 AAATA-AATATTAAATATTAATTTAACATTATTAAATAGTAATTTAATATTATTAAATATTAATT
1 AAATATAATAATAAATATTAATTTAACATTATTAAATAGTAATTTAAAAATATTAAATATTAATT
* ** * *
15387928 TAATAATTTTAGCTATT-ATTTAATAATGTTAAATA-TTAT-TGAATAATATTAAATATT
66 TAATAATATTAAATATTGA-TTAATAATATTAAATACTAATATG-ATAATATTAAAT-TT
* ** * *
15387985 -AATATAATAATAAATATTAATTTAATA-TATTAAATTTTAATTTAAAAATATTGAATATTGATT
1 AAATATAATAATAAATATTAATTTAACATTATTAAATAGTAATTTAAAAATATTAAATATTAATT
*
15388048 TATTAATATTAAATATTGATTAATAATATTAAATACTAATATGATAATATTAAATTT
66 TAATAATATTAAATATTGATTAATAATATTAAATACTAATATGATAATATTAAATTT
*
15388105 AAATTTAATAATA
1 AAATATAATAATA
15388118 GTTTAATATT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
120 64 0.57
121 47 0.42
122 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (122 bp):
AAATATAATAATAAATATTAATTTAACATTATTAAATAGTAATTTAAAAATATTAAATATTAATT
TAATAATATTAAATATTGATTAATAATATTAAATACTAATATGATAATATTAAATTT
Found at i:15388049 original size:100 final size:100
Alignment explanation
Indices: 15387869--15388096 Score: 282
Period size: 100 Copynumber: 2.2 Consensus size: 100
15387859 TAATAAAATA
* * *
15387869 AATATTAAATATTAATTTAACATTATTAAATAGTAATTTAATATTATTAAATATTAATTTAATAA
1 AATATTAAATATTAATAT-A-A-TAATAAATAGTAATTTAATATTATTAAATATTAATTTAAAAA
* * *
15387934 TTTTAGCTATTATTTAATAATGTTAAATATT-ATTGAAT
63 TTTGAGATATTATTTAATAATATTAAATATTGATT-AAT
* *
15387972 AATATTAAATATTAATATAATAATAAATATTAATTTAATA-TATTAAATTTTAATTTAAAAATAT
1 AATATTAAATATTAATATAATAATAAATAGTAATTTAATATTATTAAATATTAATTTAAAAAT-T
*
15388036 TGA-ATATTGATTTATTAATATTAAATATTGATTAAT
65 TGAGATATT-ATTTAATAATATTAAATATTGATTAAT
* *
15388072 AATATTAAATACTAATATGATAATA
1 AATATTAAATATTAATATAATAATA
15388097 TTAAATTTAA
Statistics
Matches: 111, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
99 24 0.22
100 65 0.59
101 4 0.04
102 1 0.01
103 17 0.15
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (100 bp):
AATATTAAATATTAATATAATAATAAATAGTAATTTAATATTATTAAATATTAATTTAAAAATTT
GAGATATTATTTAATAATATTAAATATTGATTAAT
Found at i:15388117 original size:62 final size:62
Alignment explanation
Indices: 15387869--15388147 Score: 216
Period size: 62 Copynumber: 4.5 Consensus size: 62
15387859 TAATAAAATA
* * * * *
15387869 AATATTAAATATTAATTTAACATTATTAAATAGTAATTTAATATTATTAAATATTAATTTAAT
1 AATATTAAATATTAATTTAATA-TATTAAATACTAATATAAAAATATTAAATATTAATTTAAT
* ** * * *
15387932 AATTTTAGCTATT-ATTTAATAATGTTAAATA-TTAT-TGAATAATATTAAATATTAA--T-AT
1 AATATTAAATATTAATTTAAT-ATATTAAATACTAATAT-AAAAATATTAAATATTAATTTAAT
* ** * * * *
15387990 AATAATAAATATTAATTTAATATATTAAATTTTAATTTAAAAATATTGAATATTGATTTATT
1 AATATTAAATATTAATTTAATATATTAAATACTAATATAAAAATATTAAATATTAATTTAAT
* * *
15388052 AATATTAAATATTGA-TTAATAATATTAAATACTAATATGATAATATTAAAT-TTAAATTTAAT
1 AATATTAAATATTAATTTAAT-ATATTAAATACTAATATAAAAATATTAAATATT-AATTTAAT
*
15388114 AATAGTTTAATATT-ATGTTAATGATATTTAAATA
1 AATA-TTAAATATTAAT-TTAAT-ATA-TTAAATA
15388148 TTGTTTTAAT
Statistics
Matches: 172, Mismatches: 30, Indels: 26
0.75 0.13 0.11
Matches are distributed among these distances:
58 19 0.11
59 26 0.15
60 2 0.01
61 28 0.16
62 63 0.37
63 19 0.11
64 8 0.05
65 7 0.04
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (62 bp):
AATATTAAATATTAATTTAATATATTAAATACTAATATAAAAATATTAAATATTAATTTAAT
Found at i:15388147 original size:22 final size:22
Alignment explanation
Indices: 15387907--15388211 Score: 112
Period size: 22 Copynumber: 14.5 Consensus size: 22
15387897 AATAGTAATT
*
15387907 TAATATTATTAAATATTAATTTAA
1 TAATATT-TT-AATATTATTTTAA
*
15387931 T-A-ATTTTAGCTATTA-TTTAA
1 TAATATTTTA-ATATTATTTTAA
* * *
15387951 TAAT-GTTAAATATTA-TTGAA
1 TAATATTTTAATATTATTTTAA
* * *
15387971 TAATA-TTAAATATTAATATAA
1 TAATATTTTAATATTATTTTAA
*
15387992 TAATA----AATATTAATTTAA
1 TAATATTTTAATATTATTTTAA
* * *
15388010 T-ATA-TTAAATTTTAATTTAA
1 TAATATTTTAATATTATTTTAA
* * *
15388030 AAATA-TTGAATATTGA-TTTAT
1 TAATATTTTAATATT-ATTTTAA
*
15388051 TAATA-TTAAATATTGA--TTAA
1 TAATATTTTAATATT-ATTTTAA
* * * * *
15388071 TAATA-TTAAATACTAATATGA
1 TAATATTTTAATATTATTTTAA
* *
15388092 TAATA-TTAAAT-TTAAATTTAA
1 TAATATTTTAATATT-ATTTTAA
* *
15388113 TAATAGTTTAATATTATGTTAA
1 TAATATTTTAATATTATTTTAA
* * *
15388135 TGATATTTAAATATTGTTTTAA
1 TAATATTTTAATATTATTTTAA
** *
15388157 TCTTATTTTAATAATATTTTAA
1 TAATATTTTAATATTATTTTAA
*
15388179 T-ATGATTTTTATATTATTTTAA
1 TAAT-ATTTTAATATTATTTTAA
15388201 TAATATTTTAA
1 TAATATTTTAA
15388212 AATGAAATGT
Statistics
Matches: 225, Mismatches: 39, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
17 3 0.01
18 13 0.06
19 1 0.00
20 59 0.26
21 71 0.32
22 72 0.32
23 5 0.02
24 1 0.00
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (22 bp):
TAATATTTTAATATTATTTTAA
Found at i:15388157 original size:33 final size:33
Alignment explanation
Indices: 15388119--15388216 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
15388109 TTAATAATAG
* *
15388119 TTTAATATTATGTTAATGATATTTAAATATTG-T
1 TTTAATATTATTTTAATAATATTTAAATA-TGAT
* *
15388152 TTTAATCTTATTTTAATAATATTTTAATATGAT
1 TTTAATATTATTTTAATAATATTTAAATATGAT
*
15388185 TTTTATATTATTTTAATAATATTTTAAA-ATGA
1 TTTAATATTATTTTAATAATA-TTTAAATATGA
15388217 AATGTTTAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.04
33 49 0.88
34 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (33 bp):
TTTAATATTATTTTAATAATATTTAAATATGAT
Found at i:15388207 original size:11 final size:11
Alignment explanation
Indices: 15388108--15388211 Score: 93
Period size: 11 Copynumber: 9.5 Consensus size: 11
15388098 TAAATTTAAA
*
15388108 TTTAATAATAG
1 TTTAATAATAT
*
15388119 TTTAATATTAT
1 TTTAATAATAT
* *
15388130 GTTAATGATAT
1 TTTAATAATAT
* * *
15388141 TTAAATATTGT
1 TTTAATAATAT
**
15388152 TTTAATCTTAT
1 TTTAATAATAT
15388163 TTTAATAATAT
1 TTTAATAATAT
15388174 TTTAAT-ATGAT
1 TTTAATAAT-AT
* *
15388185 TTTTATATTAT
1 TTTAATAATAT
15388196 TTTAATAATAT
1 TTTAATAATAT
15388207 TTTAA
1 TTTAA
15388212 AATGAAATGT
Statistics
Matches: 72, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
10 2 0.03
11 69 0.96
12 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:15388412 original size:19 final size:19
Alignment explanation
Indices: 15388385--15388430 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
15388375 ATTATTTGGA
15388385 TAATATTTTAATAACATTT
1 TAATATTTTAATAACATTT
* * *
15388404 TATTATTTTAATTATATTT
1 TAATATTTTAATAACATTT
15388423 TAATATTT
1 TAATATTT
15388431 CATATTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TAATATTTTAATAACATTT
Found at i:15388473 original size:11 final size:10
Alignment explanation
Indices: 15388426--15388513 Score: 56
Period size: 11 Copynumber: 8.7 Consensus size: 10
15388416 TATATTTTAA
*
15388426 TATTTCATAT
1 TATTTAATAT
*
15388436 TTTTTAATAT
1 TATTTAATAT
*
15388446 TACTTGAATAT
1 TA-TTTAATAT
15388457 TA---AATAT
1 TATTTAATAT
15388464 TGATTTAATAT
1 T-ATTTAATAT
* *
15388475 TATTTTCATGT
1 TA-TTTAATAT
* *
15388486 TATTTGATAA
1 TATTTAATAT
15388496 TATTTCAATAT
1 TATTT-AATAT
15388507 TATTTAA
1 TATTTAA
15388514 ATTTTAAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
7 6 0.10
8 1 0.02
10 22 0.37
11 31 0.52
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (10 bp):
TATTTAATAT
Found at i:15388490 original size:21 final size:21
Alignment explanation
Indices: 15388459--15388513 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
15388449 TTGAATATTA
*
15388459 AATATTGATTTAATATTATTTTC
1 AATATT-ATTTAATAATA-TTTC
* *
15388482 -ATGTTATTTGATAATATTTC
1 AATATTATTTAATAATATTTC
15388502 AATATTATTTAA
1 AATATTATTTAA
15388514 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (21 bp):
AATATTATTTAATAATATTTC
Found at i:15388729 original size:29 final size:29
Alignment explanation
Indices: 15388697--15388774 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 29
15388687 GTAATGTTAT
15388697 TTTTATTATTAAATATTAATTGA-AA-AATA
1 TTTTA-TATTAAATATTAATT-ATAATAATA
* *
15388726 TTTTAATATTTAATAAT-ATTATAATAATA
1 TTTT-ATATTAAATATTAATTATAATAATA
15388755 TTAATTATATTAAATATTAA
1 TT--TTATATTAAATATTAA
15388775 ATATTAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
27 1 0.03
28 5 0.13
29 19 0.49
30 11 0.28
31 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (29 bp):
TTTTATATTAAATATTAATTATAATAATA
Found at i:15388745 original size:18 final size:18
Alignment explanation
Indices: 15388722--15388788 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
15388712 TTAATTGAAA
15388722 AATATTTTAATATTTAAT
1 AATATTTTAATATTTAAT
*
15388740 AATATTATAATAATATTAAT
1 AATATTTTAAT-AT-TTAAT
* * *
15388760 TATA-TTAAATATTAAAT
1 AATATTTTAATATTTAAT
* *
15388777 ATTAATTTAATA
1 AATATTTTAATA
15388789 CTACTAATCG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 6 0.16
18 18 0.47
19 6 0.16
20 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTTAATATTTAAT
Found at i:15388752 original size:11 final size:11
Alignment explanation
Indices: 15388729--15388757 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15388719 AAAAATATTT
15388729 TAATATT-TAA
1 TAATATTATAA
15388739 TAATATTATAA
1 TAATATTATAA
15388750 TAATATTA
1 TAATATTA
15388758 ATTATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATATTATAA
Found at i:15388768 original size:59 final size:60
Alignment explanation
Indices: 15388601--15388774 Score: 167
Period size: 59 Copynumber: 2.9 Consensus size: 60
15388591 TTAATACTTT
* * * * * * *
15388601 AATATTTTATATGATTTTTATAAGATTTTAATAATATT-TTCTTATTAAATATTAATATTAT
1 AATATTTTA-ATCA-TTTAATAATATTATAATAATATTATTATTATTAAATATTAATATAAA
* * * ** *
15388662 AATATTTTATTCTTTTAATAATATTGTAATGTTATTTTTATTATTAAATATTAAT-TGAAA
1 AATATTTTAATCATTTAATAATATTATAATAATATTATTATTATTAAATATTAATAT-AAA
15388722 AATATTTTAAT-ATTTAATAATATTATAATAATATTAATTA-TATTAAATATTAA
1 AATATTTTAATCATTTAATAATATTATAATAATATT-ATTATTATTAAATATTAA
15388775 ATATTAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
59 52 0.56
60 32 0.34
61 9 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (60 bp):
AATATTTTAATCATTTAATAATATTATAATAATATTATTATTATTAAATATTAATATAAA
Found at i:15389509 original size:2 final size:2
Alignment explanation
Indices: 15389502--15389532 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15389492 TGATCTTCCT
15389502 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15389533 GTTGGCTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15391422 original size:27 final size:27
Alignment explanation
Indices: 15391384--15391436 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
15391374 TTTTGTGGAT
* *
15391384 TTATTAAAATTAAGGGTTAGAAAAATG
1 TTATTAAAATTAAAGATTAGAAAAATG
15391411 TTATTAAAATTAAAGATTAGAAAAAT
1 TTATTAAAATTAAAGATTAGAAAAAT
15391437 ATATAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (27 bp):
TTATTAAAATTAAAGATTAGAAAAATG
Found at i:15392064 original size:19 final size:17
Alignment explanation
Indices: 15392037--15392076 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15392027 AAAATCAAAA
*
15392037 TTCTTTTATATTATTTTT
1 TTCTCTTAT-TTATTTTT
15392055 CTTCTCTTATTTATTTTT
1 -TTCTCTTATTTATTTTT
15392073 TTCT
1 TTCT
15392077 AATAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTCTTATTTATTTTT
Found at i:15396681 original size:2 final size:2
Alignment explanation
Indices: 15396674--15396709 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
15396664 ATCCCTATTC
*
15396674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15396710 CCCACTTGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15396752 original size:31 final size:31
Alignment explanation
Indices: 15396714--15396775 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
15396704 AGATATCCCA
*
15396714 CTTGCGAGTTGGGTTGGGAGGTTTGACATTT
1 CTTGCGAGTTGGGTTAGGAGGTTTGACATTT
15396745 CTTGCGAGTTGGGTTAGGAGGTTTGACATTT
1 CTTGCGAGTTGGGTTAGGAGGTTTGACATTT
15396776 GTATCTCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.15, C:0.10, G:0.37, T:0.39
Consensus pattern (31 bp):
CTTGCGAGTTGGGTTAGGAGGTTTGACATTT
Found at i:15397086 original size:14 final size:14
Alignment explanation
Indices: 15397067--15397095 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15397057 TGCTGGCCCT
15397067 AAAAAATTATAAAA
1 AAAAAATTATAAAA
15397081 AAAAAATTATAAAA
1 AAAAAATTATAAAA
15397095 A
1 A
15397096 GTCTAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATTATAAAA
Found at i:15399313 original size:12 final size:12
Alignment explanation
Indices: 15399282--15399324 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
15399272 CGTGAAATTT
15399282 TTTAATATAAATAA
1 TTTAAT-TAAA-AA
*
15399296 TTTAATTAAAAC
1 TTTAATTAAAAA
*
15399308 TTTAATAAAAAA
1 TTTAATTAAAAA
15399320 TTTAA
1 TTTAA
15399325 ATTGATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 4 0.15
14 6 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTAATTAAAAA
Found at i:15401911 original size:3 final size:3
Alignment explanation
Indices: 15401905--15401937 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15401895 CCACAACCAC
15401905 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
15401938 TCCTTCTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:15403777 original size:228 final size:228
Alignment explanation
Indices: 15403416--15403836 Score: 587
Period size: 228 Copynumber: 1.8 Consensus size: 228
15403406 TAAATTGTAT
* * **
15403416 ATATCTAAATTATTAGAAAATTAATTTTGGATAACTAATAATTTTTGAATACTTTTACTTATTTG
1 ATATATAAATTATTAGAAAATTAATTTTGAATAACTAATAATTTTAAAATACTTTTACTTATTTG
* * *
15403481 ATAAATACCATAAAATTACTAGTAAATAAATTTTAGAAGATAAAAAGATATATATTTAAACTATA
66 ATAAATACCATAAAATTACTAGAAAATAAATTTTAGAAGATAAAAAGACATATAGTTAAACTATA
* * * * * *
15403546 TATAAATTATTAGAAAATTAATTTTGGATAATTTATAATTTTTAAATATTTTTATTTATTTGATT
131 TATAAATTATTAAAAAATTAATTTTGAATAACTAATAATTTTTAAATATGTTTATTTAGTTGATT
15403611 AATTTTAAAAGATAAAAGGCGTATATTTAAATA
196 AATTTTAAAAGATAAAAGGCGTATATTTAAATA
* * ** *
15403644 ATATATAAATTATTAGAAAATTAATTTTGAATAACTAATCATTTTAAAAT-GTTTTGTTTATTTT
1 ATATATAAATTATTAGAAAATTAATTTTGAATAACTAATAATTTTAAAATACTTTTACTTATTTG
* * * * *
15403708 ATAAATATCATAAAATTATTAGAAAATTAATTTTATACGATAAAAAGACATAT-GTTAGATTA-T
66 ATAAATACCATAAAATTACTAGAAAATAAATTTTAGAAGATAAAAAGACATATAGTTA-A--ACT
15403771 ATATATAAATTATTAAAAAATTAATTTTGAATAACTAATAATTTTTAAATATGTTTATTTAGTTG
128 ATATATAAATTATTAAAAAATTAATTTTGAATAACTAATAATTTTTAAATATGTTTATTTAGTTG
15403836 A
193 A
15403837 CAAATACTAT
Statistics
Matches: 167, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
226 3 0.02
227 57 0.34
228 106 0.63
229 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (228 bp):
ATATATAAATTATTAGAAAATTAATTTTGAATAACTAATAATTTTAAAATACTTTTACTTATTTG
ATAAATACCATAAAATTACTAGAAAATAAATTTTAGAAGATAAAAAGACATATAGTTAAACTATA
TATAAATTATTAAAAAATTAATTTTGAATAACTAATAATTTTTAAATATGTTTATTTAGTTGATT
AATTTTAAAAGATAAAAGGCGTATATTTAAATA
Found at i:15404494 original size:17 final size:19
Alignment explanation
Indices: 15404453--15404495 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
15404443 GCAATTATGC
15404453 AATCATGCAAATATCATAA
1 AATCATGCAAATATCATAA
*
15404472 ATATCATGCCAATAT-A-AA
1 A-ATCATGCAAATATCATAA
15404490 AATCAT
1 AATCAT
15404496 ATAAAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 3 0.14
19 2 0.09
20 12 0.55
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (19 bp):
AATCATGCAAATATCATAA
Found at i:15404529 original size:25 final size:24
Alignment explanation
Indices: 15404487--15404555 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
15404477 ATGCCAATAT
* *
15404487 AAAA-ATCATATAAAAAATCA-AG
1 AAAACATCATACAATAAATCATAG
15404509 CAAAGACATCATACAATAAAT-ATAG
1 -AAA-ACATCATACAATAAATCATAG
* *
15404534 AAAACATAATGCAATAAATCAT
1 AAAACATCATACAATAAATCAT
15404556 GCCAAAATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.45
24 7 0.18
25 14 0.37
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAACATCATACAATAAATCATAG
Found at i:15404660 original size:18 final size:18
Alignment explanation
Indices: 15404639--15404707 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
15404629 ACATATTAAT
15404639 AATCATGCAAATATATTA
1 AATCATGCAAATATATTA
* * *
15404657 AATCTTGCAAACA-AATA
1 AATCATGCAAATATATTA
15404674 AATAACCATG-AAATAATATTA
1 AAT---CATGCAAAT-ATATTA
15404695 AATCATGCAAATA
1 AATCATGCAAATA
15404708 AAAAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
17 6 0.15
18 16 0.41
19 7 0.18
20 4 0.10
21 6 0.15
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.28
Consensus pattern (18 bp):
AATCATGCAAATATATTA
Found at i:15404835 original size:8 final size:8
Alignment explanation
Indices: 15404806--15404888 Score: 107
Period size: 8 Copynumber: 10.4 Consensus size: 8
15404796 AAATATTAAT
15404806 AAAAAATA
1 AAAAAATA
15404814 GAACAAAATA
1 -AA-AAAATA
*
15404824 AAAAACT-
1 AAAAAATA
15404831 -AAAAATA
1 AAAAAATA
15404838 AAAAAATA
1 AAAAAATA
*
15404846 AAAAATTA
1 AAAAAATA
15404854 AAAAAATA
1 AAAAAATA
15404862 AAAAAATA
1 AAAAAATA
*
15404870 GAAAAATA
1 AAAAAATA
15404878 AAAAAATA
1 AAAAAATA
15404886 AAA
1 AAA
15404889 TAACATCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
6 5 0.08
8 50 0.77
9 4 0.06
10 6 0.09
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Done.