Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 317 of 318
Found at i:98503743 original size:26 final size:26
Alignment explanation
Indices: 98503707--98503760 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
98503697 AACTTCAAAG
98503707 TTTATCAAATTACAAATCAATCCCTT
1 TTTATCAAATTACAAATCAATCCCTT
*
98503733 TTTATCAAATTACAAATCAGTCCCTT
1 TTTATCAAATTACAAATCAATCCCTT
98503759 TT
1 TT
98503761 AATTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (26 bp):
TTTATCAAATTACAAATCAATCCCTT
Found at i:98503768 original size:5 final size:5
Alignment explanation
Indices: 98503758--98503785 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
98503748 ATCAGTCCCT
98503758 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
98503786 GGCAGTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:98516313 original size:2 final size:2
Alignment explanation
Indices: 98516306--98516334 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
98516296 TATTTTTCAC
98516306 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98516335 AATGATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98524740 original size:24 final size:24
Alignment explanation
Indices: 98524707--98524758 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
98524697 TTTATTATTA
*
98524707 TTTTCATTTTC-CTCTGTTTTTTC
1 TTTTCATTTTCTCTCTGTTTTCTC
98524730 TTTTCTATTTTCTTCTCTGTTTTCTC
1 TTTTC-ATTTTC-TCTCTGTTTTCTC
98524756 TTT
1 TTT
98524759 ATTGGCCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 5 0.20
24 6 0.24
26 14 0.56
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTTCATTTTCTCTCTGTTTTCTC
Found at i:98528789 original size:25 final size:24
Alignment explanation
Indices: 98528744--98528790 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
98528734 ATTTTTTCTC
* *
98528744 TTTGTTGATTGATTTTTATTTAAA
1 TTTGTTGATCGAGTTTTATTTAAA
98528768 TTTGTTGTATCGAGTTTTATTTA
1 TTTGTTG-ATCGAGTTTTATTTA
98528791 GGGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.62
Consensus pattern (24 bp):
TTTGTTGATCGAGTTTTATTTAAA
Found at i:98530868 original size:18 final size:19
Alignment explanation
Indices: 98530835--98530870 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
98530825 GTGATCTGTA
98530835 TATTTATACAATAAGATAT
1 TATTTATACAATAAGATAT
*
98530854 TATTTAT-CGATAAGATA
1 TATTTATACAATAAGATA
98530871 GATTAGGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (19 bp):
TATTTATACAATAAGATAT
Found at i:98536011 original size:19 final size:20
Alignment explanation
Indices: 98535987--98536024 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
98535977 AAGGTCAAAT
98535987 AAAACTAAG-AATAAAGCAA
1 AAAACTAAGCAATAAAGCAA
*
98536006 AAAACTACGCAATAAAGCA
1 AAAACTAAGCAATAAAGCA
98536025 TTGACCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.63, C:0.16, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAACTAAGCAATAAAGCAA
Found at i:98536088 original size:95 final size:95
Alignment explanation
Indices: 98535925--98536115 Score: 319
Period size: 95 Copynumber: 2.0 Consensus size: 95
98535915 TAGAACCAGT
98535925 AAGCATTGACCACTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
1 AAGCATTGACCACTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
*
98535990 ACTAAGAATAAAGCAAAAAACTACGCAATA
66 ACTAAGAATAAAGCAAAAAACTACACAATA
* ** *
98536020 AAGCATTGACCATTAACACTTATCAGCTCTGTTTTAAGACTTTTAAGAGCCGAAGGTCAAATAAA
1 AAGCATTGACCACTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
* *
98536085 ACTAAGACTAGAGCAAAAAACTACACAATA
66 ACTAAGAATAAAGCAAAAAACTACACAATA
98536115 A
1 A
98536116 CAACTATATT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (95 bp):
AAGCATTGACCACTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
ACTAAGAATAAAGCAAAAAACTACACAATA
Found at i:98547457 original size:16 final size:15
Alignment explanation
Indices: 98547417--98547458 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
98547407 GCTTGAGTGT
98547417 CAAATCTG-AATGAC
1 CAAATCTGAAATGAC
* *
98547431 AAAACCTGAAATGACC
1 CAAATCTGAAATGA-C
98547447 CAAATCTGAAAT
1 CAAATCTGAAAT
98547459 TATCCGACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (15 bp):
CAAATCTGAAATGAC
Found at i:98552570 original size:144 final size:147
Alignment explanation
Indices: 98552346--98552625 Score: 444
Period size: 144 Copynumber: 1.9 Consensus size: 147
98552336 AATATTAAAA
98552346 TTTGAAAAGTAAAGGGACTAATAGCTAAAATTAACCAAACATTTAAAGAACAAAAAATACAGTGT
1 TTTGAAAAGTAAAGGGACTAATAGCTAAAATTAACCAAACATTTAAAGAACAAAAAATACAGTGT
*
98552411 GGCTGCTGGGATTCGAGCCCAGGTCTCCATGGCCACAACGTGGAATTCTTACCACTAAACTACAG
66 GGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTACAG
98552476 CCACAACTTGTTAAAGT
131 CCACAACTTGTTAAAGT
* * * * **
98552493 TTTGAAAAGTAAA-GGAGTAATATCT-GAATTAACCAGAACATATTAAA-TA-AAAAAATA-TTT
1 TTTGAAAAGTAAAGGGACTAATAGCTAAAATTAACCA-AACAT-TTAAAGAACAAAAAATACAGT
98552553 GTGGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTAC
64 GTGGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTAC
98552618 AGCCACAA
129 AGCCACAA
98552626 GTTGACAAGC
Statistics
Matches: 124, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
144 73 0.59
145 17 0.14
146 16 0.13
147 18 0.15
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (147 bp):
TTTGAAAAGTAAAGGGACTAATAGCTAAAATTAACCAAACATTTAAAGAACAAAAAATACAGTGT
GGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTACAG
CCACAACTTGTTAAAGT
Found at i:98553904 original size:30 final size:30
Alignment explanation
Indices: 98553868--98553927 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
98553858 TTAGTTTATG
98553868 AGTCTCCATGGTACTTTTACCTCATTTCAT
1 AGTCTCCATGGTACTTTTACCTCATTTCAT
98553898 AGTCTCCATGGTACTTTTACCTCATTTCAT
1 AGTCTCCATGGTACTTTTACCTCATTTCAT
98553928 CCAAATCTAG
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:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (30 bp):
AGTCTCCATGGTACTTTTACCTCATTTCAT
Found at i:98559305 original size:35 final size:35
Alignment explanation
Indices: 98559256--98559331 Score: 143
Period size: 35 Copynumber: 2.1 Consensus size: 35
98559246 ACCAAAAATA
98559256 AATGAAGTCATATAAATTGATTTTAAAAATAAATTT
1 AATG-AGTCATATAAATTGATTTTAAAAATAAATTT
98559292 AATGAGTCATATAAATTGATTTTAAAAATAAATTT
1 AATGAGTCATATAAATTGATTTTAAAAATAAATTT
98559327 AATGA
1 AATGA
98559332 TAGGCCAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (35 bp):
AATGAGTCATATAAATTGATTTTAAAAATAAATTT
Found at i:98564794 original size:110 final size:111
Alignment explanation
Indices: 98564661--98564881 Score: 320
Period size: 114 Copynumber: 2.0 Consensus size: 111
98564651 TTTCTGGCCT
* * *
98564661 TTTGTTTTGGTATGAAATCTAGCATTT-G-AGGGTTTAAGTTGTTACTTTTATGTTGTTTCTCGA
1 TTTGTTTTGGTATGAAATCTAGCATTTGGTAGGGTTTAAGGTATTACTTTTATGCTGTTTCTCGA
* *
98564724 AAGAATTTCGGGTCATTCGAGATTGTTTAGTGTGTGTTTATGTGCC
66 AAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTGCC
* *
98564770 TTTGTTTTGGTTTTGAAATGTAGCATTTGGATTAGGGTTTAAGGTATTACTTTTATGCTGTTTCT
1 TTTGTTTTGG-TATGAAATCTAGCATTTGG--TAGGGTTTAAGGTATTACTTTTATGCTGTTTCT
* *
98564835 CGAAAGAATTTCAGGTCATTCGAGTTTGTTTAGGGTGTGTTTTTGTG
63 CGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTG
98564882 TTACAAAGTT
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
109 10 0.10
110 15 0.15
111 1 0.01
114 72 0.73
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (111 bp):
TTTGTTTTGGTATGAAATCTAGCATTTGGTAGGGTTTAAGGTATTACTTTTATGCTGTTTCTCGA
AAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTGCC
Found at i:98565076 original size:155 final size:154
Alignment explanation
Indices: 98564767--98565107 Score: 465
Period size: 155 Copynumber: 2.2 Consensus size: 154
98564757 GTGTTTATGT
** * *
98564767 GCCTTTGTTTTGGTTTTGAAATGTAGCATTTGGATTAGGGTTTAAGGTATTACTTTTATGCTGTT
1 GCCTTTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTATTACTTTTATGCTCTT
* * **
98564832 TCTCGAAAGAATTTCAGGTCATTCGAGTTTGTTTAGGGTGTGTTTTTGTGTTACAAAGTTCAAGT
66 TCTCGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGCATTACAAAGTTCAAGT
*
98564897 ATACTTAATTATGTTCATTTTCTG
131 ATACTTAATTATGTTCATTATCTG
* *
98564921 GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGTTGTTACTTTTACT-CTC
1 GCCTT-TGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTATTACTTTTA-TGCTC
* * *
98564985 TTTTTCGAAAGAATTTCAGGGTCATTTGAGATTGTTTAGTGTGTGTTTATGCATTACAAAGTTCA
64 TTTCTCGAAAGAATTTCA-GGTCATTCGAGATTGTTTAGGGTGTGTTTATGCATTACAAAGTTCA
98565050 AGTATACTTAATTATAG-TCA-TATCTG
128 AGTATACTTAATTAT-GTTCATTATCTG
*
98565076 GCCTTTTTATTTTGGTACTGAAATGT-GCATTT
1 GCC--TTTGTTTTGGTACTGAAATGTAGCATTT
98565108 TGCTCTCTGA
Statistics
Matches: 166, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
154 5 0.03
155 81 0.49
156 77 0.46
157 3 0.02
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.46
Consensus pattern (154 bp):
GCCTTTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTATTACTTTTATGCTCTT
TCTCGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGCATTACAAAGTTCAAGT
ATACTTAATTATGTTCATTATCTG
Found at i:98567475 original size:22 final size:22
Alignment explanation
Indices: 98567445--98567494 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
98567435 CATGCTGGTT
*
98567445 CTTTCTTTTCTC-TTGTTGATAG
1 CTTTTTTTTCTCATTGTTG-TAG
*
98567467 CTTTTTTTTTTCATTTGTTGTAG
1 CTTTTTTTTCTCA-TTGTTGTAG
98567490 CTTTT
1 CTTTT
98567495 GAAATATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 8 0.33
24 6 0.25
ACGTcount: A:0.08, C:0.14, G:0.12, T:0.66
Consensus pattern (22 bp):
CTTTTTTTTCTCATTGTTGTAG
Found at i:98568400 original size:20 final size:20
Alignment explanation
Indices: 98568375--98568413 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
98568365 TAACAGCATT
*
98568375 TCACTCTTTAATAGAAACTG
1 TCACTCTCTAATAGAAACTG
98568395 TCACTCTCTAATAGAAACT
1 TCACTCTCTAATAGAAACT
98568414 TGAAACTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (20 bp):
TCACTCTCTAATAGAAACTG
Found at i:98569130 original size:40 final size:40
Alignment explanation
Indices: 98569086--98569166 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
98569076 AAAAAACTGA
*
98569086 AAAAAAAGTTAAATTATATAATGTGTAAATGTTGAAGGTT
1 AAAAAAAGTTAAATTACATAATGTGTAAATGTTGAAGGTT
98569126 AAAAAAAGTTAAATTACATAATGTGTAAATGTTGAAGGTT
1 AAAAAAAGTTAAATTACATAATGTGTAAATGTTGAAGGTT
98569166 A
1 A
98569167 TGTTATAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.48, C:0.01, G:0.17, T:0.33
Consensus pattern (40 bp):
AAAAAAAGTTAAATTACATAATGTGTAAATGTTGAAGGTT
Found at i:98576808 original size:16 final size:18
Alignment explanation
Indices: 98576787--98576819 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
98576777 ATAGGTTTTC
98576787 AATTT-ATTTT-TTTTAA
1 AATTTAATTTTCTTTTAA
98576803 AATTTAATTTTCTTTTA
1 AATTTAATTTTCTTTTA
98576820 CGCCCATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTTAATTTTCTTTTAA
Found at i:98579025 original size:13 final size:14
Alignment explanation
Indices: 98578997--98579025 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98578987 AGTTATTGAG
98578997 ATAAGTTTTGATAT
1 ATAAGTTTTGATAT
98579011 ATAAGTTTT-ATAT
1 ATAAGTTTTGATAT
98579024 AT
1 AT
98579026 TGTTATTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
ATAAGTTTTGATAT
Found at i:98580601 original size:46 final size:46
Alignment explanation
Indices: 98580551--98580647 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
98580541 AATTGTGTTT
*
98580551 AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAATTCATCAACA
1 AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAACTCATCAACA
*
98580597 AATTTTAAACATAAAATTTCTTTTTGAGTAGCTTAACTCATCAACA
1 AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAACTCATCAACA
98580643 AATTT
1 AATTT
98580648 AATTGTAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.41
Consensus pattern (46 bp):
AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAACTCATCAACA
Found at i:98583315 original size:39 final size:39
Alignment explanation
Indices: 98583178--98583301 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
98583168 GCTCTGATGA
*
98583178 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
98583217 GCTTTAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
* *
98583256 GCTTCAGTTAGCCTCCGGGCTGCCGTTTAGCACTTATAT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
98583295 GCTTCAG
1 GCTTCAG
98583302 CTAGATTTCG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:98584161 original size:62 final size:63
Alignment explanation
Indices: 98584040--98584165 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 63
98584030 TTAGTAAACT
* * * *
98584040 AATATAAAGTAGTATCTAAATATTAATTTGATAAAAAAAAGTGTTTAATAATTGCAATATCTA
1 AATATAAAGTAGTATCTAAATATTAATTTGATAAAAAAAAGAGTTAAAAAATTACAATATCTA
* * *
98584103 AATATAAA-TGGTATCTAAATATT-ATTTAGGTAAAAAATAA-AGTTAAAAAATTATAATATCTA
1 AATATAAAGTAGTATCTAAATATTAATTT-GATAAAAAA-AAGAGTTAAAAAATTACAATATCTA
98584165 A
1 A
98584166 TACAAATTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
61 4 0.07
62 40 0.74
63 10 0.19
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.36
Consensus pattern (63 bp):
AATATAAAGTAGTATCTAAATATTAATTTGATAAAAAAAAGAGTTAAAAAATTACAATATCTA
Found at i:98584249 original size:14 final size:14
Alignment explanation
Indices: 98584230--98584256 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98584220 TATCCATAAT
98584230 TTAAAAATACCTTG
1 TTAAAAATACCTTG
98584244 TTAAAAATACCTT
1 TTAAAAATACCTT
98584257 ACGACGTACC
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:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (14 bp):
TTAAAAATACCTTG
Found at i:98586374 original size:31 final size:31
Alignment explanation
Indices: 98586306--98586374 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
98586296 TAGTTTTTAA
98586306 CAAGTCCCTTTACTCTTCACCAATTCAAAATT
1 CAAGTCCCTTTACTCTTCA-CAATTCAAAATT
* * *
98586338 -TAGTCCCTTTACTTTTCA-AATTTTAAAATT
1 CAAGTCCCTTTACTCTTCACAA-TTCAAAATT
98586368 CAAGTCC
1 CAAGTCC
98586375 AATTGTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
29 2 0.06
30 8 0.26
31 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.39
Consensus pattern (31 bp):
CAAGTCCCTTTACTCTTCACAATTCAAAATT
Found at i:98588029 original size:13 final size:13
Alignment explanation
Indices: 98588011--98588035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98588001 TAATGTTGTA
98588011 AATATTAGATTAT
1 AATATTAGATTAT
98588024 AATATTAGATTA
1 AATATTAGATTA
98588036 AATGCTTCCA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
AATATTAGATTAT
Found at i:98588225 original size:5 final size:5
Alignment explanation
Indices: 98588215--98588253 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
98588205 TTGACTTGTA
98588215 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT -TTTT -TTTT C
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT C
98588254 ACAATTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
CTTTT
Found at i:98589305 original size:28 final size:25
Alignment explanation
Indices: 98589262--98589316 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 25
98589252 CATAAAACAT
*
98589262 TTATTTTATATCATAAAAATTAAAA
1 TTATTTTATATCATAAAAAATAAAA
98589287 TTATTTATATATTCAATAAAAAATAAAA
1 TTATTT-TATA-TC-ATAAAAAATAAAA
98589315 TT
1 TT
98589317 TAATTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.23
26 4 0.15
27 2 0.08
28 14 0.54
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TTATTTTATATCATAAAAAATAAAA
Found at i:98591167 original size:22 final size:22
Alignment explanation
Indices: 98591081--98591182 Score: 82
Period size: 22 Copynumber: 4.6 Consensus size: 22
98591071 AGAGTCTTAC
*
98591081 CAGAGTACGCCAC-CAGAGCTAGA
1 CAGAATACGCCACACAG-GCTA-A
* * *
98591104 CATATTACGCCACAAAGGCT-A
1 CAGAATACGCCACACAGGCTAA
*** * *
98591125 CAGAATACATTATACAAGCTAA
1 CAGAATACGCCACACAGGCTAA
98591147 CAGAATACGCCACACAGGCTAA
1 CAGAATACGCCACACAGGCTAA
*
98591169 AAGAATACGCCACA
1 CAGAATACGCCACA
98591183 AGAGCTAGAT
Statistics
Matches: 60, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
21 13 0.22
22 31 0.52
23 14 0.23
24 2 0.03
ACGTcount: A:0.42, C:0.27, G:0.17, T:0.14
Consensus pattern (22 bp):
CAGAATACGCCACACAGGCTAA
Found at i:98591189 original size:22 final size:23
Alignment explanation
Indices: 98591141--98591189 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
98591131 ACATTATACA
*
98591141 AGCTAACAGAATACGCCACACAG
1 AGCTAAAAGAATACGCCACACAG
98591164 -GCTAAAAGAATACGCCACA-AG
1 AGCTAAAAGAATACGCCACACAG
98591185 AGCTA
1 AGCTA
98591190 GATCAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.10
Consensus pattern (23 bp):
AGCTAAAAGAATACGCCACACAG
Found at i:98592363 original size:46 final size:46
Alignment explanation
Indices: 98592228--98592363 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
98592218 TTTGACATGA
* * * * *
98592228 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
**
98592274 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
98592320 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAC
98592364 TTTCAACCAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 4 0.05
46 75 0.95
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:98592372 original size:32 final size:32
Alignment explanation
Indices: 98592331--98592394 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
98592321 GCCATGGTAT
98592331 CTTTCAACCATGGTCTTACACATTTCATATCA
1 CTTTCAACCATGGTCTTACACATTTCATATCA
98592363 CTTTCAACCATGGTCTTACACATTTCATATCA
1 CTTTCAACCATGGTCTTACACATTTCATATCA
98592395 GGTTGCCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (32 bp):
CTTTCAACCATGGTCTTACACATTTCATATCA
Found at i:98592414 original size:78 final size:78
Alignment explanation
Indices: 98592285--98592440 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
98592275 GCCATGGTAT
***
98592285 CTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
98592350 ACATTTCATATCA
66 ACATTTCATATCA
*
98592363 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
98592428 ACATTTCATATCA
66 ACATTTCATATCA
98592441 GACTGCCATG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (78 bp):
CTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
ACATTTCATATCA
Found at i:98592415 original size:46 final size:46
Alignment explanation
Indices: 98592363--98592578 Score: 389
Period size: 46 Copynumber: 4.7 Consensus size: 46
98592353 TTTCATATCA
*
98592363 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTAT
*
98592409 CTTTCAACCATGGTCTTACACATTTCATATCAGACTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTAT
*
98592455 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTAT
98592501 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTAT
*
98592547 CTTTTAA-CATGGTCTTACACATTTCATATCAG
1 CTTTCAACCATGGTCTTACACATTTCATATCAG
98592579 AGAGCACACT
Statistics
Matches: 164, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
45 25 0.15
46 139 0.85
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTAT
Found at i:98592459 original size:124 final size:130
Alignment explanation
Indices: 98592238--98592579 Score: 441
Period size: 124 Copynumber: 2.6 Consensus size: 130
98592228 TGCCATAGTG
* * * *
98592238 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
*** *
98592302 GTTCATTTCATATCACG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-AT-A-T-C
65 ACACATTTCATATCA-GACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGTCC
98592362 -A
129 GA
98592363 -CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
98592427 CACATTTCATATCAGACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
66 CACATTTCATATCAGACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCA-G-T-
98592492 CCATGGTA
127 CC---G-A
* *
98592500 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTTAA-CATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
98592564 CACATTTCATATCAGA
66 CACATTTCATATCAGA
98592580 GAGCACACTC
Statistics
Matches: 191, Mismatches: 10, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
123 5 0.03
124 103 0.54
126 2 0.01
127 1 0.01
130 1 0.01
132 1 0.01
137 27 0.14
138 51 0.27
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (130 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCAGACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGTCCGA
Found at i:98598712 original size:47 final size:49
Alignment explanation
Indices: 98598590--98598769 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 49
98598580 TGTAACCCGC
* * * *
98598590 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
* *
98598636 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
98598686 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
98598730 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
98598770 TCAACCATTC
Statistics
Matches: 113, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 36 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:98598758 original size:94 final size:93
Alignment explanation
Indices: 98598598--98598769 Score: 290
Period size: 94 Copynumber: 1.8 Consensus size: 93
98598588 GCCCATAAGT
* * * *
98598598 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
98598663 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
98598691 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
98598756 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
98598770 TCAACCATTC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 30 0.41
94 43 0.59
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:98599358 original size:20 final size:18
Alignment explanation
Indices: 98599324--98599360 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
98599314 GCAACTCATA
98599324 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
98599342 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
98599361 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:98602203 original size:46 final size:43
Alignment explanation
Indices: 98602112--98602340 Score: 183
Period size: 46 Copynumber: 5.0 Consensus size: 43
98602102 AGCTCTCATC
* * *
98602112 CATCT-GTGTCGATGCCGTGTCCCAGACAGGTCTTACACT-GACA
1 CATCTCGTGCCGATG-CATGTCCCAGACATGTCTTACACTAG-CA
* *
98602155 CATGTAACCGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCA
1 CATCT---CGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCA
* * *
98602201 CATCTCGTAGCCGACGCATGTCCCAGACATGTCTGACACTGGCTA
1 CATCTCGT-GCCGATGCATGTCCCAGACATGTCTTACACTAGC-A
* *
98602246 TCATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCCCT
1 -CATCTCG-TGCCGATGCATGTCCCAGACATGTCTTACACTAG--CA
* * * * *
98602293 CGTCTCAATGCCGATGCCATGTCTCATACATGGTCTTACACTGGCA
1 CATCTC-GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCA
98602339 CA
1 CA
98602341 CAAATCTCAT
Statistics
Matches: 149, Mismatches: 23, Indels: 25
0.76 0.12 0.13
Matches are distributed among these distances:
43 7 0.05
44 30 0.20
45 1 0.01
46 79 0.53
47 20 0.13
48 12 0.08
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
CATCTCGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCA
Found at i:98602231 original size:44 final size:44
Alignment explanation
Indices: 98602129--98602289 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
98602119 GTCGATGCCG
* * *
98602129 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGT-GCTGATGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGATGCA
*
98602175 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
* *
98602219 TGTCCCAGACATGTCTGACACTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-A-CATCTCGTA-GCCGATGCA
98602265 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
98602290 CCTCGTCTCA
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.03
44 30 0.30
45 2 0.02
46 65 0.64
47 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
Found at i:98604910 original size:47 final size:49
Alignment explanation
Indices: 98604788--98604967 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 49
98604778 TGTAACCCGC
* * * *
98604788 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
* *
98604834 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
98604884 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
98604928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
98604968 TCAACCATTC
Statistics
Matches: 113, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 36 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:98604956 original size:94 final size:93
Alignment explanation
Indices: 98604796--98604967 Score: 290
Period size: 94 Copynumber: 1.8 Consensus size: 93
98604786 GCCCATAAGT
* * * *
98604796 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
98604861 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
98604889 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
98604954 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
98604968 TCAACCATTC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 30 0.41
94 43 0.59
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:98605556 original size:20 final size:18
Alignment explanation
Indices: 98605522--98605558 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
98605512 GCAACTCATA
98605522 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
98605540 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
98605559 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:98608403 original size:46 final size:43
Alignment explanation
Indices: 98608312--98608540 Score: 183
Period size: 46 Copynumber: 5.0 Consensus size: 43
98608302 AGCTCTCATC
* * *
98608312 CATCT-GTGTCGATGCCGTGTCCCAGACAGGTCTTACACT-GACA
1 CATCTCGTGCCGATG-CATGTCCCAGACATGTCTTACACTAG-CA
* *
98608355 CATGTAACCGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCA
1 CATCT---CGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCA
* * *
98608401 CATCTCGTAGCCGACGCATGTCCCAGACATGTCTGACACTGGCTA
1 CATCTCGT-GCCGATGCATGTCCCAGACATGTCTTACACTAGC-A
* *
98608446 TCATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCCCT
1 -CATCTCG-TGCCGATGCATGTCCCAGACATGTCTTACACTAG--CA
* * * * *
98608493 CGTCTCAATGCCGATGCCATGTCTCATACATGGTCTTACACTGGCA
1 CATCTC-GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCA
98608539 CA
1 CA
98608541 CAAATCTCAT
Statistics
Matches: 149, Mismatches: 23, Indels: 25
0.76 0.12 0.13
Matches are distributed among these distances:
43 7 0.05
44 30 0.20
45 1 0.01
46 79 0.53
47 20 0.13
48 12 0.08
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
CATCTCGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCA
Found at i:98608431 original size:44 final size:44
Alignment explanation
Indices: 98608329--98608489 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
98608319 GTCGATGCCG
* * *
98608329 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGT-GCTGATGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGATGCA
*
98608375 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
* *
98608419 TGTCCCAGACATGTCTGACACTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-A-CATCTCGTA-GCCGATGCA
98608465 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
98608490 CCTCGTCTCA
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.03
44 30 0.30
45 2 0.02
46 65 0.64
47 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
Found at i:98611110 original size:47 final size:49
Alignment explanation
Indices: 98610988--98611167 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 49
98610978 TGTAACCCGC
* * * *
98610988 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
* *
98611034 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
98611084 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
98611128 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
98611168 TCAACCATTC
Statistics
Matches: 113, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 36 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:98611156 original size:94 final size:93
Alignment explanation
Indices: 98610996--98611167 Score: 290
Period size: 94 Copynumber: 1.8 Consensus size: 93
98610986 GCCCATAAGT
* * * *
98610996 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
98611061 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
98611089 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
98611154 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
98611168 TCAACCATTC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 30 0.41
94 43 0.59
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:98611756 original size:20 final size:18
Alignment explanation
Indices: 98611722--98611758 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
98611712 GCAACTCATA
98611722 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
98611740 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
98611759 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:98615234 original size:2 final size:2
Alignment explanation
Indices: 98615229--98615256 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
98615219 ACATTAAAAA
98615229 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
98615257 TGAGTGTGTG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:98615265 original size:2 final size:2
Alignment explanation
Indices: 98615260--98615284 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
98615250 GAGAGAGTGA
98615260 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
98615285 AGAGAGAGAG
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:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:98616014 original size:20 final size:19
Alignment explanation
Indices: 98615972--98616014 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
98615962 GCATACGTGA
* * *
98615972 GAGGGGGTTGGGGTTGGTG
1 GAGGGGGGTGGGGTGGGGG
98615991 GAGGGGGGTGGGGTGGGGG
1 GAGGGGGGTGGGGTGGGGG
98616010 TGAGG
1 -GAGG
98616015 TGAGCGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.07, C:0.00, G:0.74, T:0.19
Consensus pattern (19 bp):
GAGGGGGGTGGGGTGGGGG
Found at i:98616218 original size:19 final size:18
Alignment explanation
Indices: 98616194--98616239 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
98616184 AATATCCTTC
*
98616194 TCTTTTACCCTTTTCTTTG
1 TCTTTT-CCATTTTCTTTG
*
98616213 TCTTTTCCATTTTCTTTC
1 TCTTTTCCATTTTCTTTG
98616231 T-TTTTCCAT
1 TCTTTTCCAT
98616240 CTGCTTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.32
18 11 0.44
19 6 0.24
ACGTcount: A:0.07, C:0.26, G:0.02, T:0.65
Consensus pattern (18 bp):
TCTTTTCCATTTTCTTTG
Found at i:98616227 original size:18 final size:18
Alignment explanation
Indices: 98616191--98616250 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
98616181 CAAAATATCC
*
98616191 TTCTCTTTTACCCTTTTCT
1 TTCTCTTTT-CCATTTTCT
*
98616210 TTGTCTTTTCCATTTTCT
1 TTCTCTTTTCCATTTTCT
* *
98616228 TTCT-TTTTCCATCTGCT
1 TTCTCTTTTCCATTTTCT
98616245 TTCTCT
1 TTCTCT
98616251 CTCTGCCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 15 0.43
18 12 0.34
19 8 0.23
ACGTcount: A:0.05, C:0.28, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTCTTTTCCATTTTCT
Found at i:98618351 original size:16 final size:16
Alignment explanation
Indices: 98618330--98618360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98618320 AGTTATTTTC
98618330 AGATTCAAATCATTTA
1 AGATTCAAATCATTTA
*
98618346 AGATTCATATCATTT
1 AGATTCAAATCATTT
98618361 TTCAATGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (16 bp):
AGATTCAAATCATTTA
Found at i:98621773 original size:16 final size:17
Alignment explanation
Indices: 98621752--98621785 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
98621742 GCTAAAACGA
98621752 GGGGTGGTGGGG-GTGG
1 GGGGTGGTGGGGTGTGG
98621768 GGGGTGGTGGGGTGTGG
1 GGGGTGGTGGGGTGTGG
98621785 G
1 G
98621786 TTTCGTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.00, C:0.00, G:0.79, T:0.21
Consensus pattern (17 bp):
GGGGTGGTGGGGTGTGG
Found at i:98624220 original size:18 final size:18
Alignment explanation
Indices: 98624197--98624233 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
98624187 TTAAATCAAC
98624197 CGATCTAATAACTTTCTT
1 CGATCTAATAACTTTCTT
98624215 CGATCTAATAACTTTCTT
1 CGATCTAATAACTTTCTT
98624233 C
1 C
98624234 AGACAAGTAG
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:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (18 bp):
CGATCTAATAACTTTCTT
Found at i:98626077 original size:13 final size:13
Alignment explanation
Indices: 98626059--98626084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98626049 CCCCCCCAAA
98626059 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
98626072 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
98626085 GCAATCTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:98633798 original size:7 final size:7
Alignment explanation
Indices: 98633781--98633818 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
98633771 ATTTAATAAA
98633781 AAAAAAG
1 AAAAAAG
98633788 -AAAAAG
1 AAAAAAG
98633794 AAAAAAG
1 AAAAAAG
98633801 AAAAAAG
1 AAAAAAG
98633808 AAAAAAG
1 AAAAAAG
98633815 AAAA
1 AAAA
98633819 GAATGCATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:98633799 original size:14 final size:13
Alignment explanation
Indices: 98633778--98633818 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
98633768 TCTATTTAAT
98633778 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
98633791 AAGAAAAAAGAAA
1 AAAAAAAAAGAAA
98633804 AAAGAAAAAAGAAA
1 AAA-AAAAAAGAAA
98633818 A
1 A
98633819 GAATGCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:98644659 original size:30 final size:29
Alignment explanation
Indices: 98644600--98644659 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
98644590 TAAATATATA
*
98644600 TATTAATTTTTACAATTTTTTTTTAAATT
1 TATTAATTTTTACAATCTTTTTTTAAATT
*
98644629 TATTGAATTTTTAACAA-CTTTTTTTGAATT
1 TATT-AATTTTT-ACAATCTTTTTTTAAATT
98644659 T
1 T
98644660 TTTTGCATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 4 0.15
30 19 0.70
31 4 0.15
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (29 bp):
TATTAATTTTTACAATCTTTTTTTAAATT
Found at i:98646415 original size:25 final size:26
Alignment explanation
Indices: 98646372--98646449 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 26
98646362 CTTCCTCAAC
* *
98646372 AATTTAATTACTAATTAATTCTATTT
1 AATTTAATTATTAAATAATTCTATTT
*
98646398 AA-TTAATTATTAAATAATTTTATTTCT
1 AATTTAATTATTAAATAATTCTA-TT-T
*
98646425 AATTTAATTATT-AATATTTCTATTT
1 AATTTAATTATTAAATAATTCTATTT
98646450 TCAATTTCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 18 0.41
26 6 0.14
27 11 0.25
28 9 0.20
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (26 bp):
AATTTAATTATTAAATAATTCTATTT
Found at i:98646860 original size:6 final size:6
Alignment explanation
Indices: 98646849--98646900 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
98646839 ATTAATAAAT
**
98646849 TAATTA TAATTA TAATTA TAATTA TAATTA TTTTTA T-ATTA T-ATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
98646895 T-ATTA T
1 TAATTA T
98646901 TTATATATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
5 14 0.33
6 29 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (6 bp):
TAATTA
Found at i:98646860 original size:18 final size:19
Alignment explanation
Indices: 98646839--98646878 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
98646829 TGAAAACATT
98646839 ATTAATAAAT-TAATTATA
1 ATTAATAAATATAATTATA
*
98646857 ATT-ATAATTATAATTATA
1 ATTAATAAATATAATTATA
98646875 ATTA
1 ATTA
98646879 TTTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATAAATATAATTATA
Found at i:98646879 original size:18 final size:17
Alignment explanation
Indices: 98646846--98646905 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 17
98646836 ATTATTAATA
98646846 AATTA-ATTATAATTAT
1 AATTATATTATAATTAT
98646862 AATTATAATTATAATTAT
1 AATTAT-ATTATAATTAT
**
98646880 TTTTATATTAT-ATTAT
1 AATTATATTATAATTAT
98646896 -ATTAT-TTATA
1 AATTATATTATA
98646906 TATTTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 4 0.11
15 4 0.11
16 10 0.26
17 5 0.13
18 15 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTATATTATAATTAT
Found at i:98646901 original size:21 final size:23
Alignment explanation
Indices: 98646849--98646909 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
98646839 ATTAATAAAT
**
98646849 TAATTATAATTATAATTATAATTA
1 TAATTATTTTTAT-ATTATAATTA
98646873 TAATTATTTTTATATTAT-ATTA
1 TAATTATTTTTATATTATAATTA
*
98646895 T-ATTATTTATATATT
1 TAATTATTTTTATATT
98646910 TAAAAAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.38
22 5 0.15
23 5 0.15
24 11 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTATTTTTATATTATAATTA
Found at i:98648442 original size:22 final size:23
Alignment explanation
Indices: 98648415--98648470 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
98648405 AGACTGTACA
*
98648415 TGTTTAGTTATGCAAAACA-AGT
1 TGTTTAGTTATGCAAAACATACT
*
98648437 TGTTTAGTTATGCGAAACATACT
1 TGTTTAGTTATGCAAAACATACT
98648460 TGTTTA-TTATG
1 TGTTTAGTTATG
98648471 GGAACCCTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 23 0.74
23 8 0.26
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (23 bp):
TGTTTAGTTATGCAAAACATACT
Found at i:98653751 original size:18 final size:19
Alignment explanation
Indices: 98653715--98653751 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
98653705 TTGGAACAAG
98653715 TTTAAATAAAAATATTAAA
1 TTTAAATAAAAATATTAAA
98653734 TTTAAA-AAATAA-ATTAAA
1 TTTAAATAAA-AATATTAAA
98653752 CATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAATAAAAATATTAAA
Found at i:98661416 original size:19 final size:19
Alignment explanation
Indices: 98661373--98661421 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
98661363 AATTAAAAAG
*
98661373 AAAATTCAGAATAATTTAA
1 AAAATTCAAAATAATTTAA
*
98661392 AGAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTTA-A
98661411 AAAATTTCAAA
1 AAAA-TTCAAA
98661422 TTTTATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 5 0.20
19 14 0.56
20 6 0.24
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAA
Found at i:98661907 original size:3 final size:3
Alignment explanation
Indices: 98661901--98661930 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
98661891 AATAGTCTAT
98661901 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
98661931 TATTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:98663565 original size:21 final size:20
Alignment explanation
Indices: 98663541--98663583 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
98663531 TGTCTTTGTC
*
98663541 TCGTCTCGTCCCGTCTCGTTT
1 TCGTATCGTCCCGTCTC-TTT
* *
98663562 TCGTATCTTCTCGTCTCTTT
1 TCGTATCGTCCCGTCTCTTT
98663582 TC
1 TC
98663584 TTCTAGTCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.02, C:0.35, G:0.14, T:0.49
Consensus pattern (20 bp):
TCGTATCGTCCCGTCTCTTT
Found at i:98665495 original size:25 final size:25
Alignment explanation
Indices: 98665467--98665554 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
98665457 CCCCAAAAAT
98665467 AATTAAACTCATTTACCAAGATCTC
1 AATTAAACTCATTTACCAAGATCTC
* * *****
98665492 AATTATACTCACTGTAATTTCATCTC
1 AATTAAACTCA-TTTACCAAGATCTC
*
98665518 -ATCAAACTCATTTACCAAGATCTC
1 AATTAAACTCATTTACCAAGATCTC
*
98665542 AATTATACTCATT
1 AATTAAACTCATT
98665555 GTAATTTCAT
Statistics
Matches: 44, Mismatches: 17, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
24 8 0.18
25 28 0.64
26 8 0.18
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (25 bp):
AATTAAACTCATTTACCAAGATCTC
Found at i:98665531 original size:50 final size:50
Alignment explanation
Indices: 98665471--98665571 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
98665461 AAAAATAATT
98665471 AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC
1 AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC
*
98665521 AAACTCATTTACCAAGATCTCAATTATACTCATTGTAATTTCATCTCATC
1 AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC
98665571 A
1 A
98665572 TCTGTCAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (50 bp):
AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC
Found at i:98668592 original size:24 final size:24
Alignment explanation
Indices: 98668559--98668617 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
98668549 ATTTAATTCA
98668559 TAATTATTATTTTAAA-ATATTGTAC
1 TAATT-TTATTTTAAAGA-ATTGTAC
*
98668584 TAATTTTATTTTAAAGAATTGTAT
1 TAATTTTATTTTAAAGAATTGTAC
98668608 TAATTTTATT
1 TAATTTTATT
98668618 AATTTACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 26 0.81
25 6 0.19
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (24 bp):
TAATTTTATTTTAAAGAATTGTAC
Found at i:98677220 original size:26 final size:28
Alignment explanation
Indices: 98677186--98677249 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
98677176 TTTTGTAACT
*
98677186 TTTAATAA-TTGGATGACC-AAAACAAA
1 TTTACTAAGTTGGATGACCAAAAACAAA
*
98677212 TTTACTAATAGTTGGATGACCAAAAATAAA
1 TTTACT-A-AGTTGGATGACCAAAAACAAA
98677242 TTTACTAA
1 TTTACTAA
98677250 AATTGAGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 5 0.16
27 1 0.03
28 2 0.06
29 11 0.34
30 13 0.41
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (28 bp):
TTTACTAAGTTGGATGACCAAAAACAAA
Found at i:98677220 original size:29 final size:30
Alignment explanation
Indices: 98677188--98677254 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
98677178 TTGTAACTTT
98677188 TAATAATTGGATGACC-AAAACAAATTTAC
1 TAATAATTGGATGACCAAAAACAAATTTAC
* *
98677217 TAATAGTTGGATGACCAAAAATAAATTTAC
1 TAATAATTGGATGACCAAAAACAAATTTAC
98677247 TAA-AATTG
1 TAATAATTG
98677255 AGTGATTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (30 bp):
TAATAATTGGATGACCAAAAACAAATTTAC
Found at i:98683228 original size:13 final size:13
Alignment explanation
Indices: 98683210--98683249 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
98683200 TCAACAAAAA
98683210 ATATTTTGAAGAT
1 ATATTTTGAAGAT
** *
98683223 ATATTTAAAAAAT
1 ATATTTTGAAGAT
98683236 ATATTTTGAAGAT
1 ATATTTTGAAGAT
98683249 A
1 A
98683250 CTTTTGTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (13 bp):
ATATTTTGAAGAT
Found at i:98684316 original size:16 final size:16
Alignment explanation
Indices: 98684268--98684323 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
98684258 GGGGACCTTC
98684268 TTCTTC-TCTTCTCTT
1 TTCTTCTTCTTCTCTT
*
98684283 TT-TT-TTCTT-TCTCA
1 TTCTTCTTCTTCTCT-T
98684297 TTCTTCTTCTTCTCTT
1 TTCTTCTTCTTCTCTT
*
98684313 TTCTGCTTCTT
1 TTCTTCTTCTT
98684324 GCTTCTACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 3 0.09
14 8 0.24
15 4 0.12
16 15 0.45
17 3 0.09
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (16 bp):
TTCTTCTTCTTCTCTT
Found at i:98685720 original size:26 final size:27
Alignment explanation
Indices: 98685691--98685751 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
98685681 ATGACTAAAC
*
98685691 CTATAATAAAATTGTT-AAAAAATACT
1 CTATAATAAAATTATTAAAAAAATACT
*
98685717 CTATAATAAGATTATTAAAAAAATACT
1 CTATAATAAAATTATTAAAAAAATACT
*
98685744 CTCTAATA
1 CTATAATA
98685752 GGGCCAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (27 bp):
CTATAATAAAATTATTAAAAAAATACT
Found at i:98693812 original size:15 final size:15
Alignment explanation
Indices: 98693794--98693827 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
98693784 TTGATTACAC
98693794 TTAAGGTTTAATTAA
1 TTAAGGTTTAATTAA
* *
98693809 TTAAGTTTTTATTAA
1 TTAAGGTTTAATTAA
98693824 TTAA
1 TTAA
98693828 TTATGATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
TTAAGGTTTAATTAA
Found at i:98697623 original size:133 final size:129
Alignment explanation
Indices: 98697446--98697851 Score: 575
Period size: 130 Copynumber: 3.1 Consensus size: 129
98697436 AATATAAGGA
*
98697446 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCTCAATCGTGCTGGGTTTCTTTTTTTTCCTT
1 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCTCAATCGTGCTGGGTTTCTTTTTTTTCATT
* *
98697511 CGAGTAAAATATGGAATATCCTCTTTTTTTGAAATTTCATCCACGTTTTCTTAAACTAAAACGAG
66 CGACTAAAATATGGAATAT-C-C-TTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAACGAG
98697576 GC
128 GC
*
98697578 AATATTTCGTATTTGGGGAGTTTTGAGAGATCGTGCTCAATCGTGCTGGGTTTCGTTTTTTTCAT
1 AATATTTCGTATTTGGGGAG-TTTGAGAGATCGTGCTCAATCGTGCTGGGTTTCTTTTTTTTCAT
* *
98697643 TCGACTACAATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAACAAGGC
65 TCGACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAACGAGGC
* * * * *
98697708 AATATTTCGTGTTT-GGAAGTTTGAGAGATCGTGCCCAATCATGTTGGGTTTCGTTTTTTTTTCA
1 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCTCAATCGTGCTGGGTTTC--TTTTTTTTCA
* * * * * *
98697772 TTCGACTAAGATACGGAATATCC--TTTTGACATTTCATCCATGTTTTCTTGAATTAAAATGAGG
64 TTCGACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAACGAGG
98697835 C
129 C
*
98697836 AATGTTTCGTATTTGG
1 AATATTTCGTATTTGG
98697852 AAATTCGATA
Statistics
Matches: 248, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
128 78 0.31
129 5 0.02
130 83 0.33
131 1 0.00
132 21 0.08
133 60 0.24
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (129 bp):
AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCTCAATCGTGCTGGGTTTCTTTTTTTTCATT
CGACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAACGAGGC
Found at i:98697767 original size:130 final size:129
Alignment explanation
Indices: 98697441--98697888 Score: 557
Period size: 128 Copynumber: 3.5 Consensus size: 129
98697431 CTCTCAATAT
* * *
98697441 AAGGAAATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCTCAATCGTGCTGGGTTTC-TTTTTT
1 AAGGCAATATTTCGTATTTGGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTT
* * *
98697505 TTCCTTCGAGTAAAATATGGAATATCCTCTTTTTTTGAAATTTCATCCACGTTTTCTTAAACTAA
66 TTCATTCGACT-AAATATGGAATAT-C-C-TTTTTTGAAATTTCATCCATGTTTTCTTAAACTAA
98697570 AAC
127 AAC
* * *
98697573 GAGGCAATATTTCGTATTTGGGGAGTTTTGAGAGATCGTGCTCAATCGTGCTGGGTTTCG-TTTT
1 AAGGCAATATTTCGTATTTGGGAAG-TTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTT
98697637 TTTCATTCGACTACAATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAA
65 TTTCATTCGACTA-AATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAA
98697702 C
129 C
* * *
98697703 AAGGCAATATTTCGTGTTT-GGAAGTTTGAGAGATCGTGCCCAATCATGTTGGGTTTCGTTTTTT
1 AAGGCAATATTTCGTATTTGGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCG-TTTTT
* * * *
98697767 TTTCATTCGACTAAGATACGGAATATCC--TTTTGACATTTCATCCATGTTTTCTTGAATTAAAA
65 TTTCATTCGACTAA-ATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAA
*
98697830 T
129 C
* * * * * * * *
98697831 GAGGCAATGTTTCGTATTT-GGAAATTCGATAAATCGTGCCCAATTGTGTTGGGTTTCG
1 AAGGCAATATTTCGTATTTGGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCG
98697889 ATTTATCGTT
Statistics
Matches: 285, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
128 112 0.39
129 5 0.02
130 83 0.29
131 1 0.00
132 25 0.09
133 59 0.21
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (129 bp):
AAGGCAATATTTCGTATTTGGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTT
TTCATTCGACTAAATATGGAATATCCTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAAC
Found at i:98701884 original size:47 final size:47
Alignment explanation
Indices: 98701775--98701885 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
98701765 CCGGGATAAG
*
98701775 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
98701822 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
98701869 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
98701886 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:98711593 original size:64 final size:64
Alignment explanation
Indices: 98711519--98711642 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
98711509 CATTCATAGT
* *
98711519 ACATCTAGTTAGGAGCACGTGATTCATGTT-GATCATAGCATCTTAACTATTTGACATAAGCATC
1 ACATCTAGTTAGGAGCACGTGATTCAT-TTCGATCATAGCATCCTAACTATTCGACATAAGCATC
*** *
98711583 ACATCTAGTTAGGAGCGTTTGATTCATTTCGATCATAGCATCCTAACTATTCGGCATAAG
1 ACATCTAGTTAGGAGCACGTGATTCATTTCGATCATAGCATCCTAACTATTCGACATAAG
98711643 TATACATACA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCACGTGATTCATTTCGATCATAGCATCCTAACTATTCGACATAAGCATC
Found at i:98711909 original size:100 final size:100
Alignment explanation
Indices: 98711736--98711924 Score: 324
Period size: 100 Copynumber: 1.9 Consensus size: 100
98711726 CCTGAAGTTG
* * **
98711736 CAGGAAGCAGACTGAAAATTTCCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAAT
1 CAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAAT
*
98711801 GACAAGTCTCATCTTCCTGAAGTTGCAAGAAGCAT
66 GACAAGTCTCATCTCCCTGAAGTTGCAAGAAGCAT
98711836 CAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAAT
1 CAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAAT
*
98711901 GACAAGTCTTATCTCCCTGAAGTT
66 GACAAGTCTCATCTCCCTGAAGTT
98711925 ACAGTGGAGT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (100 bp):
CAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAAT
GACAAGTCTCATCTCCCTGAAGTTGCAAGAAGCAT
Found at i:98712205 original size:89 final size:88
Alignment explanation
Indices: 98711950--98712206 Score: 347
Period size: 89 Copynumber: 2.9 Consensus size: 88
98711940 GAAGATAGCA
* *
98711950 AGTCTTATCTTCTTGAAATTGTAGGAAGCAGACTGAAAA-TTACAGA-CTTTATCTCCATGTATC
1 AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAAGTTACAGATC-TTATCTCCATGTAT-
* *
98712013 AGCTATGGAGCAGATCTCAGCTACT
64 TGCTATGGAGCAGATCTCAGCCACT
* * *
98712038 AGTCTTGTCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTAACT
1 AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGT-ATT
* *
98712103 GCTATGGAGCAGATTTTAGCCACT
65 GCTATGGAGCAGATCTCAGCCACT
* * *
98712127 AGTCTTATCTTCCTAAAATTGCAGGAAGTAGACTGAAAAGTTACAGATCTTATATCCATGTATTG
1 AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATT-
*
98712192 GCTATGAAGCAGATC
65 GCTATGGAGCAGATC
98712207 AAAAATGGCG
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
88 37 0.25
89 109 0.74
90 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (88 bp):
AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATTG
CTATGGAGCAGATCTCAGCCACT
Found at i:98712373 original size:132 final size:131
Alignment explanation
Indices: 98712038--98712511 Score: 469
Period size: 132 Copynumber: 3.6 Consensus size: 131
98712028 CTCAGCTACT
* * * * *
98712038 AGTCTTGTCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTAACT
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTCAAAAATTACAGATCTTATCTCCATGTATCG
* ** * * **
98712103 GCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTAAAATTGCAGGA-AGTAGACTGAAA-A
66 GCTATGGAGCAGATTTTAGCCACTAGTCTTATCTT-CTGAGGTAGCAGGAGAGCAGGTTGAAATA
98712166 GTTA
130 G--A
* * * ** *
98712170 CAGATCTTAT-ATCCATGTA-TTGGCTATGAAGCAGA-TCAAAAATGGC-GAGTCTTATCTTCAT
1 -AG-TCTTATCTTCC-TGAAGTT-GC-AGGAAGCAGACTCAAAAATTACAGA-TCTTATCTCCAT
* *
98712231 GTATTGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
60 GTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCT-TCTGAGGTAGCAGGAGAGCAGGTT
98712296 GAACATAGA
124 GAA-ATAGA
*
98712305 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAAATTACAGATCTTATCTCCATGTATCA
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTCAAAAATTACAGATCTTATCTCCATGTATCG
* * ** * *
98712369 GCTATGGAGCAGATTTTAACCACCAACCTTATCTTTCTGGGGCAGCAGGAGAGCAGGTTGAAAAT
66 GCTATGGAGCAGATTTTAGCCACTAGTCTTATC-TTCTGAGGTAGCAGGAGAGCAGGTTG-AAAT
**
98712434 ACT
129 AGA
* ** * *
98712437 AGTCTTATCTTCCTGAAGTTACAGGAAATAAACT-AAAAATTACGGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTCAAAAATTACAGATCTTATCTCCATGTATCG
98712501 GCTATGGAGCA
66 GCTATGGAGCA
98712512 TATCAGAAAT
Statistics
Matches: 283, Mismatches: 43, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
132 154 0.54
133 26 0.09
134 81 0.29
135 19 0.07
136 1 0.00
137 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (131 bp):
AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTCAAAAATTACAGATCTTATCTCCATGTATCG
GCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCTGAGGTAGCAGGAGAGCAGGTTGAAATAG
A
Found at i:98713838 original size:17 final size:17
Alignment explanation
Indices: 98713816--98713861 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
98713806 TACATTTAAA
98713816 AAAATTTGTTTTATTTT
1 AAAATTTGTTTTATTTT
**
98713833 GTAATTTG-TTTATTTT
1 AAAATTTGTTTTATTTT
98713849 AAAATTT-TTTTAT
1 AAAATTTGTTTTAT
98713862 ATACAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (17 bp):
AAAATTTGTTTTATTTT
Found at i:98714712 original size:132 final size:129
Alignment explanation
Indices: 98714503--98714946 Score: 533
Period size: 129 Copynumber: 3.4 Consensus size: 129
98714493 AATATAAGGA
* *
98714503 AATATTTCGTTTTTGGGGAGTTTGAGAGATCGTGCCCAATCGC-GCTGGGTTTCGTTTTTTTTCC
1 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATC-CTGCTGGGTTTCGTTTTTTTTCA
*
98714567 TTCAACTAAAATATGGAATATCCTTTTTTTTGAAATTTCATCCACGTTTTCTTAAACTAAAACGA
65 TTCGACT-AAATATGGAATATCC--TTTTTTGAAATTTCATCCACGTTTTCTTAAACTAAAACGA
*
98714632 GAC
127 GGC
* *
98714635 AATATTTCGTATTTGGGGAGTTTTGAGAGATCGTGCTCAATCCTGCTGGGTTTC-ATTTTTTTCA
1 AATATTTCGTATTTGGGGAG-TTTGAGAGATCGTGCCCAATCCTGCTGGGTTTCGTTTTTTTTCA
98714699 TTCGACTACAATATGGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAACTAAAAC-ATG
65 TTCGACTA-AATATGGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAACTAAAACGA-G
98714763 GC
128 GC
* * * **
98714765 CATATTTCGTGTTT-GGAAGTTTGAGAGATCGTGCCCAATTGTGCTGGGTTTCGTTTTTTTTTTC
1 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATCCTGCTGGGTTTCG--TTTTTTTTC
* * * * * *
98714829 ATTCGACTAAGATACGGAATATCC--TTTTGACATTTCATCCATGTTTTCTTGAATTAAAATGAG
64 ATTCGACTAA-ATATGGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAACTAAAACGAG
98714892 GC
128 GC
* * * * * * *
98714894 AATGTTTCGTATTT-GGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTTCG
1 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATCCTGCTGGGTTTCG
98714947 ATTTATCGTT
Statistics
Matches: 276, Mismatches: 27, Indels: 21
0.85 0.08 0.06
Matches are distributed among these distances:
128 30 0.11
129 84 0.30
130 54 0.20
131 30 0.11
132 48 0.17
133 30 0.11
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (129 bp):
AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATCCTGCTGGGTTTCGTTTTTTTTCAT
TCGACTAAATATGGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAACTAAAACGAGGC
Found at i:98716910 original size:9 final size:9
Alignment explanation
Indices: 98716848--98716911 Score: 55
Period size: 9 Copynumber: 7.4 Consensus size: 9
98716838 TTTCAAAATA
98716848 TTTATAATT
1 TTTATAATT
*
98716857 TTAAATAATT
1 TT-TATAATT
*
98716867 TTCA-AATT
1 TTTATAATT
*
98716875 TTT-TAATA
1 TTTATAATT
*
98716883 TATAT-A-T
1 TTTATAATT
98716890 TTTATAATT
1 TTTATAATT
98716899 TTTATAATT
1 TTTATAATT
98716908 TTTA
1 TTTA
98716912 AAAAATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
7 4 0.09
8 13 0.30
9 18 0.42
10 8 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:98717916 original size:46 final size:46
Alignment explanation
Indices: 98717851--98718124 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
98717841 TTATCTTTGA
* * * *
98717851 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
98717897 CATGTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * ***
98717943 CACGTTGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
98717989 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
98718035 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
98718081 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
98718125 TGTTTACACC
Statistics
Matches: 204, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 200 0.98
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:98718104 original size:138 final size:138
Alignment explanation
Indices: 98717851--98718114 Score: 431
Period size: 138 Copynumber: 1.9 Consensus size: 138
98717841 TTATCTTTGA
* * * *
98717851 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTT
* *
98717916 TCAACCATGGTTTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCGTGGTCTTATTCA
66 TCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
98717981 TTTCCCAT
131 TTTCCCAT
* *
98717989 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATCT
*
98718053 TTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
65 TTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
98718115 CACATTTCAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
137 4 0.03
138 112 0.97
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (138 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
TTTCCCAT
Found at i:98719965 original size:11 final size:11
Alignment explanation
Indices: 98719930--98719990 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
98719920 TTTTGCTGTC
*
98719930 ATTTCGTTATT
1 ATTTTGTTATT
* *
98719941 ATATTGTTACT
1 ATTTTGTTATT
*
98719952 ATTTTGTTGTT
1 ATTTTGTTATT
* *
98719963 ATTTTATTGTT
1 ATTTTGTTATT
*
98719974 AATTTTGCTATT
1 -ATTTTGTTATT
98719986 ATTTT
1 ATTTT
98719991 AAAGATATTT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 31 0.79
12 8 0.21
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (11 bp):
ATTTTGTTATT
Found at i:98719987 original size:23 final size:24
Alignment explanation
Indices: 98719936--98719991 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
98719926 TGTCATTTCG
* * *
98719936 TTATTATATTGTTACTATTTTGTTG
1 TTATTTTATTGTTAC-ATTTTGCTA
98719961 TTATTTTATTGTTA-ATTTTGCTA
1 TTATTTTATTGTTACATTTTGCTA
98719984 TTATTTTA
1 TTATTTTA
98719992 AAGATATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
25 13 0.46
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (24 bp):
TTATTTTATTGTTACATTTTGCTA
Found at i:98720589 original size:7 final size:7
Alignment explanation
Indices: 98720579--98720617 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
98720569 AAAAAAGTCA
98720579 AAAAAAG
1 AAAAAAG
98720586 -AAAAAG
1 AAAAAAG
98720592 -AAAAAG
1 AAAAAAG
98720598 AAAAAAG
1 AAAAAAG
98720605 AAAAAAG
1 AAAAAAG
98720612 AAAAAA
1 AAAAAA
98720618 AAGAAAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:98720591 original size:6 final size:6
Alignment explanation
Indices: 98720580--98720616 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
98720570 AAAAAGTCAA
98720580 AAAAAG AAAAAG AAAAAG AAAAAAG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG -AAAAAG AAAAA
98720617 AAAGAAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:98720602 original size:13 final size:13
Alignment explanation
Indices: 98720579--98720616 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
98720569 AAAAAAGTCA
98720579 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
98720592 -AAAAAGAAAAAAG
1 AAAAAAG-AAAAAG
98720605 AAAAAAGAAAAA
1 AAAAAAGAAAAA
98720617 AAAGAAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.26
13 11 0.48
14 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:98720603 original size:20 final size:20
Alignment explanation
Indices: 98720579--98720616 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
98720569 AAAAAAGTCA
98720579 AAAAAAG-AAAAAGAAAAAG
1 AAAAAAGAAAAAAGAAAAAG
98720598 AAAAAAGAAAAAAGAAAAA
1 AAAAAAGAAAAAAGAAAAA
98720617 AAAGAAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAAAG
Found at i:98720624 original size:20 final size:18
Alignment explanation
Indices: 98720578--98720624 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 18
98720568 CAAAAAAGTC
98720578 AAAAAAAGAAAAAGAAAA
1 AAAAAAAGAAAAAGAAAA
98720596 AGAAAAAAGAAAAAAGAAAA
1 A-AAAAAAG-AAAAAGAAAA
98720616 AAAAGAAAG
1 AAAA-AAAG
98720625 CAAAGTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.04
19 10 0.38
20 15 0.58
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAGAAAA
Found at i:98727239 original size:31 final size:31
Alignment explanation
Indices: 98727201--98727260 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
98727191 AAAAGATGGA
98727201 TTATTATATTATACTTAGAAGATGAATTGGT
1 TTATTATATTATACTTAGAAGATGAATTGGT
*
98727232 TTATTATATTATACTTAGAAGATTAATTG
1 TTATTATATTATACTTAGAAGATGAATTG
98727261 TCATAAGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (31 bp):
TTATTATATTATACTTAGAAGATGAATTGGT
Found at i:98733741 original size:39 final size:39
Alignment explanation
Indices: 98733698--98733789 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
98733688 GTGTTGCTGG
* * *
98733698 TGTTGGAGATGTTGCCGGCGTTGCTGACATTGTCAGTGA
1 TGTTGAAGATGTTGCCGGCATTGCTGACACTGTCAGTGA
*
98733737 TGTTGAAGATGTTGCCGGCATTGCTGACACTGTCGGTGA
1 TGTTGAAGATGTTGCCGGCATTGCTGACACTGTCAGTGA
98733776 TGTTGAAGATGTTG
1 TGTTGAAGATGTTG
98733790 TTAACGTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.17, C:0.14, G:0.35, T:0.34
Consensus pattern (39 bp):
TGTTGAAGATGTTGCCGGCATTGCTGACACTGTCAGTGA
Found at i:98735788 original size:18 final size:18
Alignment explanation
Indices: 98735767--98735805 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
98735757 CTATTTTTGG
**
98735767 TATTATTAATTTTTTAAT
1 TATTATTAAAATTTTAAT
*
98735785 TATTTTTAAAATTTTAAT
1 TATTATTAAAATTTTAAT
98735803 TAT
1 TAT
98735806 CCCGCTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATTAAAATTTTAAT
Found at i:98739243 original size:46 final size:44
Alignment explanation
Indices: 98739184--98739298 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
98739174 ACAGGACAGA
* *
98739184 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
98739230 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
98739274 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
98739299 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:98739279 original size:44 final size:45
Alignment explanation
Indices: 98739184--98739317 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
98739174 ACAGGACAGA
* *
98739184 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
98739230 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
98739274 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
98739318 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:98747675 original size:5 final size:5
Alignment explanation
Indices: 98747665--98747690 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
98747655 ATCGAGTTTT
98747665 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
98747691 TAAATTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:98754238 original size:29 final size:30
Alignment explanation
Indices: 98754184--98754245 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
98754174 ATCTCAAAAT
*
98754184 TATACATAAATTTTAATTTATTGTATAGTTA
1 TATACATAAATTTTAATTTA-TGTATAATTA
*
98754215 TATATATAAATTTTAATTTA-GTATAATTA
1 TATACATAAATTTTAATTTATGTATAATTA
98754244 TA
1 TA
98754246 CATGTGAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.34
31 19 0.66
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (30 bp):
TATACATAAATTTTAATTTATGTATAATTA
Found at i:98763059 original size:25 final size:25
Alignment explanation
Indices: 98763031--98763080 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
98763021 GTTAAAAAAA
* *
98763031 TAAATATAT-TAATTTATTTTTATAT
1 TAAATAGATATAA-TTATTTGTATAT
98763056 TAAATAGATATAATTATTTGTATAT
1 TAAATAGATATAATTATTTGTATAT
98763081 GCAATATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TAAATAGATATAATTATTTGTATAT
Found at i:98766064 original size:45 final size:45
Alignment explanation
Indices: 98766014--98766111 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
98766004 GCAACGATAG
* **
98766014 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATTTGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTGTC-GAATCGGTAA
* *
98766059 CAGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
98766104 CAGTAACA
1 CAGTAACA
98766112 ATAGTCGTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:98766359 original size:40 final size:40
Alignment explanation
Indices: 98766314--98766400 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
98766304 AATTCATTAC
* * *
98766314 TTCAGTAATTTCACAGTTCAATGCAATACACATAACAATA
1 TTCAGTAATTTCAAAATTCAATGCAATACACAAAACAATA
* ** * *
98766354 TTCAGTAATTTTAAAATTCAATTTAGTACTCAAAACAATA
1 TTCAGTAATTTCAAAATTCAATGCAATACACAAAACAATA
98766394 TTCAGTA
1 TTCAGTA
98766401 TTCTATAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (40 bp):
TTCAGTAATTTCAAAATTCAATGCAATACACAAAACAATA
Found at i:98767223 original size:16 final size:16
Alignment explanation
Indices: 98767173--98767225 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
98767163 GTTTTGTTTC
*
98767173 TATTTATTTTATACTT
1 TATTTACTTTATACTT
*
98767189 TATTT-CTTTTTACTT
1 TATTTACTTTATACTT
98767204 TATTTACTTTATA-TT
1 TATTTACTTTATACTT
98767219 ATATTTA
1 -TATTTA
98767226 ATTAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTACTTTATACTT
Found at i:98771612 original size:23 final size:23
Alignment explanation
Indices: 98771582--98771668 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
98771572 GCTTTACTGA
* *
98771582 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
98771605 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* * *
98771626 TCAGGTACCTCGTGTGTTGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
98771648 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
98771669 ACTGATCAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 31 0.61
22 2 0.04
23 18 0.35
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:98778064 original size:16 final size:17
Alignment explanation
Indices: 98778040--98778073 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
98778030 GGCTAATCAA
98778040 TTTTCTTTT-AAAATTT
1 TTTTCTTTTGAAAATTT
*
98778056 TTTTTTTTTGAAAATTT
1 TTTTCTTTTGAAAATTT
98778073 T
1 T
98778074 GATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCTTTTGAAAATTT
Found at i:98782971 original size:29 final size:28
Alignment explanation
Indices: 98782938--98783004 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
98782928 TTAAATTAGT
98782938 AATAATAAAATTATACATTAAT-CTCTAAA
1 AATAATAAAATT-TA-ATTAATCCTCTAAA
* *
98782967 AATAATAAAAATTTAATTTATCCTTTAAA
1 AATAAT-AAAATTTAATTAATCCTCTAAA
98782996 AATAATAAA
1 AATAATAAA
98783005 TATATAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 8 0.24
29 20 0.59
30 6 0.18
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (28 bp):
AATAATAAAATTTAATTAATCCTCTAAA
Found at i:98796278 original size:22 final size:21
Alignment explanation
Indices: 98796240--98796282 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
98796230 ATCTTTGAAT
98796240 CAAAATTATGTCAAATTTTGA
1 CAAAATTATGTCAAATTTTGA
98796261 CAAAATTCATGT-ATAATTTTGA
1 CAAAATT-ATGTCA-AATTTTGA
98796283 GATAGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
CAAAATTATGTCAAATTTTGA
Found at i:98801855 original size:17 final size:18
Alignment explanation
Indices: 98801833--98801872 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
98801823 ATATGTTTAG
*
98801833 TTATTT-ATTTTTTAATT
1 TTATTTAATTTTTGAATT
98801850 TTATTTAAATTTTTGAATT
1 TTATTT-AATTTTTGAATT
98801869 TTAT
1 TTAT
98801873 AATTTGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
19 14 0.70
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTATTTAATTTTTGAATT
Found at i:98802572 original size:31 final size:31
Alignment explanation
Indices: 98802515--98802573 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
98802505 AAGATTTTAA
* *
98802515 ATTAAAAATAATAAAACTATACTTTAATTTT
1 ATTAAAAATAATAAAAATATAATTTAATTTT
*
98802546 ATTAAAAATGATAAAAA-ATTAATTTAAT
1 ATTAAAAATAATAAAAATA-TAATTTAAT
98802574 CTTTTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (31 bp):
ATTAAAAATAATAAAAATATAATTTAATTTT
Found at i:98802598 original size:15 final size:15
Alignment explanation
Indices: 98802578--98802619 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
98802568 TTTAATCTTT
*
98802578 TATAAATTATTAAGA
1 TATAAATTATTAAAA
98802593 TATAAATTATTAAAA
1 TATAAATTATTAAAA
98802608 TAGTAAAATTAT
1 TA-T-AAATTAT
98802620 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 16 0.67
16 1 0.04
17 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (15 bp):
TATAAATTATTAAAA
Found at i:98807875 original size:42 final size:43
Alignment explanation
Indices: 98807820--98807906 Score: 149
Period size: 42 Copynumber: 2.0 Consensus size: 43
98807810 ATACAAACAG
98807820 AAGTCTTTAAAAAAACGAAAATATTAGTAATAA-TCTTTTTAA
1 AAGTCTTTAAAAAAACGAAAATATTAGTAATAATTCTTTTTAA
* *
98807862 AAGTGTTTAAAAAAACGAAAATATTAGTAATAATTTTTTTTAA
1 AAGTCTTTAAAAAAACGAAAATATTAGTAATAATTCTTTTTAA
98807905 AA
1 AA
98807907 TGTACTTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 32 0.76
43 10 0.24
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (43 bp):
AAGTCTTTAAAAAAACGAAAATATTAGTAATAATTCTTTTTAA
Found at i:98808466 original size:27 final size:27
Alignment explanation
Indices: 98808406--98808466 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
98808396 ATTTTTTACT
98808406 CTAAAACTCAAACTTAGAATCTTAAAC
1 CTAAAACTCAAACTTAGAATCTTAAAC
* *
98808433 TTCAAACTCAAACATT-GAAT-TCTAAAC
1 CTAAAACTCAAAC-TTAGAATCT-TAAAC
98808460 CTAAAAC
1 CTAAAAC
98808467 CTTGAACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (27 bp):
CTAAAACTCAAACTTAGAATCTTAAAC
Found at i:98830750 original size:6 final size:6
Alignment explanation
Indices: 98830750--98830778 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
98830740 TAAAATGAAA
98830750 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
98830779 ATGGAAGAGG
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:98830754 original size:22 final size:20
Alignment explanation
Indices: 98830726--98830779 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
98830716 TAAGAAACTG
** *
98830726 AAAAAAAAAAGGATTAAAAT
1 AAAAAAAAAAAAATAAAAAT
98830746 GAAAAAAAATAAAAATAAAAAT
1 -AAAAAAAA-AAAAATAAAAAT
98830768 AAAAATAAAAAA
1 AAAAA-AAAAAA
98830780 TGGAAGAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (20 bp):
AAAAAAAAAAAAATAAAAAT
Found at i:98843662 original size:23 final size:24
Alignment explanation
Indices: 98843623--98843670 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
98843613 CCCTAAATTT
*
98843623 CAAAAACTATTACAAACC-CTAAA
1 CAAAAACTATTAAAAACCTCTAAA
98843646 CAAAAATCT-TTAAAAACCTCTAAA
1 CAAAAA-CTATTAAAAACCTCTAAA
98843670 C
1 C
98843671 TCTAATCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (24 bp):
CAAAAACTATTAAAAACCTCTAAA
Done.