Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 63 of 147
Found at i:11883720 original size:553 final size:546
Alignment explanation
Indices: 11882515--11883797 Score: 1584
Period size: 553 Copynumber: 2.3 Consensus size: 546
11882505 TAGATAACCG
** * *
11882515 CCTTCAATAATTATGTACAAAAATTA-AGAAGAATTACTAAAGGCAT-TTTTT-TAGAATAAATG
1 CCTTCAATAATTATGTACGTAAATTAGA-AAGAATTAGTGAA-G-ATGTTTTTATAGAATAAATG
* * * * *
11882577 CCTTCACTAATCGTTTTAAAATTTGAGTAGTG-GAATATTGAAAGTGTTTTTCATTGAAAGACGG
63 CCTTCACTAATCGTTTTACAATTTGAGT--TGAGAAAATT-AAAG-GTTTTTCACTG--AGATGC
* * * *
11882641 CTTTAATAATCTTAAAAATTTTAAGAGGTAATTATTGAAGGTGTTTGTTCTCAAAAAATACTTTC
122 CTTTAATAATCCTAAAAATTTTAAGAAGAAATTATTGAAGGTGTTTGTTCTCAAAAAATACCTTC
11882706 AATAATTATGTACATAAATTAGAAGGAATTAGTGACTTTTATAGAATAAATGCCTTCACTAACCA
187 AATAATTATGTACATAAATTAGAAGGAATTAGTGACTTTTATAGAATAAATGCCTTCACTAACCA
* * * ** *
11882771 TTTTAAAATTTGAGTAGTAGAATATTGAAGGCATTTTTCATTGGCAGACCCTTTAATAATCCCAA
252 TCTTAAAATTTGAGTAGTAGAAAATTGAAGGCATTTTTCACTGAAAGACCATTTAATAATCCCAA
* *
11882836 AAATTTTAAAAGGCAATTATTGAAGGCATTTGTTCCTAAAAAACACCTTCAATAATTATGTACAT
317 AAATTTTAAAAGGAAATTATTGAAGGCATTTATTCCTAAAAAACACCTTCAATAATTATGTACAT
* * * * *
11882901 AAATTAGAAGGAATTAGTGAAGGTGTTTTTATAGAATAAATGCATTTACTAACTATTTTAAAATT
382 AAATTAGAAGGAATTAGTGAAGGTGTTTTTATAAAATAAATGCAGTCACTAACCATCTTAAAATT
* ** * *
11882966 TAAGTAGTGAAATATTGAAGGCATTTTTCATTGGCAAACGCCTTTAATAATCCCAAAAATTTTAA
447 TAAGTAGTGAAAAATTGAAAACATTTTTCACTGGCAAACGCCTTTAATAATCCAAAAAATTTTAA
** *
11883031 GAGGCAATTATTGATGGCATTTGTTCAAAAAAACA
512 GAGAAAATTATTGAAGGCATTTGTTCAAAAAAACA
* * *
11883066 CCTTCAATAATTATGTATGTAAATTAGAAAGAATTAGTGAAGGTGTTTTTATAGAATAAACGCCT
1 CCTTCAATAATTATGTACGTAAATTAGAAAGAATTAGTGAAGATGTTTTTATAGAATAAATGCCT
* * * * *
11883131 TCACTAACCATTTTACAAATTAAGTAGTGA-AAAATTAAAGGCATTTTTCACCG-GATGCCTTTA
66 TCACTAATCGTTTTACAATTTGAGT--TGAGAAAATTAAAGG--TTTTTCACTGAGATGCCTTTA
* *
11883194 ATAATCCCAAAAATTTTAAGAAAAAATTATTGAAGGTGTTTGTTCTCAAAAAATACCTTCAATAA
127 ATAATCCTAAAAATTTTAAGAAGAAATTATTGAAGGTGTTTGTTCTCAAAAAATACCTTCAATAA
* *
11883259 TTATGTACGTAAGTTAGAAGGAATTAGTGAATGCGTTTTTATAGAATAAATGCCTTCACTAACCA
192 TTATGTACATAAATTAGAAGGAATTAGTG-A--C--TTTTATAGAATAAATGCCTTCACTAACCA
* *
11883324 TCTTACAATTTGA-TAGT-GAAAAATTGAAGGCATTTTTCACTGAAAGACACATTTAATAATCTC
252 TCTTAAAATTTGAGTAGTAG-AAAATTGAAGGCATTTTTCACTGAAAGAC-CATTTAATAATCCC
* * *
11883387 AAAAATTTTAAGAGGAAATTATTGAAGGTATTTATT-CTAAAAAA-ATGCCTTTAATAATTATGT
315 AAAAATTTTAAAAGGAAATTATTGAAGGCATTTATTCCTAAAAAACA--CCTTCAATAATTATGT
* * *
11883450 ACGTAAATTAGAAGGAATTAGTGAAGGTGTTTTTATAAAATAAATGCCGTCACTAACCATCTTAC
378 ACATAAATTAGAAGGAATTAGTGAAGGTGTTTTTATAAAATAAATGCAGTCACTAACCATCTTAA
* ** *
11883515 AATTTAAGTTGTGAAAAATTGAAAATGTTTTTCACTGG-AAGACGCCTTTAATAATCTAAAAAAT
443 AATTTAAGTAGTGAAAAATTGAAAACATTTTTCACTGGCAA-ACGCCTTTAATAATCCAAAAAAT
* * **
11883579 TTTAAGAGAAAATTATTGAAGGCGTTTGTTCTAAAAAATG
507 TTTAAGAGAAAATTATTGAAGGCATTTGTTCAAAAAAACA
* * *
11883619 CCTTTAATAGTTATGTACGTAAATTAGAAAGAATTAGTGAAGATGTTTTTCTAGAATAAATGCCT
1 CCTTCAATAATTATGTACGTAAATTAGAAAGAATTAGTGAAGATGTTTTTATAGAATAAATGCCT
* * *
11883684 TCACTAATCGTCTTACAATTTGAGTTGCAGAAAATTAAAGGTGTTTCTCACTGAATGATACTTTT
66 TCACTAATCGTTTTACAATTTGAGTTG-AGAAAATTAAAGGT-TTT-TCACTG-A-GATGCCTTT
* *
11883749 AATAATCCTAAAAATTTTAA-AAGGAAATTATTG-ATGCGTTTGTTCTCAA
126 AATAATCCTAAAAATTTTAAGAA-GAAATTATTGAAGGTGTTTGTTCTCAA
11883798 CAAACGCCTT
Statistics
Matches: 628, Mismatches: 80, Indels: 44
0.84 0.11 0.06
Matches are distributed among these distances:
548 94 0.15
549 3 0.00
550 10 0.02
551 90 0.14
552 44 0.07
553 336 0.54
555 16 0.03
556 35 0.06
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (546 bp):
CCTTCAATAATTATGTACGTAAATTAGAAAGAATTAGTGAAGATGTTTTTATAGAATAAATGCCT
TCACTAATCGTTTTACAATTTGAGTTGAGAAAATTAAAGGTTTTTCACTGAGATGCCTTTAATAA
TCCTAAAAATTTTAAGAAGAAATTATTGAAGGTGTTTGTTCTCAAAAAATACCTTCAATAATTAT
GTACATAAATTAGAAGGAATTAGTGACTTTTATAGAATAAATGCCTTCACTAACCATCTTAAAAT
TTGAGTAGTAGAAAATTGAAGGCATTTTTCACTGAAAGACCATTTAATAATCCCAAAAATTTTAA
AAGGAAATTATTGAAGGCATTTATTCCTAAAAAACACCTTCAATAATTATGTACATAAATTAGAA
GGAATTAGTGAAGGTGTTTTTATAAAATAAATGCAGTCACTAACCATCTTAAAATTTAAGTAGTG
AAAAATTGAAAACATTTTTCACTGGCAAACGCCTTTAATAATCCAAAAAATTTTAAGAGAAAATT
ATTGAAGGCATTTGTTCAAAAAAACA
Found at i:11890227 original size:134 final size:134
Alignment explanation
Indices: 11889985--11890236 Score: 326
Period size: 134 Copynumber: 1.9 Consensus size: 134
11889975 AAATTAACAT
* * * * *
11889985 TTATTGTTCTGTTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTATTGAAAGTATTG
1 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCGAAAGTATTG
*
11890050 AACTTAGTTGCCACGATTGATATGTATGAAAAAGTTATTGTTTACGTCTATTTAGGTAAAAAAAA
66 AACTTAGTTGCCACGATTGATATGTATGAAAAAGTTATCGTTTACGTCTATTTAGGTAAAAAAAA
11890115 ATTG
131 ATTG
* * **
11890119 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACTTGATATTAAACTTGTCCGATTG-ATT
1 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTAT-CGAAAGTATT
* *** * * * *
11890183 GAACTTGGTTTTTATGGTTGATATGTGTGAAAAAGTTATCGTTTATGTCTATTT
65 GAACTTAGTTGCCACGATTGATATGTATGAAAAAGTTATCGTTTACGTCTATTT
11890237 GGGACTTTTT
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
134 96 0.97
135 3 0.03
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (134 bp):
TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCGAAAGTATTG
AACTTAGTTGCCACGATTGATATGTATGAAAAAGTTATCGTTTACGTCTATTTAGGTAAAAAAAA
ATTG
Found at i:11894344 original size:3 final size:3
Alignment explanation
Indices: 11894336--11894361 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11894326 GATCCATTAA
11894336 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
11894362 GAAAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11894891 original size:3 final size:3
Alignment explanation
Indices: 11894883--11894926 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11894873 TGTATAACAG
11894883 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11894927 GTTTAATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11895847 original size:25 final size:25
Alignment explanation
Indices: 11895813--11895872 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
11895803 CCCATCCTTC
* *
11895813 AACTAGCCCTGAA-TCGGCTCAACCG
1 AACTACCCCTGAACT-GGCCCAACCG
11895838 AACTACCCCTGAACTGGCCCAACCG
1 AACTACCCCTGAACTGGCCCAACCG
*
11895863 AACTGCCCCT
1 AACTACCCCT
11895873 ATTTTCCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.42, G:0.17, T:0.15
Consensus pattern (25 bp):
AACTACCCCTGAACTGGCCCAACCG
Found at i:11907825 original size:10 final size:10
Alignment explanation
Indices: 11907810--11907843 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
11907800 TATTTTACGT
11907810 AAAAAAAAAG
1 AAAAAAAAAG
11907820 -AAAAAAAAG
1 AAAAAAAAAG
*
11907829 CAAAAAAAAG
1 AAAAAAAAAG
11907839 AAAAA
1 AAAAA
11907844 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11907842 original size:16 final size:16
Alignment explanation
Indices: 11907813--11907857 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
11907803 TTTACGTAAA
*
11907813 AAAAAAGAAAAAAAAGC
1 AAAAAA-AAGAAAAAGC
*
11907830 AAAAAAAAGAAAAAGT
1 AAAAAAAAGAAAAAGC
11907846 AAAAAAAAGAAA
1 AAAAAAAAGAAA
11907858 GTGATTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGC
Found at i:11907854 original size:10 final size:9
Alignment explanation
Indices: 11907811--11907843 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
11907801 ATTTTACGTA
11907811 AAAAAAAAG
1 AAAAAAAAG
11907820 AAAAAAAAG
1 AAAAAAAAG
11907829 CAAAAAAAAG
1 -AAAAAAAAG
11907839 AAAAA
1 AAAAA
11907844 GTAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:11909003 original size:35 final size:36
Alignment explanation
Indices: 11908952--11909052 Score: 123
Period size: 38 Copynumber: 2.8 Consensus size: 36
11908942 CTAGTCACTT
* * *
11908952 TTCTGACTTGTAGTTTAGTCCCAATCATCATTAATC
1 TTCTAACTTGTGGTTTAATCCCAATCATCATTAATC
* *
11908988 -TCTAACTTGTGGTTTAATCCCAATCATTTCTTTATTC
1 TTCTAACTTGTGGTTTAATCCCAATCA--TCATTAATC
*
11909025 TTCTAACTTATGGTTTAATCCCAATCAT
1 TTCTAACTTGTGGTTTAATCCCAATCAT
11909053 TTTTTTTACT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
35 23 0.41
36 1 0.02
37 7 0.12
38 25 0.45
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.45
Consensus pattern (36 bp):
TTCTAACTTGTGGTTTAATCCCAATCATCATTAATC
Found at i:11909039 original size:38 final size:38
Alignment explanation
Indices: 11908964--11909244 Score: 133
Period size: 36 Copynumber: 7.9 Consensus size: 38
11908954 CTGACTTGTA
* * * *
11908964 GTTTAGTCCCAATCA--TCATTAATC-TCTAACTTGTG
1 GTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATG
11908999 GTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATG
1 GTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATG
11909037 GTTTAATCCCAATCATTT-TTT-TTACTTAC-AA-TTCA--
1 GTTTAATCCCAATCATTTCTTTATT-CTT-CTAACTT-ATG
* * * * *
11909072 GTTCTAGT--C-GTCA-----TTAATC-TCTGACTCATG
1 GTT-TAATCCCAATCATTTCTTTATTCTTCTAACTTATG
*
11909102 GTTTAATCCCGATCATTTCTTTATTCTTCTAACTTATG
1 GTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATG
* * * *
11909140 GTTTAATCTCAGTCA-CT-TTTATTTTTCTAACTTATG
1 GTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATG
* * * * * * * **
11909176 GTTCAGTCCCAGT--TGTCATTAGTCTT-TGACTCGT-
1 GTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATG
* *
11909210 GTTTAATCCCGATCATTTCTTTATTCTTCTGACTT
1 GTTTAATCCCAATCATTTCTTTATTCTTCTAACTT
11909245 GCAGTTTAAT
Statistics
Matches: 183, Mismatches: 37, Indels: 50
0.68 0.14 0.19
Matches are distributed among these distances:
27 1 0.01
28 3 0.02
29 7 0.04
30 4 0.02
31 1 0.01
32 3 0.02
33 3 0.02
34 10 0.05
35 23 0.13
36 51 0.28
37 27 0.15
38 50 0.27
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (38 bp):
GTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATG
Found at i:11909086 original size:103 final size:103
Alignment explanation
Indices: 11908877--11910089 Score: 847
Period size: 103 Copynumber: 11.7 Consensus size: 103
11908867 GTCTTGGTTA
* ** * * *
11908877 CATTAATCTTTGACTTATGGTTTAATCCTGATCATTTCTTTATTTTTCTGACTTGCAGTTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* * * * *** * * **
11908942 CTAGTCACTTTTCTGACTTGTAGTTTAGTCCCAATCAT
66 CCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * * * **
11908980 CATTAATCTCTAACTTGTGGTTTAATCCCAATCATTTCTTTATTCTTCTAACTTATGGTTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* ** * * *
11909045 CCAATCATTTTTTTTACTTACAATTCAGTTCTAGTCGT
66 CCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * **
11909083 CATTAATCTCTGACTCATGGTTTAATCCCGATCATTTCTTTATTCTTCTAACTTATGGTTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* * * *
11909148 TCAGTCACTTTTATTTTTCTAACTTATGGTTCAGTCCCAGTTGT
66 CCAATCA----T-TTTTT-TGACTTACGGTTCAGTCCCAGTTGT
* * * *
11909192 CATTAGTCTTTGACTCGT-GTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCAGTTTAATT
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
** * * **
11909256 TTAATCACTTTTATTTTTTTGA-TTACGATTTAGTCCCAGTCAT
66 CCAAT--C----ATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * * * *
11909299 CATTAATCTCTGACTCATGGTTTAATCCAGGTCATTTCTTTATTTTTTTGACTTGCGGTTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* ** * *
11909364 CCAATCACTTTTTTGACTTTTGGTTCAGTCCTAATTGT
66 CCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * * * * * * *
11909402 CATTAGTCTCTGACTTGTGG--T--T-CAG-TCATTTCTTCATTCTTTTGATTTGTGATTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* * * ** * *
11909461 CCAGTCACTTTTCTGACTTATAGTTCAATCCTAGTTGT
66 CCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * * * *
11909499 CATTAATCTTTGACTCGTGGTTTAATCCTGGTCATTTCTTTATTCTTCTGACTTTCGATTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
** * * * *
11909564 TTAGTCA-GTTTTTGACTCACAGTTCAGTCCCAGTTGT
66 CCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * * * * * * * * *
11909601 CATTAGTCTTTGACTCGTTGTTTAATCCTGATCACTTCTTTATTCTTCTAACCTACGTTTTAGTC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* * * * * **
11909666 TCAGTCACTTTTTATTTTTCTGACTTGCAGTTCAGTCCTAGTCAT
66 CCAATCA-----T-TTTTT-TGACTTACGGTTCAGTCCCAGTTGT
* * * * * *
11909711 CATTAATCTCTGGCTCATGGTTTAATCTCGATCATTTCTTTATTTTTCTAACTTGCGATTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* * *
11909776 CCAGTCACTTTTCTGACTTACGGTTCAGTCCCAGTTGT
66 CCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * *
11909814 CATTAATCTCTAACTCATGGTTTAATCCC-AGTCATTTCTTTATTCTTTTGACTTGCGGTTTAAT
1 CATTAATCTCTGACTCGTGGTTTAATCCCGA-TCATTTCTTTATTCTTCTGACTTGCGGTTTAAT
* * * * * *
11909878 CCCAATCACTTTTCTAACTTGCGGTTTAGTCCCAGTTGC
65 CCCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * ** * * *
11909917 CATTAATCTCTAACTTGTGGTTTAATCTTGGTCATTTCTATAATC-TCTGACTTGCGGTTTAATC
1 CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
* * * * *
11909981 TCAATCATTTTTATTTTTTTGACTTGCAGTCCAGTCCCAGTCGT
66 CCAATC------ATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
* * * * *
11910025 --TTAATCTCTGACTCGTGATTTAAT-CCTAGTCATTT-TTATAAT-ATCTGACTTGCGATTTAA
1 CATTAATCTCTGACTCGTGGTTTAATCCCGA-TCATTTCTT-TATTCTTCTGACTTGCGGTTTAA
11910085 TCCCA
64 TCCCA
11910090 GTTGATTTTA
Statistics
Matches: 892, Mismatches: 179, Indels: 75
0.78 0.16 0.07
Matches are distributed among these distances:
97 78 0.09
98 3 0.00
99 2 0.00
101 2 0.00
102 121 0.14
103 356 0.40
104 4 0.00
105 1 0.00
106 52 0.06
107 32 0.04
108 118 0.13
109 42 0.05
110 80 0.09
114 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (103 bp):
CATTAATCTCTGACTCGTGGTTTAATCCCGATCATTTCTTTATTCTTCTGACTTGCGGTTTAATC
CCAATCATTTTTTTGACTTACGGTTCAGTCCCAGTTGT
Found at i:11909989 original size:37 final size:37
Alignment explanation
Indices: 11909920--11909990 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
11909910 CAGTTGCCAT
* ***
11909920 TAATCTCTAACTTGTGGTTTAATCTTGGTCATTTCTA
1 TAATCTCTAACTTGCGGTTTAATCTCAATCATTTCTA
*
11909957 TAATCTCTGACTTGCGGTTTAATCTCAATCATTT
1 TAATCTCTAACTTGCGGTTTAATCTCAATCATTT
11909991 TTATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (37 bp):
TAATCTCTAACTTGCGGTTTAATCTCAATCATTTCTA
Found at i:11910160 original size:37 final size:36
Alignment explanation
Indices: 11909929--11910185 Score: 164
Period size: 37 Copynumber: 7.1 Consensus size: 36
11909919 TTAATCTCTA
*** * * *
11909929 ACTTGTGGTTTAATCTTGGTCATTTCTATAATCTCTG
1 ACTTGTGGTTTAATCCCAGTCATTTTTAT-TTTTCTG
* * * *
11909966 ACTTGCGGTTTAATCTCAATCATTTTTATTTTTTTG
1 ACTTGTGGTTTAATCCCAGTCATTTTTATTTTTCTG
** ** * * * *
11910002 ACTTGCAGTCCAGTCCCAGTC--GTTTA-ATCTCTG
1 ACTTGTGGTTTAATCCCAGTCATTTTTATTTTTCTG
* * * * *
11910035 ACTCGTGATTTAATCCTAGTCATTTTTATAATATCTG
1 ACTTGTGGTTTAATCCCAGTCATTTTTAT-TTTTCTG
* * * **
11910072 ACTTGCGATTTAATCCCAGTTGA-TTTTATTTTTCAA
1 ACTTGTGGTTTAATCCCAG-TCATTTTTATTTTTCTG
*
11910108 AC-TGTGGTTCAATCCCAGTCATTTTTATTTTTCTTG
1 ACTTGTGGTTTAATCCCAGTCATTTTTATTTTTC-TG
*
11910144 ACTTGTGGTTTAATCCCAGTCATTTTTATTTTTTCTA
1 ACTTGTGGTTTAATCCCAGTCATTTTTA-TTTTTCTG
11910181 ACTTG
1 ACTTG
11910186 CAATTCAATC
Statistics
Matches: 167, Mismatches: 44, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
33 17 0.10
34 6 0.04
35 28 0.17
36 26 0.16
37 82 0.49
38 8 0.05
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (36 bp):
ACTTGTGGTTTAATCCCAGTCATTTTTATTTTTCTG
Found at i:11910559 original size:3 final size:3
Alignment explanation
Indices: 11910551--11910616 Score: 105
Period size: 3 Copynumber: 22.0 Consensus size: 3
11910541 AATTTTTTGT
11910551 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
11910599 ATA GTA GTA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA
11910617 TTGGTTTAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11910726 original size:3 final size:3
Alignment explanation
Indices: 11910718--11910771 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
11910708 AATTTTTTGT
11910718 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11910766 ATA ATA
1 ATA ATA
11910772 TTGGTTTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11911838 original size:3 final size:3
Alignment explanation
Indices: 11911830--11911883 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
11911820 AATTTTTTGT
11911830 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11911878 ATA ATA
1 ATA ATA
11911884 TTAGTTTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11917041 original size:196 final size:190
Alignment explanation
Indices: 11916695--11917270 Score: 702
Period size: 196 Copynumber: 3.0 Consensus size: 190
11916685 ATTATTATAT
* * * *
11916695 TATTGATCAAATAACTCTATTTAATAAATTATTTAAATTTAATATTTTTTGTTAATTATTTAAAT
1 TATT-ATCAAATAATTCTATTTAATAAATTATCTAAATTTAATA-TTTTTGATAACTATTTAAAT
* * * * * *
11916760 TCAAATCAAAATCTATAAAAGATTAAAAATTTTGCATAAATTTTAAATTCAAATATATTAGAACA
64 TCAAATC-AAATCTATCAAACATTGAAAATTTTACATAAA-TTTGAATT-TAATATATTA-AACA
* * * *
11916825 TAATTTATCTTTTCTTTTTAAATTTAATTACAGTTTCAAATATACATATTCTTAATAGATTTTTA
125 TAATTTATCTTTT-TTTTTAAATTTAATCATAGTTTCAAATATACATATGCTTAATACATTTTTA
11916890 TC
189 TC
* *
11916892 TATTATCAAATAATTCTATATAATAAATGATCTAAATTTAATATTTTTGAATAACTAATTTAAAT
1 TATTATCAAATAATTCTATTTAATAAATTATCTAAATTTAATATTTTTG-ATAACT-ATTTAAAT
*
11916957 TCAAACCAAACTCTATCAAACATTGAAAATTTTACATAAATGTTGAATTTAATATATTAAACCAT
64 TCAAATCAAA-TCTATCAAACATTGAAAATTTTACATAAAT-TTGAATTTAATATATTAAA-CAT
* *
11917022 AATTTATCTTTTATTTTTAAATTTAATCATAGTTCCAAATATATATATGCTTAATACATTTTTAT
126 AATTTATCTTTT-TTTTTAAATTTAATCATAGTTTCAAATATACATATGCTTAATACATTTTTAT
11917087 C
190 C
* * * *
11917088 TGTTGTCAAATAATTCTATTTAATAAATTATCTAAATTTAATATTTTTGGATAACTATTCAAGTT
1 TATTATCAAATAATTCTATTTAATAAATTATCTAAATTTAATATTTTT-GATAACTATTTAAATT
11917153 CAAATCAAA-C--TC---CATTGAAAATTTTACATAAAATTTGAATTTAAATATATTAAATCATA
65 CAAATCAAATCTATCAAACATTGAAAATTTTACAT-AAATTTGAATTT-AATATATTAAA-CATA
* *
11917212 ATTTAT-TTTTTCTTTTAAATTTAATCATAGTTTCAAATAT--ATACGCTTAATAAATTTTT
127 ATTTATCTTTTT-TTTTAAATTTAATCATAGTTTCAAATATACATATGCTTAATACATTTTT
11917271 TTCAAATAAA
Statistics
Matches: 339, Mismatches: 31, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
186 17 0.05
187 1 0.00
188 56 0.17
189 25 0.07
191 2 0.01
193 1 0.00
195 23 0.07
196 164 0.48
197 50 0.15
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.45
Consensus pattern (190 bp):
TATTATCAAATAATTCTATTTAATAAATTATCTAAATTTAATATTTTTGATAACTATTTAAATTC
AAATCAAATCTATCAAACATTGAAAATTTTACATAAATTTGAATTTAATATATTAAACATAATTT
ATCTTTTTTTTTAAATTTAATCATAGTTTCAAATATACATATGCTTAATACATTTTTATC
Found at i:11920374 original size:15 final size:15
Alignment explanation
Indices: 11920354--11920388 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
11920344 AATAATTTTA
11920354 CTTTTCCTTTTC-TTT
1 CTTTT-CTTTTCATTT
11920369 CTTTTCTTTTCATTT
1 CTTTTCTTTTCATTT
11920384 CTTTT
1 CTTTT
11920389 TTCCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
CTTTTCTTTTCATTT
Found at i:11921551 original size:14 final size:15
Alignment explanation
Indices: 11921532--11921565 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11921522 CAAAGGTAAT
*
11921532 AATAATA-ATTATTG
1 AATAATATATTATTA
11921546 AATAATATATTATTA
1 AATAATATATTATTA
11921561 AATAA
1 AATAA
11921566 AGAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AATAATATATTATTA
Found at i:11922166 original size:15 final size:17
Alignment explanation
Indices: 11922131--11922167 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11922121 ATACAAAGGT
*
11922131 AATAATAATAGTTATTG
1 AATAATAATAGTTATTA
11922148 AATAAT-ATA-TTATTA
1 AATAATAATAGTTATTA
11922163 AATAA
1 AATAA
11922168 AGAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 3 0.16
17 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AATAATAATAGTTATTA
Found at i:11922460 original size:602 final size:602
Alignment explanation
Indices: 11921289--11922464 Score: 1724
Period size: 602 Copynumber: 1.9 Consensus size: 602
11921279 GTTCTTCCAA
* * * *
11921289 ATGCACCAAACTTTGAGCAAGGGGAGTTGGAAAGAGATATACCAGCTTCGAACACTTCTCTATTC
1 ATGCAACAAACTATGAGCAAGGGGAGTTGGAAAGAGATATACCAGCTTCAAACACTTCTCTATGC
*
11921354 TCATAGTCTTCAGACTTTGGAGTTTAACAAGATGGGTGGGCCCTTTCCATATCCACTTCAATTCT
66 TCATAGTCTTAAGACTTTGGAGTTTAACAAGATGGGTGGGCCCTTTCCATATCCACTTCAATTCT
* * *
11921419 GGTAATGCGTATAGCTTCAAATAAGTTAAATCAGAGAGTGGGCGTACCTGACATGAATTCATTGA
131 GGCAATGCG-ATAGCTCCAAAGAAGTTAAATCAGAGAGTGGGCGTACCTGACA--AATTCATTGA
* *
11921484 TTGAAAATGTATATAAATATATTGACAAGACATACATACAAAGGTAATAATAATAATTATTGAAT
193 TTGAAAATGTAAATAAATATATGGACAAGACATACATACAAAGGTAATAATAATAATTATTGAAT
*
11921549 AATATATTATTAAATAAAGAATAAAAAAAAGAGAAAAAATACAATGACTTTATAAAGTGTGTTAA
258 AATATATTATTAAATAAAGAATAAAAAAAAAAGAAAAAATACAATGACTTTATAAAGTGTGTTAA
* * * *
11921614 TAAAGAGGAAAAAAAGATACATGACGGTAGTTTTCTCAACCTGTAAGCTATGTAATAAATAAACA
323 TAAAGAGAAAAAAAAGATACATGAAGGTAGTTTTCTCAACCTGCAAGCTATGCAATAAATAAACA
11921679 TTTAAATTAATTACTAATATAATTTAATTAAACTTTCTTTCTTTCAAACTTAAACAAAAGTTAAT
388 TTTAAATTAATTACTAATATAATTTAATTAAACTTTCTTTCTTTCAAACTTAAACAAAAGTTAAT
* *
11921744 TATATGAAGAATACATAAAATTTAATATTTTCTTACTATTTATTAAAAGAGAAATAGAAAAAGAA
453 TATATGAAGAATACATAAAATTTAATAATTTCTCACTATTTATTAAAAGAGAAATAGAAAAAGAA
** * * *
11921809 AAGGTACCTCAAGCTCAACCATTTCTTGAGAAAAATTAAAGATTTGCTCTAATCCTTCACATAAT
518 AAAATACCTCAAACTCAACCATTTCTTGAGAAAAATCAAAGACTTGCTCTAATCCTTCACATAAT
11921874 TGTACGGAGAGTTGTTGCAG
583 TGTACGGAGAGTTGTTGCAG
* *
11921894 ATGCAACAAACTATGAGCAAGGGGAGTTGGAAAGAGATATGCCAGCTTCAAACACTTCTGTATGC
1 ATGCAACAAACTATGAGCAAGGGGAGTTGGAAAGAGATATACCAGCTTCAAACACTTCTCTATGC
* *
11921959 TCATAGTCTTAAGACTTTGGAGTTTAACAAGATGGGTGGGTCCTTTCCATATCCACTTCAGTTCT
66 TCATAGTCTTAAGACTTTGGAGTTTAACAAGATGGGTGGGCCCTTTCCATATCCACTTCAATTCT
**
11922024 GGCAATGAC-ACTAGCTCCAAAGAAGTTAAATTGGAGAGT-GGCTGTACCTGAC-AATTCATTGA
131 GGCAATG-CGA-TAGCTCCAAAGAAGTTAAATCAGAGAGTGGGC-GTACCTGACAAATTCATTGA
* * *
11922086 TTGAAAATGTAAATAAATATCTGGACAAGACGTACATACAAAGGTAATAATAATAGTTATTGAAT
193 TTGAAAATGTAAATAAATATATGGACAAGACATACATACAAAGGTAATAATAATAATTATTGAAT
* *
11922151 AATATATTATTAAATAAAGAATAAAAAAAAAAGAAAAAATACAATGATTTTATAATGTGTGTTAA
258 AATATATTATTAAATAAAGAATAAAAAAAAAAGAAAAAATACAATGACTTTATAAAGTGTGTTAA
* ** * *
11922216 TAACGA-AAAAAAAAGATGTAT-AATGTAAGTTTTCTCAACCTGCAAG-TCATGCAATAAATATA
323 TAAAGAGAAAAAAAAGATACATGAAGGT-AGTTTTCTCAACCTGCAAGCT-ATGCAATAAATAAA
* * * *
11922278 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTCTTTCTTTTAAACTTAAACAGAAGTTA
386 CATTTAAATTAATTACTAATATAATTTAATTAAACTTTCTTTCTTTCAAACTTAAACAAAAGTTA
* * * * *
11922343 ATTATATGATCA-AATATATAAAATTTAGTAATTTCTCATTATTT-TGTAAAGGAGAAATGGAAA
451 ATTATATGA--AGAATACATAAAATTTAATAATTTCTCACTATTTAT-TAAAAGAGAAATAGAAA
* *
11922406 GAGAAAAAATACCTGAAACTC-ACTCATTTCTTG-GAAAAAATCAAAGACTTGCTCTAATC
513 AAGAAAAAATACCTCAAACTCAAC-CATTTCTTGAG-AAAAATCAAAGACTTGCTCTAATC
11922465 TATCGCACTC
Statistics
Matches: 512, Mismatches: 49, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
600 4 0.01
601 116 0.23
602 226 0.44
603 1 0.00
604 4 0.01
605 160 0.31
606 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (602 bp):
ATGCAACAAACTATGAGCAAGGGGAGTTGGAAAGAGATATACCAGCTTCAAACACTTCTCTATGC
TCATAGTCTTAAGACTTTGGAGTTTAACAAGATGGGTGGGCCCTTTCCATATCCACTTCAATTCT
GGCAATGCGATAGCTCCAAAGAAGTTAAATCAGAGAGTGGGCGTACCTGACAAATTCATTGATTG
AAAATGTAAATAAATATATGGACAAGACATACATACAAAGGTAATAATAATAATTATTGAATAAT
ATATTATTAAATAAAGAATAAAAAAAAAAGAAAAAATACAATGACTTTATAAAGTGTGTTAATAA
AGAGAAAAAAAAGATACATGAAGGTAGTTTTCTCAACCTGCAAGCTATGCAATAAATAAACATTT
AAATTAATTACTAATATAATTTAATTAAACTTTCTTTCTTTCAAACTTAAACAAAAGTTAATTAT
ATGAAGAATACATAAAATTTAATAATTTCTCACTATTTATTAAAAGAGAAATAGAAAAAGAAAAA
ATACCTCAAACTCAACCATTTCTTGAGAAAAATCAAAGACTTGCTCTAATCCTTCACATAATTGT
ACGGAGAGTTGTTGCAG
Found at i:11924224 original size:27 final size:27
Alignment explanation
Indices: 11924194--11924250 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
11924184 TACATAGATT
11924194 TCATTATCATAAGCACCTTCACGAACA
1 TCATTATCATAAGCACCTTCACGAACA
11924221 TCATTATCATAAGCACCTTCACGAACA
1 TCATTATCATAAGCACCTTCACGAACA
11924248 TCA
1 TCA
11924251 ACTTTCAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (27 bp):
TCATTATCATAAGCACCTTCACGAACA
Found at i:11929212 original size:16 final size:16
Alignment explanation
Indices: 11929194--11929225 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11929184 CGGGTCTATA
11929194 TTTTTTAATAATAATAT
1 TTTTTTAA-AATAATAT
11929211 TTTTTTAAAATAATA
1 TTTTTTAAAATAATA
11929226 ATAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTTAAAATAATAT
Found at i:11930146 original size:22 final size:22
Alignment explanation
Indices: 11930120--11930171 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
11930110 TTGAGCCAGA
11930120 CCGAACCGCTCTTTAGATCGGT
1 CCGAACCGCTCTTTAGATCGGT
11930142 CCGAACCGCTCTTTAGATCGGT
1 CCGAACCGCTCTTTAGATCGGT
11930164 CCGAACCG
1 CCGAACCG
11930172 TTCCTCAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (22 bp):
CCGAACCGCTCTTTAGATCGGT
Found at i:11930316 original size:18 final size:19
Alignment explanation
Indices: 11930295--11930345 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
11930285 GAATTTTCTA
*
11930295 ATTTTTTTATATATT-ATT
1 ATTTTTTTATATATTAAGT
11930313 ATTTTTGTTAT-T-TTAAGT
1 ATTTTT-TTATATATTAAGT
11930331 ATTTTTTTTATATAT
1 A-TTTTTTTATATAT
11930346 ATTCAAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 2 0.07
18 14 0.52
19 10 0.37
20 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTTTTTATATATTAAGT
Found at i:11930807 original size:15 final size:15
Alignment explanation
Indices: 11930787--11930843 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
11930777 TTCTAAAACC
11930787 CCAAAAATCCTAAAT
1 CCAAAAATCCTAAAT
11930802 CCAAAAATCCTAAAT
1 CCAAAAATCCTAAAT
* *
11930817 CCTAAAATCCGAAACT
1 CCAAAAATCCTAAA-T
11930833 CCTAAAAATCC
1 CC-AAAAATCC
11930844 AAAAACCCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
15 27 0.73
16 3 0.08
17 7 0.19
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (15 bp):
CCAAAAATCCTAAAT
Found at i:11930809 original size:8 final size:8
Alignment explanation
Indices: 11930787--11930848 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
11930777 TTCTAAAACC
11930787 CCAAAAAT
1 CCAAAAAT
*
11930795 CC-TAAAT
1 CCAAAAAT
11930802 CCAAAAAT
1 CCAAAAAT
*
11930810 CC-TAAAT
1 CCAAAAAT
*
11930817 CCTAAAAT
1 CCAAAAAT
* *
11930825 CCGAAACT
1 CCAAAAAT
11930833 CCTAAAAAT
1 CC-AAAAAT
11930842 CCAAAAA
1 CCAAAAA
11930849 CCCTCAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
7 12 0.28
8 25 0.58
9 6 0.14
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.18
Consensus pattern (8 bp):
CCAAAAAT
Found at i:11930874 original size:17 final size:17
Alignment explanation
Indices: 11930817--11930892 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
11930807 AATCCTAAAT
* *
11930817 CCTAAAATCCGAAA-CT
1 CCTAAAATCCAAAACCC
*
11930833 CCTAAAAATCCAAAA-AC
1 CCT-AAAATCCAAAACCC
* * *
11930850 CCTCAAATTCAAACCCC
1 CCTAAAATCCAAAACCC
11930867 CCTAAAATCCAAAACCC
1 CCTAAAATCCAAAACCC
11930884 CCTAAAATC
1 CCTAAAATC
11930893 TGAAATCCCA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
16 11 0.23
17 37 0.77
ACGTcount: A:0.46, C:0.37, G:0.01, T:0.16
Consensus pattern (17 bp):
CCTAAAATCCAAAACCC
Found at i:11930928 original size:22 final size:23
Alignment explanation
Indices: 11930886--11930928 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11930876 CAAAACCCCC
11930886 TAAAATCTGAAATCCCAAACCTT
1 TAAAATCTGAAATCCCAAACCTT
* *
11930909 TAAACTCTTAAAT-CCAAACC
1 TAAAATCTGAAATCCCAAACC
11930929 CCTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.44, C:0.28, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAAATCTGAAATCCCAAACCTT
Found at i:11930940 original size:29 final size:29
Alignment explanation
Indices: 11930907--11931015 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
11930897 ATCCCAAACC
*
11930907 TTTAAACTCTTAAATCCAAACCCCTAAAA
1 TTTAAACTCTTAAATCAAAACCCCTAAAA
* *
11930936 TTTAAACCCTTAAATCAAAACCCC-AAAC
1 TTTAAACTCTTAAATCAAAACCCCTAAAA
* * * *
11930964 CTTAAA-TTTTAAAACCGAAA-CCCTAAAA
1 TTTAAACTCTT-AAATCAAAACCCCTAAAA
*
11930992 TCTTCAAACTCTAAAATCAAAACC
1 T-TT-AAACTCTTAAATCAAAACC
11931016 TTAAACATTC
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
27 5 0.08
28 18 0.30
29 24 0.40
30 10 0.17
31 3 0.05
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.25
Consensus pattern (29 bp):
TTTAAACTCTTAAATCAAAACCCCTAAAA
Found at i:11930961 original size:58 final size:58
Alignment explanation
Indices: 11930883--11931050 Score: 155
Period size: 58 Copynumber: 2.9 Consensus size: 58
11930873 ATCCAAAACC
* * *
11930883 CCCTAAAATCTGAAATCCCAAACCTTTAAACTCTTAAATCC-AAACCCCTAAAAT-TT-AAA
1 CCCTAAAATC-AAAACCCCAAACC-TTAAA-TCTTAAAACCGAAA-CCCTAAAATCTTCAAA
* *
11930942 CCCTTAAATCAAAACCCCAAACCTTAAATTTTAAAACCGAAACCCTAAAATCTTCAAA
1 CCCTAAAATCAAAACCCCAAACCTTAAATCTTAAAACCGAAACCCTAAAATCTTCAAA
* ** * * *
11931000 CTCTAAAATCAAAACCTTAAACATTCCATACCTTAAAACC-AAACCCTAAAA
1 CCCTAAAATCAAAACCCCAAACCTT--AAATCTTAAAACCGAAACCCTAAAA
11931051 CCCTCAAAAC
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
56 17 0.19
57 10 0.11
58 34 0.37
59 20 0.22
60 10 0.11
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.23
Consensus pattern (58 bp):
CCCTAAAATCAAAACCCCAAACCTTAAATCTTAAAACCGAAACCCTAAAATCTTCAAA
Found at i:11931049 original size:29 final size:28
Alignment explanation
Indices: 11930972--11931082 Score: 89
Period size: 30 Copynumber: 3.8 Consensus size: 28
11930962 ACCTTAAATT
*
11930972 TTAAAACCGAAACCCTAAAATCTTCAAAC
1 TTAAAACC-AAACCCTAAAATCTCCAAAC
* * *
11931001 TCTAAAATCAAAACCTTAAACAT-TCCATACC
1 T-TAAAA-CCAAACCCTAAA-ATCTCCA-AAC
* *
11931032 TTAAAACCAAACCCTAAAACCCTCAAAAC
1 TTAAAACCAAACCCTAAAA-TCTCCAAAC
*
11931061 TTAAATCCAAACCCTTAAAATC
1 TTAAAACCAAACCC-TAAAATC
11931083 CGAATCTTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
28 1 0.02
29 27 0.42
30 30 0.47
31 6 0.09
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.22
Consensus pattern (28 bp):
TTAAAACCAAACCCTAAAATCTCCAAAC
Found at i:11932570 original size:10 final size:10
Alignment explanation
Indices: 11932555--11932583 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
11932545 TCTAATATAA
11932555 AAAATATTTT
1 AAAATATTTT
11932565 AAAATA-TTT
1 AAAATATTTT
11932574 AAAATATTTT
1 AAAATATTTT
11932584 TTGTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAAATATTTT
Found at i:11932681 original size:13 final size:13
Alignment explanation
Indices: 11932615--11932652 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
11932605 ATTTAAAAAT
11932615 TATCACAATATTC
1 TATCACAATATTC
* *
11932628 TGTCATAATATTC
1 TATCACAATATTC
11932641 TATCACAATATT
1 TATCACAATATT
11932653 AAAAAATCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (13 bp):
TATCACAATATTC
Found at i:11933556 original size:17 final size:17
Alignment explanation
Indices: 11933528--11933571 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11933518 AATATAAATG
11933528 ATAATAATAATATTATTA
1 ATAAT-ATAATATTATTA
*
11933546 TTAATATAATATTATTA
1 ATAATATAATATTATTA
11933563 ATAAT-TAAT
1 ATAATATAAT
11933572 TATATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATATAATATTATTA
Found at i:11933596 original size:55 final size:55
Alignment explanation
Indices: 11933489--11933596 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
11933479 AACTTTGCTA
** * *
11933489 TATTAATATAAATTATTAATGTTATAATTAATATAAATGATAATAATAATATTAT
1 TATTAATATAAATTATTAATAATATAATTAATATAAATAAAAATAATAATATTAT
11933544 TATTAATATAATATTATTAATAAT-TAATT-ATATATAATAAAAAATAAT-ATATT
1 TATTAATATAA-ATTATTAATAATATAATTAATATA-AAT-AAAAATAATAATATT
11933597 TCTAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
54 5 0.11
55 24 0.52
56 17 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (55 bp):
TATTAATATAAATTATTAATAATATAATTAATATAAATAAAAATAATAATATTAT
Found at i:11933844 original size:57 final size:57
Alignment explanation
Indices: 11933736--11933844 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
11933726 CAATGACCAC
* * * *
11933736 CTACATAATTTAACTATTGATTTCATCCATTTAAATTGTCACATTAGCAAGTTAAAT
1 CTACATAATTTAACTAATGATTTCATCCATTTAAATTATCACATCAACAAGTTAAAT
* *
11933793 CTACATAATTTAACTAATGATTTCATTCATTTAAATTATCATATCAACAAGT
1 CTACATAATTTAACTAATGATTTCATCCATTTAAATTATCACATCAACAAGT
11933845 CAATATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.40
Consensus pattern (57 bp):
CTACATAATTTAACTAATGATTTCATCCATTTAAATTATCACATCAACAAGTTAAAT
Found at i:11934840 original size:24 final size:26
Alignment explanation
Indices: 11934792--11934847 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
11934782 GTTTGAGCTT
11934792 ATTTTTTAAAATAATATTAAATTAAA
1 ATTTTTTAAAATAATATTAAATTAAA
* *
11934818 ATTTTTTAAAA-AATA-TGATTTAAA
1 ATTTTTTAAAATAATATTAAATTAAA
11934842 ATTTTT
1 ATTTTT
11934848 GAAACTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 13 0.46
25 4 0.14
26 11 0.39
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTTTTTAAAATAATATTAAATTAAA
Found at i:11936137 original size:12 final size:12
Alignment explanation
Indices: 11936105--11936137 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11936095 TTATTTAAAG
11936105 AAAA-AAAAATC
1 AAAATAAAAATC
*
11936116 AAAATCAAAATC
1 AAAATAAAAATC
11936128 AAAATAAAAA
1 AAAATAAAAA
11936138 GGGAGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:11936230 original size:59 final size:56
Alignment explanation
Indices: 11936167--11936321 Score: 240
Period size: 56 Copynumber: 2.7 Consensus size: 56
11936157 TTTTGTGTAG
11936167 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTCGAAAATTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTT-G-AAATTTT-ATTTCCAA
** *
11936226 GGAAAATTGATACTTTCAACTTTTC-CTCAAAAACCTTTTTGAAATTTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCTCT-AAAAATATTTTTGAAATTTTATTTCCAA
11936282 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTT
11936322 TTGGAAATTT
Statistics
Matches: 89, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
56 42 0.47
57 9 0.10
58 3 0.03
59 35 0.39
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (56 bp):
GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTGAAATTTTATTTCCAA
Found at i:11936378 original size:34 final size:33
Alignment explanation
Indices: 11936340--11936415 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
11936330 TTATTTTTAG
* *
11936340 AAAATAAAACA-AAATAAAAGTGAAAAGAAATAA-A
1 AAAATAAAA-ATAAAGAAAAGT-AAAACAAA-AATA
*
11936374 AAAATAAAAATAAAGAAGAGTAAAACAAAAATA
1 AAAATAAAAATAAAGAAAAGTAAAACAAAAATA
11936407 AAAATAAAA
1 AAAATAAAA
11936416 GAAGGATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 2 0.05
33 18 0.49
34 17 0.46
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.12
Consensus pattern (33 bp):
AAAATAAAAATAAAGAAAAGTAAAACAAAAATA
Found at i:11936425 original size:28 final size:27
Alignment explanation
Indices: 11936338--11936426 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
11936328 ATTTATTTTT
* *
11936338 AGAAAATAAAAC-AAAATAAAAGTGAAA
1 AGAAGATAAAACAAAAATAAAAAT-AAA
11936365 AGAA-AT--AA-AAAAATAAAAAT-AA
1 AGAAGATAAAACAAAAATAAAAATAAA
11936387 AGAAGAGTAAAACAAAAATAAAAATAAA
1 AGAAGA-TAAAACAAAAATAAAAATAAA
11936415 AGAAGGATAAAA
1 AGAA-GATAAAA
11936427 AGAATATTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
22 6 0.11
23 1 0.02
24 13 0.25
26 4 0.08
27 16 0.30
28 11 0.21
29 2 0.04
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (27 bp):
AGAAGATAAAACAAAAATAAAAATAAA
Found at i:11936489 original size:10 final size:9
Alignment explanation
Indices: 11936450--11936518 Score: 63
Period size: 8 Copynumber: 7.8 Consensus size: 9
11936440 AACCTAATCT
*
11936450 AATAAATAA
1 AATAAAAAA
*
11936459 AAT-AAACA
1 AATAAAAAA
*
11936467 AAT-AAACA
1 AATAAAAAA
*
11936475 AATAAATGAA
1 AATAAA-AAA
11936485 AATAAAAAA
1 AATAAAAAA
11936494 AATAAAAAA
1 AATAAAAAA
11936503 AATTAAAAAA
1 AA-TAAAAAA
11936513 AA-AAAA
1 AATAAAA
11936519 CCTGAAGCGG
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
8 18 0.35
9 18 0.35
10 16 0.31
ACGTcount: A:0.81, C:0.03, G:0.01, T:0.14
Consensus pattern (9 bp):
AATAAAAAA
Found at i:11936494 original size:8 final size:8
Alignment explanation
Indices: 11936450--11936518 Score: 59
Period size: 9 Copynumber: 8.0 Consensus size: 8
11936440 AACCTAATCT
11936450 AATAAATAA
1 AATAAA-AA
*
11936459 AATAAACA
1 AATAAAAA
*
11936467 AATAAACA
1 AATAAAAA
11936475 AATAAATGAA
1 AATAAA--AA
11936485 AATAAAAAA
1 AAT-AAAAA
11936494 AATAAAAAA
1 AAT-AAAAA
11936503 AATTAAAAA
1 AA-TAAAAA
11936512 AA-AAAAA
1 AATAAAAA
11936519 CCTGAAGCGG
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
7 5 0.09
8 15 0.28
9 26 0.48
10 5 0.09
11 3 0.06
ACGTcount: A:0.81, C:0.03, G:0.01, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:11936498 original size:19 final size:19
Alignment explanation
Indices: 11936483--11936518 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11936473 CAAATAAATG
11936483 AAAA-TAAAAAAAATAAAA
1 AAAATTAAAAAAAATAAAA
11936501 AAAATTAAAAAAAA-AAAA
1 AAAATTAAAAAAAATAAAA
11936519 CCTGAAGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAATTAAAAAAAATAAAA
Found at i:11937484 original size:18 final size:19
Alignment explanation
Indices: 11937461--11937525 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
11937451 ATATAATTAG
11937461 ATAAATAAAA-ATACAAAA
1 ATAAATAAAATATACAAAA
*
11937479 ATAAATAAAATATATAAAA
1 ATAAATAAAATATACAAAA
* *
11937498 A-ATAATAATAATAATATAATA
1 ATA-AATAA-AAT-ATACAAAA
11937519 ATAAATA
1 ATAAATA
11937526 TATAACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 11 0.28
19 13 0.32
20 3 0.08
21 12 0.30
22 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAATAAAATATACAAAA
Found at i:11937488 original size:9 final size:9
Alignment explanation
Indices: 11937429--11937525 Score: 52
Period size: 9 Copynumber: 9.8 Consensus size: 9
11937419 ATATTATAGG
11937429 ATAAATAAA
1 ATAAATAAA
*
11937438 AAAAATAACA
1 ATAAATAA-A
*
11937448 TATATATAATTA
1 -ATAAATAA--A
11937460 GATAAATAAAA
1 -ATAAAT-AAA
*
11937471 ATACA-AAA
1 ATAAATAAA
11937479 ATAAATAAA
1 ATAAATAAA
*
11937488 ATATATAAA
1 ATAAATAAA
*
11937497 AAATAATAATA
1 ATA-AATAA-A
11937508 ATAATATAATA
1 ATAA-ATAA-A
11937519 ATAAATA
1 ATAAATA
11937526 TATAACTATA
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
8 7 0.10
9 20 0.29
10 13 0.19
11 20 0.29
12 6 0.09
13 2 0.03
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (9 bp):
ATAAATAAA
Found at i:11937508 original size:40 final size:43
Alignment explanation
Indices: 11937464--11937544 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 43
11937454 TAATTAGATA
11937464 AATAAAAATACAAAAATAAATA-A-AA-TATATAAAAAATAAT
1 AATAAAAATACAAAAATAAATATATAACTATATAAAAAATAAT
* * * *
11937504 AATAATAATATAATAATAAATATATAACTATATAAATAATA
1 AATAAAAATACAAAAATAAATATATAACTATATAAAAAATA
11937545 TACATTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 19 0.56
41 1 0.03
42 2 0.06
43 12 0.35
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.28
Consensus pattern (43 bp):
AATAAAAATACAAAAATAAATATATAACTATATAAAAAATAAT
Found at i:11937516 original size:14 final size:14
Alignment explanation
Indices: 11937499--11937546 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
11937489 TATATAAAAA
11937499 ATAATAATAATAAT
1 ATAATAATAATAAT
11937513 ATAATAATAA-ATAT
1 ATAATAATAATA-AT
11937527 ATAACTATATAAATAAT
1 ATAA-TA-AT-AATAAT
11937544 ATA
1 ATA
11937547 CATTAAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 16 0.55
15 2 0.07
16 2 0.07
17 7 0.24
18 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:11937530 original size:28 final size:31
Alignment explanation
Indices: 11937429--11937546 Score: 80
Period size: 28 Copynumber: 4.1 Consensus size: 31
11937419 ATATTATAGG
* *
11937429 ATAA-ATAAAAAAAATAAC-ATATATATAAT
1 ATAATATATAAAAAATAACTATATAAATAAT
*
11937458 -TAGATAAAT-AAAAAT-AC-A-A-AAATAAAT
1 ATA-ATATATAAAAAATAACTATATAAAT-AAT
*
11937485 AAAATATATAAAAAATAA-TA-AT-AATAAT
1 ATAATATATAAAAAATAACTATATAAATAAT
*
11937513 ATAATA-ATAAATATATAACTATATAAATAAT
1 ATAATATATAAA-AAATAACTATATAAATAAT
11937544 ATA
1 ATA
11937547 CATTAAATCT
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
26 3 0.04
27 14 0.20
28 25 0.36
29 15 0.21
30 4 0.06
31 9 0.13
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.29
Consensus pattern (31 bp):
ATAATATATAAAAAATAACTATATAAATAAT
Found at i:11937542 original size:37 final size:38
Alignment explanation
Indices: 11937435--11937548 Score: 96
Period size: 37 Copynumber: 3.0 Consensus size: 38
11937425 TAGGATAAAT
* *
11937435 AAAAA-AAATAACATATATATAATTAGATAAATAAAAATAC
1 AAAAATAAATAA-A-ATATATAA-TAAATAAATAATAATAC
*
11937475 AAAAATAAATAAAATATATAAAAAAT-AATAATAATA-
1 AAAAATAAATAAAATATATAATAAATAAATAATAATAC
* *
11937511 ATATAAT-AAT-AAATATATAACTATATAAATAAT-ATAC
1 A-AAAATAAATAAAATATATAA-TAAATAAATAATAATAC
11937548 A
1 A
11937549 TTAAATCTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
35 10 0.16
36 10 0.16
37 20 0.32
38 3 0.05
39 8 0.13
40 6 0.10
41 6 0.10
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.28
Consensus pattern (38 bp):
AAAAATAAATAAAATATATAATAAATAAATAATAATAC
Found at i:11938170 original size:19 final size:18
Alignment explanation
Indices: 11938124--11938171 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
11938114 AATTTTCTAA
* *
11938124 TTTTTTATATATTATTAT
1 TTTTTTATATTTTAGTAT
*
11938142 TTTTGTTAT-TTTAAGTAT
1 TTTT-TTATATTTTAGTAT
11938160 TTTTTTATATTT
1 TTTTTTATATTT
11938172 ATGCATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTTTATATTTTAGTAT
Found at i:11938193 original size:22 final size:21
Alignment explanation
Indices: 11938162--11938210 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11938152 TTAAGTATTT
*
11938162 TTTTATATTTATGCATGATAAG
1 TTTTAAATTTAT-CATGATAAG
* *
11938184 TTTTAAATTTGTTATGATAAG
1 TTTTAAATTTATCATGATAAG
11938205 TTTTAA
1 TTTTAA
11938211 TTGTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (21 bp):
TTTTAAATTTATCATGATAAG
Found at i:11938222 original size:19 final size:21
Alignment explanation
Indices: 11938179--11938222 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
11938169 TTTATGCATG
*
11938179 ATAAGTTTTAAATTTGTTATG
1 ATAAGTTTTAAATTTGTTATA
*
11938200 ATAAGTTTT-AA-TTGTTTTA
1 ATAAGTTTTAAATTTGTTATA
11938219 ATAA
1 ATAA
11938223 TAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (21 bp):
ATAAGTTTTAAATTTGTTATA
Found at i:11938589 original size:31 final size:32
Alignment explanation
Indices: 11938554--11938638 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 32
11938544 CTTAAACACT
* * * *
11938554 AACCCTA-AAAATCCAAAATCTCTTAAATCTA
1 AACCCTATAAAATCCAAAACCCCTAAAATCCA
*
11938585 AACCC-ATAAAATCCGAAACCCCTAAAATCCA
1 AACCCTATAAAATCCAAAACCCCTAAAATCCA
11938616 AACCCT-T-AAAT-CAAAA-CCCTAAA
1 AACCCTATAAAATCCAAAACCCCTAAA
11938639 CCTTTCATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
28 7 0.15
29 4 0.09
30 5 0.11
31 30 0.65
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (32 bp):
AACCCTATAAAATCCAAAACCCCTAAAATCCA
Found at i:11938626 original size:14 final size:14
Alignment explanation
Indices: 11938554--11938638 Score: 71
Period size: 14 Copynumber: 5.6 Consensus size: 14
11938544 CTTAAACACT
11938554 AACCCTAAAAATCCAA
1 AACCCT-AAAATCC-A
* * *
11938570 AATCTCTTAAATCTA
1 AA-CCCTAAAATCCA
11938585 AACCCATAAAATCCGA
1 AACCC-TAAAATCC-A
11938601 AACCCCTAAAATCCA
1 AA-CCCTAAAATCCA
* *
11938616 AACCCTTAAATCAA
1 AACCCTAAAATCCA
11938630 AACCCTAAA
1 AACCCTAAA
11938639 CCTTTCATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
14 20 0.36
15 12 0.21
16 18 0.32
17 6 0.11
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (14 bp):
AACCCTAAAATCCA
Found at i:11941058 original size:22 final size:22
Alignment explanation
Indices: 11941016--11941058 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11941006 TACAAATTAT
*
11941016 ATTTTAATTATATATAAATATA
1 ATTTTAATTAAATATAAATATA
*
11941038 ATTTTTATTAAAT-TAAGATAT
1 ATTTTAATTAAATATAA-ATAT
11941059 TAAATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTAATTAAATATAAATATA
Found at i:11941093 original size:17 final size:18
Alignment explanation
Indices: 11941057--11941106 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 18
11941047 AAATTAAGAT
*
11941057 ATTAAATAATATAT-T-T
1 ATTAAATAATATATATAA
11941073 ATT-AATAATATATATAA
1 ATTAAATAATATATATAA
11941090 ATTAAATAA-ATA-ATAA
1 ATTAAATAATATATATAA
11941106 A
1 A
11941107 AAATATCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.33
16 9 0.30
17 6 0.20
18 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAATAATATATATAA
Found at i:11944328 original size:21 final size:21
Alignment explanation
Indices: 11944275--11944322 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
11944265 GCCTGTCCTT
*
11944275 AAATCCTCTGCTGTTTAAAAC
1 AAATCCTCTGTTGTTTAAAAC
*
11944296 AAATCCTCTGTTGTTTAAAAT
1 AAATCCTCTGTTGTTTAAAAC
11944317 AAATCC
1 AAATCC
11944323 CTTGTTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATCCTCTGTTGTTTAAAAC
Found at i:11944451 original size:51 final size:51
Alignment explanation
Indices: 11944375--11944473 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
11944365 ACGAGGGATT
*
11944375 ATTTTAAGTTTCTTTGTTAGTTTGACATTCATTTAAAATATGGAGTGCTAC
1 ATTTTAAGTTTCTTTGTTAGTTTGACATTCATTCAAAATATGGAGTGCTAC
* *
11944426 ATTTTAAGTTTCTTTGTTAGTTTGACATTCATTCAAAATTTGTAGTGC
1 ATTTTAAGTTTCTTTGTTAGTTTGACATTCATTCAAAATATGGAGTGC
11944474 CACAAACTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.48
Consensus pattern (51 bp):
ATTTTAAGTTTCTTTGTTAGTTTGACATTCATTCAAAATATGGAGTGCTAC
Found at i:11951679 original size:24 final size:22
Alignment explanation
Indices: 11951634--11951679 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
11951624 ATTTTTTTTT
*
11951634 CAAAAAAATAAAAATTAGAAAA
1 CAAAAAAATAAAAATAAGAAAA
*
11951656 CAAAAAATATTAAAAATAATAAAA
1 CAAAAAA-A-TAAAAATAAGAAAA
11951680 AATTGAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (22 bp):
CAAAAAAATAAAAATAAGAAAA
Found at i:11952828 original size:2 final size:2
Alignment explanation
Indices: 11952821--11952847 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11952811 AATACATACC
11952821 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11952848 AACCGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11958000 original size:20 final size:20
Alignment explanation
Indices: 11957956--11958005 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
11957946 GATAAATTAA
11957956 TTAA-AATTTTTTATTATAT
1 TTAATAATTTTTTATTATAT
11957975 TT-ATAATTTATTTATT-TAT
1 TTAATAATTT-TTTATTATAT
11957994 TTAATAAATTTT
1 TTAAT-AATTTT
11958006 AAAATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 12 0.44
20 9 0.33
21 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAATAATTTTTTATTATAT
Found at i:11958027 original size:51 final size:50
Alignment explanation
Indices: 11957930--11958029 Score: 114
Period size: 51 Copynumber: 2.0 Consensus size: 50
11957920 TATCAAATAT
* *
11957930 TTTATTTATTAATATAGATAAATTAATTAAAATTTTTTATTATATTTATAA
1 TTTATTTATTAATATAGATAAATT-ATTAAAATTTTTCATAATATTTATAA
* *
11957981 TTTATTTATTTATTTA-ATAAATT-TTAAAATATTATTCATAATTATTTAT
1 TTTATTTATTAATATAGATAAATTATTAAAAT-TT-TTCATAA-TATTTAT
11958030 TAAATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 7 0.17
49 2 0.05
50 12 0.29
51 21 0.50
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (50 bp):
TTTATTTATTAATATAGATAAATTATTAAAATTTTTCATAATATTTATAA
Found at i:11958142 original size:13 final size:14
Alignment explanation
Indices: 11958115--11958147 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11958105 TTTAAAATAT
*
11958115 ATAATAATATGAAA
1 ATAATAATATAAAA
11958129 ATAA-AATATAAAA
1 ATAATAATATAAAA
11958142 ATAATA
1 ATAATA
11958148 TGATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
ATAATAATATAAAA
Found at i:11958156 original size:23 final size:23
Alignment explanation
Indices: 11958103--11958158 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
11958093 TAAATTTAAT
*
11958103 AATTTAAAATATATAATAATATG
1 AATTTAAAATATAAAATAATATG
**
11958126 AAAATAAAATATAAAAATAATATG
1 AATTTAAAATAT-AAAATAATATG
11958150 -ATTTAAAAT
1 AATTTAAAAT
11958159 TTTAATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
AATTTAAAATATAAAATAATATG
Found at i:11961134 original size:16 final size:16
Alignment explanation
Indices: 11961109--11961139 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11961099 AAGAACTTCG
11961109 ACACTCTCTCTCTCTT
1 ACACTCTCTCTCTCTT
*
11961125 ACACTTTCTCTCTCT
1 ACACTCTCTCTCTCT
11961140 CTCATCTCCT
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:0.13, C:0.42, G:0.00, T:0.45
Consensus pattern (16 bp):
ACACTCTCTCTCTCTT
Found at i:11965303 original size:15 final size:16
Alignment explanation
Indices: 11965279--11965311 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11965269 GACCAAGAAA
*
11965279 TTCAATTTCGA-TTTT
1 TTCAAGTTCGACTTTT
11965294 TTCAAGTTCGACTTTT
1 TTCAAGTTCGACTTTT
11965310 TT
1 TT
11965312 GGGACTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.58
Consensus pattern (16 bp):
TTCAAGTTCGACTTTT
Found at i:11966293 original size:26 final size:27
Alignment explanation
Indices: 11966262--11966320 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
11966252 TTCCTACATT
11966262 TTTATTAGTT-TATTATTATTATTAAA-
1 TTTATT-GTTATATTATTATTATTAAAG
* * *
11966288 TTTATTTTTATATTATTGTTTTTAAAG
1 TTTATTGTTATATTATTATTATTAAAG
11966315 TTTATT
1 TTTATT
11966321 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 20 0.71
27 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTATTGTTATATTATTATTATTAAAG
Found at i:11966323 original size:26 final size:26
Alignment explanation
Indices: 11966272--11966322 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
11966262 TTTATTAGTT
11966272 TATTATTATTATTAAATTTATTTTTA
1 TATTATTATTATTAAATTTATTTTTA
* *
11966298 TATTATTGTTTTTAAAGTTTATTTT
1 TATTATTATTATTAAA-TTTATTTT
11966323 AAAAATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
TATTATTATTATTAAATTTATTTTTA
Found at i:11967503 original size:18 final size:18
Alignment explanation
Indices: 11967480--11967538 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
11967470 TTTTTTTTTT
11967480 TTTTTTTTGTATTTCATA
1 TTTTTTTTGTATTTCATA
*
11967498 TTTTTTTTGTAGTTTGTATA
1 TTTTTTTTGTA-TTT-CATA
*
11967518 TTTTTATTGTATTTCATA
1 TTTTTTTTGTATTTCATA
11967536 TTT
1 TTT
11967539 ATACTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 17 0.47
19 6 0.17
20 13 0.36
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTTTTTTGTATTTCATA
Found at i:11967503 original size:20 final size:20
Alignment explanation
Indices: 11967478--11967538 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
11967468 ATTTTTTTTT
11967478 TTTTTTTTTTGTATTTCATA
1 TTTTTTTTTTGTATTTCATA
*
11967498 --TTTTTTTTGTAGTTT-GTA
1 TTTTTTTTTTGTA-TTTCATA
* *
11967516 TATTTTTATTGTATTTCATA
1 TTTTTTTTTTGTATTTCATA
11967536 TTT
1 TTT
11967539 ATACTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 13 0.39
19 6 0.18
20 14 0.42
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGTATTTCATA
Found at i:11969343 original size:170 final size:166
Alignment explanation
Indices: 11969050--11969356 Score: 454
Period size: 170 Copynumber: 1.8 Consensus size: 166
11969040 ATTTATCATG
* *
11969050 CCAATTCATGCCTAGCTGGTTCTGCCATATCACTTATTTTAGGTTTTTAGCTTTGCTGATTACCT
1 CCAATTCATGCCTAGCTGATTCTGCCATAGCACTTATTTTAGGTTTTTAGCTTTGCTGATTACCT
* * * *
11969115 TGTTAGCATTGAGGATTGGAATTATTGTGCTGTTGATGTCTGTTGGCTGATATATGTTAAGGTCT
66 TGTTAGCATTGAGAATTGGAATTATTGTGCTGTTGA-GGCTCTTGACTGATATATGTTAAGGTCT
11969180 AATGAGCCTATTTTCGATTATCTTTGATATTGTGCTA
130 AATGAGCCTATTTTCGATTATCTTTGATATTGTGCTA
* * *
11969217 CCAATTCATGCCTAGCTGATTTTGCCATAGCAGTTTCTTTTTAAGGTTTTTAGCTTTGCTGATTA
1 CCAATTCATGCCTAGCTGATTCTGCCATAGCA-CTT-ATTTT-AGGTTTTTAGCTTTGCTGATTA
* *
11969282 CCTTGTTAGCATTGAGAATTGGAATTATTGTGGTGTCTCG-GGCTCTTGACTGATGTATGTTAAG
63 CCTTGTTAGCATTGAGAATTGGAATTATTGTGCTGT-T-GAGGCTCTTGACTGATATATGTTAAG
11969346 GTCTAATGAGC
126 GTCTAATGAGC
11969357 TTGATTTTGG
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
167 29 0.23
168 2 0.02
169 4 0.03
170 87 0.70
171 1 0.01
172 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (166 bp):
CCAATTCATGCCTAGCTGATTCTGCCATAGCACTTATTTTAGGTTTTTAGCTTTGCTGATTACCT
TGTTAGCATTGAGAATTGGAATTATTGTGCTGTTGAGGCTCTTGACTGATATATGTTAAGGTCTA
ATGAGCCTATTTTCGATTATCTTTGATATTGTGCTA
Found at i:11971066 original size:78 final size:78
Alignment explanation
Indices: 11970979--11971174 Score: 272
Period size: 78 Copynumber: 2.5 Consensus size: 78
11970969 GTGGTCAGGA
11970979 GAAATACCAGGAGGAACTAGGAGAGTCACTTCATCTTCATCAACAGAACCATTGGCTTCCACCTT
1 GAAA-ACCAGGAGGAACTAGGAGAGTCACTTCATCTTCATCAACAGAACCATTGGCTTCCACC--
11971044 ATTGTA-A-TTGAGAG
63 ATTGTACATTTGAGAG
* * *
11971058 GAAAACCAGGAGAAACTAGGAGAGTTACTTCATCTTCATCAACAGAACCCTTGGCTTCCACCATT
1 GAAAACCAGGAGGAACTAGGAGAGTCACTTCATCTTCATCAACAGAACCATTGGCTTCCACCATT
* *
11971123 TTACATTTGGGAG
66 GTACATTTGAGAG
* *
11971136 GAAAACCAGGAGGGAC-AGGGGGAGTCACTTCATCTTCAT
1 GAAAACCAGGAGGAACTA-GGAGAGTCACTTCATCTTCAT
11971175 TAATTGAACT
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
76 5 0.05
77 2 0.02
78 94 0.90
79 4 0.04
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (78 bp):
GAAAACCAGGAGGAACTAGGAGAGTCACTTCATCTTCATCAACAGAACCATTGGCTTCCACCATT
GTACATTTGAGAG
Found at i:11976578 original size:17 final size:17
Alignment explanation
Indices: 11976556--11976590 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
11976546 TTCTATTCTT
11976556 TTTTTTATTATTTTTATTA
1 TTTTTTA-TA-TTTTATTA
11976575 TTTTTTATATTTTATT
1 TTTTTTATATTTTATT
11976591 GATTAAAGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTATATTTTATTA
Found at i:11976579 original size:10 final size:10
Alignment explanation
Indices: 11976556--11976587 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
11976546 TTCTATTCTT
11976556 TTTTTTATTA
1 TTTTTTATTA
11976566 -TTTTTATTA
1 TTTTTTATTA
11976575 TTTTTTA-TA
1 TTTTTTATTA
11976584 TTTT
1 TTTT
11976588 ATTGATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:11976595 original size:21 final size:21
Alignment explanation
Indices: 11976554--11976595 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11976544 TCTTCTATTC
* *
11976554 TTTTTTTTATTATTTTTATTA
1 TTTTTTATATTATTTTGATTA
11976575 TTTTTTATATT-TTATTGATTA
1 TTTTTTATATTATT-TTGATTA
11976596 AAGCGTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTATATTATTTTGATTA
Found at i:11976969 original size:32 final size:31
Alignment explanation
Indices: 11976908--11976971 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
11976898 TTTGGTATGA
11976908 TTAAAAAAATAAAAATAATTTAATTTAAAATT
1 TTAAAAAAATAAAAATAATTTAA-TTAAAATT
*
11976940 TTAAAAAAATTATAAATAGATTTAA-TAAAATT
1 TTAAAAAAA-TAAAAATA-ATTTAATTAAAATT
11976972 AATATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 16 0.55
33 7 0.24
34 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
TTAAAAAAATAAAAATAATTTAATTAAAATT
Found at i:11977575 original size:32 final size:32
Alignment explanation
Indices: 11977514--11977578 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
11977504 ATGACGATTC
**
11977514 ATATATTTATATAATATAAAATATTAAAATTT
1 ATATATTTATATAATATAAAATAAAAAAATTT
***
11977546 ATATATTTATATAATATTTTATAAAAAAATTT
1 ATATATTTATATAATATAAAATAAAAAAATTT
11977578 A
1 A
11977579 CGTTTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATATATTTATATAATATAAAATAAAAAAATTT
Found at i:11997077 original size:22 final size:22
Alignment explanation
Indices: 11997043--11997099 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
11997033 TTTATTTGAT
*
11997043 AAAA-AATTGATTGATCAACAA
1 AAAATAATTTATTGATCAACAA
11997064 AAAATAATTTATTGATCAACAA
1 AAAATAATTTATTGATCAACAA
*
11997086 AAAATGAAGTTATT
1 AAAAT-AATTTATT
11997100 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 4 0.12
22 21 0.66
23 7 0.22
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAATAATTTATTGATCAACAA
Found at i:11997288 original size:82 final size:83
Alignment explanation
Indices: 11997203--11997565 Score: 325
Period size: 82 Copynumber: 4.5 Consensus size: 83
11997193 AGCATAATTT
* *
11997203 TATTTATAAATAATATTATATAAATAA-A-T-A-ATATTATATTATAATATATAAATAAATAATA
1 TATTTAT-AATAATATTA-ATAAATAATATTAAGAAATAATATTATAATATATAAATAAATAATA
* *
11997264 TTATATAAATAATTAATATAT
64 TTATAT-AATAACTAATATAC
* * * *
11997285 TATTAATAAATAATATT-AT-AAT-ATATTTATAAATAATATTATATTA-ATAAAT-AAT-ATAT
1 TATTTAT-AATAATATTAATAAATAATATTAAGAAATAATATTATAATATATAAATAAATAATAT
11997344 TAT-TAATAACTAATATAC
65 TATATAATAACTAATATAC
* *
11997362 TATGATTATAAT-ATATTAATAAATAATATTAAGAAATAATATTGTAATATATTAATAAATAATA
1 TAT--TTATAATAATATTAATAAATAATATTAAGAAATAATATTATAATATATAAATAAATAATA
11997426 -TATTATTAATAACTAA-ATAC
64 TTA-TA-TAATAACTAATATAC
* * *
11997446 TA-TTATTATAATATTAATAAATAATATTAAGAAATAATATTGTAATATATTAATAAATAATA-T
1 TATTTATAATAATATTAATAAATAATATTAAGAAATAATATTATAATATATAAATAAATAATATT
** *
11997509 A-ATAATATGTGAATA-AA
66 ATATAATAACT-AATATAC
* *
11997526 TAATATTATAAT-ATATTAATAAATAGTATAAAG-AATAATA
1 T-AT-TTATAATAATATTAATAAATAATATTAAGAAATAATA
11997566 AATAGTTTTA
Statistics
Matches: 241, Mismatches: 19, Indels: 43
0.80 0.06 0.14
Matches are distributed among these distances:
77 20 0.08
78 7 0.03
79 23 0.10
80 31 0.13
81 27 0.11
82 107 0.44
83 10 0.04
84 6 0.02
85 10 0.04
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (83 bp):
TATTTATAATAATATTAATAAATAATATTAAGAAATAATATTATAATATATAAATAAATAATATT
ATATAATAACTAATATAC
Found at i:11997317 original size:59 final size:59
Alignment explanation
Indices: 11997203--11997508 Score: 266
Period size: 59 Copynumber: 5.1 Consensus size: 59
11997193 AGCATAATTT
* * * * *
11997203 TATT-TATAAAT-AATATTATATAAATAAATAATATTATATTATAATATATAAATAAATAA
1 TATTATATAAATAAATAATATAT-TATTAATAA-ATAATATTATAATATATTAATAAATAA
* *
11997262 TATTATATAAATAATTAATATATTATTAATAAATAATATTATAATATATTTATAAATAA
1 TATTATATAAATAAATAATATATTATTAATAAATAATATTATAATATATTAATAAATAA
*
11997321 TATTATATTAATAAATAATATATTATTAATAACTAATATACTATGATTATAATATATTAATAAAT
1 TATTATATAAATAAATAATATATTA-T--TAA-TAA-ATA--AT-ATTATAATATATTAATAAAT
11997386 AA
58 AA
* * * * * *
11997388 TATTA-AGAAAT-AATATTGTAATATATTAATAAATAATA-TATTAT-TAATAACTAAATAC
1 TATTATATAAATAAATAATAT-AT-TATTAATAAATAATATTATAATATATTAA-TAAATAA
* * * *
11997446 TATTATTATAATATTAATAA-ATAATATTAAGAAATAATATTGTAATATATTAATAAATAA
1 TATTA-TATAA-ATAAATAATATATTATTAATAAATAATATTATAATATATTAATAAATAA
11997506 TAT
1 TAT
11997509 AATAATATGT
Statistics
Matches: 202, Mismatches: 26, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
57 5 0.02
58 16 0.08
59 66 0.33
60 34 0.17
61 16 0.08
62 10 0.05
63 6 0.03
64 6 0.03
65 6 0.03
66 9 0.04
67 28 0.14
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (59 bp):
TATTATATAAATAAATAATATATTATTAATAAATAATATTATAATATATTAATAAATAA
Found at i:11997322 original size:41 final size:36
Alignment explanation
Indices: 11997247--11997426 Score: 117
Period size: 36 Copynumber: 5.0 Consensus size: 36
11997237 TATATTATAA
* *
11997247 TATATAAATAAATAATATTATATAAATAATTAATA-
1 TATATAAATAAATAATATTATATTAATAAATAATAT
*
11997282 TATTATTAATAAATAATATTATAATATATTTATAAATAATAT
1 TA-TATAAATAAATAATATTAT-AT-TA---ATAAATAATAT
* *
11997324 TATATTAATAAATAATA-TATTATTAATAACTAATA-
1 TATATAAATAAATAATATTA-TATTAATAAATAATAT
* *
11997359 TACTAT-GAT---T-ATAATATATTAATAAATAATAT
1 TA-TATAAATAAATAATATTATATTAATAAATAATAT
* ** *
11997391 TA-AGAAATAATATTGTAATATATTAATAAATAATAT
1 TATATAAATAA-ATAATATTATATTAATAAATAATAT
11997427 ATTATTAATA
Statistics
Matches: 119, Mismatches: 9, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
30 1 0.01
31 19 0.16
32 5 0.04
35 7 0.06
36 51 0.43
37 2 0.02
38 1 0.01
39 2 0.02
40 4 0.03
41 25 0.21
42 2 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (36 bp):
TATATAAATAAATAATATTATATTAATAAATAATAT
Found at i:11997495 original size:23 final size:23
Alignment explanation
Indices: 11997453--11997550 Score: 124
Period size: 23 Copynumber: 4.1 Consensus size: 23
11997443 TACTATTATT
*
11997453 ATAATATTAATAAATAATATTAAGAA
1 ATAATATT-AT-AAT-ATATTAATAA
*
11997479 ATAATATTGTAATATATTAATAA
1 ATAATATTATAATATATTAATAA
* * *
11997502 ATAATATAATAATATGTGAATAA
1 ATAATATTATAATATATTAATAA
11997525 ATAATATTATAATATATTAATAA
1 ATAATATTATAATATATTAATAA
11997548 ATA
1 ATA
11997551 GTATAAAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 51 0.81
24 3 0.05
25 1 0.02
26 8 0.13
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAATATTATAATATATTAATAA
Found at i:11997556 original size:46 final size:44
Alignment explanation
Indices: 11997203--11997556 Score: 227
Period size: 41 Copynumber: 8.4 Consensus size: 44
11997193 AGCATAATTT
* * *
11997203 TATTTATAAATAATAT--T-ATATAAATAAATAATATTAT-AT-
1 TATTAATAAATAATATAATAATATTAAGAAATAATATTATAATA
* * *
11997242 TA-TAATATATAA-ATAAATAATATTATATAAATAAT-TAAT-ATA
1 TATTAATAAATAATAT-AATAATATTA-AGAAATAATATTATAATA
* *** * *
11997284 TTATTAATAAATAATATTATAATA-T-ATTTATAA-ATAATATTA
1 -TATTAATAAATAATATAATAATATTAAGAAATAATATTATAATA
* * *
11997326 TATTAATAAATAATAT-AT--TATTAATAACTAATATACTATGAT-
1 TATTAATAAATAATATAATAATATTAAGAAATAATAT--TATAATA
* *
11997368 TA-TAATATATTAATA-AATAATATTAAGAAATAATATTGTAATA
1 TATTAATA-AATAATATAATAATATTAAGAAATAATATTATAATA
* * * *
11997411 TATTAATAAATAATAT-AT--TATTAATAACTAAATACTATTAT-
1 TATTAATAAATAATATAATAATATTAAGAAAT-AATATTATAATA
* *
11997452 TA-TAAT-ATTAATA-AATAATATTAAGAAATAATATTGTAATA
1 TATTAATAAATAATATAATAATATTAAGAAATAATATTATAATA
*
11997493 TATTAATAAATAATATAATAATATGTGAATAAATAATATTATAATA
1 TATTAATAAATAATATAATAATAT-T-AAGAAATAATATTATAATA
*
11997539 TATTAATAAATAGTATAA
1 TATTAATAAATAATATAA
11997557 AGAATAATAA
Statistics
Matches: 246, Mismatches: 36, Indels: 59
0.72 0.11 0.17
Matches are distributed among these distances:
37 2 0.01
38 10 0.04
39 11 0.04
40 20 0.08
41 65 0.26
42 37 0.15
43 22 0.09
44 42 0.17
45 3 0.01
46 34 0.14
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (44 bp):
TATTAATAAATAATATAATAATATTAAGAAATAATATTATAATA
Found at i:11997686 original size:26 final size:25
Alignment explanation
Indices: 11997647--11997696 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
11997637 TTTTAATATT
* *
11997647 AATAATTTTCATAATAAATAATTTC
1 AATAATTTTAATAACAAATAATTTC
11997672 AATATATTTTAATAACAAATAATTT
1 AATA-ATTTTAATAACAAATAATTT
11997697 TTAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
AATAATTTTAATAACAAATAATTTC
Found at i:11997813 original size:11 final size:12
Alignment explanation
Indices: 11997793--11997871 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 12
11997783 ATAAATTATG
*
11997793 AATAAATAATAT
1 AATATATAATAT
*
11997805 ACTAT-TAATAT
1 AATATATAATAT
11997816 AATATATAATA-
1 AATATATAATAT
11997827 AATATTATTAATA-
1 AATA-TA-TAATAT
**
11997840 AATA-ATGTTAT
1 AATATATAATAT
11997851 AATATATTAATA-
1 AATATA-TAATAT
11997863 AATAT-TAAT
1 AATATATAAT
11997872 GAATTTTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
10 7 0.13
11 19 0.35
12 16 0.30
13 12 0.22
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (12 bp):
AATATATAATAT
Found at i:11997893 original size:48 final size:48
Alignment explanation
Indices: 11997807--11997936 Score: 121
Period size: 48 Copynumber: 2.7 Consensus size: 48
11997797 AATAATATAC
* *
11997807 TATTAATATAATATATAATAAATATTATTA-A-TAA-ATAATGTTATAATA-
1 TATTAATA-AATATATAAT-AAT-TTTTTATATTAACATAATATTA-AATAT
11997855 TATTAATAAATAT-TAATGAATTTTTTATATTAACATAATATTAAATAT
1 TATTAATAAATATATAAT-AATTTTTTATATTAACATAATATTAAATAT
* *
11997903 TATTATTAAA-ATATAA-ATTTTTTTAATATTAACA
1 TATTAATAAATATATAATAATTTTTT-ATATTAACA
11997937 ATTTTAATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
45 5 0.07
46 15 0.21
47 23 0.32
48 28 0.39
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (48 bp):
TATTAATAAATATATAATAATTTTTTATATTAACATAATATTAAATAT
Found at i:11997995 original size:25 final size:26
Alignment explanation
Indices: 11997933--11997996 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
11997923 TTTTAATATT
11997933 AACA-ATTTTAATAATAAATAATTTC
1 AACATATTTTAATAATAAATAATTTC
*
11997958 AACATATTTTAATAATAAATAATTTT
1 AACATATTTTAATAATAAATAATTTC
*
11997984 TA-ATATTTTAATA
1 AACATATTTTAATA
11997997 GTTATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (26 bp):
AACATATTTTAATAATAAATAATTTC
Found at i:11998138 original size:15 final size:14
Alignment explanation
Indices: 11998104--11998145 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
11998094 AATATGTAAA
11998104 CATTTTTTAAAAAT
1 CATTTTTTAAAAAT
* *
11998118 TATTTTTGAAAAAT
1 CATTTTTTAAAAAT
11998132 CATTTTTTACAAAA
1 CATTTTTTA-AAAA
11998146 CAAATGGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (14 bp):
CATTTTTTAAAAAT
Found at i:11999102 original size:5 final size:5
Alignment explanation
Indices: 11999088--11999126 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
11999078 ATGTATTAAA
*
11999088 TTTTC TTTTC CTTTC TTTTC TTTTC TTTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTT
11999127 AGTAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:12001886 original size:20 final size:19
Alignment explanation
Indices: 12001861--12001904 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
12001851 TCAAATCAAA
*
12001861 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
12001881 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
12001900 TTATA
1 TTATA
12001905 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:12001908 original size:11 final size:10
Alignment explanation
Indices: 12001861--12001906 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
12001851 TCAAATCAAA
*
12001861 TTATATATTT
1 TTATAAATTT
*
12001871 TTATTAATTT
1 TTATAAATTT
*
12001881 TTATATATTT
1 TTATAAATTT
12001891 TT-TAAATTT
1 TTATAAATTT
12001900 TTATAAA
1 TTATAAA
12001907 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATAAATTT
Found at i:12006176 original size:152 final size:152
Alignment explanation
Indices: 12005907--12006207 Score: 539
Period size: 152 Copynumber: 2.0 Consensus size: 152
12005897 TGTTTGAAAG
* *
12005907 CATTACAACATTGAAAGCATAATGGTTTTGTCACTCTCACAAGAAGATATGATATTACCAAGCAT
1 CATTACAACATTGAAAGCATAATGGTTTTCTAACTCTCACAAGAAGATATGATATTACCAAGCAT
* *
12005972 TCAAATTATTAACGGTTCTATAAAGAATTCAAAGAAAATAACATAGAAACCCTAGCCTATGAAGC
66 TCAAATTATTAACGGTTCTATAAAGAATTCAAAGAAAATAACATACAAACCCTAGCCGATGAAGC
*
12006037 AAAAAGTCATCAAAATTGAACA
131 AAAAAGTCATAAAAATTGAACA
*
12006059 CATTACGACATTGAAAGCATAATGGTTTTCTAACTCTCACAAGAAGATATGATATTACCAAGCAT
1 CATTACAACATTGAAAGCATAATGGTTTTCTAACTCTCACAAGAAGATATGATATTACCAAGCAT
*
12006124 TCAAATTATTAACGGTTCTATAGAGAATTCAAAGAAAATAACATACAAACCCTAGCCGATGAAGC
66 TCAAATTATTAACGGTTCTATAAAGAATTCAAAGAAAATAACATACAAACCCTAGCCGATGAAGC
12006189 AAAAAGTCATAAAAATTGA
131 AAAAAGTCATAAAAATTGA
12006208 GACTGAGGTT
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
152 142 1.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.26
Consensus pattern (152 bp):
CATTACAACATTGAAAGCATAATGGTTTTCTAACTCTCACAAGAAGATATGATATTACCAAGCAT
TCAAATTATTAACGGTTCTATAAAGAATTCAAAGAAAATAACATACAAACCCTAGCCGATGAAGC
AAAAAGTCATAAAAATTGAACA
Found at i:12016298 original size:12 final size:12
Alignment explanation
Indices: 12016266--12016307 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
12016256 ATAATAGATC
*
12016266 AATATAAAAAAA
1 AATATAAAATAA
12016278 AATAT-AAATAA
1 AATATAAAATAA
12016289 AATATAAAATTAA
1 AATATAAAA-TAA
12016302 AA-ATAA
1 AATATAA
12016308 GATCCAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 10 0.37
12 12 0.44
13 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATATAAAATAA
Found at i:12017239 original size:19 final size:20
Alignment explanation
Indices: 12017201--12017244 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
12017191 CATTTTATGT
12017201 ATTTTTTATTTTATATTTAA
1 ATTTTTTATTTTATATTTAA
*
12017221 ATTTTTATATTTTA-ATTAAA
1 ATTTTT-TATTTTATATTTAA
12017241 ATTT
1 ATTT
12017245 CGGTTAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTATTTTATATTTAA
Found at i:12017646 original size:390 final size:391
Alignment explanation
Indices: 12016925--12017702 Score: 1407
Period size: 390 Copynumber: 2.0 Consensus size: 391
12016915 TAATTTTAAA
* *
12016925 TTGAATTATCCAAAATTAAATTAATCAAATTATATATTTATTTTTGTTAATCGAATCAGATTTAT
1 TTGAATTATCCAAAATTAAATTAATCAAATTATATATTTATTTTTGTTAACCGAACCAGATTTAT
12016990 TAATTTCAAAAATTAACCGATCGAATTTAATTCAATTAATCAATTAATTTTTTAGTTAATGGAAT
66 TAATTTCAAAAATTAACCGATCGAATTTAATTCAATT-ATCAATTAATTTTTTAGTTAATGGAAT
12017055 AACAAATATATTTAAGTTAAATTTTAAACCCTTAATTTCTCATATTTAAAATAAATTAAATAAAA
130 AACAAATATATTTAAGTTAAATTTTAAACCCTTAATTTCTCATATTTAAAATAAATTAAATAAAA
* * *
12017120 TTATCTAATAAAATATTTAAATACAAATTTATTATGTTAAAAACTCTAACAACTTTTGAAATAAA
195 TTATCCAATAAAATATTCAAACACAAATTTATTATGTTAAAAACTCTAACAACTTTTGAAATAAA
*
12017185 ATAATTCATTTTATGTATTTTTTATTTTATATTTAAATTTTTATATTTTAATTAAAATTTCGGTT
260 ATAATTCATTTTATGTATTTTTTATTTTATATTTAAATTTATATATTTTAATTAAAATTTCGGTT
* *
12017250 AATCCAATTAATACGATTTTCAAACCCAATTAATAAAAAATCAAAATTTTTCTAAAATAATTTCG
325 AATCCAATTAATACGATTTTCAAACCCAATTAATAAAAAATCAAAATTCTTCAAAAATAATTTCG
12017315 AG
390 AG
*
12017317 TTGAATTATCCAAAATTAAATTAATCAAATTATGTATTTATTTTTGTTAACCGAACCAGATTTAT
1 TTGAATTATCCAAAATTAAATTAATCAAATTATATATTTATTTTTGTTAACCGAACCAGATTTAT
* *
12017382 TAATTTCAAAAATTAACCGATCGAATTTAATTCGATCT-T-AGTTAATTTTTTAGTTAATGGAAT
66 TAATTTCAAAAATTAACCGATCGAATTTAATTCAAT-TATCAATTAATTTTTTAGTTAATGGAAT
*
12017445 AACAAATATATTTAAGTTATATTTTAAACCCTTAATTTCTCATATTTAAAATAAATTAAATAAAA
130 AACAAATATATTTAAGTTAAATTTTAAACCCTTAATTTCTCATATTTAAAATAAATTAAATAAAA
*
12017510 TTATCCAATAAAATATTCAAACACCAATTTATTATGTTAAAAACTCTAACAACTTTTGAAATAAA
195 TTATCCAATAAAATATTCAAACACAAATTTATTATGTTAAAAACTCTAACAACTTTTGAAATAAA
12017575 ATAATTCATTTTATGTATTTTTTATTTTATATTTAAATTTATATATTTTAATTAAAATTTCGGTT
260 ATAATTCATTTTATGTATTTTTTATTTTATATTTAAATTTATATATTTTAATTAAAATTTCGGTT
12017640 AATCCAATTAATACGATTTTCAAACCCAATTAATAAAAAATCAAAATTCTTCAAAAATAATTT
325 AATCCAATTAATACGATTTTCAAACCCAATTAATAAAAAATCAAAATTCTTCAAAAATAATTT
12017703 TTGTTAATTG
Statistics
Matches: 372, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
390 273 0.73
391 1 0.00
392 97 0.26
393 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (391 bp):
TTGAATTATCCAAAATTAAATTAATCAAATTATATATTTATTTTTGTTAACCGAACCAGATTTAT
TAATTTCAAAAATTAACCGATCGAATTTAATTCAATTATCAATTAATTTTTTAGTTAATGGAATA
ACAAATATATTTAAGTTAAATTTTAAACCCTTAATTTCTCATATTTAAAATAAATTAAATAAAAT
TATCCAATAAAATATTCAAACACAAATTTATTATGTTAAAAACTCTAACAACTTTTGAAATAAAA
TAATTCATTTTATGTATTTTTTATTTTATATTTAAATTTATATATTTTAATTAAAATTTCGGTTA
ATCCAATTAATACGATTTTCAAACCCAATTAATAAAAAATCAAAATTCTTCAAAAATAATTTCGA
G
Found at i:12018857 original size:37 final size:37
Alignment explanation
Indices: 12018809--12018879 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
12018799 ACTAATTGTT
* *
12018809 TTTTCATATTTTACACTGTAATGCTTGCTCTTAAGTG
1 TTTTCATATTTTACACTGCAATGCTTACTCTTAAGTG
*
12018846 TTTTCGTATTTTACACTGCAATGCTTACTCTTAA
1 TTTTCATATTTTACACTGCAATGCTTACTCTTAA
12018880 ACTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (37 bp):
TTTTCATATTTTACACTGCAATGCTTACTCTTAAGTG
Found at i:12032825 original size:19 final size:22
Alignment explanation
Indices: 12032785--12032826 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
12032775 CTCAGTTTCA
12032785 AAAGAACTTGAACAACATCATC
1 AAAGAACTTGAACAACATCATC
12032807 AAAGAACTTGAACAACATCA
1 AAAGAACTTGAACAACATCA
12032827 GAACAGCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAGAACTTGAACAACATCATC
Found at i:12034528 original size:20 final size:20
Alignment explanation
Indices: 12034503--12034542 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12034493 GCTCATTCAT
12034503 CCTTACTTGGAAAACATTTG
1 CCTTACTTGGAAAACATTTG
12034523 CCTTACTTGGAAAACATTTG
1 CCTTACTTGGAAAACATTTG
12034543 AAATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
CCTTACTTGGAAAACATTTG
Found at i:12040029 original size:8 final size:8
Alignment explanation
Indices: 12039949--12040086 Score: 80
Period size: 8 Copynumber: 15.9 Consensus size: 8
12039939 ATATTTTTGT
12039949 TATTATTA
1 TATTATTA
* *
12039957 TAATATAA
1 TATTATTA
12039965 TATTATGGTA
1 TATTAT--TA
12039975 TATTATTGTA
1 TATTA-T-TA
*
12039985 AATTA-TA
1 TATTATTA
*
12039992 CTATTGTTA
1 -TATTATTA
*
12040001 TTATTATAA
1 -TATTATTA
12040010 TATTATGGTA
1 TATTAT--TA
*
12040020 TACTATTA
1 TATTATTA
*
12040028 TAGTATTA
1 TATTATTA
* *
12040036 GTAATAATAA
1 -T-ATTATTA
12040046 TATTATTA
1 TATTATTA
12040054 TATTATTA
1 TATTATTA
12040062 TTATTATTA
1 -TATTATTA
12040071 TATTATTA
1 TATTATTA
12040079 TTATTATT
1 -TATTATT
12040087 TCTATTTTCG
Statistics
Matches: 101, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
7 2 0.02
8 50 0.50
9 25 0.25
10 23 0.23
11 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.54
Consensus pattern (8 bp):
TATTATTA
Found at i:12040052 original size:3 final size:3
Alignment explanation
Indices: 12040046--12040086 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
12040036 GTAATAATAA
12040046 TAT TAT TA- TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12040087 TCTATTTTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12040068 original size:17 final size:17
Alignment explanation
Indices: 12040046--12040086 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
12040036 GTAATAATAA
12040046 TATTATTATATTATTAT
1 TATTATTATATTATTAT
12040063 TATTATTATATTATTAT
1 TATTATTATATTATTAT
12040080 TATTATT
1 TATTATT
12040087 TCTATTTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATATTATTAT
Found at i:12044557 original size:27 final size:28
Alignment explanation
Indices: 12044512--12044583 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
12044502 TGTTCATAGT
* *
12044512 TCAATTTTAATTGATTTAATAAATTGA-A
1 TCAA-TTTAATTTAGTTAATAAATTGACA
*
12044540 TCAATTTAATTTAGTTAATTAATTGATCA
1 TCAATTTAATTTAGTTAATAAATTGA-CA
* *
12044569 TTAAATTAATTTAGT
1 TCAATTTAATTTAGT
12044584 CAATTAACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 19 0.51
28 4 0.11
29 14 0.38
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (28 bp):
TCAATTTAATTTAGTTAATAAATTGACA
Found at i:12045600 original size:18 final size:21
Alignment explanation
Indices: 12045550--12045629 Score: 60
Period size: 23 Copynumber: 3.8 Consensus size: 21
12045540 AGATTTAATT
12045550 TAAAATATAATATAATATACAG
1 TAAAATATAATATAATATA-AG
*
12045572 TACAAACATAATATAA-AT-A-
1 TA-AAATATAATATAATATAAG
* *
12045591 TAAAATATAAATATGATATAATT
1 TAAAATAT-AATATAATATAA-G
*
12045614 TAAAATTTAA-ATAATA
1 TAAAATATAATATAATA
12045630 ATTAAATATG
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
18 5 0.11
19 8 0.17
20 3 0.06
21 6 0.13
22 6 0.13
23 19 0.40
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (21 bp):
TAAAATATAATATAATATAAG
Found at i:12045619 original size:23 final size:24
Alignment explanation
Indices: 12045582--12045626 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
12045572 TACAAACATA
12045582 ATATAAATATAAAATATAAATATG
1 ATATAAATATAAAATATAAATATG
* *
12045606 ATAT-AATTTAAAATTTAAATA
1 ATATAAATATAAAATATAAATA
12045627 ATAATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATAAATATAAAATATAAATATG
Found at i:12047867 original size:6 final size:6
Alignment explanation
Indices: 12047844--12047889 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
12047834 AATCCCCTTA
* * *
12047844 CCTCTT CTTCTG CCTCTT CCTCTT CCTCTT CCTCTT CCTTTT CCTC
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTC
12047890 GTCGATATCG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (6 bp):
CCTCTT
Found at i:12052178 original size:20 final size:19
Alignment explanation
Indices: 12052147--12052186 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
12052137 TTTTTTTATG
12052147 AAAATTTAAAATATATATA
1 AAAATTTAAAATATATATA
12052166 AAAATTATAAAATATATATA
1 AAAATT-TAAAATATATATA
12052186 A
1 A
12052187 TTTGATTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTTAAAATATATATA
Found at i:12060027 original size:12 final size:12
Alignment explanation
Indices: 12060003--12060034 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12059993 AAATCATATG
12060003 AAAATTT-AATT
1 AAAATTTAAATT
12060014 AAAATTTAAATT
1 AAAATTTAAATT
12060026 AAAATTTAA
1 AAAATTTAA
12060035 GAATTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:12061185 original size:13 final size:14
Alignment explanation
Indices: 12061159--12061185 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12061149 TTTGTTTTGC
12061159 GAAAAATGATTTTT
1 GAAAAATGATTTTT
12061173 GAAAAATGATTTT
1 GAAAAATGATTTT
12061186 CATATTTTTA
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:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
GAAAAATGATTTTT
Found at i:12061400 original size:13 final size:13
Alignment explanation
Indices: 12061382--12061775 Score: 192
Period size: 13 Copynumber: 30.3 Consensus size: 13
12061372 AAATAATATT
12061382 ATATTAATAAATA
1 ATATTAATAAATA
12061395 ATATTATATTACAA-A
1 ATATTA-A-TA-AATA
12061410 TATATTAATAAATA
1 -ATATTAATAAATA
* *
12061424 ATATTATGTGAATA
1 ATATTA-ATAAATA
12061438 A-A-TAAT--ATA
1 ATATTAATAAATA
* *
12061447 CTATTAATATAGT-
1 ATATTAATA-AATA
*
12061460 ATATTCATAAAT-
1 ATATTAATAAATA
12061472 A-ATTAATAAATA
1 ATATTAATAAATA
12061484 ATATT-ATAATATA
1 ATATTAATAA-ATA
* *
12061497 TTCATAAATAATATA
1 AT-ATTAATAA-ATA
12061512 ATATTAATAAATA
1 ATATTAATAAATA
*
12061525 ATATT-AT-TAT-
1 ATATTAATAAATA
*
12061535 ATATTAATAAACAA
1 ATATTAATAAA-TA
12061549 TATATTAATAAATA
1 -ATATTAATAAATA
*
12061563 TTATT-ATAAATAA
1 ATATTAATAAAT-A
*
12061576 ATATATACT-AAT-
1 ATAT-TAATAAATA
*
12061588 ATATT-AT-ATTA
1 ATATTAATAAATA
12061599 ATA--AATAAATA
1 ATATTAATAAATA
12061610 ATATTAATAAATCA
1 ATATTAATAAAT-A
*
12061624 TATATTAACAAATA
1 -ATATTAATAAATA
**
12061638 ATA-T-ATTGAT-
1 ATATTAATAAATA
12061648 ATATTAATAAATA
1 ATATTAATAAATA
*
12061661 ATATACTATTAATATAA
1 ATAT--TAATAA-AT-A
12061678 TATATTAATAAATA
1 -ATATTAATAAATA
*
12061692 TTATTAATAAATA
1 ATATTAATAAATA
**
12061705 ATA-T-ATTGAT-
1 ATATTAATAAATA
12061715 ATATTAATAAATA
1 ATATTAATAAATA
12061728 ATATACTATTTATATAAT-
1 ATAT--TA---ATA-AATA
12061746 ATATTAATAAATA
1 ATATTAATAAATA
*
12061759 TTATTAATAAATA
1 ATATTAATAAATA
12061772 ATAT
1 ATAT
12061776 ATCAATATTA
Statistics
Matches: 293, Mismatches: 39, Indels: 98
0.68 0.09 0.23
Matches are distributed among these distances:
9 3 0.01
10 17 0.06
11 37 0.13
12 36 0.12
13 95 0.32
14 28 0.10
15 45 0.15
16 17 0.06
17 1 0.00
18 11 0.04
19 3 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (13 bp):
ATATTAATAAATA
Found at i:12061411 original size:21 final size:18
Alignment explanation
Indices: 12061370--12061809 Score: 175
Period size: 18 Copynumber: 24.4 Consensus size: 18
12061360 AATTTTACTT
12061370 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
12061388 ATAAATAATATTATA-T-
1 ATAAATAATATTATATTA
*
12061404 -T--ACAA-A-TATATTA
1 ATAAATAATATTATATTA
* *
12061417 ATAAATAATATTATGTGA
1 ATAAATAATATTATATTA
12061435 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
* *
12061453 ATATAGTATATTCATAAATAATTA
1 ATA-A--ATAAT-AT-TAT-ATTA
12061477 ATAAATAATATTATAATATA
1 ATAAATAATATTAT-AT-TA
*
12061497 TTCATAAATAATATAATATTA
1 ---ATAAATAATATTATATTA
12061518 ATAAATAATATTAT-TATA
1 ATAAATAATATTATAT-TA
* * *
12061536 TATTAATAAACAATATATTA
1 -ATAAAT-AATATTATATTA
* *
12061556 ATAAATATTATTATAAATAA
1 ATAAATAATATTAT--ATTA
12061576 ATATATACTAATATATTATATTA
1 ATA-A-A-T-A-ATATTATATTA
*
12061599 ATAAATAA-ATAATATTA
1 ATAAATAATATTATATTA
**
12061616 ATAAATCATATATTA-ACAA
1 ATAAAT-A-ATATTATATTA
*
12061635 ATAATATATTGA-TATATTA
1 ATAA-ATAAT-ATTATATTA
12061654 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
12061672 AT--AT-A-A-TATATTA
1 ATAAATAATATTATATTA
* *
12061685 ATAAATATTATTA-ATAA
1 ATAAATAATATTATATTA
*
12061702 ATAATATATTGA-TATATTA
1 ATAA-ATAAT-ATTATATTA
12061721 ATAAATAATA-TACTATT-
1 ATAAATAATATTA-TATTA
*
12061738 -T--AT-ATAATATATTA
1 ATAAATAATATTATATTA
* *
12061752 ATAAATATTATTA-ATAA
1 ATAAATAATATTATATTA
*
12061769 AT-AAT-ATATCAATATTA
1 ATAAATAATAT-TATATTA
* *
12061786 ATAAATAATA-TAAAATA
1 ATAAATAATATTATATTA
12061803 ATAAATA
1 ATAAATA
12061810 GTTTTAATTA
Statistics
Matches: 323, Mismatches: 43, Indels: 113
0.67 0.09 0.24
Matches are distributed among these distances:
11 4 0.01
12 2 0.01
13 17 0.05
14 8 0.02
15 8 0.02
16 10 0.03
17 56 0.17
18 96 0.30
19 43 0.13
20 24 0.07
21 13 0.04
22 5 0.02
23 22 0.07
24 9 0.03
25 6 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:12061421 original size:47 final size:44
Alignment explanation
Indices: 12061370--12061797 Score: 276
Period size: 41 Copynumber: 9.7 Consensus size: 44
12061360 AATTTTACTT
12061370 ATAAATAATATTATATTAATAAATAATATTATATTACAAATATATTA
1 ATAAATAATATTATATTAATAAATAATA-TATATT--AAATATATTA
* * *
12061417 ATAAATAATATTATGTGAATAAATAATATACTATT-AATATAGTA
1 ATAAATAATATTATATTAATAAATAATATA-TATTAAATATATTA
** *
12061461 TATTCATAA-A-TA-ATTAATAAATAATAT-TA-T-AATATATTC
1 -ATAAATAATATTATATTAATAAATAATATATATTAAATATATTA
*
12061500 ATAAATAATATAATATTAATAAATAATAT-TATT--ATATATTA
1 ATAAATAATATTATATTAATAAATAATATATATTAAATATATTA
* * *
12061541 ATAAA-CA-A-TATATTAATAAATATTATTATAAATAAATATA-TA
1 ATAAATAATATTATATTAATAAATAATA-TAT-ATTAAATATATTA
* *
12061583 CT-AAT-ATATTATATTAATAAATAAATAATATTAATAAATCATATATTA
1 ATAAATAATATTATATTAATAAAT-AAT-ATA-T-ATTAA--ATATATTA
* *
12061631 ACAAATAATATATTGATATATTAATAAATAATATACTATT-AATATAATA
1 ATAAAT-A-ATA-T--TATATTAATAAATAATATA-TATTAAATATATTA
* *
12061680 TATTAATAA-A-TATTATTAATAAAT-A-ATATATT-GATATATTA
1 -ATAAATAATATTA-TATTAATAAATAATATATATTAAATATATTA
* *
12061721 ATAAATAATA-TACTATT--TATATAATATATTAATAAATATTATTA
1 ATAAATAATATTA-TATTAATAAATAATATA-TATTAAATA-TATTA
12061765 ATAAATAATATATCAATATTAATAAATAATATA
1 ATAAATAATAT-T--ATATTAATAAATAATATA
12061798 AAATAATAAA
Statistics
Matches: 304, Mismatches: 36, Indels: 80
0.72 0.09 0.19
Matches are distributed among these distances:
38 21 0.07
39 15 0.05
40 13 0.04
41 55 0.18
42 24 0.08
43 26 0.09
44 39 0.13
45 12 0.04
46 3 0.01
47 40 0.13
48 4 0.01
49 21 0.07
50 4 0.01
51 1 0.00
52 5 0.02
53 5 0.02
54 3 0.01
55 13 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (44 bp):
ATAAATAATATTATATTAATAAATAATATATATTAAATATATTA
Found at i:12061538 original size:28 final size:28
Alignment explanation
Indices: 12061434--12061796 Score: 103
Period size: 28 Copynumber: 13.4 Consensus size: 28
12061424 ATATTATGTG
12061434 AATAAATAATATACTATTA-ATATAGTATATT
1 AATAAATAATAT--TATTATATATA--ATATT
* *
12061465 CATAAAT-A-ATTA--ATAAATAATATT
1 AATAAATAATATTATTATATATAATATT
*
12061489 -AT-AAT-ATATTCATAAATAATATAATATT
1 AATAAATAATATT-AT-TAT-ATATAATATT
12061517 AATAAAT-A-A-TATTAT-TAT-ATATT
1 AATAAATAATATTATTATATATAATATT
*
12061540 AATAAACAATA-TATTA-ATA-AATATT
1 AATAAATAATATTATTATATATAATATT
* *
12061565 ATTATAAATAAATATATACTAATATATTATATT
1 A--ATAAAT-AATAT-TA-TTATATATAATATT
* *
12061598 AATAAATAAATAATATTAATAAATCATATATT
1 AATAAAT-AATATTATT-ATATAT-A-ATATT
*
12061630 AACAAATAATA-TATTGATATATTAATA--
1 AATAAATAATATTATT-ATATA-TAATATT
* *
12061657 AATAATATACTATTAATATA-AT-ATATT
1 AATAA-ATAATATTATTATATATAATATT
* * *
12061684 AATAAATATTATTAATAAATA-ATATATT
1 AATAAATAATATTATTATATATA-ATATT
* * * *
12061712 GATATATTAATA--AATA-ATATACTATT
1 AATA-AATAATATTATTATATATAATATT
*
12061738 --TATATAATA-TATTA-ATA-AATATT
1 AATAAATAATATTATTATATATAATATT
*
12061761 -ATTAATAA-A-TA--ATATATCAATATT
1 AATAAATAATATTATTATATAT-AATATT
12061785 AATAAATAATAT
1 AATAAATAATAT
12061797 AAAATAATAA
Statistics
Matches: 259, Mismatches: 31, Indels: 88
0.69 0.08 0.23
Matches are distributed among these distances:
21 1 0.00
22 7 0.03
23 29 0.11
24 29 0.11
25 25 0.10
26 27 0.10
27 27 0.10
28 30 0.12
29 17 0.07
30 23 0.09
31 24 0.09
32 14 0.05
33 6 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
AATAAATAATATTATTATATATAATATT
Found at i:12061704 original size:67 final size:67
Alignment explanation
Indices: 12061602--12061797 Score: 317
Period size: 67 Copynumber: 2.9 Consensus size: 67
12061592 TATATTAATA
*
12061602 AATA-AATAATATTAATAAATCATATATTAACAAATAATATATTGATATATTAATAAATAATATA
1 AATATAAT-ATATTAATAAAT-AT-TATTAATAAATAATATATTGATATATTAATAAATAATATA
12061666 CTATT
63 CTATT
12061671 AATATAATATATTAATAAATATTATTAATAAATAATATATTGATATATTAATAAATAATATACTA
1 AATATAATATATTAATAAATATTATTAATAAATAATATATTGATATATTAATAAATAATATACTA
12061736 TT
66 TT
* *
12061738 TATATAATATATTAATAAATATTATTAATAAATAATATA-TCA-ATATTAATAAATAATATA
1 AATATAATATATTAATAAATATTATTAATAAATAATATATTGATATATTAATAAATAATATA
12061798 AAATAATAAA
Statistics
Matches: 123, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
65 18 0.15
66 2 0.02
67 82 0.67
68 2 0.02
69 16 0.13
70 3 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (67 bp):
AATATAATATATTAATAAATATTATTAATAAATAATATATTGATATATTAATAAATAATATACTA
TT
Found at i:12061802 original size:28 final size:29
Alignment explanation
Indices: 12061672--12061806 Score: 85
Period size: 31 Copynumber: 4.2 Consensus size: 29
12061662 TATACTATTA
12061672 ATATAATATATTAATAAATATTATTAATAAATAAT
1 ATATAATATATTAATAAATA--A-T-AT-AA-AAT
* **
12061707 ATATTGATATATTAATAAATAATATACTATTT
1 ATA-TAATATATTAATAAATAATATA--AAAT
*
12061739 ATATAATATATTAATAAATATTATTAATAA-
1 ATATAATATATTAATAAATAATA-TAA-AAT
12061769 ATAATATATCAATATTAATAAATAATATAAAAT
1 AT-ATA-AT--ATATTAATAAATAATATAAAAT
12061802 A-ATAA
1 ATATAA
12061807 ATAGTTTTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
30 4 0.05
31 25 0.30
32 12 0.15
33 6 0.07
34 16 0.20
35 3 0.04
36 16 0.20
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
ATATAATATATTAATAAATAATATAAAAT
Found at i:12061804 original size:17 final size:20
Alignment explanation
Indices: 12061411--12061809 Score: 123
Period size: 23 Copynumber: 19.6 Consensus size: 20
12061401 TATTACAAAT
*
12061411 ATATTAATAAATAATAT--T
1 ATATTAATAAATAATATACA
* *
12061429 ATGTGAATAAATAATATAC-
1 ATATTAATAAATAATATACA
*
12061448 -TATTAATATAGTATATTCATA-A
1 ATATTAATA-A--ATAAT-ATACA
*
12061470 ATAATTAATAAATAATATTATAA
1 AT-ATTAATAAATAATA-TA-CA
*
12061493 TATATTCATAAATAATAT--A
1 -ATATTAATAAATAATATACA
12061512 ATATTAATAAATAATAT---
1 ATATTAATAAATAATATACA
* *
12061529 -TATT-ATATATTAATAAACAA
1 ATATTAATA-AATAATATAC-A
* *
12061549 TATATTAATAAATATTATTATA
1 -ATATTAATAAATAATA-TACA
* **
12061571 A-ATAAATATATACTAATATATT
1 ATATTAATA-A-A-TAATATACA
12061593 ATATTAATAAATAA-AT--A
1 ATATTAATAAATAATATACA
*
12061610 ATATTAATAAAT--CAT---
1 ATATTAATAAATAATATACA
* *
12061625 ATATTAACAAATAATATATTGA
1 ATATTAATAAATAATATA--CA
12061647 TATATTAATAAATAATATAC-
1 -ATATTAATAAATAATATACA
*
12061667 -TATTAATATAATATATTAATAAA
1 ATATTAATA-AATA-A-T-ATACA
*
12061690 TATTATTAATAAATAATATATTGA
1 -A-TATTAATAAATAATATA--CA
*
12061714 TATATTAATAAATAATATACT
1 -ATATTAATAAATAATATACA
* *
12061735 AT-TTATATAATATATTAATAAA
1 ATATTA-ATAA-ATAAT-ATACA
12061757 TATTATTAATAAATAATATATCA
1 -A-TATTAATAAATAATATA-CA
12061780 ATATTAATAAATAATATA-A
1 ATATTAATAAATAATATACA
12061799 A-A-TAATAAATA
1 ATATTAATAAATA
12061810 GTTTTAATTA
Statistics
Matches: 297, Mismatches: 32, Indels: 105
0.68 0.07 0.24
Matches are distributed among these distances:
15 14 0.05
16 12 0.04
17 23 0.08
18 46 0.15
19 13 0.04
20 17 0.06
21 35 0.12
22 33 0.11
23 71 0.24
24 18 0.06
25 7 0.02
26 8 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (20 bp):
ATATTAATAAATAATATACA
Found at i:12061867 original size:26 final size:26
Alignment explanation
Indices: 12061838--12061953 Score: 80
Period size: 26 Copynumber: 4.5 Consensus size: 26
12061828 TTATATTACC
*
12061838 ATAATATTTTAATATTAAAT-ATTATT
1 ATAATATTTTAATAATAAATAATT-TT
* * * * *** *
12061864 ATAAAATATTATTATTTTTTAATATT
1 ATAATATTTTAATAATAAATAATTTT
*
12061890 ACTAAT-TTT-AATAATAAATAATTTC
1 A-TAATATTTTAATAATAAATAATTTT
12061915 A-ATATATTTTAATAATAAATAATTTT
1 ATA-ATATTTTAATAATAAATAATTTT
12061941 -TAATATTTTAATA
1 ATAATATTTTAATA
12061954 GTTATATTAA
Statistics
Matches: 67, Mismatches: 17, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 24 0.36
26 35 0.52
27 5 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAATATTTTAATAATAAATAATTTT
Found at i:12061872 original size:13 final size:13
Alignment explanation
Indices: 12061854--12061878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12061844 TTTTAATATT
12061854 AAATATTATTATA
1 AAATATTATTATA
12061867 AAATATTATTAT
1 AAATATTATTAT
12061879 TTTTTAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTATTATA
Found at i:12061952 original size:25 final size:26
Alignment explanation
Indices: 12061894--12061953 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
12061884 AATATTACTA
12061894 ATTTTAATAATAAATAATTTCAATAT
1 ATTTTAATAATAAATAATTTCAATAT
**
12061920 ATTTTAATAATAAATAATTTTTA-AT
1 ATTTTAATAATAAATAATTTCAATAT
12061945 ATTTTAATA
1 ATTTTAATA
12061954 GTTATATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTTAATAATAAATAATTTCAATAT
Done.