Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 21 of 127
Found at i:4828822 original size:21 final size:20
Alignment explanation
Indices: 4828784--4828834 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
4828774 AAATTTTAAA
**
4828784 AAAAGAAAAAATTTTAAAAAGC
1 AAAA-AAAAAATGATAAAAA-C
4828806 AAAAAAAAAATGATAAAAAC
1 AAAAAAAAAATGATAAAAAC
4828826 AAAACAAAA
1 AAAA-AAAA
4828835 GAGAGAGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 17 0.65
22 4 0.15
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (20 bp):
AAAAAAAAAATGATAAAAAC
Found at i:4831172 original size:90 final size:91
Alignment explanation
Indices: 4830992--4831164 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 91
4830982 TGTGTATTAG
* * * ** *
4830992 ATATACCATTTGATTAGATTTATGGTCTTAATTTCATTTCCTTGTTTAATCTTTGGAATCTGTTT
1 ATATACCATTTGATTAGATTTACGGTCTTAATTTCATTTCCTTGTATAATATTTGGAATCCATCT
4831057 CTCTTTTTTCAAAATTTCCTCTTGGC
66 CTCTTTTTTCAAAATTTCCTCTTGGC
* * *
4831083 ATATATCA-TTGATTAGTTTTGCGGTCTT-ATTTCCATTTCCTTGTATAATATTTGCG-ATCCAT
1 ATATACCATTTGATTAGATTTACGGTCTTAATTT-CATTTCCTTGTATAATATTTG-GAATCCAT
*
4831145 CTCTCTTGTTTT-GAAATTTC
64 CTCTCTT-TTTTCAAAATTTC
4831165 TTTTTGGCGC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
89 4 0.06
90 53 0.77
91 12 0.17
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.51
Consensus pattern (91 bp):
ATATACCATTTGATTAGATTTACGGTCTTAATTTCATTTCCTTGTATAATATTTGGAATCCATCT
CTCTTTTTTCAAAATTTCCTCTTGGC
Found at i:4831734 original size:23 final size:22
Alignment explanation
Indices: 4831692--4831754 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
4831682 ACTCAAGTCT
*
4831692 AAACAAAAAAATTAAAATTTAA
1 AAACAAAAAAATAAAAATTTAA
4831714 AAACAAAAAAA-AAATAGATTTAA
1 AAACAAAAAAATAAA-A-ATTTAA
*
4831737 TAAA-AACAAAATTAAAAA
1 -AAACAA-AAAAATAAAAA
4831755 AATAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 2 0.06
22 12 0.35
23 9 0.26
24 8 0.24
25 3 0.09
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (22 bp):
AAACAAAAAAATAAAAATTTAA
Found at i:4837212 original size:240 final size:238
Alignment explanation
Indices: 4836789--4837274 Score: 927
Period size: 240 Copynumber: 2.0 Consensus size: 238
4836779 AGATTAATAG
4836789 AATATTGAAAAAAAGGGCAAAAGTCTAGGTCTGACGTCTAAGATAGGAAATTTTTTATTTCATTT
1 AATATTGAAAAAAAGGGCAAAAGTCTAGGTCTGACGTCTAAGATAGGAAATTTTTTATTTCATTT
4836854 ATTGCTTTCAAGTTTTGTTTCCTTAAAATATTAATAAAGAGTTTAAAAAATAAGAATATACTAAG
66 ATTGCTTTCAAGTTTTGTTTCCTTAAAATATTAATAAAGAGTTTAAAAAATAAGAATATACTAAG
*
4836919 ACTTTGTTATATATAAATATAATAAGATTTCATTTTCTTATAACATTGTTCCCTTTGATAACATA
131 ACTTTGCTATATATAAATATAATAAGATTTCATTTTCTTATAACATTGTTCCCTTTGATAACATA
4836984 TAGTTAAGTTGTTTTACGTTCTTTCAGGTGCCTTACACGCCAATT
196 TAGTTAAGTTGTTTTACGTTCTTTCAGGTGCC-T-CACGCCAATT
*
4837029 AATATTGAAAAATAGGGCAAAAGTCTAGGTCTGACGTCTAAGATAGGAAATTTTTTATTTCATTT
1 AATATTGAAAAAAAGGGCAAAAGTCTAGGTCTGACGTCTAAGATAGGAAATTTTTTATTTCATTT
4837094 ATTGCTTTCAAGTTTTGTTTCCTTAAAATATTAATAAAGAGTTTAAAAAATAAGAATATACTAAG
66 ATTGCTTTCAAGTTTTGTTTCCTTAAAATATTAATAAAGAGTTTAAAAAATAAGAATATACTAAG
4837159 ACTTTGCTATATATAAATATAATAAGATTTCATTTTCTTATAACATTGTTCCCTTTGATAACATA
131 ACTTTGCTATATATAAATATAATAAGATTTCATTTTCTTATAACATTGTTCCCTTTGATAACATA
4837224 TAGTTAAGTTGTTTTACGTTCTTTCAGGTGCCTCACGCCAATT
196 TAGTTAAGTTGTTTTACGTTCTTTCAGGTGCCTCACGCCAATT
*
4837267 AATCTTGA
1 AATATTGA
4837275 TTCTCTCTAG
Statistics
Matches: 243, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
238 17 0.07
239 1 0.00
240 225 0.93
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (238 bp):
AATATTGAAAAAAAGGGCAAAAGTCTAGGTCTGACGTCTAAGATAGGAAATTTTTTATTTCATTT
ATTGCTTTCAAGTTTTGTTTCCTTAAAATATTAATAAAGAGTTTAAAAAATAAGAATATACTAAG
ACTTTGCTATATATAAATATAATAAGATTTCATTTTCTTATAACATTGTTCCCTTTGATAACATA
TAGTTAAGTTGTTTTACGTTCTTTCAGGTGCCTCACGCCAATT
Found at i:4837818 original size:12 final size:12
Alignment explanation
Indices: 4837801--4837825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4837791 AGGTACATAC
4837801 ATACATATATAT
1 ATACATATATAT
4837813 ATACATATATAT
1 ATACATATATAT
4837825 A
1 A
4837826 GTAGGGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATACATATATAT
Found at i:4842919 original size:39 final size:37
Alignment explanation
Indices: 4842860--4842978 Score: 94
Period size: 39 Copynumber: 2.9 Consensus size: 37
4842850 TTTTCTTTTG
* *
4842860 TATTTTATGTATTCTATTATTATTATTATTATTATGTA
1 TATTTTATTTATT-TATTATTATTATTATTATTATATA
* *
4842898 TATCTTTATTTATTTATTTATTTTTATTCAGATTAGATTTATATG
1 TAT-TTTATTTATTTA-TTATTATTATT---ATT--A-TTATATA
*
4842943 TATTTTATTTATATAGTTATATATTATTATTATTAT
1 TATTTTATTTATTTA-TTAT-TATTATTATTATTAT
4842979 TTTTTTTTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
38 5 0.08
39 23 0.35
40 1 0.02
42 6 0.09
44 16 0.25
45 14 0.22
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (37 bp):
TATTTTATTTATTTATTATTATTATTATTATTATATA
Found at i:4843632 original size:19 final size:19
Alignment explanation
Indices: 4843608--4843654 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
4843598 TTCCGGCCAT
4843608 ATTCCGGCAAAATTTCCAG
1 ATTCCGGCAAAATTTCCAG
* *
4843627 ATTCCGGCGACATTTCCAG
1 ATTCCGGCAAAATTTCCAG
*
4843646 AATCCGGCA
1 ATTCCGGCA
4843655 CCGGTGTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (19 bp):
ATTCCGGCAAAATTTCCAG
Found at i:4844010 original size:15 final size:15
Alignment explanation
Indices: 4843977--4844020 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4843967 CGCTCCAGGT
***
4843977 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTGAA
4843992 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
*
4844007 TTTTTTTTATTTGA
1 TTTTTTTTTTTTGA
4844021 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:4844014 original size:1 final size:1
Alignment explanation
Indices: 4843976--4844003 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
4843966 CCGCTCCAGG
4843976 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
4844004 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4844225 original size:158 final size:160
Alignment explanation
Indices: 4844036--4844354 Score: 525
Period size: 161 Copynumber: 2.0 Consensus size: 160
4844026 ATTTTGATCT
** *
4844036 TGATTTTTTTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTTTACAA-AAACAGTAGTTT
1 TGATTTTGATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGAAACAGTAGTTT
4844100 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
66 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
* * *
4844165 AGAATAATTTCCGATAATTAATTACTTGGC
131 AGAATAATTTCCAACAACTAATTACTTGGC
*
4844195 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGT
1 TGATTTTGATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAA--GAAACAGTAGT
*
4844259 TTTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
64 TTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
*
4844324 TGAGAATCATTTCCAACAACTAATTACTTGG
129 TGAGAATAATTTCCAACAACTAATTACTTGG
4844355 TAAAATTTTA
Statistics
Matches: 148, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
158 36 0.24
159 11 0.07
161 101 0.68
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (160 bp):
TGATTTTGATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGAAACAGTAGTTT
TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
AGAATAATTTCCAACAACTAATTACTTGGC
Found at i:4848066 original size:13 final size:13
Alignment explanation
Indices: 4848032--4848069 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
4848022 AGACGATGAT
4848032 AAAAA-AAAA-AA
1 AAAAAGAAAAGAA
4848043 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
4848056 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
4848069 A
1 A
4848070 TGAGAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 5 0.20
12 4 0.16
13 16 0.64
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:4848077 original size:18 final size:18
Alignment explanation
Indices: 4848032--4848069 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4848022 AGACGATGAT
4848032 AAAA-AAAAAAAAAAAAG
1 AAAAGAAAAAAAAAAAAG
*
4848049 AAAAGAAAAAAAGAAAAG
1 AAAAGAAAAAAAAAAAAG
4848067 AAA
1 AAA
4848070 TGAGAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAAAG
Found at i:4849324 original size:41 final size:41
Alignment explanation
Indices: 4849279--4849776 Score: 754
Period size: 41 Copynumber: 12.1 Consensus size: 41
4849269 ATGATTGTCA
* *
4849279 AGGAGTAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* *
4849320 AGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
*
4849361 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* *
4849402 AGGAGCAATTTATCTTTCCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTGAG
*
4849444 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
*
4849485 AGGAGCAATTTACTTTTCAAAGTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTGAG
4849525 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
4849566 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTGAG
* *
4849608 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
*
4849649 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* *
4849690 AGGAGCAATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTGAG
* * * *
4849730 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTGAG
4849771 AGGAGC
1 AGGAGC
4849777 TTCGGCAAAA
Statistics
Matches: 429, Mismatches: 19, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
39 9 0.02
40 64 0.15
41 269 0.63
42 87 0.20
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
Found at i:4849789 original size:1 final size:1
Alignment explanation
Indices: 4849783--4849869 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
4849773 GAGCTTCGGC
* * ** * * * * *
4849783 AAAAAAAAAAACAAAAAAAACAAAAAAAATCAAAAAAATAAAAACAAAAATAAAAACAAAAATAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** *
4849848 AAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
4849870 TGTTGAGTTG
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:4849799 original size:12 final size:12
Alignment explanation
Indices: 4849782--4849869 Score: 77
Period size: 12 Copynumber: 7.0 Consensus size: 12
4849772 GGAGCTTCGG
4849782 CAAAAAAAAAAA
1 CAAAAAAAAAAA
4849794 CAAAAAAAACAAA
1 CAAAAAAAA-AAA
*
4849807 AAAAATCAAAAAAA
1 CAAAA--AAAAAAA
* *
4849821 TAAAAACAAAAA
1 CAAAAAAAAAAA
* *
4849833 TAAAAACAAAAA
1 CAAAAAAAAAAA
* *
4849845 TAAAAAAAAAAT
1 CAAAAAAAAAAA
4849857 CAAAAAATAAAAA
1 CAAAAAA-AAAAA
4849870 TGTTGAGTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
12 43 0.66
13 11 0.17
14 7 0.11
15 4 0.06
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:4849809 original size:18 final size:17
Alignment explanation
Indices: 4849786--4849869 Score: 87
Period size: 18 Copynumber: 4.6 Consensus size: 17
4849776 CTTCGGCAAA
4849786 AAAAAAAACAAAAAAAAC
1 AAAAAAAA-AAAAAAAAC
* *
4849804 AAAAAAAATCAAAAAAAT
1 AAAAAAAA-AAAAAAAAC
*
4849822 AAAAACAAAAATAAAAAC
1 AAAAA-AAAAAAAAAAAC
*
4849840 AAAAATAAAAAAAAAATC
1 AAAAA-AAAAAAAAAAAC
4849858 AAAAAATAAAAA
1 AAAAAA-AAAAA
4849870 TGTTGAGTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
17 1 0.02
18 51 0.93
19 3 0.05
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAC
Found at i:4849826 original size:33 final size:32
Alignment explanation
Indices: 4849783--4849869 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 32
4849773 GAGCTTCGGC
4849783 AAAAAAAAAAACAAAAA-AAACAAAAAAAATCAA
1 AAAAAAAAAAACAAAAATAAA-AAAAAAAAT-AA
* *
4849816 AAAAATAAAAACAAAAATAAAAACAAAAATAA
1 AAAAAAAAAAACAAAAATAAAAAAAAAAATAA
**
4849848 AAAAAAAATCA-AAAAATAAAAA
1 AAAAAAAAAAACAAAAATAAAAA
4849870 TGTTGAGTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 11 0.23
32 10 0.21
33 24 0.50
34 3 0.06
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (32 bp):
AAAAAAAAAAACAAAAATAAAAAAAAAAATAA
Found at i:4850098 original size:39 final size:40
Alignment explanation
Indices: 4850042--4850153 Score: 97
Period size: 39 Copynumber: 2.8 Consensus size: 40
4850032 TCTTTTGTAT
* *
4850042 TTTATGTATTCTA-TTATTATTATTATTATTATG-TATATC
1 TTTATTTATT-TATTTATTATTATTATTATTATGATATATA
* * *
4850081 TTTATTTATTTATTTATTTTTATTCA-GATTA-GATTTATA
1 TTTATTTATTTATTTATTATTATT-ATTATTATGATATATA
* *
4850120 TGTATTTATTTATATAGTTATATATTATTATTAT
1 TTTATTTATTTATTTA-TTAT-TATTATTATTAT
4850154 TATTTTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
38 3 0.05
39 41 0.72
40 5 0.09
41 8 0.14
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (40 bp):
TTTATTTATTTATTTATTATTATTATTATTATGATATATA
Found at i:4851183 original size:15 final size:15
Alignment explanation
Indices: 4851150--4851193 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4851140 CGCTCCAGGT
***
4851150 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTGAA
4851165 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
*
4851180 TTTTTTTTATTTGA
1 TTTTTTTTTTTTGA
4851194 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:4851187 original size:1 final size:1
Alignment explanation
Indices: 4851149--4851176 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
4851139 CCGCTCCAGG
4851149 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
4851177 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4851398 original size:158 final size:160
Alignment explanation
Indices: 4851209--4851527 Score: 534
Period size: 161 Copynumber: 2.0 Consensus size: 160
4851199 ATTTTGATCT
**
4851209 TGATTTTTTTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAA-AAACAGTAGTTT
1 TGATTTTGATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGAAACAGTAGTTT
4851273 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
66 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
* * *
4851338 AGAATAATTTCCGATAATTAATTACTTGGC
131 AGAATAATTTCCAACAACTAATTACTTGGC
*
4851368 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGT
1 TGATTTTGATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAA--GAAACAGTAGT
*
4851432 TTTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
64 TTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
*
4851497 TGAGAATCATTTCCAACAACTAATTACTTGG
129 TGAGAATAATTTCCAACAACTAATTACTTGG
4851528 TAAAATTTTA
Statistics
Matches: 149, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
158 37 0.25
159 11 0.07
161 101 0.68
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (160 bp):
TGATTTTGATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGAAACAGTAGTTT
TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
AGAATAATTTCCAACAACTAATTACTTGGC
Found at i:4864840 original size:2 final size:2
Alignment explanation
Indices: 4864833--4864882 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4864823 AAGATCGGTG
*
4864833 TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4864875 TA TA TA TA
1 TA TA TA TA
4864883 GAGTAAAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4866679 original size:24 final size:25
Alignment explanation
Indices: 4866623--4866680 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 25
4866613 TTTAATTGCA
*
4866623 TTAATAAAATATTTATTATTGCCTT
1 TTAAAAAAATATTTATTATTGCCTT
4866648 TATCAAAAAAATATTTATTATTG-CTT
1 T-T-AAAAAAATATTTATTATTGCCTT
4866674 TTAAAAA
1 TTAAAAA
4866681 CTTTTAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.17
25 2 0.07
26 5 0.17
27 18 0.60
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (25 bp):
TTAAAAAAATATTTATTATTGCCTT
Found at i:4867996 original size:361 final size:361
Alignment explanation
Indices: 4867332--4868054 Score: 1245
Period size: 361 Copynumber: 2.0 Consensus size: 361
4867322 TCCTATATTA
*
4867332 TTCCACAATAAATTTCCGTAAAGGAAAAAAGTTATAATGACTAAAAATAAAGATGTAATTTTATT
1 TTCCACAATAAATTTCCGTAAAGGAAAAAAATTATAATGACTAAAAATAAAGATGTAATTTTATT
*
4867397 AAAACTAACAAATCTCTTACATTTTAACAAAAAAAAAATTTAAAATTTGAAGTTCATATCTCATC
66 AAAACCAACAAATCTCTTACATTTTAACAAAAAAAAAATTTAAAATTTGAAGTTCATATCTCATC
*
4867462 TTACAAATAAGTTCCATTAAAATTTACGTGGTTTTATTGATTTCTTTAGTTTGCTTATTAATTTT
131 TTACAAATAAGTTCCATTAAAATTTACGTGGTTTTATTGATTTATTTAGTTTGCTTATTAATTTT
*
4867527 TTTAATGTAATAGATTTATCGTATATGTTGAAAAATATTGCATTAGATTGTAATTTTTATTTGAA
196 TTTAATGTAATAGATTTATCATATATGTTGAAAAATATTGCATTAGATTGTAATTTTTATTTGAA
*
4867592 CATGTAATCTCATGAAAAAGCCAAAATTATGCAAGAAAAAGACAAACATGTTATTGATTTTTACT
261 CATGTAACCTCATGAAAAAGCCAAAATTATGCAAGAAAAAGACAAA-ATGTTATTGATTTTTACT
4867657 CAA-TTTCAAGATTTTACTTTTTAAGTTATATTTCGG
325 CAATTTTCAAGATTTTACTTTTTAAGTTATATTTCGG
* * *
4867693 TTCCACAATAAATTTCTGTAAAGGAAAAAAATTATAATGACTAAAAATACAGATGTAGTTTTATT
1 TTCCACAATAAATTTCCGTAAAGGAAAAAAATTATAATGACTAAAAATAAAGATGTAATTTTATT
* * ** *
4867758 AAAACCAACAAATCTCTTATA-TTTATACAAGGAAAAATTTTTAAAATTTGATGTTCATATCTCA
66 AAAACCAACAAATCTCTTACATTTTA-ACAA-AAAAAAAATTTAAAATTTGAAGTTCATATCTCA
* *
4867822 TCTTATAGATAAGTTCCATTAAAATTTACGTGGTTTTATTGATTTATTTAGTTTGCTTATTAA-T
129 TCTTACAAATAAGTTCCATTAAAATTTACGTGGTTTTATTGATTTATTTAGTTTGCTTATTAATT
* *
4867886 TTTTTAATGTAATAGATTTGTCATATATGTTGAATAATATTGCATTAGATTGTAATTTTTATTTG
194 TTTTTAATGTAATAGATTTATCATATATGTTGAAAAATATTGCATTAGATTGTAATTTTTATTTG
4867951 AACATGTAACCTCATGAAAAAGCCAAAATTATGCAAGAAAAAGACAAAATGTTATTGATTTTTAC
259 AACATGTAACCTCATGAAAAAGCCAAAATTATGCAAGAAAAAGACAAAATGTTATTGATTTTTAC
4868016 TCAATTTTCAAGATTTTACTTTTTAAGTTATATTTCGG
324 TCAATTTTCAAGATTTTACTTTTTAAGTTATATTTCGG
4868054 T
1 T
4868055 ATATAATTTA
Statistics
Matches: 342, Mismatches: 17, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
360 25 0.07
361 228 0.67
362 89 0.26
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.41
Consensus pattern (361 bp):
TTCCACAATAAATTTCCGTAAAGGAAAAAAATTATAATGACTAAAAATAAAGATGTAATTTTATT
AAAACCAACAAATCTCTTACATTTTAACAAAAAAAAAATTTAAAATTTGAAGTTCATATCTCATC
TTACAAATAAGTTCCATTAAAATTTACGTGGTTTTATTGATTTATTTAGTTTGCTTATTAATTTT
TTTAATGTAATAGATTTATCATATATGTTGAAAAATATTGCATTAGATTGTAATTTTTATTTGAA
CATGTAACCTCATGAAAAAGCCAAAATTATGCAAGAAAAAGACAAAATGTTATTGATTTTTACTC
AATTTTCAAGATTTTACTTTTTAAGTTATATTTCGG
Found at i:4868402 original size:11 final size:12
Alignment explanation
Indices: 4868372--4868400 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4868362 AATATGTAAA
4868372 AAAAAATTATTT
1 AAAAAATTATTT
4868384 AAAAAATTATTT
1 AAAAAATTATTT
4868396 AAAAA
1 AAAAA
4868401 TTTAAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAAAATTATTT
Found at i:4869799 original size:32 final size:32
Alignment explanation
Indices: 4869739--4869807 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
4869729 TTAAAATAAG
*
4869739 TATTATATTATATAATCAATTGATTAATTAAT
1 TATTATATTATATAATCAATTGATTAATTAAA
4869771 TATTATA-T-TATAATCAAATT-ATAATAATTAAA
1 TATTATATTATATAATC-AATTGAT--TAATTAAA
4869803 TATTA
1 TATTA
4869808 ACTAACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 9 0.27
31 5 0.15
32 19 0.58
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (32 bp):
TATTATATTATATAATCAATTGATTAATTAAA
Found at i:4873470 original size:24 final size:25
Alignment explanation
Indices: 4873443--4873491 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
4873433 TTTTATATTG
4873443 TATAT-TTAA-ATA-ATTTTTTAAA
1 TATATATTAATATATATTTTTTAAA
*
4873465 TATATATTAATATATTTTTTTTAAA
1 TATATATTAATATATATTTTTTAAA
4873490 TA
1 TA
4873492 AAAATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 4 0.17
24 3 0.13
25 11 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATATATTAATATATATTTTTTAAA
Found at i:4873550 original size:2 final size:2
Alignment explanation
Indices: 4873543--4873586 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
4873533 TATTTACTAA
* * *
4873543 AT AT AT AT AA AT AT AT AT GT AG AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4873585 AT
1 AT
4873587 GTAAGGTACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4874856 original size:14 final size:15
Alignment explanation
Indices: 4874837--4874866 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4874827 TATTTATTTT
4874837 TTATAT-AATATAAA
1 TTATATAAATATAAA
4874851 TTATATAAATATAAA
1 TTATATAAATATAAA
4874866 T
1 T
4874867 ATAATATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTATATAAATATAAA
Found at i:4874882 original size:14 final size:14
Alignment explanation
Indices: 4874837--4874885 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
4874827 TATTTATTTT
*
4874837 TTATATAATATAAA
1 TTATATAATATATA
4874851 TTATATAA-ATATA
1 TTATATAATATATA
* *
4874864 -AATATAATATGTA
1 TTATATAATATATA
4874877 TTATATAAT
1 TTATATAAT
4874886 TGTCCAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 8 0.28
14 15 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TTATATAATATATA
Found at i:4875634 original size:16 final size:18
Alignment explanation
Indices: 4875613--4875651 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
4875603 AACTTACAAT
*
4875613 TATAAATATAT-TA-ATA
1 TATAAACATATATATATA
4875629 TATAAACATATATATATA
1 TATAAACATATATATATA
4875647 TATAA
1 TATAA
4875652 CAAAATAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAACATATATATATA
Found at i:4877804 original size:35 final size:34
Alignment explanation
Indices: 4877739--4877811 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
4877729 TTTTCATATT
* *
4877739 AAACATTATAAATATAATTAATTAATTTTTAAATA
1 AAACACTATAAATATAATTAA-TAAATTTTAAATA
*
4877774 AAACACTATAAATAATAATTTAA-AAATTTTAATTA
1 AAACACTATAAAT-ATAA-TTAATAAATTTTAAATA
4877809 AAA
1 AAA
4877812 TTTTAATAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 25 0.76
36 4 0.12
37 4 0.12
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (34 bp):
AAACACTATAAATATAATTAATAAATTTTAAATA
Found at i:4880556 original size:30 final size:30
Alignment explanation
Indices: 4880522--4880588 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
4880512 ATATTAAGAG
*
4880522 CTTATTTAGGTACAAATTAAAGGCTAAGGA
1 CTTATTTAGATACAAATTAAAGGCTAAGGA
* **
4880552 CTTATTTAGATATAAATTAAAGTTTAAGGA
1 CTTATTTAGATACAAATTAAAGGCTAAGGA
4880582 CTTATTT
1 CTTATTT
4880589 GTGTGTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (30 bp):
CTTATTTAGATACAAATTAAAGGCTAAGGA
Found at i:4887274 original size:15 final size:14
Alignment explanation
Indices: 4887254--4887283 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4887244 GAAATTACGA
4887254 AAAGTAAGATTCTTG
1 AAAGTAAGATT-TTG
4887269 AAAGTAAGATTTTG
1 AAAGTAAGATTTTG
4887283 A
1 A
4887284 TCAAGAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (14 bp):
AAAGTAAGATTTTG
Found at i:4890061 original size:16 final size:16
Alignment explanation
Indices: 4890040--4890070 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4890030 TAAATAAATG
4890040 ATTTATTTAAAATTTT
1 ATTTATTTAAAATTTT
*
4890056 ATTTATTTAACATTT
1 ATTTATTTAAAATTT
4890071 AAATTGTTTA
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:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTAAAATTTT
Found at i:4890250 original size:73 final size:72
Alignment explanation
Indices: 4890164--4890344 Score: 166
Period size: 73 Copynumber: 2.4 Consensus size: 72
4890154 AAGAGTTTTG
* * * * * *
4890164 AAAAATATTTTTTTTAACATTTTCAATAAAAATCATG-TTTTTTATTTTAGAAACGTGGTTTTTG
1 AAAAATA-ATTTTTTAACATTTTAAACAAAAAT--TGATTTTTTATCTTAAAAACATGGTTTTTG
*
4890228 TTGAATTCTA
63 TTAAATTCTA
* * * *
4890238 AAAAATAATTTTTTTATATTTTAAACAAAAATTGCATTTTTTATCTTAAAAATATTGTTTTTGTT
1 AAAAATAATTTTTTAACATTTTAAACAAAAATTG-ATTTTTTATCTTAAAAACATGGTTTTTGTT
* *
4890303 AAATTTTG
65 AAATTCTA
* *
4890311 AAAAATAATTTTTTTTCATATTTTAAACAAAAAT
1 AAAAATAA--TTTTTTAACATTTTAAACAAAAAT
4890345 CATGTCTTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
71 2 0.02
73 57 0.64
74 7 0.08
75 23 0.26
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (72 bp):
AAAAATAATTTTTTAACATTTTAAACAAAAATTGATTTTTTATCTTAAAAACATGGTTTTTGTTA
AATTCTA
Found at i:4890384 original size:68 final size:69
Alignment explanation
Indices: 4890222--4890403 Score: 201
Period size: 68 Copynumber: 2.6 Consensus size: 69
4890212 AGAAACGTGG
4890222 TTTTTGTTGAATTCTAAAAAATAATTTTTTT-ATATTTTAAACAAAAATTGCATTTTTTATCTTA
1 TTTTTGTTGAATTCT-AAAAATAATTTTTTTCATATTTTAAACAAAAATTGCA----TTATCTTA
* *
4890286 AAAATATTG
61 AAAACATTA
* * *
4890295 TTTTTGTTAAATTTTGAAAAATAATTTTTTTTCATATTTTAAACAAAAA-T-CA-TGTCTTAAAA
1 TTTTTGTTGAATTCT-AAAAATAA-TTTTTTTCATATTTTAAACAAAAATTGCATTATCTTAAAA
4890357 ACATTA
64 ACATTA
4890363 TTTTTGTTGAATTCTATAAAATAAAATTTTTTTCATATTTT
1 TTTTTGTTGAATTCTA-AAAAT--AATTTTTTTCATATTTT
4890404 CAGCAATGAT
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
67 1 0.01
68 31 0.32
69 15 0.16
70 2 0.02
73 23 0.24
74 8 0.08
75 16 0.17
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (69 bp):
TTTTTGTTGAATTCTAAAAATAATTTTTTTCATATTTTAAACAAAAATTGCATTATCTTAAAAAC
ATTA
Found at i:4898466 original size:17 final size:18
Alignment explanation
Indices: 4898440--4898473 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4898430 TTTAGCCTCA
4898440 AGGCCAAAA-TTTATGTG
1 AGGCCAAAATTTTATGTG
*
4898457 AGGCCTAAATTTTATGT
1 AGGCCAAAATTTTATGT
4898474 CAATTGGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (18 bp):
AGGCCAAAATTTTATGTG
Found at i:4898472 original size:18 final size:17
Alignment explanation
Indices: 4898440--4898473 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4898430 TTTAGCCTCA
4898440 AGGCCAAAATTTATGTG
1 AGGCCAAAATTTATGTG
*
4898457 AGGCCTAAATTTTATGT
1 AGGCC-AAAATTTATGT
4898474 CAATTGGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (17 bp):
AGGCCAAAATTTATGTG
Found at i:4898524 original size:6 final size:6
Alignment explanation
Indices: 4898515--4898589 Score: 54
Period size: 5 Copynumber: 12.7 Consensus size: 6
4898505 TCAAATAATA
*
4898515 TTTTGT TTTTA- TTTTACT TTATTA- TTTTA- TTTTA- TTTTACT TTATTA-
1 TTTTAT TTTTAT TTTTA-T TT-TTAT TTTTAT TTTTAT TTTTA-T TT-TTAT
4898562 TTTTA- TTTTAT TTTTAT TTATTAT TTTT
1 TTTTAT TTTTAT TTTTAT TT-TTAT TTTT
4898590 CTCTTTTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
5 26 0.43
6 18 0.30
7 10 0.17
8 6 0.10
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:4898529 original size:5 final size:5
Alignment explanation
Indices: 4898521--4898580 Score: 65
Period size: 5 Copynumber: 12.6 Consensus size: 5
4898511 AATATTTTGT
* *
4898521 TTTTA TTTTA CTTTA --TTA TTTTA TTTTA TTTTA CTTTA --TTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
4898567 TTTTA TTTTTA TTT
1 TTTTA -TTTTA TTT
4898581 ATTATTTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
3 6 0.12
5 37 0.77
6 5 0.10
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:4898547 original size:23 final size:23
Alignment explanation
Indices: 4898521--4898588 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
4898511 AATATTTTGT
4898521 TTTTATTTTACTTTATTATTTTA
1 TTTTATTTTACTTTATTATTTTA
4898544 TTTTATTTTACTTTATTATTTTA
1 TTTTATTTTACTTTATTATTTTA
4898567 TTTTATTTTTA-TTTATTATTTT
1 TTTTA-TTTTACTTTATTATTTT
4898589 TCTCTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
23 39 0.89
24 5 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTATTTTACTTTATTATTTTA
Found at i:4898588 original size:18 final size:16
Alignment explanation
Indices: 4898513--4898580 Score: 82
Period size: 18 Copynumber: 4.0 Consensus size: 16
4898503 ATTCAAATAA
*
4898513 TATTTTGTTTTTATTT
1 TATTTTATTTTTATTT
*
4898529 TACTTTATTATTTTATTT
1 TATTTTA-T-TTTTATTT
4898547 TATTTTACTTTATTATTT
1 TATTTTA-TTT-TTATTT
4898565 TATTTTATTTTTATTT
1 TATTTTATTTTTATTT
4898581 ATTATTTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.24
17 6 0.13
18 28 0.62
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTATTTTTATTT
Found at i:4898589 original size:13 final size:12
Alignment explanation
Indices: 4898513--4898588 Score: 81
Period size: 13 Copynumber: 6.5 Consensus size: 12
4898503 ATTCAAATAA
*
4898513 TATTTTGTTT-T
1 TATTTTATTTAT
4898524 TATTTTACTTTAT
1 TATTTTA-TTTAT
4898537 TATTTTA-TT-T
1 TATTTTATTTAT
4898547 TATTTTACTTTAT
1 TATTTTA-TTTAT
4898560 TATTTTA-TT-T
1 TATTTTATTTAT
4898570 TATTTTTATTTAT
1 TA-TTTTATTTAT
4898583 TATTTT
1 TATTTT
4898589 TCTCTTTTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
10 11 0.20
11 15 0.27
12 11 0.20
13 19 0.34
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:4898599 original size:23 final size:23
Alignment explanation
Indices: 4898513--4898588 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
4898503 ATTCAAATAA
*
4898513 TATTTTGTTTTTATTTTACTTTAT
1 TATTTTATTTTT-TTTTACTTTAT
*
4898537 TATTTTATTTTATTTTACTTTAT
1 TATTTTATTTTTTTTTACTTTAT
4898560 TATTTTATTTTATTTTTA-TTTAT
1 TATTTTATTTT-TTTTTACTTTAT
4898583 TATTTT
1 TATTTT
4898589 TCTCTTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 33 0.69
24 15 0.31
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (23 bp):
TATTTTATTTTTTTTTACTTTAT
Found at i:4900062 original size:17 final size:16
Alignment explanation
Indices: 4900040--4900083 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
4900030 TATTTTGATA
*
4900040 AAATAAAAAAGTAAAAC
1 AAATAAAAAAAT-AAAC
*
4900057 AAATAAATAAAATAAAT
1 AAATAAA-AAAATAAAC
4900074 AAATAAAAAA
1 AAATAAAAAA
4900084 TACCAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 17 0.71
18 4 0.17
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAAATAAAC
Found at i:4900067 original size:13 final size:13
Alignment explanation
Indices: 4900037--4900081 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
4900027 TTTTATTTTG
4900037 ATAAAATAAA-AA
1 ATAAAATAAATAA
*
4900049 AGTAAAACAAATAA
1 A-TAAAATAAATAA
4900063 ATAAAATAAATAA
1 ATAAAATAAATAA
4900076 ATAAAA
1 ATAAAA
4900082 AATACCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 1 0.03
13 25 0.86
14 3 0.10
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (13 bp):
ATAAAATAAATAA
Found at i:4900546 original size:21 final size:22
Alignment explanation
Indices: 4900520--4900560 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4900510 AAGTTTTCCA
*
4900520 GAAAAAGAAC-TCTAAAAATTT
1 GAAAAAAAACTTCTAAAAATTT
4900541 GAAAAAAAACTTCTAAAAAT
1 GAAAAAAAACTTCTAAAAAT
4900561 CCTATACTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.61, C:0.10, G:0.07, T:0.22
Consensus pattern (22 bp):
GAAAAAAAACTTCTAAAAATTT
Found at i:4900720 original size:13 final size:13
Alignment explanation
Indices: 4900702--4900727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4900692 CCTTCTGGGG
4900702 TTTGAATTCAATC
1 TTTGAATTCAATC
4900715 TTTGAATTCAATC
1 TTTGAATTCAATC
4900728 CAAACTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTGAATTCAATC
Found at i:4900912 original size:24 final size:22
Alignment explanation
Indices: 4900885--4900999 Score: 64
Period size: 24 Copynumber: 5.3 Consensus size: 22
4900875 AATAATAATT
4900885 ATAAAAAATAAAAGTAGATAAATA
1 ATAAAAAATAAAA-TAGATAAA-A
*
4900909 AT-AAAAATATTAATAGATAAAA
1 ATAAAAAATA-AAATAGATAAAA
* * **
4900931 AAATAAAAATAAAAATATATATTA
1 ATA-AAAAAT-AAAATAGATAAAA
* *
4900955 ATAAATAGA-CAAATA-ATAAAA
1 ATAAA-AAATAAAATAGATAAAA
4900976 AT-AAAAAT-AAA-A-ATAAAA
1 ATAAAAAATAAAATAGATAAAA
4900994 ATAAAA
1 ATAAAA
4901000 GCCAATTGAG
Statistics
Matches: 72, Mismatches: 12, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
18 9 0.12
19 8 0.11
20 2 0.03
21 6 0.08
22 7 0.10
23 17 0.24
24 22 0.31
25 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (22 bp):
ATAAAAAATAAAATAGATAAAA
Found at i:4900917 original size:47 final size:52
Alignment explanation
Indices: 4900811--4900917 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 52
4900801 AATTAATCAA
*
4900811 AATAAAAA-AGATAAATATATTAATAGATAACAAAAAATAATTAGATAAATT
1 AATAAAAATAGATAAATATATTAATAGATAACAAAAAATAAGTAGATAAATT
* *
4900862 AA-AGAAATAGATAAATA-A-TAAT-TATAA-AAAATAA-AAGTAGATAAA-T
1 AATAAAAATAGATAAATATATTAATAGATAACAAAA-AATAAGTAGATAAATT
4900908 AATAAAAATA
1 AATAAAAATA
4900918 TTAATAGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
46 3 0.06
47 20 0.41
48 6 0.12
49 4 0.08
50 5 0.10
51 11 0.22
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.25
Consensus pattern (52 bp):
AATAAAAATAGATAAATATATTAATAGATAACAAAAAATAAGTAGATAAATT
Found at i:4900944 original size:5 final size:6
Alignment explanation
Indices: 4900902--4900999 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
4900892 ATAAAAGTAG
** * *
4900902 ATAAATA ATAAAA ATATTA ATAGATA A-AAAA ATAAAA ATAAAA ATATATA
1 ATAAA-A ATAAAA ATAAAA ATA-AAA ATAAAA ATAAAA ATAAAA ATA-AAA
* * * *
4900952 TTAATAA ATAGAC A-AATA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
4901000 GCCAATTGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
5 5 0.07
6 52 0.72
7 15 0.21
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:4900976 original size:31 final size:31
Alignment explanation
Indices: 4900866--4900978 Score: 101
Period size: 30 Copynumber: 3.7 Consensus size: 31
4900856 TAAATTAAAG
* * *
4900866 AAATAGATAAATAAT--AATTA-TAAAAAAT
1 AAATAGATAAATAATAAAAATATTAATAGAT
4900894 AAAAGTAGATAAATAATAAAAATATTAATAGAT
1 -AAA-TAGATAAATAATAAAAATATTAATAGAT
* * *
4900927 AAAAAAATAAA-AATAAAAATATATATTA-AT
1 AAATAGATAAATAATAAAAATAT-TAATAGAT
*
4900957 AAATAGACAAATAATAAAAATA
1 AAATAGATAAATAATAAAAATA
4900979 AAAATAAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
29 3 0.04
30 33 0.48
31 20 0.29
32 7 0.10
33 6 0.09
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (31 bp):
AAATAGATAAATAATAAAAATATTAATAGAT
Found at i:4901899 original size:18 final size:19
Alignment explanation
Indices: 4901878--4901914 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
4901868 ACCATTTCTT
4901878 TAAAATAAT-AAAAATGAA
1 TAAAATAATAAAAAATGAA
4901896 TAAAATAATAAAAAATGAA
1 TAAAATAATAAAAAATGAA
4901915 AGAAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
TAAAATAATAAAAAATGAA
Found at i:4906436 original size:162 final size:153
Alignment explanation
Indices: 4905904--4906514 Score: 908
Period size: 154 Copynumber: 3.9 Consensus size: 153
4905894 TTTACCAAGT
* * *
4905904 AATTAATTATTGGAAATTTTTCTCAACTGACTCTAAATACTTTTAGCAGAAAATTGAGAAAATTT
1 AATTAATTATTGGAAATTATTCTCAATTGACTCT-AATACTTTTAGCAGAAAATTGAGAAAATTC
* *
4905969 CCTCACCTCAAGAGTATGCAAGAAGAACTACTG-TTCACTTGCAGAGGCTCCGTCGTCGGATTAA
65 CCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTTACTTGCAGAGGCTCCGTCGTCGGATTAA
4906033 TTAAAGAAAAAA-CAAAATCATCC
130 TTAAAGAAAAAATCAAAATCATCC
*
4906056 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
4906121 CTCACCTCAAGAGTATGCAAGAAAAAACTACTGTTTTCACTTGCAGAGGCTCCGTCGTCGGATTA
66 CTCACCTCAAGAGTATGCAAG-AAAAACTACTGTTTT-ACTTGCAGAGGCTCCGTCGTCGGATTA
4906186 ATTAAAG-AAAAATCAAAATCATCC
129 ATTAAAGAAAAAATCAAAATCATCC
*
4906210 AATTAATTGTTGGAAATTA-TCTCAATTGACCTCTAATACTTTTAGCAGAAAATTGAGGAAAATT
1 AATTAATTATTGGAAATTATTCTCAATTGA-CTCTAATACTTTTAGCAGAAAATTGA-GAAAATT
* *
4906274 CCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTACTTGTAGAGGCTCCGTCGTCGGATTA
64 CCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTTACTTGCAGAGGCTCCGTCGTCGGATTA
*
4906339 ATTAAAGAAAAAAAATCAAAATCAGAGCC
129 ATTAAAG--AAAAAATCAAAATC--ATCC
* *
4906368 AAGTAATTAATTATCGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAAAATTGA-AA
1 ----AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAG--AAAATTGAGAA
* *
4906432 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
60 AATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTG-TTTTACTTGCAGAGGCTCCGTCGTCG
*
4906497 GATTAGTTAAAGAAAAAA
124 GATTAATTAAAGAAAAAA
4906515 GAAAGAAAAA
Statistics
Matches: 425, Mismatches: 15, Indels: 29
0.91 0.03 0.06
Matches are distributed among these distances:
151 51 0.12
152 41 0.10
153 49 0.12
154 104 0.24
155 29 0.07
156 13 0.03
158 3 0.01
161 6 0.01
162 74 0.17
163 47 0.11
164 8 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (153 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTTACTTGCAGAGGCTCCGTCGTCGGATTAAT
TAAAGAAAAAATCAAAATCATCC
Found at i:4906472 original size:316 final size:306
Alignment explanation
Indices: 4905904--4906513 Score: 922
Period size: 316 Copynumber: 2.0 Consensus size: 306
4905894 TTTACCAAGT
* *
4905904 AATTAATTATTGGAAATTTTTCTCAACTGACTCTAAATACTTTTAGCAGAAAATTGAGAAAATTT
1 AATTAATTATTGGAAATTTATCTCAACTGACTCTAAATACTTTTAGCAGAAAATTGAGAAAATTC
*
4905969 CCTCACCTCAAGAGTATGCAAGAAGAACTACTGTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
66 CCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
* * *
4906034 TAAAGAAAAAACAAAATCATCCAATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTT
131 TAAAGAAAAAACAAAATCAGCCAATTAATTATCGGAAATGATTCTCAATTAACTCTAATACTTTT
4906099 AGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAAACTACTGTTTTCACTTG
196 AGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAAACTACTGTTTTCACTTG
4906164 CAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATCAAAATCATCC
261 CAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATCAAAATCATCC
* *
4906210 AATTAATTGTTGGAAA-TTATCTCAATTGACCTCT-AATACTTTTAGCAGAAAATTGAGGAAAAT
1 AATTAATTATTGGAAATTTATCTCAACTGA-CTCTAAATACTTTTAGCAGAAAATTGA-GAAAAT
* * *
4906273 TCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTACTTGTAGAGGCTCCGTCGTCGGATT
64 TCCCTCACCTCAAGAGTATGCAAGAAAAACTACTG-TTCACTTGCAGAGGCTCCGTCGTCGGATT
*
4906338 AATTAAAGAAAAAAAATCAAAATCAGAGCCAAGTAATTAATTATCGGAAATGATTCTCAATTGAC
128 AATTAAAG--AAAAAA-CAAAATC--AGCC----AATTAATTATCGGAAATGATTCTCAATTAAC
*
4906403 TCTAATACTTTTAGCAGAAAAAATTGA-AAAATTCCCTCACCTCAGGAGTATGCAAG-AAAAACT
184 TCTAATACTTTTAGCAG--AAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAAACT
* * *
4906466 ACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAGTTAAAGAAAAA
247 ACTGTTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
4906514 AGAAAGAAAA
Statistics
Matches: 274, Mismatches: 16, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
305 33 0.12
306 57 0.21
307 35 0.13
309 6 0.02
310 7 0.03
312 3 0.01
316 97 0.35
317 28 0.10
318 8 0.03
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (306 bp):
AATTAATTATTGGAAATTTATCTCAACTGACTCTAAATACTTTTAGCAGAAAATTGAGAAAATTC
CCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
TAAAGAAAAAACAAAATCAGCCAATTAATTATCGGAAATGATTCTCAATTAACTCTAATACTTTT
AGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAAACTACTGTTTTCACTTG
CAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATCAAAATCATCC
Found at i:4906524 original size:1 final size:1
Alignment explanation
Indices: 4906509--4906543 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
4906499 TTAGTTAAAG
* *
4906509 AAAAAAGAAAGAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4906544 CCCTGGAGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:4906588 original size:5 final size:5
Alignment explanation
Indices: 4906552--4906606 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
4906542 AACCCTGGAG
* * *
4906552 CGGCT CGGAT CGCGACT CGGCT TGGTT CGGCT CGGCT CGGCT CGGCT CGGCT
1 CGGCT CGGCT CG-G-CT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT
4906604 CGG
1 CGG
4906607 AGGGGCTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
5 37 0.88
6 2 0.05
7 3 0.07
ACGTcount: A:0.04, C:0.35, G:0.40, T:0.22
Consensus pattern (5 bp):
CGGCT
Found at i:4906872 original size:19 final size:19
Alignment explanation
Indices: 4906828--4906869 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4906818 GAACGCCGGT
*
4906828 GCCGGATTCTGGAAATTTC
1 GCCGGAATCTGGAAATTTC
*
4906847 GCCGGAATCTGGGAATTT-
1 GCCGGAATCTGGAAATTTC
4906865 GCCGG
1 GCCGG
4906870 GAAATTGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.26
Consensus pattern (19 bp):
GCCGGAATCTGGAAATTTC
Found at i:4906935 original size:31 final size:31
Alignment explanation
Indices: 4906897--4906970 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
4906887 GGCCGGATGG
* * *
4906897 TCGCCGGAATCTTCAAGTTTCGCCGGAATTT
1 TCGCCGGAATCTTCAAATGTCGCCAGAATTT
**
4906928 GT-GCCGGAAAATTCAAATGTCGCCAGAATTT
1 -TCGCCGGAATCTTCAAATGTCGCCAGAATTT
4906959 TCGCCGGAATCT
1 TCGCCGGAATCT
4906971 GGAAATTTCC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 1 0.03
31 32 0.94
32 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (31 bp):
TCGCCGGAATCTTCAAATGTCGCCAGAATTT
Found at i:4907354 original size:21 final size:22
Alignment explanation
Indices: 4907324--4907382 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 22
4907314 CAAAATAAAT
4907324 AAAAAAAATA-CTAGATAA-TC-
1 AAAAAAAATATC-AGATAATTCG
4907344 AAAAAATAATATCAGATAATTCG
1 AAAAAA-AATATCAGATAATTCG
4907367 -AAAAAAA-ATCAGATAA
1 AAAAAAAATATCAGATAA
4907383 AATTAACAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 15 0.43
21 12 0.34
22 8 0.23
ACGTcount: A:0.64, C:0.08, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAAAAAATATCAGATAATTCG
Found at i:4907379 original size:20 final size:19
Alignment explanation
Indices: 4907324--4907382 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 19
4907314 CAAAATAAAT
4907324 AAAAAAAATACTAGATAATCA
1 AAAAAAAAT-C-AGATAATCA
*
4907345 AAAAATAATATCAGATAATTCG
1 AAAAA-AA-ATCAGATAA-TCA
4907367 AAAAAAAATCAGATAA
1 AAAAAAAATCAGATAA
4907383 AATTAACAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 9 0.26
21 13 0.38
22 10 0.29
23 2 0.06
ACGTcount: A:0.64, C:0.08, G:0.07, T:0.20
Consensus pattern (19 bp):
AAAAAAAATCAGATAATCA
Found at i:4907452 original size:3 final size:3
Alignment explanation
Indices: 4907446--4907560 Score: 64
Period size: 3 Copynumber: 37.3 Consensus size: 3
4907436 AAAAAAAAAG
4907446 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATAA ATA TATA ACTA TATA CAT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA A-TA -ATA -ATA
* * *
4907494 ATA A-A TCTA AT- CTA ATA ATA A-A A-A AT- ATA TATA TATA TATA TTA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA -ATA ATA
4907538 ATA ATA ATA ATA ATAA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA A
4907561 CATAAATAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 26
0.74 0.06 0.21
Matches are distributed among these distances:
2 12 0.13
3 52 0.57
4 27 0.29
5 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4907525 original size:36 final size:36
Alignment explanation
Indices: 4907461--4907564 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 36
4907451 AATAATAATA
*
4907461 TAATAATAATAATAAATATATAACTATATACATATAAAT
1 TAATAATAATAATAAA-AAAT-A-TATATACATATAAAT
* * *
4907500 CTAAT-CTAATAATAAAAAATATATATATATATATAT
1 -TAATAATAATAATAAAAAATATATATACATATAAAT
*
4907536 TAATAATAATAATAATAAATA-ATA-ACATA
1 TAATAATAATAATAAAAAATATATATACATA
4907565 AATAAAATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
34 4 0.07
35 7 0.12
36 27 0.48
37 1 0.02
38 3 0.05
39 10 0.18
40 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (36 bp):
TAATAATAATAATAAAAAATATATATACATATAAAT
Found at i:4907552 original size:42 final size:44
Alignment explanation
Indices: 4907453--4907553 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 44
4907443 AAGATAATAA
*
4907453 TAATAAT-ATAATAATAATAATAAATATATAACTATATACATAT
1 TAATAATAATAATAATAATAAAAAATATATAACTATATACATAT
* * * *
4907496 AAAT-CTAAT-CTAATAATAAAAAATATAT-A-TATATATATAT
1 TAATAATAATAATAATAATAAAAAATATATAACTATATACATAT
4907536 TAATAATAATAATAATAA
1 TAATAATAATAATAATAA
4907554 ATAATAACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
40 13 0.28
41 5 0.11
42 24 0.51
43 5 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (44 bp):
TAATAATAATAATAATAATAAAAAATATATAACTATATACATAT
Found at i:4907772 original size:1 final size:1
Alignment explanation
Indices: 4907761--4907845 Score: 80
Period size: 1 Copynumber: 85.0 Consensus size: 1
4907751 AATATTTTCA
* * * * * * * * **
4907761 TTTTTTGTTTTTGTTTTTTTTTGTTTTTGTTTTTTTTTTGTTGTTTTATTTTTTGTTTTTTGGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4907826 TTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
4907846 ACCAAAGCTC
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.01, C:0.00, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:4907993 original size:82 final size:82
Alignment explanation
Indices: 4907852--4908425 Score: 715
Period size: 82 Copynumber: 7.0 Consensus size: 82
4907842 TTTTACCAAA
*** * *
4907852 GCTCCTCTAAACAGAGGCTTAACAACTTTGGAAAA-TAAATTGCTCCTCTAAATAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
* *
4907916 ACTTTG-GAATGTAAATT
65 ACTTTGAAAAAGTAAATT
4907933 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
4907998 G-ACTTTGAAAAAGTAAATT
63 GAACTTTGAAAAAGTAAATT
* *
4908017 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAATGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
4908080 G-ACTTTGAAAAAGTAAATT
63 GAACTTTGAAAAAGTAAATT
* * *
4908099 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATTGCTCCTCTAAGCAGAGGC-ACCA
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
4908161 TGACTTTGAGAAAA-TAAATT
65 --ACTTTGA-AAAAGTAAATT
* * *
4908181 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCAACGGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-GA
4908246 ACTTTGAAAAA-TAAATT
65 ACTTTGAAAAAGTAAATT
* * *
4908263 GCTTCTCTAAACAGAGGCACCACGACTTTGAAAAATTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
4908328 AC-TTGAAAATGTAAATT
65 ACTTTGAAAAAGTAAATT
* * * *
4908345 GCTCCTCTCAACAGAGGTACCACGACTTTGAGAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
4908410 AC-TTGAAAATGTAAAT
65 ACTTTGAAAAAGTAAAT
4908426 ACTCCTTGAC
Statistics
Matches: 449, Mismatches: 27, Indels: 33
0.88 0.05 0.06
Matches are distributed among these distances:
79 2 0.00
80 1 0.00
81 37 0.08
82 286 0.64
83 87 0.19
84 35 0.08
85 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAAGTAAATT
Found at i:4908071 original size:124 final size:122
Alignment explanation
Indices: 4907852--4908425 Score: 761
Period size: 124 Copynumber: 4.6 Consensus size: 122
4907842 TTTTACCAAA
* * * *
4907852 GCTCCTCTAAACAGAGGCTTAACAACTTTGGAAAATAAATTGCTCCTCTAAATAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGC--AACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGA
4907917 CTTTG-GAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
64 CTTTGAGAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
4907975 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGG
4908040 ACTTTG-GAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
63 ACTTTGAGAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * * * *
4908099 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATTGCTCCTCTAAGCAGAGGCACCATGA
1 GCTCCTCTAAACAGAGGCAAC-GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAAC-GGA
** * *
4908164 CTTTGAGAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTG-GAAAGTAAATT
64 CTTTGAGAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
4908222 GCTCCTCTAAATAGAGGCAACGGAACTTTGAAAAATAAATTGCTTCTCTAAACAGAGGCACCAC-
1 GCTCCTCTAAACAGAGGCAAC-G-ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACG
* *
4908286 GACTTTGAAAAAT-TAAATTGCTCCTCTAAACAGAGGCA--ACGGAC-TTGAAAATGTAAATT
62 GACTTTG-AGAATGTAAATTGCTCCTCTAAACAGAGGCACCAC-GACTTTGAAAAAGTAAATT
* *
4908345 GCTCCTCTCAACAGAGGTACCACGACTTTGAGAAAATAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGA-AAAATAAATTGCTCCTCTAAACAGAGGCAACGG
*
4908410 AC-TTGAAAATGTAAAT
63 ACTTTGAGAATGTAAAT
4908426 ACTCCTTGAC
Statistics
Matches: 406, Mismatches: 28, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
121 6 0.01
122 42 0.10
123 116 0.29
124 235 0.58
125 6 0.01
126 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (122 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGACT
TTGAGAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:4908263 original size:206 final size:204
Alignment explanation
Indices: 4907852--4908425 Score: 854
Period size: 206 Copynumber: 2.8 Consensus size: 204
4907842 TTTTACCAAA
*** * * * *
4907852 GCTCCTCTAAACAGAGGCTTAACAACTTTGGAAAATAAATTGCTCCTCTAAATAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGA
*
4907917 CTTTGGAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAAGTAAATTGCTCCT
66 CTTTGGAAAGTAAATTGCTCCTCT-AACAGAGGCACCACGACTTTGAGAAAA-TAAATTGCTCCT
4907981 CTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGACTTTG
129 CTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGACTTTG
* **
4908046 GAATGTAAATT
194 AAAAATAAATT
4908057 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGG
*
4908122 ACTTTGGAAAGTAAATTGCTCCTCTAAGCAGAGGCACCATGACTTTGAGAAAATAAATTGCTCCT
65 ACTTTGGAAAGTAAATTGCTCCTCTAA-CAGAGGCACCACGACTTTGAGAAAATAAATTGCTCCT
* * *
4908187 CTAAATAGAGGCACCACGACTTTG-GAAAGTAAATTGCTCCTCTAAATAGAGGCAACGGAACTTT
129 CTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG-ACTTT
4908251 GAAAAATAAATT
193 GAAAAATAAATT
*
4908263 GCTTCTCTAAACAGAGGCACCACGACTTTGAAAAATTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGG
* *
4908328 AC-TTGAAAATGTAAATTGCTCCTCTCAACAGAGGTACCACGACTTTGAGAAAATAAATTGCTCC
65 ACTTTGGAAA-GTAAATTGCTCCTCT-AACAGAGGCACCACGACTTTGAGAAAATAAATTGCTCC
*
4908392 TCTAAACAGAGGCA--ACGGAC-TTGAAAATGTAAAT
128 TCTAAACAGAGGCACCAC-GACTTTGAAAAAGTAAAT
4908426 ACTCCTTGAC
Statistics
Matches: 338, Mismatches: 23, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
204 5 0.01
205 81 0.24
206 246 0.73
207 6 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (204 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGA
CTTTGGAAAGTAAATTGCTCCTCTAACAGAGGCACCACGACTTTGAGAAAATAAATTGCTCCTCT
AAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGACTTTGAA
AAATAAATT
Found at i:4909642 original size:16 final size:15
Alignment explanation
Indices: 4909621--4909690 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 15
4909611 AATTTCAATC
4909621 TTTTTTTCATTTTCTT
1 TTTTTTTCATTTTC-T
* *
4909637 TCTTTTTTCTTTCTTTT
1 T-TTTTTTCATT-TTCT
4909654 TTTTTCTTCATCTTTCT
1 TTTTT-TTCAT-TTTCT
**
4909671 TTTTTTTCATCATCT
1 TTTTTTTCATTTTCT
4909686 TTTTT
1 TTTTT
4909691 CTTTTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 8 0.18
16 10 0.23
17 23 0.52
18 3 0.07
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTTCATTTTCT
Found at i:4909653 original size:20 final size:21
Alignment explanation
Indices: 4909621--4909661 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4909611 AATTTCAATC
4909621 TTTT-TTTCATTTTCTTTCTT
1 TTTTCTTTCATTTTCTTTCTT
* *
4909641 TTTTCTTTCTTTTTTTTTCTT
1 TTTTCTTTCATTTTCTTTCTT
4909662 CATCTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTTTCATTTTCTTTCTT
Found at i:4909667 original size:20 final size:20
Alignment explanation
Indices: 4909644--4909697 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
4909634 CTTTCTTTTT
*
4909644 TCTTTCTTTTTTTTTCTTCA
1 TCTTTCTTTTTTTTTCATCA
4909664 TCTTTC-TTTTTTTTCATCA
1 TCTTTCTTTTTTTTTCATCA
4909683 TCTTT-TTTCTTTTTT
1 TCTTTCTTT-TTTTTT
4909698 TTTATTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTTTCTTTTTTTTTCATCA
Found at i:4909700 original size:11 final size:11
Alignment explanation
Indices: 4909630--4909675 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
4909620 CTTTTTTTCA
4909630 TTTTCTTTCTT
1 TTTTCTTTCTT
4909641 TTTTCTTTCTT
1 TTTTCTTTCTT
4909652 TTTT-TTTC-T
1 TTTTCTTTCTT
**
4909661 TCATCTTTCTT
1 TTTTCTTTCTT
4909672 TTTT
1 TTTT
4909676 TTCATCATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 3 0.10
10 8 0.28
11 18 0.62
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:4913880 original size:162 final size:153
Alignment explanation
Indices: 4913367--4913974 Score: 959
Period size: 152 Copynumber: 3.9 Consensus size: 153
4913357 TTTACCAAGT
* * *
4913367 AATTAATTATTGGAAATTTTTCTCAACTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTTC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
*
4913432 CTCACCTCAAGAGTATGCAAGAAGAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
4913497 TAAAGAAAAAA-CAAAATCATCC
131 TAAAGAAAAAATCAAAATCATCC
*
4913519 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
4913584 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
4913649 TAAAG-AAAAATCAAAATCATCC
131 TAAAGAAAAAATCAAAATCATCC
*
4913671 AATTAATTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* * *
4913736 CTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAA
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAA
*
4913801 TTAAAGAAAAAAAAAATCAAAATCAGCC
130 TTAAAG----AAAAAATCAAAATCATCC
* * *
4913829 AAGTAATTAATTATCGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAAAAAA
1 ----AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAA
* * *
4913894 TTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGA
62 TTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGA
*
4913959 TTAGTTAAAGAAAAAA
126 TTAATTAAAGAAAAAA
4913975 GAAAGAAAAA
Statistics
Matches: 429, Mismatches: 16, Indels: 16
0.93 0.03 0.03
Matches are distributed among these distances:
151 5 0.01
152 235 0.55
153 36 0.08
158 22 0.05
162 131 0.31
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (153 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAAT
TAAAGAAAAAATCAAAATCATCC
Found at i:4913984 original size:1 final size:1
Alignment explanation
Indices: 4913969--4914004 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
4913959 TTAGTTAAAG
* *
4913969 AAAAAAGAAAGAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4914005 CCTGGAGCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:4914046 original size:5 final size:5
Alignment explanation
Indices: 4914024--4914066 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
4914014 GCTCGGATCG
* *
4914024 CGGCT CGGCT TGGTT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
4914067 AGGGGCTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.00, C:0.35, G:0.42, T:0.23
Consensus pattern (5 bp):
CGGCT
Found at i:4914073 original size:15 final size:15
Alignment explanation
Indices: 4914012--4914073 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
4914002 AAACCTGGAG
4914012 CGGCTCGGATCGCGGCT
1 CGGCTCGGA--GCGGCT
* **
4914029 CGGCTTGGTTCGGCT
1 CGGCTCGGAGCGGCT
**
4914044 CGGCTCGGCTCGGCT
1 CGGCTCGGAGCGGCT
*
4914059 CGGCTCGGAGGGGCT
1 CGGCTCGGAGCGGCT
4914074 GAAACGCGCG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
15 30 0.81
17 7 0.19
ACGTcount: A:0.03, C:0.32, G:0.44, T:0.21
Consensus pattern (15 bp):
CGGCTCGGAGCGGCT
Found at i:4914328 original size:18 final size:18
Alignment explanation
Indices: 4914285--4914329 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
4914275 AGAACGCCGG
*
4914285 TGCCGGATTCTGGAAATT
1 TGCCGGAATCTGGAAATT
*
4914303 TCGCCGGAATCTGGGAATT
1 T-GCCGGAATCTGGAAATT
4914322 TGCCGGAA
1 TGCCGGAA
4914330 ATTGGCCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (18 bp):
TGCCGGAATCTGGAAATT
Found at i:4914393 original size:31 final size:31
Alignment explanation
Indices: 4914354--4914427 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
4914344 GGCCGGATGG
* *
4914354 TCGCCGGAATCTTCAAGTTTCGCCGGAATTT
1 TCGCCGGAATCTTCAAATGTCGCCGGAATTT
**
4914385 GT-GCCGGAAAATTCAAATGTCGCCGGAATTT
1 -TCGCCGGAATCTTCAAATGTCGCCGGAATTT
4914416 TCGCCGGAATCT
1 TCGCCGGAATCT
4914428 GGAAATTTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (31 bp):
TCGCCGGAATCTTCAAATGTCGCCGGAATTT
Found at i:4914837 original size:20 final size:19
Alignment explanation
Indices: 4914781--4914840 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
4914771 CAAAATAAAT
4914781 AAAAAAAAATACTAGATAATC
1 AAAAAAAAAT-C-AGATAATC
4914802 AAAAAATAATATCAGATAATTC
1 AAAAAA-AA-ATCAGATAA-TC
*
4914824 GAAAAAAAATCAGATAA
1 AAAAAAAAATCAGATAA
4914841 AATTAACAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 9 0.26
21 14 0.40
22 10 0.29
23 2 0.06
ACGTcount: A:0.65, C:0.08, G:0.07, T:0.20
Consensus pattern (19 bp):
AAAAAAAAATCAGATAATC
Found at i:4914844 original size:22 final size:22
Alignment explanation
Indices: 4914794--4914840 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
4914784 AAAAAATACT
*
4914794 AGATAA-TCAAAAAATAATATC
1 AGATAATTCGAAAAATAATATC
4914815 AGATAATTCGAAAAA-AA-ATC
1 AGATAATTCGAAAAATAATATC
4914835 AGATAA
1 AGATAA
4914841 AATTAACAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 7 0.29
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (22 bp):
AGATAATTCGAAAAATAATATC
Found at i:4914911 original size:3 final size:3
Alignment explanation
Indices: 4914905--4915020 Score: 73
Period size: 3 Copynumber: 37.3 Consensus size: 3
4914895 AAAAAAAAAG
4914905 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATAA ATA TATA ACTA TATA CAT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA A-TA -ATA -ATA
* * *
4914953 ATA A-A TCTA AT- CTA ATA ATA A-A A-A ATA TATA TATA TATA TTA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA -ATA ATA ATA
4914998 ATA ATA ATA ATA ATAA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA A
4915021 CATAAATAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
2 10 0.11
3 56 0.60
4 27 0.29
5 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4914956 original size:34 final size:33
Alignment explanation
Indices: 4914917--4915007 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 33
4914907 AATAATAATA
*
4914917 ATATAATAATAATAAT-AAATATATAACTATATAC
1 ATATAATAATAATAATAAAAAATAT-A-TATATAC
*
4914951 ATATAAATCTAATCTAATAATAAAAAATATATATATAT
1 ATAT-AA--TAA--TAATAATAAAAAATATATATATAC
4914989 ATATTAATAATAATAATAA
1 ATA-TAATAATAATAATAA
4915008 TAATAAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
34 13 0.27
35 2 0.04
36 3 0.06
37 3 0.06
38 11 0.23
39 9 0.19
40 7 0.15
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (33 bp):
ATATAATAATAATAATAAAAAATATATATATAC
Found at i:4914982 original size:28 final size:30
Alignment explanation
Indices: 4914905--4915016 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 30
4914895 AAAAAAAAAG
*
4914905 ATAATAATAATAATATA-ATAATA-ATAATAA
1 ATAATAATAATAATATATA-AATATAT-ATTA
* *
4914935 ATATATAACT-ATATACATATAAATCTA-ATCTA
1 ATA-ATAA-TAATA-ATATATAAATATATAT-TA
*
4914967 ATAATAA-AA-AATATATATATATATATTA
1 ATAATAATAATAATATATAAATATATATTA
4914995 ATAATAATAATAATA-ATAAATA
1 ATAATAATAATAATATATAAATA
4915017 ATAACATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
28 19 0.29
29 11 0.17
30 8 0.12
31 13 0.20
32 12 0.18
33 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (30 bp):
ATAATAATAATAATATATAAATATATATTA
Found at i:4916831 original size:3 final size:3
Alignment explanation
Indices: 4916825--4916924 Score: 66
Period size: 3 Copynumber: 34.0 Consensus size: 3
4916815 GATGATGATG
* * *
4916825 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA AT- ATG AT- ATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
4916871 TACA ATGT ATAA ATA ATA A-C ATG ATA ATA ATA AT- ATA ATA AAA ATA
1 -ATA AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4916917 ATA A-A ATA
1 ATA ATA ATA
4916925 CAATCCAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
2 9 0.12
3 62 0.82
4 5 0.07
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4920404 original size:2 final size:2
Alignment explanation
Indices: 4920392--4920453 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
4920382 TCCATCCCTC
* *
4920392 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4920433 TA TA TT TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
4920454 GTTGACTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4932704 original size:27 final size:26
Alignment explanation
Indices: 4932654--4932706 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
4932644 CTTATTTCTT
*
4932654 TTTATTTATTTATAAGAAGATCATAA
1 TTTATTTATTTAAAAGAAGATCATAA
* *
4932680 TTTATTTATTTTAAAATAAGGTCATAA
1 TTTATTTA-TTTAAAAGAAGATCATAA
4932707 GATATCACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.47
Consensus pattern (26 bp):
TTTATTTATTTAAAAGAAGATCATAA
Found at i:4932739 original size:2 final size:2
Alignment explanation
Indices: 4932734--4932770 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4932724 GAGAAGTGTA
4932734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4932771 TACGTAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4935367 original size:62 final size:59
Alignment explanation
Indices: 4935252--4935368 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 59
4935242 TCCTTCAATT
* *
4935252 TTTTTTAGGAATTATTCAAGGTGTTTTCTATCAAAAATGCCTTCAATAATCCCTTCTTA
1 TTTTTTAGGAATTATTCAAAGTGTTTTCTATCAAAAATACCTTCAATAATCCCTTCTTA
* *
4935311 TTTTTTAGGAGGATTATTCAAAGTGTTTT-TAGTTAGAAAATACCTTGAATAATCCCTT
1 TTTTTTAGGA--ATTATTCAAAGTGTTTTCTA-TCA-AAAATACCTTCAATAATCCCTT
4935369 ACAAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 10 0.20
60 2 0.04
61 18 0.36
62 20 0.40
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.44
Consensus pattern (59 bp):
TTTTTTAGGAATTATTCAAAGTGTTTTCTATCAAAAATACCTTCAATAATCCCTTCTTA
Found at i:4935440 original size:183 final size:180
Alignment explanation
Indices: 4935044--4935440 Score: 408
Period size: 183 Copynumber: 2.2 Consensus size: 180
4935034 TTTCTGACTA
* * * * *
4935044 AAAACACATTGAATAATCCCTTTTC-ATTTTTTGAGGGGATTATTCAAAATTTTTTTGTCAAAAA
1 AAAACACTTTGAATAATCCC-TTTCAATTTTTTTAGGGAATTATTCAAAATTTTTCTATCAAAAA
*
4935108 CGCCTTCAATAATCCCTTCCCATTTTTTGGAAATTATTCAAAACATGTTTGGCTAGAAAACACCT
65 CGCCTTCAATAATCCCTTCCCATTTTTTGGAAATTATTCAAAACATGTTTAGCTAGAAAACACCT
* ** * * * *
4935173 TGAATAATTCCTTACAAAAAATTGAATGGGGTTATTTAATGTGTTTCGGCT
130 TGAATAATCCCTTACAAAAAATTGAATAAGGTTATTCAAGGTGTTTCGACC
* * **
4935224 AAAACACTTTAAATAATTTCC-TTCAATTTTTTTTA-GGAATTATTCAAGGTGTTTTCTATCAAA
1 AAAACACTTTGAATAA-TCCCTTTCAA-TTTTTTTAGGGAATTATTCAAAAT-TTTTCTATCAAA
* ** * *** * * *
4935287 AATGCCTTCAATAATCCCTTCTTATTTTTTAGGAGGATTATTCAAAGTGTTTTTAGTTAGAAAAT
63 AACGCCTTCAATAATCCCTTCCCATTTTTT-GGA-AATTATTCAAAACATGTTTAGCTAGAAAAC
**
4935352 ACCTTGAATAATCCCTTACAAAAAATTGAATAAGGTTATTCAAGGAT-TTTTTACC
126 ACCTTGAATAATCCCTTACAAAAAATTGAATAAGGTTATTCAAGG-TGTTTCGACC
*
4935407 AAAA-ATGTCTTGAATAATCCCTTTCAATTTTTTT
1 AAAACA-CT-TTGAATAATCCCTTTCAATTTTTTT
4935441 TTTTGGGATT
Statistics
Matches: 175, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
179 3 0.02
180 27 0.15
181 47 0.27
182 4 0.02
183 81 0.46
184 13 0.07
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (180 bp):
AAAACACTTTGAATAATCCCTTTCAATTTTTTTAGGGAATTATTCAAAATTTTTCTATCAAAAAC
GCCTTCAATAATCCCTTCCCATTTTTTGGAAATTATTCAAAACATGTTTAGCTAGAAAACACCTT
GAATAATCCCTTACAAAAAATTGAATAAGGTTATTCAAGGTGTTTCGACC
Found at i:4935481 original size:125 final size:123
Alignment explanation
Indices: 4935263--4935590 Score: 380
Period size: 125 Copynumber: 2.6 Consensus size: 123
4935253 TTTTTAGGAA
* * *
4935263 TTATTCAAGG-TGTTTTCTATCAAAAATGCCTTCAATAATCCCTTC--TTATTTTTTAGGAGGAT
1 TTATTCAAGGAT-TTTT-TACCAAAAATG-CTTCAATAATCCCTTCAATTTTTTTTTTGG-GGAT
* ** *
4935325 TATTCAA-AGTGTTTTTAGTTAGAAAATACCTTGAATAATCCCTTACAAAAAATTGAATAAGG
62 TATTCAAGA-TATTTTTAGCCAGAAAACACCTTGAATAATCCCTTACAAAAAATTGAATAAGG
* *
4935387 TTATTCAAGGATTTTTTACCAAAAATGTCTTGAATAATCCCTTTCAATTTTTTTTTTTGGGATTA
1 TTATTCAAGGATTTTTTACCAAAAATG-CTTCAATAATCCC-TTCAATTTTTTTTTTGGGGATTA
4935452 TTCAAGATATTTTTAGCCAGAAAACACCTTGAATAATCCCTTACAAAAAATTGAATAAGG
64 TTCAAGATATTTTTAGCCAGAAAACACCTTGAATAATCCCTTACAAAAAATTGAATAAGG
* * * * * *
4935512 TTATTCATA-AAGTTTCTAGCCAAAAATGCTTTTAATAATTCACTTCAA-TTATTTTTTGGGGAT
1 TTATTCA-AGGATTTTTTA-CCAAAAATGC-TTCAATAA-TCCCTTCAATTTTTTTTTTGGGGAT
4935575 TATTCAAGATATTTTT
62 TATTCAAGATATTTTT
4935591 TGTCAAAAAT
Statistics
Matches: 178, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
123 22 0.12
124 17 0.10
125 104 0.58
126 32 0.18
127 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (123 bp):
TTATTCAAGGATTTTTTACCAAAAATGCTTCAATAATCCCTTCAATTTTTTTTTTGGGGATTATT
CAAGATATTTTTAGCCAGAAAACACCTTGAATAATCCCTTACAAAAAATTGAATAAGG
Found at i:4938179 original size:15 final size:16
Alignment explanation
Indices: 4938151--4938189 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4938141 TAGCTGGATC
*
4938151 AATTAATTTTAAATTG
1 AATTAATTTAAAATTG
4938167 AATT-ATTTAAAATTG
1 AATTAATTTAAAATTG
*
4938182 ATTTAATT
1 AATTAATT
4938190 GAATTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
AATTAATTTAAAATTG
Found at i:4938603 original size:18 final size:19
Alignment explanation
Indices: 4938568--4938603 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4938558 CCGATCGATT
4938568 AATCAAATTAAATCAATTC
1 AATCAAATTAAATCAATTC
*
4938587 AATCAAA-TAATTCAATT
1 AATCAAATTAAATCAATT
4938604 AAAATCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (19 bp):
AATCAAATTAAATCAATTC
Found at i:4939380 original size:25 final size:25
Alignment explanation
Indices: 4939352--4939401 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4939342 TCCTTTGACA
*
4939352 ACATAGTTAAGTTGTTCTTGGTTAT
1 ACATAGTTAAGTTGGTCTTGGTTAT
4939377 ACATAGTTAAGTTGGTCTTGGTTAT
1 ACATAGTTAAGTTGGTCTTGGTTAT
4939402 TTCAGGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (25 bp):
ACATAGTTAAGTTGGTCTTGGTTAT
Found at i:4944677 original size:14 final size:14
Alignment explanation
Indices: 4944643--4944669 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4944633 TTATCCTTAT
4944643 TAGATAACTTTTGC
1 TAGATAACTTTTGC
4944657 TAGATAACTTTTG
1 TAGATAACTTTTG
4944670 TGAGATAAAA
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:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (14 bp):
TAGATAACTTTTGC
Found at i:4948002 original size:13 final size:12
Alignment explanation
Indices: 4947984--4948022 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
4947974 AAATTAGAAA
*
4947984 ATAAAAAAATAT
1 ATAAAAAAAAAT
4947996 ATAAAAATAAAAT
1 ATAAAAA-AAAAT
4948009 ATAAAAAATAAAT
1 ATAAAAAA-AAAT
4948022 A
1 A
4948023 ATAAGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAAAAAAAAT
Found at i:4948017 original size:14 final size:15
Alignment explanation
Indices: 4947989--4948020 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
4947979 AGAAAATAAA
4947989 AAAATATATAAAAAT
1 AAAATATATAAAAAT
4948004 AAAATATA-AAAAAT
1 AAAATATATAAAAAT
4948018 AAA
1 AAA
4948021 TAATAAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATATATAAAAAT
Found at i:4950563 original size:3 final size:3
Alignment explanation
Indices: 4950555--4950580 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4950545 TATTTTGTCC
4950555 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4950581 GTGAAAAAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4951538 original size:21 final size:21
Alignment explanation
Indices: 4951503--4951556 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
4951493 AAACCGTTGG
*
4951503 TGTTGACTTCGACATTGACTTAC
1 TGTTGAC--CGACATTGACTCAC
4951526 TGTTGACCGACATTGACTCAC
1 TGTTGACCGACATTGACTCAC
4951547 TGTTGACCGA
1 TGTTGACCGA
4951557 AGAAAAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 23 0.77
23 7 0.23
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTTGACCGACATTGACTCAC
Found at i:4959124 original size:30 final size:31
Alignment explanation
Indices: 4959090--4959163 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
4959080 ATTTAAATGC
*
4959090 AAATTAAAAGC-TGAGGGCTTATTTGAATAT
1 AAATTAAAAGCTTAAGGGCTTATTTGAATAT
* * *
4959120 AAATT-TAAGCTTAAGGGCTTATTTGTATGT
1 AAATTAAAAGCTTAAGGGCTTATTTGAATAT
*
4959150 AAAGTAAAAG-TTAA
1 AAATTAAAAGCTTAA
4959164 AAATTTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 4 0.11
30 29 0.81
31 3 0.08
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (31 bp):
AAATTAAAAGCTTAAGGGCTTATTTGAATAT
Found at i:4959619 original size:25 final size:25
Alignment explanation
Indices: 4959580--4959628 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4959570 TCTAGTTCTT
*
4959580 TTTCAATTATTATTTATTTTTATTTG
1 TTTCAATTATTATTT-CTTTTATTTG
*
4959606 TTTC-ATTTTTATTTCTTTTATTT
1 TTTCAATTATTATTTCTTTTATTT
4959629 ACTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTCAATTATTATTTCTTTTATTTG
Found at i:4959628 original size:15 final size:15
Alignment explanation
Indices: 4959592--4959628 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4959582 TCAATTATTA
*
4959592 TTTATTTTTATTTGT
1 TTTATTTTTATTTCT
*
4959607 TTCATTTTTATTTCT
1 TTTATTTTTATTTCT
4959622 TTTATTT
1 TTTATTT
4959629 ACTATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTATTTTTATTTCT
Found at i:4959670 original size:16 final size:15
Alignment explanation
Indices: 4959640--4959669 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4959630 CTATTATTTT
*
4959640 TAAAAAAATGAAAAA
1 TAAAAAAAAGAAAAA
4959655 TAAAAAAAAGAAAAA
1 TAAAAAAAAGAAAAA
4959670 AATAGATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
TAAAAAAAAGAAAAA
Found at i:4964362 original size:3 final size:3
Alignment explanation
Indices: 4964356--4964455 Score: 66
Period size: 3 Copynumber: 34.0 Consensus size: 3
4964346 GATGATGATG
* * *
4964356 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA AT- ATG AT- ATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
4964402 TACA ATGT ATAA ATA ATA A-C ATG ATA ATA ATA AT- ATA ATA AAA ATA
1 -ATA AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4964448 ATA A-A ATA
1 ATA ATA ATA
4964456 CAATCCAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
2 9 0.12
3 62 0.82
4 5 0.07
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4967224 original size:28 final size:28
Alignment explanation
Indices: 4967192--4967247 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4967182 CAAGTTTTTC
*
4967192 ACTTTATATTTTACCACTATTTTTTGTT
1 ACTTTATATATTACCACTATTTTTTGTT
4967220 ACTTTATATATTACCACTATTTTTTGTT
1 ACTTTATATATTACCACTATTTTTTGTT
4967248 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.04, T:0.59
Consensus pattern (28 bp):
ACTTTATATATTACCACTATTTTTTGTT
Found at i:4968482 original size:13 final size:12
Alignment explanation
Indices: 4968464--4968502 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4968454 AATCGATAGT
*
4968464 TATATATTATAAA
1 TATATACTAT-AA
4968477 TATATACTATAA
1 TATATACTATAA
4968489 TATATACT-TAA
1 TATATACTATAA
4968500 TAT
1 TAT
4968503 TAATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 6 0.24
12 10 0.40
13 9 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATACTATAA
Found at i:4969436 original size:17 final size:17
Alignment explanation
Indices: 4969414--4969446 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4969404 TTAAAAACAA
4969414 AAAAATAATT-TTTTAAT
1 AAAAAT-ATTATTTTAAT
4969431 AAAAATATTATTTTAA
1 AAAAATATTATTTTAA
4969447 CAACACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAATATTATTTTAAT
Found at i:4970488 original size:31 final size:31
Alignment explanation
Indices: 4970453--4970546 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 31
4970443 ACTTTTCTTC
4970453 AAAATCCATTTTTGAAAACTTATTTTTAAGA
1 AAAATCCATTTTTGAAAACTTATTTTTAAGA
** ** *
4970484 AAAATTGATACTTTT---AACTT-TTCCT--CA
1 AAAATCCAT--TTTTGAAAACTTATTTTTAAGA
*
4970511 AAAATCCATTTTTGAAAACTTATTTTTAAGC
1 AAAATCCATTTTTGAAAACTTATTTTTAAGA
4970542 AAAAT
1 AAAAT
4970547 TGATACTTTC
Statistics
Matches: 44, Mismatches: 11, Indels: 16
0.62 0.15 0.23
Matches are distributed among these distances:
25 4 0.09
27 8 0.18
28 5 0.11
29 6 0.14
30 5 0.11
31 12 0.27
33 4 0.09
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.41
Consensus pattern (31 bp):
AAAATCCATTTTTGAAAACTTATTTTTAAGA
Found at i:4970540 original size:58 final size:59
Alignment explanation
Indices: 4970425--4970703 Score: 273
Period size: 58 Copynumber: 4.6 Consensus size: 59
4970415 TTTTGTACAG
*
4970425 GAAAAATTGATACTTTCAACTTTTCTTC-AAAATCCATTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTAGAAAACTTATTTTTAA
*
4970482 GAAAAATTGATACTTTTAACTTTTCCTCAAAAATCCATTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTAGAAAACTTATTTTTAA
* * *** *
4970540 GCAAAATTGATACTTTCAACTTTTTTCC-AAAAATATTTTTTTTTAGAAAGCTTATTTTCAAGGA
1 GAAAAATTGATACTTTCAAC--TTTTCCTCAAAA-ATCCATTTTTAGAAAACTTA-TTT------
*
4970604 AAATTGAT
56 ---TT-AA
* *
4970612 GAAAAATTGATACTTTCAACTTTTTCTCAAAAAT--ATTTTTTAGAAAGCTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCA-TTTTTAGAAAACTTATTTTTAA
*
4970670 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
4970704 GTTTTTTTGA
Statistics
Matches: 187, Mismatches: 17, Indels: 35
0.78 0.07 0.15
Matches are distributed among these distances:
57 26 0.14
58 80 0.43
59 6 0.03
60 13 0.07
61 8 0.04
62 3 0.02
68 3 0.02
69 15 0.08
70 7 0.04
71 6 0.03
72 20 0.11
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTAGAAAACTTATTTTTAA
Found at i:4970735 original size:5 final size:5
Alignment explanation
Indices: 4970727--4970782 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
4970717 TTATTTAAAG
4970727 AAAAT AAAAT --AAT AAAAT AAAAAT AAAAAT AAGAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AA-AAT AAAAT AAAAT
4970773 AAAAAT AAAA
1 -AAAAT AAAA
4970783 AATATATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
3 3 0.07
5 22 0.48
6 21 0.46
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4970751 original size:6 final size:6
Alignment explanation
Indices: 4970727--4970783 Score: 66
Period size: 6 Copynumber: 9.7 Consensus size: 6
4970717 TTATTTAAAG
*
4970727 AAAAT- AAAATAA TAAAATA AAAATA AAAATA AGAAT- AAAAT- AAAATA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
4970774 AAAATA AAAA
1 AAAATA AAAA
4970784 ATATATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
5 14 0.30
6 26 0.57
7 1 0.02
8 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:4970793 original size:23 final size:23
Alignment explanation
Indices: 4970727--4970794 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
4970717 TTATTTAAAG
*
4970727 AAAATAAAATAATAAAATAAAAATA
1 AAAATAAAA-AAT-AAATTAAAATA
* *
4970752 AAAAT-AAGAATAAAATAAAATA
1 AAAATAAAAAATAAATTAAAATA
*
4970774 AAAATAAAAAATATATTAAAA
1 AAAATAAAAAATAAATTAAAA
4970795 AAATCTAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 14 0.39
23 15 0.42
24 2 0.06
25 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (23 bp):
AAAATAAAAAATAAATTAAAATA
Found at i:4970811 original size:3 final size:3
Alignment explanation
Indices: 4970805--4970841 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
4970795 AAATCTAATC
4970805 TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
4970842 AAAAAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4970833 original size:22 final size:22
Alignment explanation
Indices: 4970729--4970841 Score: 78
Period size: 22 Copynumber: 5.4 Consensus size: 22
4970719 ATTTAAAGAA
*
4970729 AATAA-AATAATAAAATAAAAAT
1 AATAATAATAAT-AAATAATAAT
* *
4970751 AAAAATAAGAAT-AA-AATAA-
1 AATAATAATAATAAATAATAAT
* * *
4970770 AATAAAAATAAAAAAT-ATATT
1 AATAATAATAATAAATAATAAT
* * *
4970791 AA-AAAAAT-CTAATCTAATAAT
1 AATAATAATAATAA-ATAATAAT
4970812 AATAATAATAATAAATAATAAT
1 AATAATAATAATAAATAATAAT
4970834 AATAATAA
1 AATAATAA
4970842 AAAAAAAACC
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
19 10 0.15
20 16 0.24
21 10 0.15
22 24 0.35
23 8 0.12
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.26
Consensus pattern (22 bp):
AATAATAATAATAAATAATAAT
Found at i:4971688 original size:24 final size:22
Alignment explanation
Indices: 4971655--4971785 Score: 97
Period size: 24 Copynumber: 5.6 Consensus size: 22
4971645 AATTAATCAA
4971655 AATAAAAAAATAAATATATTAAT
1 AATAAAAAAATAAATA-ATTAAT
4971678 AGATAACAAAAA-AAATAATTAGAT
1 A-ATAA-AAAAATAAATAATTA-AT
* *
4971702 AAATAAAAGAAATAGATAAATAAT
1 -AATAAAA-AAATAAATAATTAAT
*
4971726 AAT-AAAAAATAAAAGTAGATAAAT
1 AATAAAAAAAT-AAA-TA-ATTAAT
* * *
4971750 AATAAAAATATTAATAGA-TAAA
1 AATAAAAAAATAAATA-ATTAAT
4971772 AATAAAAAAATAAA
1 AATAAAAAAATAAA
4971786 AAAAATATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
21 4 0.05
22 19 0.22
23 16 0.18
24 29 0.33
25 19 0.22
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (22 bp):
AATAAAAAAATAAATAATTAAT
Found at i:4971745 original size:44 final size:43
Alignment explanation
Indices: 4971654--4971786 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 43
4971644 AAATTAATCA
* * *
4971654 AAATAAAAAAATAAATATATTAATAGATAACAAAAAAAATAATTAGAT
1 AAATAAAAAAATAAATA-AATAATA-AT-A-AAAAATAA-AAGTAGAT
*
4971702 AAATAAAAGAAATAGATAAATAATAATAAAAAATAAAAGTAGAT
1 AAATAAAA-AAATAAATAAATAATAATAAAAAATAAAAGTAGAT
* *
4971746 AAATAATAAAAATATTAATAGATAAAAATAAAAAAATAAAA
1 AAATAA-AAAAATA--AATAAATAATAAT-AAAAAATAAAA
4971787 AAAATATATT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
44 18 0.25
45 9 0.12
46 11 0.15
47 13 0.18
48 14 0.19
49 8 0.11
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (43 bp):
AAATAAAAAAATAAATAAATAATAATAAAAAATAAAAGTAGAT
Found at i:4971747 original size:23 final size:22
Alignment explanation
Indices: 4971675--4971786 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 22
4971665 TAAATATATT
*
4971675 AATAGATAACAA-AAAAAAT-A
1 AATAGATAATAATAAAAAATAA
* *
4971695 ATTAGATAAATAA-AAGAAAT-A
1 AATAGAT-AATAATAAAAAATAA
* *
4971716 GATAAATAATAATAAAAAATAA
1 AATAGATAATAATAAAAAATAA
*
4971738 AAGTAGATAAATAAT-AAAAATATT
1 AA-TAGAT-AATAATAAAAAATA-A
*
4971762 AATAGATAAAAATAAAAAAATAA
1 AATAGATAATAAT-AAAAAATAA
4971785 AA
1 AA
4971787 AAAATATATT
Statistics
Matches: 72, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
20 11 0.15
21 21 0.29
22 7 0.10
23 18 0.25
24 15 0.21
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.21
Consensus pattern (22 bp):
AATAGATAATAATAAAAAATAA
Found at i:4971809 original size:51 final size:50
Alignment explanation
Indices: 4971712--4971810 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
4971702 AAATAAAAGA
* * *
4971712 AATAGATAAATAATAATAAAAAATAAAAGTAGATAAATAATAAAAATATT
1 AATAGATAAATAATAAAAAAAAAAAAAAATAGATAAATAATAAAAATATT
* *
4971762 AATAGATAAA-AATAAAAAAATAAAAAAAATATATTAAATAATGAAAATA
1 AATAGATAAATAATAAAAAAA-AAAAAAAATAGA-TAAATAATAAAAATA
4971811 AAAAAAAGCC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 9 0.21
50 19 0.45
51 14 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (50 bp):
AATAGATAAATAATAAAAAAAAAAAAAAATAGATAAATAATAAAAATATT
Found at i:4972029 original size:16 final size:16
Alignment explanation
Indices: 4972008--4972046 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
4971998 AACTTGACAC
4972008 TTTTTTTGTTTT-TATT
1 TTTTTTTGTTTTGT-TT
4972024 TTTTTTTGTTTTGTTT
1 TTTTTTTGTTTTGTTT
4972040 TTTTTTT
1 TTTTTTT
4972047 ATTTGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.90
Consensus pattern (16 bp):
TTTTTTTGTTTTGTTT
Found at i:4972051 original size:15 final size:14
Alignment explanation
Indices: 4972008--4972053 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
4971998 AACTTGACAC
* *
4972008 TTTTTTTGTTTTTA
1 TTTTTTTTTTTTTG
4972022 TTTTTTTTTGTTTTG
1 TTTTTTTTT-TTTTG
4972037 TTTTTTTTTTATTTG
1 TTTTTTTTTT-TTTG
4972052 TT
1 TT
4972054 AAAATTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Done.