Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 66 of 77
Found at i:13209554 original size:20 final size:20
Alignment explanation
Indices: 13209517--13209555 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13209507 TATGTATAAA
* * *
13209517 ATACGAAATATAATAAAAAG
1 ATACAAAATACAAAAAAAAG
13209537 ATACAAAATACAAAAAAAA
1 ATACAAAATACAAAAAAAA
13209556 AGTAGAACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (20 bp):
ATACAAAATACAAAAAAAAG
Found at i:13209683 original size:38 final size:39
Alignment explanation
Indices: 13209606--13209699 Score: 156
Period size: 38 Copynumber: 2.4 Consensus size: 39
13209596 TCCCCGGCAC
13209606 CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
1 CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
*
13209645 CACTGCCACCACCCGTGCCACCT-GA-CCACCATACCCTA
1 CACTGCCACCACCCGTGCCA-CTAGACCCACCAGACCCTA
13209683 CACTGCCACCACCCGTG
1 CACTGCCACCACCCGTG
13209700 ATTGCCAGAC
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
38 29 0.55
39 22 0.42
40 2 0.04
ACGTcount: A:0.23, C:0.52, G:0.13, T:0.12
Consensus pattern (39 bp):
CACTGCCACCACCCGTGCCACTAGACCCACCAGACCCTA
Found at i:13211216 original size:12 final size:12
Alignment explanation
Indices: 13211194--13211222 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13211184 TAATTAAAAT
13211194 TAAAA-AATTAA
1 TAAAATAATTAA
13211205 TAAAATAATTAA
1 TAAAATAATTAA
13211217 TAAAAT
1 TAAAAT
13211223 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:13211331 original size:48 final size:48
Alignment explanation
Indices: 13211260--13211356 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
13211250 AAACATGAAA
13211260 ATATTTTGCATGGCATTCATGACATAATTTTTTACGAAAAGTAAATTT
1 ATATTTTGCATGGCATTCATGACATAATTTTTTACGAAAAGTAAATTT
13211308 ATATTTTGCATGGCATTCATGACATAATTTTTTACGAAAAGTAAATTT
1 ATATTTTGCATGGCATTCATGACATAATTTTTTACGAAAAGTAAATTT
13211356 A
1 A
13211357 GACCTCCCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (48 bp):
ATATTTTGCATGGCATTCATGACATAATTTTTTACGAAAAGTAAATTT
Found at i:13212015 original size:17 final size:16
Alignment explanation
Indices: 13211989--13212045 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
13211979 CATTTTTAGT
*
13211989 AAAAAAAAAACAAACA
1 AAAAAAAAAAAAAACA
13212005 AAAAAACAAAAAAAACA
1 AAAAAA-AAAAAAAACA
* *
13212022 AATCAAAAATAAAAAGCA
1 AA--AAAAAAAAAAAACA
13212040 AAAAAA
1 AAAAAA
13212046 TTCACACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 10 0.29
17 11 0.31
18 10 0.29
19 4 0.11
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAAAACA
Found at i:13212028 original size:26 final size:25
Alignment explanation
Indices: 13211989--13212045 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
13211979 CATTTTTAGT
13211989 AAAAAAAAAACAAACAA-AAAAA-CA
1 AAAAAAAAAACAAA-AATAAAAAGCA
13212013 AAAAAAACAAATCAAAAATAAAAAGCA
1 AAAAAAA-AAA-CAAAAATAAAAAGCA
13212040 AAAAAA
1 AAAAAA
13212046 TTCACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.24
25 5 0.17
26 9 0.31
27 8 0.28
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAACAAAAATAAAAAGCA
Found at i:13212036 original size:21 final size:20
Alignment explanation
Indices: 13211989--13212036 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 20
13211979 CATTTTTAGT
13211989 AAAAAAAAAACAAACAAAAA
1 AAAAAAAAAACAAACAAAAA
13212009 AACAAAAAAAACAAATCAAAAA
1 AA-AAAAAAAACAAA-CAAAAA
13212031 TAAAAA
1 -AAAAA
13212037 GCAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.08
21 12 0.48
22 9 0.36
23 2 0.08
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAACAAACAAAAA
Found at i:13212671 original size:15 final size:16
Alignment explanation
Indices: 13212648--13212682 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
13212638 TTGCATCATT
*
13212648 TTTTTAAAAA-AAAAA
1 TTTTCAAAAATAAAAA
13212663 TTTTCAAAAATAAAAA
1 TTTTCAAAAATAAAAA
13212679 TTTT
1 TTTT
13212683 GACACATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTTCAAAAATAAAAA
Found at i:13216736 original size:3 final size:3
Alignment explanation
Indices: 13216724--13216860 Score: 58
Period size: 3 Copynumber: 44.3 Consensus size: 3
13216714 GTATTCTATG
13216724 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT GTA- TAT CT-T TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TA-T
* * *
13216769 TATT TATT TAT TTT TAT TCA- GAT TA- GAT T-T ATAT GTAT T-T TATT
1 TA-T TA-T TAT TAT TAT T-AT TAT TAT TAT TAT -TAT -TAT TAT TA-T
*
13216813 TAT ATAGT TAT ATATT TAT TAT TA- TAT TAT TAT TAT T-T TAT TTT TAT
1 TAT -TA-T TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13216860 T
1 T
13216861 TATTTATTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 38
0.69 0.06 0.25
Matches are distributed among these distances:
2 14 0.13
3 60 0.57
4 30 0.28
5 2 0.02
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13216786 original size:14 final size:14
Alignment explanation
Indices: 13216767--13216875 Score: 51
Period size: 14 Copynumber: 7.2 Consensus size: 14
13216757 TATATCTTTA
13216767 TTTATTTATTTATT
1 TTTATTTATTTATT
* *
13216781 TTTATTCAGATTAGATT
1 TTTATT--TATT-TATT
* *
13216798 TATATGTATTTTATT
1 TTTATTTA-TTTATT
* *
13216813 TATATAGTTATATATT
1 T-T-TATTTATTTATT
13216829 TATTA-TTATATTATT
1 T-TTATTTAT-TTATT
*
13216844 ATTATTTTATTT-TT
1 TTTA-TTTATTTATT
13216858 ATTTATTTATTTATT
1 -TTTATTTATTTATT
13216873 TTT
1 TTT
13216876 TCTTTTCTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
14 25 0.35
15 18 0.25
16 17 0.24
17 11 0.15
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.68
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:13216815 original size:48 final size:48
Alignment explanation
Indices: 13216763--13216873 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
13216753 TATGTATATC
13216763 TTTATTTATTTATTTATTT-TTATTCAGATTAGAT-TTATATGTA-TTTTA
1 TTTATTTATTTATTTATTTATTATT-AGATTA-ATATTAT-TGTATTTTTA
* * * * * *
13216811 TTTATATAGTTATATATTTATTATTATATTATTATTATTTTATTTTTA
1 TTTATTTATTTATTTATTTATTATTAGATTAATATTATTGTATTTTTA
13216859 TTTATTTATTTATTT
1 TTTATTTATTTATTT
13216874 TTTCTTTTCT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
47 4 0.08
48 42 0.82
49 5 0.10
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.68
Consensus pattern (48 bp):
TTTATTTATTTATTTATTTATTATTAGATTAATATTATTGTATTTTTA
Found at i:13216842 original size:11 final size:11
Alignment explanation
Indices: 13216823--13216864 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
13216813 TATATAGTTA
13216823 TATATTTATTAT
1 TATA-TTATTAT
13216835 TATATTATTAT
1 TATATTATTAT
* *
13216846 TATTTTATTTT
1 TATATTATTAT
13216857 TAT-TTATT
1 TATATTATT
13216865 TATTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 5 0.18
11 19 0.68
12 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTAT
Found at i:13217276 original size:25 final size:25
Alignment explanation
Indices: 13217242--13217295 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
13217232 CTGGGAGTGA
13217242 GAAAAAA-TTTCTAGAAATTTCTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
*
13217266 CGAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
13217292 GAAA
1 GAAA
13217296 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:13217461 original size:19 final size:20
Alignment explanation
Indices: 13217437--13217484 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
13217427 TCCGGCGAAC
13217437 TTCCGGCGAG-ATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
13217456 TTCCGGCGAGAATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
13217476 ATCCGGCGA
1 TTCCGGCGA
13217485 AATCCCACCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (20 bp):
TTCCGGCGAGAATTTCCAGA
Found at i:13217746 original size:14 final size:15
Alignment explanation
Indices: 13217727--13217768 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
13217717 CCGAGCCGAG
13217727 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
13217741 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
13217754 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
13217768 C
1 C
13217769 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:13217759 original size:13 final size:14
Alignment explanation
Indices: 13217727--13217763 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
13217717 CCGAGCCGAG
13217727 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
13217741 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
13217753 TCCGAGCCGTT
1 -CCGAGCCGTT
13217764 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:13217821 original size:1 final size:1
Alignment explanation
Indices: 13217815--13217857 Score: 86
Period size: 1 Copynumber: 43.0 Consensus size: 1
13217805 CCGCTCCAGG
13217815 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13217858 ACTTGACTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13218072 original size:152 final size:152
Alignment explanation
Indices: 13217896--13218346 Score: 805
Period size: 152 Copynumber: 3.0 Consensus size: 152
13217886 TTTTTCTTTT
* *
13217896 TTTTTTTTTTTCCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGTTTTTT-CTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
*
13217961 TATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
13218026 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
13218049 TTTTGTATTTTT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGT-TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
*
13218113 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
13218178 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
*
13218201 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
13218266 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
13218331 TTTCCAACAACTAATT
131 TTTCCAATAATTAATT
13218347 ACTTGGTAAA
Statistics
Matches: 287, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
151 5 0.02
152 272 0.95
153 5 0.02
154 5 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAATAATTAATTGGATGA
Found at i:13221670 original size:1 final size:1
Alignment explanation
Indices: 13221633--13221661 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
13221623 CAAAGATCTC
13221633 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13221662 GGGAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13222069 original size:22 final size:22
Alignment explanation
Indices: 13222030--13222105 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
13222020 TATCAACAAT
** *
13222030 AGATGAAAAATGAGAAAAAAGA
1 AGATGAAAAAAAAAAAAAAAGA
13222052 AGATGAAAAAAAAAAAAAAA-A
1 AGATGAAAAAAAAAAAAAAAGA
*
13222073 A-A--AAAAGAAAAAAAAATGAGA
1 AGATGAAAA-AAAAAAAAA-AAGA
*
13222094 AAATGAAAAAAA
1 AGATGAAAAAAA
13222106 GATATTCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
18 4 0.09
19 9 0.20
20 2 0.05
21 4 0.09
22 18 0.41
23 3 0.07
24 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (22 bp):
AGATGAAAAAAAAAAAAAAAGA
Found at i:13222094 original size:13 final size:13
Alignment explanation
Indices: 13222035--13222096 Score: 62
Period size: 10 Copynumber: 5.0 Consensus size: 13
13222025 ACAATAGATG
13222035 AAAAATGAGAAAA
1 AAAAATGAGAAAA
13222048 AAGAAGATGA-AAAA
1 AA-AA-ATGAGAAAA
13222062 AAAAA--A-AAAA
1 AAAAATGAGAAAA
*
13222072 AAAAA-AAGAAAA
1 AAAAATGAGAAAA
13222084 AAAAATGAGAAAA
1 AAAAATGAGAAAA
13222097 TGAAAAAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
10 10 0.23
11 1 0.02
12 10 0.23
13 10 0.23
14 8 0.19
15 4 0.09
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAATGAGAAAA
Found at i:13222105 original size:1 final size:1
Alignment explanation
Indices: 13222057--13222088 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
13222047 AAAGAAGATG
*
13222057 AAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13222089 TGAGAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:13222149 original size:1 final size:1
Alignment explanation
Indices: 13222143--13222178 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
13222133 TGATTTTGAT
*
13222143 AAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13222179 GAGATCCAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13223543 original size:42 final size:41
Alignment explanation
Indices: 13223348--13224006 Score: 947
Period size: 42 Copynumber: 16.1 Consensus size: 41
13223338 ATGATTGTCA
*
13223348 AGGAGCAATTTAATTTTC-AAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
*
13223387 AGGAGCAATTTACATTTC-AAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
13223426 AGGAGCAATTTACTATTTCAAAGTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACT-TTTCAAAGT-CGTGGTGCCTCTGTTTAG
* *
13223467 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
13223508 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
13223550 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
13223590 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
13223632 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
13223674 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
13223714 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
*
13223754 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
13223795 AGGAGCAATTTATTTTTTCAAAGTCGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
13223837 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
13223878 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
*
13223920 AGGAGCAATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAG
* * *
13223960 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
13224001 AGGAGC
1 AGGAGC
13224007 TTCGGCCAAA
Statistics
Matches: 579, Mismatches: 21, Indels: 38
0.91 0.03 0.06
Matches are distributed among these distances:
39 63 0.11
40 154 0.27
41 164 0.28
42 197 0.34
43 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:13223563 original size:124 final size:123
Alignment explanation
Indices: 13223348--13224006 Score: 1016
Period size: 124 Copynumber: 5.4 Consensus size: 123
13223338 ATGATTGTCA
* *
13223348 AGGAGCAATTTAATTTTC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACATTT-C-AAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
13223408 TTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTATTTCAAAGTCCGTTGCCTCTGTTTAG
65 -TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT-TTTCAAAGTCCGTTGCCTCTGTTTAG
* *
13223467 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
*
13223532 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCGTTGCCTCTGTTTAG
13223590 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
*
13223655 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCGTTGCCTCTGTTTAG
13223714 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
* * * *
13223776 TCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGAGGTGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGTC-CGTTGCCTCTGTTTAG
* *
13223837 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
* *
13223902 CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCGTTGCCTCTGTTTAG
* * *
13223960 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
13224007 TTCGGCCAAA
Statistics
Matches: 503, Mismatches: 22, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
119 21 0.04
120 3 0.01
121 62 0.12
122 53 0.11
123 138 0.27
124 190 0.38
125 36 0.07
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (123 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCGTTGCCTCTGTTTAG
Found at i:13223939 original size:287 final size:284
Alignment explanation
Indices: 13223348--13224006 Score: 1067
Period size: 287 Copynumber: 2.3 Consensus size: 284
13223338 ATGATTGTCA
* *
13223348 AGGAGCAATTTAATTTTC-AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACATTTC-AAGTTC
1 AGGAGCAATTTACTTTCCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTTC
13223411 GTTGCCTCTGTTTAGAGGAGCAATTTACTATTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAAT
64 GTTGCCTCTGTTTAGAGGAGCAATTTACTATTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAAT
*
13223476 TTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCC
129 TTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGAGGTGCC
*
13223541 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
194 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTGAGAGGAGCAATTTACTTT
*
13223606 TCAAAAGTCGTGGTGCCTCTGTTTAG
259 TCAAAAGTCGTGGTGCCTCTGTTGAG
13223632 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTAC-TTTCCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGT
*
13223697 TCGTTGCCTCTGTTTAGAGGAGCAATTTACT-TTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
62 TCGTTGCCTCTGTTTAGAGGAGCAATTTACTATTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCA
* * *
13223761 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGAGGTG
127 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGAGGTG
13223826 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTA
192 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTGAGAGGAGCAATTTA
* *
13223890 TTTTTCCAAAGTCGTGGTGCCTCTGTTGAG
255 CTTTTCAAAAGTCGTGGTGCCTCTGTTGAG
13223920 AGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAG-TC
1 AGGAGCAATTTACTTTCCAAAGT-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTC-AAAGTTC
*
13223984 GTTGAGTCTCTGTTTAGAGGAGC
64 GTT--GCCTCTGTTTAGAGGAGC
13224007 TTCGGCCAAA
Statistics
Matches: 351, Mismatches: 13, Indels: 19
0.92 0.03 0.05
Matches are distributed among these distances:
284 12 0.03
285 17 0.05
286 37 0.11
287 183 0.52
288 102 0.29
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (284 bp):
AGGAGCAATTTACTTTCCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTTCGT
TGCCTCTGTTTAGAGGAGCAATTTACTATTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTT
ACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGAGGTGCCTC
TGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTGAGAGGAGCAATTTACTTTTC
AAAAGTCGTGGTGCCTCTGTTGAG
Found at i:13224097 original size:49 final size:47
Alignment explanation
Indices: 13224013--13224115 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 47
13224003 GAGCTTCGGC
13224013 CAAAAAAAAAAAAAAAAAAAAAAACAAAAACCAAAAA-ACAAAAAAAT
1 CAAAAAAAAAAAAAAAAAAAAAAACAAAAACCAAAAATA-AAAAAAAT
* *
13224060 CAAAAAAATCAAAAAAATCAAAAAAAATAAAAA-CAAAAATAAAAAAAAT
1 CAAAAAAA--AAAAAAA-AAAAAAAAACAAAAACCAAAAATAAAAAAAAT
13224109 CAAAAAA
1 CAAAAAA
13224116 TGTTGAGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.16
49 28 0.56
50 14 0.28
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (47 bp):
CAAAAAAAAAAAAAAAAAAAAAAACAAAAACCAAAAATAAAAAAAAT
Found at i:13224113 original size:8 final size:8
Alignment explanation
Indices: 13224038--13224116 Score: 58
Period size: 8 Copynumber: 9.8 Consensus size: 8
13224028 AAAAAAAAAC
*
13224038 AAAAACCA
1 AAAAATCA
13224046 AAAAA-CAA
1 AAAAATC-A
13224054 AAAAATCAA
1 AAAAATC-A
13224063 AAAAATCAA
1 AAAAATC-A
13224072 AAAAATCA
1 AAAAATCA
13224080 AAAAA--A
1 AAAAATCA
*
13224086 ATAAAAAC-
1 A-AAAATCA
*
13224094 AAAAATAAA
1 AAAAAT-CA
13224103 AAAAATCA
1 AAAAATCA
13224111 AAAAAT
1 AAAAAT
13224117 GTTGAGTTGA
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
6 2 0.03
7 9 0.15
8 25 0.41
9 25 0.41
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.09
Consensus pattern (8 bp):
AAAAATCA
Found at i:13224115 original size:1 final size:1
Alignment explanation
Indices: 13224014--13224107 Score: 71
Period size: 1 Copynumber: 94.0 Consensus size: 1
13224004 AGCTTCGGCC
* ** * ** ** **
13224014 AAAAAAAAAAAAAAAAAAAAAAACAAAAACCAAAAAACAAAAAAATCAAAAAAATCAAAAAAATC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
13224079 AAAAAAAATAAAAACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13224108 TCAAAAAATG
Statistics
Matches: 72, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:13224387 original size:4 final size:4
Alignment explanation
Indices: 13224378--13224443 Score: 55
Period size: 4 Copynumber: 16.2 Consensus size: 4
13224368 AGATTATATG
* * * *
13224378 TATT TATT TATA TAGT TATA TATT TA-T TA-T TATAT TAAT TATTT TATTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TA-TT TA-TT
13224427 TATT TATT TATT TATT T
1 TATT TATT TATT TATT T
13224444 TTTCTTTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 6 0.12
4 34 0.67
5 11 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:13224411 original size:12 final size:13
Alignment explanation
Indices: 13224370--13224443 Score: 59
Period size: 12 Copynumber: 6.0 Consensus size: 13
13224360 TTCAGATTAG
*
13224370 ATTATATGTATTT
1 ATTATATTTATTT
* *
13224383 ATT-TATATAGTT
1 ATTATATTTATTT
13224395 A-TATATTTA-TT
1 ATTATATTTATTT
*
13224406 ATTATA-TTAATT
1 ATTATATTTATTT
*
13224418 ATTTTATTTTATTT
1 ATTATA-TTTATTT
13224432 ATT-TATTTATTT
1 ATTATATTTATTT
13224444 TTTCTTTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
11 7 0.14
12 31 0.61
13 5 0.10
14 8 0.16
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (13 bp):
ATTATATTTATTT
Found at i:13224430 original size:17 final size:17
Alignment explanation
Indices: 13224399--13224444 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
13224389 ATAGTTATAT
*
13224399 ATTTA-TTATTATATTA
1 ATTTATTTATTTTATTA
*
13224415 A-TTATTTTATTTTATTT
1 ATTTA-TTTATTTTATTA
13224432 ATTTATTTATTTT
1 ATTTATTTATTTT
13224445 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 1 0.04
17 18 0.72
18 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTATTTATTTTATTA
Found at i:13224838 original size:25 final size:25
Alignment explanation
Indices: 13224804--13224857 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
13224794 CTGGGAGTGA
13224804 GAAAAAA-TTTCTAGAAATTTCTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
*
13224828 CGAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
13224854 GAAA
1 GAAA
13224858 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:13225026 original size:20 final size:20
Alignment explanation
Indices: 13225001--13225049 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
13224991 TCCGGCGAAC
*
13225001 TTCCGGCGAGATTTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
13225021 TTCCGGCGAGAATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
13225041 ATCCGGCGA
1 TTCCGGCGA
13225050 AATCCCACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAGAATTTCCAGA
Found at i:13225307 original size:14 final size:15
Alignment explanation
Indices: 13225288--13225329 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
13225278 CCGAGCCGAG
13225288 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
13225302 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
13225315 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
13225329 C
1 C
13225330 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:13225320 original size:13 final size:14
Alignment explanation
Indices: 13225288--13225324 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
13225278 CCGAGCCGAG
13225288 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
13225302 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
13225314 TCCGAGCCGTT
1 -CCGAGCCGTT
13225325 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:13225382 original size:1 final size:1
Alignment explanation
Indices: 13225376--13225406 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
13225366 CCGCTCCAGG
13225376 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13225407 ACTTGACTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13225620 original size:152 final size:152
Alignment explanation
Indices: 13225444--13225894 Score: 805
Period size: 152 Copynumber: 3.0 Consensus size: 152
13225434 TTTTTTCTTT
* *
13225444 TTTTTTTTTTTCCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGTTTTTT-CTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
*
13225509 TATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
13225574 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
13225597 TTTTGTATTTTT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGT-TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
*
13225661 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
13225726 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
*
13225749 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
13225814 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
13225879 TTTCCAACAACTAATT
131 TTTCCAATAATTAATT
13225895 ACTTGGTAAA
Statistics
Matches: 287, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
151 5 0.02
152 272 0.95
153 5 0.02
154 5 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAATAATTAATTGGATGA
Found at i:13230502 original size:47 final size:48
Alignment explanation
Indices: 13230382--13230992 Score: 752
Period size: 48 Copynumber: 13.0 Consensus size: 48
13230372 TTGAGAGAAG
* * * **
13230382 ATGAGATTTTAAAGTTGTTGAGCCTTTGTTGAGAGGAGCTTTTTTCGG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * *
13230430 ATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTATTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
*
13230477 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * *
13230525 ATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG-CTTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * *
13230572 ATGAGATTTTAAAGTTATTGAGCCTCTACTGAGAGGAGCCTTTTCCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* *
13230620 GATGAGATTTGTAAAATCGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC--
1 -ATGAGATTT-TAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* *
13230668 A--AGATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCC-TTTTCAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
** *
13230713 ATGAGATTTTTAAAGTCATTGTGCCTCTGCTGAGAGGAGCCTTTTTC--
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
**
13230760 A--AGATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAG-CTTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
*
13230805 ATGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * *
13230853 GATGAGATTTTTAAAGTCGTTGAGCCTCTACTGAGAGGAGCTTTTTTC--
1 -ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * * *
13230901 A--AGATTTGAAAGTTGTTGAGCCTCTGTTGAGATGAGCCCTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* *
13230947 ATGAGATTTTAAAGTTGTTGGGCCTTTGCTGAGAGGAG-CTTTTTCA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
13230993 GATTTTAAGT
Statistics
Matches: 485, Mismatches: 57, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
43 12 0.02
44 88 0.18
45 14 0.03
46 1 0.00
47 129 0.27
48 153 0.32
49 20 0.04
50 68 0.14
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (48 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
Found at i:13230545 original size:95 final size:96
Alignment explanation
Indices: 13230382--13230995 Score: 749
Period size: 95 Copynumber: 6.5 Consensus size: 96
13230372 TTGAGAGAAG
* * * *
13230382 ATGAGATTTTAAAGTTGTTGAGCCTTTGTTGAGAGGAGCTTTTTTCGGATAAAATTTTAAAGTTG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGATAAAATTTTAAAGTTG
*
13230447 TTGAGCCTCTGCTGAGAGGAG-CTATTTCAA
66 TTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
13230477 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGATAAAATTTTAAAGTTG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGATAAAATTTTAAAGTTG
*
13230542 TTGAGCCTCTGCTGAGAAGAG-CTTTTTCAA
66 TTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * * * * *
13230572 ATGAGATTTTAAAGTTATTGAGCCTCTACTGAGAGGAGCCTTTTCCAAGATGAGATTTGTAAAAT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC-AGATAAAATTT-TAAAGT
*
13230637 CGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC--
64 TGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * * *
13230668 A--AGATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCC-TTTTCAGATGAGATTTTTAAAGTC
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGAT-AAAATTTTAAAGTT
* *
13230730 ATTGTGCCTCTGCTGAGAGGAGCCTTTTTC--
65 GTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
** * * *
13230760 A--AGATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAG-CTTTTTCAAATGAGATTTTAAAGTTG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGATAAAATTTTAAAGTTG
*
13230822 TTGAGCCTCTGTTGAGAGGAGCCTTTTTCAA
66 TTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * * * *
13230853 GATGAGATTTTTAAAGTCGTTGAGCCTCTACTGAGAGGAGCTTTTTTC----AAGATTTGAAAGT
1 -ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGATAAAATTTTAAAGT
* * *
13230914 TGTTGAGCCTCTGTTGAGATGAGCCCTTTTCAA
64 TGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* *
13230947 ATGAGATTTTAAAGTTGTTGGGCCTTTGCTGAGAGGAG-CTTTTTCAGAT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGAT
13230996 TTTAAGTTTT
Statistics
Matches: 454, Mismatches: 49, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
91 43 0.09
92 107 0.24
93 13 0.03
94 77 0.17
95 132 0.29
96 13 0.03
97 56 0.12
98 13 0.03
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (96 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAGATAAAATTTTAAAGTTG
TTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
Found at i:13230809 original size:233 final size:231
Alignment explanation
Indices: 13230379--13231000 Score: 890
Period size: 233 Copynumber: 2.6 Consensus size: 231
13230369 GTTTTGAGAG
* * * *
13230379 AAGATGAGATTTTAAAGTTGTTGAGCCTTTGTTGAGAGGAGCTTTTTTCGGATAAAATTTTAAAG
1 AAGATGAGATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTC----AAGATTTTAAAG
*
13230444 TTGTTGAGCCTCTGCTGAGAGGAG-CTATTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTGCTG
62 TTGTTGAGCCTCTGCTGAGATGAGCCT-TTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTGCTG
* *
13230508 AGAGGAGCCTTTTTCAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAA
126 AGAGGAGCCTTTTTC----AAGATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCAAA
13230573 TGAGATTTTAAAGTTATTGAGCCTCTACTGAGAGGAGCCTTTTCC
187 TGAGATTTTAAAGTTATTGAGCCTCTACTGAGAGGAGCCTTTTCC
* *
13230618 AAGATGAGATTTGTAAAATCGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATTTTAAAGTTG
1 AAGATGAGATTT-TAAAGTCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTCAAGATTTTAAAGTTG
* ** *
13230683 TTGAGCCTCTGCTGAGATGAGCCTTTTCAGATGAGATTTTTAAAGTCATTGTGCCTCTGCTGAGA
65 TTGAGCCTCTGCTGAGATGAGCCTTTTCAAATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGA
* *
13230748 GGAGCCTTTTTCAAGATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAATGAGATT
129 GGAGCCTTTTTCAAGATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCAAATGAGATT
* ** *
13230813 TTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCTTTTTC
194 TTAAAGTTATTGAGCCTCTACTGAGAGGAGCCTTTTCC
* *
13230851 AAGATGAGATTTTTAAAGTCGTTGAGCCTCTACTGAGAGGAGCTTTTTTCAAGATTTGAAAGTTG
1 AAGATGAGA-TTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTCAAGATTTTAAAGTTG
* * *
13230916 TTGAGCCTCTGTTGAGATGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGGGCCTTTGCTGAGA
65 TTGAGCCTCTGCTGAGATGAG-CCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGA
13230981 GGAG-CTTTTTC-AGATTTTAA
129 GGAGCCTTTTTCAAGATTTTAA
13231001 GTTTTCGAAA
Statistics
Matches: 349, Mismatches: 29, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
231 9 0.03
232 7 0.02
233 188 0.54
234 17 0.05
236 45 0.13
237 39 0.11
239 12 0.03
240 32 0.09
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (231 bp):
AAGATGAGATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTCAAGATTTTAAAGTTGT
TGAGCCTCTGCTGAGATGAGCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG
AGCCTTTTTCAAGATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCAAATGAGATTTT
AAAGTTATTGAGCCTCTACTGAGAGGAGCCTTTTCC
Found at i:13231213 original size:18 final size:18
Alignment explanation
Indices: 13231192--13231234 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
13231182 GAAATATAAT
*
13231192 AAAAAGATACAAAATACA
1 AAAAAAATACAAAATACA
*
13231210 AAAAAAATACGAAATACA
1 AAAAAAATACAAAATACA
13231228 AAAAAAA
1 AAAAAAA
13231235 AAGTAGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (18 bp):
AAAAAAATACAAAATACA
Found at i:13231217 original size:38 final size:38
Alignment explanation
Indices: 13231154--13231234 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
13231144 ATTTGTCCAG
* ** * * * *
13231154 AAAAAGATACAAAGTACGTATAAAATATGAAATATAAT
1 AAAAAGATACAAAATACAAAAAAAATACGAAATACAAA
13231192 AAAAAGATACAAAATACAAAAAAAATACGAAATACAAA
1 AAAAAGATACAAAATACAAAAAAAATACGAAATACAAA
13231230 AAAAA
1 AAAAA
13231235 AAGTAGAACA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.16
Consensus pattern (38 bp):
AAAAAGATACAAAATACAAAAAAAATACGAAATACAAA
Found at i:13231235 original size:20 final size:20
Alignment explanation
Indices: 13231175--13231236 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
13231165 AAGTACGTAT
* * *
13231175 AAAATATGAAATATAATAAA
1 AAAATACGAAATACAAAAAA
* *
13231195 AAGATACAAAATAC--AAAA
1 AAAATACGAAATACAAAAAA
13231213 AAAATACGAAATACAAAAAA
1 AAAATACGAAATACAAAAAA
13231233 AAAA
1 AAAA
13231237 GTAGAACAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 15 0.45
20 18 0.55
ACGTcount: A:0.74, C:0.06, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAATACGAAATACAAAAAA
Found at i:13231333 original size:18 final size:18
Alignment explanation
Indices: 13231312--13231370 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
13231302 GCCACCAGAC
13231312 CCACCAAACCCTACACTG
1 CCACCAAACCCTACACTG
* *
13231330 CCACC--ACCGTGCCACCTG
1 CCACCAAACCCT-ACA-CTG
13231348 ACCACCAAACCCTACACTG
1 -CCACCAAACCCTACACTG
13231367 CCAC
1 CCAC
13231371 TACCCGTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 4 0.12
17 2 0.06
18 12 0.38
19 8 0.25
20 2 0.06
21 4 0.12
ACGTcount: A:0.29, C:0.53, G:0.08, T:0.10
Consensus pattern (18 bp):
CCACCAAACCCTACACTG
Found at i:13231378 original size:38 final size:39
Alignment explanation
Indices: 13231286--13231378 Score: 145
Period size: 37 Copynumber: 2.4 Consensus size: 39
13231276 TCCCCGGCAC
*
13231286 CACTACCACCACCCGTGCCACCAGACCCACCAAACCCTA
1 CACTGCCACCACCCGTGCCACCAGACCCACCAAACCCTA
*
13231325 CACTGCCACCA-CCGTGCCACCTGA-CCACCAAACCCTA
1 CACTGCCACCACCCGTGCCACCAGACCCACCAAACCCTA
*
13231362 CACTGCCACTACCCGTG
1 CACTGCCACCACCCGTG
13231379 ATTGCTAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 23 0.46
38 17 0.34
39 10 0.20
ACGTcount: A:0.27, C:0.52, G:0.11, T:0.11
Consensus pattern (39 bp):
CACTGCCACCACCCGTGCCACCAGACCCACCAAACCCTA
Found at i:13234499 original size:20 final size:20
Alignment explanation
Indices: 13234441--13234499 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
13234431 ATTTTTATTC
*
13234441 ATTTGTATTTTA-GATTTTT
1 ATTTTTATTTTATGATTTTT
*
13234460 -TTATTTCATATTTATCATTTTT
1 ATT-TTT-AT-TTTATGATTTTT
13234482 ATTTTTATTTTATGATTT
1 ATTTTTATTTTATGATTT
13234500 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 11 0.34
21 6 0.19
22 9 0.28
23 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTTATTTTATGATTTTT
Found at i:13237085 original size:60 final size:58
Alignment explanation
Indices: 13236923--13237457 Score: 504
Period size: 60 Copynumber: 8.9 Consensus size: 58
13236913 TTTAATAATA
* * * * * *
13236923 AAAATAATAATTTCAAAAAAAATATTCTCGAGAAAAAATTGAAAGTATCAATTTTCCTTG
1 AAAATAA-AGTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
*
13236983 AAAATAAAGTTTTCAAAAAAATAAATTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTC
1 AAAATAAAG-TTTCAAAAAAAT--A-----TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTC
13237048 G
58 G
* * **
13237049 AAAATCAAAGTTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAAT-AAAGTTT-CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
* *
13237109 AAAATAAATTTTCAAAAAAATAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCG
1 AAAATAAAGTTTCAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
* * * * * **
13237169 AAATTAAAGTTTTAAAAGAATATTTTTTGA--AAAAGTTGGAAGTATCAATTTTCTTTA
1 AAAATAAAGTTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
* * *
13237226 AAAATAAATTTTCAAAAAAAAAAGAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCG
1 AAAATAAAGTTTC---AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
* * * **
13237288 AAATTAAAGTTTCAAAAGAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAAGTTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
* * *
13237346 AAAATAAATTTTCAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTGCTCG
1 AAAATAAAGTTTCAAAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
* * * * *
13237406 AGATTAACA-TTTCTAAAAAAT-GTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAATAA-AGTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
13237458 TCCTGCACAA
Statistics
Matches: 394, Mismatches: 60, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
57 62 0.16
58 53 0.13
59 40 0.10
60 151 0.38
61 2 0.01
62 34 0.09
65 1 0.00
66 38 0.10
67 13 0.03
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAATAAAGTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
Found at i:13237120 original size:17 final size:17
Alignment explanation
Indices: 13237098--13237137 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
13237088 TGAAAGTATC
**
13237098 AATTTTTCTTAAAAATA
1 AATTTTTCAAAAAAATA
13237115 AA-TTTTCAAAAAAATA
1 AATTTTTCAAAAAAATA
13237131 AATTTTT
1 AATTTTT
13237138 AAGGAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTTCAAAAAAATA
Found at i:13237279 original size:119 final size:120
Alignment explanation
Indices: 13236956--13237459 Score: 675
Period size: 119 Copynumber: 4.2 Consensus size: 120
13236946 ATTCTCGAGA
* * * *** *
13236956 AAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTTCAAAAAAATAAATTTTTTTTTTTAG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAA-AAA--GAGTTTTTGAG
* *
13237021 GAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAAATATTTTTGGGG
62 GAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAGTTTCCAAAAGAATATTTTT-GGG
* *
13237082 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATAA-A-TTTTTAAGGAAA
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAAGAGTTTTTGAGGAAA
* * *
13237145 AGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT-TAAAAGAATATTTTTTGA
66 AGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAGAATATTTTTGGG
* *
13237199 AAAAGTTGGAAGTATCAA-TTTTCTTTAAAAATAAATTTTCAAAAAAAAAAGAGTTTTTGAGAAA
1 AAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAAAAAAAAAGAGTTTTTGAGGAA
13237263 AAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT-CAAAAGAATATTTTTTGGG
65 AAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAGAATA-TTTTTGGG
13237319 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAAAAAG-GTTTTTGAGGAAA
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAAGAGTTTTTGAGGAAA
* * * * *
13237382 AGTTGAAAGTATCAATTTTGCTCGAGATTAACA-TTTCTAAAA-AATGTTTTGGGG
66 AGTTGAAAGTATCAATTTTCCTCGAAATTAA-AGTTTCCAAAAGAATATTTTTGGG
13237436 AAAAGTTGAAAGTATCAATTTTTC
1 AAAAGTTGAAAGTATCAATTTTTC
13237460 CTGCACAAAA
Statistics
Matches: 346, Mismatches: 25, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
116 5 0.01
117 74 0.21
118 61 0.18
119 81 0.23
120 74 0.21
121 5 0.01
124 2 0.01
125 12 0.03
126 32 0.09
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (120 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAAGAGTTTTTGAGGAAA
AGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAGAATATTTTTGGG
Found at i:13237386 original size:237 final size:242
Alignment explanation
Indices: 13236939--13237457 Score: 739
Period size: 237 Copynumber: 2.2 Consensus size: 242
13236929 ATAATTTCAA
* * * *
13236939 AAAAAATATTCTCGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTTCAAAAAAA
1 AAAAAATATT-TTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTTCAAAAAAA
*** * *
13237004 TAAATTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAA
65 TAAA-TGAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAA
13237069 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATAAAT
129 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATAAAT
13237134 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAA-AGTTT-T
194 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAACA-TTTCT
** * *
13237182 AAAAGAATATTTTTTGAAAAAGTTGGAAGTATCAATTTTCTTTAAAAATAAA-TTTTCAAAAAAA
1 AAAA-AATATTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTTCAAAAAAA
* *
13237246 -AAA-GAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAGTTT-CAAAAGA
65 TAAATGAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAA
* *
13237307 ATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA-AAGGT
130 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATAA-AT
* * *
13237371 TTTTGAGGAAAAGTTGAAAGTATCAATTTTGCTCGAGATTAACATTTCT
194 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAACATTTCT
* *
13237420 AAAAAATGTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTGGGAAAAAGTTGAAAGTATCAATTTT
13237458 TCCTGCACAA
Statistics
Matches: 248, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
236 2 0.01
237 136 0.55
238 17 0.07
239 34 0.14
241 3 0.01
242 12 0.05
243 38 0.15
244 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (242 bp):
AAAAAATATTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTTCAAAAAAAT
AAATGAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATAAATTT
TTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAACATTTCT
Found at i:13238198 original size:21 final size:19
Alignment explanation
Indices: 13238166--13238213 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
13238156 AATTGAAAAG
13238166 AAAA-AAAATACTTAAT-ACA
1 AAAATAAAATACTT-ATGA-A
13238185 AAAATAAAATTACTTATGAA
1 AAAATAAAA-TACTTATGAA
13238205 AAAATAAAA
1 AAAATAAAA
13238214 GATATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 6 0.23
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAATAAAATACTTATGAA
Found at i:13240561 original size:25 final size:25
Alignment explanation
Indices: 13240527--13240589 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
13240517 CACAATCTTT
13240527 AGCAAACCATTCAAAAATACCATTC
1 AGCAAACCATTCAAAAATACCATTC
* * *
13240552 AGCAAGCCATTTAAAAATACTATTC
1 AGCAAACCATTCAAAAATACCATTC
* *
13240577 ACCAAACGATTCA
1 AGCAAACCATTCA
13240590 GCATACCAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.22
Consensus pattern (25 bp):
AGCAAACCATTCAAAAATACCATTC
Found at i:13241569 original size:188 final size:188
Alignment explanation
Indices: 13241249--13243452 Score: 2269
Period size: 187 Copynumber: 11.9 Consensus size: 188
13241239 ATAATGTACG
* * * * *
13241249 TAAATTAGAAAAAATTAGTGAAGGC-GTTTTTATGGAATAAACGCCTTCACTAAGCGTCTCAAAA
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAAA
* * *
13241313 TTTGAGTTCTAAAATATTGAAGGCATTTTTCACTGGAAA-ACACCTTTAATAATCTCAAAAAATT
66 TTTGAGTTGTAAAATATTGAAGGCATTTTTCACT-TAAAGACACCTTTAATAATCTCAAAAATTT
* * * *
13241377 TAAGAGAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACTTTCAATAATTACGCACG
130 TAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* * * *
13241436 TAAATTAGAAAGAATTAGTGAAAGTATTTTTTCTAGAATAAACGCCTTCACAAAGCCTCTCAAAT
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAAA
* * * * *
13241501 TTTGAGTTGTAAAATATTGAAGGCGTTTTTCACTTAAAGACACTTTTAATAATCCCTAAATTTTT
66 TTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTAAAGACACCTTTAATAATCTCAAAAATTTT
* * *
13241566 AAGAAAAAATTATTGAAGGCATTTGTTCTCAAAAAAATACCTTCAAAAATTATGCACG
131 AAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* * *
13241624 TAAATTAG-AAGAAATTAGTGAAGGCATTTTTTCTAGAATAAACACCTTCACTAAGCGTCTTAAA
1 TAAATTAGAAAG-AATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAA
* * *
13241688 TTTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTGAAGACACTTTTAATAATCTCAAAAATTT
65 ATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTAAAGACACCTTTAATAATCTCAAAAATTT
** *
13241753 TAA-AAGAAAATTATTGAAGGTATTTGTTCTC-AAAAAATACCTTCAATAAATATGCACA
130 TAAGAA-AAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* ** * *** *
13241811 TAAATTAGAAAAAATTAGTGAAAATATTTTTTCTAGAATAAACGCCTTTA-TAAAATATCTTAAA
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACT-AAGCGTCTCAAA
* * * * *
13241875 ATTTGAGTTGTAGAATATTGAAGGCGTTTTTCACCTAAA-AAAGCCTTTAATAATCCCAAAAATT
65 ATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTAAAGACA-CCTTTAATAATCTCAAAAATT
* * * * *
13241939 TTAAGAAAAAATTTTTTTAAAGGTGTTTGTTCTC-AAGAAATGCCTTCAA-AATTATGCACA
129 TTAAGAAAAAA--TTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* * **
13241999 TAAATTAGAAGGAATTAGTG-AAG-GTGTTTTT-TAGAATAAACGCCTTCACTAAGTATCTCAAA
1 TAAATTAGAAAGAATTAGTGAAAGCAT-TTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAA
* * * *
13242061 ATTTGAGTTTTAAAATATTGATGGCATTTTCCAC-TAGAAGACGCCTTTAATAATCTCAAAAATT
65 ATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTA-AAGACACCTTTAATAATCTCAAAAATT
* * * *
13242125 TTAAAAAAAAATTATTGAAGACGTTTGTTCTCAAGAAACAT--CTTCAATAATTATACACA
129 TTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAA-AAAAATACCTTCAATAATTATGCACA
* * * * * * *
13242184 AAAATTAGAAGGACTTAGTGAAGGCATTTTTTCTAGAATAAACGCATTCACTAAACTTCT-AAAT
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAA-
* * * * *
13242248 ATTTGAGTTCTAAAATAGTGAAGGCATTTTTCACTGAAAGACGCCTTTAATAATCTTAAAAATTT
65 ATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTAAAGACACCTTTAATAATCTCAAAAATTT
** * * * * *
13242313 TAAGAAAAAATTATTGAAGGTATTTGTTTTAAAAAAAAAATGCCTTCAAAAATTATGCACG
130 TAAGAAAAAATTATTGAAGGCGTTTGTTCT--CAAAAAAATACCTTCAATAATTATGCACA
* * * * * * *
13242374 CAAATTAGAAGGAGTTAGTGAAAGCATTTTTCCTAAAATAAACACCTTCACTAAGTGTCTCAAAA
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAAA
* * * * * **
13242439 TTTGAGTTGTGAAATATTAAAGGCGTTTTCCACTTGAAGATGCCTTTAATAATCTCAAAAATATT
66 TTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTAAAGACACCTTTAATAATCTCAAAAAT-TT
** * * * * *
13242504 T-TTAAAAAATTATTGAAGGCGTTTGTTGTAAAAAAAATGCCTTTAATAATTATGAACA
130 TAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* ** * * * *
13242562 TAAATTA-AAAGGAA--AGTGAATGTGTTTTGT-TAGAATAAACGCCTTCACTAACCAT-TGTAA
1 TAAATTAGAAA-GAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCT-CAA
* * **
13242622 AATTTGAGTAGTGAAATATTGAAGGCATTTTTCACTGGAAGACGA--TTCTAATAATCTCAAAAA
64 AATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTAAAGAC-ACCTT-TAATAATCTCAAAAA
* * * * * **
13242685 TTTTAAGAGAAAATTATTAAAGGCGTTTGTTCTC-AAAAAACACCTTAAAAAATTATGCATG
127 TTTTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* * * * *
13242746 TAAATTAGAAAGAATTAGTGAAGGC-GTTTTGCTAGAATAAACGCCTTCACTAAGCATCCCAAAA
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAAA
* * * * * * * * * *
13242810 TTTGAGTAGTAGAATATTGAGGGCGTTTTTCAC-TAGATGACGCATTTAATAATGTTAAAAGTTT
66 TTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTA-AAGACACCTTTAATAATCTCAAAAATTT
* * *
13242874 TAAGAAAAAATTATTGAAGGCGGTTGTTCTC-AAAAAATACCTTTAATAATTATTCACA
130 TAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
*
13242932 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCATTCACTAA----C-C---A
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAAA
* * * *
13242989 TCT--G--G---AATATTGAAGGTATTTTTCA-TTGGAAGACGCCTTTAATAATCTCAAAAATTT
66 TTTGAGTTGTAAAATATTGAAGGCATTTTTCACTT-AAAGACACCTTTAATAATCTCAAAAATTT
* *
13243046 TAAGAAAAAAATT-TTTAAGGCGTTTGTTCT-AAAAAAATACCTTCAATAATTATGCATA
130 TAAG-AAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* * * * *
13243104 TTAATTAG-AAGCAATTAGTGAAGGCATTTTTTCTAGAATAAATGTCTTCACTAAGCGTCTTAAA
1 TAAATTAGAAAG-AATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAA
* * * * *
13243168 ATTTGAGTTCTGAAATATTGAAGGCATTTTTCA-TTGGAAGACACATTTAATAATTTCAAAAATT
65 ATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTT-AAAGACACCTTTAATAATCTCAAAAATT
* * * * * *
13243232 TTAAGAGAAAATTATTGAAGGTGTTTATTCTC-AAAAAATGCATTCAATAATTATGTACA
129 TTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
* * * * * * *
13243291 TAAATTAGAAGGAATTAGTGAAGGCATTTTTTCTTGAATAAATGCC-TCAACTAACCGTTTAAAA
1 TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTC-ACTAAGCGTCTCAAA
* * *
13243355 ATTTGAGTTATGAAATATTAAAGGCATTTTTCAC-TAGAAGACACCTTTAATAATCTCAAAAATT
65 ATTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTA-AAGACACCTTTAATAATCTCAAAAATT
*
13243419 TTAAGAAAAAATTATTGAAGGCATTTGTTCTCAA
129 TTAAGAAAAAATTATTGAAGGCGTTTGTTCTCAA
13243453 GAAACGCCTT
Statistics
Matches: 1695, Mismatches: 253, Indels: 137
0.81 0.12 0.07
Matches are distributed among these distances:
171 3 0.00
172 129 0.08
173 8 0.00
175 1 0.00
176 1 0.00
177 1 0.00
179 3 0.00
180 3 0.00
182 2 0.00
183 1 0.00
184 59 0.03
185 135 0.08
186 281 0.17
187 534 0.32
188 354 0.21
189 33 0.02
190 141 0.08
191 6 0.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (188 bp):
TAAATTAGAAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCCTTCACTAAGCGTCTCAAAA
TTTGAGTTGTAAAATATTGAAGGCATTTTTCACTTAAAGACACCTTTAATAATCTCAAAAATTTT
AAGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACCTTCAATAATTATGCACA
Found at i:13242630 original size:748 final size:738
Alignment explanation
Indices: 13241249--13243464 Score: 2652
Period size: 748 Copynumber: 3.0 Consensus size: 738
13241239 ATAATGTACG
* * *
13241249 TAAATTAGAAAAAATTAGTGAAGGCGTTTTTATGGAATAAACGCCTTCACTAAGCGTCTCAAAAT
1 TAAATTAGAAAGAATTAGTGAAGGCGTTTTT-TAGAATAAACGCCTTCACTAAGCATCTCAAAAT
* * * *
13241314 TTGAGTTCTAAAATATTGAAGGCATTTTTCACTGGAAAACACCTTTAATAATCTCAAAAAATTTA
65 TTGAGTTCTAAAATATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTA
* ** *
13241379 AGAGAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATACTTTCAATAATTACGCACGTAAATTAG
130 AGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAAT-C-TTCAATAATTATACACATAAATTAG
* *
13241444 AAAGAATTAGTGAAAGTATTTTTTCTAGAATAAACGCCTTCAC-AAAGCCTCTCAAAT-TTTGAG
193 AAAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCATTCACTAAA--CTCT-AAATATTTGAG
* * * * * *
13241507 TTGTAAAATATTGAAGGCGTTTTTCACTTAAAGACACTTTTAATAATCCCT-AAATTTTTAAGAA
255 TT-TAAAATATTGAAGGCATTTTTCACTGAAAGACGCCTTTAATAAT-CTTAAAAATTTTAAGAA
13241571 AAAATTATTGAAGGCATTTGTTCTCAAAAAAATACCTTCAAAAATTATGCACGTAAATTAGAAGA
318 AAAATTATTGAAGGCATTTGTTCT-AAAAAAATACCTTCAAAAATTATGCACGTAAATTAGAAGA
* *
13241636 AATTAGTGAAGGCATTTTTTCTAGAATAAACACCTTCACTAAGCGTCTTAAATTTTGAGTTGTAA
382 AATTAGTGAAGGCATTTTTTCTAGAATAAACACCTTCACTAAGCGTCTTAAAATTTGAGTTGTGA
* *
13241701 AATATTGAAGGCATTTTTCACTTGAAGACACTTTTAATAATCTCAAAAAT-TTTAAAAGAAAATT
447 AATATTGAAGGCATTTTTCACTTGAAGACACATTTAATAATCTCAAAAATATTTTAAAGAAAATT
* * * * *
13241765 ATTGAAGGTATTTGTTCTCAAAAAATACCTTCAATAAATATGCACATAAATTAGAAA-AAATTAG
512 ATTGAAGGTGTTTGTTCTCAAAAAATGCCTTCAATAATTATGAACATAAATTA-AAAGGAA-TAG
* * * **
13241829 TGAAAATATTTTTTCTAGAATAAACGCCTTTA-TAAAATATCTTAAAATTTGAGTTGT-AGAATA
575 TGAAAGTATTTTCT-TAGAATAAACGCCTTCACT-AACCAT-TTAAAATTTGAGTTGTGA-AATA
* * *
13241892 TTGAAGGCGTTTTTCACCTAAAAAAGCCTTTAATAATCCCAAAAATTTTAAGAAAAAATTTTTTT
636 TTGAAGGCATTTTTCA-CTAAAAAA-CCTTTAATAATCTCAAAAATTTTAAGAAAAAA--TTATT
* *
13241957 AAAGGTGTTTGTTCTCAAGAAATGCCTTCAAAATTATGCACA
697 AAAGGCGTTTGTTCTCAAGAAACGCCTTCAAAATTATGCACA
* * *
13241999 TAAATTAGAAGGAATTAGTGAAGGTGTTTTTTAGAATAAACGCCTTCACTAAGTATCTCAAAATT
1 TAAATTAGAAAGAATTAGTGAAGGCGTTTTTTAGAATAAACGCCTTCACTAAGCATCTCAAAATT
* * *
13242064 TGAGTTTTAAAATATTGATGGCATTTTCCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAA
66 TGAGTTCTAAAATATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAA
* * * *
13242129 AAAAAAATTATTGAAGACGTTTGTTCTCAAGAAACATCTTCAATAATTATACACAAAAATTAGAA
131 GAAAAAATTATTGAAGGCGTTTGTTCTCAA-AAAAATCTTCAATAATTATACACATAAATTAGAA
* * *
13242194 GGACTTAGTGAAGGCATTTTTTCTAGAATAAACGCATTCACTAAACTTCTAAATATTTGAGTTCT
195 AGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCATTCACTAAAC-TCTAAATATTTGAGTT-T
*
13242259 AAAATAGTGAAGGCATTTTTCACTGAAAGACGCCTTTAATAATCTTAAAAATTTTAAGAAAAAAT
258 AAAATATTGAAGGCATTTTTCACTGAAAGACGCCTTTAATAATCTTAAAAATTTTAAGAAAAAAT
* * * * * *
13242324 TATTGAAGGTATTTGTTTTAAAAAAAAAATGCCTTCAAAAATTATGCACGCAAATTAGAAGGAGT
323 TATTGAAGGCATTTGTTCT---AAAAAAATACCTTCAAAAATTATGCACGTAAATTAGAAGAAAT
* * * * *
13242389 TAGTGAAAGCATTTTTCCTAAAATAAACACCTTCACTAAGTGTCTCAAAATTTGAGTTGTGAAAT
385 TAGTGAAGGCATTTTTTCTAGAATAAACACCTTCACTAAGCGTCTTAAAATTTGAGTTGTGAAAT
* * * ** * *
13242454 ATTAAAGGCGTTTTCCACTTGAAGATGCCTTTAATAATCTCAAAAATATTTTTAA-AAAATTATT
450 ATTGAAGGCATTTTTCACTTGAAGACACATTTAATAATCTCAAAAATATTTTAAAGAAAATTATT
* * * *
13242518 GAAGGCGTTTGTTGTAAAAAAAATGCCTTTAATAATTATGAACATAAATTAAAAGGAA-AGTGAA
515 GAAGGTGTTTGTTCT-CAAAAAATGCCTTCAATAATTATGAACATAAATTAAAAGGAATAGTGAA
* * * *
13242582 TGTGTTTTGTTAGAATAAACGCCTTCACTAACCATTGTAAAATTTGAGTAGTGAAATATTGAAGG
579 AGTATTTTCTTAGAATAAACGCCTTCACTAACCATT-TAAAATTTGAGTTGTGAAATATTGAAGG
** * * *
13242647 CATTTTTCACTGGAAGACGATTCTAATAATCTCAAAAATTTTAAGAGAAAATTATTAAAGGCGTT
643 CATTTTTCACTAAAAAAC-CTT-TAATAATCTCAAAAATTTTAAGAAAAAATTATTAAAGGCGTT
* * * **
13242712 TGTTCTCAAAAAACACCTTAAAAAATTATGCATG
706 TGTTCTCAAGAAACGCCTT-CAAAATTATGCACA
* *
13242746 TAAATTAGAAAGAATTAGTGAAGGCGTTTTGCTAGAATAAACGCCTTCACTAAGCATCCCAAAAT
1 TAAATTAGAAAGAATTAGTGAAGGCGTTTT-TTAGAATAAACGCCTTCACTAAGCATCTCAAAAT
** * * * * * * * *
13242811 TTGAGTAGTAGAATATTGAGGGCGTTTTTCACTAGATGACGCATTTAATAATGTTAAAAGTTTTA
65 TTGAGTTCTAAAATATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTA
* * * *
13242876 AGAAAAAATTATTGAAGGCGGTTGTTCTCAAAAAATACCTTTAATAATTATTCACATAAATTAGA
130 AGAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAA-ATCTTCAATAATTATACACATAAATTAGA
*
13242941 AAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCATTCACT-AAC-C-----ATCTG-G----
194 AAGAATTAGTGAAAGCATTTTTTCTAGAATAAACGCATTCACTAAACTCTAAATATTTGAGTTTA
* * * *
13242994 -AATATTGAAGGTATTTTTCATTGGAAGACGCCTTTAATAATCTCAAAAATTTTAAGAAAAAAAT
259 AAATATTGAAGGCATTTTTCACTGAAAGACGCCTTTAATAATCTTAAAAATTTTAAG-AAAAAAT
* * * ** * *
13243058 T-TTTAAGGCGTTTGTTCTAAAAAAATACCTTCAATAATTATGCATATTAATTAGAAGCAATTAG
323 TATTGAAGGCATTTGTTCTAAAAAAATACCTTCAAAAATTATGCACGTAAATTAGAAGAAATTAG
*** *
13243122 TGAAGGCATTTTTTCTAGAATAAATGTCTTCACTAAGCGTCTTAAAATTTGAGTTCTGAAATATT
388 TGAAGGCATTTTTTCTAGAATAAACACCTTCACTAAGCGTCTTAAAATTTGAGTTGTGAAATATT
*
13243187 GAAGGCATTTTTCA-TTGGAAGACACATTTAATAATTTC-AAAA-ATTTTAAGAGAAAATTATTG
453 GAAGGCATTTTTCACTT-GAAGACACATTTAATAATCTCAAAAATATTTTAA-AGAAAATTATTG
* * * * *
13243249 AAGGTGTTTATTCTCAAAAAATGCATTCAATAATTATGTACATAAATTAGAAGGAATTAGTGAAG
516 AAGGTGTTTGTTCTCAAAAAATGCCTTCAATAATTATGAACATAAATTAAAAGGAA-TAGTGAAA
* * * * *
13243314 GCATTTTTTCTT-GAATAAATGCC-TCAACTAACCGTTTAAAAATTTGAGTTATGAAATATTAAA
580 G--TATTTTCTTAGAATAAACGCCTTC-ACTAACCATTT-AAAATTTGAGTTGTGAAATATTGAA
* * *
13243377 GGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAAATTTTAAGAAAAAATTATTGAAGGCA
641 GGCATTTTTCACTA-AA-AAACCTTTAATAATCTCAAAAATTTTAAGAAAAAATTATTAAAGGCG
13243442 TTTGTTCTCAAGAAACGCCTTCA
704 TTTGTTCTCAAGAAACGCCTTCA
13243465 CTAACCGTCC
Statistics
Matches: 1260, Mismatches: 176, Indels: 79
0.83 0.12 0.05
Matches are distributed among these distances:
728 6 0.00
729 44 0.03
730 143 0.11
731 11 0.01
732 110 0.09
733 74 0.06
734 11 0.01
739 1 0.00
740 4 0.00
745 1 0.00
746 29 0.02
747 60 0.05
748 400 0.32
749 134 0.11
750 195 0.15
751 37 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (738 bp):
TAAATTAGAAAGAATTAGTGAAGGCGTTTTTTAGAATAAACGCCTTCACTAAGCATCTCAAAATT
TGAGTTCTAAAATATTGAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAA
GAAAAAATTATTGAAGGCGTTTGTTCTCAAAAAAATCTTCAATAATTATACACATAAATTAGAAA
GAATTAGTGAAAGCATTTTTTCTAGAATAAACGCATTCACTAAACTCTAAATATTTGAGTTTAAA
ATATTGAAGGCATTTTTCACTGAAAGACGCCTTTAATAATCTTAAAAATTTTAAGAAAAAATTAT
TGAAGGCATTTGTTCTAAAAAAATACCTTCAAAAATTATGCACGTAAATTAGAAGAAATTAGTGA
AGGCATTTTTTCTAGAATAAACACCTTCACTAAGCGTCTTAAAATTTGAGTTGTGAAATATTGAA
GGCATTTTTCACTTGAAGACACATTTAATAATCTCAAAAATATTTTAAAGAAAATTATTGAAGGT
GTTTGTTCTCAAAAAATGCCTTCAATAATTATGAACATAAATTAAAAGGAATAGTGAAAGTATTT
TCTTAGAATAAACGCCTTCACTAACCATTTAAAATTTGAGTTGTGAAATATTGAAGGCATTTTTC
ACTAAAAAACCTTTAATAATCTCAAAAATTTTAAGAAAAAATTATTAAAGGCGTTTGTTCTCAAG
AAACGCCTTCAAAATTATGCACA
Found at i:13243683 original size:39 final size:39
Alignment explanation
Indices: 13243640--13243728 Score: 178
Period size: 39 Copynumber: 2.3 Consensus size: 39
13243630 TTTTTAGTAG
13243640 AAATGCCTTCAATTACCACTCAAGGTGTTTTTCTGGAAT
1 AAATGCCTTCAATTACCACTCAAGGTGTTTTTCTGGAAT
13243679 AAATGCCTTCAATTACCACTCAAGGTGTTTTTCTGGAAT
1 AAATGCCTTCAATTACCACTCAAGGTGTTTTTCTGGAAT
13243718 AAATGCCTTCA
1 AAATGCCTTCA
13243729 TTGATATTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (39 bp):
AAATGCCTTCAATTACCACTCAAGGTGTTTTTCTGGAAT
Found at i:13251416 original size:34 final size:35
Alignment explanation
Indices: 13251364--13251436 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
13251354 TTTTTTTGAT
** *
13251364 AAAAATGCCACTAAATTAGTGGTATTTGTATC-TG
1 AAAAATGCCACTAAATTAGCAGCATTTGTATCTTG
** *
13251398 AAAAATGCTGCTATATTAGCAGCATTTGTATCTTG
1 AAAAATGCCACTAAATTAGCAGCATTTGTATCTTG
13251433 AAAA
1 AAAA
13251437 CACCACTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 26 0.81
35 6 0.19
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (35 bp):
AAAAATGCCACTAAATTAGCAGCATTTGTATCTTG
Found at i:13251994 original size:20 final size:19
Alignment explanation
Indices: 13251969--13252042 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
13251959 GTATAAAAAA
13251969 AATATTATTGTAACATAAAT
1 AATATTATTGTAA-ATAAAT
* *
13251989 AATATTTTTGATAATATAAAAG
1 AATATTATTG-TAA-AT-AAAT
*
13252011 AATTATTATTATAAATAAAT
1 AA-TATTATTGTAAATAAAT
13252031 AATA--ATTGTAAA
1 AATATTATTGTAAA
13252043 CTAGAAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
17 7 0.16
19 2 0.05
20 14 0.32
21 7 0.16
22 8 0.18
23 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (19 bp):
AATATTATTGTAAATAAAT
Found at i:13252297 original size:217 final size:217
Alignment explanation
Indices: 13251838--13252540 Score: 559
Period size: 217 Copynumber: 3.2 Consensus size: 217
13251828 TACAATGTCA
* * * * *
13251838 TAATAT-AAAAGGATAAGAATAGTTGTGAA-ATTAATATCATTTGGCATAAATTGGATTAGAAGT
1 TAATATAAAAAAGATAAGAATAATAGT-AAGATTGATATCATTTGGCATAAAAT-GATTAGAAGT
* * * * **
13251901 ATCATAACACC-TTAACAAAAAGTTATGATAATTAAAAAAGTAATAAAAGTAA-AGACAAGTATA
64 ATCATAACACCTTTAA-AAAAA-TTATGATAATTATAAACGTAATGAGA-TAACA-ACAAGCGT-
* * ** * *
13251964 AAAAAAATATTATTGTAACATAAATAATATTTTTGATAATATAAAAGAATTATTATTATAAATAA
124 AAAAAGATATTATTATAACATAAATAATATAGTTGATAATATAAAAAAATTATCATTATAAATAA
* * *
13252029 ATAATAATTGTAAACTAGAAAATAAGTGT
189 AAAATAATTGTAAACTAAAAAATAAGAGT
* * * *
13252058 TAATATAAAAAAGGTAAGAATAATAGTAATATTGATATCATTTGGGATAAAAT-AGTTAGAAGTG
1 TAATATAAAAAAGATAAGAATAATAGTAAGATTGATATCATTTGGCATAAAATGA-TTAGAAGTA
**
13252122 TCATAACACCTTTAAAAAAATTATGATAATCCTAAACGTAATGAGATAACAACAAGCGTAAAAAG
65 TCATAACACCTTTAAAAAAATTATGATAATTATAAACGTAATGAGATAACAACAAGCGTAAAAAG
* * * *
13252187 ATATTGTTATAATATAAATAAT-TAAGTTGGTAATGTAAAAAAATTATCATTATAAGTATAAAAA
130 ATATTATTATAACATAAATAATAT-AGTTGATAATATAAAAAAATTATCATTATAA--ATAAAAA
*
13252251 ATAATTTTAAAC-AAAAAATAAGAGT
192 ATAATTGTAAACTAAAAAATAAGAGT
* * * * * ** *
13252276 TAACT-T-AAAATGATGAGAATAATTGTAAGATTGGTATTATTTTACCTAAAATGATTAGAAGTA
1 TAA-TATAAAAAAGATAAGAATAATAGTAAGATTGATATCATTTGGCATAAAATGATTAGAAGTA
* * * * * * *
13252339 TCGTTACACCTTTAAAAAAAATTATAATAATTTTAAACATAATGAGAAAAAACAACAAACGTAAA
65 TCATAACACCTTT-AAAAAAATTATGATAATTATAAACGTAATGAG--ATAACAACAAGCGTAAA
* * * *
13252404 AAGATATTATT-GAA-ATGTAATAA-AT--TT-TTAACATAAAAAAATTAGT-ATTATAAAT-AA
127 AAGATATTATTATAACAT-AAATAATATAGTTGATAATATAAAAAAATTA-TCATTATAAATAAA
* *
13252461 AAATAATTCTAAA-TCAAAAAATAAGTGT
190 AAATAATTGTAAACT-AAAAAATAAGAGT
* * * *
13252489 TAA-AGT-AAAAAGATGAA-AATAATTGTAA-ATTTGGTATAATTTGCCATAAAAT
1 TAATA-TAAAAAAGAT-AAGAATAATAGTAAGA-TTGATATCATTTGGCATAAAAT
13252541 ATGTTCAAAG
Statistics
Matches: 397, Mismatches: 64, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
212 15 0.04
213 54 0.14
214 1 0.00
215 21 0.05
216 4 0.01
217 103 0.26
218 55 0.14
219 48 0.12
220 56 0.14
221 40 0.10
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.32
Consensus pattern (217 bp):
TAATATAAAAAAGATAAGAATAATAGTAAGATTGATATCATTTGGCATAAAATGATTAGAAGTAT
CATAACACCTTTAAAAAAATTATGATAATTATAAACGTAATGAGATAACAACAAGCGTAAAAAGA
TATTATTATAACATAAATAATATAGTTGATAATATAAAAAAATTATCATTATAAATAAAAAATAA
TTGTAAACTAAAAAATAAGAGT
Found at i:13252515 original size:213 final size:208
Alignment explanation
Indices: 13252031--13252748 Score: 499
Period size: 213 Copynumber: 3.3 Consensus size: 208
13252021 ATAAATAAAT
* * * * *
13252031 AATAATTGTAAACTAGAAAATAAGTGTTAATATAAAAA-AGGTAAGAATAATAGTAATATTGATA
1 AATAATTCTAAAC-AAAAAATAAGTGTTAA-ATAAAAAGATG-AA-AATAATTGTAA-ATTGGTA
* ** * * *
13252095 TCATTTGGGATAAAATAGTTAGAAGTGTCATAACACCTTTAAAAAAATTATGATAATCCTAAACG
61 TAATTTGACATAAAATAGTTAGAAGTATCATAACACCTTTAAAAAAATTATAATAATCCTAAACA
* * * **
13252160 TAATGAGATAACAACAAGCGTAAAAAGATATTGTTATAATATAAATAATTAAGTTGGTAATGTAA
126 TAATGAGAAAACAACAAACGTAAAAAGATATTATTATAATATAAATAATT-A-TT-GTAACATAA
13252225 AAAAATTATCATTATAAGTATAAAA
188 AAAAATTAT-ATTATAA--AT-AAA
* * * * * *
13252250 AATAATTTTAAACAAAAAATAAGAGTTAACTTAAAATGATGAGAATAATTGTAAGATTGGTATTA
1 AATAATTCTAAACAAAAAATAAGTGTTAA-ATAAAAAGATGAAAATAATTGTAA-ATTGGTATAA
* * * * **
13252315 TTTTACCTAAAAT-GATTAGAAGTATCGTTACACCTTTAAAAAAAATTATAATAATTTTAAACAT
64 TTTGACATAAAATAG-TTAGAAGTATCATAACACCTTT-AAAAAAATTATAATAATCCTAAACAT
*
13252379 AATGAGAAAAAACAACAAACGTAAAAAGATATTATTGA-AATGT-AATAAATT-TT-TAACATAA
127 AATGAG--AAAACAACAAACGTAAAAAGATATTATT-ATAATATAAAT-AATTATTGTAACATAA
13252440 AAAAATTAGTATTATAAATAAA
188 AAAAATTA-TATTATAAATAAA
13252462 AATAATTCTAAATCAAAAAATAAGTGTTAAAGTAAAAAGATGAAAATAATTGTAAATTTGGTATA
1 AATAATTCTAAA-CAAAAAATAAGTGTTAAA-TAAAAAGATGAAAATAATTGTAAA-TTGGTATA
* * ** * * * * *
13252527 ATTTGCCATAAAATATGTTCA-AAGTTTTGTAATA-C-TTAAGAAAAGTTTGTGATAAT-TTCAA
63 ATTTGACATAAAATA-GTT-AGAAGTATCATAACACCTTTAA-AAAA-ATTATAATAATCCT-AA
* * * * * * * * *
13252588 ATATAATAAAGTATAAGAACAAGCATAACAA-ATTTTATTATAACATAAATAATTAAATTGATAA
123 ACATAAT-GAG-AAAACAACAAACGTAAAAAGATATTATTATAATATAAATAATT--ATTG-TAA
*
13252652 CATAAAAAATTATTATTATTATATATAGAA
183 CATAAAAAA--ATTA-TATTATAAATA-AA
* * * * *
13252682 AAT-ATTCTAAACCTAAAAATAAATGTTAACATAAAATG-TGAGAATAATCGTAAAATTGGTATA
1 AATAATTCTAAA-CAAAAAATAAGTGTTAA-ATAAAAAGATGAAAATAATTGT-AAATTGGTATA
13252745 ATTT
63 ATTT
13252749 AACGTGAAAT
Statistics
Matches: 405, Mismatches: 64, Indels: 61
0.76 0.12 0.12
Matches are distributed among these distances:
211 3 0.01
212 37 0.09
213 91 0.22
214 13 0.03
215 25 0.06
216 2 0.00
217 60 0.15
218 71 0.18
219 63 0.16
220 39 0.10
221 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (208 bp):
AATAATTCTAAACAAAAAATAAGTGTTAAATAAAAAGATGAAAATAATTGTAAATTGGTATAATT
TGACATAAAATAGTTAGAAGTATCATAACACCTTTAAAAAAATTATAATAATCCTAAACATAATG
AGAAAACAACAAACGTAAAAAGATATTATTATAATATAAATAATTATTGTAACATAAAAAAATTA
TATTATAAATAAA
Found at i:13253176 original size:21 final size:20
Alignment explanation
Indices: 13253127--13253183 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
13253117 AAAAACATAT
* *
13253127 TATTATAATGTAAATAATTA
1 TATTATAATATAAAAAATTA
*
13253147 AATTGATAATATAAAAAATTA
1 TATT-ATAATATAAAAAATTA
13253168 CTATTATAA-ATAAAAA
1 -TATTATAATATAAAAA
13253184 GTAACTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 10 0.32
21 18 0.58
22 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
TATTATAATATAAAAAATTA
Found at i:13255313 original size:2 final size:2
Alignment explanation
Indices: 13255306--13255333 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13255296 ATGCAATTTG
13255306 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13255334 CATAATGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13255733 original size:72 final size:72
Alignment explanation
Indices: 13255606--13255755 Score: 264
Period size: 72 Copynumber: 2.1 Consensus size: 72
13255596 ATAGATTCTT
* * *
13255606 CTCCTTTGCCCATGGCCTTGCCCTACCTTATCACCTAATCTGATATCTCCGTCCAGATGTTTCAC
1 CTCCATTGCCCATGGCCTTGCCCTACCTTATCACCTAATCTGAAATCTCCATCCAGATGTTTCAC
*
13255671 ATGCATG
66 ACGCATG
13255678 CTCCATTGCCCATGGCCTTGCCCTACCTTATCACCTAATCTGAAATCTCCATCCAGATGTTTCAC
1 CTCCATTGCCCATGGCCTTGCCCTACCTTATCACCTAATCTGAAATCTCCATCCAGATGTTTCAC
13255743 ACGCATG
66 ACGCATG
13255750 CTCCAT
1 CTCCAT
13255756 CTTTTGTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.31
Consensus pattern (72 bp):
CTCCATTGCCCATGGCCTTGCCCTACCTTATCACCTAATCTGAAATCTCCATCCAGATGTTTCAC
ACGCATG
Found at i:13274714 original size:10 final size:10
Alignment explanation
Indices: 13274699--13274723 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13274689 AAAAAAAATC
13274699 AATTTCATTA
1 AATTTCATTA
13274709 AATTTCATTA
1 AATTTCATTA
13274719 AATTT
1 AATTT
13274724 AGGACAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTCATTA
Found at i:13281266 original size:17 final size:17
Alignment explanation
Indices: 13281244--13281277 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13281234 TCCCACCACT
*
13281244 TGTGCCCTGAAATTTAA
1 TGTGCCCTCAAATTTAA
13281261 TGTGCCCTCAAATTTAA
1 TGTGCCCTCAAATTTAA
13281278 GTTACTAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (17 bp):
TGTGCCCTCAAATTTAA
Found at i:13283279 original size:79 final size:75
Alignment explanation
Indices: 13283180--13283408 Score: 324
Period size: 72 Copynumber: 3.0 Consensus size: 75
13283170 ATTAGACAAT
* **
13283180 TATAAAATTTATTTACTTGATTGATATGATTCATTGAAATTATTGTCCTGATGCTATTAAACAGT
1 TATAAAGTTTATTTGTTTGATTG-TATGATTCATTGAAATTATTGTCCTGATGCTATTAAA-A-T
13283245 ACTGTCAAACAGC
63 ACTGTCAAACAGC
13283258 TATAAAGTTTTATTTGTTTGATTGTTATGATTCATTGAAATTATTGTCCTGATGCTATT-AAA-A
1 TATAAAG-TTTATTTGTTTGATTG-TATGATTCATTGAAATTATTGTCCTGATGCTATTAAAATA
13283321 --GTCAAACAGC
64 CTGTCAAACAGC
13283331 TATAAAGTTTATTTGTTTGATTGTCATGATTCATTGAAATTATTGTCCTGATGCTATTAAATAAT
1 TATAAAGTTTATTTGTTTGATTGT-ATGATTCATTGAAATTATTGTCCTGATGCTATT-AA-AAT
13283396 ACTGTC-AACAGC
63 ACTGTCAAACAGC
13283408 T
1 T
13283409 TGTAATATTT
Statistics
Matches: 139, Mismatches: 4, Indels: 17
0.87 0.03 0.11
Matches are distributed among these distances:
71 1 0.01
72 49 0.35
73 17 0.12
74 1 0.01
75 3 0.02
76 1 0.01
77 8 0.06
78 11 0.08
79 48 0.35
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (75 bp):
TATAAAGTTTATTTGTTTGATTGTATGATTCATTGAAATTATTGTCCTGATGCTATTAAAATACT
GTCAAACAGC
Found at i:13283392 original size:22 final size:22
Alignment explanation
Indices: 13283350--13283392 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
13283340 TATTTGTTTG
*
13283350 ATTGTCATGATTCATTGAAATT
1 ATTGTCATGATGCATTGAAATT
*
13283372 ATTGTCCTGATGCTATT-AAAT
1 ATTGTCATGATGC-ATTGAAAT
13283393 AATACTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (22 bp):
ATTGTCATGATGCATTGAAATT
Found at i:13284686 original size:13 final size:13
Alignment explanation
Indices: 13284677--13284868 Score: 52
Period size: 13 Copynumber: 13.2 Consensus size: 13
13284667 CAGATAATTT
13284677 TAAAAAATAATAA
1 TAAAAAATAATAA
13284690 TAAAAAATAAAATAAGA
1 TAAAAAAT--AAT-A-A
13284707 TAAACCCAAATAATAA
1 TAAA---AAATAATAA
13284723 TAATAATAATGATATAA
1 TAA-AA-AAT-A-ATAA
*
13284740 TAATAAATATATAA
1 TAAAAAATA-ATAA
*
13284754 CTATATAAATAA-AA
1 -TA-AAAAATAATAA
13284768 TACAAAAA-AATAAA
1 TA-AAAAATAAT-AA
13284782 TAAATAAATAA-AGA
1 TAAA-AAATAATA-A
* * **
13284796 TATACATATGTTAA
1 TA-AAAAATAATAA
13284810 TACATAATAATAATAA
1 TA-A-AA-AATAATAA
*
13284826 TAAATAATAA-AA
1 TAAAAAATAATAA
13284838 TACATAAAATACA-AA
1 TA-A-AAAATA-ATAA
*
13284853 GAAAAAATAATAA
1 TAAAAAATAATAA
13284866 TAA
1 TAA
13284869 TAATACAGGA
Statistics
Matches: 137, Mismatches: 16, Indels: 52
0.67 0.08 0.25
Matches are distributed among these distances:
12 7 0.05
13 33 0.24
14 33 0.24
15 22 0.16
16 21 0.15
17 14 0.10
18 3 0.02
20 4 0.03
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAAAATAATAA
Found at i:13284723 original size:3 final size:3
Alignment explanation
Indices: 13284715--13284873 Score: 59
Period size: 3 Copynumber: 51.3 Consensus size: 3
13284705 GATAAACCCA
*
13284715 AAT AAT AAT AAT AAT AAT GAT -AT AAT AAT AAAT ATAT AACT ATAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AA-T A-AT -AAT
* * **
13284764 AA- AAT ACAA AAA AAT AAAT AAAT AAAT AA- AGAT -AT ACAT -AT GTT
1 AAT AAT A-AT AAT AAT -AAT -AAT -AAT AAT A-AT AAT A-AT AAT AAT
*
13284808 AAT ACAT AAT AAT AAT AAT AAAT AAT AA- AAT ACAT AA- AAT ACA- AAG
1 AAT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT A-AT AAT
13284854 AA- AA- AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
13284874 CAGGATAAAA
Statistics
Matches: 128, Mismatches: 6, Indels: 44
0.72 0.03 0.25
Matches are distributed among these distances:
2 18 0.14
3 72 0.56
4 36 0.28
5 2 0.02
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:13284751 original size:14 final size:14
Alignment explanation
Indices: 13284718--13284764 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
13284708 AAACCCAAAT
13284718 AATA-ATAATAAT-
1 AATATATAATAATA
13284730 AATGATATAATAATA
1 AAT-ATATAATAATA
13284745 AATATATAACTATATA
1 AATATATAA-TA-ATA
13284761 AATA
1 AATA
13284765 AAATACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 1 0.03
14 14 0.47
15 5 0.17
16 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (14 bp):
AATATATAATAATA
Found at i:13285969 original size:14 final size:14
Alignment explanation
Indices: 13285950--13285980 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13285940 CATACGTCAG
13285950 AATAAATTAATTTC
1 AATAAATTAATTTC
13285964 AATAAATTAATTTC
1 AATAAATTAATTTC
13285978 AAT
1 AAT
13285981 CTATTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
AATAAATTAATTTC
Found at i:13293070 original size:10 final size:10
Alignment explanation
Indices: 13293055--13293079 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13293045 AAAAAAAATC
13293055 AATTTCATTA
1 AATTTCATTA
13293065 AATTTCATTA
1 AATTTCATTA
13293075 AATTT
1 AATTT
13293080 AGGACAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTCATTA
Found at i:13300768 original size:15 final size:15
Alignment explanation
Indices: 13300750--13300799 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
13300740 AAAATTTTTT
13300750 ATAAAAAAATATAAA
1 ATAAAAAAATATAAA
* * *
13300765 ATAAATAGATAAAAA
1 ATAAAAAAATATAAA
13300780 ATAAAAATAA-ATAAA
1 ATAAAAA-AATATAAA
13300795 A-AAAA
1 ATAAAA
13300800 TCTACTGGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 4 0.14
15 23 0.82
16 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (15 bp):
ATAAAAAAATATAAA
Found at i:13300786 original size:21 final size:20
Alignment explanation
Indices: 13300752--13300800 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
13300742 AATTTTTTAT
13300752 AAAAAAATATAAAATAAATA
1 AAAAAAATATAAAATAAATA
13300772 GATAAAAAATA-AAAATAAATA
1 -A-AAAAAATATAAAATAAATA
13300793 AAAAAAAT
1 AAAAAAAT
13300801 CTACTGGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.26
20 1 0.04
21 11 0.41
22 8 0.30
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAAATATAAAATAAATA
Found at i:13300789 original size:13 final size:13
Alignment explanation
Indices: 13300754--13300800 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
13300744 TTTTTTATAA
*
13300754 AAAAATATAAAAT
1 AAAAATAAAAAAT
13300767 AAATAGATAAAAAAT
1 AAA-A-ATAAAAAAT
13300782 AAAAATAAATAAA-
1 AAAAATAAA-AAAT
13300795 AAAAAT
1 AAAAAT
13300801 CTACTGGTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.47
14 5 0.17
15 11 0.37
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:13301683 original size:78 final size:76
Alignment explanation
Indices: 13301554--13301781 Score: 340
Period size: 72 Copynumber: 3.0 Consensus size: 76
13301544 ATTAGACAAT
* ** *
13301554 TATAAAATTTATTTACTTGATTGATATGATTCATTGAAATTATTGTCCTGATGCTATTAAACAGT
1 TATAAAGTTTATTTGTTTGATTGTTATGATTCATTGAAATTATTGTCCTGATGCTATTAAA-A-T
13301619 ACTGTCAAACAGC
64 ACTGTCAAACAGC
13301632 TATAAAGTTTATTTGTTTGATTGTTATGATTCATTGAAATTATTGTCCTGATGCTATT-AAA-A-
1 TATAAAGTTTATTTGTTTGATTGTTATGATTCATTGAAATTATTGTCCTGATGCTATTAAAATAC
13301694 -GTCAAACAGC
66 TGTCAAACAGC
*
13301704 TATAAAGTTTATTTGTTTGATTGTCATGATTCATTGAAATTATTGTCCTGATGCTATTAAATAAT
1 TATAAAGTTTATTTGTTTGATTGTTATGATTCATTGAAATTATTGTCCTGATGCTATT-AA-AAT
13301769 ACTGTC-AACAGC
64 ACTGTCAAACAGC
13301781 T
1 T
13301782 CGTAATATTT
Statistics
Matches: 139, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
72 67 0.48
74 2 0.01
75 2 0.01
76 2 0.01
77 9 0.06
78 57 0.41
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (76 bp):
TATAAAGTTTATTTGTTTGATTGTTATGATTCATTGAAATTATTGTCCTGATGCTATTAAAATAC
TGTCAAACAGC
Found at i:13301765 original size:22 final size:22
Alignment explanation
Indices: 13301723--13301765 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
13301713 TATTTGTTTG
*
13301723 ATTGTCATGATTCATTGAAATT
1 ATTGTCATGATGCATTGAAATT
*
13301745 ATTGTCCTGATGCTATT-AAAT
1 ATTGTCATGATGC-ATTGAAAT
13301766 AATACTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (22 bp):
ATTGTCATGATGCATTGAAATT
Found at i:13303197 original size:16 final size:16
Alignment explanation
Indices: 13303159--13303191 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13303149 ATACATATGT
*
13303159 TAATACATAATAATAA
1 TAATAAATAATAATAA
13303175 TAATAAATAATAA-AA
1 TAATAAATAATAATAA
13303190 TA
1 TA
13303192 CTTAAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATAAATAATAATAA
Found at i:13304322 original size:14 final size:14
Alignment explanation
Indices: 13304303--13304333 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13304293 CATACGTCAG
13304303 AATAAATTAATTTC
1 AATAAATTAATTTC
13304317 AATAAATTAATTTC
1 AATAAATTAATTTC
13304331 AAT
1 AAT
13304334 CTATTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
AATAAATTAATTTC
Found at i:13307603 original size:19 final size:17
Alignment explanation
Indices: 13307560--13307604 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
13307550 ATTTTTTATA
13307560 AAAAAAATAAAATAAAT
1 AAAAAAATAAAATAAAT
13307577 AGATAAAAATAAAAATAAAT
1 A-A-AAAAAT-AAAATAAAT
*
13307597 TAAAAAAT
1 AAAAAAAT
13307605 CTACAGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 7 0.29
20 9 0.38
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAAATAAAATAAAT
Found at i:13307934 original size:19 final size:19
Alignment explanation
Indices: 13307901--13307955 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
13307891 CGAAATAATA
13307901 ATAAGTTTGAA-TTCGATTC
1 ATAA-TTTGAAGTTCGATTC
*
13307920 ATAATTTGGAGTTCGATTC
1 ATAATTTGAAGTTCGATTC
13307939 ATAATTTGAAGTTCGAT
1 ATAATTTGAAGTTCGAT
13307956 ACTCGATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.15
19 28 0.85
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (19 bp):
ATAATTTGAAGTTCGATTC
Found at i:13309197 original size:28 final size:29
Alignment explanation
Indices: 13309135--13309191 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
13309125 TGACGAGATT
*
13309135 TCAAAA-ATTTTGTAAATGATCAATTTTC
1 TCAAAATATTTTGTAAATAATCAATTTTC
*
13309163 TCAAAATATTTTTTAAATAAT-AATTTTC
1 TCAAAATATTTTGTAAATAATCAATTTTC
13309191 T
1 T
13309192 ATAAATTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (29 bp):
TCAAAATATTTTGTAAATAATCAATTTTC
Found at i:13311592 original size:78 final size:77
Alignment explanation
Indices: 13311349--13311995 Score: 454
Period size: 72 Copynumber: 8.6 Consensus size: 77
13311339 TTGGTAATTA
* * * * * *
13311349 TAAAATTTATTTACTTGATTGACATGATTCATTAAAATTATTGGCCTGATGCTATTAAATAGTAC
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGTCCTGA-ACTATTAAATAATAC
13311414 TGTTC-AACAGCTG
65 TG-TCAAACAGCTG
* * * * * * *
13311427 TAAAGTTTATTTGTTTGATTGTTATGATTCATTGAAATTCTTGTCCTG-A-TGTT-AGTAA-A-A
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGTCCTGAACTATTAAATAATACT
** *
13311487 GTCAAACAATTA
66 GTCAAACAGCTG
* * *
13311499 TAAAATTTATTTGTTTGATTGTCATGATTCATTCAAATTGTTGTCCTGAAGCTATTAAATAATAC
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGTCCTGAA-CTATTAAATAATAC
13311564 TGTCAAACAGCTG
65 TGTCAAACAGCTG
* * * * * *
13311577 TAAAATTTATTTGTTTGATTGTGACGATTCATTGAAATTATTATTCTG-AC-A--ATA-AATACT
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGTCCTGAACTATTAAATAATACT
*
13311637 GTCAAACAGTTG
66 GTCAAACAGCTG
* * *
13311649 TAAAATTTATTTTTTTGATTGTCATGATTCATCGAAATTATTGTTCC-GATACTGTTAAACAGTA
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTG-TCCTGA-ACTATT-AA-A-TA
* * *
13311713 CAGTACTATGAAACAACTG
61 -A-TACTGTCAAACAGCTG
* * * * *
13311732 TAAAATTTATTTATTTGATTATCACGATTCATTAAAATTATTATCCCTG-AC-A--ATA-AATAC
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGT-CCTGAACTATTAAATAATAC
* * ** *
13311792 TGTTAAATAATTA
65 TGTCAAACAGCTG
* * *
13311805 TAAAATTTATTTATTTGATTGACTTGATTCATTGAAATTATTGTCCTGATGCTA-T---TAA-A-
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGTCCTGA-ACTATTAAATAATAC
*
13311864 -GTCAAACAGGTG
65 TGTCAAACAGCTG
* * * *
13311876 TAAAATTTATTTATTTGATTGCCATGATT-AGTTGAAATTATTATCCT-TACCA-T--A-AATAC
1 TAAAATTTATTTATTTGATTGTCATGATTCA-TTGAAATTATTGTCCTGAACTATTAAATAATAC
13311935 TGTCAAACAGCTG
65 TGTCAAACAGCTG
* * * * ** *
13311948 TAAATTTTATTTATTTGGTAGACACAATTCATTGAAATTATTATCCTG
1 TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGTCCTG
13311996 GTGCTGTCAA
Statistics
Matches: 452, Mismatches: 84, Indels: 71
0.74 0.14 0.12
Matches are distributed among these distances:
69 5 0.01
70 2 0.00
71 51 0.11
72 160 0.35
73 57 0.13
74 9 0.02
75 9 0.02
76 5 0.01
77 3 0.01
78 93 0.21
79 1 0.00
81 1 0.00
82 4 0.01
83 51 0.11
84 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (77 bp):
TAAAATTTATTTATTTGATTGTCATGATTCATTGAAATTATTGTCCTGAACTATTAAATAATACT
GTCAAACAGCTG
Found at i:13311615 original size:150 final size:149
Alignment explanation
Indices: 13311344--13311995 Score: 612
Period size: 150 Copynumber: 4.4 Consensus size: 149
13311334 ACAGTTTGGT
* * * *
13311344 AATTATAAAATTTATTTACTTGATTGACATGATTCATTAAAATTATTGGCCTGATGCTATTAAAT
1 AATTATAAAATTTATTTATTTGATTGACATGATTCATTCAAATTATTGTCCTGAAGCTATTAAAT
* * * * * *
13311409 AGTACTGTTC-AACAGCTGTAAAGTTTATTTGTTTGATTGTTATGATTCATTGAAATTCTTGTCC
66 AATACTG-TCAAACAGCTGTAAAATTTATTTGTTTGATTGTCACGATTCATTGAAATTATTATCC
* *
13311473 TGATGTTAGTAAA-A-GTCAAAC
130 TGA---CAATAAATACGTCAAAC
* * *
13311494 AATTATAAAATTTATTTGTTTGATTGTCATGATTCATTCAAATTGTTGTCCTGAAGCTATTAAAT
1 AATTATAAAATTTATTTATTTGATTGACATGATTCATTCAAATTATTGTCCTGAAGCTATTAAAT
* *
13311559 AATACTGTCAAACAGCTGTAAAATTTATTTGTTTGATTGTGACGATTCATTGAAATTATTATTCT
66 AATACTGTCAAACAGCTGTAAAATTTATTTGTTTGATTGTCACGATTCATTGAAATTATTATCCT
13311624 GACAATAAATACTGTCAAAC
131 GACAATAAATAC-GTCAAAC
* * * * *
13311644 AGTTGTAAAATTTATTTTTTTGATTGTCATGATTCA-TCGAAATTATTGTTCC-GATA-CTGTTA
1 AATTATAAAATTTATTTATTTGATTGACATGATTCATTC-AAATTATTG-TCCTGA-AGCTATT-
* * * * * *
13311706 AACAGTACAGTACTATGAAACAACTGTAAAATTTATTTATTTGATTATCACGATTCATTAAAATT
62 AA-A-TA-A-TACTGTCAAACAGCTGTAAAATTTATTTGTTTGATTGTCACGATTCATTGAAATT
* *
13311771 ATTATCCCTGACAATAAATACTGTTAAAT
123 ATTAT-CCTGACAATAAATAC-GTCAAAC
* * *
13311800 AATTATAAAATTTATTTATTTGATTGACTTGATTCATTGAAATTATTGTCCTGATGCTA-T---T
1 AATTATAAAATTTATTTATTTGATTGACATGATTCATTCAAATTATTGTCCTGAAGCTATTAAAT
* * * *
13311861 AA-A--GTCAAACAGGTGTAAAATTTATTTATTTGATTGCCATGATT-AGTTGAAATTATTATCC
66 AATACTGTCAAACAGCTGTAAAATTTATTTGTTTGATTGTCACGATTCA-TTGAAATTATTATCC
* *
13311922 TTACCATAAATACTGTCAAAC
130 TGACAATAAATAC-GTCAAAC
** * * * * ** * *
13311943 AGCTGTAAATTTTATTTATTTGGTAGACACAATTCATTGAAATTATTATCCTG
1 AATTATAAAATTTATTTATTTGATTGACATGATTCATTCAAATTATTGTCCTG
13311996 GTGCTGTCAA
Statistics
Matches: 424, Mismatches: 61, Indels: 41
0.81 0.12 0.08
Matches are distributed among these distances:
143 63 0.15
144 46 0.11
146 1 0.00
147 5 0.01
148 2 0.00
149 6 0.01
150 169 0.40
151 6 0.01
152 1 0.00
153 2 0.00
154 1 0.00
155 57 0.13
156 64 0.15
157 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (149 bp):
AATTATAAAATTTATTTATTTGATTGACATGATTCATTCAAATTATTGTCCTGAAGCTATTAAAT
AATACTGTCAAACAGCTGTAAAATTTATTTGTTTGATTGTCACGATTCATTGAAATTATTATCCT
GACAATAAATACGTCAAAC
Found at i:13311989 original size:143 final size:144
Alignment explanation
Indices: 13311730--13312000 Score: 348
Period size: 143 Copynumber: 1.9 Consensus size: 144
13311720 ATGAAACAAC
*
13311730 TGTAAAATTTATTTATTTGATTATCACGATTCATTAAAATTATTATCCCTGACAATAAATACTGT
1 TGTAAAATTTATTTATTTGATTACCACGATTCATTAAAATTATTATCCCTGACAATAAATACTGT
* * * * *** *
13311795 TAAATAATTATAAAATTTATTTATTTGATTGACTTGATTCATTGAAATTATTGTCCTGATGCTAT
66 CAAACAACTATAAAATTTATTTATTTGATAGACACAATTCATTGAAATTATTATCCTGATGCTAT
13311860 TAAAGTCAAACAGG
131 TAAAGTCAAACAGG
* * * * *
13311874 TGTAAAATTTATTTATTTGATTGCCATGATT-AGTTGAAATTATTAT-CCTTACCATAAATACTG
1 TGTAAAATTTATTTATTTGATTACCACGATTCA-TTAAAATTATTATCCCTGACAATAAATACTG
* * * * *
13311937 TCAAACAGCTGTAAATTTTATTTATTTGGTAGACACAATTCATTGAAATTATTATCCTGGTGCT
65 TCAAACAACTATAAAATTTATTTATTTGATAGACACAATTCATTGAAATTATTATCCTGATGCT
13312001 GTCAACAGCT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
143 67 0.63
144 40 0.37
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (144 bp):
TGTAAAATTTATTTATTTGATTACCACGATTCATTAAAATTATTATCCCTGACAATAAATACTGT
CAAACAACTATAAAATTTATTTATTTGATAGACACAATTCATTGAAATTATTATCCTGATGCTAT
TAAAGTCAAACAGG
Found at i:13312056 original size:67 final size:65
Alignment explanation
Indices: 13311934--13312061 Score: 150
Period size: 67 Copynumber: 1.9 Consensus size: 65
13311924 ACCATAAATA
* * *
13311934 CTGTCAAACAGCTGTAAATTTTATTTATTTGGTAGACACAATTCATTGAAATTATTATCCTGGTG
1 CTGTCAAACAGCTGTAAATTTTATATATTTGATAGACACAATTCATTCAAATTATTATCCTGGTG
* * * * *
13311999 CTGTC-AACAGCTTGTAATATTTATATATATTTGATTGATACGATTCATTCAAGTTATTGTCCT
1 CTGTCAAACAGC-TGTAA-ATTT-TATATATTTGATAGACACAATTCATTCAAATTATTATCCT
13312062 TCAAGACAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
64 6 0.12
65 10 0.19
66 4 0.08
67 32 0.62
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (65 bp):
CTGTCAAACAGCTGTAAATTTTATATATTTGATAGACACAATTCATTCAAATTATTATCCTGGTG
Found at i:13313488 original size:17 final size:17
Alignment explanation
Indices: 13313460--13313500 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13313450 GATATAAATA
*
13313460 GGTAACGTAGGTGGTTGT
1 GGTAA-GTAGGTGGATGT
13313478 GGTAAGTAGGTGGATGT
1 GGTAAGTAGGTGGATGT
*
13313495 TGTAAG
1 GGTAAG
13313501 CAAGCACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.22, C:0.02, G:0.44, T:0.32
Consensus pattern (17 bp):
GGTAAGTAGGTGGATGT
Found at i:13319490 original size:2 final size:2
Alignment explanation
Indices: 13319483--13319507 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13319473 TCTGAAATTA
13319483 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
13319508 AAAAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13325442 original size:10 final size:10
Alignment explanation
Indices: 13325427--13325451 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13325417 AAAAAAAATC
13325427 AATTTCATTA
1 AATTTCATTA
13325437 AATTTCATTA
1 AATTTCATTA
13325447 AATTT
1 AATTT
13325452 AGGACAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTCATTA
Found at i:13333355 original size:19 final size:19
Alignment explanation
Indices: 13333333--13333376 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13333323 TAAGTTTGAA
13333333 TTCGATTCATAATTAGAAG
1 TTCGATTCATAATTAGAAG
* *
13333352 TTCGATTCATAATTTGAGG
1 TTCGATTCATAATTAGAAG
13333371 TTCGAT
1 TTCGAT
13333377 ACTCGATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (19 bp):
TTCGATTCATAATTAGAAG
Found at i:13334521 original size:28 final size:28
Alignment explanation
Indices: 13334490--13334546 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
13334480 TATGACGAGA
*
13334490 TTTCAAAA-ATTTTGTAAATGATCAATTT
1 TTTCAAAATATTTTGTAAATAAT-AATTT
*
13334518 TTTCAAAATATTTTTTAAATAATAATTT
1 TTTCAAAATATTTTGTAAATAATAATTT
13334546 T
1 T
13334547 CTATAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (28 bp):
TTTCAAAATATTTTGTAAATAATAATTT
Found at i:13337119 original size:41 final size:41
Alignment explanation
Indices: 13337047--13337342 Score: 434
Period size: 41 Copynumber: 7.1 Consensus size: 41
13337037 ATGATTGTCA
*
13337047 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTC-CAAAGTCGTGGTGCCTCTGTTTAG
* *
13337089 AGGAGCCATTTATTTTCCAAAGTCGCGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
13337130 ATGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
13337171 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
13337213 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
13337254 AGGAGCAATTTATTTT-CAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
13337294 AGGAGTAATTTATGTTTCACAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTAT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
13337337 AGGAGC
1 AGGAGC
13337343 TTTGGTAAAA
Statistics
Matches: 231, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
40 35 0.15
41 116 0.50
42 54 0.23
43 26 0.11
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:13337210 original size:83 final size:82
Alignment explanation
Indices: 13337047--13337342 Score: 443
Period size: 83 Copynumber: 3.6 Consensus size: 82
13337037 ATGATTGTCA
* *
13337047 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCCATTTATTTTCCAAAGT
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
*
13337112 CGCGGTGCCTCTGTTTAG
65 CGTGGTGCCTCTGTTTAG
*
13337130 ATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGT
*
13337195 CGTGGTGCCTTTGTTTAG
65 CGTGGTGCCTCTGTTTAG
* *
13337213 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTC
13337277 GTGGTGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAG
* * *
13337294 AGGAGTAATTTA-TGTTTCACAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACT-TTT--CAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
13337343 TTTGGTAAAA
Statistics
Matches: 196, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
80 1 0.01
81 39 0.20
82 36 0.18
83 120 0.61
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTC
GTGGTGCCTCTGTTTAG
Found at i:13337317 original size:124 final size:124
Alignment explanation
Indices: 13337047--13337342 Score: 461
Period size: 124 Copynumber: 2.4 Consensus size: 124
13337037 ATGATTGTCA
* * *
13337047 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCCATTTATTTTCCAAAGT
1 AGGAGCAATTTATTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
*
13337112 CGCGGTGCCTCTGTTTAGATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
66 CGCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
13337171 AGGAGCAATTTACTTTT-TCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTACTTTCCAAAG
1 AGGAGCAATTTA-TTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG
* *
13337235 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTTGTGGTGCCTCTGTTTAG
65 TCGCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
13337294 AGGAGTAATTTATGTTTCACAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTAT-TTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
13337343 TTTGGTAAAA
Statistics
Matches: 157, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
122 1 0.01
123 41 0.26
124 112 0.71
125 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (124 bp):
AGGAGCAATTTATTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
CGCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:13337602 original size:6 final size:6
Alignment explanation
Indices: 13337593--13337702 Score: 56
Period size: 6 Copynumber: 18.3 Consensus size: 6
13337583 TTTTTTGTTA
*
13337593 ATATTT ATATGT AT-TTT AT-TTAT ATAGTTAT ATATTT AT-TATT ATA-TT
1 ATATTT ATATTT ATATTT ATATT-T ATA-TT-T ATATTT ATAT-TT ATATTT
* *
13337641 ATAATT -TATTT AT-TATT AT-TATT ATTATTTT ATATTT -TATTT ATTTTT
1 ATATTT ATATTT ATAT-TT ATAT-TT A-TA-TTT ATATTT ATATTT ATATTT
*
13337689 ATATTT CTATTT AT
1 ATATTT ATATTT AT
13337703 CTAATTATAT
Statistics
Matches: 85, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
5 22 0.26
6 47 0.55
7 5 0.06
8 10 0.12
9 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:13337636 original size:3 final size:3
Alignment explanation
Indices: 13337628--13337681 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
13337618 AGTTATATAT
*
13337628 TTA TTA TTA -TA TTA TAA TTTA TTTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
13337673 -TA TT- TTA TT
1 TTA TTA TTA TT
13337682 TATTTTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 8 0.18
3 30 0.68
4 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13337650 original size:22 final size:23
Alignment explanation
Indices: 13337625--13337702 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
13337615 TATAGTTATA
13337625 TATTTATTATTA-TATTATAATT
1 TATTTATTATTATTATTATAATT
*
13337647 TATTTATTATTATTATTATTATTT
1 TATTTATTATTATTATTA-TAATT
* *
13337671 TATATT-TTATTTATTTTTATATTT
1 TAT-TTATTA-TTATTATTATAATT
13337695 CTATTTAT
1 -TATTTAT
13337703 CTAATTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
22 12 0.25
23 5 0.10
24 17 0.35
25 14 0.29
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTATTATTATTATTATAATT
Found at i:13337666 original size:31 final size:31
Alignment explanation
Indices: 13337610--13337690 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
13337600 TATGTATTTT
*
13337610 ATTTATATAGTTATATATTTATTATTATATTATA
1 ATTTATTTA-TTAT-TA-TTATTATTATATTATA
*
13337644 ATTTATTTATTATTATTATTATTATTTTATA
1 ATTTATTTATTATTATTATTATTATATTATA
* *
13337675 TTTTATTTATTTTTAT
1 ATTTATTTATTATTAT
13337691 ATTTCTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 29 0.67
32 2 0.05
33 4 0.09
34 8 0.19
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (31 bp):
ATTTATTTATTATTATTATTATTATATTATA
Found at i:13337701 original size:12 final size:12
Alignment explanation
Indices: 13337593--13337702 Score: 56
Period size: 11 Copynumber: 9.2 Consensus size: 12
13337583 TTTTTTGTTA
*
13337593 ATATTTATATGT
1 ATATTTATATTT
13337605 AT-TTTAT-TTAT
1 ATATTTATATT-T
13337616 ATAGTTATATATTT
1 ATA-TT-TATATTT
13337630 AT-TATTATA-TT
1 ATAT-TTATATTT
*
13337641 ATAATT-TATTT
1 ATATTTATATTT
13337652 AT-TATTAT-TATT
1 ATAT-TTATAT-TT
13337664 ATTATTTTATATTT
1 A-TA-TTTATATTT
*
13337678 -TATTTATTTTT
1 ATATTTATATTT
*
13337689 ATATTTCTATTT
1 ATATTTATATTT
13337701 AT
1 AT
13337703 CTAATTATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 32
0.67 0.05 0.28
Matches are distributed among these distances:
10 3 0.04
11 29 0.38
12 24 0.32
13 4 0.05
14 12 0.16
15 4 0.05
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (12 bp):
ATATTTATATTT
Found at i:13337722 original size:53 final size:50
Alignment explanation
Indices: 13337620--13337726 Score: 121
Period size: 49 Copynumber: 2.1 Consensus size: 50
13337610 ATTTATATAG
13337620 TTATATATTTATTATTATATTATAATTTATTTATTATTATTATTATTATT
1 TTATATATTTATTATTATATTATAATTTATTTATTATTATTATTATTATT
* *
13337670 TTATAT-TTTATTTATT-T-TTATATTTCTATTTATCTAATTATATATCTGTTATT
1 TTATATATTTA-TTATTATATTATAATT-TATTTAT-T-ATTAT-TAT-TATTATT
13337723 TTAT
1 TTAT
13337727 TTATCCTATA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
48 7 0.14
49 12 0.24
50 12 0.24
51 5 0.10
52 3 0.06
53 10 0.20
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (50 bp):
TTATATATTTATTATTATATTATAATTTATTTATTATTATTATTATTATT
Found at i:13337731 original size:28 final size:26
Alignment explanation
Indices: 13337690--13337759 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 26
13337680 TTTATTTTTA
*
13337690 TATTTCTATTTATCTAATTATATATCTGT
1 TATTT-TATTTATCT-ATAATATATCT-T
13337719 TATTTTATTTATCCTATAATATATCTT
1 TATTTTATTTAT-CTATAATATATCTT
*
13337746 TTTTTTATTTATCT
1 TATTTTATTTATCT
13337760 GTTCTAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 2 0.05
27 12 0.32
28 17 0.45
29 7 0.18
ACGTcount: A:0.26, C:0.10, G:0.01, T:0.63
Consensus pattern (26 bp):
TATTTTATTTATCTATAATATATCTT
Found at i:13338649 original size:22 final size:22
Alignment explanation
Indices: 13338621--13338662 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13338611 TTTTTTTGAA
13338621 TTTTTTTTAT-TTGTTTATTTG
1 TTTTTTTTATCTTGTTTATTTG
*
13338642 TTTTTTTTATCTTTTTTATTT
1 TTTTTTTTATCTTGTTTATTT
13338663 ATTAGATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.10, C:0.02, G:0.05, T:0.83
Consensus pattern (22 bp):
TTTTTTTTATCTTGTTTATTTG
Found at i:13338743 original size:18 final size:18
Alignment explanation
Indices: 13338722--13338763 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13338712 TTTGTTTTAC
13338722 TTTTCTTTATTTTTCTAT
1 TTTTCTTTATTTTTCTAT
* *
13338740 TTTTATTTATTTTTTTAT
1 TTTTCTTTATTTTTCTAT
*
13338758 TATTCT
1 TTTTCT
13338764 ATTTTCTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTATTTTTCTAT
Found at i:13338761 original size:11 final size:12
Alignment explanation
Indices: 13338621--13338758 Score: 50
Period size: 14 Copynumber: 10.7 Consensus size: 12
13338611 TTTTTTTGAA
13338621 TTTTT-TTTATT
1 TTTTTATTTATT
* *
13338632 TGTTTATTTGTTT
1 TTTTTATTT-ATT
13338645 TTTTTATCTT-TT
1 TTTTTAT-TTATT
*
13338657 TTATTTATTAGATT
1 TT-TTTATT-TATT
**
13338671 AGGTTTATTTAATAT
1 -TTTTTATTT-AT-T
13338686 TCTTTTATCTTAATT
1 T-TTTTAT-TT-ATT
*
13338701 TTATT-TTTATT
1 TTTTTATTTATT
*
13338712 TTTGT-TTTACTT
1 TTTTTATTTA-TT
*
13338724 TTCTTTATTTTTCT
1 TT-TTTATTTAT-T
13338738 ATTTTTATTTATT
1 -TTTTTATTTATT
13338751 TTTTTATT
1 TTTTTATT
13338759 ATTCTATTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 31
0.68 0.11 0.22
Matches are distributed among these distances:
11 14 0.15
12 22 0.23
13 18 0.19
14 27 0.28
15 10 0.10
16 5 0.05
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:13339018 original size:59 final size:59
Alignment explanation
Indices: 13338796--13339014 Score: 311
Period size: 59 Copynumber: 3.7 Consensus size: 59
13338786 AATTTCCAAA
13338796 AAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT-T
1 AAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCT
* * *
13338855 AAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTACAA
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTT-C-T
* *
13338917 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAA-ATAAATTTCT
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA-AAATTTCT
13338976 AAAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
13339015 TCCTGCACAA
Statistics
Matches: 146, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
58 30 0.21
59 63 0.43
60 2 0.01
61 6 0.04
62 45 0.31
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (59 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCT
Found at i:13339018 original size:121 final size:121
Alignment explanation
Indices: 13338778--13339014 Score: 381
Period size: 121 Copynumber: 2.0 Consensus size: 121
13338768 TCTTTAAATA
* *
13338778 AAAATCAAAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 AAAATCAAAATTTACAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
13338843 AATCAAAATTTTAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTG
66 AAT-AAAATTTTAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTG
*
13338900 AAAATCAAAATTTAC-AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTTAA
1 AAAATCAAAATTTACAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-TTAA
* *
13338964 AAAT-AAATTTCTAAAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAATTTT
65 AAATAAAATTT-TAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTT
13339015 TCCTGCACAA
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
120 34 0.31
121 53 0.49
122 21 0.19
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.34
Consensus pattern (121 bp):
AAAATCAAAATTTACAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
AATAAAATTTTAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:13352378 original size:16 final size:17
Alignment explanation
Indices: 13352359--13352398 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
13352349 TTTATTATTG
13352359 TTTTTA-CAAAAAATAT
1 TTTTTATCAAAAAATAT
*
13352375 TTTTTATTAAAAAATAT
1 TTTTTATCAAAAAATAT
13352392 TTTTTAT
1 TTTTTAT
13352399 TATTATTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTATCAAAAAATAT
Found at i:13352386 original size:17 final size:17
Alignment explanation
Indices: 13352366--13352400 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13352356 TTGTTTTTAC
13352366 AAAAAATATTTTTTATT
1 AAAAAATATTTTTTATT
13352383 AAAAAATATTTTTTATT
1 AAAAAATATTTTTTATT
13352400 A
1 A
13352401 TTATTACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAAAATATTTTTTATT
Found at i:13353686 original size:16 final size:15
Alignment explanation
Indices: 13353648--13353689 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
13353638 TCATGTAAAT
13353648 ATTTAAA-ATTTTTA
1 ATTTAAATATTTTTA
**
13353662 AAATAAATATTTTATA
1 ATTTAAATATTTT-TA
13353678 ATTTAAATATTT
1 ATTTAAATATTT
13353690 AATTATGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 5 0.23
15 5 0.23
16 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAAATATTTTTA
Found at i:13360088 original size:2 final size:2
Alignment explanation
Indices: 13360075--13360107 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
13360065 GCAATACTTT
*
13360075 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13360108 TTAATTACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13363479 original size:1 final size:1
Alignment explanation
Indices: 13363473--13363497 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13363463 ATTTATCGTT
13363473 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
13363498 GCCCGATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13368154 original size:28 final size:29
Alignment explanation
Indices: 13368122--13368178 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
13368112 CTTTTGCTGG
*
13368122 AATTTGTGATTATTGTATCACTG-TGGTA
1 AATTTGTGATTATGGTATCACTGATGGTA
13368150 AATTTGTGATTATGGTATCACTGATGGTA
1 AATTTGTGATTATGGTATCACTGATGGTA
13368179 CTGTGGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (29 bp):
AATTTGTGATTATGGTATCACTGATGGTA
Found at i:13381018 original size:3 final size:3
Alignment explanation
Indices: 13381010--13381057 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
13381000 TCTAAACCCT
* * * * *
13381010 CCA CCA CCA CCA CCA CTA CCA CCT CCA TCA GCA CCA CCA CCG CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
13381058 GCCGCACCAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.60, G:0.04, T:0.06
Consensus pattern (3 bp):
CCA
Found at i:13381046 original size:21 final size:21
Alignment explanation
Indices: 13381010--13381069 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
13381000 TCTAAACCCT
* *
13381010 CCACCACCACCACCACTACCA
1 CCACCAGCAGCACCACTACCA
* * * *
13381031 CCTCCATCAGCACCACCACCG
1 CCACCAGCAGCACCACTACCA
*
13381052 CCACCAGCCGCACCACTA
1 CCACCAGCAGCACCACTA
13381070 GTTGACCCTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.58, G:0.07, T:0.07
Consensus pattern (21 bp):
CCACCAGCAGCACCACTACCA
Found at i:13381055 original size:24 final size:24
Alignment explanation
Indices: 13381007--13381056 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
13380997 CCCTCTAAAC
*
13381007 CCTCCACCACCACCACCACTACCA
1 CCTCCACCACCACCACCACCACCA
* * *
13381031 CCTCCATCAGCACCACCACCGCCA
1 CCTCCACCACCACCACCACCACCA
13381055 CC
1 CC
13381057 AGCCGCACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.62, G:0.04, T:0.08
Consensus pattern (24 bp):
CCTCCACCACCACCACCACCACCA
Found at i:13382094 original size:27 final size:27
Alignment explanation
Indices: 13382038--13382098 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
13382028 TAGATAAGAA
* * * *
13382038 ATAATAAATTTATAAATATTTACTTTT
1 ATAATTAATTTATAAAAAGTTACTTAT
13382065 ATAATTAA-TTATAAAAAGTTATCTTAT
1 ATAATTAATTTATAAAAAGTTA-CTTAT
13382092 AT-ATTAA
1 ATAATTAA
13382099 CAATAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
ATAATTAATTTATAAAAAGTTACTTAT
Found at i:13384007 original size:21 final size:20
Alignment explanation
Indices: 13383981--13384026 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13383971 TAATTTTATA
13383981 TTTATATTTAAAAAATAATAT
1 TTTATA-TTAAAAAATAATAT
* **
13384002 TTTATATTCAAATTTAATAT
1 TTTATATTAAAAAATAATAT
13384022 TTTAT
1 TTTAT
13384027 TAATTTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATATTAAAAAATAATAT
Found at i:13394124 original size:3 final size:3
Alignment explanation
Indices: 13394118--13394153 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13394108 CACCTCCTCC
13394118 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
13394154 CCTTTATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:13396634 original size:19 final size:20
Alignment explanation
Indices: 13396612--13396652 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
13396602 TTTTCACCTG
13396612 TTTATTATTAATAAA-ATAA
1 TTTATTATTAATAAATATAA
*
13396631 TTTATTATTATTAAATATAA
1 TTTATTATTAATAAATATAA
13396651 TT
1 TT
13396653 CAAATGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTATTAATAAATATAA
Found at i:13396932 original size:24 final size:25
Alignment explanation
Indices: 13396900--13396954 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
13396890 GTGTTTTAAA
* * *
13396900 AAATAAGATAATTTTTTTAAT-TAC
1 AAATTAGATAATTATTTAAATATAC
*
13396924 AAATTAGATAATTATTTAAATATTC
1 AAATTAGATAATTATTTAAATATAC
13396949 AAATTA
1 AAATTA
13396955 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
AAATTAGATAATTATTTAAATATAC
Done.