Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 37 of 216
Found at i:10508468 original size:14 final size:14
Alignment explanation
Indices: 10508449--10508475 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10508439 CATCATTTGT
10508449 CTATAACCAAAACC
1 CTATAACCAAAACC
10508463 CTATAACCAAAAC
1 CTATAACCAAAAC
10508476 TCATAAACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
CTATAACCAAAACC
Found at i:10527360 original size:6 final size:6
Alignment explanation
Indices: 10527339--10527409 Score: 56
Period size: 6 Copynumber: 11.2 Consensus size: 6
10527329 AAGTCGTGGG
* *
10527339 TTCTTCT TTC-TT TTCTTT TTCTTT TTCTTTCT TTCTGT TTCGTTT TGCTTT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTC-TT-T TTCTTT TTC-TTT TTCTTT
10527390 TGTCTTT CTT-TTT TTCTTT T
1 T-TCTTT -TTCTTT TTCTTT T
10527410 ATTACTATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
5 6 0.11
6 27 0.51
7 15 0.28
8 5 0.09
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:10527367 original size:21 final size:21
Alignment explanation
Indices: 10527342--10527389 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10527332 TCGTGGGTTC
*
10527342 TTCTTTCTTTTCTTTTTC-TTT
1 TTCTTTC-TTTCTGTTTCGTTT
10527363 TTCTTTCTTTCTGTTTCGTTT
1 TTCTTTCTTTCTGTTTCGTTT
*
10527384 TGCTTT
1 TTCTTT
10527390 TGTCTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.75
Consensus pattern (21 bp):
TTCTTTCTTTCTGTTTCGTTT
Found at i:10529432 original size:544 final size:543
Alignment explanation
Indices: 10528272--10531532 Score: 5216
Period size: 544 Copynumber: 6.0 Consensus size: 543
10528262 TAACAATGTC
* * * *
10528272 TTCCGTTTCATGAATTAA-TTAAGCCCGATCATTCTTCTTTCACTAAATTTCATCCAACAAACAA
1 TTCCGTTTCTTGAATTAATTTCAGCCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACAA
** *
10528336 GCGATCGACACTTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
66 GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
* ** * * *
10528401 TTTTTGTATACAAATTCGGCCATCGGTAAGTAACGCTCACAACCTAATTCAAAATCAATAACATA
131 TTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACA
* *
10528466 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTTAGATTGTCCATCAATCTGCTGGTGAA
196 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGAA
* *
10528531 AAGCTGTGCTAAAATTAAGTCGTGTACCAAGAGATTCGTACAACTGTTTCCAAAATCTCGAAGTG
261 AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTCGTGCAACTGTTTCCAAAATCTCGAAGTG
* * * * *
10528596 AACCACGGATCTCGATCTGAAATTATTAACATAGGGAAACCGTGCAATCTTAATATTTCTTAAAT
326 AACCGCGGATCTCAATCAGAAATTATTAACATAGGGACACCGTGCAATCTTACTATTTCTTAAAT
10528661 ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTCG
391 ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTCG
*
10528726 TAAGTCGATCAACAATCACCCATACAGTATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTACA
456 TAAGTCGATCAACAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTACA
10528791 AAATCCATTGTGATACAATCCCA
521 AAATCCATTGTGATACAATCCCA
* * * * *
10528814 TTCCGTTTCTTGAATTAATTTC-GACTCGATCATTCTTCTTTCACTCAATTTCGTCTAGCAAACA
1 TTCCGTTTCTTGAATTAATTTCAG-CCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACA
*
10528878 AGTTATCGACACCTACGACCATATAAGGCTTCATACGAAGCCATTTGAATACTCGATTGAAAACT
65 AGTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACT
* *
10528943 ATTGTTGTATACAAATTCGGCCAAAGGTAAATAACACTCCCAACCTGATTCAAAATCAATAACAC
130 ATTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACAC
*
10529008 AAGTACGAAGCATGTCTTCCAAAATCTGAATAAAATGCTCAGATTGTCCATCAGTCTGCTGGTGA
195 AAGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGA
* *
10529073 AAAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGAGTCGTGCAACTGTTTCTAAAATCTCGAAGT
260 AAAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTCGTGCAACTGTTTCCAAAATCTCGAAGT
* * *
10529138 GAACCGTGAATCTCAATCAGAAATTATTAACATAGGGGACACCGTGAAATCTTACTATTTCTTAA
325 GAACCGCGGATCTCAATCAGAAATTATTAACATA-GGGACACCGTGCAATCTTACTATTTCTTAA
* * * **
10529203 ATATAAACTTCAACAAGCTTTTGAAGTGACCAATTTTTCCTGGCTACAATAAAATGAGATGATTT
389 ATATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTT
* * *
10529268 CGTAAGTCGATCAACAATCACCCATACAGTATTTTTCTTACTTGCCAATAAAGGTAACCCTATTA
454 CGTAAGTCGATCAACAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTA
10529333 CAAAATCCATTGTGATACAATCCCA
519 CAAAATCCATTGTGATACAATCCCA
* * *
10529358 TTCCGTTTCTTGAATTAATTTCGGCCCAATCATTCTTCTTTCACTCAATTTCATCCAACAAACAA
1 TTCCGTTTCTTGAATTAATTTCAGCCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACAA
* * *
10529423 GTTATCGACACCTACGACCATATAAAGCTCCATACGGAGCCATTTGAATACTCGATTGAAAATTA
66 GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
* *
10529488 TTATTGTATACAAATTTGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACA
131 TTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACA
10529553 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGAA
196 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGAA
* *
10529618 AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGAGTCGTGCAACTGTTTCTAAAATCTCGAAGTG
261 AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTCGTGCAACTGTTTCCAAAATCTCGAAGTG
* * *
10529683 AACCGCGAATCTCAATCAGAAATTATTGACATAGGGGACACCGTGTAATCTTACTATTTCTTAAA
326 AACCGCGGATCTCAATCAGAAATTATTAACATA-GGGACACCGTGCAATCTTACTATTTCTTAAA
10529748 TATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTC
390 TATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTC
* * * *
10529813 TTAATTCGATCAACAATCACCCATACAACATTTTTCTTACTTGCCCATAAAGGTAACCCTGTTAC
455 GTAAGTCGATCAACAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTAC
*
10529878 AAAATCCATTGTGATACAATTCCA
520 AAAATCCATTGTGATACAATCCCA
*
10529902 TTCCATTTCTTGAATTAATTTCAGCCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACAA
1 TTCCGTTTCTTGAATTAATTTCAGCCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACAA
* * * *
10529967 CTTATCAACACCTATGACCATATAAGGCTTCATACGGAGCCATTTGGATACTCGATTGAAAACTA
66 GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
* *
10530032 TTGTTGTATACAAATTTGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACATA
131 TTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACA
* * * * *
10530097 AGTACGAAGCATGTCTTCCAAACTCTGAATAACATGCTAAGATTGTCCGTCAATATGCTGGTGAA
196 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGAA
* *
10530162 AAGCTGTGCTAAAATTAAGTCGTGTACCAAGAGATTCGTGCAACTATTTCCAAAATCTCGAAGTG
261 AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTCGTGCAACTGTTTCCAAAATCTCGAAGTG
* * *
10530227 ACCCGCGGATCTCAGTCAAAAATTATTAACATAGGGACACCGTGCAATCTTACTATTTCTTAAAT
326 AACCGCGGATCTCAATCAGAAATTATTAACATAGGGACACCGTGCAATCTTACTATTTCTTAAAT
* *
10530292 ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATAAAATGAGCCGATTTCA
391 ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTCG
* *
10530357 TAAGTCGATCAATAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAATCCTGTTACA
456 TAAGTCGATCAACAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTACA
* *
10530422 AAATCCATTATGATACAATCTCA
521 AAATCCATTGTGATACAATCCCA
* * * *
10530445 TTCCGTTTCTTGAATTAATTTCAGCTCGATCATTCTTCTTTCACTCAATTCCAACTAACAAATAA
1 TTCCGTTTCTTGAATTAATTTCAGCCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACAA
* *
10530510 GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGGATACTCTATTGAAAACTA
66 GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
* * *
10530575 TTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGCTTCGAAATCTATAACACA
131 TTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACA
*
10530640 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCGTCAGTCTGCTGGTGAA
196 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGAA
* * *
10530705 AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTTGTGTAACAGTTTCCAAAATCTCGAAGTG
261 AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTCGTGCAACTGTTTCCAAAATCTCGAAGTG
* * * * *
10530770 AACCACGGATCTCGATCAGAAATTATTAACATAGGAACACCATACAATCTTACTATTTCTTAAAT
326 AACCGCGGATCTCAATCAGAAATTATTAACATAGGGACACCGTGCAATCTTACTATTTCTTAAAT
* * * *
10530835 ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCCGGCTACAATGAAGT-AGCTGATTTCA
391 ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTCG
*
10530899 TAAGTCGATCAACAATCACCTATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTACA
456 TAAGTCGATCAACAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTACA
10530964 AAATCCATTGTGATACAATCCCA
521 AAATCCATTGTGATACAATCCCA
* * * * *
10530987 TTCCCTTTCTTGAATTAA-TTCGGCTCGGTCATTCTTATTTCACTCAATTCCATCCAACAAACAA
1 TTCCGTTTCTTGAATTAATTTCAGCCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACAA
10531051 GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
66 GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
* * *
10531116 TTGTTGTAAACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGACTCAAAATCAATAACATA
131 TTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACA
* * * * ** * *
10531181 AGTACGAAGCATGTCTTTCAAAATCTAAATAACATACTTAGATTACCCGTTAGTCTGCTGGTGAA
196 AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGAA
* ** *
10531246 AAGTTGTGCTAAAATTAAGTCGTATACCAAGAGATTCGTGCAATTGTTTCCAAAATCTCGAAGTG
261 AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTCGTGCAACTGTTTCCAAAATCTCGAAGTG
* * * *
10531311 AACCGCGGATCTCGATCAGATATTATTGACATAGGGACACCGTGCAATCTTACTATTTCTTAAAA
326 AACCGCGGATCTCAATCAGAAATTATTAACATAGGGACACCGTGCAATCTTACTATTTCTTAAAT
* *
10531376 ATAAACTTCAGCAAGCTTTTGAAGTGAACAATTTGTCCTAGCTACAATGAAATGAGCCGATTTCG
391 ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTCG
* * *
10531441 TAAGTCGATCAACAATCACTCATACAACATTTTTCTTACTTACCGATAAAGGTAACCCTGTTACA
456 TAAGTCGATCAACAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTACA
*
10531506 AAATCCATTGTGATACAATCTCA
521 AAATCCATTGTGATACAATCCCA
10531529 TTCC
1 TTCC
10531533 CATTCAGAAA
Statistics
Matches: 2519, Mismatches: 195, Indels: 10
0.92 0.07 0.00
Matches are distributed among these distances:
541 385 0.15
542 224 0.09
543 890 0.35
544 1019 0.40
545 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (543 bp):
TTCCGTTTCTTGAATTAATTTCAGCCCGATCATTCTTCTTTCACTCAATTCCATCCAACAAACAA
GTTATCGACACCTACGACCATATAAGGCTTCATACGGAGCCATTTGAATACTCGATTGAAAACTA
TTGTTGTATACAAATTCGGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACA
AGTACGAAGCATGTCTTCCAAAATCTGAATAACATGCTCAGATTGTCCATCAGTCTGCTGGTGAA
AAGCTGTGCTAAAATTAAGTCGCGTACCAAGAGATTCGTGCAACTGTTTCCAAAATCTCGAAGTG
AACCGCGGATCTCAATCAGAAATTATTAACATAGGGACACCGTGCAATCTTACTATTTCTTAAAT
ATAAACTTCAGCAAGCTTTTGAAGTGACCAATTTGTCCTGGCTACAATGAAATGAGCCGATTTCG
TAAGTCGATCAACAATCACCCATACAGCATTTTTCTTACTTGCCGATAAAGGTAACCCTGTTACA
AAATCCATTGTGATACAATCCCA
Found at i:10536653 original size:19 final size:20
Alignment explanation
Indices: 10536616--10536656 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10536606 TACAACACGA
*
10536616 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
10536636 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
10536655 TT
1 TT
10536657 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:10537655 original size:11 final size:11
Alignment explanation
Indices: 10537641--10537768 Score: 82
Period size: 11 Copynumber: 12.4 Consensus size: 11
10537631 TAAATATCAA
10537641 AAAAATATTTT
1 AAAAATATTTT
**
10537652 -AAAA-ATTAA
1 AAAAATATTTT
10537661 AAAAAGTATTTT
1 AAAAA-TATTTT
10537673 AAAAATATTTT
1 AAAAATATTTT
10537684 AAAAATA----
1 AAAAATATTTT
10537691 AAAAA-ATTTT
1 AAAAATATTTT
10537701 AAAAAGTATTTT
1 AAAAA-TATTTT
*
10537713 CAAAATATTTT
1 AAAAATATTTT
10537724 --AAA-A--TT
1 AAAAATATTTT
* **
10537730 AACAAATAATAA
1 AA-AAATATTTT
10537742 AAAAAGTATTTT
1 AAAAA-TATTTT
10537754 AAAAATATTTT
1 AAAAATATTTT
10537765 AAAA
1 AAAA
10537769 TTAAAAAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
6 3 0.03
7 5 0.05
8 1 0.01
9 9 0.10
10 14 0.15
11 32 0.35
12 27 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:10537662 original size:20 final size:23
Alignment explanation
Indices: 10537625--10537680 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 23
10537615 CGGCCCATTT
10537625 TTTTAATAAATATCAAAAAAA-TA
1 TTTTAA-AAATATCAAAAAAAGTA
10537648 TTTTAAAAAT-T-AAAAAAAGTA
1 TTTTAAAAATATCAAAAAAAGTA
10537669 TTTTAAAAATAT
1 TTTTAAAAATAT
10537681 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.23
21 13 0.42
22 5 0.16
23 6 0.19
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
TTTTAAAAATATCAAAAAAAGTA
Found at i:10537694 original size:17 final size:17
Alignment explanation
Indices: 10537672--10537705 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10537662 AAAAGTATTT
*
10537672 TAAAAATATTTTAAAAA
1 TAAAAAAATTTTAAAAA
10537689 TAAAAAAATTTTAAAAA
1 TAAAAAAATTTTAAAAA
10537706 GTATTTTCAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAAAATTTTAAAAA
Found at i:10537706 original size:40 final size:40
Alignment explanation
Indices: 10537652--10537785 Score: 189
Period size: 40 Copynumber: 3.3 Consensus size: 40
10537642 AAAATATTTT
10537652 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
** * *
10537692 AAAAATTTTAAAAAGTATTTTCAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
*
10537732 CAAATAA-TAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 -AAA-AATTAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
*
10537773 AAAATTTAAAAAA
1 AAAAATTAAAAAA
10537786 TAAATATATT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 46 0.55
41 34 0.41
42 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
Found at i:10537759 original size:41 final size:40
Alignment explanation
Indices: 10537650--10537775 Score: 177
Period size: 41 Copynumber: 3.2 Consensus size: 40
10537640 AAAAAATATT
10537650 TTAAAAAT--TAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAA
* ** *
10537688 ATAAAAA-AATTTTAAAAAGTATTTTCAAAATATTTTAAAA
1 TTAAAAATAA-TAAAAAAAGTATTTTAAAAATATTTTAAAA
10537728 TTAACAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAA-AAATAATAAAAAAAGTATTTTAAAAATATTTTAAAA
10537769 TTAAAAA
1 TTAAAAA
10537776 ATTTAAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
38 6 0.08
40 33 0.44
41 34 0.45
42 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (40 bp):
TTAAAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:10537779 original size:16 final size:17
Alignment explanation
Indices: 10537752--10537797 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
10537742 AAAAAGTATT
*
10537752 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
10537769 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
10537785 ATAAATATATTTA
1 TTAAAAATATTTA
10537798 TTATATCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:10546209 original size:24 final size:24
Alignment explanation
Indices: 10546182--10546227 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10546172 TTATTCATTT
*
10546182 TATTTATGCCTTC-ATTATTATTGG
1 TATTT-TGCCATCTATTATTATTGG
*
10546206 TATTTTGTCATCTATTATTATT
1 TATTTTGCCATCTATTATTATT
10546228 TCATTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.59
Consensus pattern (24 bp):
TATTTTGCCATCTATTATTATTGG
Found at i:10547980 original size:18 final size:17
Alignment explanation
Indices: 10547959--10547993 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10547949 TTATTATTAA
*
10547959 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10547977 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10547994 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10548047 original size:157 final size:157
Alignment explanation
Indices: 10547846--10548162 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
10547836 TAGAATACTC
*
10547846 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
10547911 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
10547976 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
10548003 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
10548068 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
10548133 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
10548160 TTA
1 TTA
10548163 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:10548133 original size:16 final size:16
Alignment explanation
Indices: 10548096--10548137 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10548086 TTAATCATAT
*
10548096 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10548112 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10548127 TTAAAATATAT
1 TTAAAATATAT
10548138 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10548144 original size:14 final size:15
Alignment explanation
Indices: 10548105--10548146 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10548095 TTTAAACATA
*
10548105 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10548120 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10548134 A-TATAATTTAATA
1 ATTATAATTAAATA
10548147 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10548234 original size:120 final size:121
Alignment explanation
Indices: 10548094--10548391 Score: 512
Period size: 120 Copynumber: 2.5 Consensus size: 121
10548084 ATTTAATCAT
*
10548094 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
10548159 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
10548216 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
10548279 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
10548335 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
10548392 TAAAATAATT
Statistics
Matches: 169, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 3 0.02
120 161 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:10548264 original size:14 final size:15
Alignment explanation
Indices: 10548215--10548266 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10548205 GTAAAATATA
10548215 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
10548230 TATTAAATATATTAT
1 AATTAAATATATTAT
10548245 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
10548258 AATTTAATA
1 AATTAAATA
10548267 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:10548502 original size:91 final size:91
Alignment explanation
Indices: 10548407--10548614 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 91
10548397 TAATTATAAC
* * * * *
10548407 TAATAAATTATATTTTATGAATTTGTATAATTTAAAAT-AGTAATTATTACATATAATTTAATAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAAGTAA-TATTAAATATAATTTAATAG
* *
10548471 TAATAAATAGTTTCATAAAATTCTTCA
65 TAATAAATAATTTCATAAAATTCTTAA
* * *
10548498 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAAGTAATATTAAATATAATTTAATAGT
* *
10548563 GATATATAATTTCATAAAATTCTTAA
66 AATAAATAATTTCATAAAATTCTTAA
*
10548589 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
10548615 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 78 0.76
92 23 0.23
93 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAAGTAATATTAAATATAATTTAATAGT
AATAAATAATTTCATAAAATTCTTAA
Found at i:10550034 original size:11 final size:11
Alignment explanation
Indices: 10550020--10550046 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10550010 AAAAATCAAT
10550020 ACAAAAGTTTC
1 ACAAAAGTTTC
10550031 ACAAAAGTTTC
1 ACAAAAGTTTC
10550042 ACAAA
1 ACAAA
10550047 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:10551493 original size:15 final size:15
Alignment explanation
Indices: 10551448--10551493 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
10551438 TTACTGCAAC
10551448 ATTTAGAACACAC-A
1 ATTTAGAACACACGA
*
10551462 TAGTTTA-AACTCACGA
1 -A-TTTAGAACACACGA
10551478 ATTTAGAACACACGA
1 ATTTAGAACACACGA
10551493 A
1 A
10551494 GCAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 5 0.19
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.24
Consensus pattern (15 bp):
ATTTAGAACACACGA
Found at i:10552291 original size:13 final size:13
Alignment explanation
Indices: 10552273--10552297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10552263 AACTAATTTG
10552273 TATGTACTCTTTA
1 TATGTACTCTTTA
10552286 TATGTACTCTTT
1 TATGTACTCTTT
10552298 CACTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:10567203 original size:29 final size:30
Alignment explanation
Indices: 10567151--10567220 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
10567141 AAAATGTACT
* * * *
10567151 AACTTTTAAAGGGCC-TAAGTTTTTTTTTT
1 AACTTTTAAAGGGCCAAAAATTTTTTTATC
* *
10567180 AGCTTTTAAAGGTCCAAAAATTTTTTTATC
1 AACTTTTAAAGGGCCAAAAATTTTTTTATC
10567210 AACTTTTAAAG
1 AACTTTTAAAG
10567221 AATTTAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (30 bp):
AACTTTTAAAGGGCCAAAAATTTTTTTATC
Found at i:10583468 original size:85 final size:85
Alignment explanation
Indices: 10583289--10583639 Score: 354
Period size: 85 Copynumber: 4.0 Consensus size: 85
10583279 AAACAGGCTA
* * *
10583289 TTAGCGGCGCT-TTTTCACATAAACGTCGCTAAAGAGCATGACCTCTTTAGCGGCGCTTATATCA
1 TTAGCGGCGCTATTTT-AC--AAACGCCGCTAAAGAACATGA-C-CTTTAGCGGCGCTTTTATCA
*
10583353 CAAACACCGCTAAAGATCATGTTCT
61 CAAACGCCGCTAAAGATCATGTTCT
* * *
10583378 TTAGCGGCGCTAATTTTTCAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTT-TCATACA
1 TTAGCGGCGCT-ATTTTACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAA
* * *
10583442 TGCCGCTAAAGGTGATGTTCT
65 CGCCGCTAAAGATCATGTTCT
* *** * *
10583463 TTAGCGGCGCTATTGTTACAAACGCCGCTAAATG-TCATGTTTTTTAGCGGCGCTTTTCACCATA
1 TTAGCGGCGCTATT-TTACAAACGCCGCTAAA-GAACATGACCTTTAGCGGCGCTTTT-ATCACA
* *
10583527 AACGCCGCTAAAGACCATG-ACAT
63 AACGCCGCTAAAGATCATGTTC-T
* *
10583550 TTAGCGGCGCT-TTTTACCACAATCACCGCTAAAGAACATCACCTTTAGCGGCGCTTTTATCACA
1 TTAGCGGCGCTATTTTA-CA-AA-CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACA
*
10583614 AACGCCGCTAAAGGT-ATGTTCT
63 AACGCCGCTAAAGATCATGTTCT
10583636 TTAG
1 TTAG
10583640 TGGTGCTTTA
Statistics
Matches: 217, Mismatches: 33, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
84 3 0.01
85 71 0.33
86 29 0.13
87 52 0.24
88 46 0.21
89 11 0.05
90 1 0.00
91 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (85 bp):
TTAGCGGCGCTATTTTACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
GCCGCTAAAGATCATGTTCT
Found at i:10583484 original size:128 final size:128
Alignment explanation
Indices: 10583332--10583648 Score: 331
Period size: 128 Copynumber: 2.5 Consensus size: 128
10583322 GAGCATGACC
*
10583332 TCTTTAGCGGCGCTTATATCACAAACACCGCTAAA-GATCATGTTCTTTAGCGGCGCTAATTT-T
1 TCTTTAGCGGCGCTTATATCACAAACACCGCTAAATG-TCATGTTCTTTAGCGGCGCT--TTTCA
* *
10583395 TC-AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCATACATGCCGCTAAAGGTGATG
63 CCAAAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTTCATACATGCCGCTAAAGGTGATG
10583459 T
128 T
* * * *
10583460 TCTTTAGCGGCGC-TATTGTTACAAACGCCGCTAAATGTCATGTTTTTTAGCGGCGCTTTTCACC
1 TCTTTAGCGGCGCTTA-TATCACAAACACCGCTAAATGTCATGTTCTTTAGCGGCGCTTTTCACC
* * * ***
10583524 ATAAACGCCGCTAAAGACCATGACATTTAGCGGCGCTTTTT-ACCACAATCACCGCTAAAGAACA
65 A-AAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTTCA-TAC-AT-GCCGCTAAAGGTGA
**
10583588 TCA
126 TGT
* * * * * *
10583591 CCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGGT-ATGTTCTTTAGTGGTGCTTT
1 TCTTTAGCGGCGCTTATATCACAAACACCGCTAAATGTCATGTTCTTTAGCGGCGCTTT
10583649 ACGGTAAATG
Statistics
Matches: 157, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
126 3 0.02
127 3 0.02
128 49 0.31
129 40 0.25
130 19 0.12
131 42 0.27
132 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (128 bp):
TCTTTAGCGGCGCTTATATCACAAACACCGCTAAATGTCATGTTCTTTAGCGGCGCTTTTCACCA
AAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTTCATACATGCCGCTAAAGGTGATGT
Found at i:10583553 original size:44 final size:43
Alignment explanation
Indices: 10583289--10583626 Score: 290
Period size: 43 Copynumber: 7.8 Consensus size: 43
10583279 AAACAGGCTA
* *
10583289 TTAGCGGCGCTTTT-TCACATAAACGTCGCTAAAGAGCATGACCTCT
1 TTAGCGGCGCTTTTATCAC--AAACGCCGCTAAAGATCATGA-C-CT
* * **
10583335 TTAGCGGCGCTTATATCACAAACACCGCTAAAGATCATGTTCT
1 TTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCATGACCT
* *
10583378 TTAGCGGCGCTAATTT-T-TCAAACGCCGCTAAAGAACATGACCT
1 TTAGCGGCGCT--TTTATCACAAACGCCGCTAAAGATCATGACCT
* * * * * **
10583421 TTAGCGGCGCTTTT-TCATACATGCCGCTAAAGGTGATGTTCT
1 TTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCATGACCT
* * * ***
10583463 TTAGCGGCGCTATTGTTACAAACGCCGCTAAATG-TCATGTTTT
1 TTAGCGGCGCTTTTATCACAAACGCCGCTAAA-GATCATGACCT
* * * *
10583506 TTAGCGGCGCTTTTCACCATAAACGCCGCTAAAGACCATGACAT
1 TTAGCGGCGCTTTT-ATCACAAACGCCGCTAAAGATCATGACCT
* * * * *
10583550 TTAGCGGCGCTTTTTACCACAATCACCGCTAAAGAACATCACCT
1 TTAGCGGCGC-TTTTATCACAAACGCCGCTAAAGATCATGACCT
10583594 TTAGCGGCGCTTTTATCACAAACGCCGCTAAAG
1 TTAGCGGCGCTTTTATCACAAACGCCGCTAAAG
10583627 GTATGTTCTT
Statistics
Matches: 237, Mismatches: 46, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.02
42 30 0.13
43 99 0.42
44 64 0.27
45 23 0.10
46 13 0.05
47 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCATGACCT
Found at i:10583971 original size:21 final size:21
Alignment explanation
Indices: 10583946--10584016 Score: 133
Period size: 21 Copynumber: 3.4 Consensus size: 21
10583936 TTCTGCTCTG
10583946 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
10583967 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
*
10583988 CTCTACTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
10584009 CTCTGCTT
1 CTCTGCTT
10584017 TAAGTTGTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.01, C:0.46, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTGC
Found at i:10584088 original size:66 final size:66
Alignment explanation
Indices: 10583993--10584143 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
10583983 GCTGCCTCTA
* * *
10583993 CTTCCCTCGCTGCTGCCTCTGCTTTAAGTTGTAGCTGGAGTGCTTCATATTTTCTTTGAACCTCA
1 CTTCTCTCGATGCTGCCTCTACTTTAAGTTGTAGCTGGAGTGCTTCATATTTTCTTTGAACCTCA
10584058 G
66 G
*
10584059 CTTCTCTCGATGTTGCCTCTACTTTAAGTTGTAGCTGGAGTGCTTCATATTTTCTTTGAACCTCA
1 CTTCTCTCGATGCTGCCTCTACTTTAAGTTGTAGCTGGAGTGCTTCATATTTTCTTTGAACCTCA
10584124 G
66 G
*
10584125 CTTCTCTTGATGCTGCCTC
1 CTTCTCTCGATGCTGCCTC
10584144 CTTTTTTGAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.41
Consensus pattern (66 bp):
CTTCTCTCGATGCTGCCTCTACTTTAAGTTGTAGCTGGAGTGCTTCATATTTTCTTTGAACCTCA
G
Found at i:10587345 original size:7 final size:7
Alignment explanation
Indices: 10587335--10587413 Score: 50
Period size: 7 Copynumber: 11.3 Consensus size: 7
10587325 ATAAATTATA
10587335 AACCCCT
1 AACCCCT
*
10587342 AACCCTT
1 AACCCCT
10587349 AACCCCT
1 AACCCCT
* *
10587356 AACTCTT
1 AACCCCT
10587363 AACCCCT
1 AACCCCT
* *
10587370 AACACTT
1 AACCCCT
*
10587377 AAACCCT
1 AACCCCT
***
10587384 AAGTACT
1 AACCCCT
*
10587391 AACCCTT
1 AACCCCT
*
10587398 AAACCCT
1 AACCCCT
*
10587405 AAACCCT
1 AACCCCT
10587412 AA
1 AA
10587414 ACTATATTTC
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.37, C:0.41, G:0.01, T:0.22
Consensus pattern (7 bp):
AACCCCT
Found at i:10587354 original size:14 final size:14
Alignment explanation
Indices: 10587335--10587385 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
10587325 ATAAATTATA
*
10587335 AACCCCTAACCCTT
1 AACCCCTAACACTT
*
10587349 AACCCCTAACTCTT
1 AACCCCTAACACTT
10587363 AACCCCTAACACTT
1 AACCCCTAACACTT
*
10587377 AAACCCTAA
1 AACCCCTAA
10587386 GTACTAACCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:10587413 original size:21 final size:21
Alignment explanation
Indices: 10587366--10587413 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10587356 AACTCTTAAC
*
10587366 CCCTAACACTTAAACCCTAAG
1 CCCTAACACTTAAACCCTAAA
** *
10587387 TACTAACCCTTAAACCCTAAA
1 CCCTAACACTTAAACCCTAAA
10587408 CCCTAA
1 CCCTAA
10587414 ACTATATTTC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.21
Consensus pattern (21 bp):
CCCTAACACTTAAACCCTAAA
Found at i:10587487 original size:7 final size:7
Alignment explanation
Indices: 10587475--10587552 Score: 63
Period size: 7 Copynumber: 11.0 Consensus size: 7
10587465 ACATTAACTA
10587475 TAAACCC
1 TAAACCC
10587482 TAAACCCC
1 TAAA-CCC
10587490 T-AACCC
1 TAAACCC
*
10587496 TTAACCTC
1 TAAACC-C
10587504 T-AACACC
1 TAAAC-CC
*
10587511 TAAAACC
1 TAAACCC
10587518 TAAACCC
1 TAAACCC
10587525 T-AACCC
1 TAAACCC
*
10587531 TTAAACCA
1 -TAAACCC
*
10587539 TAATCCC
1 TAAACCC
10587546 TAAACCC
1 TAAACCC
10587553 CTAACCCATA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
6 9 0.16
7 36 0.62
8 13 0.22
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:10587501 original size:21 final size:20
Alignment explanation
Indices: 10587477--10587556 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
10587467 ATTAACTATA
*
10587477 AACCCTAAACCCCTAACCCTT
1 AACCCT-AACCCCTAAACCTT
* *
10587498 AACCTCTAACACCTAAAACCTA
1 AACC-CTAACCCCT-AAACCTT
* *
10587520 AACCCTAACCCTTAAACCAT
1 AACCCTAACCCCTAAACCTT
10587540 AATCCCTAAACCCCTAA
1 AA-CCCT-AACCCCTAA
10587557 CCCATATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 7 0.15
21 21 0.45
22 19 0.40
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCCTAACCCCTAAACCTT
Found at i:10587558 original size:21 final size:20
Alignment explanation
Indices: 10587469--10587558 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 20
10587459 CATAAAACAT
*
10587469 TAACTATAAACCCTAAACCCC
1 TAACCATAAACCCT-AACCCC
* * *
10587490 TAACCCTTAACCTCTAACACC
1 TAACCATAAACC-CTAACCCC
*
10587511 TAAAACC-TAAACCCTAACCCT
1 T--AACCATAAACCCTAACCCC
*
10587532 TAAACCATAATCCCTAAACCCC
1 T-AACCATAAACCCT-AACCCC
10587554 TAACC
1 TAACC
10587559 CATATCACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.09
21 33 0.60
22 13 0.24
23 4 0.07
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (20 bp):
TAACCATAAACCCTAACCCC
Found at i:10587620 original size:39 final size:38
Alignment explanation
Indices: 10587565--10587651 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 38
10587555 AACCCATATC
** *
10587565 ACTTAAACCCTGAATCATAGAACATATATAAACTATAA
1 ACTTAAACCCAAAATCATAAAACATATATAAACTATAA
*
10587603 ACCTTAAACCCAAAATCATAAAACATATATAAACTCTAA
1 A-CTTAAACCCAAAATCATAAAACATATATAAACTATAA
10587642 ACTCTAAACC
1 ACT-TAAACC
10587652 TTAACCCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.24
Consensus pattern (38 bp):
ACTTAAACCCAAAATCATAAAACATATATAAACTATAA
Found at i:10588024 original size:114 final size:112
Alignment explanation
Indices: 10587775--10588386 Score: 463
Period size: 114 Copynumber: 5.5 Consensus size: 112
10587765 CGTTTTCAAA
* * * * *
10587775 AAAGCACCGCTAATGCTTGACTTCTACGGCGTTTTTCTA-AAAGCGCCATTAATGTGTCTAAAG-
1 AAAGCGCCGCTAATGCTTGACTTTTGCGGCG-TTTTCTAGAAAGCGCCACTAATGTCTCTAAAGC
* * * * *
10587838 TTAAAAAAAAATG-TCGTCGTTCGCTTAAAAACTTCTGCGGCGC-TACCCA-
65 TAAAAAAAAAACGAT-GTCGTTTGCTT-AAAACTTTTGCGGCGCTTA--GAG
* *
10587887 AAAGGCGCCGCTAGTGCTTGACTTTTGCGGCATTTTCTAGAAAGCGCCACTAATGTCTCTAAAGC
1 AAA-GCGCCGCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGCCACTAATGTCTCTAAAGC
* *
10587952 TAAAAAATAAAACGATGTCGTTTGCTTAACACTTTTGCGGCGCGTTAGGG
65 TAAAAAA-AAAACGATGTCGTTTGCTTAAAACTTTTGCGGCGC-TTAGAG
* * *
10588002 AAAGCACCGCTACTGCTTGACTTTTGCGGCGTTTT-TTGAAAAG-GCCACTAATGTCTCTAAAGC
1 AAAGCGCCGCTAATGCTTGACTTTTGCGGCGTTTTCTAG-AAAGCGCCACTAATGTCTCTAAAGC
* ** *
10588065 TTAACAAAAAAACGACATCGCTTGCTTAAAACTTTTGCGGCGCTT----
65 -TAAAAAAAAAACGATGTCGTTTGCTTAAAACTTTTGCGGCGCTTAGAG
*** * * * *
10588110 -----TTTGCTAATACTTGACTTTTTGCGACGTTTTCTAAAAAGTGCCACTAATGTCTCTAAAGC
1 AAAGCGCCGCTAATGCTTGAC-TTTTGCGGCGTTTTCTAGAAAGCGCCACTAATGTCTCTAAAGC
* * *
10588170 T--AAAAAAAACGATGTCGTTTGCTTAGAACTTTTGCAGCGCTTTTGAG
65 TAAAAAAAAAACGATGTCGTTTGCTTAAAACTTTTGCGGCGC-TTAGAG
* * * * * * *
10588217 AAAGTGCCGCTAATACTTGACTTTTGCGGCG-TTTCTTGAAAGCACCACTAACGTCTTTGAAGCT
1 AAAGCGCCGCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGCCACTAATGTCTCTAAAGCT
* ** * ** ** * *
10588281 CAACAAGTAAACAACATCGTTTGGCTTAACTCTTTTGCGACGCTTTTGAG
66 -AAAAAAAAAACGATGTCGTTT-GCTTAAAACTTTTGCGGCGC-TTAGAG
** * * * *
10588331 AAAGCGCCGCTAATGCTTGACTTTTATGGCTTTTTTTA-AAGGCACCACTAATGTCT
1 AAAGCGCCGCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGCCACTAATGTCT
10588387 TTGAAGCGCA
Statistics
Matches: 404, Mismatches: 68, Indels: 54
0.77 0.13 0.10
Matches are distributed among these distances:
102 33 0.08
103 13 0.03
104 18 0.04
105 21 0.05
110 26 0.06
111 9 0.02
112 25 0.06
113 111 0.27
114 123 0.30
115 22 0.05
116 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (112 bp):
AAAGCGCCGCTAATGCTTGACTTTTGCGGCGTTTTCTAGAAAGCGCCACTAATGTCTCTAAAGCT
AAAAAAAAAACGATGTCGTTTGCTTAAAACTTTTGCGGCGCTTAGAG
Found at i:10588201 original size:102 final size:103
Alignment explanation
Indices: 10588017--10588213 Score: 283
Period size: 102 Copynumber: 1.9 Consensus size: 103
10588007 ACCGCTACTG
* * *
10588017 CTTGACTTTTGCGGCGTTTTTTGAAAAGGCCACTAATGTCTCTAAAGCTTAACAAAAAAACGACA
1 CTTGACTTTTGCGACGTTTTCTAAAAAGGCCACTAATGTCTCTAAAGCTTAACAAAAAAACGACA
*
10588082 TCGCTTGCTTAAAACTTTTGCGGCGCTTTTTGCTAATA
66 TCGCTTGCTTAAAACTTTTGCAGCGCTTTTTGCTAATA
10588120 CTTGACTTTTTGCGACGTTTTCTAAAAAGTGCCACTAATGTCTCTAAAGC-T-A-AAAAAAACGA
1 CTTGAC-TTTTGCGACGTTTTCTAAAAAG-GCCACTAATGTCTCTAAAGCTTAACAAAAAAACGA
** * *
10588182 TGTCGTTTGCTTAGAACTTTTGCAGCGCTTTT
64 CATCGCTTGCTTAAAACTTTTGCAGCGCTTTT
10588214 GAGAAAGTGC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
102 37 0.44
103 7 0.08
104 20 0.24
105 20 0.24
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (103 bp):
CTTGACTTTTGCGACGTTTTCTAAAAAGGCCACTAATGTCTCTAAAGCTTAACAAAAAAACGACA
TCGCTTGCTTAAAACTTTTGCAGCGCTTTTTGCTAATA
Found at i:10588462 original size:114 final size:114
Alignment explanation
Indices: 10588198--10588455 Score: 342
Period size: 114 Copynumber: 2.3 Consensus size: 114
10588188 TTGCTTAGAA
* * *
10588198 CTTTTGC-AGCGCTTTTGAGAAAGTGCCGCTAATACTTGACTTTTGCGGCGTTTCTTGAAAGCAC
1 CTTTTGCGA-CGCTTTTGAGAAAGCGCCGCTAATGCTTGACTTTTACGGCGTTTCTTGAAAGCAC
* * *
10588262 CACTAACGTCTTTGAAGCTCAACAAGTAAACAACATCGTTTGGCTTAACT
65 CACTAACGTCTTTGAAGCGCAACAAGAAAACAACATCATTTGGCTTAACT
* * *
10588312 CTTTTGCGACGCTTTTGAGAAAGCGCCGCTAATGCTTGACTTTTATGGC-TTTTTTTAAAGGCAC
1 CTTTTGCGACGCTTTTGAGAAAGCGCCGCTAATGCTTGACTTTTACGGCGTTTCTTGAAA-GCAC
* *
10588376 CACTAATGTCTTTGAAGCGCAACAAGAAAACGACATCATTTGGCTTAACT
65 CACTAACGTCTTTGAAGCGCAACAAGAAAACAACATCATTTGGCTTAACT
** *
10588426 CTTTTGCGGTGCTTTT-AGGGAAGCGCCGCT
1 CTTTTGCGACGCTTTTGA-GAAAGCGCCGCT
10588456 TTTGCTTATA
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
113 9 0.07
114 117 0.92
115 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (114 bp):
CTTTTGCGACGCTTTTGAGAAAGCGCCGCTAATGCTTGACTTTTACGGCGTTTCTTGAAAGCACC
ACTAACGTCTTTGAAGCGCAACAAGAAAACAACATCATTTGGCTTAACT
Found at i:10591286 original size:102 final size:102
Alignment explanation
Indices: 10591157--10591626 Score: 814
Period size: 102 Copynumber: 4.6 Consensus size: 102
10591147 ATTGCATATA
*
10591157 AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
10591222 TGAAATGTGAAGGGGATTGCTAAGTGCTGATTCCCCC
66 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
*
10591259 AACGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
10591324 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
10591361 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
* *
10591426 TTAAATGTGAAAGGGGGTTACTAAGTGCTGATTCCCCC
66 TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCC
* ** *
10591464 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
10591529 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
10591566 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
10591627 ATAACGGTTA
Statistics
Matches: 345, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 251 0.73
103 94 0.27
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (102 bp):
AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:10591520 original size:205 final size:204
Alignment explanation
Indices: 10591157--10591626 Score: 814
Period size: 205 Copynumber: 2.3 Consensus size: 204
10591147 ATTGCATATA
*
10591157 AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
* **
10591222 TGAAATGTGAAGGGGATTGCTAAGTGCTGATTCCCCCAACGGGTTGCTGTGTGCTGATTCCCCGA
66 TGAAATGTGAAGGGGATTACTAAGTGCTGATTCCCCCAACGGGTTGCTAAGTGCTGATTCCCCGA
10591287 TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGGGGTTGCTAAGTGCT
131 TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGGGGTTGCTAAGTGCT
10591352 GATTCCCCC
196 GATTCCCCC
* *
10591361 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
* * * * *
10591426 TTAAATGTGAAAGGGGGTTACTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCT
66 TGAAATGTG-AAGGGGATTACTAAGTGCTGATTCCCCCAACGGGTTGCTAAGTGCTGATTCCCCG
10591491 ATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGGGGTTGCTAAGTGC
130 ATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGGGGTTGCTAAGTGC
10591556 TGATTCCCCC
195 TGATTCCCCC
* *
10591566 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
10591627 ATAACGGTTA
Statistics
Matches: 252, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
204 70 0.28
205 182 0.72
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (204 bp):
AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTGAAGGGGATTACTAAGTGCTGATTCCCCCAACGGGTTGCTAAGTGCTGATTCCCCGA
TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGGGGTTGCTAAGTGCT
GATTCCCCC
Found at i:10599414 original size:29 final size:29
Alignment explanation
Indices: 10599372--10599432 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
10599362 CTGTACTTAT
10599372 TGGCTAAACCAAAAATTCTGAAAATTTTA
1 TGGCTAAACCAAAAATTCTGAAAATTTTA
10599401 TGGCTAAACCAAAAATTCTGAAAATTTTA
1 TGGCTAAACCAAAAATTCTGAAAATTTTA
10599430 TGG
1 TGG
10599433 TAAGAAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (29 bp):
TGGCTAAACCAAAAATTCTGAAAATTTTA
Found at i:10606282 original size:29 final size:29
Alignment explanation
Indices: 10606240--10606300 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
10606230 CTCTACTGAT
10606240 TGGCTAAACCAAAAATTCTGAAAATTTTA
1 TGGCTAAACCAAAAATTCTGAAAATTTTA
10606269 TGGCTAAACCAAAAATTCTGAAAATTTTA
1 TGGCTAAACCAAAAATTCTGAAAATTTTA
10606298 TGG
1 TGG
10606301 TAAGAAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (29 bp):
TGGCTAAACCAAAAATTCTGAAAATTTTA
Found at i:10608588 original size:15 final size:15
Alignment explanation
Indices: 10608563--10608597 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10608553 GACTTTATTT
*
10608563 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
10608577 TAATTAATATTAAGA
1 TAATTAATATTAAGA
10608592 TAATTA
1 TAATTA
10608598 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:10621115 original size:47 final size:48
Alignment explanation
Indices: 10621063--10621157 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
10621053 ATGCCAAAAT
*
10621063 TATTTAAGCAACT-A-AAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAGAAAATT-AAAACAACTGAATTAATTAAACTAAG
10621110 TATTTAAGCAACTAAAGAAAATTAAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACT-AAGAAAATTAAAACAACTGAATTAATTAAACTAA
10621158 ACATATTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 13 0.30
49 25 0.57
50 6 0.14
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (48 bp):
TATTTAAGCAACTAAGAAAATTAAAACAACTGAATTAATTAAACTAAG
Found at i:10621431 original size:7 final size:8
Alignment explanation
Indices: 10621414--10621444 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
10621404 AAATTATTTT
10621414 AAAAATAA
1 AAAAATAA
10621422 AAAAATAA
1 AAAAATAA
10621430 AAAAATAA
1 AAAAATAA
10621438 AAAAATA
1 AAAAATA
10621445 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:10621479 original size:47 final size:46
Alignment explanation
Indices: 10621403--10621494 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 46
10621393 TAAACATTAA
*
10621403 AAAATTATTTTAAAAATAAAAAAATAAAAAAATAAAAAAATATATTTT
1 AAAAGTATTTTAAAAATAAAAAAAT--AAAAATAAAAAAATATATTTT
* *
10621451 AAAAGTATTTT-AAAATTAAAAAATAAAAATAAAAATATATATTT
1 AAAAGTATTTTAAAAATAAAAAAATAAAAATAAAAAAATATATTT
10621495 ATTATATTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
45 19 0.46
47 12 0.29
48 10 0.24
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (46 bp):
AAAAGTATTTTAAAAATAAAAAAATAAAAATAAAAAAATATATTTT
Found at i:10621528 original size:11 final size:11
Alignment explanation
Indices: 10621512--10621541 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
10621502 TTGGGCCGGG
10621512 CCGGGCCAGGC
1 CCGGGCCAGGC
10621523 CCGGGCCAGGC
1 CCGGGCCAGGC
10621534 CCGGGCCA
1 CCGGGCCA
10621542 AAAAAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.47, G:0.43, T:0.00
Consensus pattern (11 bp):
CCGGGCCAGGC
Found at i:10636135 original size:5 final size:5
Alignment explanation
Indices: 10636122--10636165 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
10636112 AATTTTTTTA
* * *
10636122 TTAT- TTATT TTATT TTATT TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
10636166 AATGTTTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.68
Consensus pattern (5 bp):
TTATG
Found at i:10637492 original size:27 final size:28
Alignment explanation
Indices: 10637430--10637492 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 28
10637420 CTTATTTTCC
* * **
10637430 TAAATTTTTAAAAAATTAGTCTATTTTG
1 TAAAATTTTAAAAAAATAAACTATTTTG
* *
10637458 TAATATTTTAAAAAAATAAACTTTTTTG
1 TAAAATTTTAAAAAAATAAACTATTTTG
10637486 -AAAATTT
1 TAAAATTT
10637493 AGTCCGAACA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (28 bp):
TAAAATTTTAAAAAAATAAACTATTTTG
Found at i:10638906 original size:33 final size:33
Alignment explanation
Indices: 10638867--10638929 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
10638857 TTATTATATA
*
10638867 AATTTGT-AAATG-TTAGTTTATTATTTATTACTT
1 AATTTGTGAAA-GATTA-TTTATTATGTATTACTT
10638900 AATTTGTGAAAGATTATTTATTATGTATTA
1 AATTTGTGAAAGATTATTTATTATGTATTA
10638930 TATATGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (33 bp):
AATTTGTGAAAGATTATTTATTATGTATTACTT
Found at i:10643182 original size:160 final size:160
Alignment explanation
Indices: 10643005--10643324 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
10642995 TTTTGTTGTG
10643005 AAATGGTGCATTGAGGCATATTGGTTAGTTGATTAGGGTTGTAGTTTAAGTTGTATTTTGGCATG
1 AAATGGTGCATTGAGGCATATTGGTTAGTTGATTAGGGTTGTAGTTTAAGTTGTATTTTGGCATG
10643070 TTTTGAATAGGTGTAATATTGGTTATTAGCATTGGTATGAGTTTTGATATGGTTGAATTGGTATC
66 TTTTGAATAGGTGTAATATTGGTTATTAGCATTGGTATGAGTTTTGATATGGTTGAATTGGTATC
10643135 TTGTTTATAAAGGCACATTGTTGTTGCACA
131 TTGTTTATAAAGGCACATTGTTGTTGCACA
10643165 AAATGGTGCATTGAGGCATATTGGTTAGTTGATTAGGGTTGTAGTTTAAGTTGTATTTTGGCATG
1 AAATGGTGCATTGAGGCATATTGGTTAGTTGATTAGGGTTGTAGTTTAAGTTGTATTTTGGCATG
10643230 TTTTGAATAGGTGTAATATTGGTTATTAGCATTGGTATGAGTTTTGATATGGTTGAATTGGTATC
66 TTTTGAATAGGTGTAATATTGGTTATTAGCATTGGTATGAGTTTTGATATGGTTGAATTGGTATC
10643295 TTGTTTATAAAGGCACATTGTTGTTGCACA
131 TTGTTTATAAAGGCACATTGTTGTTGCACA
10643325 TGGTCTGGCA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (160 bp):
AAATGGTGCATTGAGGCATATTGGTTAGTTGATTAGGGTTGTAGTTTAAGTTGTATTTTGGCATG
TTTTGAATAGGTGTAATATTGGTTATTAGCATTGGTATGAGTTTTGATATGGTTGAATTGGTATC
TTGTTTATAAAGGCACATTGTTGTTGCACA
Found at i:10644125 original size:16 final size:18
Alignment explanation
Indices: 10644098--10644130 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10644088 TAGAATTGGG
10644098 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
10644115 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
10644131 GTTAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:10648512 original size:3 final size:3
Alignment explanation
Indices: 10648436--10648498 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
10648426 AGTTAGTAAG
*
10648436 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
10648484 TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA
10648499 AAGGTTAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:10649783 original size:5 final size:5
Alignment explanation
Indices: 10649775--10649800 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10649765 TGTTTAATTG
10649775 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
10649801 AACGGGCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10651655 original size:17 final size:18
Alignment explanation
Indices: 10651617--10651655 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10651607 AATTAATCAT
* *
10651617 AATTTTAAAAAAACATTG
1 AATTTTAAAAAAACAGTA
10651635 AATTTTAAAAAAA-AGTA
1 AATTTTAAAAAAACAGTA
10651652 AATT
1 AATT
10651656 GGTATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
AATTTTAAAAAAACAGTA
Found at i:10653260 original size:11 final size:11
Alignment explanation
Indices: 10653246--10653286 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10653236 TGTTTTCTCC
10653246 CTATTTTGCTA
1 CTATTTTGCTA
*
10653257 CTATTTTTCTA
1 CTATTTTGCTA
* *
10653268 TTATATTGCTA
1 CTATTTTGCTA
10653279 CTATTTTG
1 CTATTTTG
10653287 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.59
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:10653357 original size:30 final size:30
Alignment explanation
Indices: 10653323--10653385 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
10653313 ACTTATCTTA
*
10653323 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
10653353 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
10653383 TTG
1 TTG
10653386 CTTGTTGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:10660993 original size:12 final size:12
Alignment explanation
Indices: 10660966--10661004 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
10660956 ATGCAAATGA
10660966 AATAATTTAA-T
1 AATAATTTAATT
10660977 AATAATTTAATT
1 AATAATTTAATT
10660989 AATAATATT-ATT
1 AATAAT-TTAATT
10661001 AATA
1 AATA
10661005 TAAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.38
12 14 0.54
13 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATAATTTAATT
Found at i:10662175 original size:76 final size:76
Alignment explanation
Indices: 10662063--10662207 Score: 184
Period size: 76 Copynumber: 1.9 Consensus size: 76
10662053 TGGAATGTCC
* * * *
10662063 TGAAGTAAGTAGATTGTGCCCAACGCTCATCAGTTTAACCGAAGTAGTAATTGTG-CTCAACACT
1 TGAAGCAAGTAGATTGCGCCCAACGCTCATCAGTTTAACCAAAGTAATAATTGTGTC-CAACACT
10662127 CATCGAAATGTT
65 CATCGAAATGTT
* ** ** *
10662139 TGAAGCAAGTAGATTGCGCGCAACGCTCATTGGTTTAATTAAAGTAATAATTGTGTCCAGCACTC
1 TGAAGCAAGTAGATTGCGCCCAACGCTCATCAGTTTAACCAAAGTAATAATTGTGTCCAACACTC
10662204 ATCG
66 ATCG
10662208 CATATAGTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 57 0.98
77 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (76 bp):
TGAAGCAAGTAGATTGCGCCCAACGCTCATCAGTTTAACCAAAGTAATAATTGTGTCCAACACTC
ATCGAAATGTT
Found at i:10663921 original size:54 final size:54
Alignment explanation
Indices: 10663863--10663984 Score: 156
Period size: 54 Copynumber: 2.3 Consensus size: 54
10663853 GTCTTCACCT
** **
10663863 GTGTAACTCACTGAGATGCCGTACACG-CTCGTGTGTTAGGCCGTGTGCTAGACC
1 GTGTAACTCACTGAGATGCCACACACGTC-CGTGTGCCAGGCCGTGTGCTAGACC
* * * *
10663917 GTGTAACTCTCTGAGTTGCCACACACGTCCGTGTGCCAGGCCGTGTGCTTGGCC
1 GTGTAACTCACTGAGATGCCACACACGTCCGTGTGCCAGGCCGTGTGCTAGACC
10663971 GTGTAACTCACTGA
1 GTGTAACTCACTGA
10663985 CTTGAATGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 57 0.98
55 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (54 bp):
GTGTAACTCACTGAGATGCCACACACGTCCGTGTGCCAGGCCGTGTGCTAGACC
Found at i:10664740 original size:40 final size:39
Alignment explanation
Indices: 10664673--10664869 Score: 214
Period size: 40 Copynumber: 4.9 Consensus size: 39
10664663 GATTTAGGAT
* *
10664673 TACCAAAGTACTAACAAGGGCACGTATGTGCATTCAGTGG
1 TACCGAAGTACAAACAAGGGCACGTATGTGCATTCAG-GG
* * *
10664713 TATCGAAGTACAAACAAGGACATGTATGTGCATTCAAGGG
1 TACCGAAGTACAAACAAGGGCACGTATGTGCATTC-AGGG
* * *
10664753 TACCGAAATACAAACAGGGGCACATATGTGCATTCAGGG
1 TACCGAAGTACAAACAAGGGCACGTATGTGCATTCAGGG
* * * * *
10664792 TTACCAAAGTACAAACAATGACACATATGTACATTCAGGGG
1 -TACCGAAGTACAAACAAGGGCACGTATGTGCATTCA-GGG
* * *
10664833 TATCGAAATACAAACAGGGGCACGTATGTGCATTCAG
1 TACCGAAGTACAAACAAGGGCACGTATGTGCATTCAG
10664870 ATAATAATTA
Statistics
Matches: 129, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 5 0.04
40 119 0.92
41 5 0.04
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (39 bp):
TACCGAAGTACAAACAAGGGCACGTATGTGCATTCAGGG
Found at i:10664827 original size:80 final size:80
Alignment explanation
Indices: 10664685--10664869 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
10664675 CCAAAGTACT
* * * ** *
10664685 AACAAGGGCACGTATGTGCATTCAGTGGTATCGAAGTACAAACAAGGACATGTATGTGCATTCAA
1 AACAGGGGCACGTATGTGCATTCAGTGGTACCAAAGTACAAACAAGGACACATATGTACATTCAA
10664750 GGGTACCGAAATACA
66 GGGTACCGAAATACA
* *
10664765 AACAGGGGCACATATGTGCATTCAG-GGTTACCAAAGTACAAACAATGACACATATGTACATTCA
1 AACAGGGGCACGTATGTGCATTCAGTGG-TACCAAAGTACAAACAAGGACACATATGTACATTCA
* *
10664829 GGGGTATCGAAATACA
65 AGGGTACCGAAATACA
10664845 AACAGGGGCACGTATGTGCATTCAG
1 AACAGGGGCACGTATGTGCATTCAG
10664870 ATAATAATTA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 2 0.02
80 91 0.98
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (80 bp):
AACAGGGGCACGTATGTGCATTCAGTGGTACCAAAGTACAAACAAGGACACATATGTACATTCAA
GGGTACCGAAATACA
Found at i:10665522 original size:32 final size:32
Alignment explanation
Indices: 10665482--10665546 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
10665472 CAACGATCTC
10665482 AAAAACATAAAAATTACAAGAAATATGTGAGA
1 AAAAACATAAAAATTACAAGAAATATGTGAGA
10665514 AAAAACATAAAAATTACAAGAAATATGTGAGA
1 AAAAACATAAAAATTACAAGAAATATGTGAGA
10665546 A
1 A
10665547 TTGAGCTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.63, C:0.06, G:0.12, T:0.18
Consensus pattern (32 bp):
AAAAACATAAAAATTACAAGAAATATGTGAGA
Found at i:10667441 original size:9 final size:9
Alignment explanation
Indices: 10667430--10667505 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
10667420 TTTGGTTAAA
*
10667430 AATTAACCA
1 AATTAACCG
10667439 AATTAACCG
1 AATTAACCG
10667448 AATTAACCG
1 AATTAACCG
* *
10667457 AATTACCCA
1 AATTAACCG
10667466 AATTAACCG
1 AATTAACCG
*
10667475 AATTAACTG
1 AATTAACCG
*
10667484 AATTACCCG
1 AATTAACCG
*
10667493 AATTAACCA
1 AATTAACCG
10667502 AATT
1 AATT
10667506 GAATCACTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:10667461 original size:27 final size:27
Alignment explanation
Indices: 10667430--10667505 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
10667420 TTTGGTTAAA
*
10667430 AATTAACCAAATTAACCGAATTAACCG
1 AATTACCCAAATTAACCGAATTAACCG
*
10667457 AATTACCCAAATTAACCGAATTAACTG
1 AATTACCCAAATTAACCGAATTAACCG
* *
10667484 AATTACCCGAATTAACCAAATT
1 AATTACCCAAATTAACCGAATT
10667506 GAATCACTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (27 bp):
AATTACCCAAATTAACCGAATTAACCG
Found at i:10667652 original size:18 final size:18
Alignment explanation
Indices: 10667612--10667655 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10667602 TAATTTTATG
**
10667612 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
10667630 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
10667648 CTTGGGTT
1 ATTGGGTT
10667656 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:10677331 original size:18 final size:18
Alignment explanation
Indices: 10677308--10677346 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10677298 AGTTGAAAAG
*
10677308 TTAAAATTGATT-TTTTTT
1 TTAAAATT-ATTCTTTTAT
10677326 TTAAAATTATTCTTTTAT
1 TTAAAATTATTCTTTTAT
10677344 TTA
1 TTA
10677347 TTTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTAAAATTATTCTTTTAT
Found at i:10677508 original size:28 final size:27
Alignment explanation
Indices: 10677459--10677518 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
10677449 AGATAATTGT
*
10677459 ATTAATTTATTTTATTTAAAATAAATAG
1 ATTAAATTATTTTATTTAAAAT-AATAG
* *
10677487 ATTAAATTA-TTTATTTGTAAATAATAT
1 ATTAAATTATTTTATTT-AAAATAATAG
10677514 ATTAA
1 ATTAA
10677519 CTTTTGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
ATTAAATTATTTTATTTAAAATAATAG
Found at i:10678089 original size:22 final size:23
Alignment explanation
Indices: 10678043--10678091 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
10678033 ATATATATAT
*
10678043 AAAAACTATTCATATTCTTTGAG
1 AAAAACTATTCAAATTCTTTGAG
*
10678066 AAAAACTATTCAAATT-TTTTAG
1 AAAAACTATTCAAATTCTTTGAG
10678088 AAAA
1 AAAA
10678092 TTTTATTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (23 bp):
AAAAACTATTCAAATTCTTTGAG
Found at i:10679880 original size:45 final size:45
Alignment explanation
Indices: 10679816--10679905 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
10679806 CTTGTTTCAA
*
10679816 AACCTAAAAATAACCATTAGATAAGAGGGAGAATTTAGTCAAGCT
1 AACCTAAAAATAACCATTAGATAAGAGGGAGAATTCAGTCAAGCT
*
10679861 AACCTAAAAATAACCATTAGATAAGAGGGAGCATTCAGTCAAGCT
1 AACCTAAAAATAACCATTAGATAAGAGGGAGAATTCAGTCAAGCT
10679906 TGTGTTGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.21
Consensus pattern (45 bp):
AACCTAAAAATAACCATTAGATAAGAGGGAGAATTCAGTCAAGCT
Found at i:10687002 original size:24 final size:25
Alignment explanation
Indices: 10686975--10687029 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
10686965 AAGCCATAAA
10686975 CGGGAA-GCTCATA-CGAGCCAATAT
1 CGGGAAGGCTCA-AGCGAGCCAATAT
*
10686999 CGGGAAGGTTCAAGCGAGCCAATAT
1 CGGGAAGGCTCAAGCGAGCCAATAT
10687024 CGGGAA
1 CGGGAA
10687030 CCTATGGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.33, C:0.22, G:0.31, T:0.15
Consensus pattern (25 bp):
CGGGAAGGCTCAAGCGAGCCAATAT
Found at i:10692191 original size:24 final size:24
Alignment explanation
Indices: 10692164--10692213 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
10692154 TATAAAAACA
10692164 CATAAACAGGAAGCTCATAAGAGC
1 CATAAACAGGAAGCTCATAAGAGC
** *
10692188 CATACTCAGGAAGCTCATACGAGC
1 CATAAACAGGAAGCTCATAAGAGC
10692212 CA
1 CA
10692214 ATAAGGGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.20, T:0.14
Consensus pattern (24 bp):
CATAAACAGGAAGCTCATAAGAGC
Found at i:10692269 original size:25 final size:23
Alignment explanation
Indices: 10692241--10692299 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 23
10692231 AGATCCATTA
* *
10692241 ATCGGGAAGCTCTAGATAGCCATAT
1 ATCGGGAAGCTCAAGAGAGCC--AT
* * *
10692266 ATCGAGAAGTTCAAGCGAGCCAT
1 ATCGGGAAGCTCAAGAGAGCCAT
10692289 ATCGGGAAGCT
1 ATCGGGAAGCT
10692300 TCGAAGAGCC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 11 0.41
25 16 0.59
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
ATCGGGAAGCTCAAGAGAGCCAT
Found at i:10693325 original size:26 final size:26
Alignment explanation
Indices: 10693289--10693343 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
10693279 TTCTTTTCCC
10693289 TTAGCTAGGGTTTCCATGAAAATAAT
1 TTAGCTAGGGTTTCCATGAAAATAAT
10693315 TTAGCTAGGGTTTCCATGAAAATAAT
1 TTAGCTAGGGTTTCCATGAAAATAAT
10693341 TTA
1 TTA
10693344 AGGAAAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (26 bp):
TTAGCTAGGGTTTCCATGAAAATAAT
Found at i:10701033 original size:18 final size:18
Alignment explanation
Indices: 10701010--10701046 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10701000 ATAAAAGAGG
10701010 CCCCTACCTCTACCCCTA
1 CCCCTACCTCTACCCCTA
*
10701028 CCCCTACTTCTACCCCTA
1 CCCCTACCTCTACCCCTA
10701046 C
1 C
10701047 AACATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.59, G:0.00, T:0.24
Consensus pattern (18 bp):
CCCCTACCTCTACCCCTA
Found at i:10701208 original size:11 final size:11
Alignment explanation
Indices: 10701192--10701221 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10701182 TTCAATTGTT
10701192 AGGCATAAGAA
1 AGGCATAAGAA
10701203 AGGCATAAGAA
1 AGGCATAAGAA
*
10701214 AGGGATAA
1 AGGCATAA
10701222 CTACCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (11 bp):
AGGCATAAGAA
Found at i:10703181 original size:21 final size:19
Alignment explanation
Indices: 10703153--10703210 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
10703143 GTGATAAAAA
10703153 ATAAAAATCAATAAAATTTAT
1 ATAAAAAT-AATAAAATTT-T
* *
10703174 ATTAAAATATTAAAATTTT
1 ATAAAAATAATAAAATTTT
10703193 ATAAAAATTATATAAAAT
1 ATAAAAA-TA-ATAAAAT
10703211 ATTGAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.23
20 11 0.35
21 13 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAATAATAAAATTTT
Found at i:10703201 original size:11 final size:11
Alignment explanation
Indices: 10703153--10703209 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
10703143 GTGATAAAAA
*
10703153 ATAAAAATCA-
1 ATAAAAATTAT
*
10703163 ATAAAATTTAT
1 ATAAAAATTAT
*
10703174 ATTAAAA-TAT
1 ATAAAAATTAT
*
10703184 -T-AAAATTTT
1 ATAAAAATTAT
10703193 ATAAAAATTAT
1 ATAAAAATTAT
10703204 ATAAAA
1 ATAAAA
10703210 TATTGAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 12 0.32
11 18 0.49
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAAATTAT
Found at i:10703208 original size:29 final size:30
Alignment explanation
Indices: 10703163--10703231 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
10703153 ATAAAAATCA
*
10703163 ATAAAATTTATATTAAAATATTAAAATTTT
1 ATAAAAATTATATTAAAATATTAAAATTTT
*
10703193 ATAAAAATTATA-TAAAATATTGAAATTTT
1 ATAAAAATTATATTAAAATATTAAAATTTT
10703222 ATTAAAAATT
1 A-TAAAAATT
10703232 GAAAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAAAATTATATTAAAATATTAAAATTTT
Found at i:10703242 original size:19 final size:20
Alignment explanation
Indices: 10703177--10703268 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 20
10703167 AATTTATATT
* * *
10703177 AAAA-TATTAAAATTTTATA
1 AAAATTATTAAAAATTGACA
10703196 AAAATTATATAAAATATTG--A
1 AAAATTAT-TAAAA-ATTGACA
**
10703216 AATTTTATTAAAAATTGA-A
1 AAAATTATTAAAAATTGACA
* *
10703235 AAAATTA-TAAAAAATCACA
1 AAAATTATTAAAAATTGACA
*
10703254 AAAATTATAAAAAAT
1 AAAATTATTAAAAAT
10703269 CTTAAATAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
18 12 0.21
19 23 0.40
20 15 0.26
21 5 0.09
22 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATTATTAAAAATTGACA
Found at i:10703258 original size:48 final size:49
Alignment explanation
Indices: 10703166--10703258 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 49
10703156 AAAATCAATA
** * *
10703166 AAATTTATATTAAAATATTAAAATTTTATAAAAATTATATAAAATATTG
1 AAATTTATATTAAAATATTAAAAAATTATAAAAATCACATAAAATATTG
10703215 AAATTT-TATTAAAA-ATTGAAAAAATTATAAAAAATCACA-AAAAT
1 AAATTTATATTAAAATATT-AAAAAATTAT-AAAAATCACATAAAAT
10703259 TATAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
47 3 0.08
48 21 0.55
49 14 0.37
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (49 bp):
AAATTTATATTAAAATATTAAAAAATTATAAAAATCACATAAAATATTG
Found at i:10703279 original size:20 final size:19
Alignment explanation
Indices: 10703194--10703286 Score: 71
Period size: 19 Copynumber: 4.7 Consensus size: 19
10703184 TAAAATTTTA
* *
10703194 TAAAAATTATATAAAATAT
1 TAAAAATTATAAAAAATCT
** *
10703213 TGAAATTTTATTAAAAAT-T
1 T-AAAAATTATAAAAAATCT
* *
10703232 GAAAAAATTATAAAAAATCA
1 -TAAAAATTATAAAAAATCT
*
10703252 CAAAAATTATAAAAAATCT
1 TAAAAATTATAAAAAATCT
10703271 TAAATAATTTATAAAA
1 TAAA-AA-TTATAAAA
10703287 TTGTAAATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 35 0.61
20 14 0.25
21 8 0.14
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAAATTATAAAAAATCT
Found at i:10703330 original size:10 final size:10
Alignment explanation
Indices: 10703220--10703333 Score: 55
Period size: 10 Copynumber: 11.8 Consensus size: 10
10703210 TATTGAAATT
*
10703220 TTATTAAAAA
1 TTATAAAAAA
*
10703230 TT-GAAAAAA
1 TTATAAAAAA
10703239 TTATAAAAAA
1 TTATAAAAAA
* *
10703249 TCA-CAAAAA
1 TTATAAAAAA
10703258 TTATAAAAAA
1 TTATAAAAAA
*
10703268 TCT-TAAATAA
1 T-TATAAAAAA
*
10703278 TT-TATAAAA
1 TTATAAAAAA
*
10703287 TTGT---AAA
1 TTATAAAAAA
*
10703294 -TATATAAAA
1 TTATAAAAAA
*
10703303 TTGTAAAAAGATA
1 TTAT-AAAA-A-A
10703316 TTATAAAAAA
1 TTATAAAAAA
10703326 TTATAAAA
1 TTATAAAA
10703334 TCAAGTAGAG
Statistics
Matches: 79, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
9 25 0.32
10 35 0.44
11 5 0.06
12 5 0.06
13 4 0.05
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:10703404 original size:4 final size:4
Alignment explanation
Indices: 10703395--10703432 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
10703385 TGGGGAGTAT
* *
10703395 TACA TACA TACA TACA CACA TACA TACA TGCA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
10703433 TTCACTATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:10703779 original size:20 final size:20
Alignment explanation
Indices: 10703751--10703790 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10703741 ATGAGATACA
*
10703751 ACAATTTTTATAATTTTTTT
1 ACAAATTTTATAATTTTTTT
10703771 ACAAATTTTATAATTTTTTT
1 ACAAATTTTATAATTTTTTT
10703791 CTGTATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ACAAATTTTATAATTTTTTT
Found at i:10703834 original size:20 final size:17
Alignment explanation
Indices: 10703808--10703850 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
10703798 ATTTTTACAA
*
10703808 AATTTTACAGTTTCTTTAT
1 AATTTTA-AGATTC-TTAT
10703827 ATATTTTAAGATTCTTAT
1 A-ATTTTAAGATTCTTAT
10703845 AATTTT
1 AATTTT
10703851 TTTTATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 6 0.27
20 6 0.27
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (17 bp):
AATTTTAAGATTCTTAT
Found at i:10711255 original size:30 final size:30
Alignment explanation
Indices: 10711221--10711288 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
10711211 GTGCGTCTCA
* *
10711221 GCCGTGTGTGACATATAGCCAAGTGACACG
1 GCCGTGTGTGACACATAACCAAGTGACACG
* *
10711251 GCCGTGTGTGACACATAACTAGGTGACACG
1 GCCGTGTGTGACACATAACCAAGTGACACG
*
10711281 GCTGTGTG
1 GCCGTGTG
10711289 GCCCCTGATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (30 bp):
GCCGTGTGTGACACATAACCAAGTGACACG
Found at i:10744628 original size:41 final size:41
Alignment explanation
Indices: 10744571--10744651 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
10744561 GTGGAACAAC
10744571 AATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTACGAT
1 AATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTACGAT
* * **
10744612 AATTGTGTGTATTATGTTTTTAGTTAAGTTGGTGTTACGA
1 AATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTACGA
10744652 GCCAATTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.48
Consensus pattern (41 bp):
AATTGTGTATATTATGTTTCTAACTAAGTTGGTGTTACGAT
Found at i:10747827 original size:21 final size:20
Alignment explanation
Indices: 10747788--10747839 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
10747778 TTTGAACCCC
* *
10747788 AAACCTCGAACTTAAACCTT
1 AAACCTCAAACTCAAACCTT
10747808 AAACCTCAAACGTCAAACCTT
1 AAACCTCAAAC-TCAAACCTT
*
10747829 AAACATCAAAC
1 AAACCTCAAAC
10747840 CTTGAACCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (20 bp):
AAACCTCAAACTCAAACCTT
Found at i:10747842 original size:14 final size:14
Alignment explanation
Indices: 10747798--10747842 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
10747788 AAACCTCGAA
* *
10747798 CTTAAACCTTAAAC
1 CTTAAACATCAAAC
* *
10747812 CTCAAACGTCAAAC
1 CTTAAACATCAAAC
10747826 CTTAAACATCAAAC
1 CTTAAACATCAAAC
10747840 CTT
1 CTT
10747843 GAACCCTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.42, C:0.31, G:0.02, T:0.24
Consensus pattern (14 bp):
CTTAAACATCAAAC
Found at i:10747852 original size:21 final size:21
Alignment explanation
Indices: 10747782--10747853 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
10747772 TCGAACTTTG
* *
10747782 AACCCCAAACCTCGAA-CTTA
1 AACCCTAAACCTCAAACCTTA
* * *
10747802 AACCTTAAACCTCAAACGTCA
1 AACCCTAAACCTCAAACCTTA
* * *
10747823 AACCTTAAACATCAAACCTTG
1 AACCCTAAACCTCAAACCTTA
10747844 AACCCTAAAC
1 AACCCTAAAC
10747854 TTTAGACCTC
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 13 0.32
21 28 0.68
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.18
Consensus pattern (21 bp):
AACCCTAAACCTCAAACCTTA
Found at i:10747947 original size:28 final size:27
Alignment explanation
Indices: 10747889--10747941 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10747879 CGCCTGACCC
10747889 TGAACCTTGACCCGAAACTTTGAATTG
1 TGAACCTTGACCCGAAACTTTGAATTG
* *
10747916 TGAACCTTGAACTCTAAACTTTGAAT
1 TGAACCTTG-ACCCGAAACTTTGAAT
10747942 CTTGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (27 bp):
TGAACCTTGACCCGAAACTTTGAATTG
Found at i:10748979 original size:13 final size:13
Alignment explanation
Indices: 10748961--10748996 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
10748951 CTTCATAATT
10748961 TAATTTAAACAAA
1 TAATTTAAACAAA
10748974 TAATTTAAACAAA
1 TAATTTAAACAAA
*
10748987 TAATATAAAC
1 TAATTTAAAC
10748997 CAGACTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTTAAACAAA
Found at i:10749450 original size:16 final size:16
Alignment explanation
Indices: 10749417--10749450 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10749407 TCATCCTGTT
* *
10749417 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
10749433 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
10749449 AA
1 AA
10749451 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:10752274 original size:21 final size:21
Alignment explanation
Indices: 10752248--10752288 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10752238 AGACGAGCAA
* *
10752248 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
10752269 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
10752289 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:10754744 original size:138 final size:137
Alignment explanation
Indices: 10754551--10754827 Score: 536
Period size: 138 Copynumber: 2.0 Consensus size: 137
10754541 ATGTGCTATT
10754551 AAATTACTATAGAAGGGATATTCTGTCTAAGAAAGACTTGGTATTTAAGAGATCCATGTGATCCA
1 AAATTACTATAGAAGGGATATTCTGTCTAAGAAAGACTTGGTATTTAAGAGATCCATGTGATCCA
10754616 CCTCTCTTCCCTAGGAATTGAACTTTGTGTGATTTTTTAGTACAATAATTTACACGCTTCCGACC
66 CCTCTCTTCCCTAGGAATTGAACTTTGTGTGATTTTTTAGTACAATAATTTACACGCTTCCGACC
10754681 CTATTGG
131 CTATTGG
10754688 AAATTACTATAGAAGGGATATTCTGTCTAAGGAAAGACTTGGTATTTAAGAGATCCATGTGATCC
1 AAATTACTATAGAAGGGATATTCTGTCTAA-GAAAGACTTGGTATTTAAGAGATCCATGTGATCC
*
10754753 ACCTCTCTTCCCTGGGAATTGAACTTTGTGTGATTTTTTAGTACAATAATTTACACGCTTCCGAC
65 ACCTCTCTTCCCTAGGAATTGAACTTTGTGTGATTTTTTAGTACAATAATTTACACGCTTCCGAC
10754818 CCTATTGG
130 CCTATTGG
10754826 AA
1 AA
10754828 CAACACATCC
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
137 30 0.22
138 108 0.78
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (137 bp):
AAATTACTATAGAAGGGATATTCTGTCTAAGAAAGACTTGGTATTTAAGAGATCCATGTGATCCA
CCTCTCTTCCCTAGGAATTGAACTTTGTGTGATTTTTTAGTACAATAATTTACACGCTTCCGACC
CTATTGG
Found at i:10763338 original size:31 final size:31
Alignment explanation
Indices: 10763290--10763348 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10763280 AATAACTCAC
*
10763290 TAAATTTTACTACAACCATGTTAGATTTAAG
1 TAAAGTTTACTACAACCATGTTAGATTTAAG
*
10763321 TAAAGTTTAGTACAACCATGTTAGATTT
1 TAAAGTTTACTACAACCATGTTAGATTT
10763349 CAAAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAAGTTTACTACAACCATGTTAGATTTAAG
Found at i:10765856 original size:132 final size:132
Alignment explanation
Indices: 10765720--10766208 Score: 664
Period size: 132 Copynumber: 3.7 Consensus size: 132
10765710 TTCGATTTGC
* *
10765720 TCCACTACTGCTTAGGGGGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGT
1 TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGT
* *
10765785 AAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATATTCAATCT
66 AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCT
10765850 AT
131 AT
* * * * * *
10765852 TCCACTATTGCCTAGGGATATAGAATTTCTGGCTTCAATGTACTCCACTGTAACTACAGTGAGGT
1 TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGT
* *
10765917 AAAAT-TCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTGTAATCCTCAATC
66 AAAATCT-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATC
10765981 TAT
130 TAT
* *
10765984 TCCACTGCTGCTTAGGGAGATAGAATTTA-TGGCTTCAATATACTCCACTGTAACCACAGGGAGG
1 TCCACTACTGCTTAGGGAGATAGAA-TTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGG
* * * * * *
10766048 TAAAACCCT-CCATCTTCAATCTGCTCTACGACTGTTTAGGGAGATAAGATCTGAAATCTTCAAT
65 TAAAA-TCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
10766112 CTAT
129 CTAT
* ** * *
10766116 TCCACTGCCAAC-CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA-TACAGGGAGG
1 TCCACT-ACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGG
* *
10766179 TAAAATCTGTCATCTTTGATCTGCTCCACT
65 TAAAATCTGCCATCTTCGATCTGCTCCACT
10766209 GTCGATGCAG
Statistics
Matches: 310, Mismatches: 40, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
130 2 0.01
131 34 0.11
132 269 0.87
133 4 0.01
134 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGT
AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCT
AT
Found at i:10766307 original size:88 final size:88
Alignment explanation
Indices: 10766197--10766431 Score: 353
Period size: 88 Copynumber: 2.7 Consensus size: 88
10766187 GTCATCTTTG
* * * * * *
10766197 ATCTGCTCCACTGTCGATGCAGGAGGGCAAGATCTACTATTTTCAACCTGATCCACTACAACCGA
1 ATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGA
10766262 GGGAGGCAAGGCTTGTGTCTTCA
66 GGGAGGCAAGGCTTGTGTCTTCA
* * *
10766285 ATCTGCTTCGCTGTCGACGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTATTACAACCGA
1 ATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGA
* *
10766350 TGGAGGCAAGGCTTGTGTCTTCG
66 GGGAGGCAAGGCTTGTGTCTTCA
* *
10766373 ATCTGCTTCGCTGTCGATGCAGGAAGGCAATATTTGCTATCTTCAACCTGCTCCACTAC
1 ATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
10766432 TGCTCAGAGA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 131 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (88 bp):
ATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGA
GGGAGGCAAGGCTTGTGTCTTCA
Found at i:10766313 original size:44 final size:44
Alignment explanation
Indices: 10766265--10766402 Score: 124
Period size: 44 Copynumber: 3.1 Consensus size: 44
10766255 CAACCGAGGG
10766265 AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGACGCAGGA
1 AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGACGCAGGA
* * * ** *
10766309 AGGCAA-GATCTGCTATCTTCAACCTGC-TCTAT-TACAAC-CGATGG-
1 AGGCAAGGCT-TG-TGTCTTCAATCTGCTTCGCTGT-CGACGC-A-GGA
* *
10766353 AGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
1 AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGACGCAGGA
10766397 AGGCAA
1 AGGCAA
10766403 TATTTGCTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
43 17 0.24
44 35 0.50
45 18 0.26
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.27
Consensus pattern (44 bp):
AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGACGCAGGA
Found at i:10766330 original size:45 final size:45
Alignment explanation
Indices: 10766279--10766424 Score: 115
Period size: 44 Copynumber: 3.3 Consensus size: 45
10766269 AAGGCTTGTG
*
10766279 TCTTCAATCTGCTTCGCTGTCGACGCAGGAAGGCAAGATCTGCTA
1 TCTTCAACCTGCTTCGCTGTCGACGCAGGAAGGCAAGATCTGCTA
** * * *
10766324 TCTTCAACCTGC-TCTAT-TACAAC-CGATGG-AGGCAAG-GCTTG-TG
1 TCTTCAACCTGCTTCGCTGT-CGACGC-A-GGAAGGCAAGATC-TGCTA
* * * * *
10766367 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAATATTTGCTA
1 TCTTCAACCTGCTTCGCTGTCGACGCAGGAAGGCAAGATCTGCTA
10766412 TCTTCAACCTGCT
1 TCTTCAACCTGCT
10766425 CCACTACTGC
Statistics
Matches: 73, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
43 16 0.22
44 30 0.41
45 27 0.37
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (45 bp):
TCTTCAACCTGCTTCGCTGTCGACGCAGGAAGGCAAGATCTGCTA
Found at i:10774841 original size:27 final size:27
Alignment explanation
Indices: 10774770--10774841 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
10774760 TGGAGAGACC
*
10774770 TAGCACAAGCATTCATAAGGCAATATT
1 TAGCACAAGCATTCATGAGGCAATATT
* *
10774797 TAGCACAAACATTCATGAGGCACTATT
1 TAGCACAAGCATTCATGAGGCAATATT
*
10774824 TAGCACAAGCATTGATGA
1 TAGCACAAGCATTCATGA
10774842 AACTTACGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
TAGCACAAGCATTCATGAGGCAATATT
Found at i:10777452 original size:16 final size:18
Alignment explanation
Indices: 10777423--10777455 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
10777413 GTTCAAATCT
10777423 ATGATAAAATCGTGAAAC
1 ATGATAAAATCGTGAAAC
10777441 ATGA-AAAA-CGTGAAA
1 ATGATAAAATCGTGAAA
10777456 TGGTAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (18 bp):
ATGATAAAATCGTGAAAC
Found at i:10778549 original size:21 final size:20
Alignment explanation
Indices: 10778524--10778564 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
10778514 ATTAAAATAT
* *
10778524 TATAATAATATAATAATTTTA
1 TATAAAAATAT-ATAAATTTA
10778545 TATAAAAATATATAAATTTA
1 TATAAAAATATATAAATTTA
10778565 AAATCATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAAAATATATAAATTTA
Found at i:10778752 original size:18 final size:18
Alignment explanation
Indices: 10778731--10778765 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10778721 TTGTTAAAAA
*
10778731 TATAGATTTTTAAATTTT
1 TATACATTTTTAAATTTT
*
10778749 TATACATTTTTTAATTT
1 TATACATTTTTAAATTT
10778766 CTAAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TATACATTTTTAAATTTT
Found at i:10778759 original size:19 final size:19
Alignment explanation
Indices: 10778737--10778813 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
10778727 AAAATATAGA
*
10778737 TTTTTAAATTTTTATACAT
1 TTTTTAAATTTTTATAAAT
*
10778756 TTTTT-AATTTCTA-AAAT
1 TTTTTAAATTTTTATAAAT
10778773 TATTTTAAATTATTT-TAAAT
1 T-TTTTAAATT-TTTATAAAT
* * *
10778793 TATTTCAATTTTTTTAAAT
1 TTTTTAAATTTTTATAAAT
10778812 TT
1 TT
10778814 ATTTCCAAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
17 4 0.09
18 14 0.30
19 22 0.47
20 7 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTAAATTTTTATAAAT
Found at i:10778784 original size:10 final size:10
Alignment explanation
Indices: 10778769--10778817 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
10778759 TTAATTTCTA
10778769 AAATTATTTT
1 AAATTATTTT
10778779 AAATTATTTT
1 AAATTATTTT
10778789 AAATTA-TTT
1 AAATTATTTT
* *
10778798 CAATTTTTTT
1 AAATTATTTT
10778808 AAATTTATTT
1 AAA-TTATTT
10778818 CCAAACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 7 0.21
10 21 0.64
11 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
AAATTATTTT
Found at i:10787424 original size:348 final size:346
Alignment explanation
Indices: 10786780--10787469 Score: 1141
Period size: 348 Copynumber: 2.0 Consensus size: 346
10786770 TCTAAGGCAG
* *
10786780 CATTTTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATTTTTATCACATTTTCATTTG
1 CATTCTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATGTTTATCACATTTTCATTTG
*
10786845 CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATTAGCTCATCTATAGC
66 CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTATAGC
* *
10786910 CAATTGTGAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGAGAGA
131 CAATTGTCAAAATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGAGAGA
*
10786975 TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTTTGGTTTG
196 TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGTTTG
****
10787040 AAAAATCACATAATTTGGTGTTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
261 AAAAATCACATAATTTAACATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
*
10787105 AAACTTAGAAGTCAGCATTTA
326 AAACTTAGAAGCCAGCATTTA
10787126 CATTCTGAGAAGTGGGCACTT-CTTCATTTA-CTTGGAAAGCAATATGTTTATCACATTTTCATT
1 CATTCTGAGAAGTGGGCACTTCCTT-ATTTACCTT-GAAAGCAATATGTTTATCACATTTTCATT
* * *
10787189 TGCTATGCTTTGCTTTTGTCTAAATTTATCTCAAAGGTTTGTAAAGAACCAATGAGCTCATCTAT
64 TGCTATGCTTTGC-TTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTAT
* * *
10787254 AGCTAATTGCTCAAAATTTTCGACTTCTTCAATAGCAATAACCTCGATGGAGAACCTCTAAGGGA
128 AGCCAATTG-TCAAAATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGA
*
10787319 GAGATCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCTAATGCAAAAGTCTGG
192 GAGATCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGG
* * *
10787384 TTTGACAAATCACATAATTTAACATTAAAACTCTCCAATTATCTCTTATTCTTACATTCTCAAAC
257 TTTGAAAAATCACATAATTTAACATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAAC
10787449 TTTCAAACTTAGAAGCCAGCA
322 TTTCAAACTTAGAAGCCAGCA
10787470 ATTATATTTT
Statistics
Matches: 319, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
345 6 0.02
346 66 0.21
347 55 0.17
348 192 0.60
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (346 bp):
CATTCTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATGTTTATCACATTTTCATTTG
CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTATAGC
CAATTGTCAAAATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGAGAGA
TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGTTTG
AAAAATCACATAATTTAACATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
AAACTTAGAAGCCAGCATTTA
Found at i:10789165 original size:42 final size:42
Alignment explanation
Indices: 10789118--10789261 Score: 112
Period size: 42 Copynumber: 3.5 Consensus size: 42
10789108 CGAAGGCTAC
* *
10789118 ACAGAAGCACATAAGTGCTAAACGAAAACCCGTAAGGGTTGA
1 ACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
* * * *
10789160 ACAGAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTT-A
1 ACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
* * * * * * * *
10789201 ATCTGAATCTCAGAAGAGCTAAATG-AAACCTATTAGGGTTAA
1 A-CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
* * *
10789243 ACTGAAGCTCAAAAGAGCT
1 ACAGAAGCACATAAGAGCT
10789262 GAACTGGGAC
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 31 0.37
42 53 0.63
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (42 bp):
ACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
Found at i:10789241 original size:41 final size:41
Alignment explanation
Indices: 10789134--10789284 Score: 122
Period size: 42 Copynumber: 3.6 Consensus size: 41
10789124 GCACATAAGT
* * * * * *
10789134 GCTAAACGAAAACCCGTAAGGGTTGAACAGAAGCTCATAGGA
1 GCTAAATG-AAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
** * * *
10789176 GCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAGA
1 GCT-AAATGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
* *
10789218 GCTAAATGAAACCTATTAGGGTTAAACTGAAGCTCAAAAGA
1 GCTAAATGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
* ** *
10789259 GCTGAACTGGGACCCAGAAGGGTTAA
1 GCT-AAATGAAACCCATAAGGGTTAA
10789285 TCTAAAACTC
Statistics
Matches: 85, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
41 34 0.40
42 48 0.56
43 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (41 bp):
GCTAAATGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
Found at i:10789282 original size:83 final size:83
Alignment explanation
Indices: 10789152--10789310 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 83
10789142 AAAACCCGTA
* * * * * *
10789152 AGGGTTGAACAGAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAG
1 AGGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAG
10789217 AGCTAAATGAAACCTATT
66 AGCTAAATGAAACCTATT
* * * *
10789235 AGGGTTAAACTGAAGCTCAAAAGAGCTGAACTGG-GACCCAGAAGGGTTAATCTAAAACTCATAT
1 AGGGTTAAACAGAAGCTCAAAAGAGCTGAAC-GGAAACCCAGAAGGGTTAATCTAAAACTCAGAA
*
10789299 GAGTTAAATGAA
65 GAGCTAAATGAA
10789311 GCTTATGACA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 62 0.97
84 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (83 bp):
AGGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAG
AGCTAAATGAAACCTATT
Found at i:10789327 original size:83 final size:83
Alignment explanation
Indices: 10789163--10789327 Score: 179
Period size: 83 Copynumber: 2.0 Consensus size: 83
10789153 GGGTTGAACA
* * * * *
10789163 GAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAGAGCTAAATGAA
1 GAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGAA
* ** *
10789228 ACCTATTAGGGTTAAACT
66 ACCTATGACAGCTAAACT
* * * *
10789246 GAAGCTCAAAAGAGCTGAACTGG-GACCCAGAAGGGTTAATCTAAAACTCATATGAGTTAAATGA
1 GAAGCTCAAAAGAGCTGAAC-GGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGA
* *
10789310 AGCTTATGACAGCTAAAC
65 AACCTATGACAGCTAAAC
10789328 AGAAAGCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 64 0.97
84 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (83 bp):
GAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGAA
ACCTATGACAGCTAAACT
Found at i:10789827 original size:16 final size:16
Alignment explanation
Indices: 10789803--10789840 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10789793 TAATAAAATT
*
10789803 AAAACTAATTGTTATC
1 AAAATTAATTGTTATC
*
10789819 AAAATTAATTGTTATT
1 AAAATTAATTGTTATC
10789835 AAAATT
1 AAAATT
10789841 GTATCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
AAAATTAATTGTTATC
Found at i:10790078 original size:52 final size:52
Alignment explanation
Indices: 10790000--10790103 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
10789990 ATTGCATGTT
*
10790000 CACCATCCTGTTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
1 CACCATCCTATTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
* *
10790052 CACCATCCTATTCACTGGACATTGAATCACTTGGGTTTCTTTCTATTAAACA
1 CACCATCCTATTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
10790104 ATTAAAAGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (52 bp):
CACCATCCTATTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
Found at i:10790305 original size:16 final size:16
Alignment explanation
Indices: 10790284--10790317 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10790274 TTTATAGCAA
10790284 TAAACATACTTAATTT
1 TAAACATACTTAATTT
10790300 TAAACATACTTAATTT
1 TAAACATACTTAATTT
10790316 TA
1 TA
10790318 TCCTGTCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAACATACTTAATTT
Found at i:10792796 original size:45 final size:45
Alignment explanation
Indices: 10792732--10792827 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 45
10792722 AGCAAGGCAA
10792732 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
1 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
* *
10792777 TAATGTGAAATTT-TGAGCTAATTTTCCATTATATAAACAATCGGC
1 TAATGTGAAATTTCT-AGCTAATGTTCCATTATATAAACAATAGGC
10792822 TAATGT
1 TAATGT
10792828 TCCATTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (45 bp):
TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
Found at i:10794280 original size:10 final size:10
Alignment explanation
Indices: 10794265--10794296 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
10794255 ACTTAAAATT
10794265 ATATATAATG
1 ATATATAATG
*
10794275 ATATATAATA
1 ATATATAATG
10794285 ATATATAATG
1 ATATATAATG
10794295 AT
1 AT
10794297 GGGGATGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (10 bp):
ATATATAATG
Found at i:10803953 original size:23 final size:23
Alignment explanation
Indices: 10803908--10803978 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
10803898 CTTAATATTT
* *
10803908 AAGTAAATAT-ATATAATATAATA
1 AAGTAAATATAATA-AAAAAAATA
10803931 AAGTAAATATAATAAAAAAAAT-
1 AAGTAAATATAATAAAAAAAATA
*
10803953 AAGTAAATGA-AATAAAGAAAGATA
1 AAGTAAAT-ATAATAAA-AAAAATA
10803977 AA
1 AA
10803979 ATCAAAATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 14 0.34
23 22 0.54
24 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (23 bp):
AAGTAAATATAATAAAAAAAATA
Found at i:10804010 original size:10 final size:11
Alignment explanation
Indices: 10803995--10804036 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
10803985 ATCAAAATTG
10803995 AGAAAG-AAAA
1 AGAAAGAAAAA
10804005 AGAAAGAAAAA
1 AGAAAGAAAAA
*
10804016 AAAAAGAAAAAA
1 AGAAAG-AAAAA
10804028 AGAAAGAAA
1 AGAAAGAAA
10804037 CAGACGCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 6 0.21
11 12 0.43
12 10 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:10810566 original size:30 final size:30
Alignment explanation
Indices: 10810504--10810574 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
10810494 AACCTCACCA
* * **
10810504 CCACCTCCACCACCACACAATCCAGTTTCT
1 CCACCACCACCACCACACAATCCAATCACT
* *
10810534 CCACCACCACCACCCCACCATCCAATCACT
1 CCACCACCACCACCACACAATCCAATCACT
*
10810564 CCACCGCCACC
1 CCACCACCACC
10810575 TCATGTACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.58, G:0.03, T:0.13
Consensus pattern (30 bp):
CCACCACCACCACCACACAATCCAATCACT
Done.