Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 58 of 250
Found at i:18189982 original size:24 final size:24
Alignment explanation
Indices: 18189918--18189999 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
18189908 CTTGTTCACA
*
18189918 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
18189942 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
18189966 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
18189990 TTCTTTTTCT
1 TTCTTTTTCT
18190000 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:18192792 original size:30 final size:30
Alignment explanation
Indices: 18192758--18192854 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
18192748 TAAACTAAAA
18192758 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * * *
18192788 TGAGCTGAGGC-TAAACTCCTAAGCTGAATT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
18192818 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
18192848 TGAGCTA
1 TGAGCTA
18192855 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.85
31 5 0.10
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:18193851 original size:445 final size:445
Alignment explanation
Indices: 18193022--18194089 Score: 1933
Period size: 445 Copynumber: 2.4 Consensus size: 445
18193012 GCTCGTATCA
*
18193022 ACTAAGAAGTGTCACCCCGATTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAGGTGAA
1 ACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAGGTGAA
* * * *
18193087 CACCACACTAAGATTGGTGATAAGTTCAAACAAGACGATTGATGCCACTAGCACAACCCAGATAA
66 CGCCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCAGATAA
*
18193152 GTCTTTCGAAACTTGTACGAGATATGAGAGGAAGTAACCTCACAAGAACTGATGTGATCCGGCTC
131 GTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACTGATGTGATCCGGCTC
* *
18193217 GAGATGATGAGTCAAATTCACTTAGTTGCTCGATCGTAGTTCGAGAGAGTTGTTCGTGCTTCGGG
196 GAGATGATGAGTCAAATTCACTTAGTTGCCCGATCGTAGTTCGAGAGAGTCGTTCGTGCTTCGGG
*
18193282 TTTTAGAACTAGAAGTGAATGAAAAGATACGGGTAAGCGGAAGGTTTCAAAGTAGGGTGAATTTA
261 TTTTAGAACTAGAAGTGAATGAAAAGATACGGGTAAACGGAAGGTTTCAAAGTAGGGTGAATTTA
*
18193347 GTAATAGGTTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAGTTTGGAATAACAAGA
326 GTAATAGATTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAGTTTGGAATAACAAGA
18193412 AAATAATTCGAAGGAT-AGGAATGGAAAACGAACTTAACGTCAGGAATGATTCAAC
391 AAATAATTCGAAGGATGA-GAATGGAAAACGAACTTAACGTCAGGAATGATTCAAC
18193467 ACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAGGTGAA
1 ACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAGGTGAA
18193532 CGCCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCAGATAA
66 CGCCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCAGATAA
18193597 GTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACTGATGTGATCCGGCTC
131 GTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACTGATGTGATCCGGCTC
* * *
18193662 GGGATGATGAGTCGAATTCACTTAGTTGCCCGATCGTCGTTCGAGAGAGTCGTTCGTGCTTCGGG
196 GAGATGATGAGTCAAATTCACTTAGTTGCCCGATCGTAGTTCGAGAGAGTCGTTCGTGCTTCGGG
*
18193727 TTTTAGAACTAGAAGTGAATGAAAAGATACGGGTAAATGGAAGGTTTCAAAGTAGGGTGAATTTA
261 TTTTAGAACTAGAAGTGAATGAAAAGATACGGGTAAACGGAAGGTTTCAAAGTAGGGTGAATTTA
* *
18193792 GTAATAGATTCGATTTAGTAGCAGAGATGGATGATGGTTAAATGGCTCGGTTTGGAATAACAAGA
326 GTAATAGATTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAGTTTGGAATAACAAGA
*
18193857 AAATAATTCGAAGGATGAGAATGGAAAACGAACTTAACGTTAGGAATGATTCAAC
391 AAATAATTCGAAGGATGAGAATGGAAAACGAACTTAACGTCAGGAATGATTCAAC
*
18193912 ACTAAGAAGTGTCA-CTCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAGGTGAA
1 ACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAGGTGAA
*
18193976 CGCCACACCAAGATTGGTGATAAGTTCAAACAAGACAATTGACGCCACTAGCACAAGCCAGATAA
66 CGCCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCAGATAA
*
18194041 GTCTTTCGAAACTTGTACGAGATATGAGAGAAAGCAACCTCACAAGAAC
131 GTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAAC
18194090 AAATGTTCAT
Statistics
Matches: 602, Mismatches: 20, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
444 161 0.27
445 440 0.73
446 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (445 bp):
ACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAGGTGAA
CGCCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCAGATAA
GTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACTGATGTGATCCGGCTC
GAGATGATGAGTCAAATTCACTTAGTTGCCCGATCGTAGTTCGAGAGAGTCGTTCGTGCTTCGGG
TTTTAGAACTAGAAGTGAATGAAAAGATACGGGTAAACGGAAGGTTTCAAAGTAGGGTGAATTTA
GTAATAGATTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAGTTTGGAATAACAAGA
AAATAATTCGAAGGATGAGAATGGAAAACGAACTTAACGTCAGGAATGATTCAAC
Found at i:18194996 original size:10 final size:10
Alignment explanation
Indices: 18194983--18195017 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
18194973 AAGCTCGGTT
*
18194983 GAGCTCAAAC
1 GAGCTGAAAC
18194993 GAGCTGAAAC
1 GAGCTGAAAC
18195003 GAGCTGAAAC
1 GAGCTGAAAC
18195013 GAGCT
1 GAGCT
18195018 TAAATGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.37, C:0.23, G:0.29, T:0.11
Consensus pattern (10 bp):
GAGCTGAAAC
Found at i:18202788 original size:21 final size:21
Alignment explanation
Indices: 18202743--18202805 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
18202733 TTTGAACCAT
* *
18202743 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
18202765 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
18202786 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
18202806 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:18203515 original size:20 final size:20
Alignment explanation
Indices: 18203469--18203516 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
18203459 AGTAAGCTCG
18203469 GTTGAGCTCAAACAAGCTGA
1 GTTGAGCTCAAACAAGCTGA
*** **
18203489 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACAAGCTGA
18203509 GTTGAGCT
1 GTTGAGCT
18203517 GGATGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACAAGCTGA
Found at i:18205049 original size:7 final size:6
Alignment explanation
Indices: 18205013--18205055 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
18205003 CTTTTCGCTC
** *
18205013 TCTTTT TCAATT TCATTT TCTTTT TCTTTT TCTTTT TGCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T-CTTTT
18205056 CAAAGGCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.74
Consensus pattern (6 bp):
TCTTTT
Found at i:18205128 original size:5 final size:5
Alignment explanation
Indices: 18205118--18205174 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
18205108 CTCTTGCCTC
*
18205118 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTT TGCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-CTTT T-CTTT
18205165 TCTTT TCTTT
1 TCTTT TCTTT
18205175 ATTTTCTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.56
6 15 0.33
7 1 0.02
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:18205184 original size:16 final size:16
Alignment explanation
Indices: 18205116--18205185 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
18205106 GCCTCTTGCC
18205116 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTAT
*
18205132 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTAT
* **
18205148 TCT-TTTGCTTTTGCT
1 TCTCTTTTCTTTTTAT
*
18205163 TTTCTTTTCTTTATT-T
1 TCTCTTTTCTTT-TTAT
18205179 TCTCTTT
1 TCTCTTT
18205186 ACAAGAATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
15 14 0.33
16 27 0.63
17 2 0.05
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (16 bp):
TCTCTTTTCTTTTTAT
Found at i:18208804 original size:20 final size:19
Alignment explanation
Indices: 18208781--18208845 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
18208771 AAGCTCAAAC
18208781 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
18208801 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
18208821 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
18208841 GAGCT
1 GAGCT
18208846 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:18210657 original size:33 final size:33
Alignment explanation
Indices: 18210619--18210681 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
18210609 GATTACTCAC
18210619 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
18210652 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
18210682 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:18210708 original size:21 final size:21
Alignment explanation
Indices: 18210679--18210734 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
18210669 CAAGCTCTCT
*
18210679 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
18210700 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
18210721 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
18210735 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:18210727 original size:14 final size:14
Alignment explanation
Indices: 18210678--18210734 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
18210668 TCAAGCTCTC
18210678 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
18210691 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
18210705 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
18210719 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
18210733 TT
1 TT
18210735 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:18210762 original size:18 final size:18
Alignment explanation
Indices: 18210741--18210798 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
18210731 TTTTCTCTCA
18210741 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
18210759 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
18210777 C-TTTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
18210794 GTTTT
1 CTTTT
18210799 CTTTCAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.05, C:0.16, G:0.07, T:0.72
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:18210787 original size:11 final size:11
Alignment explanation
Indices: 18210768--18210802 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
18210758 TCTTTTGCAA
*
18210768 TTTCTTTTTCT
1 TTTCGTTTTCT
18210779 TTTCGTTTTCT
1 TTTCGTTTTCT
*
18210790 TTTTGTTTTCT
1 TTTCGTTTTCT
18210801 TT
1 TT
18210803 CAATTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (11 bp):
TTTCGTTTTCT
Found at i:18210815 original size:6 final size:6
Alignment explanation
Indices: 18210696--18210802 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
18210686 TCTTTTTTCG
* * * **
18210696 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
18210747 CGATTT CTTTTT CTTTTG CAATTT CTTTTT C-TTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
18210794 -GTTTT CTTT
1 CTTTTT CTTT
18210803 CAATTTCTTT
Statistics
Matches: 73, Mismatches: 24, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
5 9 0.12
6 52 0.71
7 9 0.12
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:18214219 original size:30 final size:30
Alignment explanation
Indices: 18214134--18214230 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
18214124 TAAACTAAAA
* *
18214134 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
18214164 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
18214194 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
18214223 ATGAGCTA
1 -TGAGCTA
18214231 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:18216089 original size:14 final size:14
Alignment explanation
Indices: 18216070--18216096 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18216060 GAAGCTATTC
18216070 AAGGGGTTAAAATG
1 AAGGGGTTAAAATG
18216084 AAGGGGTTAAAAT
1 AAGGGGTTAAAAT
18216097 ATGAATGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (14 bp):
AAGGGGTTAAAATG
Found at i:18218779 original size:30 final size:31
Alignment explanation
Indices: 18218697--18218782 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
18218687 CTTTTGTTTC
* *
18218697 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
* *
18218728 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
* * *
18218757 ATTTTCTTTTTCTTTTTGTTTTTCAA
1 AATTTCTTTTTCATTTTCTTTTTCAA
18218783 AGGCTTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 5 0.11
30 35 0.76
31 6 0.13
ACGTcount: A:0.14, C:0.21, G:0.02, T:0.63
Consensus pattern (31 bp):
AATTTCTTTTTCATTTTCTTTTTCAATCTCA
Found at i:18218852 original size:5 final size:5
Alignment explanation
Indices: 18218842--18218903 Score: 65
Period size: 5 Copynumber: 12.0 Consensus size: 5
18218832 CTCTTGCCTC
*
18218842 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TCCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
18218889 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
18218904 GTTTTCTCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 4 0.08
5 34 0.69
6 6 0.12
7 5 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:18218895 original size:31 final size:30
Alignment explanation
Indices: 18218842--18218899 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
18218832 CTCTTGCCTC
18218842 TCTTTTCTTTTTATTTCATTTTCTTTTTCT
1 TCTTTTCTTTTTATTTCATTTTCTTTTTCT
*
18218872 TCTTTTCCTTTTTCTTTTC-TTTTCTTTT
1 TCTTTT-CTTTTT-ATTTCATTTTCTTTT
18218900 CTTTGTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 6 0.24
31 15 0.60
32 4 0.16
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (30 bp):
TCTTTTCTTTTTATTTCATTTTCTTTTTCT
Found at i:18218900 original size:15 final size:14
Alignment explanation
Indices: 18218842--18218910 Score: 66
Period size: 16 Copynumber: 4.6 Consensus size: 14
18218832 CTCTTGCCTC
18218842 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
18218857 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
18218872 TCTTTTCCTTTTTCTTT
1 TCTTTT-C-TTTT-TTT
*
18218889 TCTTTTCTTTTCTT
1 TCTTTTCTTTTTTT
*
18218903 TGTTTTCT
1 TCTTTTCT
18218911 CTTTACAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
14 13 0.28
15 10 0.22
16 15 0.33
17 8 0.17
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:18221528 original size:30 final size:30
Alignment explanation
Indices: 18221443--18221539 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
18221433 TAAACTAAAA
* *
18221443 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
18221473 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18221503 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18221532 ATGAGCTA
1 -TGAGCTA
18221540 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:18228279 original size:21 final size:21
Alignment explanation
Indices: 18228253--18228306 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
18228243 TTGGTATTTG
* *
18228253 GGAATTGGTTCGAAATAGTAT
1 GGAATTGGTACAAAATAGTAT
*
18228274 GGAATTGGTACAAAATGGTAT
1 GGAATTGGTACAAAATAGTAT
*
18228295 GGTATTTGGTAC
1 GG-AATTGGTAC
18228307 GAATTGGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.31, C:0.06, G:0.30, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACAAAATAGTAT
Found at i:18228306 original size:22 final size:22
Alignment explanation
Indices: 18228255--18228320 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
18228245 GGTATTTGGG
* * *
18228255 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACAAAATGGTATGGT
18228276 AATTGGTACAAAATGGTATGGT
1 AATTGGTACAAAATGGTATGGT
* * *
18228298 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACAAAATGGT-ATGGT
18228321 TCAAAGAGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 18 0.49
22 14 0.38
23 5 0.14
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (22 bp):
AATTGGTACAAAATGGTATGGT
Found at i:18230359 original size:16 final size:15
Alignment explanation
Indices: 18230340--18230383 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
18230330 GGAATATTGT
18230340 AAAAAAACAAAAGAA
1 AAAAAAACAAAAGAA
* *
18230355 GAAAAAA-ATAAGAA
1 AAAAAAACAAAAGAA
18230369 AAAGAAAACAAAAGA
1 AAA-AAAACAAAAGA
18230384 GAGTGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 8 0.35
15 10 0.43
16 5 0.22
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAAAAACAAAAGAA
Found at i:18231814 original size:30 final size:30
Alignment explanation
Indices: 18231787--18231874 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
18231777 CCTGCTCATA
18231787 TTCAGCTCATGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCATGAGCTAAACCTTAGCTCAAC
* * * * * *
18231817 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTCAGCTCATGAGCTAAACCTTAGCTCAAC
* *
18231847 TTTAGCTCATGAGCTAAAGCTTAGCTCA
1 TTCAGCTCATGAGCTAAACCTTAGCTCA
18231875 TTTTAGTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (30 bp):
TTCAGCTCATGAGCTAAACCTTAGCTCAAC
Found at i:18233084 original size:14 final size:14
Alignment explanation
Indices: 18233065--18233093 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18233055 TATTTTCTAA
18233065 TATTGGTTCATGCT
1 TATTGGTTCATGCT
18233079 TATTGGTTCATGCT
1 TATTGGTTCATGCT
18233093 T
1 T
18233094 GCTTTTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.52
Consensus pattern (14 bp):
TATTGGTTCATGCT
Found at i:18233583 original size:12 final size:12
Alignment explanation
Indices: 18233566--18233610 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
18233556 TATACAAGTC
18233566 AAAAAAAATTCG
1 AAAAAAAATTCG
*
18233578 AAAAAAAATTCA
1 AAAAAAAATTCG
18233590 AAAAAAAATTCG
1 AAAAAAAATTCG
18233602 AAAAGAAAA
1 AAAA-AAAA
18233611 AAAAATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 26 0.87
13 4 0.13
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:18234547 original size:9 final size:10
Alignment explanation
Indices: 18234540--18234596 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
18234530 AAGAGAAAAT
18234540 AAAGAAAAGA
1 AAAGAAAAGA
18234550 AAAGAAAAAGTA
1 AAAG-AAAAG-A
*
18234562 AAAGAAGA-A
1 AAAGAAAAGA
18234571 AAAGAAAACGA
1 AAAGAAAA-GA
18234582 AATA-AAAAGA
1 AA-AGAAAAGA
18234592 AAAGA
1 AAAGA
18234597 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:18234563 original size:21 final size:20
Alignment explanation
Indices: 18234529--18234596 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
18234519 ACATTCTTGT
18234529 AAAGAGAAAA-TAAAGAAAAGA
1 AAAGA-AAAAGTAAA-AAAAGA
*
18234550 AAAGAAAAAGTAAAAGAAGAA
1 AAAGAAAAAGTAAAAAAAG-A
* *
18234571 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGTAA-AAAAAGA
18234592 AAAGA
1 AAAGA
18234597 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAGAAAAAGTAAAAAAAGA
Found at i:18234564 original size:6 final size:5
Alignment explanation
Indices: 18234540--18234596 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
18234530 AAGAGAAAAT
*
18234540 AAAGA AAAGA AAAGAA AAAGTA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
18234587 AAAGA AAAGA
1 AAAGA AAAGA
18234597 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:18234571 original size:15 final size:14
Alignment explanation
Indices: 18234540--18234596 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
18234530 AAGAGAAAAT
18234540 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
18234556 AAAGTAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
18234571 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
18234587 AAAGAAAAGA
1 AAAGAAAAGA
18234597 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:18234676 original size:11 final size:12
Alignment explanation
Indices: 18234644--18234674 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18234634 TTGAGAGAAC
18234644 TTGAAAAAGCCT
1 TTGAAAAAGCCT
18234656 TTGAAAAAGCCT
1 TTGAAAAAGCCT
18234668 TTGAAAA
1 TTGAAAA
18234675 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:18234711 original size:30 final size:31
Alignment explanation
Indices: 18234677--18234758 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
18234667 TTTGAAAAGC
*
18234677 AAAAAGAAAATGAAAAAGAAA-ATAAGATTG
1 AAAAAGAAAATGAAAAAGAAATATAAGAGTG
* * * *
18234707 AAAAAGAGAACG-AAAAGAAATCTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATAAGAGTG
*
18234737 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
18234759 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.11
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATAAGAGTG
Found at i:18238230 original size:33 final size:33
Alignment explanation
Indices: 18238192--18238254 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
18238182 GATTACTCAC
18238192 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
18238225 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
18238255 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:18238281 original size:14 final size:14
Alignment explanation
Indices: 18238257--18238310 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
18238247 TCTCTTTCAA
*
18238257 TTTCTTTTTTCTCTT
1 TTTC-TTTTTCTCAT
*
18238272 TTTCTTTTTC-AAT
1 TTTCTTTTTCTCAT
18238285 TTTC-TTTTCTTCAT
1 TTTCTTTTTC-TCAT
18238299 TTTCTTTTTCTC
1 TTTCTTTTTCTC
18238311 TCACTTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 14 0.42
15 9 0.27
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTTTTTCTCAT
Found at i:18238281 original size:27 final size:27
Alignment explanation
Indices: 18238251--18238308 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
18238241 TCAAGCTCTC
* *
18238251 TTTCAA-TTTCTTTTTTCTCTTTTTCTT
1 TTTCAATTTTCTTTTCT-TCATTTTCTT
18238278 TTTCAATTTTCTTTTCTTCATTTTCTT
1 TTTCAATTTTCTTTTCTTCATTTTCTT
18238305 TTTC
1 TTTC
18238309 TCTCACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTCAATTTTCTTTTCTTCATTTTCTT
Found at i:18238307 original size:15 final size:15
Alignment explanation
Indices: 18238252--18238309 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
18238242 CAAGCTCTCT
*
18238252 TTCAATTTCTTTTT-
1 TTCATTTTCTTTTTC
*
18238266 TCTCTTTTTCTTTTTC
1 T-TCATTTTCTTTTTC
*
18238282 --AATTTTC-TTTTC
1 TTCATTTTCTTTTTC
18238294 TTCATTTTCTTTTTC
1 TTCATTTTCTTTTTC
18238309 T
1 T
18238310 CTCACTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 7 0.21
15 17 0.50
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCATTTTCTTTTTC
Found at i:18239404 original size:22 final size:22
Alignment explanation
Indices: 18239374--18239443 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
18239364 CTCGCAAGAC
18239374 TTTTCACTTTTTTTTTCTTCTT
1 TTTTCACTTTTTTTTTCTTCTT
*
18239396 TTTTTACTTTTTTTTTCTT-TT
1 TTTTCACTTTTTTTTTCTTCTT
*
18239417 TTGCTCACTTCTTTTTTT-TTCTT
1 TT-TTCACTT-TTTTTTTCTTCTT
18239440 TTTT
1 TTTT
18239444 TTGATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 4 0.10
22 26 0.63
23 11 0.27
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.79
Consensus pattern (22 bp):
TTTTCACTTTTTTTTTCTTCTT
Found at i:18239456 original size:10 final size:10
Alignment explanation
Indices: 18239428--18239466 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
18239418 TGCTCACTTC
**
18239428 TTTTTTTTTC
1 TTTTTTTTGA
18239438 TTTTTTTTGA
1 TTTTTTTTGA
18239448 TTTTTTTTGAA
1 TTTTTTTTG-A
18239459 TTTTTTTT
1 TTTTTTTT
18239467 TGAATTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.85
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:18239467 original size:12 final size:12
Alignment explanation
Indices: 18239438--18239473 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
18239428 TTTTTTTTTC
18239438 TTTTTTTTG-A-
1 TTTTTTTTGAAT
18239448 TTTTTTTTGAAT
1 TTTTTTTTGAAT
18239460 TTTTTTTTGAAT
1 TTTTTTTTGAAT
18239472 TT
1 TT
18239474 CTTCTCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
12 14 0.58
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:18243081 original size:30 final size:30
Alignment explanation
Indices: 18243047--18243143 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
18243037 AGCTCACTCC
18243047 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
18243077 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
18243107 CAGCTCAACTTTAGCTCATGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
18243137 TAGCTCA
1 TAGCTCA
18243144 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:18248529 original size:13 final size:13
Alignment explanation
Indices: 18248511--18248535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18248501 GTATTGATCA
18248511 TGTGTTCACACCT
1 TGTGTTCACACCT
18248524 TGTGTTCACACC
1 TGTGTTCACACC
18248536 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:18250251 original size:22 final size:20
Alignment explanation
Indices: 18250212--18250251 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18250202 GCTGGAACCT
18250212 TCCTTGAAGATTCTTGAACG
1 TCCTTGAAGATTCTTGAACG
*
18250232 TCCTTGGAAGCTTCCTTGAA
1 TCCTT-GAAGATT-CTTGAA
18250252 GTTTCCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
TCCTTGAAGATTCTTGAACG
Found at i:18254293 original size:30 final size:30
Alignment explanation
Indices: 18254259--18254355 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
18254249 TAAACTAAAA
*
18254259 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
* * * * *
18254289 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTAAGCTAAAGT
* *
18254319 TGAGCTAAGGTTTAGCTCGTAAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTAAGCT-AAAGT
18254349 TGAGCTA
1 TGAGCTA
18254356 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
Found at i:18255418 original size:20 final size:20
Alignment explanation
Indices: 18255395--18255433 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18255385 TTTCCACTCT
18255395 TTTTGTT-TTCTTTCTTTTTA
1 TTTTGTTCTT-TTTCTTTTTA
18255415 TTTTGTTCTTTTTCTTTTT
1 TTTTGTTCTTTTTCTTTTT
18255434 CTCTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (20 bp):
TTTTGTTCTTTTTCTTTTTA
Found at i:18255438 original size:14 final size:15
Alignment explanation
Indices: 18255391--18255440 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
18255381 ACTTTTTCCA
*
18255391 CTCTTTTTGTTTTCT
1 CTCTTTTTATTTTCT
* *
18255406 TTCTTTTTATTTTGT
1 CTCTTTTTATTTTCT
*
18255421 -TCTTTTTCTTTT-T
1 CTCTTTTTATTTTCT
18255434 CTCTTTT
1 CTCTTTT
18255441 AATGGATTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 17 0.57
15 12 0.40
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (15 bp):
CTCTTTTTATTTTCT
Found at i:18263457 original size:30 final size:30
Alignment explanation
Indices: 18263423--18263520 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
18263413 AGCTCACTCC
*
18263423 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGTTAAACCT
* ** * * * *
18263453 TAGCTTAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGTTAAACCT
* * *
18263483 CAGCTCA-ACTTTAGCTCACGAGTTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGTTAAACCT
18263513 TAGCTCAT
1 TAGCTCAT
18263521 TTTAGTTTAA
Statistics
Matches: 49, Mismatches: 17, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGTTAAACCT
Found at i:18265155 original size:14 final size:13
Alignment explanation
Indices: 18265114--18265155 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
18265104 TATACAAGTC
*
18265114 AAAAAAAAT-TCA
1 AAAAAAAATCTGA
* *
18265126 AAAAAAATTTTGA
1 AAAAAAAATCTGA
18265139 AAAAAAAATCTGA
1 AAAAAAAATCTGA
18265152 AAAA
1 AAAA
18265156 GAAAGTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (13 bp):
AAAAAAAATCTGA
Found at i:18266232 original size:30 final size:30
Alignment explanation
Indices: 18266159--18266239 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
18266149 TTTGAAAAGC
* * *
18266159 AAAAAGAAAATGAAAA-AAA-ATGAGATTG
1 AAAAAGAAGATGAAAAGAAATTTGAGAGTG
*
18266187 AAAAAG-AGAACGAAAAGAAATTTGAGAGTG
1 AAAAAGAAG-ATGAAAAGAAATTTGAGAGTG
18266217 AAAAAGAAGATGAAAAAGAAATT
1 AAAAAGAAGATG-AAAAGAAATT
18266240 GAAACAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 1 0.02
28 12 0.28
29 3 0.07
30 15 0.35
31 12 0.28
ACGTcount: A:0.64, C:0.01, G:0.21, T:0.14
Consensus pattern (30 bp):
AAAAAGAAGATGAAAAGAAATTTGAGAGTG
Found at i:18267886 original size:13 final size:12
Alignment explanation
Indices: 18267856--18267916 Score: 63
Period size: 13 Copynumber: 5.1 Consensus size: 12
18267846 GTATTACGGT
*
18267856 ATTGTAAAAAAA
1 ATTGAAAAAAAA
18267868 A-T-AAAAAAAA
1 ATTGAAAAAAAA
*
18267878 CTTGAAAAAAAAA
1 ATTG-AAAAAAAA
18267891 ATTCGAAAAAAAA
1 ATT-GAAAAAAAA
*
18267904 ATTCAAAAAAAA
1 ATTGAAAAAAAA
18267916 A
1 A
18267917 GTTTGTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 10 0.24
13 21 0.51
14 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (12 bp):
ATTGAAAAAAAA
Found at i:18268002 original size:26 final size:29
Alignment explanation
Indices: 18267960--18268027 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 29
18267950 TAGTATTGAA
* *
18267960 GAAAAAAAAGAAGAAAAAAATTCGGAATT
1 GAAAAAAAAGAAGAAAAAAAATCGAAATT
18267989 -AAAAAAAAG-A-AAAAAAAATCGAAATT
1 GAAAAAAAAGAAGAAAAAAAATCGAAATT
18268015 GAAAAAAAA-AAGA
1 GAAAAAAAAGAAGA
18268028 GTGATTGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
26 14 0.41
27 10 0.29
28 10 0.29
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (29 bp):
GAAAAAAAAGAAGAAAAAAAATCGAAATT
Found at i:18268024 original size:28 final size:28
Alignment explanation
Indices: 18267961--18268027 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
18267951 AGTATTGAAG
*
18267961 AAAAAAAAGAAGAAAAAAATTCGGAATT
1 AAAAAAAAGAAGAAAAAAATTCGAAATT
18267989 AAAAAAAAGAA-AAAAAAA-TCGAAATT
1 AAAAAAAAGAAGAAAAAAATTCGAAATT
18268015 GAAAAAAAA-AAGA
1 -AAAAAAAAGAAGA
18268028 GTGATTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 9 0.25
27 16 0.44
28 11 0.31
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (28 bp):
AAAAAAAAGAAGAAAAAAATTCGAAATT
Found at i:18270406 original size:20 final size:20
Alignment explanation
Indices: 18270381--18270435 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
18270371 TGTGGTTCAA
*
18270381 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
18270401 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
18270421 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
18270436 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:18272935 original size:22 final size:22
Alignment explanation
Indices: 18272907--18272950 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18272897 TTTTGAACCA
18272907 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
18272929 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
18272951 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:18276471 original size:17 final size:18
Alignment explanation
Indices: 18276432--18276473 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
18276422 AAGAAGAAAA
18276432 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
18276449 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
18276466 TCAAAAGA
1 ACAAAAGA
18276474 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:18283588 original size:21 final size:21
Alignment explanation
Indices: 18283543--18283605 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
18283533 TTTGAACCAT
* *
18283543 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
18283565 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
18283586 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
18283606 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:18284980 original size:15 final size:15
Alignment explanation
Indices: 18284960--18284993 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18284950 CCTTTCCACG
* *
18284960 TCTTTTTCTTTTGTT
1 TCTTTTTCTCTTCTT
18284975 TCTTTTTCTCTTCTT
1 TCTTTTTCTCTTCTT
18284990 TCTT
1 TCTT
18284994 CAATTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TCTTTTTCTCTTCTT
Found at i:18290749 original size:20 final size:20
Alignment explanation
Indices: 18290726--18290772 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18290716 GGGTTAAAAT
*
18290726 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
18290746 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
18290766 TGAGCTG
1 TGAGCTG
18290773 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:18292492 original size:21 final size:20
Alignment explanation
Indices: 18292438--18292492 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
18292428 TTTGTTGATC
18292438 AAGTGAAAGAAAAAGAAAAGA
1 AAGTGAAA-AAAAAGAAAAGA
* * *
18292459 ATGAGAATGAAAAAGAAAAGA
1 AAGTGAA-AAAAAAGAAAAGA
18292480 AAGTTGAAAAAAA
1 AAG-TGAAAAAAA
18292493 GAGGGAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (20 bp):
AAGTGAAAAAAAAGAAAAGA
Found at i:18292557 original size:9 final size:9
Alignment explanation
Indices: 18292539--18292568 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
18292529 AGAAAGTGAG
18292539 AGAAGAAAA
1 AGAAGAAAA
*
18292548 AGATGAAAA
1 AGAAGAAAA
18292557 AGAAGAAAA
1 AGAAGAAAA
18292566 AGA
1 AGA
18292569 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:18296802 original size:18 final size:19
Alignment explanation
Indices: 18296779--18296817 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18296769 TTTATCTCAA
*
18296779 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
18296797 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
18296816 TT
1 TT
18296818 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:18296833 original size:48 final size:49
Alignment explanation
Indices: 18296781--18296884 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
18296771 TATCTCAATT
* * *
18296781 TCTTTTTCCACTCT-TTTTTC-TTGTTCACATTCTTTTTCTCTCTCAAAC
1 TCTTTTTCCACTCTCTTTTTCAAT-CTCACATTCTTTTTCACTCTCAAAC
* ** *
18296829 TCTTTTT-CATTCTCTTTTTCAATCTCATTTTCTTTTTCACTCTCAATC
1 TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
18296877 TCTTTTTC
1 TCTTTTTC
18296885 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
47 5 0.11
48 40 0.87
49 1 0.02
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (49 bp):
TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
Found at i:18296856 original size:18 final size:18
Alignment explanation
Indices: 18296835--18296884 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
18296825 AAACTCTTTT
18296835 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
18296853 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
18296871 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
18296885 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:18296874 original size:24 final size:24
Alignment explanation
Indices: 18296810--18296891 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
18296800 CTTGTTCACA
*
18296810 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
18296834 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
18296858 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
18296882 TTCTTTTTCT
1 TTCTTTTTCT
18296892 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:18296943 original size:42 final size:42
Alignment explanation
Indices: 18296888--18296984 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
18296878 CTTTTTCTTT
* * * *
18296888 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTTAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
18296929 TTCTCTCATTTTCTTTGTTTCTTCTCTTGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
18296971 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
18296985 CTCATAATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 7 0.14
42 42 0.86
ACGTcount: A:0.14, C:0.22, G:0.05, T:0.59
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:18296962 original size:21 final size:21
Alignment explanation
Indices: 18296895--18296962 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
18296885 TTTTTCTTTC
* *
18296895 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTTG
* *
18296916 ATTTCATTTAAGATTC-TCTCAT-
1 ATTTC-TTT--GTTTCTTCTCTTG
18296938 -TTTCTTTGTTTCTTCTCTTG
1 ATTTCTTTGTTTCTTCTCTTG
18296958 ATTTC
1 ATTTC
18296963 ATTCAAAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 3 0.09
21 13 0.37
22 3 0.09
23 3 0.09
24 4 0.11
ACGTcount: A:0.12, C:0.19, G:0.07, T:0.62
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTTG
Found at i:18301597 original size:49 final size:48
Alignment explanation
Indices: 18301537--18301630 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 48
18301527 AATTATTTTG
* *
18301537 GTTTAATTAATTAAGTTG-TTTTAATTGTCTTTAGCTGTTTAAATAAATA
1 GTTTAAATAATTAAGTTGTTTTTAA-T-TCTTTAGCTGCTTAAATAAATA
*
18301586 GTTTAAATAATTAAGTTGTTTTTAATTCTTTAGTTGCTTAAATAA
1 GTTTAAATAATTAAGTTGTTTTTAATTCTTTAGCTGCTTAAATAA
18301631 TTTCGGCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
48 17 0.41
49 18 0.44
50 6 0.15
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (48 bp):
GTTTAAATAATTAAGTTGTTTTTAATTCTTTAGCTGCTTAAATAAATA
Found at i:18302797 original size:20 final size:20
Alignment explanation
Indices: 18302774--18302820 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
18302764 AGCTCCAGTC
18302774 AGCTCAAATCAGCTCGTTTG
1 AGCTCAAATCAGCTCGTTTG
* **
18302794 AGCTTATTTCAGCTCGTTTG
1 AGCTCAAATCAGCTCGTTTG
*
18302814 AGTTCAA
1 AGCTCAA
18302821 TTTAGCTACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
AGCTCAAATCAGCTCGTTTG
Found at i:18304959 original size:17 final size:18
Alignment explanation
Indices: 18304923--18304961 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
18304913 AGCAATCAAA
18304923 AATTAATGTGTCTAAATT
1 AATTAATGTGTCTAAATT
*
18304941 AATTAATGTG-CTGAATT
1 AATTAATGTGTCTAAATT
18304958 AATT
1 AATT
18304962 TGTGTGTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (18 bp):
AATTAATGTGTCTAAATT
Found at i:18310193 original size:50 final size:51
Alignment explanation
Indices: 18310113--18310345 Score: 209
Period size: 50 Copynumber: 4.7 Consensus size: 51
18310103 AATCTTACAC
* * * * * **
18310113 ATCGATGCCGATGTCATATCCTAGATATGGTCTTACACCGA-CTCTCATAA
1 ATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACCGAGCTCTCATCT
* * *
18310163 ATCGAGGCCTATGCCATGTCCCAGACATGGTCTTATA-CTAGCTCTCATCT
1 ATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACCGAGCTCTCATCT
* * *
18310213 GTCG-GTGACGATGCCATGTCCCAGACATGGTCTTACA-CTAGCTCTCATCT
1 ATCGAG-GCCGATGCCATGTCCCAGACATGGTCTTACACCGAGCTCTCATCT
* * * * *
18310263 GTCGATGCCGATGCCATGTCCCAAACATGGTCTTACACTGA-CACAT-AT-T
1 ATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACCGAGCTC-TCATCT
18310312 A---A-GCCGATGCCATGTCCCAGACATGGTCTTACAC
1 ATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACAC
18310346 TGGCTCACAT
Statistics
Matches: 156, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
45 31 0.20
46 1 0.01
49 4 0.03
50 118 0.76
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (51 bp):
ATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACCGAGCTCTCATCT
Found at i:18313752 original size:20 final size:20
Alignment explanation
Indices: 18313727--18313777 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
18313717 TGCAAGATGA
18313727 AGCTCATTTCAGCT-CAA-TC
1 AGCTCATTT-AGCTACAATTC
18313746 GAGCTCAATTTAGCTACAATTC
1 -AGCTC-ATTTAGCTACAATTC
18313768 AGCTCATTTA
1 AGCTCATTTA
18313778 TTTTATTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 14 0.50
21 12 0.43
22 2 0.07
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
AGCTCATTTAGCTACAATTC
Found at i:18313771 original size:11 final size:10
Alignment explanation
Indices: 18313727--18313773 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18313717 TGCAAGATGA
*
18313727 AGCTCATTTC
1 AGCTCAATTC
18313737 AGCTCAA-TC
1 AGCTCAATTC
*
18313746 GAGCTCAATTT
1 -AGCTCAATTC
18313757 AGCTACAATTC
1 AGCT-CAATTC
18313768 AGCTCA
1 AGCTCA
18313774 TTTATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 2 0.06
10 19 0.61
11 10 0.32
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:18314502 original size:20 final size:20
Alignment explanation
Indices: 18314446--18314502 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
18314436 AGCTCCGTTT
* *
18314446 AGCTCATTTCCAGCTCACTCG
1 AGCTCAATT-CAGCTCACTCA
* *
18314467 AGCTCAAGTCAACTCACTCA
1 AGCTCAATTCAGCTCACTCA
18314487 AGCTCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
18314503 ATCTTAACCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.25
Consensus pattern (20 bp):
AGCTCAATTCAGCTCACTCA
Found at i:18316721 original size:16 final size:16
Alignment explanation
Indices: 18316683--18316725 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
18316673 AAAAAAATCG
18316683 AGCAAAAAAAAAGAAA
1 AGCAAAAAAAAAGAAA
* ***
18316699 AGAAAAAAAAAAGGTC
1 AGCAAAAAAAAAGAAA
18316715 AGCAAAAAAAA
1 AGCAAAAAAAA
18316726 TCAAGTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.02
Consensus pattern (16 bp):
AGCAAAAAAAAAGAAA
Found at i:18317752 original size:24 final size:24
Alignment explanation
Indices: 18317725--18317804 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
18317715 CCATTGAGCG
18317725 AGAAAAGGAGAAAGAGATTGAAAA
1 AGAAAAGGAGAAAGAGATTGAAAA
** * * **
18317749 AGAAATCGAAAAAGTGAGAGAAAA
1 AGAAAAGGAGAAAGAGATTGAAAA
* *
18317773 AGAAAATGAAGAAAAGAAAATTGAAAA
1 AGAAAA-GGAG-AAAG-AGATTGAAAA
18317800 AGAAA
1 AGAAA
18317805 TTGAGAATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
24 23 0.59
25 1 0.03
26 4 0.10
27 11 0.28
ACGTcount: A:0.66, C:0.01, G:0.24, T:0.09
Consensus pattern (24 bp):
AGAAAAGGAGAAAGAGATTGAAAA
Found at i:18317805 original size:12 final size:12
Alignment explanation
Indices: 18317735--18317833 Score: 59
Period size: 12 Copynumber: 8.6 Consensus size: 12
18317725 AGAAAAGGAG
*
18317735 AAAGAGATTGAA
1 AAAGAAATTGAA
*
18317747 AAAGAAATCGAA
1 AAAGAAATTGAA
** **
18317759 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
18317771 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
18317785 AAAGAAAATTGAA
1 AAAG-AAATTGAA
18317798 AAAGAAATTG--
1 AAAGAAATTGAA
18317808 --AG-AA-TGAA
1 AAAGAAATTGAA
18317816 AAA-AAATTGAA
1 AAAGAAATTGAA
18317827 AAAGAAA
1 AAAGAAA
18317834 AAGCGAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 2 0.03
10 3 0.05
11 7 0.11
12 33 0.50
13 6 0.09
14 6 0.09
15 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.20, T:0.12
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:18317822 original size:17 final size:18
Alignment explanation
Indices: 18317788--18317836 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
18317778 ATGAAGAAAA
18317788 GAAAATTGAAAAAGAAATT
1 GAAAA-TGAAAAAGAAATT
*
18317807 GAGAATGAAAAA-AAATT
1 GAAAATGAAAAAGAAATT
*
18317824 GAAAAAGAAAAAG
1 GAAAATGAAAAAG
18317837 CGAAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.58
18 7 0.27
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.14
Consensus pattern (18 bp):
GAAAATGAAAAAGAAATT
Found at i:18317831 original size:29 final size:27
Alignment explanation
Indices: 18317768--18317834 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 27
18317758 AAAAGTGAGA
18317768 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAGAAAATT
*
18317795 GAAAAAGAAATTGAGAATGAAAA-AAAATT
1 GAAAAAGAAAAT--GAA-GAAAAGAAAATT
18317824 GAAAAAGAAAA
1 GAAAAAGAAAA
18317835 AGCGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.31
29 19 0.54
30 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:18317888 original size:33 final size:33
Alignment explanation
Indices: 18317851--18317913 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
18317841 AAAAGAAATT
18317851 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
18317884 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
18317914 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:18319673 original size:20 final size:20
Alignment explanation
Indices: 18319648--18319698 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
18319638 TGCAAGATGA
18319648 AGCTCATTTCAGCT-CAA-TC
1 AGCTCATTT-AGCTACAATTC
18319667 GAGCTCAATTTAGCTACAATTC
1 -AGCTC-ATTTAGCTACAATTC
18319689 AGCTCATTTA
1 AGCTCATTTA
18319699 TTTTATTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 14 0.50
21 12 0.43
22 2 0.07
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
AGCTCATTTAGCTACAATTC
Found at i:18319692 original size:11 final size:10
Alignment explanation
Indices: 18319648--18319694 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18319638 TGCAAGATGA
*
18319648 AGCTCATTTC
1 AGCTCAATTC
18319658 AGCTCAA-TC
1 AGCTCAATTC
*
18319667 GAGCTCAATTT
1 -AGCTCAATTC
18319678 AGCTACAATTC
1 AGCT-CAATTC
18319689 AGCTCA
1 AGCTCA
18319695 TTTATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 2 0.06
10 19 0.61
11 10 0.32
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:18322229 original size:12 final size:12
Alignment explanation
Indices: 18322159--18322259 Score: 50
Period size: 12 Copynumber: 8.6 Consensus size: 12
18322149 AGAAAAGGAG
*
18322159 AAAGATATTGAA
1 AAAGAAATTGAA
**
18322171 AAAGAAATCAAA
1 AAAGAAATTGAA
** **
18322183 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
18322195 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
18322209 AAAGAAAATTGAA
1 AAAG-AAATTGAA
*
18322222 AAAGAAATTGAG
1 AAAGAAATTGAA
*
18322234 AATG-AA---AA
1 AAAGAAATTGAA
18322242 AAA-AAATTGAA
1 AAAGAAATTGAA
18322253 AAAGAAA
1 AAAGAAA
18322260 AAGCGAAAAA
Statistics
Matches: 64, Mismatches: 17, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
8 5 0.08
11 7 0.11
12 35 0.55
13 6 0.09
14 6 0.09
15 5 0.08
ACGTcount: A:0.68, C:0.01, G:0.18, T:0.13
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:18322248 original size:19 final size:19
Alignment explanation
Indices: 18322220--18322261 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18322210 AAGAAAATTG
* * *
18322220 AAAAAGAAATTGAGAATGA
1 AAAAAAAAATTGAAAAAGA
18322239 AAAAAAAAATTGAAAAAGA
1 AAAAAAAAATTGAAAAAGA
18322258 AAAA
1 AAAA
18322262 GCGAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (19 bp):
AAAAAAAAATTGAAAAAGA
Found at i:18322254 original size:13 final size:13
Alignment explanation
Indices: 18322236--18322280 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
18322226 AAATTGAGAA
18322236 TGAAAAAAAAAAT
1 TGAAAAAAAAAAT
*
18322249 TGAAAAAGAAAAAG
1 TGAAAAA-AAAAAT
* *
18322263 CGAAAAAAGAAAT
1 TGAAAAAAAAAAT
18322276 TGAAA
1 TGAAA
18322281 GAGAGCTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.11
Consensus pattern (13 bp):
TGAAAAAAAAAAT
Found at i:18322971 original size:29 final size:29
Alignment explanation
Indices: 18322937--18323007 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
18322927 GGCCTAATGA
* *
18322937 GCCATATGAATGTGAATTGGGCTTAG-TGG
1 GCCATATGAATGTGAACTGGGC-CAGATGG
* *
18322966 GCCATAAGAATATGAACTGGGCCAGATGG
1 GCCATATGAATGTGAACTGGGCCAGATGG
*
18322995 GCCATATGCATGT
1 GCCATATGAATGT
18323008 ATGTAGGGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.06
29 32 0.94
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
GCCATATGAATGTGAACTGGGCCAGATGG
Found at i:18326970 original size:14 final size:14
Alignment explanation
Indices: 18326953--18326993 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
18326943 CAAATGGAAT
*
18326953 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
18326967 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
18326981 GATATGAACAAAA
1 GGTAGGAACAAAA
18326994 TGGTCGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.51, C:0.07, G:0.32, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:18328838 original size:8 final size:8
Alignment explanation
Indices: 18328811--18328840 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18328801 ATGAATAGGC
18328811 AAAAGCCA
1 AAAAGCCA
*
18328819 AAATGCCA
1 AAAAGCCA
18328827 AAAAGCCA
1 AAAAGCCA
18328835 AAAAGC
1 AAAAGC
18328841 TGAAATACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.23, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAGCCA
Found at i:18331821 original size:30 final size:30
Alignment explanation
Indices: 18331787--18331943 Score: 156
Period size: 30 Copynumber: 5.2 Consensus size: 30
18331777 AGCTCACTCC
18331787 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * *
18331817 TAGCTCAACTTCAGCTTA-GAAGTTTAATCT
1 TAGCTCAACTTCAGCTCACG-AGCTAAACCT
* *
18331847 CAGCTCAACTTTAGCTCACGAGCTAAACCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * * *
18331877 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
18331907 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
18331937 TAGCTCA
1 TAGCTCA
18331944 TTTTAGTTTA
Statistics
Matches: 99, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
29 2 0.02
30 96 0.97
31 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:18331852 original size:60 final size:60
Alignment explanation
Indices: 18331799--18331943 Score: 272
Period size: 60 Copynumber: 2.4 Consensus size: 60
18331789 GCTCATATTC
18331799 AGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGAAGTTTAATCTCAGCTCAACTTT
1 AGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGAAGTTTAATCTCAGCTCAACTTT
*
18331859 AGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTT
1 AGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGAAGTTTAATCTCAGCTCAACTTT
*
18331919 AGCTCACGAGCTAAAGCTTAGCTCA
1 AGCTCACGAGCTAAACCTTAGCTCA
18331944 TTTTAGTTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 83 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (60 bp):
AGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGAAGTTTAATCTCAGCTCAACTTT
Found at i:18337500 original size:46 final size:46
Alignment explanation
Indices: 18337330--18337505 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
18337320 TGTAACCCGC
*
18337330 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCAT
* * * * *
18337376 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** * *
18337422 ACATCTCTCGAACTCGGACCCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
18337469 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18337506 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.67
47 33 0.32
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:18337508 original size:93 final size:93
Alignment explanation
Indices: 18337338--18337509 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
18337328 GCCCATAAGT
* *
18337338 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACCCAACTCAACGAGCTCAGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
18337403 TGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
*
18337431 GAACTCGGACCCAACTCAACGAGTTC-GGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACCCAACTCAACGAGCTCAGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
18337495 ACGAGTTCGGATGCC
65 ACGAGCTCAGATGCC
18337510 CAAATATCCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACCCAACTCAACGAGCTCAGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:18339928 original size:30 final size:30
Alignment explanation
Indices: 18339884--18339972 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
18339874 CAAAGATAAC
*
18339884 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
18339913 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
18339943 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
18339973 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:18339932 original size:15 final size:14
Alignment explanation
Indices: 18339884--18339966 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
18339874 CAAAGATAAC
*
18339884 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
18339898 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
18339913 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
18339928 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
18339943 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
18339958 AAGAAACCC
1 AAGAAACCC
18339967 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:18339972 original size:15 final size:15
Alignment explanation
Indices: 18339895--18339972 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
18339885 AGAAAACCGA
18339895 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
18339910 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
18339924 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
18339939 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
18339955 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18339970 ATA
1 ATA
18339973 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18349330 original size:23 final size:22
Alignment explanation
Indices: 18349279--18349330 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
18349269 TTCCTCGTTT
*
18349279 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
18349301 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
18349324 TTCTTTT
1 TTCTTTT
18349331 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:18350705 original size:6 final size:6
Alignment explanation
Indices: 18350694--18350725 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
18350684 ATAAATAAAT
18350694 AAATAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
18350726 CTTTACAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:18355805 original size:49 final size:49
Alignment explanation
Indices: 18355742--18356074 Score: 279
Period size: 51 Copynumber: 6.5 Consensus size: 49
18355732 CTGGTATGTA
* * * *
18355742 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTGTCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATCTGGTACACG
* * * **
18355791 TAGTAGCCTCCACTTAGTACTTCGTATTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTA---C----TACACACGTGACC-AACTATCTGGTACACG
** * * * *
18355848 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACTATCTGGTACACG
* * * *
18355899 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATCTGGTACACG
* * *
18355948 TAATAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACTATCTGGTACACG
* * * * * * *
18355998 TAGTAGCCTACACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-CTATCTGGTACACG
*
18356049 TAGTAGCCTGCACTTAGAACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
18356075 TGCGACCTCA
Statistics
Matches: 225, Mismatches: 46, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
49 61 0.27
50 55 0.24
51 67 0.30
52 2 0.01
54 1 0.00
56 11 0.05
57 28 0.12
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATCTGGTACACG
Found at i:18356017 original size:50 final size:49
Alignment explanation
Indices: 18355809--18356028 Score: 224
Period size: 50 Copynumber: 4.4 Consensus size: 49
18355799 TCCACTTAGT
* * * *
18355809 ACTTCGTATTACACACGTGACCTCACCATCTAATACACGTAGTAGCCTGC
1 ACTTAGTACTACACACGTGACC-AACCATCTGATACACGTAGTAGCCTGC
**** * * * *
18355859 ACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGC
1 ACTTAGTACTACACACGTGA-C-CAACCATCTGATACACGTAGTAGCCTGC
* * ** * * *
18355910 ACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTGC
1 ACTTAGTACTACACACGTGACCAACCATCTGATACACGTAGTAGCCTGC
*
18355959 ACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTAC
1 ACTTAGTACTACACACGTGACC-AACCATCTGATACACGTAGTAGCCTGC
18356009 ACTTAGTACTACACACGTGA
1 ACTTAGTACTACACACGTGA
18356029 TCATAGTTTT
Statistics
Matches: 139, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
49 42 0.30
50 60 0.43
51 36 0.26
52 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
ACTTAGTACTACACACGTGACCAACCATCTGATACACGTAGTAGCCTGC
Found at i:18356029 original size:150 final size:152
Alignment explanation
Indices: 18355741--18356081 Score: 524
Period size: 150 Copynumber: 2.2 Consensus size: 152
18355731 TCTGGTATGT
* * * *
18355741 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTGTCTGGTACATGTAGTAGCCTCCACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCCGGTACACGTAATAGCCTCCACTT
* *
18355806 AGTACTTCGTATTACACACGTGACCTCACCATCTAATACACGTAGTAGCCTGCACTTAGTACTAC
66 AGTA--TC---TTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTACACTTAGTACTAC
18355871 ACACGTGATCACAGTTTTCGGGTACGC
126 ACACGTGATCACAGTTTTCGGGTACGC
* *
18355898 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCCGGTACACGTAATAGCCTCCACTT
*
18355963 AGTA-C-TACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACG
66 AGTATCTTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACG
*
18356026 TGATCATAGTTTTCGGGTACGC
131 TGATCACAGTTTTCGGGTACGC
*
18356048 ATAGTAGCCTGCACTTAGAACTACACATGCGACC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACC
18356082 TCACAATAGA
Statistics
Matches: 173, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
150 109 0.63
154 1 0.01
157 63 0.36
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (152 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCCGGTACACGTAATAGCCTCCACTT
AGTATCTTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACG
TGATCACAGTTTTCGGGTACGC
Found at i:18356082 original size:101 final size:99
Alignment explanation
Indices: 18355899--18356082 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 99
18355889 CGGGTACGCA
* * *
18355899 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCCGGTACACATAATAGCCTGCACTTA
* *
18355964 GTACTACACACGTGACCTAACCATCTGATACACG
66 GAACTACACACGCGACCTAACCATCTGATACACG
* * * * * *
18355998 TAGTAGCCTACACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGCGACCA-A-TTATCCGGTACACATAATAGCCTGCACT
*
18356063 TAGAACTACACATGCGACCT
64 TAGAACTACACACGCGACCT
18356083 CACAATAGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 30 0.42
100 1 0.01
101 40 0.56
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCCGGTACACATAATAGCCTGCACTTA
GAACTACACACGCGACCTAACCATCTGATACACG
Found at i:18358258 original size:15 final size:15
Alignment explanation
Indices: 18358206--18358259 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
18358196 TAAAGATAAC
*
18358206 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
18358220 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
18358235 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
18358250 AAGAAACCCA
1 AAGAAACCCA
18358260 AGATACGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.33
15 19 0.58
16 3 0.09
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:18360896 original size:30 final size:30
Alignment explanation
Indices: 18360862--18360958 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
18360852 TAAACTAAAA
* *
18360862 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAA-C
* * * * *
18360892 TGAGCTGAGATTAAACTCCTAAGCTGAAAC
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAAC
*
18360922 TGAGCTAAGGTTTAGCTCGTGAGCTGAATA-
1 TGAGCTAAGATTTAGCTCGTGAGCTGAA-AC
18360952 TGAGCTA
1 TGAGCTA
18360959 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAAC
Found at i:18362918 original size:49 final size:48
Alignment explanation
Indices: 18362843--18363180 Score: 313
Period size: 50 Copynumber: 6.8 Consensus size: 48
18362833 AGCCGAAGCT
* * * * *
18362843 ATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
* *
18362891 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAC
* ** *
18362942 AACTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
* ** * * * *
18362989 AGTTTTCGAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
1 A--TCT-G-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA-C
18363042 ATCCT-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 AT-CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA-C
* *
18363092 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
* * *
18363139 AGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 A----TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
18363181 TGCGACCTCA
Statistics
Matches: 236, Mismatches: 38, Indels: 29
0.78 0.13 0.10
Matches are distributed among these distances:
47 4 0.02
48 3 0.01
49 74 0.31
50 81 0.34
51 71 0.30
52 2 0.01
53 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
Found at i:18363123 original size:150 final size:150
Alignment explanation
Indices: 18362848--18363187 Score: 576
Period size: 150 Copynumber: 2.3 Consensus size: 150
18362838 AAGCTATCTG
*
18362848 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCT
*
18362913 GCACTTAGTACTACACACATGACCTCACCAACTAATACACGTAGTAGCCTGCACTTAGTACTACA
66 GCACTTAGTACTACACACATGACCTAACCAACTAATACACGTAGTAGCCTGCACTTAGTACTACA
18362978 CACGTGATCACAGTTTTCGA
131 CACGTGATCACAGTTTTCGA
* *
18362998 GTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCCT-GTACACGTAGTAGC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-CAGT-CTGGTACACGTAGTAGC
* * *
18363061 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
64 CTGCACTTAGTACTACACACATGACCTAACCAACTAATACACGTAGTAGCCTGCACTTAGTACTA
*
18363126 CACACGTGATCACAGTTTTCGG
129 CACACGTGATCACAGTTTTCGA
18363148 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
18363188 TCACAATAGA
Statistics
Matches: 179, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
150 176 0.98
151 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (150 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCT
GCACTTAGTACTACACACATGACCTAACCAACTAATACACGTAGTAGCCTGCACTTAGTACTACA
CACGTGATCACAGTTTTCGA
Found at i:18363188 original size:101 final size:98
Alignment explanation
Indices: 18362842--18363188 Score: 326
Period size: 101 Copynumber: 3.5 Consensus size: 98
18362832 TAGCCGAAGC
* * * * *
18362842 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC-AACAGTCTGGTACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAGTCTGATACACGTA
*
18362906 GTAGCCTGCACTTAGTACTACACACATGACC-T
66 GTAGCCTGCACTTAGTACTACACACGTGACCAT
* * ** * * * *
18362938 CACCAACTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA--TCACAGTTTTCGAGTA
1 TATC--C-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAG-TCT-GA-TA
** * * *
18363001 TGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
60 CACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AT
* * *
18363041 TATCCTGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CAGTCTGATACACGT
18363105 AGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 AGTAGCCTGCACTTAGTACTACACACGTGA-C-CA-T
* * * *
18363142 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT
18363189 CACAATAGAT
Statistics
Matches: 199, Mismatches: 37, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
96 2 0.01
98 4 0.02
99 66 0.33
100 42 0.21
101 78 0.39
102 2 0.01
103 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (98 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAGTCTGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAT
Found at i:18366013 original size:20 final size:20
Alignment explanation
Indices: 18365990--18366043 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
18365980 AGTTTTTCCC
*
18365990 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
18366010 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
18366030 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
18366044 TACTCTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:18367685 original size:14 final size:13
Alignment explanation
Indices: 18367666--18367695 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18367656 GAAGAAATTC
18367666 AAAAAAATTCAAA
1 AAAAAAATTCAAA
*
18367679 AAAAAAATTGAAA
1 AAAAAAATTCAAA
18367692 AAAA
1 AAAA
18367696 GAAAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:18367701 original size:22 final size:23
Alignment explanation
Indices: 18367676--18367718 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
18367666 AAAAAAATTC
*
18367676 AAAAAAAAAATTGA-AAAAAAGA
1 AAAAAAAAAAGTGACAAAAAAGA
*
18367698 AAAAAAAGAAGTGACAAAAAA
1 AAAAAAAAAAGTGACAAAAAA
18367719 ATCGAGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (23 bp):
AAAAAAAAAAGTGACAAAAAAGA
Found at i:18368780 original size:22 final size:21
Alignment explanation
Indices: 18368748--18368790 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
18368738 GAAAGAGATT
18368748 GAAAAAGAAATCGAA-AAAAGA
1 GAAAAAGAAAT-GAAGAAAAGA
18368769 GAAAAAGAAAATGAAGAAAAGA
1 GAAAAAG-AAATGAAGAAAAGA
18368791 AAATTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (21 bp):
GAAAAAGAAATGAAGAAAAGA
Found at i:18368786 original size:15 final size:15
Alignment explanation
Indices: 18368768--18368819 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
18368758 TCGAAAAAAG
18368768 AGAAAAAGAAAATGA
1 AGAAAAAGAAAATGA
18368783 AG-AAAAGAAAATTGA
1 AGAAAAAGAAAA-TGA
* *
18368798 AAAAAAATGAGAATGA
1 AGAAAAA-GAAAATGA
18368814 A-AAAAA
1 AGAAAAA
18368820 ATTGAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 9 0.28
15 11 0.34
16 8 0.25
17 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (15 bp):
AGAAAAAGAAAATGA
Found at i:18368799 original size:27 final size:28
Alignment explanation
Indices: 18368769--18368833 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
18368759 CGAAAAAAGA
18368769 GAAAAAGAAAAT-GAA-GAAAAGAAAATT
1 GAAAAAGAAAATAGAATGAAAA-AAAATT
18368796 G-AAAA-AAAATGAGAATGAAAAAAAATT
1 GAAAAAGAAAAT-AGAATGAAAAAAAATT
18368823 GAAAAAGAAAA
1 GAAAAAGAAAA
18368834 AGCGAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
25 5 0.15
26 4 0.12
27 11 0.33
28 9 0.27
29 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (28 bp):
GAAAAAGAAAATAGAATGAAAAAAAATT
Found at i:18368833 original size:14 final size:13
Alignment explanation
Indices: 18368769--18368853 Score: 50
Period size: 14 Copynumber: 6.3 Consensus size: 13
18368759 CGAAAAAAGA
*
18368769 GAAAAAGAAAA-T
1 GAAAAAAAAAATT
18368781 GAAGAAAAGAAAATT
1 GAA-AAAA-AAAATT
*
18368796 G--AAAAAAAATGA
1 GAAAAAAAAAAT-T
18368808 GAATGAAAAAAAATT
1 GAA--AAAAAAAATT
**
18368823 GAAAAAGAAAAAGC
1 GAAAAA-AAAAATT
*
18368837 GAAAAAAGAAATT
1 GAAAAAAAAAATT
18368850 GAAA
1 GAAA
18368854 GAGAGCTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
11 5 0.09
12 8 0.14
13 14 0.25
14 15 0.27
15 5 0.09
16 9 0.16
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.11
Consensus pattern (13 bp):
GAAAAAAAAAATT
Found at i:18368887 original size:33 final size:33
Alignment explanation
Indices: 18368850--18368912 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
18368840 AAAAGAAATT
18368850 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
18368883 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
18368913 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:18370711 original size:20 final size:20
Alignment explanation
Indices: 18370688--18370741 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
18370678 AGTTTTTCCC
*
18370688 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
18370708 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
18370728 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
18370742 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:18370723 original size:30 final size:30
Alignment explanation
Indices: 18370688--18370761 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
18370678 AGTTTTTCCC
18370688 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
18370718 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
18370748 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
18370762 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:18370751 original size:20 final size:20
Alignment explanation
Indices: 18370688--18370752 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
18370678 AGTTTTTCCC
* * * *
18370688 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
18370708 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
18370727 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
18370748 AGCTC
1 AGCTC
18370753 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:18373042 original size:25 final size:25
Alignment explanation
Indices: 18373014--18373061 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
18373004 GATCTCAAAA
*
18373014 CTAAATTCTAGAATTTAGAAATGAG
1 CTAAATTCTAGAATTTACAAATGAG
18373039 CTAAATTCTAGAATTTACAAATG
1 CTAAATTCTAGAATTTACAAATG
18373062 GTCACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (25 bp):
CTAAATTCTAGAATTTACAAATGAG
Found at i:18373109 original size:11 final size:11
Alignment explanation
Indices: 18373090--18373123 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
18373080 TAAATGAGCT
*
18373090 AAAATTTCTAG
1 AAAAATTCTAG
18373101 AAAAATTCTAG
1 AAAAATTCTAG
18373112 -AAAATTCTAG
1 AAAAATTCTAG
18373122 AA
1 AA
18373124 TGCTTCCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (11 bp):
AAAAATTCTAG
Done.