Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 55 of 190
Found at i:15560246 original size:29 final size:29
Alignment explanation
Indices: 15560213--15560280 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
15560203 AATTTGTGAG
*
15560213 AATTTG-ACTAAATCAAAATTTCATATATA
1 AATTTGCACAAAATCAAAATTT-ATATATA
*
15560242 AATTTGCACAAAATCAAAGTTTATATATA
1 AATTTGCACAAAATCAAAATTTATATATA
*
15560271 AAGTTGCACA
1 AATTTGCACA
15560281 TTGAATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTTGCACAAAATCAAAATTTATATATA
Found at i:15569160 original size:7 final size:7
Alignment explanation
Indices: 15569148--15569172 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15569138 GTCCTTAAAC
15569148 ATTTTAA
1 ATTTTAA
15569155 ATTTTAA
1 ATTTTAA
15569162 ATTTTAA
1 ATTTTAA
15569169 ATTT
1 ATTT
15569173 CAACCCTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:15569608 original size:3 final size:3
Alignment explanation
Indices: 15569600--15569629 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15569590 TGAAGAATTA
15569600 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
15569630 AATATAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:15576619 original size:9 final size:9
Alignment explanation
Indices: 15576605--15576635 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15576595 GTTAAACGAA
15576605 TCGAGTTAT
1 TCGAGTTAT
*
15576614 TCGAGTTAA
1 TCGAGTTAT
15576623 TCGAGTTAT
1 TCGAGTTAT
15576632 TCGA
1 TCGA
15576636 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15576705 original size:9 final size:9
Alignment explanation
Indices: 15576688--15576724 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15576678 TGAGTTTTCG
15576688 AATTCGAAT
1 AATTCGAAT
*
15576697 AACTCGAAT
1 AATTCGAAT
15576706 AATTCGAAT
1 AATTCGAAT
15576715 AATTCGAAT
1 AATTCGAAT
15576724 A
1 A
15576725 TGAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15579113 original size:24 final size:24
Alignment explanation
Indices: 15579086--15579137 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
15579076 AGGAAGACAA
15579086 TGGAGACAAAGATGAAG-CCGAAGG
1 TGGAGACAAAGATGAAGACC-AAGG
** *
15579110 TGGAGATGAATATGAAGACCAAGG
1 TGGAGACAAAGATGAAGACCAAGG
15579134 TGGA
1 TGGA
15579138 AATGAAGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.40, C:0.10, G:0.37, T:0.13
Consensus pattern (24 bp):
TGGAGACAAAGATGAAGACCAAGG
Found at i:15579142 original size:24 final size:24
Alignment explanation
Indices: 15579094--15579148 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
15579084 AATGGAGACA
*
15579094 AAGATGAAGCCGAAGGTGGAGATG
1 AAGATGAAGCCGAAGGTGGAAATG
*
15579118 AATATGAAGACC-AAGGTGGAAATG
1 AAGATGAAG-CCGAAGGTGGAAATG
15579142 AAGATGA
1 AAGATGA
15579149 GTACGAGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.44, C:0.07, G:0.35, T:0.15
Consensus pattern (24 bp):
AAGATGAAGCCGAAGGTGGAAATG
Found at i:15580242 original size:279 final size:280
Alignment explanation
Indices: 15579719--15580271 Score: 660
Period size: 279 Copynumber: 2.0 Consensus size: 280
15579709 GGCCTTAATG
* ** * ** * *
15579719 ATCCCTTAATACGGAACATGTTGCTTTTGTATGCCCTGGGTTTCTACAGTACCCGCATAACCTCT
1 ATCCCTCAATACAAAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCTCT
* * * * * *
15579784 GTTTATTGCCTCTCTCCCGAATATCAATATTAGTACTTATCCGAGTAAAATTCGGATGACCTTTT
66 GTTGATTG-CTCTCTCCCGAACATCAATATTAGTACGTATCCGAGTAAAATTCAGACGACCTTTC
* ** * * * * *
15579849 GGGACGCAACACAAGTTCATGTTCGGGTCCAACTCGAATAGAGCTCTGGACACTGGCAAACACAT
130 GGGACACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAGCACTGGACACTGGCAAACACAT
* * * *
15579914 ACTCCCATCTGAGATAGGTGGGAATTTAGATATTCATACATTGTGCATGCCTTCCAATTTGTACA
195 ACTCCCATCTGAGATAGGTGAGAATTCAGATATCCATACATTATGCATGCCTTCCAATTTGTACA
15579979 CATCGTTAATATAATATGTGT
260 CATCGTTAATATAATATGTGT
*
15580000 ATCCCTCAATACAAAACATGTTGCCTTCATATGCTCTAGGTTTCTACAGTACCCACATAACCTCT
1 ATCCCTCAATACAAAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCTCT
* * * * * * * *
15580065 GTTGATTG-TCTCTCCTGAACATCCATATTGGTGCGTATTCGAGTGAAATTTAGACGACGTTTCG
66 GTTGATTGCTCTCTCCCGAACATCAATATTAGTACGTATCCGAGTAAAATTCAGACGACCTTTCG
* * ** **
15580129 GGATACGATGCAAGTAAATATTCGGGGCCAACTCAAACATGA-CACTGGACACTGGCAGCCACAT
131 GGACACAACACAAGTAAATATTCGGGGCCAACTCAAACA-GAGCACTGGACACTGGCAAACACAT
** * * *
15580193 ACTCTTATCTGGGATAGGTGAGAATTCAGATATCCATACATTATGCATGCCTTTCAGTTTGTACA
195 ACTCCCATCTGAGATAGGTGAGAATTCAGATATCCATACATTATGCATGCCTTCCAATTTGTACA
15580258 CATCGTTAATATAA
260 CATCGTTAATATAA
15580272 GGTGTGTACT
Statistics
Matches: 225, Mismatches: 46, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
279 160 0.71
280 2 0.01
281 63 0.28
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (280 bp):
ATCCCTCAATACAAAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCTCT
GTTGATTGCTCTCTCCCGAACATCAATATTAGTACGTATCCGAGTAAAATTCAGACGACCTTTCG
GGACACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAGCACTGGACACTGGCAAACACATA
CTCCCATCTGAGATAGGTGAGAATTCAGATATCCATACATTATGCATGCCTTCCAATTTGTACAC
ATCGTTAATATAATATGTGT
Found at i:15580637 original size:26 final size:26
Alignment explanation
Indices: 15580601--15580651 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
15580591 AAAAGTATGC
*
15580601 TTCTTTGACAATCGAGGTTATTGGTT
1 TTCTTTGACAACCGAGGTTATTGGTT
15580627 TTCTTTGACAACCGAGGTTATTGGT
1 TTCTTTGACAACCGAGGTTATTGGT
15580652 AAATGACGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.43
Consensus pattern (26 bp):
TTCTTTGACAACCGAGGTTATTGGTT
Found at i:15583525 original size:95 final size:95
Alignment explanation
Indices: 15583351--15583525 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 95
15583341 TTATTTATTC
* * *
15583351 GAGTTAGCTGAGTTAAGCTCGCAACTCCGAGACAGCTCGCTGACCTACACTCCCAGCTGATAAAC
1 GAGTTAGCTGAGTTAAACTCGCAACTACGAGACAGCTCGCGGACCTACACTCCCAGCTGATAAAC
*
15583416 TCCAACATAACTCGTAACTACGAGATAGCT
66 TCCAACACAACTCGTAACTACGAGATAGCT
* * * * ** *
15583446 GAGTTAGTTGAGTTAAACTTGCAACTACGAGATAGCTTGCGGACCTACGTTCCTAGCTGATAAAC
1 GAGTTAGCTGAGTTAAACTCGCAACTACGAGACAGCTCGCGGACCTACACTCCCAGCTGATAAAC
*
15583511 TCCAACACAGCTCGT
66 TCCAACACAACTCGT
15583526 GGACCTACTT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 68 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (95 bp):
GAGTTAGCTGAGTTAAACTCGCAACTACGAGACAGCTCGCGGACCTACACTCCCAGCTGATAAAC
TCCAACACAACTCGTAACTACGAGATAGCT
Found at i:15583792 original size:102 final size:102
Alignment explanation
Indices: 15583614--15583885 Score: 348
Period size: 102 Copynumber: 2.6 Consensus size: 102
15583604 CTAGTTGATT
* *
15583614 TTTAAAGGTTAGCTAAGTTAAGCTCTCAACCTAACTTTTTTTGAGTTAGCTGAGTCAAGCTCGCA
1 TTTAAAGGTTAGCTAAGTTAAGCTCT-AACCTAA-ATTTTTTGAGTTAGCTGAGTTAAGCTCGCA
* *
15583679 ACTCTGAAACAGCCTGCGGACTTATGTTCCCAACTAATG
64 ACTCTGAAACAGCCTGCGAACCTATGTTCCCAACTAATG
* * * *
15583718 TTTAAAGGTCAGCTAAGTTAAACTCGTAACCTAAATTTTTT-AGTTAGTTGAGTTAAGCTTGCAA
1 TTTAAAGGTTAGCTAAGTTAAGCTC-TAACCTAAATTTTTTGAGTTAGCTGAGTTAAGCTCGCAA
* * *
15583782 CTCTGAAACAGCTTGCGAACCTATGTTCCCAGCTTATG
65 CTCTGAAACAGCCTGCGAACCTATGTTCCCAACTAATG
* * * * * *
15583820 CTTAAAGGTTAGTTGAGTTAAGCTCATAACTTAAATTTTTTGAGTTAACTGAGTTAAGCTCACAA
1 TTTAAAGGTTAGCTAAGTTAAGCTC-TAACCTAAATTTTTTGAGTTAGCTGAGTTAAGCTCGCAA
15583885 C
65 C
15583886 CCTAGCTATT
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
102 87 0.60
103 26 0.18
104 30 0.21
105 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (102 bp):
TTTAAAGGTTAGCTAAGTTAAGCTCTAACCTAAATTTTTTGAGTTAGCTGAGTTAAGCTCGCAAC
TCTGAAACAGCCTGCGAACCTATGTTCCCAACTAATG
Found at i:15589750 original size:2 final size:2
Alignment explanation
Indices: 15589743--15589775 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15589733 AAATTTGCTA
15589743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15589776 AAATAGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15597364 original size:15 final size:15
Alignment explanation
Indices: 15597344--15597391 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
15597334 ATTTTACATC
* *
15597344 AATAAATAATTTAAA
1 AATAAAAAAATTAAA
15597359 AATAAAAAAATTAAA
1 AATAAAAAAATTAAA
* *
15597374 ATTCAAAAAATATAAA
1 AATAAAAAAAT-TAAA
15597390 AA
1 AA
15597392 AAAGTTCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAAAAAAATTAAA
Found at i:15604148 original size:24 final size:25
Alignment explanation
Indices: 15604121--15604172 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
15604111 CGATCAGGAT
* *
15604121 GCTCAGAAGAGCCAT-TAAAGGGAA
1 GCTCACAAGAACCATATAAAGGGAA
* *
15604145 GCTCACAAGAACGATATAACGGGAA
1 GCTCACAAGAACCATATAAAGGGAA
15604170 GCT
1 GCT
15604173 TGAGAGGGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.13
Consensus pattern (25 bp):
GCTCACAAGAACCATATAAAGGGAA
Found at i:15604538 original size:21 final size:21
Alignment explanation
Indices: 15604514--15604555 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15604504 TAAATTTAAC
*
15604514 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* *
15604535 TCAATTCCATTCAATTCACAT
1 TCAATTCAATACAATTCACAT
15604556 CTTAGGCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:15604545 original size:10 final size:11
Alignment explanation
Indices: 15604525--15604555 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
15604515 CAATTTAATA
15604525 CAATTCACATT
1 CAATTCACATT
15604536 CAATTC-CATT
1 CAATTCACATT
15604546 CAATTCACAT
1 CAATTCACAT
15604556 CTTAGGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (11 bp):
CAATTCACATT
Found at i:15605024 original size:31 final size:32
Alignment explanation
Indices: 15604988--15605052 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
15604978 CTTAGATAAT
15604988 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
15605019 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
15605051 TT
1 TT
15605053 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:15610781 original size:3 final size:3
Alignment explanation
Indices: 15610773--15610813 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15610763 ATCCATCCTT
15610773 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15610814 TAACTAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15617122 original size:25 final size:26
Alignment explanation
Indices: 15617087--15617142 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
15617077 TAGCTATTTT
15617087 TCGATAGGCTACGAGCTCGTCCAACA
1 TCGATAGGCTACGAGCTCGTCCAACA
*
15617113 TCGAT-GGCTATGAGCTCGTCCAACA
1 TCGATAGGCTACGAGCTCGTCCAACA
15617138 TCGAT
1 TCGAT
15617143 TCTATCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (26 bp):
TCGATAGGCTACGAGCTCGTCCAACA
Found at i:15618821 original size:46 final size:46
Alignment explanation
Indices: 15618749--15618888 Score: 244
Period size: 46 Copynumber: 3.0 Consensus size: 46
15618739 ACAATGCTAT
* * *
15618749 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
*
15618795 AACTCTGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
15618841 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
15618887 AA
1 AA
15618889 TTTGTCATGG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
Found at i:15627028 original size:24 final size:24
Alignment explanation
Indices: 15627001--15627046 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
15626991 TGAACTTCGT
*
15627001 TTTATTCTGTTTTGATAGCTAATG
1 TTTATTATGTTTTGATAGCTAATG
15627025 TTTATTATGTTTTGATAGCTAA
1 TTTATTATGTTTTGATAGCTAA
15627047 CGTGACAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (24 bp):
TTTATTATGTTTTGATAGCTAATG
Found at i:15627061 original size:23 final size:24
Alignment explanation
Indices: 15627008--15627063 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
15626998 CGTTTTATTC
* * **
15627008 TGTTTTGATAGCTAATGTTTATTA
1 TGTTTTGATAGCTAACGTTGACAA
15627032 TGTTTTGATAGCTAACG-TGACAA
1 TGTTTTGATAGCTAACGTTGACAA
15627055 TGTTTTGAT
1 TGTTTTGAT
15627064 CACTGGGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (24 bp):
TGTTTTGATAGCTAACGTTGACAA
Found at i:15634509 original size:36 final size:37
Alignment explanation
Indices: 15634439--15634511 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
15634429 TATTTAAGTG
*
15634439 TTTTAGTTTTTATTTATCTACTTTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
15634476 TTTTAGTTTTTATTTATCTAC-CTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
15634512 CATTATTGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 14 0.40
37 21 0.60
ACGTcount: A:0.19, C:0.07, G:0.08, T:0.66
Consensus pattern (37 bp):
TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
Found at i:15648377 original size:36 final size:37
Alignment explanation
Indices: 15648307--15648379 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
15648297 ATTTAAGTGT
* *
15648307 TTTAGTTTTTATTTATCTACTTTTTATTTATGTATAC
1 TTTAGTTTTTACTTATCTACTCTTTATTTATGTATAC
*
15648344 TTTAGTTTTTACTTATCTAC-CTTTATTTGTGTATAC
1 TTTAGTTTTTACTTATCTACTCTTTATTTATGTATAC
15648380 ATTATTGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 14 0.42
37 19 0.58
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.62
Consensus pattern (37 bp):
TTTAGTTTTTACTTATCTACTCTTTATTTATGTATAC
Found at i:15653162 original size:5 final size:5
Alignment explanation
Indices: 15653152--15653188 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
15653142 TTCGTTCACT
15653152 CAAGC CAAGC CAAGC CAAGC CAAGC CAAGC CAAGC CA
1 CAAGC CAAGC CAAGC CAAGC CAAGC CAAGC CAAGC CA
15653189 GCCCATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.41, G:0.19, T:0.00
Consensus pattern (5 bp):
CAAGC
Found at i:15653997 original size:6 final size:6
Alignment explanation
Indices: 15653988--15654012 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15653978 TTTATTTTAT
15653988 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
15654013 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:15661063 original size:125 final size:125
Alignment explanation
Indices: 15660833--15661256 Score: 636
Period size: 125 Copynumber: 3.4 Consensus size: 125
15660823 ACGTGGACGC
* * *
15660833 GAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
15660898 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
* * * *
15660958 GAAGAATTTGTTAAATCGCGCCCACGTGGACGCCCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * * * * *
15661022 TTTCAAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGATATT-TGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTACCAGGATGCT-TTATGA
* * * *
15661083 GAAGAATTTCTGAAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
*
15661148 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
* *
15661208 GAAAAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
15661257 CATGTTTGGG
Statistics
Matches: 261, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
124 39 0.15
125 183 0.70
126 39 0.15
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
Found at i:15666865 original size:12 final size:12
Alignment explanation
Indices: 15666826--15666869 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
15666816 TTAAATATGG
15666826 ATTTGAGAGAAA
1 ATTTGAGAGAAA
* *
15666838 TTTTGA-AGGAA
1 ATTTGAGAGAAA
15666849 A-TTGAGAGAAA
1 ATTTGAGAGAAA
15666860 ATTTGAGAGA
1 ATTTGAGAGA
15666870 GGATTAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.15
11 9 0.35
12 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (12 bp):
ATTTGAGAGAAA
Found at i:15670481 original size:26 final size:26
Alignment explanation
Indices: 15670343--15670479 Score: 132
Period size: 26 Copynumber: 5.3 Consensus size: 26
15670333 TAAAAAACGA
* *
15670343 AAGCCTTTGTGGTGTATCTAAAATGG
1 AAGCCTTTGTGGCGTATCTGAAATGG
* * *
15670369 AAGCCTTTTTGGCATATCTGAATTGG
1 AAGCCTTTGTGGCGTATCTGAAATGG
*
15670395 AAGCCTTTGTAGCGTATCT-AAATTGG
1 AAGCCTTTGTGGCGTATCTGAAA-TGG
** * * **
15670421 AAGTGTTTGTGGAGTATTTGAAATTA
1 AAGCCTTTGTGGCGTATCTGAAATGG
*
15670447 AAGCCTTCGTGGCGTATCTGAAATGG
1 AAGCCTTTGTGGCGTATCTGAAATGG
*
15670473 GAGCCTT
1 AAGCCTT
15670480 CGATTTTTTG
Statistics
Matches: 85, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
25 2 0.02
26 80 0.94
27 3 0.04
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (26 bp):
AAGCCTTTGTGGCGTATCTGAAATGG
Found at i:15672496 original size:19 final size:19
Alignment explanation
Indices: 15672472--15672524 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
15672462 TATATATACT
*
15672472 AAATAAATTAATAATAATA
1 AAATAAATTAATAATAAAA
* *
15672491 AAATAAAATAAT-TTAAAA
1 AAATAAATTAATAATAAAA
15672509 AAATCAAATTAA-AATA
1 AAAT-AAATTAATAATA
15672525 TTAATAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAAATTAATAATAAAA
Found at i:15672506 original size:24 final size:24
Alignment explanation
Indices: 15672472--15672532 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
15672462 TATATATACT
*
15672472 AAATAAATTAATAATAAT-AAAATA
1 AAAT-AATTAATAAAAATCAAAATA
*
15672496 AAATAATTTAA-AAAAATCAAATTA
1 AAATAA-TTAATAAAAATCAAAATA
15672520 AAAT-ATTAATAAA
1 AAATAATTAATAAA
15672533 CTAATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 11 0.34
24 17 0.53
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAATTAATAAAAATCAAAATA
Found at i:15678241 original size:50 final size:50
Alignment explanation
Indices: 15678164--15678356 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
15678154 ATTTGGGTAA
* *
15678164 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTCGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
15678214 AGAGGTCCCATATAAGACCATGCCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
15678264 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
15678314 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
15678357 TGTTATTGTT
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 88 0.73
51 33 0.27
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:15680478 original size:26 final size:26
Alignment explanation
Indices: 15680449--15680658 Score: 240
Period size: 26 Copynumber: 8.1 Consensus size: 26
15680439 AAACGCTAGA
* *
15680449 AAATGAAAGCCTTTGTGGCGTACCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
* ** * *
15680475 AAATGGAAGCATTTGCAGTGTATCTA
1 AAATGGAAGCCTTTGTGGCGTATCTG
* *
15680501 AAATGGAAGCCTTTGTAGCGTATTTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
* * *
15680527 AATTGGAAGCTTTTGTGGCATATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
*
15680553 AAATGGAAGCCTTTGTGGTGTATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
*
15680579 AAATGGAAGCCTTTGTGGTGTATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
* ** *
15680605 AAATTGAAGTATTTGTGGTGTATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
* *
15680631 AAATGGAAGCTTTTGTGGCATATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
15680657 AA
1 AA
15680659 GAAATGGCCC
Statistics
Matches: 155, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 155 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCGTATCTG
Found at i:15687166 original size:27 final size:27
Alignment explanation
Indices: 15687136--15687202 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
15687126 ATCATGAAGG
* * *
15687136 GATAACCTTTGTGGTGAACCCTGTAAT
1 GATAGCCTTTGTGGCGAACCCTGCAAT
*
15687163 GATAGGCTTTGTGGCGAACCCTGCAAT
1 GATAGCCTTTGTGGCGAACCCTGCAAT
15687190 GATAGCCTTTGTG
1 GATAGCCTTTGTG
15687203 CCGTAATATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (27 bp):
GATAGCCTTTGTGGCGAACCCTGCAAT
Found at i:15687239 original size:26 final size:26
Alignment explanation
Indices: 15687210--15687261 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
15687200 GTGCCGTAAT
15687210 ATGAAA-GAAAGCCCTTGTGGCAAAAC
1 ATGAAAGGAAAGCCCTTGTGG-AAAAC
* *
15687236 ATGAAAGGAATGCCTTTGTGGAAAAC
1 ATGAAAGGAAAGCCCTTGTGGAAAAC
15687262 TCCATAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (26 bp):
ATGAAAGGAAAGCCCTTGTGGAAAAC
Found at i:15688936 original size:51 final size:51
Alignment explanation
Indices: 15688757--15689100 Score: 278
Period size: 51 Copynumber: 6.8 Consensus size: 51
15688747 ATTTTTATCA
* *
15688757 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * *
15688805 TTAC-AGTTCACGTAGTAGCCTTCACATGGTACTACACACGTGATC-AAG-TT
1 TT-CGA-TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * *
15688855 TTAAGGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTT
1 TT--CGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * * *
15688907 TTCGGTACCCATTGTAGCCTTCACTTAGTACAACACATGTAACCATAG-TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * *
15688957 TACCGATACACGTAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTT
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTT
* * *
15689009 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* * * *
15689059 TATCGATACACGTAGTAGCCTCCACACAGTATTACACACGTG
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTG
15689101 TTCATCGACA
Statistics
Matches: 239, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
48 3 0.01
49 38 0.16
50 49 0.21
51 140 0.59
52 9 0.04
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (51 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:15688998 original size:102 final size:102
Alignment explanation
Indices: 15688759--15689100 Score: 392
Period size: 102 Copynumber: 3.4 Consensus size: 102
15688749 TTTTATCATT
* * * * *
15688759 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * * *
15688821 AGCCTTCACATGGTACTACACACGTGATCA-AGTTTTAA
65 AGCCTTCACTTAGTACTACACATGTGACCATAG-TTTAA
* * * * * *
15688859 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
* * *
15688923 GCCTTCACTTAGTACAACACATGTAACCATAGTTTAC
66 GCCTTCACTTAGTACTACACATGTGACCATAGTTTAA
* *
15688960 CGATACACGTAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTTTTCGATACACATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACATAGT
*
15689024 AGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
65 AGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTAA
* *
15689062 CGATACACGTAGTAGCCTCCACACAGTATTACACACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
15689101 TTCATCGACA
Statistics
Matches: 205, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 41 0.20
102 125 0.61
103 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (102 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATAGTTTAA
Found at i:15689078 original size:153 final size:148
Alignment explanation
Indices: 15688757--15689099 Score: 341
Period size: 153 Copynumber: 2.3 Consensus size: 148
15688747 ATTTTTATCA
* * * *
15688757 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTTCACGTAGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACAACACACGTAACCAGTTTTACAGTACACGTAGTA
* ** * * *
15688822 GCCTTCACATGGTACTACACACGTGATCAAGTTTTAAGGCTCACGTAGTAGCCTTCACATAGTAC
66 GCATTCACACAGTACTACACACGTGATCAAGTTTT-ACGATCACATAGTAGCCTTCACATAGTAC
*
15688887 TACATACGTGACCAAAGCTT
130 TACACACGTGACCAAA-CTT
* * * * * * *
15688907 TTCGGTACCCATTGTAGCCTTCACTTAGTACAACACATGTAACCA-TAGTTTACCGATACACGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACAACACACGTAACCAGT--TTTACAG-TACACGTA
* *
15688971 GTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTT-CGATACACATAGTAGCCTTCACTT
63 GTAGCATTCACACAGTACTACACACGTGATC-AAG-TTTTACGAT-CACATAGTAGCCTTCACAT
* *
15689035 AGTACTACACATGTGACCATTA-TT
125 AGTACTACACACGTGACCA-AACTT
* * **
15689059 TATCGATACACGTAGTAGCCTCCACACAGTATTACACACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACAACACACGT
15689100 GTTCATCGAC
Statistics
Matches: 153, Mismatches: 32, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
149 1 0.01
150 36 0.24
151 6 0.04
152 39 0.25
153 66 0.43
154 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (148 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACAACACACGTAACCAGTTTTACAGTACACGTAGTA
GCATTCACACAGTACTACACACGTGATCAAGTTTTACGATCACATAGTAGCCTTCACATAGTACT
ACACACGTGACCAAACTT
Found at i:15689420 original size:30 final size:30
Alignment explanation
Indices: 15689386--15689449 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
15689376 GCTTCGACTC
* *
15689386 AACTTTTATAAAATTACAAT-TTTGTCCCTA
1 AACTTTTACAAAATTAC-ATCTTTGTCCCCA
* *
15689416 AACTTTTGCATAATTACATCTTTGTCCCCA
1 AACTTTTACAAAATTACATCTTTGTCCCCA
15689446 AACT
1 AACT
15689450 CGAAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACATCTTTGTCCCCA
Found at i:15696420 original size:50 final size:49
Alignment explanation
Indices: 15696306--15696642 Score: 243
Period size: 51 Copynumber: 6.7 Consensus size: 49
15696296 TCATTCGATA
*
15696306 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAA-TTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTAC-GGT
* *
15696355 CACGTAGTAGCCTTCACATGGTACTACACACATGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG-T
* * *
15696405 CACGTTGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGGT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGT
* * * * * * * *
15696455 ACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGAT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTA-CGGT
* * * * *
15696506 ACACGTAGTAGCATTCACACAGTATTACACACGTGCTCAAAGCTTTT-TGGT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGT
* * * * * * * *
15696557 ACACATAGTAGCCTTCACTTTGTACCACACATGTGA-CCATTATTTATCGAT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGT
* * *
15696608 ACACGTAGTAGCCTCCACACAGTACTACGCACGTG
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTG
15696643 TTCATCGACA
Statistics
Matches: 225, Mismatches: 49, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
48 1 0.00
49 45 0.20
50 42 0.19
51 129 0.57
52 5 0.02
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGT
Found at i:15696540 original size:102 final size:102
Alignment explanation
Indices: 15696301--15696642 Score: 365
Period size: 102 Copynumber: 3.4 Consensus size: 102
15696291 TTTTATCATT
* * * * *
15696301 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA--TTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * ** *
15696363 AGCCTTCACATGGTACTACACACATGATCA-AGTTTTAC
65 AGCCTTCACTTAGTACTACACATGTGACCATAG-TTTAC
* * * * * * *
15696401 GGCT-CACGTTGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
*
15696465 GCCTTCACTTAGTACTACACATGTAACCATAGTTTAC
66 GCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
* * *
15696502 CGATACACGTAGTAGCATTCACACAGTATTACACACGTG-CTCAAAGCTTTTTGGTACACATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACATAGT
* * *
15696566 AGCCTTCACTTTGTACCACACATGTGACCATTA-TTTAT
65 AGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTAC
* *
15696604 CGATACACGTAGTAGCCTCCACACAGTACTACGCACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
15696643 TTCATCGACA
Statistics
Matches: 201, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
99 34 0.17
100 4 0.02
101 40 0.20
102 121 0.60
103 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
Found at i:15703781 original size:38 final size:39
Alignment explanation
Indices: 15703739--15703824 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
15703729 GTATGAAACA
* *
15703739 CATCTTGGCGCAA-AAAGTGCTTA-CTGGCACACGAAGTG
1 CATCTTGGCGCAAGAAA-CGCATATCTGGCACACGAAGTG
* **
15703777 CATCTTGGTGCAAGAAACGCATATCTGGCACACGTGGTG
1 CATCTTGGCGCAAGAAACGCATATCTGGCACACGAAGTG
*
15703816 CATCCTGGC
1 CATCTTGGC
15703825 ACATTAGTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
38 16 0.41
39 23 0.59
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.22
Consensus pattern (39 bp):
CATCTTGGCGCAAGAAACGCATATCTGGCACACGAAGTG
Found at i:15707991 original size:25 final size:25
Alignment explanation
Indices: 15707963--15708010 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15707953 AGTTTTTATG
*
15707963 ATTTTACCCTTATAAAATTTTGACA
1 ATTTTACCCTTAGAAAATTTTGACA
* *
15707988 ATTTTGCCCTTGGAAAATTTTGA
1 ATTTTACCCTTAGAAAATTTTGA
15708011 GAAAATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (25 bp):
ATTTTACCCTTAGAAAATTTTGACA
Found at i:15714276 original size:22 final size:24
Alignment explanation
Indices: 15714251--15714295 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
15714241 ATATGGCAAA
15714251 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
*
15714273 GAATTATGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
15714296 AACTTAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:15714699 original size:37 final size:35
Alignment explanation
Indices: 15714658--15714751 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 35
15714648 TATATGTGTG
*
15714658 GAATTTAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTTAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
15714695 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA-TTT-AATTGAATTGTGATTGAAAATGAAAAAGT
* *
15714732 GAAATTGAATTGAAATGTGA
1 G-AATTTAATTGAATTGTGA
15714752 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 12 0.24
37 17 0.35
38 9 0.18
39 11 0.22
ACGTcount: A:0.44, C:0.01, G:0.22, T:0.33
Consensus pattern (35 bp):
GAATTTAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:15715472 original size:2 final size:2
Alignment explanation
Indices: 15715465--15715509 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15715455 ACACAAGTCG
15715465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15715507 TA T
1 TA T
15715510 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15721005 original size:30 final size:30
Alignment explanation
Indices: 15720971--15721028 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15720961 AAAAATAATA
* *
15720971 ATTTCAACA-TTTTACATTTTAGCCCCTAAC
1 ATTTC-ACAGTTTCACAATTTAGCCCCTAAC
*
15721001 ATTTCACAGTTTCACAATTTAGTCCCTA
1 ATTTCACAGTTTCACAATTTAGCCCCTA
15721029 TTTCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (30 bp):
ATTTCACAGTTTCACAATTTAGCCCCTAAC
Found at i:15722912 original size:95 final size:95
Alignment explanation
Indices: 15722744--15722928 Score: 325
Period size: 95 Copynumber: 1.9 Consensus size: 95
15722734 TAATAGTGTT
* *
15722744 TGTAGTAAAGTCTGTTTGTGAATGGTATTCGCCAACAAGCGAATTGTATGACTTGCTAAGTTGGA
1 TGTAATAAAGTCTGTTTGTGAATGGTATTCGCCAACAAGCGAATTGTATGACTTACTAAGTTGGA
15722809 AAGGTTTATCAGTATTATATATATAATGTC
66 AAGGTTTATCAGTATTATATATATAATGTC
* *
15722839 TGTAATAAAGTCTGTTTGTGAATGGTATTCGCCAACGAGTGAATTGTATGACTTACTAAGTTGGA
1 TGTAATAAAGTCTGTTTGTGAATGGTATTCGCCAACAAGCGAATTGTATGACTTACTAAGTTGGA
*
15722904 AAGGTTTATCGGTATTATATATATA
66 AAGGTTTATCAGTATTATATATATA
15722929 GCAATTGAGA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (95 bp):
TGTAATAAAGTCTGTTTGTGAATGGTATTCGCCAACAAGCGAATTGTATGACTTACTAAGTTGGA
AAGGTTTATCAGTATTATATATATAATGTC
Found at i:15724028 original size:26 final size:26
Alignment explanation
Indices: 15723999--15724051 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15723989 GAAAATGACT
15723999 ATATGTCAAGCTACAAGCTAAAAAAA
1 ATATGTCAAGCTACAAGCTAAAAAAA
15724025 ATATGTCAAGCTACAAGCTAAAAAAA
1 ATATGTCAAGCTACAAGCTAAAAAAA
15724051 A
1 A
15724052 AATTAAGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.11, T:0.19
Consensus pattern (26 bp):
ATATGTCAAGCTACAAGCTAAAAAAA
Found at i:15724223 original size:5 final size:5
Alignment explanation
Indices: 15724213--15724237 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15724203 TTATCTTGCA
15724213 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
15724238 ACTTTGATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:15730331 original size:43 final size:43
Alignment explanation
Indices: 15730283--15730393 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
15730273 GTGATTTCGC
* *
15730283 GTAAGACCACATCTGGGACGTTGGCATCGA-CTTGTGTTTTCAT
1 GTAAGACCACATCTGGGACGTTGGCATCGATC-TGTGATTACAT
*
15730326 GTAAGACC-CTATCTGGGACAG-CGGCATCGATCTGTGATTACAT
1 GTAAGACCAC-ATCTGGGAC-GTTGGCATCGATCTGTGATTACAT
*
15730369 GTAAGACCACGTCTGGGACGTTGGC
1 GTAAGACCACATCTGGGACGTTGGC
15730394 GTTGTACGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 53 0.91
44 3 0.05
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (43 bp):
GTAAGACCACATCTGGGACGTTGGCATCGATCTGTGATTACAT
Found at i:15731531 original size:19 final size:20
Alignment explanation
Indices: 15731493--15731532 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
15731483 TTTTGAGTGA
15731493 ATTATGGTTTAGGCATATTTTG
1 ATTATGGTTTA-G-ATATTTTG
15731515 ATTATGGTTTA-ATATTTT
1 ATTATGGTTTAGATATTTT
15731533 ATGGATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
22 11 0.61
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (20 bp):
ATTATGGTTTAGATATTTTG
Found at i:15731921 original size:2 final size:2
Alignment explanation
Indices: 15731914--15731942 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15731904 TTATAAGGTA
15731914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15731943 GATGCATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15737285 original size:23 final size:23
Alignment explanation
Indices: 15737228--15737286 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
15737218 TCTTTGTGAG
* *
15737228 CTTCCTGATTAATGGCTCTCTAGAG
1 CTTCCTGA-T-ATGGCTCGCTAGAA
*
15737253 CTT-CTCGATATGGCTCGCTTGAA
1 CTTCCT-GATATGGCTCGCTAGAA
15737276 CTTCCTGATAT
1 CTTCCTGATAT
15737287 ATGGCTATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 19 0.66
24 5 0.17
25 5 0.17
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (23 bp):
CTTCCTGATATGGCTCGCTAGAA
Found at i:15737304 original size:25 final size:25
Alignment explanation
Indices: 15737276--15737327 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
15737266 CTCGCTTGAA
*
15737276 CTTCCTGA-TATATGGCTATTCGGAG
1 CTTCCTGATTA-ATGGCTATTCAGAG
15737301 CTTCCTGATTAATGGCTATTCAGAG
1 CTTCCTGATTAATGGCTATTCAGAG
15737326 CT
1 CT
15737328 ACCCGTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (25 bp):
CTTCCTGATTAATGGCTATTCAGAG
Found at i:15737375 original size:73 final size:73
Alignment explanation
Indices: 15737224--15737378 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 73
15737214 AGACTCTTTG
* * *
15737224 TGAGCTTCCTGATTAATGGCTCTCTAGAGCTTCTCGATATGGCTCGCTTGAACTTCCTGATATAT
1 TGAGCTTCCTGATTAATGGCTCTCTAGAGCTACCCGATATGGCTCGCATGAACTTCCTGATATAT
*
15737289 GGCTATTC
66 GGCTATTA
* * * *
15737297 GGAGCTTCCTGATTAATGGCTAT-TCAGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGA-AT
1 TGAGCTTCCTGATTAATGGCTCTCT-AGAGCTACCCGATA-TGGCTCGCATGAACTTCCTGATAT
*
15737360 ATGGCTCTTA
64 ATGGCTATTA
15737370 TGAGCTTCC
1 TGAGCTTCC
15737379 CGTTGTGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
72 1 0.01
73 50 0.71
74 19 0.27
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (73 bp):
TGAGCTTCCTGATTAATGGCTCTCTAGAGCTACCCGATATGGCTCGCATGAACTTCCTGATATAT
GGCTATTA
Found at i:15738478 original size:42 final size:42
Alignment explanation
Indices: 15738405--15738485 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
15738395 TCCACAAGGG
15738405 CAGAGACACAGGCGTGTGTCTCAGCCATGTGTGACACACAGC
1 CAGAGACACAGGCGTGTGTCTCAGCCATGTGTGACACACAGC
* *
15738447 CAGAGACAC-GG-GTGTGTTCCTTAGCCGTGTGTGACACAC
1 CAGAGACACAGGCGTGTG-T-CTCAGCCATGTGTGACACAC
15738486 GGCCTAGCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 5 0.14
41 3 0.09
42 27 0.77
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (42 bp):
CAGAGACACAGGCGTGTGTCTCAGCCATGTGTGACACACAGC
Found at i:15740208 original size:9 final size:9
Alignment explanation
Indices: 15740176--15740227 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
15740166 TTATCACTAT
15740176 TATTATTAC
1 TATTATTAC
*
15740185 TACTT-TTAT
1 TA-TTATTAC
*
15740194 TATTATTAA
1 TATTATTAC
15740203 TATTATTAC
1 TATTATTAC
* *
15740212 TATTGTTGC
1 TATTATTAC
15740221 TATTATT
1 TATTATT
15740228 GATAATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 2 0.06
9 31 0.89
10 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (9 bp):
TATTATTAC
Found at i:15740208 original size:15 final size:15
Alignment explanation
Indices: 15740173--15740215 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15740163 GTATTATCAC
* *
15740173 TATTATTATTACTAC
1 TATTATTATTATTAA
*
15740188 TTTTATTATTATTAA
1 TATTATTATTATTAA
*
15740203 TATTATTACTATT
1 TATTATTATTATT
15740216 GTTGCTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:15740224 original size:27 final size:27
Alignment explanation
Indices: 15740176--15740237 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
15740166 TTATCACTAT
*
15740176 TATTATTACTACTTTTATTATTATTAA
1 TATTATTACTACTTTTACTATTATTAA
* *
15740203 TATTATTACTA-TTGTTGCTATTATTGA
1 TATTATTACTACTT-TTACTATTATTAA
*
15740230 TAATATTA
1 TATTATTA
15740238 TTCGCTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (27 bp):
TATTATTACTACTTTTACTATTATTAA
Found at i:15740602 original size:2 final size:2
Alignment explanation
Indices: 15740595--15740650 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
15740585 TTTCAATTCT
* *
15740595 TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
15740637 TA TA T- TA TT TA TA T
1 TA TA TA TA TA TA TA T
15740651 TAAGTTTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15743299 original size:22 final size:22
Alignment explanation
Indices: 15743274--15743320 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
15743264 CTTTATATGC
*
15743274 ATTTTT-TAAGAGTGAGGATCAA
1 ATTTTTGT-AGAGTAAGGATCAA
15743296 ATTTTTGTAGAGTAAGGATCAA
1 ATTTTTGTAGAGTAAGGATCAA
15743318 ATT
1 ATT
15743321 AACAAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.38
Consensus pattern (22 bp):
ATTTTTGTAGAGTAAGGATCAA
Found at i:15749909 original size:16 final size:16
Alignment explanation
Indices: 15749884--15749917 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15749874 TGGGTTTTGC
* *
15749884 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
15749900 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
15749916 TT
1 TT
15749918 CATCCTAAAA
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:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:15756048 original size:6 final size:6
Alignment explanation
Indices: 15756037--15756061 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15756027 AGGAAGTTTC
15756037 AGCTCA AGCTCA AGCTCA AGCTCA A
1 AGCTCA AGCTCA AGCTCA AGCTCA A
15756062 TCCCGCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
AGCTCA
Found at i:15759872 original size:45 final size:45
Alignment explanation
Indices: 15759817--15759919 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
15759807 CCTATCTCCT
* * *
15759817 TGAAGTTGCAGTAGAGTAGATTGAAGATAGC-AGGTCTTATCCCCC
1 TGAAGTTGCAGTAGAGCAGACTGAAGATAGCGA-ATCTTATCCCCC
* * * * *
15759862 TGAATTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCC
1 TGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATCCCCC
15759907 TGAAGTTGCAGTA
1 TGAAGTTGCAGTA
15759920 CAACAGATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (45 bp):
TGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATCCCCC
Found at i:15767769 original size:21 final size:21
Alignment explanation
Indices: 15767745--15767795 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
15767735 TTCTTTTGAA
*
15767745 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
15767766 CCTCTGCTTCCCTCGCTGCTG
1 CCTCTGCTTCCCTCGCTGCAG
15767787 CCTCTGCTT
1 CCTCTGCTT
15767796 TTAGTTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:15767848 original size:87 final size:87
Alignment explanation
Indices: 15767680--15767839 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 87
15767670 TTTTGCTCTG
* * *
15767680 CTCTGCTTCTCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTCAA
** *
15767745 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
* * * *
15767767 CTCTGCTTCCCTCGCTGCTGCCTCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATTTCCTTTCAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTCAA
15767832 CCTCAACT
66 CCTCAACT
15767840 GTGGTCGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.12, C:0.30, G:0.17, T:0.41
Consensus pattern (87 bp):
CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTCAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:15773309 original size:9 final size:9
Alignment explanation
Indices: 15773295--15773977 Score: 652
Period size: 9 Copynumber: 78.2 Consensus size: 9
15773285 TTTTTATGTA
15773295 TTATGTAAG
1 TTATGTAAG
15773304 TTATGTACTAAG
1 TTATG---TAAG
15773316 TTATGT-A-
1 TTATGTAAG
15773323 TTATGTAAG
1 TTATGTAAG
15773332 TTATGTAAG
1 TTATGTAAG
*
15773341 TTGTGT-A-
1 TTATGTAAG
*
15773348 TTATGTGAG
1 TTATGTAAG
*
15773357 TTATGTAGG
1 TTATGTAAG
*
15773366 TTGTGT-A-
1 TTATGTAAG
15773373 TTATGTAAG
1 TTATGTAAG
15773382 TTATGT-A-
1 TTATGTAAG
15773389 TTATGT-A-
1 TTATGTAAG
15773396 TTATGTAAG
1 TTATGTAAG
15773405 TTATGTAAG
1 TTATGTAAG
*
15773414 TAATGT-A-
1 TTATGTAAG
15773421 TTATGTAAG
1 TTATGTAAG
*
15773430 TTGTGT-A-
1 TTATGTAAG
*
15773437 TAATGTAAG
1 TTATGTAAG
* *
15773446 CTAAG-AAGG
1 TTATGTAA-G
15773455 TTATGT-A-
1 TTATGTAAG
15773462 TTATGTAAG
1 TTATGTAAG
*
15773471 TTATTTAAG
1 TTATGTAAG
15773480 TTATGTAAG
1 TTATGTAAG
15773489 TTATGTAAG
1 TTATGTAAG
* *
15773498 TTATTTAAT
1 TTATGTAAG
15773507 TTATGTAAG
1 TTATGTAAG
15773516 TTATGTAAG
1 TTATGTAAG
15773525 TTATGTAAG
1 TTATGTAAG
* *
15773534 TTATTTAAT
1 TTATGTAAG
15773543 TTATGTAAG
1 TTATGTAAG
15773552 TTATGTAAG
1 TTATGTAAG
*
15773561 TTATGTAGG
1 TTATGTAAG
*
15773570 CTATGT-A-
1 TTATGTAAG
*
15773577 TTATGTAAA
1 TTATGTAAG
*
15773586 TAATGTAAG
1 TTATGTAAG
*
15773595 TTA-GGAAGG
1 TTATGTAA-G
15773604 TTATGT-A-
1 TTATGTAAG
15773611 TTATGTAAG
1 TTATGTAAG
*
15773620 TTATTTAAG
1 TTATGTAAG
15773629 TTATGTAAG
1 TTATGTAAG
15773638 TTATGTAAG
1 TTATGTAAG
* *
15773647 TTATCTAAT
1 TTATGTAAG
15773656 TTATGTAAG
1 TTATGTAAG
15773665 TTATGTAAG
1 TTATGTAAG
15773674 TTATGTAAG
1 TTATGTAAG
15773683 TTATGTACTAAG
1 TTATG---TAAG
15773695 TTATGT-A-
1 TTATGTAAG
*
15773702 TTATGTAAA
1 TTATGTAAG
*
15773711 TAATGTAAG
1 TTATGTAAG
*
15773720 TTA-GGAAGG
1 TTATGTAA-G
15773729 TTATGT-A-
1 TTATGTAAG
15773736 TTATGTAAG
1 TTATGTAAG
*
15773745 TTATTTAAG
1 TTATGTAAG
15773754 TTATGTAAG
1 TTATGTAAG
*
15773763 TTATATAAG
1 TTATGTAAG
* *
15773772 TTATTTAAT
1 TTATGTAAG
* *
15773781 TTATTTAAT
1 TTATGTAAG
15773790 TTATGTAAG
1 TTATGTAAG
15773799 TTATGTAAG
1 TTATGTAAG
* *
15773808 TTATTTAAT
1 TTATGTAAG
*
15773817 TTATATAAG
1 TTATGTAAG
15773826 TTATGTAAG
1 TTATGTAAG
* *
15773835 TTATTTAAT
1 TTATGTAAG
15773844 TTATGTAAG
1 TTATGTAAG
*
15773853 TTATGTAAT
1 TTATGTAAG
15773862 TTATGTAAG
1 TTATGTAAG
15773871 TTATGTAAG
1 TTATGTAAG
* *
15773880 TTATTTAAT
1 TTATGTAAG
*
15773889 TTATATAAG
1 TTATGTAAG
15773898 TTATGTAAG
1 TTATGTAAG
* *
15773907 TTATTTAAT
1 TTATGTAAG
15773916 TTATGTAAG
1 TTATGTAAG
15773925 TTATGTAAG
1 TTATGTAAG
*
15773934 TTATGTAGG
1 TTATGTAAG
*
15773943 CTATGT-A-
1 TTATGTAAG
*
15773950 TTATGTTA-
1 TTATGTAAG
*
15773958 TTATATAAG
1 TTATGTAAG
*
15773967 TTATGCAAG
1 TTATGTAAG
15773976 TT
1 TT
15773978 TATATATAAG
Statistics
Matches: 556, Mismatches: 82, Indels: 72
0.78 0.12 0.10
Matches are distributed among these distances:
7 72 0.13
8 32 0.06
9 432 0.78
10 2 0.00
12 18 0.03
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:15774029 original size:52 final size:53
Alignment explanation
Indices: 15773967--15774071 Score: 144
Period size: 52 Copynumber: 2.0 Consensus size: 53
15773957 ATTATATAAG
*
15773967 TTATGCAAGTTTATATATAAGTT-T-ATAT-ATTGTATATTATTTAAGTTATGTA
1 TTATGCAAGTTTATATATAAGTTATGATATGATTG-ATA-AATTTAAGTTATGTA
* *
15774019 TTATGTAAGTTTATATATAAGTTATGATATGATTGATAAATTTGAGTTATGTA
1 TTATGCAAGTTTATATATAAGTTATGATATGATTGATAAATTTAAGTTATGTA
15774072 AGTTATGCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
52 22 0.47
53 14 0.30
54 7 0.15
55 4 0.09
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.50
Consensus pattern (53 bp):
TTATGCAAGTTTATATATAAGTTATGATATGATTGATAAATTTAAGTTATGTA
Found at i:15774048 original size:12 final size:12
Alignment explanation
Indices: 15773973--15774041 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
15773963 TAAGTTATGC
15773973 AAGTTTATATAT
1 AAGTTTATATAT
15773985 AAGTTTATATAT
1 AAGTTTATATAT
* * *
15773997 -TGTATATTATTT
1 AAGTTTA-TATAT
*
15774009 AAGTTATGTATTATGT
1 AAG-T-T-TA-TATAT
15774025 AAGTTTATATAT
1 AAGTTTATATAT
15774037 AAGTT
1 AAGTT
15774042 ATGATATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 4 0.09
12 25 0.56
13 3 0.07
14 2 0.04
15 1 0.02
16 10 0.22
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:15774161 original size:9 final size:9
Alignment explanation
Indices: 15774147--15774206 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 9
15774137 TAAATATTTA
15774147 TAAGTTATG
1 TAAGTTATG
*
15774156 TAAGTTATT
1 TAAGTTATG
*
15774165 TAATTTATG
1 TAAGTTATG
15774174 TAAGTTATG
1 TAAGTTATG
* *
15774183 TAGGTAATG
1 TAAGTTATG
15774192 T-A-TTATG
1 TAAGTTATG
*
15774199 TTAGTTAT
1 TAAGTTAT
15774207 TATGTTATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
9 35 0.85
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (9 bp):
TAAGTTATG
Found at i:15774251 original size:256 final size:257
Alignment explanation
Indices: 15773892--15774407 Score: 792
Period size: 256 Copynumber: 2.0 Consensus size: 257
15773882 ATTTAATTTA
*
15773892 TATAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAGGCTATGTATTATGTT
1 TATAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATGTAGGCTATGTATTATGTT
*
15773957 ATTATATAAGTTATGCAAGTTTATATATAAGTTTATATATTGTATATTATTTAAGTTATGTATTA
66 ATTATATAAGTTATGCAAGTTTATATATAAGTTTATATATTGTATATTATTTAAGTTATGTACTA
*
15774022 TGTAAGTTTATATATAAGTTATG-ATATGATTGATAAATTTGAGTTATGTAAGTTATG-CTAGGA
131 TGTAAGTTTATATATAAGTTATGAATATGATTGATAAATTTGAGTTATGTAACTTATGAC-AGGA
*
15774085 TTGATAAATTTTGAAAAAAATATAGATTTT-AAA-ATATATATT-AAAATGTATATAAATATT
195 TTGATAAATTTTGAAAAAAATATAGATTTTAAAATATATATATTAAAAATGTAAATAAATATT
* * *
15774145 TATAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAGGTAATGTATTATGTTA-GTTATTA
1 TATAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATG---TAGGCTATG-TATTA
* * * *
15774209 TGTTATTATATAAGTTATGCAAGTTTCTATATATGTTTATATATTGTATGTTATTTTAGTTATGT
62 TGTTATTATATAAGTTATGCAAGTTTATATATAAGTTTATATATTGTATATTATTTAAGTTATGT
*
15774274 ACTATGTAAGTTTATATATAAGTTATGATATATATTATTGATAAATTTGAGTTATGTAACTTATG
127 ACTATGTAAGTTTATATATAAGTTATG--A-ATATGATTGATAAATTTGAGTTATGTAACTTATG
*
15774339 ACATGATTGATAAATTTTGAAAAAAATATAGATTTTAAAAATATATATATTAAAAATGTAAATAA
189 ACAGGATTGATAAATTTTGAAAAAAATATAGATTTT-AAAATATATATATTAAAAATGTAAATAA
15774404 ATAT
253 ATAT
15774408 GTAAGTTATT
Statistics
Matches: 237, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
253 45 0.19
255 1 0.00
256 97 0.41
260 65 0.27
261 1 0.00
262 3 0.01
263 9 0.04
264 16 0.07
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (257 bp):
TATAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATGTAGGCTATGTATTATGTT
ATTATATAAGTTATGCAAGTTTATATATAAGTTTATATATTGTATATTATTTAAGTTATGTACTA
TGTAAGTTTATATATAAGTTATGAATATGATTGATAAATTTGAGTTATGTAACTTATGACAGGAT
TGATAAATTTTGAAAAAAATATAGATTTTAAAATATATATATTAAAAATGTAAATAAATATT
Found at i:15774380 original size:15 final size:15
Alignment explanation
Indices: 15774360--15774395 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15774350 AAATTTTGAA
*
15774360 AAAAATATAGATTTT
1 AAAAATATAGATATT
*
15774375 AAAAATATATATATT
1 AAAAATATAGATATT
15774390 AAAAAT
1 AAAAAT
15774396 GTAAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAAATATAGATATT
Found at i:15774384 original size:17 final size:18
Alignment explanation
Indices: 15774352--15774385 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15774342 TGATTGATAA
15774352 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
15774370 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
15774386 TATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:15774506 original size:21 final size:22
Alignment explanation
Indices: 15774465--15774534 Score: 88
Period size: 21 Copynumber: 3.1 Consensus size: 22
15774455 TAAGTTTATG
*
15774465 TTAAATTTTAAAAATATATATAAA
1 TTAAATTTT--AAAGATATATAAA
*
15774489 TTAAATTTTAAA-ATATATATA
1 TTAAATTTTAAAGATATATAAA
15774510 TTAAATTTTAAAGATATATATAA
1 TTAAATTTTAAAGATATATA-AA
15774533 TT
1 TT
15774535 TTAAAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 20 0.48
22 10 0.24
23 3 0.07
24 9 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TTAAATTTTAAAGATATATAAA
Found at i:15774528 original size:18 final size:18
Alignment explanation
Indices: 15774492--15774548 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
15774482 ATATAAATTA
*
15774492 AATTTTAAAATATATATATT
1 AATTTT-AAAGATATATA-T
15774512 AAATTTTAAAGATATATAT
1 -AATTTTAAAGATATATAT
*
15774531 AATTTTAAA-AAATATAT
1 AATTTTAAAGATATATAT
15774548 A
1 A
15774549 TTAATAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.24
18 9 0.26
19 1 0.03
20 10 0.29
21 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTTTAAAGATATATAT
Found at i:15776138 original size:13 final size:13
Alignment explanation
Indices: 15776120--15776144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15776110 CTGAAAGGAG
15776120 TTAGGGATTTCAC
1 TTAGGGATTTCAC
15776133 TTAGGGATTTCA
1 TTAGGGATTTCA
15776145 GATCAGAAAA
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:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (13 bp):
TTAGGGATTTCAC
Found at i:15777038 original size:7 final size:7
Alignment explanation
Indices: 15777026--15777068 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
15777016 TATTCATTAG
15777026 ACCTTAA
1 ACCTTAA
15777033 ACCTTAA
1 ACCTTAA
15777040 ACCCTTAA
1 A-CCTTAA
*
15777048 CCCTTAA
1 ACCTTAA
*
15777055 CCCTT-A
1 ACCTTAA
15777061 ACCTTAA
1 ACCTTAA
15777068 A
1 A
15777069 TTGACTTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.16
7 21 0.66
8 6 0.19
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (7 bp):
ACCTTAA
Found at i:15777047 original size:15 final size:15
Alignment explanation
Indices: 15777027--15777068 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
15777017 ATTCATTAGA
15777027 CCTTAAACCTTAAAC
1 CCTTAAACCTTAAAC
*
15777042 CCTTAACCCTT-AAC
1 CCTTAAACCTTAAAC
15777056 CCTT-AACCTTAAA
1 CCTTAAACCTTAAA
15777069 TTGACTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.21
14 9 0.38
15 10 0.42
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAACCTTAAAC
Found at i:15777424 original size:38 final size:40
Alignment explanation
Indices: 15777339--15777425 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 40
15777329 TCAGCCATAT
* * *
15777339 TCCTTAAACCATAAATCATAAAATATATATAAACCCTAAA
1 TCCTTAAACCATAAATCATAAAACATACATAAACCATAAA
* * *
15777379 TCC-TAAACCCTAAATCA-ATAACATACATAAACTATAAA
1 TCCTTAAACCATAAATCATAAAACATACATAAACCATAAA
15777417 -CCTTAAACC
1 TCCTTAAACC
15777426 TCAACCCTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 2 0.05
38 22 0.55
39 13 0.32
40 3 0.08
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (40 bp):
TCCTTAAACCATAAATCATAAAACATACATAAACCATAAA
Found at i:15777553 original size:34 final size:34
Alignment explanation
Indices: 15777510--15777577 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
15777500 TCAACAAAAA
*
15777510 AAATATTGTTTTGCTTAATGATTTGCGGCGCTTT
1 AAATATTGTTTTGCTTAACGATTTGCGGCGCTTT
15777544 AAATATTGTTTTGCTTAACGATTTGCGGCGCTTT
1 AAATATTGTTTTGCTTAACGATTTGCGGCGCTTT
15777578 TAAAAAAGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.46
Consensus pattern (34 bp):
AAATATTGTTTTGCTTAACGATTTGCGGCGCTTT
Found at i:15777758 original size:115 final size:112
Alignment explanation
Indices: 15777565--15777805 Score: 245
Period size: 115 Copynumber: 2.1 Consensus size: 112
15777555 TGCTTAACGA
** * *
15777565 TTTGCGGCGCTTTTAAAAAAGCGCCGCTAATTCTTGAATTTTGCGGCGTTTTTTTAAAAGCACCA
1 TTTGCGGCGC--TTAAAAAAGCGCCGCTAAGGCTTGAATTCTGCGGCG-ATTTTTAAAAGCACCA
* ** **
15777630 CTAATGTCTCTAAACATCT-ACAAGAAAACGACGCTGTTTGCTTAAATCTT
63 CTAATGTCTCTAAACAT-TAACAACAAAACGACGCCATTTGCTTAAAAATT
* *
15777680 TTTGCGGCGCTTAACATAAAGCGCCGCTAAGGCTTGACTTCTGCGGC-ATTTTTAAAGTTGCACC
1 TTTGCGGCGCTTAA-A-AAAGCGCCGCTAAGGCTTGAATTCTGCGGCGATTTTTAAA--AGCACC
* * **
15777744 GCTAATGTAC-CTAAACCTTAACAACAAAACGTTGCCATTTGCTTAAAAATT
62 ACTAATGT-CTCTAAACATTAACAACAAAACGACGCCATTTGCTTAAAAATT
15777795 TTTGCGGCGCT
1 TTTGCGGCGCT
15777806 ACCGTAAAAG
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
113 12 0.11
114 2 0.02
115 90 0.86
116 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (112 bp):
TTTGCGGCGCTTAAAAAAGCGCCGCTAAGGCTTGAATTCTGCGGCGATTTTTAAAAGCACCACTA
ATGTCTCTAAACATTAACAACAAAACGACGCCATTTGCTTAAAAATT
Found at i:15799776 original size:25 final size:25
Alignment explanation
Indices: 15799742--15799801 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
15799732 TCTATGGCGC
*
15799742 CCCAAACCCGGTCGGGGCGGTCCGA
1 CCCAAACCCGGTCGGGGCAGTCCGA
* *
15799767 CCCAAACCCGGTCGTGGTAGTCCGA
1 CCCAAACCCGGTCGGGGCAGTCCGA
*
15799792 CCGAAACCCG
1 CCCAAACCCG
15799802 AAACGACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.20, C:0.40, G:0.30, T:0.10
Consensus pattern (25 bp):
CCCAAACCCGGTCGGGGCAGTCCGA
Found at i:15803573 original size:32 final size:32
Alignment explanation
Indices: 15803533--15803601 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
15803523 ATCTCTAACC
*
15803533 AACACAAATGAGTCATGTATCTCCTACCATAT
1 AACACAAATGAGTCATGCATCTCCTACCATAT
15803565 AACACAAATGAGTCATGCATCTCCTACCATAT
1 AACACAAATGAGTCATGCATCTCCTACCATAT
15803597 AACAC
1 AACAC
15803602 CTACCATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.25
Consensus pattern (32 bp):
AACACAAATGAGTCATGCATCTCCTACCATAT
Found at i:15803606 original size:14 final size:14
Alignment explanation
Indices: 15803587--15803618 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15803577 TCATGCATCT
15803587 CCTACCATATAACA
1 CCTACCATATAACA
15803601 CCTACCATATAACA
1 CCTACCATATAACA
15803615 CCTA
1 CCTA
15803619 ACCAACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTACCATATAACA
Found at i:15807495 original size:9 final size:9
Alignment explanation
Indices: 15807483--15807749 Score: 77
Period size: 10 Copynumber: 28.4 Consensus size: 9
15807473 TTTTATGATT
15807483 TTTTTATAA
1 TTTTTATAA
15807492 TTTTTATAA
1 TTTTTATAA
15807501 TTTTATATCAA
1 TTTT-TAT-AA
*
15807512 TTTTAAT-A
1 TTTTTATAA
*
15807520 TTTTTAATAC
1 TTTTT-ATAA
*
15807530 TTTTTAAAGA
1 TTTTTATA-A
* * *
15807540 ATTCTAAAA
1 TTTTTATAA
15807549 CGTTTTT-TAA
1 --TTTTTATAA
*
15807559 -CTTTA-AA
1 TTTTTATAA
15807566 TATTTTCAATAA
1 T-TTTT--ATAA
*
15807578 GTTTTATTAA
1 TTTTTA-TAA
*
15807588 TTTTATAAAAA
1 TTTT-T-ATAA
**
15807599 AATTTATAA
1 TTTTTATAA
*
15807608 TTTATTA-GA
1 TTT-TTATAA
*
15807617 TTTCTAT-A
1 TTTTTATAA
15807625 TTTTTATAA
1 TTTTTATAA
*
15807634 TATTTATAA
1 TTTTTATAA
15807643 GTTTTTAT-A
1 -TTTTTATAA
15807652 TTTTTATAA
1 TTTTTATAA
*
15807661 TTTTAATAA
1 TTTTTATAA
*
15807670 GTTTATATCAA
1 -TTTTTAT-AA
*
15807681 TTTTAAT-A
1 TTTTTATAA
* *
15807689 TTTTAAATATT
1 TTTT-TATA-A
15807700 TTTTTATAA
1 TTTTTATAA
*
15807709 CTTTTTCT-A
1 -TTTTTATAA
* *
15807718 TTTTTTTGAT
1 TTTTTAT-AA
15807728 TTTTTAATAA
1 TTTTT-ATAA
15807738 TTTTTAT-A
1 TTTTTATAA
15807746 TTTT
1 TTTT
15807750 AGTTAACGTC
Statistics
Matches: 190, Mismatches: 38, Indels: 61
0.66 0.13 0.21
Matches are distributed among these distances:
7 5 0.03
8 37 0.19
9 55 0.29
10 64 0.34
11 26 0.14
12 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15807513 original size:20 final size:20
Alignment explanation
Indices: 15807467--15807525 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
15807457 CTAGTCTAGT
*
15807467 TCAAGTTTTTATGATTTTTTTA
1 TCAA-TTTTTAT-ATTTTTATA
*
15807489 T-AATTTTTATAATTTTATA
1 TCAATTTTTATATTTTTATA
*
15807508 TCAATTTTAATATTTTTA
1 TCAATTTTTATATTTTTA
15807526 ATACTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.25
20 21 0.66
21 2 0.06
22 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TCAATTTTTATATTTTTATA
Found at i:15807657 original size:18 final size:18
Alignment explanation
Indices: 15807624--15807669 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
15807614 AGATTTCTAT
15807624 ATTTTTATAATATTTATA
1 ATTTTTATAATATTTATA
*
15807642 AGTTTTTAT-ATTTTTATA
1 A-TTTTTATAATATTTATA
*
15807660 ATTTTAATAA
1 ATTTTTATAA
15807670 GTTTATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 11 0.46
19 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTTTATAATATTTATA
Found at i:15807659 original size:27 final size:27
Alignment explanation
Indices: 15807607--15807673 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
15807597 AAAATTTATA
*
15807607 ATTTATTAGATTTCTATATTTTTATAAT
1 ATTTATAAG-TTTCTATATTTTTATAAT
*
15807635 ATTTATAAGTTTTTATATTTTTATAAT
1 ATTTATAAGTTTCTATATTTTTATAAT
15807662 -TTTAATAAGTTT
1 ATTT-ATAAGTTT
15807674 ATATCAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.08
27 25 0.69
28 8 0.22
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (27 bp):
ATTTATAAGTTTCTATATTTTTATAAT
Found at i:15807676 original size:35 final size:35
Alignment explanation
Indices: 15807600--15807669 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
15807590 TTATAAAAAA
*
15807600 ATTTATAATTTATTAGATTTCTATATTTTTATAAT
1 ATTTATAATTTATTAGATTTCTATATTTTAATAAT
* *
15807635 ATTTATAAGTTT-TTATATTTTTATAATTTTAATAA
1 ATTTATAA-TTTATTAGATTTCTAT-ATTTTAATAA
15807670 GTTTATATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (35 bp):
ATTTATAATTTATTAGATTTCTATATTTTAATAAT
Found at i:15808811 original size:2 final size:2
Alignment explanation
Indices: 15808804--15808844 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
15808794 CCTAGGCAGA
15808804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15808845 AAATTGAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15809488 original size:14 final size:14
Alignment explanation
Indices: 15809469--15809508 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
15809459 TTGATTGCCA
15809469 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
15809483 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
15809497 GGAAAATGTTTT
1 GTAAAATGTTTT
15809509 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:15809517 original size:20 final size:20
Alignment explanation
Indices: 15809492--15809531 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15809482 CGTAAAATGA
*
15809492 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
15809512 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15809532 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:15809521 original size:34 final size:35
Alignment explanation
Indices: 15809477--15809543 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
15809467 CAGTAAAATG
*
15809477 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
15809511 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
15809544 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:15809976 original size:13 final size:13
Alignment explanation
Indices: 15809958--15809985 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15809948 ATTCTTTCTC
15809958 TATTTATGAAGTT
1 TATTTATGAAGTT
15809971 TATTTATGAAGTT
1 TATTTATGAAGTT
15809984 TA
1 TA
15809986 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:15811406 original size:12 final size:12
Alignment explanation
Indices: 15811389--15811416 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15811379 TTTTCCAGAA
15811389 AACATTATATCG
1 AACATTATATCG
15811401 AACATTATATCG
1 AACATTATATCG
15811413 AACA
1 AACA
15811417 CACAAACGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (12 bp):
AACATTATATCG
Found at i:15819137 original size:16 final size:16
Alignment explanation
Indices: 15819118--15819186 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
15819108 TTTGGTTCGC
15819118 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15819134 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15819150 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
15819167 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15819183 TGTA
1 TGTA
15819187 ATAGCAAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15819164 original size:33 final size:32
Alignment explanation
Indices: 15819118--15819186 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
15819108 TTTGGTTCGC
15819118 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
15819150 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
15819183 TGTA
1 TGTA
15819187 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:15819443 original size:18 final size:17
Alignment explanation
Indices: 15819422--15819456 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15819412 TTATTATTAA
*
15819422 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15819440 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15819457 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:15819510 original size:157 final size:157
Alignment explanation
Indices: 15819309--15819625 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
15819299 TAGAATACCC
* * *
15819309 TTAGCATAAATTTGTTTTGGTAAATGGTTATTATTATTGTTATTTCAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
15819374 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAAATATTATTAAATATATTTAAATTAAAA
15819439 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
15819466 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
15819531 ATATCAATAATAAATAATTTAATCATATTTAAACATAAATATTATTAAATATATTTAAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAAATATTATTAAATATATTTAAATTAAAA
15819596 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
15819623 TTA
1 TTA
15819626 ATATATTCTT
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAAATATTATTAAATATATTTAAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:15819624 original size:20 final size:20
Alignment explanation
Indices: 15819596--15819646 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
15819586 TAAATTAAAA
15819596 TATATAATTTAATAAAATTCT
1 TATATAATTTAAT-AAATTCT
*
15819617 TA-ATAA-TTAATATATTCT
1 TATATAATTTAATAAATTCT
15819635 TATATGAATTTA
1 TATAT-AATTTA
15819647 CTCAAGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.31
19 7 0.27
20 6 0.23
21 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATAATTTAATAAATTCT
Found at i:15819811 original size:120 final size:121
Alignment explanation
Indices: 15819562--15819856 Score: 427
Period size: 120 Copynumber: 2.4 Consensus size: 121
15819552 ATCATATTTA
*
15819562 AACATAAATATTATTAAATATATTTAAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAAGTATTATTAAATATATTT-AATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * *
15819627 TATATTCTTATATGAATTTACTCAAGTCATAAGATATGATAGTGTAAAATATAAATT
65 TATATTCTTATATGAATTTACTCAAATCATAAGATATGATACTATAAAAGATAAATT
*
15819684 AACATAAGTATTATTAAATATATTATAATTGAAATATATAATTTAATAAAATTCTTAATAATT-A
1 AACATAAGTATTATTAAATATATT-TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
15819748 -ATATTCTTATGTGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
65 TATATTCTTATATGAATTTACTCAAATCATAAGATATGATACTATAAAAGATAAA-TT
* *
15819804 GAA-ATAAGTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAAGTATTATTAAATATA-TTTAATTAAAATATATAATTTAATAAAATT
15819857 TAAAATAATT
Statistics
Matches: 158, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
119 3 0.02
120 90 0.57
121 5 0.03
122 59 0.37
123 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (121 bp):
AACATAAGTATTATTAAATATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAT
ATATTCTTATATGAATTTACTCAAATCATAAGATATGATACTATAAAAGATAAATT
Found at i:15819950 original size:93 final size:92
Alignment explanation
Indices: 15819853--15820082 Score: 238
Period size: 92 Copynumber: 2.5 Consensus size: 92
15819843 GATTTAATAA
* * *
15819853 AATTT-AAAATAATT-ATAACTAATAAATTATATGTT-TATG-AATTTGTATAATTTAAAATAA-
1 AATTTCAAAA-AATTCATAA-TAATAAATT-T-TCTTATATGAAATTTATACAATTTAAAATAAT
**
15819913 TAATTAGTTACGTATAATTTAATAATAATATAT
62 TAA-TA-TTAAATATAATTTAATAATAATATAT
* * *
15819946 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAAATTTATACAATTTAAAATAATTAAT
1 AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAAATTTATACAATTTAAAATAATTAAT
* *
15820011 ATTAAATATAATTTAATAGTGATATAT
66 ATTAAATATAATTTAATAATAATATAT
* * *
15820038 AATTTCATAAAATTCTTAATAATAAAATGTTCTTATATG-AATTTA
1 AATTTCAAAAAATTCATAATAAT-AAATTTTCTTATATGAAATTTA
15820083 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
91 3 0.03
92 55 0.46
93 53 0.45
94 8 0.07
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATAATATAT
Found at i:15820043 original size:92 final size:93
Alignment explanation
Indices: 15819888--15820082 Score: 279
Period size: 92 Copynumber: 2.1 Consensus size: 93
15819878 ATTATATGTT
* * **
15819888 TATGAATTTGTATAATTTAAAATAATAATTAGTTACGTATAATTTAATAATAATATATAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTAGTTAAATATAATTTAATAATAATATATAATTTCA
* *
15819953 TAAAATTCTTGATAAT-AAATTTTCTTA
66 TAAAATTCTTAATAATAAAATGTTCTTA
* *
15819980 TATGAAATTTATACAATTTAAAATAATTAA-TA-TTAAATATAATTTAATAGTGATATATAATTT
1 TATG-AATTTATACAATTTAAAATAA-TAATTAGTTAAATATAATTTAATAATAATATATAATTT
15820043 CATAAAATTCTTAATAATAAAATGTTCTTA
64 CATAAAATTCTTAATAATAAAATGTTCTTA
15820073 TATGAATTTA
1 TATGAATTTA
15820083 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
92 54 0.59
93 35 0.38
94 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (93 bp):
TATGAATTTATACAATTTAAAATAATAATTAGTTAAATATAATTTAATAATAATATATAATTTCA
TAAAATTCTTAATAATAAAATGTTCTTA
Found at i:15824082 original size:45 final size:46
Alignment explanation
Indices: 15823994--15824084 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
15823984 AAAATATGTC
**
15823994 TATAGTGATTGTATTTTTTGAAAATTTCAAAGTAGGAAATTTAATT
1 TATAGTGATTGTATTTTTCAAAAATTTCAAAGTAGGAAATTTAATT
* * *
15824040 TATAGTGGTTGTATTTTTCAAAAATTTTATAGTAGG-AATTTAATT
1 TATAGTGATTGTATTTTTCAAAAATTTCAAAGTAGGAAATTTAATT
15824085 CTGTGAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 9 0.22
46 31 0.77
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.47
Consensus pattern (46 bp):
TATAGTGATTGTATTTTTCAAAAATTTCAAAGTAGGAAATTTAATT
Found at i:15824424 original size:23 final size:23
Alignment explanation
Indices: 15824394--15824439 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15824384 AGAAGCTAGT
15824394 ATGTAACTTAATCAGGCAACAGA
1 ATGTAACTTAATCAGGCAACAGA
*
15824417 ATGTAACTTAATCAGGCAGCAGA
1 ATGTAACTTAATCAGGCAACAGA
15824440 CATGAAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (23 bp):
ATGTAACTTAATCAGGCAACAGA
Found at i:15828865 original size:40 final size:40
Alignment explanation
Indices: 15828821--15828909 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
15828811 TGGAAAAAGC
*
15828821 AGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATTGG
1 AGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATTGA
15828861 AGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATTGA
1 AGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATTGA
*
15828901 AGTCAATGG
1 AGTAAATGG
15828910 TGAAGTTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (40 bp):
AGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATTGA
Found at i:15841998 original size:25 final size:25
Alignment explanation
Indices: 15841947--15842038 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
15841937 TCTTGTACAT
* * *
15841947 GTATGCTCACACGAGCTATGAATTG
1 GTATGCTCACACGAGCTGTAAACTG
* *
15841972 GTGTGCTCAGACGAGCTGTAAACTG
1 GTATGCTCACACGAGCTGTAAACTG
* *
15841997 GTATGCTCACATGAGCTGTGAAAATGG
1 GTATGCTCACACGAGCTGT-AAACT-G
**
15842024 GCCTGCTCACACGAG
1 GTATGCTCACACGAG
15842039 TTGTGGGTCA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 36 0.68
26 4 0.08
27 13 0.25
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAACTG
Found at i:15843638 original size:54 final size:54
Alignment explanation
Indices: 15843497--15843647 Score: 144
Period size: 54 Copynumber: 2.8 Consensus size: 54
15843487 TCAAGTTAGT
* * * * * *
15843497 GAGTTACATGGCCTAGCACATGGCTTGGCATACGAGCGTGTGTGGCAACTCAGA
1 GAGTTACACGACCTAGCACACGGCTTGGAACACGAGCGTGTGGGGCAACTCAGA
* * * *
15843551 GAGTTACACGACCTAGCACACGGCCTGGAACACGGGCGTGTGGGGCTACTCAGT
1 GAGTTACACGACCTAGCACACGGCTTGGAACACGAGCGTGTGGGGCAACTCAGA
* * * *
15843605 GAGTTACATGA-GTGAGGACACGGGCTTGG-ACACGACCGTGTGG
1 GAGTTACACGACCT-AGCACAC-GGCTTGGAACACGAGCGTGTGG
15843648 CTCTTGTTCT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 72 0.91
55 6 0.08
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.19
Consensus pattern (54 bp):
GAGTTACACGACCTAGCACACGGCTTGGAACACGAGCGTGTGGGGCAACTCAGA
Found at i:15861793 original size:27 final size:27
Alignment explanation
Indices: 15861759--15862003 Score: 241
Period size: 27 Copynumber: 9.1 Consensus size: 27
15861749 CAAAATGCCT
15861759 CTATAGGGTAAAATGACTGAAATACCC
1 CTATAGGGTAAAATGACTGAAATACCC
* *
15861786 CTAAAGGGTAGAATGA-TCGAAATACCAC
1 CTATAGGGTAAAATGACT-GAAATACC-C
* * *
15861814 C-ATAAGGTAAAATGGCCGAAATACCC
1 CTATAGGGTAAAATGACTGAAATACCC
* **
15861840 C-ATAGGGTAAAATAACCAAAATA-CC
1 CTATAGGGTAAAATGACTGAAATACCC
*
15861865 CTCATAGGATAAAATGA-TCGAAATACCC
1 CT-ATAGGGTAAAATGACT-GAAATACCC
*
15861893 CTATAGAGTAAAATGACTGAAATACCC
1 CTATAGGGTAAAATGACTGAAATACCC
* * **
15861920 CCATAGGGTAGAATGACCAAAATACCC
1 CTATAGGGTAAAATGACTGAAATACCC
* *
15861947 CCATTGGGTAAAATGA-TCGAAATACCC
1 CTATAGGGTAAAATGACT-GAAATACCC
**
15861974 CTATAGGGTAAAATGACTGTTATACCC
1 CTATAGGGTAAAATGACTGAAATACCC
15862001 CTA
1 CTA
15862004 GGAGATGAAA
Statistics
Matches: 178, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.02
26 21 0.12
27 146 0.82
28 8 0.04
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
CTATAGGGTAAAATGACTGAAATACCC
Found at i:15861925 original size:54 final size:54
Alignment explanation
Indices: 15861761--15861990 Score: 275
Period size: 54 Copynumber: 4.3 Consensus size: 54
15861751 AAATGCCTCT
* * * *
15861761 ATAGGGTAAAATGACTGAAATACCCCTAAAGGGTAGAATGATCGAAATACCACC
1 ATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCC
* * * * * *
15861815 ATAAGGTAAAATGGCCGAAATACCCC-ATAGGGTAAAATAACCAAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCC
* * *
15861868 ATAGGATAAAATGATCGAAATACCCCTATAGAGTAAAATGA-CTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-GAAATACCCCC
* * * * *
15861922 ATAGGGTAGAATGACCAAAATACCCCCATTGGGTAAAATGATCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCC
15861976 ATAGGGTAAAATGAC
1 ATAGGGTAAAATGAC
15861991 TGTTATACCC
Statistics
Matches: 146, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 43 0.29
54 102 0.70
55 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (54 bp):
ATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCC
Found at i:15861963 original size:81 final size:81
Alignment explanation
Indices: 15861761--15862001 Score: 308
Period size: 81 Copynumber: 3.0 Consensus size: 81
15861751 AAATGCCTCT
** * * *
15861761 ATAGGGTAAAATGACTGAAATACCCCTAAAGGGTAGAATGATCGAAATACCACC-ATA-AGGTAA
1 ATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACC-CCTATAGA-GTAA
* *
15861824 AATGGCCGAAATA-CCCC
64 AATGACTGAAATACCCCC
* * *
15861841 ATAGGGTAAAATAACCAAAATACCCTCATAGGATAAAATGATCGAAATACCCCTATAGAGTAAAA
1 ATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGAGTAAAA
15861906 TGACTGAAATACCCCC
66 TGACTGAAATACCCCC
* * *
15861922 ATAGGGTAGAATGACCAAAATACCCCCATTGGGTAAAATGATCGAAATACCCCTATAGGGTAAAA
1 ATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGAGTAAAA
**
15861987 TGACTGTTATACCCC
66 TGACTGAAATACCCC
15862002 TAGGAGATGA
Statistics
Matches: 140, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 2 0.01
80 61 0.44
81 77 0.55
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (81 bp):
ATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGAGTAAAA
TGACTGAAATACCCCC
Found at i:15864176 original size:33 final size:33
Alignment explanation
Indices: 15864134--15864201 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
15864124 ATATCATCTT
*
15864134 AAAACATACCATAATTATGAGCATAAGCAATTC
1 AAAACATACCATAATTATGAGCAAAAGCAATTC
15864167 AAAACATACCATAATTATGAGCAAAAGCAATTC
1 AAAACATACCATAATTATGAGCAAAAGCAATTC
15864200 AA
1 AA
15864202 CATATACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.51, C:0.18, G:0.09, T:0.22
Consensus pattern (33 bp):
AAAACATACCATAATTATGAGCAAAAGCAATTC
Found at i:15874062 original size:26 final size:27
Alignment explanation
Indices: 15874032--15874091 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
15874022 AACCATAAAA
15874032 TCAAACATTAA-A-ACAAATATAACATC
1 TCAAACATTAATATACAAATATAA-ATC
* *
15874058 TCAAA-ATTAATATCCAAATATAAGTC
1 TCAAACATTAATATACAAATATAAATC
15874084 TCAAACAT
1 TCAAACAT
15874092 CCATTACGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 5 0.17
26 13 0.45
27 11 0.38
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (27 bp):
TCAAACATTAATATACAAATATAAATC
Found at i:15884968 original size:24 final size:24
Alignment explanation
Indices: 15884927--15884973 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
15884917 TATTAACAAC
* * *
15884927 TACATGTACATCTTCATACATATA
1 TACATATACATATACATACATATA
*
15884951 TACATATACATATACATATATAT
1 TACATATACATATACATACATAT
15884974 TATTATTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (24 bp):
TACATATACATATACATACATATA
Found at i:15885543 original size:41 final size:41
Alignment explanation
Indices: 15885450--15885635 Score: 214
Period size: 41 Copynumber: 4.5 Consensus size: 41
15885440 TTTAAAATGA
* * * *
15885450 TTCACCGGCATGT-AGCCTGCTAGGCTTAAAGCCTG-ATTCAG
1 TTCACCGGCAT-TAAGCCTGCTAGACGTAAAGTCTGAATT-AT
** * * *
15885491 AACACCGGCATTAGGCCTGCTAGACGTAAAGTTTGAAATAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
*
15885532 TTCACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
* *
15885573 TTCACTGGCATTAAGCCTGCTAGATGTAAAGTCTGAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
**
15885614 TTCAGTGGCATTAAGCCTGCTA
1 TTCACCGGCATTAAGCCTGCTA
15885636 AGAATAGAGC
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 121 0.98
42 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
Found at i:15885650 original size:82 final size:82
Alignment explanation
Indices: 15885497--15885651 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 82
15885487 TCAGAACACC
* * *
15885497 GGCATTAGGCCTGCTAGACGTAAAGTTTGAAATATTTCACCAGCATTAAGCCTGCTAGACGTAAA
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTAAGCCTGCTAGACATAAA
*
15885562 GTCTGAATTATTTCACT
66 GCCTGAATTATTTCACT
* * *** *
15885579 GGCATTAAGCCTGCTAGATGTAAAGTCTGAATTATTTCAGTGGCATTAAGCCTGCTAAGA-ATAG
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTAAGCCTGCT-AGACATAA
15885643 AGCCTGAAT
65 AGCCTGAAT
15885652 AACTCAGATA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
82 59 0.95
83 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (82 bp):
GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTAAGCCTGCTAGACATAAA
GCCTGAATTATTTCACT
Found at i:15885651 original size:41 final size:41
Alignment explanation
Indices: 15885497--15885635 Score: 215
Period size: 41 Copynumber: 3.4 Consensus size: 41
15885487 TCAGAACACC
* * * *
15885497 GGCATTAGGCCTGCTAGACGTAAAGTTTGAAATATTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACT
*
15885538 AGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACT
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACT
* *
15885579 GGCATTAAGCCTGCTAGATGTAAAGTCTGAATTATTTCAGT
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACT
15885620 GGCATTAAGCCTGCTA
1 GGCATTAAGCCTGCTA
15885636 AGAATAGAGC
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (41 bp):
GGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACT
Found at i:15885831 original size:61 final size:61
Alignment explanation
Indices: 15885748--15885878 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
15885738 ACATGAATAA
* * * * *
15885748 ATATATATAATTCATAACATTAAGTTTAGCTCAAAGAACTTGTATA-TTACATTCGAACCTC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTA-ACCTACATTCGAACCAC
* * * * *
15885809 ATATGTATAGTTCAAAACATTAAATTCAGCTCAATGAATTTGTAACCTATATTCGAACCAC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
15885870 ATATATATA
1 ATATATATA
15885879 TATATATAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (61 bp):
ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
Found at i:15886036 original size:61 final size:62
Alignment explanation
Indices: 15885878--15886037 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 62
15885868 ACATATATAT
* *
15885878 ATATATAT-AAATGTATACATCAAATTCAACTCAAGAGATTTTGCAATCTATGTTTGAACCAC
1 ATATATATGAAAT-TATACATCAAATTCAACTCAAGAGATCTTGCAATATATGTTTGAACCAC
* * * *
15885940 ATACGTATAAGAAATTTATATATTAAATTCAACTCAAGA-A-CTTG-AATATATTTATTCGAACC
1 ATA--TATATGAAA-TTATACATCAAATTCAACTCAAGAGATCTTGCAATATATGT-TT-GAACC
15886002 AC
61 AC
*
15886004 ATATATATGAAATTATACATCAAATTCGACTCAA
1 ATATATATGAAATTATACATCAAATTCAACTCAA
15886038 AGAAGTTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
61 19 0.23
62 18 0.22
63 5 0.06
64 15 0.18
65 24 0.29
66 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (62 bp):
ATATATATGAAATTATACATCAAATTCAACTCAAGAGATCTTGCAATATATGTTTGAACCAC
Done.