Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 149 of 210
Found at i:45326875 original size:73 final size:71
Alignment explanation
Indices: 45326731--45326905 Score: 235
Period size: 73 Copynumber: 2.4 Consensus size: 71
45326721 CTTAGACGTA
* * *
45326731 TCTATTCCAATTTTTTTAAGGTTGCCTTAGAAGTGTCTATCCCAACTTTTTTAAGGTTGTCTTAG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAGAGTCTATCCCAACTTTTTTAAGGTTGTCTTAG
*
45326796 ATAAGG
66 ACAAGG
* *
45326802 TCTATCTCAACTTTTTTAAGGTTGCCTTAGACGAGTCTATCCCAAACTTTTTTAAAGGTTG-CTT
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAGAGTCTATCCC-AACTTTTTT-AAGGTTGTC-T
45326866 TAGACAAGG
63 TAGACAAGG
* * *
45326875 TCTATCCCAACCTTTTTAAGTTTGTCTTAGA
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGA
45326906 TGGGCCTATA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
71 38 0.42
72 10 0.11
73 43 0.47
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (71 bp):
TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAGAGTCTATCCCAACTTTTTTAAGGTTGTCTTAG
ACAAGG
Found at i:45326925 original size:73 final size:72
Alignment explanation
Indices: 45326743--45326940 Score: 204
Period size: 73 Copynumber: 2.8 Consensus size: 72
45326733 TATTCCAATT
* * * * *
45326743 TTTTTAAGGTTGCCTTAGAAGTGTCTAT-CCCAACTTTTTTAAGGTTGTCTTAGATAAGGTCTAT
1 TTTTTAAGGTTGCCTTAGACGAGCCTATACCAAACTTTTTTAAGGTTGTCTTAGACAAGGTCTAT
* *
45326807 CTCAACT
66 CCCAACC
* *
45326814 TTTTTAAGGTTGCCTTAGACGAGTCTATCCCAAACTTTTTTAAAGGTTG-CTTTAGACAAGGTCT
1 TTTTTAAGGTTGCCTTAGACGAGCCTATACCAAACTTTTTT-AAGGTTGTC-TTAGACAAGGTCT
45326878 ATCCCAACC
64 ATCCCAACC
* * * * * * * *
45326887 TTTTTAAGTTTGTCTTAGATGGGCCTATATC-AACCTTTTTAAGATTGCCTTAGA
1 TTTTTAAGGTTGCCTTAGACGAGCCTATACCAAACTTTTTTAAGGTTGTCTTAGA
45326941 TGAGTTTATC
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
71 37 0.34
72 21 0.19
73 50 0.46
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (72 bp):
TTTTTAAGGTTGCCTTAGACGAGCCTATACCAAACTTTTTTAAGGTTGTCTTAGACAAGGTCTAT
CCCAACC
Found at i:45326940 original size:108 final size:107
Alignment explanation
Indices: 45326720--45326965 Score: 304
Period size: 108 Copynumber: 2.3 Consensus size: 107
45326710 GAAAAAATTA
* *
45326720 CCTTAGACGTA-TCTATTCC-AA-TTTTTTTAAGGTTGCCTTAGAAGTGTCTATCCCAACTTTTT
1 CCTTAGACG-AGTCTA-TCCAAACTTTTTTAAAGGTTGCCTTAGAAGTGTCTATCCCAACCTTTT
* * * *
45326782 TAAGGTTGTCTTAGATAAGGTCTATCTCAACTTTTTTAAGGTTG
64 TAAGGTTGTCTTAGATAAGGCCTATATCAACCTTTTTAAGATTG
*
45326826 CCTTAGACGAGTCTATCCCAAACTTTTTTAAAGGTTGCTTTAGACAAG-GTCTATCCCAACCTTT
1 CCTTAGACGAGTCTAT-CCAAACTTTTTTAAAGGTTGCCTTAG--AAGTGTCTATCCCAACCTTT
* *
45326890 TTAAGTTTGTCTTAGAT-GGGCCTATATCAACCTTTTTAAGATTG
63 TTAAGGTTGTCTTAGATAAGGCCTATATCAACCTTTTTAAGATTG
* *
45326934 CCTTAGATGAGTTTATCCAAATCTTTTTTAAA
1 CCTTAGACGAGTCTATCCAAA-CTTTTTTAAA
45326966 TGTCGGTATT
Statistics
Matches: 122, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
105 2 0.02
106 15 0.12
107 7 0.06
108 64 0.52
109 31 0.25
110 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (107 bp):
CCTTAGACGAGTCTATCCAAACTTTTTTAAAGGTTGCCTTAGAAGTGTCTATCCCAACCTTTTTA
AGGTTGTCTTAGATAAGGCCTATATCAACCTTTTTAAGATTG
Found at i:45330989 original size:18 final size:18
Alignment explanation
Indices: 45330955--45330988 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
45330945 AATTGGTTAT
45330955 TTTTATTATTTTATTTTA
1 TTTTATTATTTTATTTTA
45330973 TTTTATT-TTTTATTTT
1 TTTTATTATTTTATTTT
45330989 TGGTAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTATTATTTTATTTTA
Found at i:45331879 original size:21 final size:21
Alignment explanation
Indices: 45331855--45331928 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
45331845 GATCGTGTAC
*
45331855 CTCAGTCACACAAGCGTGTCT
1 CTCAGACACACAAGCGTGTCT
45331876 CTCA-AC-CACATAGCTGTGTCT
1 CTCAGACACACA-AGC-GTGTCT
* * *
45331897 CTTAGGCACACAGGCGTGTCT
1 CTCAGACACACAAGCGTGTCT
45331918 CTCAGACACAC
1 CTCAGACACAC
45331929 GACCATGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 4 0.09
20 4 0.09
21 28 0.65
22 3 0.07
23 4 0.09
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (21 bp):
CTCAGACACACAAGCGTGTCT
Found at i:45334299 original size:2 final size:2
Alignment explanation
Indices: 45334294--45334326 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
45334284 TGTATATATA
*
45334294 TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
45334327 ACATATTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:45341331 original size:2 final size:2
Alignment explanation
Indices: 45341324--45341355 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45341314 AACTAGACTA
45341324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45341356 TTCCTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45342126 original size:26 final size:26
Alignment explanation
Indices: 45342097--45342146 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45342087 AAATAATTTG
45342097 GGGAATCAACACTTAGCAACCCCTCA
1 GGGAATCAACACTTAGCAACCCCTCA
**
45342123 GGGAATCTGCACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
45342147 TTTTTATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (26 bp):
GGGAATCAACACTTAGCAACCCCTCA
Found at i:45342180 original size:41 final size:41
Alignment explanation
Indices: 45342123--45342270 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
45342113 CAACCCCTCA
** * *
45342123 GGGAATCTGCACTTAGCAACCCCTTTTTTATCAGTGATTTG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
*
45342164 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATACG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
* * *
45342205 GGGAATTTGCACTTGGCAACCCCTTTTCGATCAATGATTCA
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
45342246 GGGAATCTGCACTTAGCAACCCCTT
1 GGGAATCTGCACTTAGCAACCCCTT
45342271 ACATTCAATG
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
Found at i:45348189 original size:31 final size:30
Alignment explanation
Indices: 45348154--45348213 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45348144 GGAGGTGGGA
*
45348154 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
45348185 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
45348214 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:45350164 original size:22 final size:24
Alignment explanation
Indices: 45350127--45350170 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
45350117 AAAACGCCTA
45350127 TTCTTCTTCTCTTTTTTCTTTTGG
1 TTCTTCTTCTCTTTTTTCTTTTGG
45350151 TTCTT-TT-TCTTTTTTCTTTT
1 TTCTTCTTCTCTTTTTTCTTTT
45350171 TAATAACTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
23 2 0.10
24 5 0.25
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (24 bp):
TTCTTCTTCTCTTTTTTCTTTTGG
Found at i:45353883 original size:62 final size:62
Alignment explanation
Indices: 45353767--45353893 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 62
45353757 TTCTAGGTTA
* * * *
45353767 TGTAACTCATTGTTTGTATTTTTGGTCACACAAGCCAGGGACACCCGCATGTGTCCAGGCCG
1 TGTAACTCACTGTTTGTATTTCTGGTCACACAAGCCAGGGACACACGCACGTGTCCAGGCCG
* * * * **
45353829 TGTAACTCACTGTTTGTATTTCTGGTCACACAGGCTAGGGACATAGGTGCGTGTCCAGGCCG
1 TGTAACTCACTGTTTGTATTTCTGGTCACACAAGCCAGGGACACACGCACGTGTCCAGGCCG
45353891 TGT
1 TGT
45353894 GAGGGGTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.30
Consensus pattern (62 bp):
TGTAACTCACTGTTTGTATTTCTGGTCACACAAGCCAGGGACACACGCACGTGTCCAGGCCG
Found at i:45358514 original size:23 final size:23
Alignment explanation
Indices: 45358463--45358507 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45358453 ACCAAAATAA
45358463 TAAATTATTGCAACGGTAGTGAC
1 TAAATTATTGCAACGGTAGTGAC
*
45358486 TAAATTATT-CTAACGGTTGTGA
1 TAAATTATTGC-AACGGTAGTGA
45358508 TCAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (23 bp):
TAAATTATTGCAACGGTAGTGAC
Found at i:45364028 original size:21 final size:21
Alignment explanation
Indices: 45363974--45364044 Score: 85
Period size: 20 Copynumber: 3.4 Consensus size: 21
45363964 GTATATCATG
45363974 TATGTTATGTATATT-ACTATT
1 TATG-TATGTATATTAACTATT
*
45363995 TATGTATGTATATTAAGTATGT
1 TATGTATGTATATTAACTAT-T
*
45364017 TATGTA-GTATATT-ACTGTT
1 TATGTATGTATATTAACTATT
45364036 TATGTATGT
1 TATGTATGT
45364045 TATGTATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.16
20 15 0.34
21 15 0.34
22 7 0.16
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (21 bp):
TATGTATGTATATTAACTATT
Found at i:45364035 original size:18 final size:19
Alignment explanation
Indices: 45363961--45364044 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 19
45363951 AAAAAAATAA
*
45363961 TATGTATATCA-TG-TATG
1 TATGTATATTACTGTTATG
*
45363978 TTATGTATATTACTATTTATG
1 -TATGTATATTACT-GTTATG
*
45363999 TATGTATATTAAGTATGTTATG
1 TATGTATATT-A--CTGTTATG
45364021 TA-GTATATTACTGTTTATG
1 TATGTATATTACTG-TTATG
45364040 TATGT
1 TATGT
45364045 TATGTATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
18 12 0.23
19 8 0.15
20 13 0.25
21 12 0.23
22 7 0.13
23 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (19 bp):
TATGTATATTACTGTTATG
Found at i:45364039 original size:41 final size:38
Alignment explanation
Indices: 45363961--45364044 Score: 114
Period size: 41 Copynumber: 2.1 Consensus size: 38
45363951 AAAAAAATAA
*
45363961 TATGTATATCATGTATGTTATGTATATTACTATTTATG
1 TATGTATATCAAGTATGTTATGTATATTACTATTTATG
* *
45363999 TATGTATATTAAGTATGTTATGTAGTATATTACTGTTTATG
1 TATGTATATCAAGTATGTTA--T-GTATATTACTATTTATG
45364040 TATGT
1 TATGT
45364045 TATGTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 18 0.45
40 1 0.03
41 21 0.52
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (38 bp):
TATGTATATCAAGTATGTTATGTATATTACTATTTATG
Found at i:45364043 original size:28 final size:28
Alignment explanation
Indices: 45364011--45364107 Score: 124
Period size: 28 Copynumber: 3.4 Consensus size: 28
45364001 TGTATATTAA
45364011 GTATGTTATGTAGTATATTACTGTTTAT
1 GTATGTTATGTAGTATATTACTGTTTAT
* * *
45364039 GTATGTTATGTATTATATTATTGTTAAT
1 GTATGTTATGTAGTATATTACTGTTTAT
* *
45364067 GTATTTTATGTATGT-TATGTAGTGTTTAT
1 GTATGTTATGTA-GTATAT-TACTGTTTAT
45364096 GTATGTTATGTA
1 GTATGTTATGTA
45364108 TATTACCAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
28 39 0.66
29 20 0.34
ACGTcount: A:0.25, C:0.01, G:0.19, T:0.56
Consensus pattern (28 bp):
GTATGTTATGTAGTATATTACTGTTTAT
Found at i:45364049 original size:9 final size:9
Alignment explanation
Indices: 45363961--45364108 Score: 101
Period size: 9 Copynumber: 15.8 Consensus size: 9
45363951 AAAAAAATAA
*
45363961 TATGTATAT
1 TATGTATGT
*
45363970 CATGTATGT
1 TATGTATGT
*
45363979 TATGTATAT
1 TATGTATGT
*
45363988 TA-CTAT-T
1 TATGTATGT
45363995 TATGTATGT
1 TATGTATGT
45364004 ATATTAAGTATGT
1 -TA-T--GTATGT
45364017 TATGTA-GT
1 TATGTATGT
45364025 ATAT-TACTGTT
1 -TATGTA-TG-T
45364036 TATGTATGT
1 TATGTATGT
45364045 TATGTAT-T
1 TATGTATGT
45364053 ATAT-TATTGT
1 -TATGTA-TGT
*
45364063 TAATGTATTT
1 T-ATGTATGT
45364073 TATGTATGT
1 TATGTATGT
45364082 TATGTAGTGTT
1 TATGTA-TG-T
45364093 TATGTATGT
1 TATGTATGT
45364102 TATGTAT
1 TATGTAT
45364109 ATTACCAGTT
Statistics
Matches: 113, Mismatches: 8, Indels: 36
0.72 0.05 0.23
Matches are distributed among these distances:
7 3 0.03
8 13 0.12
9 57 0.50
10 18 0.16
11 14 0.12
12 2 0.02
13 6 0.05
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (9 bp):
TATGTATGT
Found at i:45364564 original size:18 final size:18
Alignment explanation
Indices: 45364528--45364565 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45364518 GGGGAACCAC
*
45364528 ATTGTAATGAAGAATTTA
1 ATTGTAATGAAGAAGTTA
45364546 ATTGTAATG-AGAGAGTTA
1 ATTGTAATGAAGA-AGTTA
45364564 AT
1 AT
45364566 AGCGGGGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
ATTGTAATGAAGAAGTTA
Found at i:45369481 original size:25 final size:25
Alignment explanation
Indices: 45369453--45369544 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
45369443 TGGCTCGTAT
45369453 GAGCTTCCTGATAATTGGCTCTCCG
1 GAGCTTCCTGATAATTGGCTCTCCG
* **
45369478 GAGCTTCCCGATAATTGGCTCTCAT
1 GAGCTTCCTGATAATTGGCTCTCCG
* *
45369503 GAGCTT-CT--TGATTAGCTCTCCG
1 GAGCTTCCTGATAATTGGCTCTCCG
45369525 GAGCTTCCTGAT-ATTGGCTC
1 GAGCTTCCTGATAATTGGCTC
45369545 ACACGAGCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 16 0.29
23 2 0.04
24 8 0.15
25 29 0.53
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (25 bp):
GAGCTTCCTGATAATTGGCTCTCCG
Found at i:45369531 original size:47 final size:46
Alignment explanation
Indices: 45369470--45369562 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 46
45369460 CTGATAATTG
* *
45369470 GCTCTCCGGAGCTTCCCGATAATTGGCTCTCATGAGC-TTCTTGATTA
1 GCTCTCCGGAGCTTCCCGAT-ATTGGCTCACACGAGCTTTC-TGATTA
*
45369517 GCTCTCCGGAGCTTCCTGATATTGGCTCACACGAGCTTTCTGATTA
1 GCTCTCCGGAGCTTCCCGATATTGGCTCACACGAGCTTTCTGATTA
45369563 TGGTTCTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 20 0.48
47 22 0.52
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (46 bp):
GCTCTCCGGAGCTTCCCGATATTGGCTCACACGAGCTTTCTGATTA
Found at i:45369561 original size:46 final size:47
Alignment explanation
Indices: 45369470--45369562 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 47
45369460 CTGATAATTG
* *
45369470 GCTCTCCGGAGCTTCCCGATAATTGGCTCTCATGAGCTTCTTGATTA
1 GCTCTCCGGAGCTTCCCGATAATTGGCTCACACGAGCTTCTTGATTA
*
45369517 GCTCTCCGGAGCTTCCTGAT-ATTGGCTCACACGAGCTT-TCTGATTA
1 GCTCTCCGGAGCTTCCCGATAATTGGCTCACACGAGCTTCT-TGATTA
45369563 TGGTTCTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 1 0.02
46 22 0.52
47 19 0.45
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (47 bp):
GCTCTCCGGAGCTTCCCGATAATTGGCTCACACGAGCTTCTTGATTA
Found at i:45373183 original size:21 final size:21
Alignment explanation
Indices: 45373159--45373198 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45373149 GAGAAAAATG
* *
45373159 AAAGAGATAGCAGCGAAAACA
1 AAAGAGATAGAAGAGAAAACA
45373180 AAAGAGATAGAAGAGAAAA
1 AAAGAGATAGAAGAGAAAA
45373199 AGGTTGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.25, T:0.05
Consensus pattern (21 bp):
AAAGAGATAGAAGAGAAAACA
Found at i:45373946 original size:22 final size:22
Alignment explanation
Indices: 45373921--45374013 Score: 78
Period size: 22 Copynumber: 3.9 Consensus size: 22
45373911 ATTTCCTCTC
45373921 AATTCCTCTCAATTTCCTTCCA
1 AATTCCTCTCAATTTCCTTCCA
* *
45373943 AATTTCTCTCAATTTCCTTCTAA
1 AATTCCTCTCAATTTCCTTC-CA
* *
45373966 AATTCTCTCAAACTCATATTTCATTTCA
1 AATTC-CT----CTCA-ATTTCCTTCCA
*
45373994 ATTTCCTCTCAATTTCCTTC
1 AATTCCTCTCAATTTCCTTC
45374014 TAAAATTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
22 26 0.47
23 9 0.16
24 2 0.04
27 2 0.04
28 9 0.16
29 7 0.13
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTCCTCTCAATTTCCTTCCA
Found at i:45374003 original size:51 final size:50
Alignment explanation
Indices: 45373943--45374059 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 50
45373933 TTTCCTTCCA
* *
45373943 AATTTCTCTCAATTTCCTTCTAAAATTCTCTCAAA-CTCATATTTCATTTC
1 AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATC-CATATTTAATTTC
*
45373993 AATTTCCTCTCAATTTCCTTCTAAAATTATTTCAAATCCATATTTAATTTC
1 AATTT-CTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
*
45374044 AATTTTCTCTAAATTT
1 AA-TTTCTCTCAATTT
45374060 TTGTTTTTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 5 0.08
51 51 0.85
52 4 0.07
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (50 bp):
AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
Found at i:45375216 original size:7 final size:7
Alignment explanation
Indices: 45375204--45375228 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45375194 AGTCGATTGA
45375204 TATTTAG
1 TATTTAG
45375211 TATTTAG
1 TATTTAG
45375218 TATTTAG
1 TATTTAG
45375225 TATT
1 TATT
45375229 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:45376326 original size:25 final size:25
Alignment explanation
Indices: 45376297--45376484 Score: 248
Period size: 25 Copynumber: 7.7 Consensus size: 25
45376287 TATTTAAATA
45376297 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
45376322 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
45376347 TTATTTGATGTAATAAAATATAAGT
1 TTATTTGATGTAATAAAATAGAAGT
45376372 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
45376397 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* *
45376422 TT-TTTCGA-GCT-AT---TTTG-A-T
1 TTATTT-GATG-TAATAAAATAGAAGT
*
45376441 ATTATTTGATGTAATAAAATATAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
45376467 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
45376485 ACTCTAACCT
Statistics
Matches: 144, Mismatches: 8, Indels: 22
0.83 0.05 0.13
Matches are distributed among these distances:
19 1 0.01
20 6 0.04
21 8 0.06
24 7 0.05
25 121 0.84
26 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:45376510 original size:13 final size:13
Alignment explanation
Indices: 45376492--45376535 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
45376482 AAAACTCTAA
45376492 CCTAATTAAATAC
1 CCTAATTAAATAC
45376505 CCTAATTAAATAC
1 CCTAATTAAATAC
* *
45376518 CGTAATTAAAAAC
1 CCTAATTAAATAC
45376531 CCTAA
1 CCTAA
45376536 CCCTAACCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (13 bp):
CCTAATTAAATAC
Found at i:45376539 original size:6 final size:6
Alignment explanation
Indices: 45376528--45376555 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45376518 CGTAATTAAA
45376528 AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
45376556 TAAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:45376580 original size:54 final size:54
Alignment explanation
Indices: 45376507--45376679 Score: 198
Period size: 48 Copynumber: 3.3 Consensus size: 54
45376497 TTAAATACCC
*
45376507 TAATT-AAATACCGTAATTAAAAACCCTAACCCTAACCCTAACCCTAACCTAAAT
1 TAATTCAAA-ACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAACCTAAAT
45376561 TAATTCAAAACCCTAATT--AAA----AACCCTAACCCTAACCCTAACCTAAAT
1 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAACCTAAAT
* * **** *
45376609 TAATTCAAAAACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTCAAAACCCTAATTAAAAACCCTAA-CCCTAACCCTAACCCTAACCTAAAT
*
45376664 TAATTAAAAACCCTAA
1 TAATTCAAAACCCTAA
45376680 AAACCCTAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
48 44 0.44
50 2 0.02
52 3 0.03
54 15 0.15
55 37 0.37
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.25
Consensus pattern (54 bp):
TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAACCTAAAT
Found at i:45376636 original size:13 final size:13
Alignment explanation
Indices: 45376609--45376650 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
45376599 TAACCTAAAT
45376609 TAATTCAAAAA-CC
1 TAATT-AAAAACCC
*
45376622 TAATTAAATACCC
1 TAATTAAAAACCC
45376635 TAATTAAAAACCC
1 TAATTAAAAACCC
45376648 TAA
1 TAA
45376651 CCCTAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (13 bp):
TAATTAAAAACCC
Found at i:45376694 original size:38 final size:37
Alignment explanation
Indices: 45376639--45376799 Score: 105
Period size: 33 Copynumber: 4.1 Consensus size: 37
45376629 ATACCCTAAT
45376639 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
1 TAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCC
** *
45376677 TAAAAACCCTAATCCTAATTTAATTAAAAACCTTAACCTAAACCC
1 TAAAAACCCTAA-CCTAACCTAATT--TAA--TTAA---AAACCC
* ** *
45376722 TAATTAAATACCCTAATCCTAACCTAATTTAATTAAAAACCC
1 TAA--AAA-CCCTAAC--CTAACCTAATTTAATTAAAAACCC
45376764 TAAAAACCCTAA--T--CCTAATTTAATTAAAAACCC
1 TAAAAACCCTAACCTAACCTAATTTAATTAAAAACCC
45376797 TAA
1 TAA
45376800 CCTAAACCCT
Statistics
Matches: 97, Mismatches: 14, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
33 23 0.24
35 1 0.01
38 22 0.23
39 3 0.03
40 5 0.05
42 13 0.13
45 13 0.13
47 5 0.05
48 3 0.03
49 9 0.09
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (37 bp):
TAAAAACCCTAACCTAACCTAATTTAATTAAAAACCC
Found at i:45376699 original size:33 final size:31
Alignment explanation
Indices: 45376635--45377077 Score: 269
Period size: 29 Copynumber: 15.4 Consensus size: 31
45376625 TTAAATACCC
*
45376635 TAATTAAAAACCCT--AACCCTAACCTAATT
1 TAATTAAAAACCCTAAAAACCTAACCTAATT
45376664 TAATTAAAAACCCTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCTAAAAA-CCTAA-CCTAATT
* *
45376697 TAATTAAAAA-CCT--TAACCTAAACC----C
1 TAATTAAAAACCCTAAAAACCT-AACCTAATT
* *
45376722 TAATTAAATACCCTAAT--CCTAACCTAATT
1 TAATTAAAAACCCTAAAAACCTAACCTAATT
45376751 TAATTAAAAACCCTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCTAAAAA-CCTAA-CCTAATT
*
45376784 TAATTAAAAACCCT---AACCTAAACC----C
1 TAATTAAAAACCCTAAAAACCT-AACCTAATT
*
45376809 TAATTAAATACCCTAAA--CCTAACCTAATT
1 TAATTAAAAACCCTAAAAACCTAACCTAATT
45376838 TAATTAAAAACCCTAAAAACCTTAATCCTAATT
1 TAATTAAAAACCCTAAAAACC-TAA-CCTAATT
*
45376871 TAATTAAAAACCCT---AATCTAAACCCTAA-T
1 TAATTAAAAACCCTAAAAACCT-AA-CCTAATT
* *
45376900 T-A--AAATACCCT-AAC-CCTAACCTAATT
1 TAATTAAAAACCCTAAAAACCTAACCTAATT
45376926 TAATTAAAAACCCTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCTAAAAA-CCTAA-CCTAATT
** *
45376959 TAATTAAAAATTCT---AACCTAAACC----C
1 TAATTAAAAACCCTAAAAACCT-AACCTAATT
* *
45376984 TAATTAAATACCCTAAC--CCTAACCTAATT
1 TAATTAAAAACCCTAAAAACCTAACCTAATT
*
45377013 TAATTAAAAATCCT---AA--T--CCTAATT
1 TAATTAAAAACCCTAAAAACCTAACCTAATT
* *
45377037 TAATTAAAGACCCT--AACCCTAACCTAATT
1 TAATTAAAAACCCTAAAAACCTAACCTAATT
*
45377066 TAATTCAAAACC
1 TAATTAAAAACC
45377078 TTAACCTAAA
Statistics
Matches: 328, Mismatches: 32, Indels: 108
0.70 0.07 0.23
Matches are distributed among these distances:
24 19 0.06
25 51 0.16
26 25 0.08
27 4 0.01
28 2 0.01
29 100 0.30
30 24 0.07
31 4 0.01
32 21 0.06
33 78 0.24
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (31 bp):
TAATTAAAAACCCTAAAAACCTAACCTAATT
Found at i:45376724 original size:87 final size:87
Alignment explanation
Indices: 45376574--45377028 Score: 718
Period size: 87 Copynumber: 5.2 Consensus size: 87
45376564 TTCAAAACCC
* * *
45376574 TAATTAAAAACCCTAACCCTAACCCTAA-CCTAAATTAATTCAAAAA-CCTAA-TTAAATACCCT
1 TAATTAAAAACCCTAA---AAACCCTAATCCTAATTTAATT-AAAAACCCTAACCT-AA-ACCCT
*
45376636 AATTAAAAACCCTAACCCTAACCTAATT
60 AATTAAATACCCTAACCCTAACCTAATT
*
45376664 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCTTAACCTAAACCCTAATTAA
1 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAA
*
45376729 ATACCCTAATCCTAACCTAATT
66 ATACCCTAACCCTAACCTAATT
45376751 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAA
1 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAA
*
45376816 ATACCCTAAACCTAACCTAATT
66 ATACCCTAACCCTAACCTAATT
* *
45376838 TAATTAAAAACCCTAAAAACCTTAATCCTAATTTAATTAAAAACCCTAATCTAAACCCTAATTAA
1 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATT-A
45376903 AATACCCTAACCCTAACCTAATT
65 AATACCCTAACCCTAACCTAATT
**
45376926 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAATTCTAACCTAAACCCTAATTAA
1 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAA
45376991 ATACCCTAACCCTAACCTAATT
66 ATACCCTAACCCTAACCTAATT
*
45377013 TAATTAAAAATCCTAA
1 TAATTAAAAACCCTAA
45377029 TCCTAATTTA
Statistics
Matches: 345, Mismatches: 16, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
87 229 0.66
88 99 0.29
89 1 0.00
90 16 0.05
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (87 bp):
TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAA
ATACCCTAACCCTAACCTAATT
Found at i:45376804 original size:38 final size:31
Alignment explanation
Indices: 45376722--45376968 Score: 224
Period size: 33 Copynumber: 8.3 Consensus size: 31
45376712 ACCTAAACCC
* *
45376722 TAATTAAATACCCT-AATCCTAA-CCTAATT
1 TAATTAAAAACCCTAAACCCTAATCCTAATT
45376751 TAATTAAAAACCCTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCT--AAACCCTAATCCTAATT
* *
45376784 TAATTAAAAACCCT-AA-CCTAAACC----C
1 TAATTAAAAACCCTAAACCCTAATCCTAATT
*
45376809 TAATTAAATACCCTAAA-CCTAA-CCTAATT
1 TAATTAAAAACCCTAAACCCTAATCCTAATT
*
45376838 TAATTAAAAACCCTAAAAACCTTAATCCTAATT
1 TAATTAAAAACCCT--AAACCCTAATCCTAATT
* *
45376871 TAATTAAAAACCCT-AA-TCTAAACCCTAA-T
1 TAATTAAAAACCCTAAACCCT-AATCCTAATT
*
45376900 T-A--AAATACCCT-AACCCTAA-CCTAATT
1 TAATTAAAAACCCTAAACCCTAATCCTAATT
45376926 TAATTAAAAACCCTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCT--AAACCCTAATCCTAATT
45376959 TAATTAAAAA
1 TAATTAAAAA
45376969 TTCTAACCTA
Statistics
Matches: 181, Mismatches: 14, Indels: 42
0.76 0.06 0.18
Matches are distributed among these distances:
25 20 0.11
26 21 0.12
27 3 0.02
28 1 0.01
29 44 0.24
30 11 0.06
31 3 0.02
32 19 0.10
33 59 0.33
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.28
Consensus pattern (31 bp):
TAATTAAAAACCCTAAACCCTAATCCTAATT
Found at i:45376854 original size:49 final size:54
Alignment explanation
Indices: 45376751--45377077 Score: 148
Period size: 53 Copynumber: 5.8 Consensus size: 54
45376741 TAACCTAATT
45376751 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCC
1 TAATTAAAAACCCT-AAAACCCTAATCCTAATTTAATTAAAAA-CC--ACCTAAACCC
* *
45376809 TAATTAAATACCCT-AAA-CCTAA-CCTAATTTAATTAAAAA-C-CCTAAAAACCT
1 TAATTAAAAACCCTAAAACCCTAATCCTAATTTAATTAAAAACCACCT--AAACCC
* * **
45376860 TAATCCTAATTTAA--TTAAAAACCCTAAT-CTAAACCCTAATTAAAATACCCTAACCCT-AACC
1 TAAT--TAA--AAACCCT-AAAACCCTAATCCT-AA-TTTAATTAAAA-A-CC--A-CCTAAACC
*
45376921 TAATT
54 ----C
*
45376926 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAATTCTAACCTAAACCC
1 TAATTAAAAACCCT-AAAACCCTAATCCTAATTTAATTAAAAA--C-CACCTAAACCC
* **
45376984 TAATTAAATACCCT--AACCCTAA-CCTAATTTAATTAAAAATCCTAATCCT-AA-TT
1 TAATTAAAAACCCTAAAACCCTAATCCTAATTTAATTAAAAA-CC--A-CCTAAACCC
* *
45377037 TAATTAAAGACCCT--AACCCTAA-CCTAATTTAATTCAAAACC
1 TAATTAAAAACCCTAAAACCCTAATCCTAATTTAATTAAAAACC
45377078 TTAACCTAAA
Statistics
Matches: 217, Mismatches: 20, Indels: 70
0.71 0.07 0.23
Matches are distributed among these distances:
49 3 0.01
51 9 0.04
52 3 0.01
53 43 0.20
54 37 0.17
55 20 0.09
56 10 0.05
57 2 0.01
58 35 0.16
59 1 0.00
61 4 0.02
62 12 0.06
63 10 0.05
64 18 0.08
65 5 0.02
66 5 0.02
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (54 bp):
TAATTAAAAACCCTAAAACCCTAATCCTAATTTAATTAAAAACCACCTAAACCC
Found at i:45376990 original size:175 final size:173
Alignment explanation
Indices: 45376574--45377028 Score: 716
Period size: 175 Copynumber: 2.6 Consensus size: 173
45376564 TTCAAAACCC
* * *
45376574 TAATTAAAAACCCTAACCCTAACCCTAA-CCTAAATTAATTCAAAAACCTAA-TTAAATACCCTA
1 TAATTAAAAACCCTAA---AAACCCTAATCCTAATTTAATT-AAAAACCTAACCT-AA-ACCCTA
*
45376637 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATT
60 ATTAAATACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATT
* *
45376702 AAAAACCTTAACCTAAACCCTAATTAAATACCCTAATCCTAACCTAATT
125 AAAAACCCTAACCTAAACCCTAATTAAATACCCTAACCCTAACCTAATT
45376751 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAA
1 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAA-CCTAACCTAAACCCTAATTAA
* *
45376816 ATACCCTAAACCTAACCTAATTTAATTAAAAACCCTAAAAACCTTAATCCTAATTTAATTAAAAA
65 ATACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAA
*
45376881 CCCTAATCTAAACCCTAATTAAAATACCCTAACCCTAACCTAATT
130 CCCTAACCTAAACCCTAATT-AAATACCCTAACCCTAACCTAATT
*
45376926 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAATTCTAACCTAAACCCTAATTAA
1 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAA-CCTAACCTAAACCCTAATTAA
*
45376991 ATACCCTAACCCTAACCTAATTTAATTAAAAATCCTAA
65 ATACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
45377029 TCCTAATTTA
Statistics
Matches: 261, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
174 104 0.40
175 140 0.54
176 1 0.00
177 16 0.06
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (173 bp):
TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAACCTAACCTAAACCCTAATTAAA
TACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAAAC
CCTAACCTAAACCCTAATTAAATACCCTAACCCTAACCTAATT
Found at i:45377109 original size:23 final size:23
Alignment explanation
Indices: 45376939--45377114 Score: 91
Period size: 23 Copynumber: 7.0 Consensus size: 23
45376929 TTAAAAACCC
*
45376939 TAAAAACCCTAATCCTAATTTAAT
1 TAAAAACCCTAA-CCTAAATTAAT
** *
45376963 TAAAAATTCTAACCTAAACCCTAAT
1 TAAAAACCCTAACCTAAA--TTAAT
*
45376988 TAAATACCCTAACCCTAACCTAATTTAAT
1 T-AA-A----AACCCTAACCTAAATTAAT
* *
45377017 TAAAAATCCTAATCCTAATTTAAT
1 TAAAAACCCTAA-CCTAAATTAAT
*
45377041 TAAAGACCCTAACCCTAACCTAATTTAAT
1 T-AA-A----AACCCTAACCTAAATTAAT
* * *
45377070 TCAAAACCTTAACCTAAATTATT
1 TAAAAACCCTAACCTAAATTAAT
* *
45377093 TAAAAACCCTAAACTAAGTTAA
1 TAAAAACCCTAACCTAAATTAA
45377115 CAATGTTACA
Statistics
Matches: 118, Mismatches: 19, Indels: 31
0.70 0.11 0.18
Matches are distributed among these distances:
23 45 0.38
24 22 0.19
25 7 0.06
26 3 0.03
27 3 0.03
28 3 0.03
29 17 0.14
30 7 0.06
31 11 0.09
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (23 bp):
TAAAAACCCTAACCTAAATTAAT
Found at i:45377335 original size:116 final size:116
Alignment explanation
Indices: 45377111--45377327 Score: 332
Period size: 116 Copynumber: 1.9 Consensus size: 116
45377101 CTAAACTAAG
*
45377111 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
* *
45377176 TAATTTTACATAATTTGATAGTTTTACTAACCATTAACACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTTGAC
* *
45377227 TTAATAATTTTACATTCACATAATGTTAGATTT-GATAAAATGTTTTGACTGGTACTAACAATTA
1 TTAACAATGTTACATTCACATAATGTTAGATTTGGA-AAAATGTTTTGACTGGTACTAACAATTA
*
45377291 ATAAATTTATAC-T-ATTTGATAATTTTAGTAACAATTA
65 AT-AATTT-TACATAATTTGATAATTTTACTAACAATTA
45377328 GTACAATTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
115 2 0.02
116 81 0.88
117 6 0.07
118 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (116 bp):
TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
TAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTTGAC
Found at i:45380579 original size:125 final size:125
Alignment explanation
Indices: 45380357--45380725 Score: 562
Period size: 124 Copynumber: 3.0 Consensus size: 125
45380347 CCCAAACATG
* *
45380357 CTACTGTAGCAAAATCGCGTCCACGACGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
45380422 TAGAAGCGATTTTACACTATTTGCTCAAAAACGTCAACTAAAAATTATTTTTTCCGGGAC
66 TAGAAGCTATTTTATACTATTTGCTCAAAAACGTCAACTAAAAATTATTTATTCCGGGAC
* *
45380482 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATATCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
45380547 TACAAGCTATTTTATACTATTTGCTCAAAAACGTCAA-AAAAAATTATTTCTTCCGTGAC
66 TAGAAGCTATTTTATACTATTTGCTCAAAAACGTCAACTAAAAATTATTTATTCCGGGAC
* *
45380606 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * **
45380671 TAGAAG-TGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTATTCC
66 TAGAAGCT-ATTTTATACTATTTGCTCAAAAACGTCAACTAAAAATTATTTATTCC
45380726 ATGACCTAAA
Statistics
Matches: 221, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
123 1 0.00
124 112 0.51
125 108 0.49
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCTATTTTATACTATTTGCTCAAAAACGTCAACTAAAAATTATTTATTCCGGGAC
Found at i:45383225 original size:39 final size:39
Alignment explanation
Indices: 45383171--45383250 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
45383161 GTATAATTTA
45383171 GAACTTTTGTTTGCATTCCTCATCCTCATCTTAGCTTTG
1 GAACTTTTGTTTGCATTCCTCATCCTCATCTTAGCTTTG
*
45383210 GAACTTTTGTTTGCATTCCTCATCCTTATCTTAGCTTTG
1 GAACTTTTGTTTGCATTCCTCATCCTCATCTTAGCTTTG
45383249 GA
1 GA
45383251 CTTCTCATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (39 bp):
GAACTTTTGTTTGCATTCCTCATCCTCATCTTAGCTTTG
Found at i:45385175 original size:22 final size:22
Alignment explanation
Indices: 45385150--45385196 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
45385140 TCAGCTCTAT
*
45385150 CTTCCTTTCCATATCTCTTAAC
1 CTTCCTTTACATATCTCTTAAC
*
45385172 CTTCCTTTATATATCTCTTAAC
1 CTTCCTTTACATATCTCTTAAC
45385194 CTT
1 CTT
45385197 GGCTCTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.49
Consensus pattern (22 bp):
CTTCCTTTACATATCTCTTAAC
Found at i:45389870 original size:31 final size:31
Alignment explanation
Indices: 45389835--45389899 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
45389825 TTAATCATTG
*
45389835 AACTTGACACTTG-TTCTTATATTAGGGCCTA
1 AACTTGACACTTGTTTC-AATATTAGGGCCTA
* *
45389866 AACTTGACAGTTGTTTCAATATTGGGGCCTA
1 AACTTGACACTTGTTTCAATATTAGGGCCTA
45389897 AAC
1 AAC
45389900 CCTAAGGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (31 bp):
AACTTGACACTTGTTTCAATATTAGGGCCTA
Found at i:45390405 original size:20 final size:20
Alignment explanation
Indices: 45390380--45390419 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45390370 CGTAAAATAA
*
45390380 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45390400 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45390420 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:45390409 original size:34 final size:35
Alignment explanation
Indices: 45390365--45390431 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45390355 CAGTAAAATA
*
45390365 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
45390399 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
45390432 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:45390496 original size:32 final size:32
Alignment explanation
Indices: 45390412--45390497 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 32
45390402 TCTGTAAAAT
* * **
45390412 GATTTACTGGAAAATATTTTCTGGTGTTTGATT
1 GATTTTCT-GAAAATATTTTCTGCTGTTTGACA
* *
45390445 GAATTTGTGTAAAATATTTTCTGCTGTTTGACA
1 GATTTTCTG-AAAATATTTTCTGCTGTTTGACA
45390478 GATTTTCTGAAAATATTTTC
1 GATTTTCTGAAAATATTTTC
45390498 CGAAAAAGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
32 12 0.27
33 32 0.73
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (32 bp):
GATTTTCTGAAAATATTTTCTGCTGTTTGACA
Found at i:45391078 original size:18 final size:18
Alignment explanation
Indices: 45391057--45391095 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
45391047 GTTGTATCTT
45391057 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
45391075 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
45391093 TAA
1 TAA
45391096 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:45391759 original size:14 final size:13
Alignment explanation
Indices: 45391730--45391756 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45391720 AGAAGGTAAG
45391730 ACAGATACTTAAA
1 ACAGATACTTAAA
45391743 ACAGATACTTAAA
1 ACAGATACTTAAA
45391756 A
1 A
45391757 ACATGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:45393655 original size:3 final size:3
Alignment explanation
Indices: 45393647--45393675 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45393637 GAGCACACGC
45393647 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45393676 ACAATATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45397720 original size:20 final size:21
Alignment explanation
Indices: 45397695--45397743 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
45397685 CGCCCCTAAT
*
45397695 TTATAAAAAAT-CATAAAAAA
1 TTATAAAAAATACAAAAAAAA
* *
45397715 TTATAAAATATAGAAAAAAAA
1 TTATAAAAAATACAAAAAAAA
45397736 TTATAAAA
1 TTATAAAA
45397744 TTCTATAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
TTATAAAAAATACAAAAAAAA
Found at i:45397743 original size:10 final size:10
Alignment explanation
Indices: 45397695--45397743 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
45397685 CGCCCCTAAT
45397695 TTATAAAAAA
1 TTATAAAAAA
*
45397705 TCATAAAAAA
1 TTATAAAAAA
*
45397715 TTATAAAATA
1 TTATAAAAAA
* *
45397725 TAGAAAAAAAA
1 T-TATAAAAAA
45397736 TTATAAAA
1 TTATAAAA
45397744 TTCTATAAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:45397773 original size:41 final size:42
Alignment explanation
Indices: 45397719--45397813 Score: 99
Period size: 41 Copynumber: 2.3 Consensus size: 42
45397709 AAAAAATTAT
* * *
45397719 AAAATATAGAAAAAAAAT-TATAA-AATTCTATAAAGTCGT-AAG
1 AAAAT-TATAAAAAAAATGTA-AAGAAATCTA-AAAGTCGTAAAA
*
45397761 AAAATTAT-AAAAAAATGTAAAGAAATCTAAAATTCGTAAAA
1 AAAATTATAAAAAAAATGTAAAGAAATCTAAAAGTCGTAAAA
45397802 AAAATTATAAAA
1 AAAATTATAAAA
45397814 GTTATCGTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
40 17 0.38
41 20 0.44
42 8 0.18
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.25
Consensus pattern (42 bp):
AAAATTATAAAAAAAATGTAAAGAAATCTAAAAGTCGTAAAA
Found at i:45398013 original size:11 final size:11
Alignment explanation
Indices: 45397999--45398063 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
45397989 TTTTGATGCA
45397999 TTTTATAATAT
1 TTTTATAATAT
45398010 TTTTATAATAT
1 TTTTATAATAT
* **
45398021 TATTAATTTTTAT
1 T-TTTA-TAATAT
* *
45398034 TTTTTTTATAT
1 TTTTATAATAT
*
45398045 TTTT-TACTAT
1 TTTTATAATAT
45398055 TTTTATAAT
1 TTTTATAAT
45398064 TTCTTTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
10 8 0.19
11 24 0.57
12 5 0.12
13 5 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATAATAT
Found at i:45398055 original size:10 final size:9
Alignment explanation
Indices: 45398027--45398104 Score: 58
Period size: 9 Copynumber: 9.1 Consensus size: 9
45398017 ATATTATTAA
*
45398027 TTTTTATTT
1 TTTTTATAT
45398036 TTTTTATAT
1 TTTTTATAT
45398045 TTTTTACTA-
1 TTTTTA-TAT
*
45398054 TTTTTATAA
1 TTTTTATAT
*
45398063 TTTCT-T-T
1 TTTTTATAT
* *
45398070 TTTTTCTAA
1 TTTTTATAT
45398079 TTTTTA-AT
1 TTTTTATAT
*
45398087 ATTTTATAT
1 TTTTTATAT
45398096 TTTTT-TAT
1 TTTTTATAT
45398104 T
1 T
45398105 AAAATTTAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
7 4 0.07
8 14 0.25
9 35 0.64
10 2 0.04
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTATAT
Found at i:45398083 original size:45 final size:44
Alignment explanation
Indices: 45397998--45398121 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 44
45397988 TTTTTGATGC
* *
45397998 ATTTTATAATATTTTTATAATATTATTAATTTTTATTTTTTTTAT
1 ATTTTATAATATTTTTATAATATTATTAATTTTTA-ATTTTTAAT
* * * **
45398043 ATTTTTTACTATTTTTATAAT-TTCTTTTTTTTCTAATTTTTAAT
1 ATTTTATAATATTTTTATAATATTATTAATTTT-TAATTTTTAAT
* * *
45398087 ATTTTAT-ATTTTTTTATTAAAATTTAATAATTTTT
1 ATTTTATAATATTTTTA-TAATA-TTATTAATTTTT
45398122 TGTCACATTC
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
43 7 0.12
44 24 0.40
45 22 0.37
46 7 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (44 bp):
ATTTTATAATATTTTTATAATATTATTAATTTTTAATTTTTAAT
Found at i:45398098 original size:25 final size:25
Alignment explanation
Indices: 45398037--45398100 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
45398027 TTTTTATTTT
45398037 TTTTATATTTTTTACTATTTTTATAA
1 TTTTATATTTTTTAC-ATTTTTATAA
*
45398063 TTTCT-TTTTTTTCTA-ATTTTTA-ATA
1 TTT-TATATTTTT-TACATTTTTATA-A
45398088 TTTTATATTTTTT
1 TTTTATATTTTTT
45398101 TATTAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
24 3 0.09
25 17 0.53
26 9 0.28
27 3 0.09
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATATTTTTTACATTTTTATAA
Found at i:45398106 original size:21 final size:21
Alignment explanation
Indices: 45398082--45398122 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45398072 TTTCTAATTT
* * *
45398082 TTAATATTTTATATTTTTTTA
1 TTAAAATTTAATAATTTTTTA
45398103 TTAAAATTTAATAATTTTTT
1 TTAAAATTTAATAATTTTTT
45398123 GTCACATTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTAAAATTTAATAATTTTTTA
Found at i:45398358 original size:90 final size:85
Alignment explanation
Indices: 45398217--45398450 Score: 265
Period size: 90 Copynumber: 2.6 Consensus size: 85
45398207 TAACGGTTAA
* * *
45398217 AGGGCCTTTTTGATACATTTTGACAGTTTAAGTACCCAATTGAGTGTAAAAAAAAAGCAGGGGCC
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTA-CCAATTGAGTG-AAAAAAAAA--A-GGGCC
* *
45398282 TAATTACTTATCT-TGAAAAAGTTTG
61 TAATGACTT-TCTCTGAAAAAATTTG
* *
45398307 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCTAATTGAGTG-AAAAAAAAAGGGCTTTAT
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACC-AATTGAGTGAAAAAAAAAAGGGCCTAAT
* *
45398371 GGCTTTTTCTGAAAAAATTTG
65 GACTTTCTCTGAAAAAATTTG
*
45398392 AGGGCCTTTTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAA
1 AGGGCC--TTTTTGATGCATTTTGAAAGTTCAAGTA-CCAATTGAGTG-AAAAAAAAAA
45398451 TTAATTGTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 15
0.84 0.07 0.10
Matches are distributed among these distances:
84 2 0.02
85 27 0.21
86 1 0.01
87 36 0.28
88 10 0.08
89 11 0.09
90 40 0.31
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.34
Consensus pattern (85 bp):
AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAATTGAGTGAAAAAAAAAAGGGCCTAATG
ACTTTCTCTGAAAAAATTTG
Found at i:45400308 original size:246 final size:246
Alignment explanation
Indices: 45399586--45400466 Score: 1239
Period size: 248 Copynumber: 3.6 Consensus size: 246
45399576 AAAAAATAAT
* * *
45399586 AATAACATACAATAGATAATGAACTTATGGTTTGAAACTAGTTAACAATAACACATGAAATATGT
1 AATAACATACAATAGATAATGAAATTATGGTTTGAAACTAATTAATAATAACACATGAAATATGT
*** * * * *
45399651 ACGATGTTAAAATTGAAAATTTTAGGTTAAAAATGGTTATCATGGTGTTGGCATCAATCTTGAGT
66 ACGATGTTAAAA-TGAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGAGT
*
45399716 GGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATCCCTATC
130 GGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATTCCTATC
45399781 ACATGCGTATGAGCGT-GAAAACAAAAATTTGTGAACACAAATGTGTGTTTAAA
195 ACATGCGTATGAGCGTGGAAAA-AAAAATTT-TGAACACAAATGTGTGTTTAAA
* *
45399834 AATAGCATACAATAGATAATGAAACTTATGGTTTGAAAATAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAA-TTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
45399899 TACGATGTTAAAATGAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGAGT
65 TACGATGTTAAAATGAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGAGT
* *
45399964 GGATGTCGAGTTAAGTTATGACACCAACTCAATCAAATACATTAATATATACTAGAA-TCTTTAT
130 GGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATTC-CTAT
* * *
45400028 CACATGCGTATGTGGGTGGAAACAACAAATTTTGAACACAAATGTGTGTTTAAA
194 CACATGCGTATGAGCGTGGAAA-AAAAAATTTTGAACACAAATGTGTGTTTAAA
* *
45400082 AATAACATACAATAGATAATGAAATGTATGGTTTGAAACTAATTAATAATAACAAATGAAAAATG
1 AATAACATACAATAGATAATGAAAT-TATGGTTTGAAACTAATTAATAATAACACATGAAATATG
* * * *
45400147 TATGATGTTAAAATGAAAAAAA-A-ATTTAAATTTTTTATCATGATGTTGTCATCAATCTTGAGT
65 TACGATGTTAAAATGAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGAGT
* ** * *
45400210 TGATGTCGAGTTAACTTATGTTACCAACTCAATCAAACATATTAATATATACTAGAATTCCTATC
130 GGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATTCCTATC
* * * * * * *
45400275 ACACGCATATGCGTGTGGATATAAAAAATTTTGAACACAAATCTGTGTTCAAA
195 ACATGCGTATGAGCGTGGA-AAAAAAAATTTTGAACACAAATGTGTGTTTAAA
* * *
45400328 TATAACATAAAATAGATAACGAAATATATGGTTTGAAACTAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAAT-TATGGTTTGAAACTAATTAATAATAACACATGAAATATG
** * * * *
45400393 TATAATGTTAAAATAAAAAAAATAGATTAAAATTGTTTAACATGGTTTTGTCATCAATCTTAAGT
65 TACGATGTTAAAATGAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGAGT
*
45400458 TGATGTCGA
130 GGATGTCGA
45400467 TTATACACAC
Statistics
Matches: 569, Mismatches: 55, Indels: 18
0.89 0.09 0.03
Matches are distributed among these distances:
246 214 0.38
247 7 0.01
248 286 0.50
249 61 0.11
250 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.32
Consensus pattern (246 bp):
AATAACATACAATAGATAATGAAATTATGGTTTGAAACTAATTAATAATAACACATGAAATATGT
ACGATGTTAAAATGAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGAGTG
GATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATTCCTATCA
CATGCGTATGAGCGTGGAAAAAAAAATTTTGAACACAAATGTGTGTTTAAA
Found at i:45402458 original size:8 final size:8
Alignment explanation
Indices: 45402445--45402478 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
45402435 TCCACCTACA
45402445 TTAACACT
1 TTAACACT
45402453 TTAACACT
1 TTAACACT
45402461 TTAACACT
1 TTAACACT
45402469 TTAACACT
1 TTAACACT
45402477 TT
1 TT
45402479 CACAAGCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAACACT
Found at i:45407590 original size:125 final size:125
Alignment explanation
Indices: 45407368--45407619 Score: 468
Period size: 125 Copynumber: 2.0 Consensus size: 125
45407358 TTTTAAACTA
*
45407368 ATCTATAACACCTCGTAATCCAACCCGATCACTGGTATAGTTGAAATGTGATTCTGTTTCCTGAT
1 ATCTATAACACCTCGTAATCCAACCCGATCACTGGTATAGTTGAAATGTGATTCTGTTTCCTGAG
*
45407433 ATATGGGTTTGAGATTGGCACAAGGAATGGGTCGTTGATAACCATGTAGGGTTGTAGGAG
66 ATATGGGTTTGAGATTGGCACAAGGAATGGGTCGTTGATAACCATGCAGGGTTGTAGGAG
*
45407493 ATCTATAACACCTCGTAATCCAACCCGATCACTGGTATAGTTGAAATGTGATTCTGTTTCTTGAG
1 ATCTATAACACCTCGTAATCCAACCCGATCACTGGTATAGTTGAAATGTGATTCTGTTTCCTGAG
*
45407558 ATATGGGTTTGAGGTTGGCACAAGGAATGGGTCGTTGATAACCATGCAGGGTTGTAGGAG
66 ATATGGGTTTGAGATTGGCACAAGGAATGGGTCGTTGATAACCATGCAGGGTTGTAGGAG
45407618 AT
1 AT
45407620 GTGTATAAGT
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (125 bp):
ATCTATAACACCTCGTAATCCAACCCGATCACTGGTATAGTTGAAATGTGATTCTGTTTCCTGAG
ATATGGGTTTGAGATTGGCACAAGGAATGGGTCGTTGATAACCATGCAGGGTTGTAGGAG
Found at i:45412491 original size:26 final size:26
Alignment explanation
Indices: 45412302--45412492 Score: 159
Period size: 26 Copynumber: 7.6 Consensus size: 26
45412292 AAGCTGATCT
*
45412302 GAGCAATATAACGGGAAGCTCACAAA
1 GAGCCATATAACGGGAAGCTCACAAA
*
45412328 GAGCC-TATAACGGGTAGCTC-CAAA
1 GAGCCATATAACGGGAAGCTCACAAA
* * *
45412352 GAGCAAT-TAACGGGAAGCAC-CAGA
1 GAGCCATATAACGGGAAGCTCACAAA
* * * * *
45412376 TAGCCATATAACAGGCAGTTCA-AGCA
1 GAGCCATATAACGGGAAGCTCACA-AA
*
45412402 -AG-CA-CTAACGGGAAGCTCACAAA
1 GAGCCATATAACGGGAAGCTCACAAA
*
45412425 GAGCC-TTTAATCGGGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTCACAAA
* *
45412451 GAGCC-TTTAATCGGGAAGCTCACGAA
1 GAGCCATATAA-CGGGAAGCTCACAAA
45412477 GAGCCATATAACGGGA
1 GAGCCATATAACGGGA
45412493 CGCTTATAAG
Statistics
Matches: 134, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
23 12 0.09
24 32 0.24
25 31 0.23
26 55 0.41
27 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (26 bp):
GAGCCATATAACGGGAAGCTCACAAA
Found at i:45412492 original size:52 final size:49
Alignment explanation
Indices: 45412310--45412492 Score: 160
Period size: 49 Copynumber: 3.7 Consensus size: 49
45412300 CTGAGCAATA
* *
45412310 TAACGGGAAGCTCACAAAGAGCCTATAACGGGTAGCTC-CAAAGAGCAAT
1 TAACGGGAAGCTCACAAAGAGCCTATAACGGGAAGCTCACAAAGAGC-CT
* * * * * * *
45412359 TAACGGGAAGCAC-CAGATAGCCATATAACAGGCAGTTCA-AGCA-AGCAC-
1 TAACGGGAAGCTCACAAAGAGCC-TATAACGGGAAGCTCACA-AAGAGC-CT
*
45412407 TAACGGGAAGCTCACAAAGAGCCTTTAATCGGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCACAAAGAGCCTATAA-CGGGAAGCTCACAAAGAGCC-T
*
45412458 TAATCGGGAAGCTCACGAAGAGCCATATAACGGGA
1 TAA-CGGGAAGCTCACAAAGAGCC-TATAACGGGA
45412493 CGCTTATAAG
Statistics
Matches: 105, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
48 23 0.22
49 46 0.44
50 5 0.05
51 3 0.03
52 24 0.23
53 4 0.04
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (49 bp):
TAACGGGAAGCTCACAAAGAGCCTATAACGGGAAGCTCACAAAGAGCCT
Found at i:45415556 original size:16 final size:16
Alignment explanation
Indices: 45415535--45415583 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
45415525 TTCGCTGTAT
45415535 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
45415551 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
*
45415567 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
45415583 T
1 T
45415584 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.35, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:45415613 original size:45 final size:44
Alignment explanation
Indices: 45415562--45415652 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 44
45415552 GGAATAGAGG
45415562 TGTAATGGAATAGAGACGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGACGTAATAG-AAATC-ATGTGTTTGGTTGAA
* * *
45415607 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGACGTAATAGAAATCATGTGTTTGGTTGAA
45415651 TG
1 TG
45415653 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 23 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGACGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:45415956 original size:16 final size:16
Alignment explanation
Indices: 45415913--45415984 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
45415903 ACTATAAAAG
*
45415913 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
45415929 ATTATT-AAATATATT
1 ATAATTAAAATATATT
45415944 ATAATTAAAATATATAAT
1 ATAATTAAAATATAT--T
*
45415962 TTAA-TAAAAT-TATT
1 ATAATTAAAATATATT
45415976 AATAATTAA
1 -ATAATTAA
45415985 TATTCTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.11
15 13 0.29
16 17 0.38
17 6 0.13
18 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:45415958 original size:18 final size:18
Alignment explanation
Indices: 45415937--45415984 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
45415927 TTATTATTAA
45415937 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
45415955 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
45415972 -TAT-TAATAATTAA
1 ATATATTATAATTAA
45415985 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:45415965 original size:14 final size:15
Alignment explanation
Indices: 45415913--45415967 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
45415903 ACTATAAAAG
45415913 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
45415929 ATTATTAAATATATT
1 ATAATTAAATATATT
45415944 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
45415957 ATAATTTAATA
1 ATAATTAAATA
45415968 AAATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:45420534 original size:9 final size:9
Alignment explanation
Indices: 45420471--45420522 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
45420461 GAACTTACAA
45420471 AAAAATTAT
1 AAAAATTAT
45420480 AAAAATTAT
1 AAAAATTAT
*
45420489 AAAACATCAT
1 AAAA-ATTAT
*
45420499 CAAAATTTAT
1 -AAAAATTAT
* *
45420509 AGATATTAT
1 AAAAATTAT
45420518 AAAAA
1 AAAAA
45420523 AAAATTATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 22 0.67
10 7 0.21
11 4 0.12
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:45420579 original size:10 final size:10
Alignment explanation
Indices: 45420566--45420641 Score: 57
Period size: 10 Copynumber: 7.7 Consensus size: 10
45420556 ATTTAAAGTT
45420566 TTATAAAAAA
1 TTATAAAAAA
*
45420576 TTATAAAAAC
1 TTATAAAAAA
45420586 TTAT-AAAAA
1 TTATAAAAAA
* *
45420595 TAAAAAAAAA
1 TTATAAAAAA
* **
45420605 TT-CAAAATT
1 TTATAAAAAA
*
45420614 TTCTAAAAAA
1 TTATAAAAAA
*
45420624 ATATAAAAAAA
1 TTAT-AAAAAA
45420635 TTATAAA
1 TTATAAA
45420642 TCACAAAACA
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
9 12 0.24
10 28 0.57
11 9 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:45421470 original size:9 final size:9
Alignment explanation
Indices: 45421458--45421492 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
45421448 TATTTACGCC
45421458 TTTTAAAAT
1 TTTTAAAAT
*
45421467 TTTTAAAAA
1 TTTTAAAAT
45421476 TTTTAAAA-
1 TTTTAAAAT
45421484 TTTTAAAAT
1 TTTTAAAAT
45421493 AATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:45421483 original size:8 final size:8
Alignment explanation
Indices: 45421458--45421492 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
45421448 TATTTACGCC
45421458 TTTTAAAA
1 TTTTAAAA
45421466 TTTTTAAAAA
1 -TTTT-AAAA
45421476 TTTTAAAA
1 TTTTAAAA
45421484 TTTTAAAA
1 TTTTAAAA
45421492 T
1 T
45421493 AATAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.52
9 8 0.32
10 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:45423498 original size:25 final size:25
Alignment explanation
Indices: 45423450--45423498 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
45423440 CTAGGTTAAT
* *
45423450 TAGAGTTTAAGTGGGAAAGTAAAAA
1 TAGAGTTTAACTAGGAAAGTAAAAA
45423475 TAGAGTTTAACTAGGAGAAG-AAAA
1 TAGAGTTTAACTAGGA-AAGTAAAA
45423499 GCCAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.49, C:0.02, G:0.27, T:0.22
Consensus pattern (25 bp):
TAGAGTTTAACTAGGAAAGTAAAAA
Found at i:45423958 original size:19 final size:18
Alignment explanation
Indices: 45423933--45423995 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
45423923 GAACGAATGC
45423933 AAAATTATTAAAAAATTT
1 AAAATTATTAAAAAATTT
*
45423951 AGAAATTA-TAAAGAATATT
1 A-AAATTATTAAAAAAT-TT
45423970 AATAATTATTGAAAAATATTT
1 AA-AATTATT-AAAAA-ATTT
45423991 AAAAT
1 AAAAT
45423996 ATATAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 9 0.24
19 14 0.38
20 4 0.11
21 8 0.22
22 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AAAATTATTAAAAAATTT
Found at i:45423996 original size:9 final size:9
Alignment explanation
Indices: 45423982--45424012 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45423972 TAATTATTGA
*
45423982 AAAATATTT
1 AAAATATAT
45423991 AAAATATAT
1 AAAATATAT
45424000 AAAATATAT
1 AAAATATAT
45424009 AAAA
1 AAAA
45424013 ACTAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATATAT
Found at i:45426447 original size:16 final size:17
Alignment explanation
Indices: 45426416--45426449 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45426406 AGTTTTAACA
45426416 TTTTTTTTATATATTTT
1 TTTTTTTTATATATTTT
*
45426433 TTTTTTTTGTA-ATTTT
1 TTTTTTTTATATATTTT
45426449 T
1 T
45426450 CATTGTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTTATATATTTT
Found at i:45434622 original size:154 final size:154
Alignment explanation
Indices: 45434342--45434647 Score: 567
Period size: 154 Copynumber: 2.0 Consensus size: 154
45434332 ATGTACGTGA
* *
45434342 TGGGACTCATTCTAACATTCTTTCTGAATTAGGGTACGAGGTTGTTATAGTCAAGTAGAGTTTAG
1 TGGGACTCATTCTAACATTCTTTCTGAATTAGGGTACAAGGTTGTTACAGTCAAGTAGAGTTTAG
*
45434407 TGGCTTAAAGGATGTGCCCATAGTTGGGGGAGTGTTCACACTAGAAAAATGAATGCCTTGAGAAA
66 TGGCTTAAAGGACGTGCCCATAGTTGGGGGAGTGTTCACACTAGAAAAATGAATGCCTTGAGAAA
45434472 CAAGTGGTCTGTTCACAAAGATAG
131 CAAGTGGTCTGTTCACAAAGATAG
*
45434496 TGGGACTCATTCTAACATTCTTTCTGAATTGGGGTACAAGGTTGTTACAGTCAAGTAGAGTTTAG
1 TGGGACTCATTCTAACATTCTTTCTGAATTAGGGTACAAGGTTGTTACAGTCAAGTAGAGTTTAG
*
45434561 TGGCTTAAAGGACGTGCCCATAGTTGGGGGAGTGTTCACACTAGAAAAATGAGTGCCTTGAGAAA
66 TGGCTTAAAGGACGTGCCCATAGTTGGGGGAGTGTTCACACTAGAAAAATGAATGCCTTGAGAAA
45434626 CAAGTGGTCTGTTCACAAAGAT
131 CAAGTGGTCTGTTCACAAAGAT
45434648 GGATGGGTAA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 147 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (154 bp):
TGGGACTCATTCTAACATTCTTTCTGAATTAGGGTACAAGGTTGTTACAGTCAAGTAGAGTTTAG
TGGCTTAAAGGACGTGCCCATAGTTGGGGGAGTGTTCACACTAGAAAAATGAATGCCTTGAGAAA
CAAGTGGTCTGTTCACAAAGATAG
Found at i:45443029 original size:22 final size:22
Alignment explanation
Indices: 45443001--45443153 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
45442991 TGTTGATAGT
*
45443001 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
45443023 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
45443045 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
45443067 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
45443089 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
45443111 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
45443133 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
45443154 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:45452746 original size:21 final size:21
Alignment explanation
Indices: 45452720--45452761 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45452710 CAAACAATCA
*
45452720 CAAAAAATATTAATACCTTTT
1 CAAAAAATATCAATACCTTTT
*
45452741 CAAAAAGTATCAATACCTTTT
1 CAAAAAATATCAATACCTTTT
45452762 ACTAGGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (21 bp):
CAAAAAATATCAATACCTTTT
Found at i:45456364 original size:20 final size:20
Alignment explanation
Indices: 45456330--45456367 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45456320 AATTTTTGAC
**
45456330 CTAATCCCTTTTACAAATGT
1 CTAATCCCTCCTACAAATGT
45456350 CTAATCCCTCCTACAAAT
1 CTAATCCCTCCTACAAAT
45456368 TTTCAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.34
Consensus pattern (20 bp):
CTAATCCCTCCTACAAATGT
Found at i:45457697 original size:51 final size:49
Alignment explanation
Indices: 45457571--45457763 Score: 224
Period size: 51 Copynumber: 3.8 Consensus size: 49
45457561 ATTATTATCA
* * * * *
45457571 TTCGATACACGTAGTAGCCTTCACATAATACTACACACGTGATCAAACTT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAC-C
*
45457621 TTCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCC
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CC
* * * * *
45457671 TTCCGGTACACATAGTAGCCTACACATAGTACTACACATGTGACCATTATC
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACC
* *
45457722 TATCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
45457764 TTTATAGGCA
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
50 44 0.36
51 76 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACC
Found at i:45457707 original size:12 final size:13
Alignment explanation
Indices: 45457677--45457709 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
45457667 AGCCTTCCGG
45457677 TACACATAGTAGCC
1 TACACATAGTA-CC
45457691 TACACATAGTA-C
1 TACACATAGTACC
45457703 TACACAT
1 TACACAT
45457710 GTGACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:45457759 original size:102 final size:101
Alignment explanation
Indices: 45457576--45457763 Score: 261
Period size: 102 Copynumber: 1.9 Consensus size: 101
45457566 TATCATTCGA
* * * * * *
45457576 TACACGTAGTAGCCTTCACATAATACTACACACGTGATCAAACTTTTCGGTTCACGTAGTAGCCT
1 TACACATAGTAGCCTACACATAATACTACACACGTGACCAAACTTATCGATACACGTAGTAGCCT
45457641 GCACATAGTACTACACACGTGACCAAAGCCTTCCGG
66 GCACATAGTACTACACACGTGACCAAAGCCTTCCGG
* * *
45457677 TACACATAGTAGCCTACACATAGTACTACACATGTGACCATTA-TCTATCGATACACGTAGTAGC
1 TACACATAGTAGCCTACACATAATACTACACACGTGACCA-AACT-TATCGATACACGTAGTAGC
*
45457741 CTGCACTTAGTACTACACACGTG
64 CTGCACATAGTACTACACACGTG
45457764 TTTATAGGCA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
101 36 0.48
102 39 0.52
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (101 bp):
TACACATAGTAGCCTACACATAATACTACACACGTGACCAAACTTATCGATACACGTAGTAGCCT
GCACATAGTACTACACACGTGACCAAAGCCTTCCGG
Found at i:45471413 original size:72 final size:73
Alignment explanation
Indices: 45471312--45471460 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 73
45471302 CAGTTGTCCC
45471312 ATAATTTTTTGATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATT
1 ATAATTTTTT-ATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATT
45471377 AGGATTTGT
65 AGGATTTGT
* * * *
45471386 ATAATTTTTT-TGTCATGTGAAATAGGTTGACAACATGTTTGCAACTTGTTGACTGCTTCTATTA
1 ATAATTTTTTATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATTA
*
45471450 GGATTTTT
66 GGATTTGT
45471458 ATA
1 ATA
45471461 TAAATTACTA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 60 0.86
74 10 0.14
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (73 bp):
ATAATTTTTTATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATTA
GGATTTGT
Found at i:45471861 original size:37 final size:37
Alignment explanation
Indices: 45471695--45472355 Score: 521
Period size: 37 Copynumber: 18.1 Consensus size: 37
45471685 GGTTTACCCT
* *
45471695 AACC-TTTTT-AAGGTTGCCTTAGACGGGTTTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCC
* * * * * *
45471730 AA-CTTTTTTTAAGG-TGCATTGGAAAAGGTTTATCCT
1 AACCTTTTTTAAAGGTTGCCTTAG-ACAGGTCTATCCC
* * * *
45471766 AATC-TTTTT-AAGGTTGCTTTAAAC-GAGTCTATCTC
1 AACCTTTTTTAAAGGTTGCCTTAGACAG-GTCTATCCC
** * *
45471801 AA-GATTTTT-AAGGTTGTCTTAGACAGGTCAATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCC
* * *
45471836 AACCTTTTTTAAAAGTTGCCTTAGACAATGCCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCC
* * *
45471874 AACC-TTTTT-CAGGTTACCTTAGAC-GAATCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAG-GTCTATCCC
* * *
45471909 AACC-TGTTT-AAGGTTGCCTTAGAC-GAGTTTATTCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAG-GTCTATCCC
* *
45471944 AACCTTTTTTGAAGGTTGCCTTAGACTGGTCTA-CCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCC
* * * *
45471980 TAACATTTTTAAAAGGTTGCCTTAGACAAGTCTATCTC
1 -AACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCC
* * *
45472018 AACCTTTTTAAAAAGTTGCTTTAGACAAGGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCC
* * *
45472056 AA-ATTTTTTAAAAGGTTGCCTTCGACTGGTCTATCCC
1 AACCTTTTTT-AAAGGTTGCCTTAGACAGGTCTATCCC
*
45472093 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATACC
1 AACCTTTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCC
* * *
45472131 AACC-TTTTT-AAGGTTACCTTGGAC-GATTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAG-GTCTATCCC
*
45472166 AATCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCC
* * *
45472204 AACTTTTTTTAAAGGTTTCCTTAGACAAAGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCC
*
45472242 AA-CTTTTTTAAAAGTT-CATCTTAGACTA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGC--CTTAGAC-AGGTCTATCCC
*
45472279 AACC-TTTTT-AAGGTTGCCTTAGAC-GAGCCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAG-GTCTATCCC
* * *
45472314 AACATTTTTCAAAGGTTGGCCTT-GACTAGGTCTTTCCC
1 AACCTTTTTTAAAGGTT-GCCTTAGAC-AGGTCTATCCC
45472352 AACC
1 AACC
45472356 CTTTAATAAG
Statistics
Matches: 506, Mismatches: 83, Indels: 71
0.77 0.13 0.11
Matches are distributed among these distances:
34 3 0.01
35 120 0.24
36 78 0.15
37 177 0.35
38 126 0.25
39 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
AACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCC
Found at i:45472352 original size:73 final size:73
Alignment explanation
Indices: 45471695--45472355 Score: 616
Period size: 73 Copynumber: 9.1 Consensus size: 73
45471685 GGTTTACCCT
* * * * * *
45471695 AACCTTTTTAAGGTTGCCTTAGACGGGTTTATCCCAA-CTTTTTTTAAGG-TGCATTGGAAAAGG
1 AACCTTTTTAAGGTTGCCTTAGACGAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* *
45471758 TTTATCCT
66 TCTATCCC
* * * * ** *
45471766 AATCTTTTTAAGGTTGCTTTAAACGAGTCTATCTCAA-GATTTTT-AAGGTTGTCTTAGAC-AGG
1 AACCTTTTTAAGGTTGCCTTAGACGAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
*
45471828 TCAATCCC
66 TCTATCCC
* * * * *
45471836 AACCTTTTTTAAAAGTTGCCTTAGACAATGCCTATCCCAACC-TTTTT-CAGGTTACCTTAGACG
1 AACC-TTTTT-AAGGTTGCCTTAGACGA-GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-
45471899 AA--TCTATCCC
62 AAGGTCTATCCC
* * * * *
45471909 AACCTGTTTAAGGTTGCCTTAGACGAGTTTATTCCAACCTTTTTTGAAGGTTGCCTTAGAC-TGG
1 AACCTTTTTAAGGTTGCCTTAGACGAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
45471973 TCTA-CCC
66 TCTATCCC
* * * * * *
45471980 TAACATTTTTAAAAGGTTGCCTTAGACAAGTCTATCTCAACCTTTTTAAAAAGTTGCTTTAGACA
1 -AACCTTTTT--AAGGTTGCCTTAGACGAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
45472045 AGGTCTATCCC
63 AGGTCTATCCC
** *
45472056 AAATTTTTTAAAAGGTTGCCTTCGACTG-GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
1 AACCTTTTT--AAGGTTGCCTTAGAC-GAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
*
45472120 AGGTCTATACC
63 AGGTCTATCCC
* * * *
45472131 AACCTTTTTAAGGTTACCTTGGACGATTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGG
1 AACCTTTTTAAGGTTGCCTTAGACGAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
45472196 TCTATCCC
66 TCTATCCC
* * * *
45472204 AACTTTTTTTAAAGGTTTCCTTAGACAAAGTCTATCCCAA-CTTTTTTAAAAGTT-CATCTTAGA
1 AAC-CTTTTT-AAGGTTGCCTTAGAC-GAGTCTATCCCAACCTTTTTTAAAGGTTGC--CTTAGA
*
45472267 CTA-GTCTATCCC
61 CAAGGTCTATCCC
* * * *
45472279 AACCTTTTTAAGGTTGCCTTAGACGAGCCTATCCCAACATTTTTCAAAGGTTGGCCTT-GACTAG
1 AACCTTTTTAAGGTTGCCTTAGACGAGTCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACAAG
*
45472343 GTCTTTCCC
65 GTCTATCCC
45472352 AACC
1 AACC
45472356 CTTTAATAAG
Statistics
Matches: 485, Mismatches: 78, Indels: 52
0.79 0.13 0.08
Matches are distributed among these distances:
70 25 0.05
71 70 0.14
72 58 0.12
73 137 0.28
74 55 0.11
75 118 0.24
76 22 0.05
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (73 bp):
AACCTTTTTAAGGTTGCCTTAGACGAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
TCTATCCC
Found at i:45472354 original size:148 final size:149
Alignment explanation
Indices: 45471644--45472354 Score: 601
Period size: 148 Copynumber: 4.9 Consensus size: 149
45471634 ATTGGACATG
* * * * * *
45471644 AGACAAGATTTATCCCAACC-TTTTT-AAGTTTTCGTTAGA-TGGGTTTA-CCCTAACCTTTTT-
1 AGACAAG-TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGGTCTATCCC-AACCTTTTTA
** ** ** * * * * *
45471704 AAGGTTGCCTTAGACGGGTTTATCCCAA-CTTTTTTTAAGG-TGCATTGGAAAAGGTTTATCCTA
64 AAGGTTGCCTTAGACAAGCCTATCCCAACCTTTTTCAAAGGTTGCCTTAGACAAGGTCTATCCCA
* *
45471767 A-TCTTTTT-AAGGTTGCTTT
129 ACTTTTTTTAAAGGTTGCCTT
* * * ** * *
45471786 AAACGAGTCTATCTCAA-GATTTTT-AAGGTTGTCTTAGAC-AGGTCAATCCCAACCTTTTTTAA
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACC-TTTTTAA
* *
45471848 AAGTTGCCTTAGACAATGCCTATCCCAACCTTTTTC--AGGTTACCTTAGACGAA--TCTATCCC
65 AGGTTGCCTTAGACAA-GCCTATCCCAACCTTTTTCAAAGGTTGCCTTAGAC-AAGGTCTATCCC
* *
45471909 AAC-CTGTTT-AAGGTTGCCTT
128 AACTTTTTTTAAAGGTTGCCTT
* * * * *
45471929 AGACGAGTTTATTCCAACCTTTTTTGAAGGTTGCCTTAGACT-GGTCTA-CCCTAACATTTTTAA
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGGTCTATCCC-AACCTTTTT-A
* * * * *
45471992 AAGGTTGCCTTAGACAAGTCTATCTCAACCTTTTTAAAAAGTTGCTTTAGACAAGGTCTATCCCA
64 AAGGTTGCCTTAGACAAGCCTATCCCAACCTTTTTCAAAGGTTGCCTTAGACAAGGTCTATCCCA
* *
45472057 AATTTTTTAAAAGGTTGCCTT
129 ACTTTTTTTAAAGGTTGCCTT
* ** * *
45472078 CGACTGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATACCAACCTTTTT-AA
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCTTTTTAAA
* * * ** * *
45472142 GGTTACCTTGGACGATTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAC
66 GGTTGCCTTAGACAAGCCTATCCCAACCTTTTTCAAAGGTTGCCTTAGACAAGGTCTATCCCAAC
*
45472207 TTTTTTTAAAGGTTTCCTT
131 TTTTTTTAAAGGTTGCCTT
*
45472226 AGACAAAGTCTATCCCAA-CTTTTTTAAAAGTT-CATCTTAGACTA-GTCTATCCCAACCTTTTT
1 AGAC-AAGTCTATCCCAACCTTTTTTAAAGGTTGC--CTTAGACTAGGTCTATCCCAACCTTTTT
* * * *
45472288 -AAGGTTGCCTTAGACGAGCCTATCCCAACATTTTTCAAAGGTTGGCCTT-GACTAGGTCTTTCC
63 AAAGGTTGCCTTAGACAAGCCTATCCCAACCTTTTTCAAAGGTT-GCCTTAGACAAGGTCTATCC
45472351 CAAC
127 CAAC
45472355 CCTTTAATAA
Statistics
Matches: 460, Mismatches: 82, Indels: 48
0.78 0.14 0.08
Matches are distributed among these distances:
141 31 0.07
142 13 0.03
143 53 0.12
144 44 0.10
145 49 0.11
146 11 0.02
147 11 0.02
148 162 0.35
149 70 0.15
150 14 0.03
151 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (149 bp):
AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCTTTTTAAA
GGTTGCCTTAGACAAGCCTATCCCAACCTTTTTCAAAGGTTGCCTTAGACAAGGTCTATCCCAAC
TTTTTTTAAAGGTTGCCTT
Found at i:45474970 original size:15 final size:15
Alignment explanation
Indices: 45474952--45474993 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
45474942 TTCTCAGTTG
45474952 TCTTCTTCTTCG-CTT
1 TCTTCTTCTTCGTC-T
*
45474967 TCTTCGTCTTCGTCT
1 TCTTCTTCTTCGTCT
45474982 TCTTCTTCTTCG
1 TCTTCTTCTTCG
45474994 GTGATTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.00, C:0.33, G:0.10, T:0.57
Consensus pattern (15 bp):
TCTTCTTCTTCGTCT
Found at i:45480544 original size:24 final size:24
Alignment explanation
Indices: 45480498--45480553 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
45480488 TAGTTGTATG
*
45480498 TTTTATAAGTAATAAATATTTTTA
1 TTTTATAAGTAATAAATAATTTTA
* *
45480522 TTTT-TAATGTAATAATTAATTTTGC
1 TTTTATAA-GTAATAAATAATTTT-A
45480547 TTTTATA
1 TTTTATA
45480554 TAATGATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.12
24 17 0.65
25 4 0.15
26 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (24 bp):
TTTTATAAGTAATAAATAATTTTA
Found at i:45482363 original size:23 final size:23
Alignment explanation
Indices: 45482314--45482363 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
45482304 AGCATTATGT
* *
45482314 CATTTTAGTGCAATTCATTTTGC
1 CATTATAGTGCAATTCATTCTGC
*
45482337 CATTATAGTGCAATTCATTCTGG
1 CATTATAGTGCAATTCATTCTGC
45482360 CATT
1 CATT
45482364 CGATGCATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (23 bp):
CATTATAGTGCAATTCATTCTGC
Found at i:45482585 original size:21 final size:23
Alignment explanation
Indices: 45482544--45482586 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
45482534 AAAGGATACG
45482544 TCATTCTAAATTGTGGATAAACA
1 TCATTCTAAATTGTGGATAAACA
*
45482567 TCATTCTCAA-TGT-GATAAAC
1 TCATTCTAAATTGTGGATAAAC
45482587 GAGCATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (23 bp):
TCATTCTAAATTGTGGATAAACA
Found at i:45483858 original size:3 final size:3
Alignment explanation
Indices: 45483850--45483878 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45483840 CTCAACATTC
45483850 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
45483879 GTTAAAGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:45487807 original size:20 final size:20
Alignment explanation
Indices: 45487782--45487821 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45487772 AATATTTTCC
*
45487782 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45487802 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45487822 TTATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45487836 original size:34 final size:35
Alignment explanation
Indices: 45487770--45487836 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45487760 CAAACACCAG
*
45487770 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
45487805 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45487837 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45489756 original size:9 final size:9
Alignment explanation
Indices: 45489742--45489778 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45489732 TTATGTTTGA
45489742 TATTCGAAT
1 TATTCGAAT
45489751 TATTCGAAT
1 TATTCGAAT
*
45489760 TATTCGAGT
1 TATTCGAAT
45489769 TATTCGAAT
1 TATTCGAAT
45489778 T
1 T
45489779 CGAAAAGTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45489847 original size:9 final size:9
Alignment explanation
Indices: 45489830--45489860 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45489820 TCAAGTTGAT
45489830 TCGAATAAC
1 TCGAATAAC
*
45489839 TCGATTAAC
1 TCGAATAAC
45489848 TCGAATAAC
1 TCGAATAAC
45489857 TCGA
1 TCGA
45489861 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45497395 original size:5 final size:5
Alignment explanation
Indices: 45497385--45497416 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
45497375 AGAATTTAGA
45497385 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
45497417 TAAGAACTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:45498260 original size:51 final size:52
Alignment explanation
Indices: 45498204--45498303 Score: 159
Period size: 51 Copynumber: 1.9 Consensus size: 52
45498194 TTTTTTTTTT
*
45498204 CATTTTTATTTTGGAGAAAACCA-AATTCATTTCCAAATGATTCC-ATTTCTA
1 CATTTTCATTTTGGAGAAAACCATAA-TCATTTCCAAATGATTCCTATTTCTA
*
45498255 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTT
1 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCTATTT
45498304 TTCCATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 39 0.87
52 6 0.13
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (52 bp):
CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCTATTTCTA
Found at i:45510497 original size:50 final size:49
Alignment explanation
Indices: 45510417--45510546 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 49
45510407 GGATAAAGAG
*
45510417 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-ATATGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA--GTATAAGA-AAC
* * * * *
45510468 -TCTCATGTAAGACCATATATGGGATATGGCATTGGCAGTATAAGAAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAGTATAAGAAAC
45510516 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATCCCATGTAAGACCATGTCTGGGACATGGC
45510547 TTTGGCATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
48 4 0.06
49 31 0.46
50 32 0.48
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (49 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAGTATAAGAAAC
Found at i:45510540 original size:49 final size:50
Alignment explanation
Indices: 45510417--45510553 Score: 172
Period size: 49 Copynumber: 2.8 Consensus size: 50
45510407 GGATAAAGAG
* *
45510417 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAAGAGAAC
* * * *
45510468 -TCTCATGTAAGACCATATATGGGATATGGCATTGGCA-GTATAAGA-AAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ATAAGAGAAC
*
45510516 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45510554 TGTTATTATC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
48 4 0.05
49 37 0.51
50 32 0.44
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGATAAGAGAAC
Found at i:45518001 original size:49 final size:48
Alignment explanation
Indices: 45517880--45518016 Score: 159
Period size: 49 Copynumber: 2.8 Consensus size: 48
45517870 GGGTAAAGAG
* * * *
45517880 ATCCCATGTAAGACCATGTCTTGGATATGGCATGGGCACCGATATGAAA
1 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-CGACAAGAAA
* *
45517929 ACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGAAA
1 A-TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACG-ACAAGAAA
* *
45517978 CATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA
45518017 TGTTATTATC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 40 0.53
50 34 0.45
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACGACAAGAAA
Found at i:45523300 original size:20 final size:21
Alignment explanation
Indices: 45523261--45523307 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
45523251 TTTGAAAAAG
**
45523261 AATTATAACTATTATTTGAAT
1 AATTATAACTATTAAATGAAT
*
45523282 AGTTATAA-TATTAAATGAAT
1 AATTATAACTATTAAATGAAT
45523302 AATTAT
1 AATTAT
45523308 GTGTTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (21 bp):
AATTATAACTATTAAATGAAT
Found at i:45536747 original size:4 final size:4
Alignment explanation
Indices: 45536738--45536897 Score: 302
Period size: 4 Copynumber: 40.0 Consensus size: 4
45536728 ATAAAGATAA
*
45536738 TATG TATG TATG TATG CATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
45536786 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
45536834 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
45536882 TATG TATG CATG TATG
1 TATG TATG TATG TATG
45536898 CAATACCTTA
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 152 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:45544948 original size:14 final size:15
Alignment explanation
Indices: 45544922--45544950 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45544912 ATTAAATTGC
45544922 ATAACATATATAAAA
1 ATAACATATATAAAA
45544937 ATAACA-ATATAAAA
1 ATAACATATATAAAA
45544951 TATTTCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAACATATATAAAA
Found at i:45552394 original size:11 final size:12
Alignment explanation
Indices: 45552357--45552401 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
45552347 CTTAACTCCC
45552357 TTTTTTTAAATA
1 TTTTTTTAAATA
* **
45552369 ATTTTAAAAATA
1 TTTTTTTAAATA
45552381 TTTTTTTAAA-A
1 TTTTTTTAAATA
45552392 TTTTTTTAAA
1 TTTTTTTAAA
45552402 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTTTAAATA
Found at i:45553334 original size:21 final size:20
Alignment explanation
Indices: 45553295--45553332 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45553285 TAACGAGGTA
45553295 AATTTTATATTAGATTTTAC
1 AATTTTATATTAGATTTTAC
45553315 AATTATTATA-TAGATTTT
1 AATT-TTATATTAGATTTT
45553333 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
AATTTTATATTAGATTTTAC
Found at i:45554198 original size:18 final size:18
Alignment explanation
Indices: 45554171--45554210 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
45554161 CAGGTGCGTT
*
45554171 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
*
45554189 TCCTAACCCTTATATTTA
1 TCCTAACCCTTATATGTA
45554207 TCCT
1 TCCT
45554211 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:45554667 original size:25 final size:25
Alignment explanation
Indices: 45554639--45554757 Score: 126
Period size: 25 Copynumber: 5.0 Consensus size: 25
45554629 TATTTTGATA
45554639 TTTATTTGATGTAATAAAATAGAAG
1 TTTATTTGATGTAATAAAATAGAAG
45554664 TTTATTTGATGTAATAAAATAGAAAG
1 TTTATTTGATGTAATAAAATAG-AAG
* ** *
45554690 TTT-TTTTA-GT--T-ATTTTG-A-
1 TTTATTTGATGTAATAAAATAGAAG
*
45554708 TATTATTTGATGTAATAAAATAAAAG
1 T-TTATTTGATGTAATAAAATAGAAG
45554734 TTTATTTGATGTAATAAAATAGAA
1 TTTATTTGATGTAATAAAATAGAA
45554758 ATTTTTGAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.01
19 3 0.04
20 4 0.05
21 5 0.07
22 1 0.01
23 1 0.01
24 4 0.05
25 49 0.65
26 7 0.09
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (25 bp):
TTTATTTGATGTAATAAAATAGAAG
Found at i:45554721 original size:70 final size:70
Alignment explanation
Indices: 45554629--45554763 Score: 245
Period size: 70 Copynumber: 1.9 Consensus size: 70
45554619 ATATTTTGAA
*
45554629 TATTTTGATATTTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAAGTTTT
1 TATTTTGATATTTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAATAGAAA-TTTT
45554694 TTTAGT
65 TTTAGT
45554700 TATTTTGATA-TTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAATAGAAATTTTT
1 TATTTTGATATTTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAATAGAAATTTTT
45554764 GAATATTTTG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
69 5 0.08
70 48 0.76
71 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (70 bp):
TATTTTGATATTTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAATAGAAATTTTT
TTAGT
Found at i:45554853 original size:23 final size:24
Alignment explanation
Indices: 45554818--45555173 Score: 335
Period size: 23 Copynumber: 16.1 Consensus size: 24
45554808 ATTAATACCC
45554818 TTAACTTAAAAACCCTAACCTAAT
1 TTAACTTAAAAACCCTAACCTAAT
* *
45554842 TTAA-TTAAAAACCTTAAACC---C
1 TTAACTTAAAAACCCT-AACCTAAT
45554863 TTAACTTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
* *
45554886 TTAAATTAAAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
45554907 TTAACTT-AAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
* **
45554929 TTAAATTAAAAACCCTAACC--CC
1 TTAACTTAAAAACCCTAACCTAAT
45554951 TT-ACTTAAAAACCCTAACCT-A-
1 TTAACTTAAAAACCCTAACCTAAT
* *
45554972 -TAAATTAAAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
*
45554992 TTAACTTAAAAACTCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
*
45555015 TTAAATTAAAAACCCTAACC----
1 TTAACTTAAAAACCCTAACCTAAT
*
45555035 TTAACTTAAAAACTCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
*
45555058 TTAAATTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
45555081 TTAACTTAAAAACCCTAACCTAA-
1 TTAACTTAAAAACCCTAACCTAAT
45555104 TTAAGC-TAAAAACCCTAACCTAA-
1 TTAA-CTTAAAAACCCTAACCTAAT
* *
45555127 TTAAATTAAAAACCCTAACC---C
1 TTAACTTAAAAACCCTAACCTAAT
45555148 TTAACTTAAAAACCCTAACCTAAT
1 TTAACTTAAAAACCCTAACCTAAT
45555172 TT
1 TT
45555174 TACATTCACA
Statistics
Matches: 283, Mismatches: 22, Indels: 54
0.79 0.06 0.15
Matches are distributed among these distances:
20 31 0.11
21 82 0.29
22 18 0.06
23 141 0.50
24 11 0.04
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (24 bp):
TTAACTTAAAAACCCTAACCTAAT
Found at i:45554932 original size:43 final size:44
Alignment explanation
Indices: 45554814--45555167 Score: 506
Period size: 43 Copynumber: 8.1 Consensus size: 44
45554804 AACCATTAAT
* *
45554814 ACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-A
45554859 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
45554903 ACCCTTAACTT-AAAACCCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
45554946 ACCCCTT-ACTTAAAAACCCTAACCT-A-TAAATTAAAAACCCTA
1 A-CCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
45554988 ACCCTTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
45555032 A-CCTTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* **
45555075 ACCTAATTAACTTAAAAACCCTAACCTAATTAAGCTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * * *
45555121 ACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
45555165 ACC
1 ACC
45555168 TAATTTTACA
Statistics
Matches: 290, Mismatches: 11, Indels: 17
0.91 0.03 0.05
Matches are distributed among these distances:
41 5 0.02
42 34 0.12
43 82 0.28
44 66 0.23
45 41 0.14
46 62 0.21
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (44 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
Found at i:45555326 original size:115 final size:115
Alignment explanation
Indices: 45555168--45555390 Score: 410
Period size: 115 Copynumber: 1.9 Consensus size: 115
45555158 AACCCTAACC
*
45555168 TAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGATTGGTACTAACAATTAATAAT
1 TAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAAT
* *
45555233 TTTATGTAATTTGAAATTTTTACTAACCATTAATACAATTTATCAATTAA
66 TTTATATAATTTGAAATTTTTACTAACAATTAATACAATTTATCAATTAA
45555283 TAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAAT
1 TAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAAT
*
45555348 TTTATATAGTTTGAAATTTTTACTAACAATTAATACAATTTAT
66 TTTATATAATTTGAAATTTTTACTAACAATTAATACAATTTAT
45555391 GCCGCCGTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 104 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (115 bp):
TAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAAT
TTTATATAATTTGAAATTTTTACTAACAATTAATACAATTTATCAATTAA
Found at i:45557968 original size:124 final size:125
Alignment explanation
Indices: 45557639--45558016 Score: 605
Period size: 125 Copynumber: 3.0 Consensus size: 125
45557629 CCCAAACATG
* * *
45557639 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTTTACAAATTCTTCTCAAATAGCATCCTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
45557704 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTCCATGAC
66 CTAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
*
45557764 CTACTGTAGCAAAAGCGCGTCCACGAGGGAGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
*
45557829 CTAGAAATGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 CTAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * *
45557889 CTACTGTAGTAAAAGTGCGTCCACTAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *** *
45557953 CTAGAAACGATTTTATACTATTTGATCAGAAACGTCAACTTGAAATTATTTCTTCCAAGAC
66 CTAGAAACGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
45558014 CTA
1 CTA
45558017 AAAACCCTAA
Statistics
Matches: 235, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
124 66 0.28
125 169 0.72
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:45558591 original size:14 final size:14
Alignment explanation
Indices: 45558572--45558603 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45558562 TTCATTAATC
*
45558572 TTTTCTCTCAATTT
1 TTTTCTCTAAATTT
45558586 TTTTCTCTAAATTT
1 TTTTCTCTAAATTT
45558600 TTTT
1 TTTT
45558604 ATCATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTCTAAATTT
Found at i:45564449 original size:42 final size:42
Alignment explanation
Indices: 45564400--45564494 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
45564390 GTCGGTATCG
* *
45564400 CACACTTAGTGCCCGTTATTCAACATCATCATTTTAATTTCT
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
* *
45564442 CACACTTAATGCCCATTATTCAACATCATCATTTTAGTTTCA
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
*
45564484 CACATTTAGTG
1 CACACTTAGTG
45564495 TCGTTCATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.39
Consensus pattern (42 bp):
CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
Found at i:45564700 original size:2 final size:2
Alignment explanation
Indices: 45564693--45564733 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
45564683 NNNNNNNNAC
45564693 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45564734 TTTCATACTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45566097 original size:65 final size:64
Alignment explanation
Indices: 45565974--45566100 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 64
45565964 ACCTTGTTGC
45565974 CCATATTTATTATATTTATTATTTAAGTATTTTTTACTGATATACTATATTGAATAAAAAGTAT
1 CCATATTTATTATATTTATTATTTAAGTATTTTTTACTGATATACTATATTGAATAAAAAGTAT
*
45566038 CCATGTTTATTATATTTATTATTTAAGTATTTTTTTACTGATATACTATATTGAATAAAAAGT
1 CCATATTTATTATATTTATTATTTAAGTA-TTTTTTACTGATATACTATATTGAATAAAAAGT
45566101 TAAGTTAGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 28 0.46
65 33 0.54
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.50
Consensus pattern (64 bp):
CCATATTTATTATATTTATTATTTAAGTATTTTTTACTGATATACTATATTGAATAAAAAGTAT
Found at i:45571815 original size:17 final size:18
Alignment explanation
Indices: 45571793--45571836 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
45571783 AATCTTCATT
*
45571793 AAATCCCTAAAATT-TTC
1 AAATCCCTAAAATTCTTA
45571810 AAATCCCT--AATTCTTA
1 AAATCCCTAAAATTCTTA
45571826 AAATCCCTAAA
1 AAATCCCTAAA
45571837 TCATTAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 8 0.35
18 1 0.04
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATCCCTAAAATTCTTA
Found at i:45575969 original size:33 final size:33
Alignment explanation
Indices: 45575932--45576008 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
45575922 TAGAATCTGG
*
45575932 TGGGGAGGGTGATGTAGGAGTGGTACAAGCTAA
1 TGGGGAGGGTGATGTAGGAGAGGTACAAGCTAA
* * *
45575965 TGGGGAGGGCGATGTAGGAGAGGTACAAGTTGA
1 TGGGGAGGGTGATGTAGGAGAGGTACAAGCTAA
45575998 TGGGGAGGGTG
1 TGGGGAGGGTG
45576009 TGTCTGCTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.25, C:0.05, G:0.51, T:0.19
Consensus pattern (33 bp):
TGGGGAGGGTGATGTAGGAGAGGTACAAGCTAA
Found at i:45579975 original size:32 final size:32
Alignment explanation
Indices: 45579938--45580011 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
45579928 TTTGGTTCTA
*
45579938 AGGGATTTCATAATTTCATTCCTAATAGTTTT
1 AGGGATTTCATAATTTCATTCCTAAAAGTTTT
* * * * *
45579970 AGGGATTTAATGATTTGATTCGTAAAATTTTT
1 AGGGATTTCATAATTTCATTCCTAAAAGTTTT
45580002 AGGGATTTCA
1 AGGGATTTCA
45580012 AGAATATTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.45
Consensus pattern (32 bp):
AGGGATTTCATAATTTCATTCCTAAAAGTTTT
Done.