Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 155 of 210
Found at i:51908997 original size:33 final size:33
Alignment explanation
Indices: 51908953--51909015 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
51908943 TAACAATAAG
* *
51908953 TTATTCTAGCAATTAATAAACTAATATAAGCAT
1 TTATTCCAGCAATTAATAAACTAAAATAAGCAT
*
51908986 TTATTCCAGCAATTAATTAACTAAAATAAG
1 TTATTCCAGCAATTAATAAACTAAAATAAG
51909016 TTTAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (33 bp):
TTATTCCAGCAATTAATAAACTAAAATAAGCAT
Found at i:51910122 original size:26 final size:26
Alignment explanation
Indices: 51910077--51910135 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
51910067 TATTTTCTCG
*
51910077 AAATTTTACCAAGGGCAAAATCGCCA
1 AAATTTTAACAAGGGCAAAATCGCCA
* * * *
51910103 AAATTTTAACAGGGGTAAAATTGTCA
1 AAATTTTAACAAGGGCAAAATCGCCA
51910129 AAATTTT
1 AAATTTT
51910136 TCTAGAGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (26 bp):
AAATTTTAACAAGGGCAAAATCGCCA
Found at i:51914988 original size:32 final size:32
Alignment explanation
Indices: 51914947--51915013 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
51914937 TAAATTTTGG
*
51914947 TCAAACCCCCTATATTTTTGTCCCTTCTAGTT
1 TCAAACCCCCTATATTGTTGTCCCTTCTAGTT
51914979 TCAAACCCCCTATATTGTTGTCCCTTCTAGTT
1 TCAAACCCCCTATATTGTTGTCCCTTCTAGTT
51915011 TCA
1 TCA
51915014 TTGAAAGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.31, G:0.07, T:0.42
Consensus pattern (32 bp):
TCAAACCCCCTATATTGTTGTCCCTTCTAGTT
Found at i:51918481 original size:23 final size:22
Alignment explanation
Indices: 51918438--51918481 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
51918428 TTTCACGTCA
51918438 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
51918461 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
51918482 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:51918618 original size:46 final size:44
Alignment explanation
Indices: 51918551--51918646 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 44
51918541 AATAATAACA
* *
51918551 GATATACGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATATCCGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* *
51918597 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATATCCGGT-GGATTCAGCACACAGCAACCACCTTATAATCAAT
51918641 GATATC
1 GATATC
51918647 GGTTCACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 15 0.33
45 2 0.04
46 25 0.56
47 3 0.07
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (44 bp):
GATATCCGGTGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:51922567 original size:50 final size:50
Alignment explanation
Indices: 51922460--51922567 Score: 162
Period size: 50 Copynumber: 2.2 Consensus size: 50
51922450 TCTGTTTTAA
* *
51922460 TCCTTTTCATAATTTCATGACATAGTTCATTCGAATACATACCTTTCCTT
1 TCCTTTTTATAATTTCATGACATAGTTCATTCGAACACATACCTTTCCTT
* * *
51922510 TCCTTTTTATAATTTCATGACATAGTTTATTTGAACACATACCTTTCTTT
1 TCCTTTTTATAATTTCATGACATAGTTCATTCGAACACATACCTTTCCTT
*
51922560 TCTTTTTT
1 TCCTTTTT
51922568 CATGCCCGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.06, T:0.50
Consensus pattern (50 bp):
TCCTTTTTATAATTTCATGACATAGTTCATTCGAACACATACCTTTCCTT
Found at i:51924428 original size:94 final size:94
Alignment explanation
Indices: 51924266--51924440 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 94
51924256 TTAAATTATG
* * * * * *
51924266 TTTTAATTATTATTTATCTAAAACTCTTTTAAATTATAATTAAATTCTATTTCCTTATTTGATAA
1 TTTTAATTATTACTTATATAAAACTCTTTTAAATAATAATTAAATTCTATTTCATTATCTAATAA
51924331 GGAATATACCAAATCCTTTTGATTTTGAA
66 GGAATATACCAAATCCTTTTGATTTTGAA
* * *
51924360 TTTTAATTATTACTTCTATAGAACTCTTTTAAATAATAATTAAATTCTATTT-ATGTATCTAATT
1 TTTTAATTATTACTTATATAAAACTCTTTTAAATAATAATTAAATTCTATTTCAT-TATCTAATA
*
51924424 AGGAATATATCAAATCC
65 AGGAATATACCAAATCC
51924441 CCTTTTTATC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
93 1 0.01
94 69 0.99
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (94 bp):
TTTTAATTATTACTTATATAAAACTCTTTTAAATAATAATTAAATTCTATTTCATTATCTAATAA
GGAATATACCAAATCCTTTTGATTTTGAA
Found at i:51936590 original size:116 final size:116
Alignment explanation
Indices: 51936379--51936636 Score: 363
Period size: 116 Copynumber: 2.2 Consensus size: 116
51936369 ACAGCCTGGG
* * * * *
51936379 ACACAGGCTGTCACACGGTCGTGTGTCATTTGAAAAATTTTAATATTTCAAGTCAGTGTGTTTCA
1 ACACAGCCTGGCACACGGCCGTGTGTCATTTGAAAAATTTTAATATTTCAAGCCAGTGTGTTACA
* * ** * *
51936444 CAGCTTAGTACATGGCCTGGCTCATGACCGTTTGTGGCAACTTAGAGAGTT
66 CAGCTTAGTACACGGCCTGGCACACAACCGTGTGTGGCAACTTAAAGAGTT
* * *
51936495 ACACAGCCTGGCACACGGCCATGTGTCATTTGCAAAATTTTGATATTTCAAGCCAGTGTGTTACA
1 ACACAGCCTGGCACACGGCCGTGTGTCATTTGAAAAATTTTAATATTTCAAGCCAGTGTGTTACA
*
51936560 CGGCTTAGTACACGGCCTGGCACACAACCGTGTGTGGCAACTTAAAGAGTT
66 CAGCTTAGTACACGGCCTGGCACACAACCGTGTGTGGCAACTTAAAGAGTT
* *
51936611 ACACGGCCTGGCATACGGCCGTGTGT
1 ACACAGCCTGGCACACGGCCGTGTGT
51936637 GGCTTGTTCA
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 124 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (116 bp):
ACACAGCCTGGCACACGGCCGTGTGTCATTTGAAAAATTTTAATATTTCAAGCCAGTGTGTTACA
CAGCTTAGTACACGGCCTGGCACACAACCGTGTGTGGCAACTTAAAGAGTT
Found at i:51947022 original size:22 final size:22
Alignment explanation
Indices: 51946997--51947040 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51946987 GTGTGTTCAG
*
51946997 GAAATCTATTACGCTAGGGGAA
1 GAAATCCATTACGCTAGGGGAA
51947019 GAAATCCATTACGCTAGGGGAA
1 GAAATCCATTACGCTAGGGGAA
51947041 TATTTGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (22 bp):
GAAATCCATTACGCTAGGGGAA
Found at i:51961027 original size:2 final size:2
Alignment explanation
Indices: 51961022--51961046 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51961012 GTATAGGTAA
51961022 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
51961047 TAGCTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:51970523 original size:27 final size:27
Alignment explanation
Indices: 51970478--51970548 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
51970468 CTATGTTTTG
* * * * *
51970478 CGTCCTAGCGGGCTTCCCCATTTTTAT
1 CGTCCCAGCGGACTACCCCATGTTTAA
* *
51970505 TGTCCCAGCGGACTACCCCGTGTTTAA
1 CGTCCCAGCGGACTACCCCATGTTTAA
*
51970532 CGTCCCAGTGGACTACC
1 CGTCCCAGCGGACTACC
51970549 TTGTGTTTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.15, C:0.35, G:0.21, T:0.28
Consensus pattern (27 bp):
CGTCCCAGCGGACTACCCCATGTTTAA
Found at i:51970564 original size:54 final size:54
Alignment explanation
Indices: 51970500--51970664 Score: 174
Period size: 54 Copynumber: 3.1 Consensus size: 54
51970490 CTTCCCCATT
* *
51970500 TTTATTGTCCCAG-CGGACTACCCCGTGTTTAACGTCCCAGTGGACTACCTTGTG
1 TTTAATGTCCCAGACGGACTACCCCGTGTTTAA-GTCCCAGTGGACTACCCTGTG
* * * *
51970554 TTTAATGTCCC-GATGGACTACCCTGTGTTTCAGTCCTAGTGGACTACCCTGTG
1 TTTAATGTCCCAGACGGACTACCCCGTGTTTAAGTCCCAGTGGACTACCCTGTG
* * * * * * *
51970607 TTTACTGT-CCAGACAGACTACCTCGTCTTTAATGTCCCGGTGGATTACCCCGTG
1 TTTAATGTCCCAGACGGACTACCCCGTGTTTAA-GTCCCAGTGGACTACCCTGTG
51970661 TTTA
1 TTTA
51970665 TTATCTCGGT
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.46
54 47 0.52
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (54 bp):
TTTAATGTCCCAGACGGACTACCCCGTGTTTAAGTCCCAGTGGACTACCCTGTG
Found at i:51970616 original size:53 final size:54
Alignment explanation
Indices: 51970514--51970691 Score: 169
Period size: 54 Copynumber: 3.3 Consensus size: 54
51970504 TTGTCCCAGC
*
51970514 GGACTACCCCGTGTTTAACGTCCCAGTGGACTACCTTGTGTTTAATGTCCCGAT
1 GGACTACCCCGTGTTTAACGTCCCAGTGGACTACCCTGTGTTTAATGTCCCGAT
* * * * * *
51970568 GGACTACCCTGTGTTTCA-GTCCTAGTGGACTACCCTGTGTTTACTGTCCAGAC
1 GGACTACCCCGTGTTTAACGTCCCAGTGGACTACCCTGTGTTTAATGTCCCGAT
* * * * * * * * * * *
51970621 AGACTACCTCGTCTTTAATGTCCCGGTGGATTACCCCGTGTTTATTATCTCGGT
1 GGACTACCCCGTGTTTAACGTCCCAGTGGACTACCCTGTGTTTAATGTCCCGAT
* *
51970675 AGACTACCCCATGTTTA
1 GGACTACCCCGTGTTTA
51970692 TTGTCCTGAC
Statistics
Matches: 98, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
53 43 0.44
54 55 0.56
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (54 bp):
GGACTACCCCGTGTTTAACGTCCCAGTGGACTACCCTGTGTTTAATGTCCCGAT
Found at i:51970758 original size:81 final size:81
Alignment explanation
Indices: 51970554--51970760 Score: 204
Period size: 81 Copynumber: 2.6 Consensus size: 81
51970544 CTACCTTGTG
* * * **
51970554 TTTAATGTCCC-GATGGACTACCCTGTGTTT-CAGTCCTAGTGGACTACCCTGTGTTTACTGTCC
1 TTTAATATCCCAG-TGGACTACCCTGTGTTTACTGTCCTAGTAGACTACCCCATGTTTACTGTCC
*
51970617 AGACAGACTACCTCGTC
65 AGACAGACTACCCCGTC
* * * * * * * *
51970634 TTTAATGTCCCGGTGGATTACCCCGTGTTTATTAT-CTCGGTAGACTACCCCATGTTTATTGTCC
1 TTTAATATCCCAGTGGACTACCCTGTGTTTACTGTCCT-AGTAGACTACCCCATGTTTACTGTCC
* * * *
51970698 TGACGGATTACCCCGTG
65 AGACAGACTACCCCGTC
*
51970715 TTTACTATCCCAGTGGACTACCCTGTGTTTACTGTCCTAGTAGACT
1 TTTAATATCCCAGTGGACTACCCTGTGTTTACTGTCCTAGTAGACT
51970761 CTGTTGGTTT
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
80 28 0.28
81 70 0.70
82 2 0.02
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (81 bp):
TTTAATATCCCAGTGGACTACCCTGTGTTTACTGTCCTAGTAGACTACCCCATGTTTACTGTCCA
GACAGACTACCCCGTC
Found at i:51970760 original size:27 final size:27
Alignment explanation
Indices: 51970500--51970760 Score: 149
Period size: 27 Copynumber: 9.7 Consensus size: 27
51970490 CTTCCCCATT
* * * *
51970500 TTTATTGTCCCAGCGGACTACCCCGTG
1 TTTACTGTCCTAGTGGACTACCCTGTG
* *
51970527 TTTAAC-GTCCCAGTGGACTACCTTGTG
1 TTT-ACTGTCCTAGTGGACTACCCTGTG
* *
51970554 TTTAATGTCC-CGATGGACTACCCTGTG
1 TTTACTGTCCTAG-TGGACTACCCTGTG
*
51970581 TTT-CAGTCCTAGTGGACTACCCTGTG
1 TTTACTGTCCTAGTGGACTACCCTGTG
** *
51970607 TTTACTGTCC-AGACAGACTA-CCTCGTC
1 TTTACTGTCCTAG-TGGACTACCCT-GTG
* ** * *
51970634 TTTAATGTCCCGGTGGATTACCCCGTG
1 TTTACTGTCCTAGTGGACTACCCTGTG
* * * * **
51970661 TTTATTAT-CTCGGTAGACTACCCCATG
1 TTTACTGTCCT-AGTGGACTACCCTGTG
* * * *
51970688 TTTATTGTCCT-GACGGATTACCCCGTG
1 TTTACTGTCCTAG-TGGACTACCCTGTG
* *
51970715 TTTACTATCCCAGTGGACTACCCTGTG
1 TTTACTGTCCTAGTGGACTACCCTGTG
*
51970742 TTTACTGTCCTAGTAGACT
1 TTTACTGTCCTAGTGGACT
51970761 CTGTTGGTTT
Statistics
Matches: 180, Mismatches: 41, Indels: 26
0.73 0.17 0.11
Matches are distributed among these distances:
26 30 0.17
27 143 0.79
28 7 0.04
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (27 bp):
TTTACTGTCCTAGTGGACTACCCTGTG
Found at i:51983148 original size:21 final size:21
Alignment explanation
Indices: 51983113--51983165 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
51983103 TATTGTTTTT
*
51983113 TCGATACT-TTTTAAAAAATA
1 TCGATACTCATTTAAAAAATA
*
51983133 TCGATACTCATTTAAAAAGTA
1 TCGATACTCATTTAAAAAATA
51983154 TCGATACTCATT
1 TCGATACTCATT
51983166 GGGTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.27
21 22 0.73
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (21 bp):
TCGATACTCATTTAAAAAATA
Found at i:51986590 original size:91 final size:90
Alignment explanation
Indices: 51986435--51986622 Score: 241
Period size: 91 Copynumber: 2.1 Consensus size: 90
51986425 GATTCTAGCA
* *
51986435 TGTTATCGGTTGGAAAGTTCTTACGAGAAAACTGGCATGTTATCAGGGGAGAATATTTAGCCTAT
1 TGTTATCGGTTGGAAAGCTCTTACGAGAAAACTGGCATGTTATCAGGGGAGAATACTTAGCCTAT
* * *
51986500 GGGCTTTGCACTATGTGCATATGGTG
66 AGGCTTTACACTAT-TACATATGGTG
* * * *** **
51986526 TGTTATCTGTTGGAAAGCTCTTATGAGAAAATTGTTGTGTTATTGGGGGAGAATACTTAGCCTAT
1 TGTTATCGGTTGGAAAGCTCTTACGAGAAAACTGGCATGTTATCAGGGGAGAATACTTAGCCTAT
*
51986591 AGGCTTTACACTATTACATCTGGTG
66 AGGCTTTACACTATTACATATGGTG
51986616 TGTTATC
1 TGTTATC
51986623 AAATGGTTAC
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
90 16 0.19
91 67 0.81
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (90 bp):
TGTTATCGGTTGGAAAGCTCTTACGAGAAAACTGGCATGTTATCAGGGGAGAATACTTAGCCTAT
AGGCTTTACACTATTACATATGGTG
Found at i:51991026 original size:23 final size:23
Alignment explanation
Indices: 51991000--51991172 Score: 136
Period size: 23 Copynumber: 7.5 Consensus size: 23
51990990 TATAGAACTT
* *
51991000 ACCACAAAGGCATTGTATAATAC
1 ACCACAAAGGCATTATAGAATAC
*
51991023 ACCACAAAGGCATTATAGAATAT
1 ACCACAAAGGCATTATAGAATAC
* *
51991046 GCCACAAAGGTGC-TT-TAGAATAT
1 ACCACAAA-G-GCATTATAGAATAC
* * * *
51991069 GCCACAAAAGTCATTACAGAATAT
1 ACCAC-AAAGGCATTATAGAATAC
* *
51991093 GCCACAAAGGCATTATCGAATAC
1 ACCACAAAGGCATTATAGAATAC
* * *
51991116 GCCACAAAGGCATTACAGAATTC
1 ACCACAAAGGCATTATAGAATAC
* *
51991139 GCCACAAAGGCATT-TCAGGATAC
1 ACCACAAAGGCATTAT-AGAATAC
*
51991162 GCCACAAAGGC
1 ACCACAAAGGC
51991173 GTTACAAGTA
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.01
23 107 0.84
24 18 0.14
25 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (23 bp):
ACCACAAAGGCATTATAGAATAC
Found at i:51991143 original size:70 final size:69
Alignment explanation
Indices: 51991001--51991172 Score: 188
Period size: 70 Copynumber: 2.5 Consensus size: 69
51990991 ATAGAACTTA
** * * * *
51991001 CCACAAAGGCATTGTATAATACACCACAAAGGCATTATAGAATATGCCACAAAGGTGCTTTAGAA
1 CCACAAAGGCATTACAGAATACGCCACAAAGGCATTATAGAATACGCCACAAAGGTGCTTCAGAA
51991066 TATG
66 TATG
* * *
51991070 CCACAAAAGTCATTACAGAATATGCCACAAAGGCATTATCGAATACGCCACAAA-G-GCATTACA
1 CCAC-AAAGGCATTACAGAATACGCCACAAAGGCATTATAGAATACGCCACAAAGGTGC-TT-CA
51991133 GAAT-TCG
63 GAATAT-G
* *
51991140 CCACAAAGGCATTTCAGGATACGCCACAAAGGC
1 CCACAAAGGCATTACAGAATACGCCACAAAGGC
51991173 GTTACAAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
68 2 0.02
69 33 0.38
70 51 0.59
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (69 bp):
CCACAAAGGCATTACAGAATACGCCACAAAGGCATTATAGAATACGCCACAAAGGTGCTTCAGAA
TATG
Found at i:51991149 original size:46 final size:45
Alignment explanation
Indices: 51991001--51991178 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 45
51990991 ATAGAACTTA
* * *
51991001 CCACAAAGGCATTGTATAATACACCACAAAGGCATTATAGAATATG
1 CCACAAAGGCATT-TAGAATACGCCACAAAGGCATTACAGAATATG
* *
51991047 CCACAAAGGTGC-TTTAGAATATGCCACAAAAGTCATTACAGAATATG
1 CCACAAA-G-GCATTTAGAATACGCCAC-AAAGGCATTACAGAATATG
*
51991094 CCACAAAGGCATTATCGAATACGCCACAAAGGCATTACAGAAT-TCG
1 CCACAAAGGCATT-TAGAATACGCCACAAAGGCATTACAGAATAT-G
* *
51991140 CCACAAAGGCATTTCAGGATACGCCACAAAGGCGTTACA
1 CCACAAAGGCATTT-AGAATACGCCACAAAGGCATTACA
51991179 AGTAACTTGC
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
45 4 0.04
46 70 0.61
47 38 0.33
48 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (45 bp):
CCACAAAGGCATTTAGAATACGCCACAAAGGCATTACAGAATATG
Found at i:51991166 original size:93 final size:93
Alignment explanation
Indices: 51991001--51991169 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 93
51990991 ATAGAACTTA
* * *
51991001 CCACAAAGGCATTGTATAATACACCACAAAGGCATTATAGAATATGCCACAAAGGTGCTTTAGAA
1 CCACAAAGGCATTATAGAATACACCACAAAGGCATTACAGAATATGCCACAAAGGTGCTTTAGAA
*
51991066 TATGCCACAAAAGTCATTACAGAATATG
66 TACGCCACAAAAGTCATTACAGAATATG
* *
51991094 CCACAAAGGCATTATCGAATACGCCACAAAGGCATTACAGAAT-TCGCCACAAA-G-GCATTTCA
1 CCACAAAGGCATTATAGAATACACCACAAAGGCATTACAGAATAT-GCCACAAAGGTGC-TTT-A
*
51991156 GGATACGCCACAAA
63 GAATACGCCACAAA
51991170 GGCGTTACAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
91 2 0.03
92 5 0.08
93 59 0.89
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.20
Consensus pattern (93 bp):
CCACAAAGGCATTATAGAATACACCACAAAGGCATTACAGAATATGCCACAAAGGTGCTTTAGAA
TACGCCACAAAAGTCATTACAGAATATG
Found at i:51993842 original size:68 final size:68
Alignment explanation
Indices: 51993742--51993979 Score: 284
Period size: 68 Copynumber: 3.5 Consensus size: 68
51993732 CATCTCAAAA
* * *
51993742 GAGGTTACAATGTGTAAGACCATAGCTCGGCTATGGAAACCAATAGAGTTCGCCAGGACATTAAA
1 GAGGTTACAAGGTGTAAGACCATAACTCGGCTATGGAAACCAATAGAGTTCGCCAAGACATTAAA
51993807 CAT
66 CAT
* * * * * *
51993810 GAGGTTACAAGGTGAAATACCATAACTAGGCTATGGAAACCTATAGAGTCCGCCATGACATTAAA
1 GAGGTTACAAGGTGTAAGACCATAACTCGGCTATGGAAACCAATAGAGTTCGCCAAGACATTAAA
51993875 CAT
66 CAT
* * * * *
51993878 GGGGTTACAAGGTGTAAGACCA-AATCTCGACTATGGCAACCAATATAG-TCTGTCAAGACATTA
1 GAGGTTACAAGGTGTAAGACCATAA-CTCGGCTATGGAAACCAATAGAGTTC-GCCAAGACATTA
51993941 AACAT
64 AACAT
* * *
51993946 GGGGTTACAA-GTGTATGACCATAGCTCGGCTATG
1 GAGGTTACAAGGTGTAAGACCATAACTCGGCTATG
51993980 TCAACTTATG
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
67 22 0.15
68 123 0.85
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (68 bp):
GAGGTTACAAGGTGTAAGACCATAACTCGGCTATGGAAACCAATAGAGTTCGCCAAGACATTAAA
CAT
Found at i:51994974 original size:30 final size:30
Alignment explanation
Indices: 51994938--51994999 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
51994928 TAGAAAATAA
51994938 TACTATGCCATAAAACTGGCTCGCATATGG
1 TACTATGCCATAAAACTGGCTCGCATATGG
51994968 TACTATGCCATAAAACTGGCTCGCATATGG
1 TACTATGCCATAAAACTGGCTCGCATATGG
51994998 TA
1 TA
51995000 TTAACACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (30 bp):
TACTATGCCATAAAACTGGCTCGCATATGG
Found at i:51996101 original size:13 final size:14
Alignment explanation
Indices: 51996069--51996099 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
51996059 GAGCACACAT
51996069 AAAACATAACTTTA
1 AAAACATAACTTTA
*
51996083 AAAACATAACTTGA
1 AAAACATAACTTTA
51996097 AAA
1 AAA
51996100 CAGAGTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAACATAACTTTA
Found at i:51996603 original size:27 final size:27
Alignment explanation
Indices: 51996572--51996635 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
51996562 TTGACTGGAG
* **
51996572 ATCCCTAGTTCACAGCTCAACTGGTGA
1 ATCCCTAGTTCACAACTCAACTGACGA
*
51996599 ATCCCTAGTTCACAACTCGACTGACGA
1 ATCCCTAGTTCACAACTCAACTGACGA
51996626 A-CCCTAGTTC
1 ATCCCTAGTTC
51996636 GCCAAACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (27 bp):
ATCCCTAGTTCACAACTCAACTGACGA
Found at i:52000399 original size:59 final size:61
Alignment explanation
Indices: 52000328--52000444 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
52000318 ATCACTTTAA
* * ** * *
52000328 TATTAAATTAATATAATATTTA-T-CAAGATAATTATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
*
52000387 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAACATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAACATTAA
52000445 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
Found at i:52000470 original size:20 final size:18
Alignment explanation
Indices: 52000420--52000471 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
52000410 CTACAAGATA
52000420 AACATTAAATTAA-ATTT
1 AACATTAAATTAATATTT
52000437 AACATTAAGA-TAATCACTTT
1 AACATTAA-ATTAAT-A-TTT
*
52000457 AATATTAAATTAATA
1 AACATTAAATTAATA
52000472 AAATACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (18 bp):
AACATTAAATTAATATTT
Found at i:52001923 original size:15 final size:15
Alignment explanation
Indices: 52001899--52001930 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52001889 TATGCATGCA
*
52001899 AAATATAAAAGACAT
1 AAATACAAAAGACAT
52001914 AAATACAAAAGACAT
1 AAATACAAAAGACAT
52001929 AA
1 AA
52001931 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:52003866 original size:16 final size:17
Alignment explanation
Indices: 52003834--52003866 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52003824 CAAAATCTAT
*
52003834 AAAACAATGACAGATAA
1 AAAACAATGACAAATAA
52003851 AAAACAAT-ACAAATAA
1 AAAACAATGACAAATAA
52003867 GCTAACTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.12, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAACAATGACAAATAA
Found at i:52004076 original size:27 final size:27
Alignment explanation
Indices: 52004045--52004108 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
52004035 TTGACTGGAG
* **
52004045 ATCCCTAGTTCACAGCTCAACTGGTGA
1 ATCCCTAGTTCACAACTCAACTGACGA
*
52004072 ATCCCTAGTTCACAACTCGACTGACGA
1 ATCCCTAGTTCACAACTCAACTGACGA
52004099 A-CCCTAGTTC
1 ATCCCTAGTTC
52004109 GCCAAACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (27 bp):
ATCCCTAGTTCACAACTCAACTGACGA
Found at i:52007872 original size:59 final size:61
Alignment explanation
Indices: 52007801--52007917 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
52007791 ATCACTTTAA
* * ** * *
52007801 TATTAAATTAATATAATATTTA-T-CAAGATAATTATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
*
52007860 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAACATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAACATTAA
52007918 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
Found at i:52007943 original size:20 final size:18
Alignment explanation
Indices: 52007893--52007944 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
52007883 CTACAAGATA
52007893 AACATTAAATTAA-ATTT
1 AACATTAAATTAATATTT
52007910 AACATTAAGA-TAATCACTTT
1 AACATTAA-ATTAAT-A-TTT
*
52007930 AATATTAAATTAATA
1 AACATTAAATTAATA
52007945 AAATACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (18 bp):
AACATTAAATTAATATTT
Found at i:52009639 original size:15 final size:15
Alignment explanation
Indices: 52009615--52009646 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52009605 TATGCATGCA
*
52009615 AAATATAAAAGACAT
1 AAATACAAAAGACAT
52009630 AAATACAAAAGACAT
1 AAATACAAAAGACAT
52009645 AA
1 AA
52009647 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:52011582 original size:16 final size:17
Alignment explanation
Indices: 52011550--52011582 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52011540 CAAAATCTAT
*
52011550 AAAACAATGACAGATAA
1 AAAACAATGACAAATAA
52011567 AAAACAAT-ACAAATAA
1 AAAACAATGACAAATAA
52011583 GCTAACTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.12, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAACAATGACAAATAA
Found at i:52015451 original size:15 final size:15
Alignment explanation
Indices: 52015427--52015458 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52015417 TATGCATGCA
*
52015427 AAATATAAAAGACAT
1 AAATACAAAAGACAT
52015442 AAATACAAAAGACAT
1 AAATACAAAAGACAT
52015457 AA
1 AA
52015459 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:52017101 original size:16 final size:17
Alignment explanation
Indices: 52017069--52017101 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52017059 CAAAATCTAT
*
52017069 AAAACAATGACAGATAA
1 AAAACAATGACAAATAA
52017086 AAAACAAT-ACAAATAA
1 AAAACAATGACAAATAA
52017102 GCTAACTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.12, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAACAATGACAAATAA
Found at i:52017534 original size:41 final size:41
Alignment explanation
Indices: 52017480--52017595 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 41
52017470 AAATATGATA
* *
52017480 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCAGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
52017521 CACTAGCATAAAGCCTGCTAGGCATAAAGCCTGTTATAATT
1 CACCAGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
52017562 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGA
1 CACCAGCATAAAGCCTGCTAGGCATAAAGCCTGA
52017596 ATATCACTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
CACCAGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:52018530 original size:88 final size:89
Alignment explanation
Indices: 52018381--52018558 Score: 349
Period size: 88 Copynumber: 2.0 Consensus size: 89
52018371 GCTAGAACTC
52018381 ACTTTGAATCAAGCTCAACAATGGTCGAATACCCTAGCCTTGTTTCTTTGTTTTCTTTTATTTTG
1 ACTTTGAATCAAGCTCAACAATGGTCGAATACCCTAGCCTTGTTTCTTTGTTTTCTTTTATTTTG
52018446 TTTCGTAATGAAGA-GAAGTGAAA
66 TTTCGTAATGAAGATGAAGTGAAA
52018469 ACTTTGAATCAAGCTCAACAATGGTCGAATACCCTAGCCTTGTTTCTTTGTTTTCTTTTATTTTG
1 ACTTTGAATCAAGCTCAACAATGGTCGAATACCCTAGCCTTGTTTCTTTGTTTTCTTTTATTTTG
52018534 TTTCGTAATGAAGATGAAGTGAAA
66 TTTCGTAATGAAGATGAAGTGAAA
52018558 A
1 A
52018559 TAATGATAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 79 0.89
89 10 0.11
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (89 bp):
ACTTTGAATCAAGCTCAACAATGGTCGAATACCCTAGCCTTGTTTCTTTGTTTTCTTTTATTTTG
TTTCGTAATGAAGATGAAGTGAAA
Found at i:52018613 original size:28 final size:26
Alignment explanation
Indices: 52018582--52018633 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
52018572 TTTTTAATGT
52018582 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT--TAATATATTATACC
*
52018610 TTATTATAACATTTATATATTATA
1 TTATTATAACATTAATATATTATA
52018634 TTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATAACATTAATATATTATACC
Found at i:52030110 original size:42 final size:42
Alignment explanation
Indices: 52030063--52030156 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
52030053 CCATGTTGCT
** *
52030063 TGGCCATGTGTCATGCACGGCTGAGACACACGCCTATGTCTC
1 TGGCCATGTGTCACACACGGCTGAGACACACGCCCATGTCTC
*
52030105 TGGCCATGTGTCACACACGGCTGAGACACACGCCCATGTTTC
1 TGGCCATGTGTCACACACGGCTGAGACACACGCCCATGTCTC
*
52030147 TGGCCGTGTG
1 TGGCCATGTG
52030157 GACAAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.23
Consensus pattern (42 bp):
TGGCCATGTGTCACACACGGCTGAGACACACGCCCATGTCTC
Found at i:52037790 original size:56 final size:50
Alignment explanation
Indices: 52037708--52037879 Score: 164
Period size: 50 Copynumber: 3.3 Consensus size: 50
52037698 GGGAATGAGA
* * **
52037708 TCCCATGTAAGACCATGTCTATGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCA---A-G--ATGAGAGG
*
52037764 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
1 TCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCAAGATGAGAGG
* * * * * **
52037814 TCCCCCATAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCAAGATGAGAGG
* *
52037864 TCTCATGTAAGACCAT
1 TCCCACGTAAGACCAT
52037880 ATCTGGGCTA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 62 0.63
52 1 0.01
53 1 0.01
56 35 0.35
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCAAGATGAGAGG
Found at i:52038186 original size:16 final size:16
Alignment explanation
Indices: 52038164--52038202 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52038154 GTAAGCAAGT
*
52038164 AAGTAAACAAATAAGA
1 AAGTAAACAAAGAAGA
* *
52038180 GAGTAAATAAAGAAGA
1 AAGTAAACAAAGAAGA
52038196 AAGTAAA
1 AAGTAAA
52038203 GATCATAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.13
Consensus pattern (16 bp):
AAGTAAACAAAGAAGA
Found at i:52040081 original size:16 final size:15
Alignment explanation
Indices: 52040052--52040087 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
52040042 ATTAGAATCT
52040052 TTACTACTTCTTTAC
1 TTACTACTTCTTTAC
*
52040067 TTACTCACTTGTTTAC
1 TTACT-ACTTCTTTAC
52040083 TTACT
1 TTACT
52040088 TGCTACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.19, C:0.25, G:0.03, T:0.53
Consensus pattern (15 bp):
TTACTACTTCTTTAC
Found at i:52040235 original size:50 final size:48
Alignment explanation
Indices: 52040103--52040263 Score: 164
Period size: 50 Copynumber: 3.2 Consensus size: 48
52040093 CTTAAATAAG
* * * * *
52040103 TCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGG
1 TCTTAGATGGGAG-TCTCATCTCGGTGCCAACGCCATGT-CCAGACATGA
* *
52040153 TCTTACG--GGGACCTCTAATCTCGGTGCCAACGCCATGTCACAGACATGA
1 TCTTA-GATGGGA-GTCTCATCTCGGTGCCAACGCCATGTC-CAGACATGA
*
52040202 TTTTAGATGGGATGTCTCATCTCGGTGCCAACGCCATGTCCAAGACATGA
1 TCTTAGATGGGA-GTCTCATCTCGGTGCCAACGCCATGTCC-AGACATGA
*
52040252 TCTTACATGGGA
1 TCTTAGATGGGA
52040264 CCTCATCCTC
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
48 2 0.02
49 38 0.41
50 52 0.57
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (48 bp):
TCTTAGATGGGAGTCTCATCTCGGTGCCAACGCCATGTCCAGACATGA
Found at i:52047312 original size:27 final size:27
Alignment explanation
Indices: 52047266--52047318 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
52047256 TGTTTCAAGC
52047266 TTTTTTTAATTTTTAATTAATAAACATA
1 TTTTTTTAATTTTT-ATTAATAAACATA
*
52047294 TTTTTTTCAATTTTT-TTAATTAACA
1 TTTTTTT-AATTTTTATTAATAAACA
52047319 ACTCTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 9 0.39
28 7 0.30
29 7 0.30
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTTTAATTTTTATTAATAAACATA
Found at i:52051508 original size:6 final size:6
Alignment explanation
Indices: 52051485--52051527 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
52051475 ATTTAGAATG
* * * *
52051485 TAAAAA TTAAAC TAAAAA TAAAAA TTATAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
52051528 GGCTAAATTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAA
Found at i:52051508 original size:18 final size:18
Alignment explanation
Indices: 52051485--52051527 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
52051475 ATTTAGAATG
52051485 TAAAAATTA-AACTAAAAA
1 TAAAAATTATAA-TAAAAA
52051503 TAAAAATTATAATAAAAA
1 TAAAAATTATAATAAAAA
52051521 TAAAAAT
1 TAAAAAT
52051528 GGCTAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAATTATAATAAAAA
Found at i:52056975 original size:17 final size:18
Alignment explanation
Indices: 52056951--52057002 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
52056941 CGTGTGGCTT
52056951 AGCCGTGTCTCACACACG
1 AGCCGTGTCTCACACACG
*
52056969 A-CCGTGTCTCGCACAC-
1 AGCCGTGTCTCACACACG
**
52056985 AGTGGTGTCTCACACACG
1 AGCCGTGTCTCACACACG
52057003 GCCTCTTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.04
17 26 0.93
18 1 0.04
ACGTcount: A:0.21, C:0.37, G:0.23, T:0.19
Consensus pattern (18 bp):
AGCCGTGTCTCACACACG
Found at i:52060183 original size:6 final size:6
Alignment explanation
Indices: 52060160--52060202 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
52060150 AATTAGACTG
* * * *
52060160 TAAAAA TTAAAC TAAAAA TAAAAA TTATAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
52060203 GGCTAAATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAA
Found at i:52060183 original size:18 final size:18
Alignment explanation
Indices: 52060160--52060202 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
52060150 AATTAGACTG
52060160 TAAAAATTA-AACTAAAAA
1 TAAAAATTATAA-TAAAAA
52060178 TAAAAATTATAATAAAAA
1 TAAAAATTATAATAAAAA
52060196 TAAAAAT
1 TAAAAAT
52060203 GGCTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAATTATAATAAAAA
Found at i:52063126 original size:78 final size:79
Alignment explanation
Indices: 52063030--52063175 Score: 186
Period size: 80 Copynumber: 1.8 Consensus size: 79
52063020 TAGCTAAGTG
* * * * *
52063030 AAAACGTGTCCTACAGGGCGCGTTTTC-TGATGTCGTAGTGAAAAAGTGCCCTGTAGGACGCGTT
1 AAAACGTGTCCTACAGGGCACGTTTTCATAATGTCGCAATGAAAAAGTGCCATGTAGGACGCGTT
52063094 TTCAAGATAGAATA
66 TTCAAGATAGAATA
* * * * *
52063108 AAAATGTGTCCTATAGGGCATGTTTTCATTAATGTGGCAATGAAAACGTGCCATGTAGGACGCGT
1 AAAACGTGTCCTACAGGGCACGTTTTCA-TAATGTCGCAATGAAAAAGTGCCATGTAGGACGCGT
52063173 TTT
65 TTT
52063176 TCTTTATCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 23 0.41
80 33 0.59
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (79 bp):
AAAACGTGTCCTACAGGGCACGTTTTCATAATGTCGCAATGAAAAAGTGCCATGTAGGACGCGTT
TTCAAGATAGAATA
Found at i:52063260 original size:2 final size:2
Alignment explanation
Indices: 52063255--52063283 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52063245 TTTATTGGGC
52063255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52063284 AATTAACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52065271 original size:22 final size:21
Alignment explanation
Indices: 52065201--52065428 Score: 106
Period size: 22 Copynumber: 10.5 Consensus size: 21
52065191 AATTTTAATA
* * **
52065201 TTTTTGTCCCTGTAGTTCGTT
1 TTTTTGTCCTTGTAATTCAAT
* * *
52065222 TTTTTCCTCCCTGTAAGTCAAAT
1 TTTTT-GTCCTTGTAATTC-AAT
*
52065245 TTTTTCTCCTTGTAATTCAACT
1 TTTTTGTCCTTGTAATTCAA-T
* *
52065267 TTTTTGGCCTTTGTAAATTGAAT
1 TTTTTGTCC-TTGT-AATTCAAT
* * *
52065290 TTTTTGTCCCTATAATTAAAAT
1 TTTTTGTCCTTGTAATT-CAAT
* * *
52065312 TTTTTAGTTCATGTAGTT--A-
1 TTTTT-GTCCTTGTAATTCAAT
** *
52065331 TTTTT-TCCCCGTAAGTCGAAT
1 TTTTTGTCCTTGTAATTC-AAT
**
52065352 TTTTTCCCCTT-TAATTCAACAT
1 TTTTTGTCCTTGTAATTC-A-AT
52065374 TTTTTGTCCTTGTAATTCAACT
1 TTTTTGTCCTTGTAATTCAA-T
* *
52065396 TTTTTGTCCCTGTAATTTAAT
1 TTTTTGTCCTTGTAATTCAAT
52065417 TTGTTTGTCCTT
1 TT-TTTGTCCTT
52065429 ATAAATCCTC
Statistics
Matches: 158, Mismatches: 33, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
17 6 0.04
19 5 0.03
20 2 0.01
21 26 0.16
22 80 0.51
23 33 0.21
24 6 0.04
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.53
Consensus pattern (21 bp):
TTTTTGTCCTTGTAATTCAAT
Found at i:52069784 original size:23 final size:22
Alignment explanation
Indices: 52069752--52069934 Score: 159
Period size: 23 Copynumber: 8.1 Consensus size: 22
52069742 TATGTTGAAA
* *
52069752 GGTATATTGGTTGTCTTTGGAG
1 GGTAAATTGGTTGTGTTTGGAG
* * *
52069774 GGTACACTTGGTTGTGTTCGAAG
1 GGTA-AATTGGTTGTGTTTGGAG
*
52069797 GGCAAATTGGTTGTGTTTGGAG
1 GGTAAATTGGTTGTGTTTGGAG
* * *
52069819 GCTATGATTGGTTGTGTTTGGAA
1 GGTA-AATTGGTTGTGTTTGGAG
*
52069842 GGTAAATTGGTTGTGTTTAGAG
1 GGTAAATTGGTTGTGTTTGGAG
** * *
52069864 ACTATAATTGATTGCGTTTGGAG
1 GGTA-AATTGGTTGTGTTTGGAG
* *
52069887 GCTAAATTGGTTGTGGTTGGAG
1 GGTAAATTGGTTGTGTTTGGAG
* * *
52069909 GCTATGATTGGTTGTGTTTGGTG
1 GGTA-AATTGGTTGTGTTTGGAG
52069932 GGT
1 GGT
52069935 GATAATTTTA
Statistics
Matches: 127, Mismatches: 30, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
22 57 0.45
23 70 0.55
ACGTcount: A:0.17, C:0.05, G:0.37, T:0.40
Consensus pattern (22 bp):
GGTAAATTGGTTGTGTTTGGAG
Found at i:52069809 original size:22 final size:21
Alignment explanation
Indices: 52069781--52069858 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
52069771 GAGGGTACAC
52069781 TTGGTTGTGTTCGAAGGGCAAA
1 TTGGTTGTGTTCGAA-GGCAAA
* * *
52069803 TTGGTTGTGTTTGGAGGCTATGA
1 TTGGTTGTGTTCGAAGGC-A-AA
* *
52069826 TTGGTTGTGTTTGGAAGGTAAA
1 TTGGTTGTG-TTCGAAGGCAAA
52069848 TTGGTTGTGTT
1 TTGGTTGTGTT
52069859 TAGAGACTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
21 5 0.11
22 24 0.52
23 11 0.24
24 6 0.13
ACGTcount: A:0.17, C:0.04, G:0.37, T:0.42
Consensus pattern (21 bp):
TTGGTTGTGTTCGAAGGCAAA
Found at i:52069928 original size:45 final size:45
Alignment explanation
Indices: 52069757--52069929 Score: 199
Period size: 45 Copynumber: 3.8 Consensus size: 45
52069747 TGAAAGGTAT
* * * * *
52069757 ATTGGTTGTCTTTGGAGGGTA-CACTTGGTTGTGTTCGAAGGGC-AA
1 ATTGGTTGTGTTTGGAGGCTATGA-TTGGTTGTGTTTGGA-GGCTAA
52069802 ATTGGTTGTGTTTGGAGGCTATGATTGGTTGTGTTTGGAAGG-TAA
1 ATTGGTTGTGTTTGGAGGCTATGATTGGTTGTGTTTGG-AGGCTAA
* * * * *
52069847 ATTGGTTGTGTTTAGAGACTATAATTGATTGCGTTTGGAGGCTAA
1 ATTGGTTGTGTTTGGAGGCTATGATTGGTTGTGTTTGGAGGCTAA
*
52069892 ATTGGTTGTGGTTGGAGGCTATGATTGGTTGTGTTTGG
1 ATTGGTTGTGTTTGGAGGCTATGATTGGTTGTGTTTGG
52069930 TGGGTGATAA
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
44 3 0.03
45 103 0.95
46 2 0.02
ACGTcount: A:0.18, C:0.06, G:0.36, T:0.40
Consensus pattern (45 bp):
ATTGGTTGTGTTTGGAGGCTATGATTGGTTGTGTTTGGAGGCTAA
Found at i:52071819 original size:12 final size:12
Alignment explanation
Indices: 52071802--52071826 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52071792 ACTTGATTAC
52071802 TTATTTATAAAT
1 TTATTTATAAAT
52071814 TTATTTATAAAT
1 TTATTTATAAAT
52071826 T
1 T
52071827 AATTATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTTATAAAT
Found at i:52075245 original size:16 final size:16
Alignment explanation
Indices: 52075224--52075258 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
52075214 GTTCATAACT
52075224 TGTGTGCAAACTGTTA
1 TGTGTGCAAACTGTTA
52075240 TGTGTGCAAACTGTTA
1 TGTGTGCAAACTGTTA
52075256 TGT
1 TGT
52075259 TTTCCAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (16 bp):
TGTGTGCAAACTGTTA
Found at i:52075438 original size:14 final size:12
Alignment explanation
Indices: 52075392--52075439 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 12
52075382 TATGCAAGCT
52075392 TATGTTTTAAAG
1 TATGTTTTAAAG
52075404 TATGTTTTAAAAG
1 TATGTTTT-AAAG
*
52075417 TACAGTTTTATAAG
1 TA-TGTTTTA-AAG
52075431 CTATGTTTT
1 -TATGTTTT
52075440 TTCGAGCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 8 0.27
13 7 0.23
14 13 0.43
15 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (12 bp):
TATGTTTTAAAG
Found at i:52079009 original size:58 final size:58
Alignment explanation
Indices: 52078919--52079040 Score: 208
Period size: 58 Copynumber: 2.1 Consensus size: 58
52078909 TTTGCAAGCA
* *
52078919 ATGATTCTCGTTATCCAAATCGGGAGATTTACTACTCTACGTTTCAATCAACATTGGT
1 ATGATTCTCGTTATCCAAATAGAGAGATTTACTACTCTACGTTTCAATCAACATTGGT
* *
52078977 ATGATTCTCGTTATCCCAATAGAGAGATTTACTACTCTGCGTTTCAATCAACATTGGT
1 ATGATTCTCGTTATCCAAATAGAGAGATTTACTACTCTACGTTTCAATCAACATTGGT
52079035 ATGATT
1 ATGATT
52079041 ATTTCTTTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (58 bp):
ATGATTCTCGTTATCCAAATAGAGAGATTTACTACTCTACGTTTCAATCAACATTGGT
Found at i:52080160 original size:79 final size:79
Alignment explanation
Indices: 52080026--52080182 Score: 269
Period size: 79 Copynumber: 2.0 Consensus size: 79
52080016 GAGCTGCAAG
52080026 TAATTTAGGCTCGAGGCCTTTCAATACACTTCCTCAGAACAATATAACCCCACCCCAATGCAATG
1 TAATTTAGGCTCGAGGCCTTTCAATACACTTCCTCAGAACAATATAACCCCACCCCAATGCAATG
*
52080091 TAATATACATATAA
66 CAATATACATATAA
* * * *
52080105 TAATTTAGGCTCGAGGCCTTTTAGTACACTTCCTCTGAACAATATAACCCTACCCCAATGCAATG
1 TAATTTAGGCTCGAGGCCTTTCAATACACTTCCTCAGAACAATATAACCCCACCCCAATGCAATG
52080170 CAATATACATATA
66 CAATATACATATA
52080183 TGACATGCTA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (79 bp):
TAATTTAGGCTCGAGGCCTTTCAATACACTTCCTCAGAACAATATAACCCCACCCCAATGCAATG
CAATATACATATAA
Found at i:52082740 original size:22 final size:22
Alignment explanation
Indices: 52082715--52082759 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
52082705 AGGTTCATTT
*
52082715 ATTTCAAAACTTATTTT-TTAAA
1 ATTTCAAAA-ATATTTTGTTAAA
*
52082737 ATTTTAAAAATATTTTGTTAAA
1 ATTTCAAAAATATTTTGTTAAA
52082759 A
1 A
52082760 ATTATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTCAAAAATATTTTGTTAAA
Found at i:52082760 original size:23 final size:21
Alignment explanation
Indices: 52082726--52082767 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
52082716 TTTCAAAACT
*
52082726 TATTTTTTAAAATTTTAAAAA
1 TATTTTTTAAAATTATAAAAA
52082747 TATTTTGTTAAAAATTATAAA
1 TATTTT-TT-AAAATTATAAA
52082768 TTTGTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTTTTTAAAATTATAAAAA
Found at i:52082768 original size:21 final size:21
Alignment explanation
Indices: 52082726--52082768 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
52082716 TTTCAAAACT
*
52082726 TATTTTTTAAAATTTTAAAAA
1 TATTTTTTAAAATATTAAAAA
*
52082747 TATTTTGTTAAAA-ATTATAAA
1 TATTTT-TTAAAATATTAAAAA
52082768 T
1 T
52082769 TTGTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTTTTAAAATATTAAAAA
Found at i:52083474 original size:11 final size:11
Alignment explanation
Indices: 52083460--52083512 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
52083450 AAGAAAAAAA
52083460 CTATTGTTTTG
1 CTATTGTTTTG
*
52083471 CTATTGTTTTT
1 CTATTGTTTTG
52083482 C-ATTGTTTTG
1 CTATTGTTTTG
* * *
52083492 TTGTTGTTTTC
1 CTATTGTTTTG
52083503 CTATTGTTTT
1 CTATTGTTTT
52083513 ATCATTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.08, C:0.09, G:0.15, T:0.68
Consensus pattern (11 bp):
CTATTGTTTTG
Found at i:52083488 original size:21 final size:22
Alignment explanation
Indices: 52083460--52083512 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
52083450 AAGAAAAAAA
*
52083460 CTATTGTTTTGCTATTGTTTTT
1 CTATTGTTTTGCTATTGTTTTC
* *
52083482 C-ATTGTTTTGTTGTTGTTTTC
1 CTATTGTTTTGCTATTGTTTTC
52083503 CTATTGTTTT
1 CTATTGTTTT
52083513 ATCATTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.08, C:0.09, G:0.15, T:0.68
Consensus pattern (22 bp):
CTATTGTTTTGCTATTGTTTTC
Found at i:52083501 original size:32 final size:33
Alignment explanation
Indices: 52083463--52083529 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
52083453 AAAAAAACTA
*
52083463 TTGTTTTGCTATTGTTTT-TCATTGTTTTGTTG
1 TTGTTTTCCTATTGTTTTATCATTGTTTTGTTG
52083495 TTGTTTTCCTATTGTTTTATCATTGTTTTGTTG
1 TTGTTTTCCTATTGTTTTATCATTGTTTTGTTG
52083528 TT
1 TT
52083530 ATTTCACTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.07, C:0.07, G:0.16, T:0.69
Consensus pattern (33 bp):
TTGTTTTCCTATTGTTTTATCATTGTTTTGTTG
Found at i:52083519 original size:11 final size:10
Alignment explanation
Indices: 52083462--52083523 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 10
52083452 GAAAAAAACT
*
52083462 ATTGTTTTGC
1 ATTGTTTTTC
52083472 TATTGTTTTTC
1 -ATTGTTTTTC
*
52083483 ATTGTTTTGTT
1 ATTGTTTT-TC
* *
52083494 GTTGTTTTCC
1 ATTGTTTTTC
52083504 TATTGTTTTATC
1 -ATTGTTTT-TC
52083516 ATTGTTTT
1 ATTGTTTT
52083524 GTTGTTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 8 0.20
11 32 0.78
12 1 0.02
ACGTcount: A:0.10, C:0.08, G:0.15, T:0.68
Consensus pattern (10 bp):
ATTGTTTTTC
Found at i:52083540 original size:33 final size:32
Alignment explanation
Indices: 52083471--52083540 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 32
52083461 TATTGTTTTG
*
52083471 CTATTGTTTTTCATTGTTTTGTTGTTGTTTTC
1 CTATTGTTTTTCATTGTTTTGTTGTTGATTTC
52083503 CTATTGTTTTATCATTGTTTTGTTGTT-ATTTC
1 CTATTGTTTT-TCATTGTTTTGTTGTTGATTTC
52083535 ACTATT
1 -CTATT
52083541 ATGTTGCTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
32 14 0.40
33 21 0.60
ACGTcount: A:0.11, C:0.10, G:0.13, T:0.66
Consensus pattern (32 bp):
CTATTGTTTTTCATTGTTTTGTTGTTGATTTC
Found at i:52084539 original size:7 final size:7
Alignment explanation
Indices: 52084529--52084561 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
52084519 AAAATATTTC
52084529 TTTTAAT
1 TTTTAAT
52084536 TTTTAAT
1 TTTTAAT
52084543 TTTTAAT
1 TTTTAAT
52084550 TTTTAAT
1 TTTTAAT
52084557 TTTTA
1 TTTTA
52084562 TAATGTGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:52085842 original size:6 final size:6
Alignment explanation
Indices: 52085831--52085871 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
52085821 CAATTTATAT
*
52085831 ATATTA ATATTA ATATTA ATATTT ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
52085872 TTTATTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATATTA
Found at i:52085858 original size:18 final size:18
Alignment explanation
Indices: 52085831--52085877 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
52085821 CAATTTATAT
*
52085831 ATATTAATATTAATATTA
1 ATATTTATATTAATATTA
52085849 ATATTTATATTAATATTA
1 ATATTTATATTAATATTA
*
52085867 ATATTTTTATT
1 ATATTTATATT
52085878 TTTGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTATATTAATATTA
Found at i:52086024 original size:20 final size:22
Alignment explanation
Indices: 52085978--52086024 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52085968 TCAATTATCG
*
52085978 GTTCAACCAATTTTTTAGCTCA
1 GTTCAACCAATTTTCTAGCTCA
*
52086000 ATTCAACCAATTTTCT-GC-CA
1 GTTCAACCAATTTTCTAGCTCA
52086020 GTTCA
1 GTTCA
52086025 CAAGTCAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 6 0.27
21 2 0.09
22 14 0.64
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (22 bp):
GTTCAACCAATTTTCTAGCTCA
Found at i:52087439 original size:9 final size:8
Alignment explanation
Indices: 52087390--52087441 Score: 59
Period size: 8 Copynumber: 6.0 Consensus size: 8
52087380 AAACAACATC
52087390 TAAAATTT
1 TAAAATTT
52087398 TAAAATTT
1 TAAAATTT
52087406 TAAAATTT
1 TAAAATTT
*
52087414 TAAAAATGTA
1 T-AAAAT-TT
52087424 TATAAATTT
1 TA-AAATTT
52087433 ATAAAATTT
1 -TAAAATTT
52087442 CACAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 17 0.45
9 13 0.34
10 8 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
TAAAATTT
Found at i:52091202 original size:9 final size:9
Alignment explanation
Indices: 52091190--52091220 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
52091180 ATTAAACGAA
52091190 TCGAGTTAT
1 TCGAGTTAT
*
52091199 TCGAGTTAA
1 TCGAGTTAT
52091208 TCGAGTTAT
1 TCGAGTTAT
52091217 TCGA
1 TCGA
52091221 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:52091291 original size:9 final size:9
Alignment explanation
Indices: 52091274--52091319 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
52091264 TGAGTTTTCG
52091274 AATTCGAAT
1 AATTCGAAT
*
52091283 AACTCGAAT
1 AATTCGAAT
52091292 AATTCGAAT
1 AATTCGAAT
52091301 AATTCGAAT
1 AATTCGAAT
52091310 AATTCGAAT
1 AATTCGAAT
52091319 A
1 A
52091320 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:52107146 original size:56 final size:56
Alignment explanation
Indices: 52107058--52107170 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
52107048 TAACATTGTG
52107058 GACACTAACTGACAATTGAACTGGAACATGAAACAATTGTCATATTGTGAAATGCA
1 GACACTAACTGACAATTGAACTGGAACATGAAACAATTGTCATATTGTGAAATGCA
* * * *
52107114 GACACTAATTGACAATTGAACTGGAACTTGAAACAATTGTCCTGTTGTGAAATGCA
1 GACACTAACTGACAATTGAACTGGAACATGAAACAATTGTCATATTGTGAAATGCA
52107170 G
1 G
52107171 GACCATGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (56 bp):
GACACTAACTGACAATTGAACTGGAACATGAAACAATTGTCATATTGTGAAATGCA
Found at i:52118868 original size:50 final size:50
Alignment explanation
Indices: 52118793--52118892 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
52118783 AGTGAAAGAA
52118793 AGGTTTGATTCCATCTTGAAGAATCAACTTATGATGTTGGAAAAAGGTTC
1 AGGTTTGATTCCATCTTGAAGAATCAACTTATGATGTTGGAAAAAGGTTC
52118843 AGGTTTGATTCCATCTTGAAGAATCAACTTATGATGTTGGAAAAAGGTTC
1 AGGTTTGATTCCATCTTGAAGAATCAACTTATGATGTTGGAAAAAGGTTC
52118893 CAACTTGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (50 bp):
AGGTTTGATTCCATCTTGAAGAATCAACTTATGATGTTGGAAAAAGGTTC
Found at i:52123384 original size:24 final size:24
Alignment explanation
Indices: 52123355--52123430 Score: 109
Period size: 24 Copynumber: 3.1 Consensus size: 24
52123345 CAACTTGTAT
*
52123355 GAGCTTACCAATTTTAGCTCGTGA
1 GAGCTTACCAATTTCAGCTCGTGA
52123379 GAGCTTACCAATTTCAGCTCGT-A
1 GAGCTTACCAATTTCAGCTCGTGA
*
52123402 TGAGCTTACCGATTTACAGCTCGTGA
1 -GAGCTTACCAATTT-CAGCTCGTGA
52123428 GAG
1 GAG
52123431 TATATTGATT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.02
24 34 0.72
25 11 0.23
26 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
GAGCTTACCAATTTCAGCTCGTGA
Found at i:52123472 original size:26 final size:26
Alignment explanation
Indices: 52123394--52123486 Score: 77
Period size: 25 Copynumber: 3.7 Consensus size: 26
52123384 TACCAATTTC
* * *
52123394 AGCTCGTATGAGCTTA-CCGATTTAC
1 AGCTCGTATGAGCATACCCGATTCAT
* **
52123419 AGCTCGTGA-GAGTATA-TTGATTCAT
1 AGCTCGT-ATGAGCATACCCGATTCAT
*
52123444 AGCTTGTGA-GAGCATACCCGATTCAT
1 AGCTCGT-ATGAGCATACCCGATTCAT
52123470 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
52123487 ATGTACAAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
25 32 0.59
26 22 0.41
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (26 bp):
AGCTCGTATGAGCATACCCGATTCAT
Found at i:52125710 original size:33 final size:33
Alignment explanation
Indices: 52125672--52125738 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
52125662 TTTAATAAGA
52125672 TCTATTTTATTCATGTTTAACATGTTTGTGCCT
1 TCTATTTTATTCATGTTTAACATGTTTGTGCCT
52125705 TCTATTTTATTCATGTTTAACATGTTTGTGCCT
1 TCTATTTTATTCATGTTTAACATGTTTGTGCCT
52125738 T
1 T
52125739 AGTCGATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (33 bp):
TCTATTTTATTCATGTTTAACATGTTTGTGCCT
Found at i:52140215 original size:136 final size:136
Alignment explanation
Indices: 52139966--52140226 Score: 380
Period size: 136 Copynumber: 1.9 Consensus size: 136
52139956 AAACTTCATT
** * * *
52139966 TGTTGCCATAACCCAGTTATGGTCTTACATTATATGATCCCATGTTTATTGTCCTGGAAGACTCC
1 TGTTGCCATAACCCAACTATGGTCTTACATGATATGATCCCATGGTTACTGTCCTGGAAGACTCC
* * ** *
52140031 ATATTTTGCCATAGCCCAGCTATGGTCTTACATGATATGATCCTATGTTTATTGTCTTGGCGGAC
66 ATATGTTGCCATAGCCCAACTATGGTCTTACACAATATGATCCGATGTTTATTGTCTTGGCGGAC
52140096 TCCATA
131 TCCATA
* * *
52140102 TGTTGTCATAACCCAACTATGGTCTTACATGATATGATCTCATGGTTACTGTCCTGG-TGAACTC
1 TGTTGCCATAACCCAACTATGGTCTTACATGATATGATCCCATGGTTACTGTCCTGGAAG-ACTC
*
52140166 CATATGTTGCCATAGCCCAACTATGGTCTTACACAATATGATCCGATGTTTCTTGTCTTGG
65 CATATGTTGCCATAGCCCAACTATGGTCTTACACAATATGATCCGATGTTTATTGTCTTGG
52140227 TGGATTTCTA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
135 1 0.01
136 109 0.99
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (136 bp):
TGTTGCCATAACCCAACTATGGTCTTACATGATATGATCCCATGGTTACTGTCCTGGAAGACTCC
ATATGTTGCCATAGCCCAACTATGGTCTTACACAATATGATCCGATGTTTATTGTCTTGGCGGAC
TCCATA
Found at i:52140228 original size:68 final size:67
Alignment explanation
Indices: 52139957--52140228 Score: 312
Period size: 68 Copynumber: 4.0 Consensus size: 67
52139947 CATTCTAGCA
* * ** *
52139957 AACTTCATTTGTTGCCATAACCCAGTTATGGTCTTACATTATATGATCCCATGTTTATTGTCCTG
1 AACTCCATATGTTGCCATAACCCAACTATGGTCTTACATGATATGAT-CCATGTTTATTGTCCTG
*
52140022 G-A
65 GTG
* * * *
52140024 AGACTCCATATTTTGCCATAGCCCAGCTATGGTCTTACATGATATGATCCTATGTTTATTGTCTT
1 A-ACTCCATATGTTGCCATAACCCAACTATGGTCTTACATGATATGATCC-ATGTTTATTGTCCT
*
52140089 GGCG
64 GGTG
* * * *
52140093 GACTCCATATGTTGTCATAACCCAACTATGGTCTTACATGATATGATCTCATGGTTACTGTCCTG
1 AACTCCATATGTTGCCATAACCCAACTATGGTCTTACATGATATGATC-CATGTTTATTGTCCTG
52140158 GTG
65 GTG
* ** * *
52140161 AACTCCATATGTTGCCATAGCCCAACTATGGTCTTACACAATATGATCCGATGTTTCTTGTCTTG
1 AACTCCATATGTTGCCATAACCCAACTATGGTCTTACATGATATGATCC-ATGTTTATTGTCCTG
52140226 GTG
65 GTG
52140229 GATTTCTAAT
Statistics
Matches: 174, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
67 4 0.02
68 169 0.97
69 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (67 bp):
AACTCCATATGTTGCCATAACCCAACTATGGTCTTACATGATATGATCCATGTTTATTGTCCTGG
TG
Found at i:52142405 original size:43 final size:43
Alignment explanation
Indices: 52142354--52142576 Score: 286
Period size: 43 Copynumber: 5.2 Consensus size: 43
52142344 CGGAAAAAAT
* *
52142354 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAAC
* * * * *
52142397 GCCACTAAAAACCATGACCTTTAGCGGCGCTTTTCCCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAAC
* * *
52142440 GCTGCTAAAGACCAAGACCTTTAGCGACGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAAC
* * *
52142483 GCCGCTATAGACCATGACCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAAC
* * * *
52142526 GCCGCTAAAGAACAA-ACCTTTAGCGGCGCTTCTAGCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAAC
52142568 GCCGCTAAA
1 GCCGCTAAA
52142577 AACATAATCT
Statistics
Matches: 157, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
42 33 0.21
43 124 0.79
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAAC
Found at i:52143511 original size:23 final size:22
Alignment explanation
Indices: 52143485--52143529 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
52143475 GCAAACTCAA
52143485 ATATCAGAAAC-CAAAAATAAAGC
1 ATATC-GAAACTC-AAAATAAAGC
*
52143508 ATATCTAAACTCAAAATAAAGC
1 ATATCGAAACTCAAAATAAAGC
52143530 TCAATATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.18
Consensus pattern (22 bp):
ATATCGAAACTCAAAATAAAGC
Found at i:52147550 original size:6 final size:6
Alignment explanation
Indices: 52147541--52147589 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
52147531 CTAAATCCTA
* * *
52147541 AACCCT AACCCT AACCCT AACCCG ACCCCG AATCCCT AACCCCT AACCC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA-CCCT AA-CCCT AACCC
52147590 CTAAACATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.31, C:0.53, G:0.04, T:0.12
Consensus pattern (6 bp):
AACCCT
Found at i:52147703 original size:14 final size:14
Alignment explanation
Indices: 52147668--52147714 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
52147658 CGAATCCATA
* *
52147668 AACCCTAAATCCCT
1 AACCCTTAACCCCT
* *
52147682 AACTCTTAACCTCT
1 AACCCTTAACCCCT
52147696 AACCCTTAACCCCT
1 AACCCTTAACCCCT
52147710 AACCC
1 AACCC
52147715 ATAAACCTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:52147762 original size:14 final size:15
Alignment explanation
Indices: 52147745--52147777 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
52147735 CTTAAATCAG
52147745 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
52147759 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
52147774 AATC
1 AATC
52147778 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:52148159 original size:41 final size:41
Alignment explanation
Indices: 52148110--52148336 Score: 312
Period size: 41 Copynumber: 5.5 Consensus size: 41
52148100 TTGCGGTGCT
* ** * * *
52148110 TTTTCAAAAACGCCACTAAAGCCCCGAGCATTAGCGGTGCC
1 TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCA
*
52148151 TTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC-
1 TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCA
* *
52148191 TTTTCCAAAAACGCCGCTAAAGATCTGAGTATTAGTGGCGCA
1 TTTT-CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCA
*
52148233 TTTTCAAAAACGCCGTTAAAGATCTGAGCATTAGCGGCGCA
1 TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCA
* *
52148274 TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGACGCTT
1 TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC-A
*
52148316 TTTTTAAAAACGCCGCTAAAG
1 TTTTCAAAAACGCCGCTAAAG
52148337 CCCCAAAAGG
Statistics
Matches: 167, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
40 3 0.02
41 140 0.84
42 24 0.14
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (41 bp):
TTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCA
Found at i:52148417 original size:40 final size:40
Alignment explanation
Indices: 52148373--52148459 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 40
52148363 TGGGCTTAGG
* * *
52148373 TTTTTTGCGACGTTTTTCCGAAAAACACCGCTAATGCTC-A
1 TTTTTAGCGACG-CTTTCAGAAAAACACCGCTAATGCTCGA
* * * *
52148413 TTTTTAGCGGCGCTTTCATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGACGCTTTCAGAAAAACACCGCTAATGCTCGA
52148453 TTTTTAG
1 TTTTTAG
52148460 AGGCGTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 21 0.54
40 18 0.46
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGACGCTTTCAGAAAAACACCGCTAATGCTCGA
Found at i:52148492 original size:12 final size:12
Alignment explanation
Indices: 52148475--52148500 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52148465 TTTTTTGTCC
52148475 AAACGCCGCTAA
1 AAACGCCGCTAA
52148487 AAACGCCGCTAA
1 AAACGCCGCTAA
52148499 AA
1 AA
52148501 GCCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:52148945 original size:35 final size:36
Alignment explanation
Indices: 52148897--52148978 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 36
52148887 CACATTACAA
* *
52148897 TTACTATCACATGGCATGAATAACATACCCACATAT
1 TTACTATCACATGGAACGAATAACATACCCACATAT
*
52148933 TTACTGTC-CATGGAACGAATAACATACCCACATAT
1 TTACTATCACATGGAACGAATAACATACCCACATAT
* *
52148968 TTTCTTTCACA
1 TTACTATCACA
52148979 ACAATCATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 31 0.77
36 9 0.22
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (36 bp):
TTACTATCACATGGAACGAATAACATACCCACATAT
Found at i:52154846 original size:36 final size:36
Alignment explanation
Indices: 52154764--52154836 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
52154754 CACATTATAA
* * *
52154764 TTACTGTCACATGGCATGAATAACATACTCACATAT
1 TTACTGTCACATGGCATGAACAACAAACCCACATAT
**
52154800 TTACTGTCACATGGCATGAACAGTAAACCCACATAT
1 TTACTGTCACATGGCATGAACAACAAACCCACATAT
52154836 T
1 T
52154837 CTCTTTCACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (36 bp):
TTACTGTCACATGGCATGAACAACAAACCCACATAT
Found at i:52158341 original size:34 final size:34
Alignment explanation
Indices: 52158303--52158412 Score: 157
Period size: 34 Copynumber: 3.2 Consensus size: 34
52158293 CAATATGGCT
*
52158303 TGCTTATAAAAGATCAATATGGTAGCAATTAATA
1 TGCTTATAACAGATCAATATGGTAGCAATTAATA
* * *
52158337 TGCTTATAACAGATCAATATGATAACAAATAATA
1 TGCTTATAACAGATCAATATGGTAGCAATTAATA
* * *
52158371 TGCTTATAACCGATCAATACGGTAGTAATTAATA
1 TGCTTATAACAGATCAATATGGTAGCAATTAATA
52158405 TGCTTATA
1 TGCTTATA
52158413 GCGAATTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (34 bp):
TGCTTATAACAGATCAATATGGTAGCAATTAATA
Found at i:52158357 original size:19 final size:19
Alignment explanation
Indices: 52158333--52158389 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
52158323 GGTAGCAATT
52158333 AATATGCTTATAACAGATC
1 AATATGCTTATAACAGATC
*
52158352 AATATG---ATAACAAAT-
1 AATATGCTTATAACAGATC
*
52158367 AATATGCTTATAACCGATC
1 AATATGCTTATAACAGATC
52158386 AATA
1 AATA
52158390 CGGTAGTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 6 0.19
16 8 0.26
18 7 0.23
19 10 0.32
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (19 bp):
AATATGCTTATAACAGATC
Found at i:52162368 original size:14 final size:14
Alignment explanation
Indices: 52162349--52162375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52162339 CTCCTCAGTT
52162349 GGCACCCCACACAC
1 GGCACCCCACACAC
52162363 GGCACCCCACACA
1 GGCACCCCACACA
52162376 AGACCAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.56, G:0.15, T:0.00
Consensus pattern (14 bp):
GGCACCCCACACAC
Found at i:52162671 original size:19 final size:18
Alignment explanation
Indices: 52162629--52162680 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
52162619 AATTACAAAA
*
52162629 AAAAATTCAAAAAAATTTT
1 AAAAATTC-AAAATATTTT
*
52162648 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTT-T
52162667 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
52162681 TTATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.29
19 12 0.43
20 8 0.29
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATTCAAAATATTTT
Found at i:52162832 original size:17 final size:19
Alignment explanation
Indices: 52162813--52162848 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
52162803 TTATAAAAAT
52162813 AAAAAAATT-TATATTTTA
1 AAAAAAATTATATATTTTA
52162831 AAAAAAATTATATATTTT
1 AAAAAAATTATATATTTT
52162849 TATAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAAAATTATATATTTTA
Found at i:52163372 original size:27 final size:28
Alignment explanation
Indices: 52163328--52163381 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
52163318 AAAATTTTTC
*
52163328 TATAACTTTTTATTGTTTTTATAATTTG
1 TATAACTTTTTAATGTTTTTATAATTTG
52163356 TATAAC-TTTTAATGTTTTTATAATTT
1 TATAACTTTTTAATGTTTTTATAATTT
52163382 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (28 bp):
TATAACTTTTTAATGTTTTTATAATTTG
Found at i:52164009 original size:19 final size:19
Alignment explanation
Indices: 52163987--52164024 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52163977 AATTTTTTAA
*
52163987 AAATGATTTGTTTTTCTGG
1 AAATGATTTATTTTTCTGG
52164006 AAATGATTTATTTTTCTGG
1 AAATGATTTATTTTTCTGG
52164025 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (19 bp):
AAATGATTTATTTTTCTGG
Found at i:52165360 original size:32 final size:32
Alignment explanation
Indices: 52165314--52165393 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
52165304 TGTCAATCAT
*
52165314 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
* * *
52165346 TTCAATATCTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
52165378 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
52165394 CTAAATTCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 2 0.05
32 39 0.95
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:52170226 original size:45 final size:45
Alignment explanation
Indices: 52170044--52170218 Score: 183
Period size: 45 Copynumber: 3.9 Consensus size: 45
52170034 GGACACATAG
* * * *
52170044 AAAAATCCCACAAATAGAATTTGCCTCTGGCTGTGGATACACAAC
1 AAAAATCTCACAGATAGAATCTGCCTCTAGCTGTGGATACACAAC
** * * * * *
52170089 AAAAATCTTGCAGACACAATCTGCTTCTAGCTGTGAAAACACAAC
1 AAAAATCTCACAGATAGAATCTGCCTCTAGCTGTGGATACACAAC
* * *
52170134 -AAAATC-CTACAGTTAGAATCTACCTCTAGCTGTGGATGCACAAC
1 AAAAATCTC-ACAGATAGAATCTGCCTCTAGCTGTGGATACACAAC
* *
52170178 AAATATCTCACAGATAGAATCTGCCTCTAGCTATGGATACA
1 AAAAATCTCACAGATAGAATCTGCCTCTAGCTGTGGATACA
52170219 TAGCAAATTT
Statistics
Matches: 101, Mismatches: 26, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
44 33 0.33
45 67 0.66
46 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (45 bp):
AAAAATCTCACAGATAGAATCTGCCTCTAGCTGTGGATACACAAC
Found at i:52170390 original size:34 final size:34
Alignment explanation
Indices: 52170308--52170448 Score: 167
Period size: 34 Copynumber: 4.2 Consensus size: 34
52170298 ATCAATGTGA
* * **
52170308 TAGCATTTAATGTGCTTATAACAGATCAAT-TGG
1 TAGCAATTAATATGCTTATAACAGATCAATACAG
52170341 TAGCAATTAATATGCTTATAACAGATCAATACAG
1 TAGCAATTAATATGCTTATAACAGATCAATACAG
* * * *
52170375 TAGTACTTAATATGCTTATAACAGGTCAATACAA
1 TAGCAATTAATATGCTTATAACAGATCAATACAG
* * * *
52170409 TTGCAATTAATATGCTTATCATAAATCAATACAG
1 TAGCAATTAATATGCTTATAACAGATCAATACAG
52170443 TAGCAA
1 TAGCAA
52170449 AAGACATGTT
Statistics
Matches: 90, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
33 28 0.31
34 62 0.69
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (34 bp):
TAGCAATTAATATGCTTATAACAGATCAATACAG
Found at i:52174914 original size:17 final size:17
Alignment explanation
Indices: 52174892--52174951 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
52174882 TGTATTTTTA
52174892 TATTAAATTTAAAATTT
1 TATTAAATTTAAAATTT
* *
52174909 TATTAAA-GTAATATTT
1 TATTAAATTTAAAATTT
*
52174925 TAATTAAAATTTATTAATTT
1 T-ATT-AAATTTA-AAATTT
*
52174945 TACTAAA
1 TATTAAA
52174952 ATTTGAGGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 8 0.24
17 10 0.30
18 6 0.18
19 4 0.12
20 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTAAATTTAAAATTT
Found at i:52179685 original size:18 final size:19
Alignment explanation
Indices: 52179658--52179695 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
52179648 CTGCAATGTC
*
52179658 ACAAAAAAAC-AACAGAGG
1 ACAAAAAAACGAAAAGAGG
*
52179676 ACAAACAAACGAAAAGAGG
1 ACAAAAAAACGAAAAGAGG
52179695 A
1 A
52179696 GCAGAAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.66, C:0.16, G:0.18, T:0.00
Consensus pattern (19 bp):
ACAAAAAAACGAAAAGAGG
Found at i:52185342 original size:9 final size:9
Alignment explanation
Indices: 52185330--52185360 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
52185320 ATTAAACGAA
52185330 TCGAGTTAT
1 TCGAGTTAT
*
52185339 TCGAGTTAA
1 TCGAGTTAT
52185348 TCGAGTTAT
1 TCGAGTTAT
52185357 TCGA
1 TCGA
52185361 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:52186642 original size:6 final size:6
Alignment explanation
Indices: 52186626--52186705 Score: 83
Period size: 6 Copynumber: 13.3 Consensus size: 6
52186616 GCTCAGATTC
52186626 AATCAAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AA--AA
1 AATC-AA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA
** * * *
52186673 TAAGAAA AATAAA AATAAA AATCAA AGTCAA AA
1 -AATCAA AATCAA AATCAA AATCAA AATCAA AA
52186706 GAAAAAAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
6 56 0.85
7 6 0.09
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.15
Consensus pattern (6 bp):
AATCAA
Found at i:52186688 original size:35 final size:33
Alignment explanation
Indices: 52186643--52186726 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 33
52186633 AATCAAAATC
* *
52186643 AAAATCAAAATCAAAATCAAAATCAAAAAATAAGA
1 AAAATAAAAATAAAAATCAAAATCAAAAAA-AA-A
* *
52186678 AAAATAAAAATAAAAATCAAAGTCAAAAGAAAA
1 AAAATAAAAATAAAAATCAAAATCAAAAAAAAA
*
52186711 AAAATAAAAAGAAAAA
1 AAAATAAAAATAAAAA
52186727 ATGAAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 16 0.36
34 2 0.05
35 26 0.59
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (33 bp):
AAAATAAAAATAAAAATCAAAATCAAAAAAAAA
Found at i:52186688 original size:41 final size:39
Alignment explanation
Indices: 52186637--52186740 Score: 109
Period size: 41 Copynumber: 2.6 Consensus size: 39
52186627 ATCAAAAATC
* *
52186637 AAAATCAAAATCAAAATCAAAATCAAAATCAAAAAATAAGA
1 AAAATAAAAATAAAAATCAAAATCAAAA-CAAAAAA-AAGA
* * *
52186678 AAAATAAAAATAAAAATCAAAGTCAAAAGAAAAAAAATA
1 AAAATAAAAATAAAAATCAAAATCAAAACAAAAAAAAGA
* *
52186717 AAAAGAAAAAATGAAAAATAAAAA
1 AAAA-TAAAAAT-AAAAATCAAAA
52186741 GAAAAAGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 7 0.13
40 12 0.23
41 34 0.64
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (39 bp):
AAAATAAAAATAAAAATCAAAATCAAAACAAAAAAAAGA
Found at i:52186704 original size:47 final size:46
Alignment explanation
Indices: 52186630--52186740 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 46
52186620 AGATTCAATC
* * *
52186630 AAAAATCAAAATCAAAATCAAAATCAAAATCAAAATCAAAA-AATAAG-
1 AAAAATAAAAATAAAAATCAAAATCAAAA-CAAAA--AAAATAAAAAGA
* *
52186677 AAAAATAAAAATAAAAATCAAAGTCAAAAGAAAAAAAATAAAAAGA
1 AAAAATAAAAATAAAAATCAAAATCAAAACAAAAAAAATAAAAAGA
52186723 AAAAATGAAAAATAAAAA
1 AAAAAT-AAAAATAAAAA
52186741 GAAAAAGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 4 0.07
45 5 0.09
46 10 0.18
47 37 0.66
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.13
Consensus pattern (46 bp):
AAAAATAAAAATAAAAATCAAAATCAAAACAAAAAAAATAAAAAGA
Found at i:52186725 original size:20 final size:21
Alignment explanation
Indices: 52186702--52186752 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
52186692 AATCAAAGTC
52186702 AAAAGAAAAAAAATAAAAAGA
1 AAAAGAAAAAAAATAAAAAGA
**
52186723 AAAA-ATGAAAAATAAAAAGA
1 AAAAGAAAAAAAATAAAAAGA
52186743 AAAAGAAAAA
1 AAAAGAAAAA
52186753 GAAAAAGGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAGAAAAAAAATAAAAAGA
Found at i:52186745 original size:5 final size:6
Alignment explanation
Indices: 52186710--52186759 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
52186700 TCAAAAGAAA
* *
52186710 AAAAAT AAAAAG AAAAAATG AAAAAT AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG -AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
52186760 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 28 0.72
7 10 0.26
8 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:52187627 original size:7 final size:7
Alignment explanation
Indices: 52187610--52187667 Score: 66
Period size: 7 Copynumber: 8.0 Consensus size: 7
52187600 TAAGTCAGAA
52187610 AAAATATG
1 AAAA-ATG
52187618 AAAAATG
1 AAAAATG
52187625 AAAAAATG
1 -AAAAATG
52187633 -AAAATG
1 AAAAATG
52187639 AAAAATG
1 AAAAATG
52187646 AAAAAATG
1 -AAAAATG
52187654 AAAAA-G
1 AAAAATG
52187660 TAAAAATG
1 -AAAAATG
52187668 GAGAGGCTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.16
7 19 0.42
8 19 0.42
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:52187629 original size:8 final size:8
Alignment explanation
Indices: 52187609--52187658 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
52187599 TTAAGTCAGA
52187609 AAAAATATG
1 AAAAA-ATG
52187618 -AAAAATG
1 AAAAAATG
52187625 AAAAAATG
1 AAAAAATG
52187633 --AAAATG
1 AAAAAATG
52187639 -AAAAATG
1 AAAAAATG
52187646 AAAAAATG
1 AAAAAATG
52187654 AAAAA
1 AAAAA
52187659 GTAAAAATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.16
7 9 0.24
8 23 0.61
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (8 bp):
AAAAAATG
Found at i:52187640 original size:21 final size:21
Alignment explanation
Indices: 52187615--52187667 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
52187605 CAGAAAAAAT
52187615 ATGAAAAATGAAAAAATGAAA
1 ATGAAAAATGAAAAAATGAAA
52187636 ATGAAAAATGAAAAAATGAAA
1 ATGAAAAATGAAAAAATGAAA
*
52187657 AAGTAAAAATG
1 ATG-AAAAATG
52187668 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
ATGAAAAATGAAAAAATGAAA
Found at i:52188948 original size:44 final size:44
Alignment explanation
Indices: 52188885--52189218 Score: 431
Period size: 44 Copynumber: 7.6 Consensus size: 44
52188875 AAAACCTAGC
*
52188885 TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATA
1 TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
** * * ** *
52188929 TCCCTGGTCAGCAATGGAATGGGTTGAAGATTATAAGTCCTATC
1 TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
* * * *
52188973 TCCTTGACCAGCAGAGGAATAGGTAGAAGATTGCAAGTCCTATC
1 TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
* * *
52189017 TCCCTGACCAGTAGAGGAATAGGTAGAAGATTGCAAGTCCTA-A
1 TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
52189060 CTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTA-A
1 -TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
* *
52189104 CTCCCTGACCAGTAGTGGAATAGGTAGAAGATTGCAAGTCCTA-A
1 -TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
*
52189148 CTCCCTGACCAGCAGTGGAATAGGTTGAAGATTACAAGTCCTATA
1 -TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
** *
52189193 TCCCTGGTCAGCAGTGGAATATGTTG
1 TCCCTGACCAGCAGTGGAATAGGTTG
52189219 GAAAAGTACA
Statistics
Matches: 259, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
44 258 1.00
45 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
TCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA
Found at i:52189124 original size:132 final size:132
Alignment explanation
Indices: 52188879--52189218 Score: 502
Period size: 132 Copynumber: 2.6 Consensus size: 132
52188869 AATCACAAAA
* * *
52188879 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATATCCCTGGTCAGCAAT
1 CCTAACTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATATCCCTGGTCAGCAGT
* * * *
52188944 GGAATGGGTTGAAGATTATAAGTCCTATCTCCTTGACCAGCAGAGGAATAGGTAGAAGATTGCAA
66 GGAATAGGTTGAAGATTACAAGTCCTAACTCCCTGACCAGCAGAGGAATAGGTAGAAGATTGCAA
52189009 GT
131 GT
* * * * **
52189011 CCTATCTCCCTGACCAGTAGAGGAATAGGTAGAAGATTGCAAGTCCTA-ACTCCCTGACCAGCAG
1 CCTAACTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATA-TCCCTGGTCAGCAG
* * *
52189075 TGGAATAGGTTGAAGATTGCAAGTCCTAACTCCCTGACCAGTAGTGGAATAGGTAGAAGATTGCA
65 TGGAATAGGTTGAAGATTACAAGTCCTAACTCCCTGACCAGCAGAGGAATAGGTAGAAGATTGCA
52189140 AGT
130 AGT
*
52189143 CCTAACTCCCTGACCAGCAGTGGAATAGGTTGAAGATTACAAGTCCTATATCCCTGGTCAGCAGT
1 CCTAACTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATATCCCTGGTCAGCAGT
*
52189208 GGAATATGTTG
66 GGAATAGGTTG
52189219 GAAAAGTACA
Statistics
Matches: 183, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.01
132 181 0.99
133 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (132 bp):
CCTAACTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATATCCCTGGTCAGCAGT
GGAATAGGTTGAAGATTACAAGTCCTAACTCCCTGACCAGCAGAGGAATAGGTAGAAGATTGCAA
GT
Found at i:52189328 original size:129 final size:129
Alignment explanation
Indices: 52189181--52189456 Score: 444
Period size: 129 Copynumber: 2.1 Consensus size: 129
52189171 GTTGAAGATT
* *
52189181 ACAAGTCCTATATCCCTGGTCAGCAGTGGAATATGTTGGAAAAGTACAGATCTTGTCTTCCTAAG
1 ACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGAAAAGTACAGATCTTGTCTCCCTAAG
* * * * *
52189246 TAATAGCGGAGCAGATTGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
66 CAATAGCGGAGCAGATCGAAGACGATAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
* *
52189310 ACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAG
1 ACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGAAAAGTACAGATCTTGTCTCCCTAAG
52189375 CAATAGCGGAGCAGATCGAAGACGATAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
66 CAATAGCGGAGCAGATCGAAGACGATAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
* * *
52189439 GCAAATCCTATCTCCCTG
1 ACAAGTCCTATATCCCTG
52189457 AAGATGTAGT
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 135 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (129 bp):
ACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGAAAAGTACAGATCTTGTCTCCCTAAG
CAATAGCGGAGCAGATCGAAGACGATAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
Found at i:52189640 original size:172 final size:173
Alignment explanation
Indices: 52189425--52189939 Score: 619
Period size: 172 Copynumber: 3.0 Consensus size: 173
52189415 AGAGTAAGGA
* * *
52189425 AGCAGATTTAAGCCGCA-AATCCTATCTCCCTGAAGATGTAGTGGAGCGGATTAAAGTAATAGAT
1 AGCAGATTGAAGCCG-ATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGAT
* *
52189489 CTTATCTATCTGAAGTTGCAGTAGAGTAGATCGCATCAGATCTTATCTCCCTGAGGTTGCAGTAG
65 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCA-ATCTTATCTCCCTGAGGTTGCAGTGG
* * *
52189554 AGCAGACCGAAGA-AGTAGATCTTATCTCCCT-AAG-CAGTAGTGG
129 AGCAGACCGAAGATAGAAAATCTTATCTCCCTGAAGTCA-CAGTGG
* *
52189597 AGCAGATTGAAGCCGATAATCCTATTTCCCTAAAGTTGTAGTGGAGCAGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * *
52189662 TTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAGCAAGTCTTATC-CCCTTGAGGTTGCAGTGG
66 TTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAA-TCTTATCTCCC-TGAGGTTGCAGTGG
* * * * *
52189726 GGTAGATCGAAGATGGAAAATCTTATCTCCCTGAAGTTACAGTGG
129 AGCAGACCGAAGATAGAAAATCTTATCTCCCTGAAGTCACAGTGG
* * *
52189771 AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAATTGTAGTGGAGCGAATTAAAGTAATAAATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * * * *
52189836 TTATCTCTCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG
66 TTATCTCTCTGAAGTTGCAGTAGAGTAGATCG--CAT--C-AATCTTATCTCCCTGAGGTTGCAG
** * * *
52189901 TGGAGCAGATTGAAG-TCGATAATCCTATCTCCCTGAAGT
126 TGGAGCAGACCGAAGATAGAAAATCTTATCTCCCTGAAGT
52189940 TGTAGTGGCG
Statistics
Matches: 295, Mismatches: 36, Indels: 19
0.84 0.10 0.05
Matches are distributed among these distances:
171 5 0.02
172 121 0.41
173 15 0.05
174 96 0.33
175 1 0.00
176 1 0.00
177 21 0.07
178 30 0.10
179 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (173 bp):
AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAATCTTATCTCCCTGAGGTTGCAGTGGAG
CAGACCGAAGATAGAAAATCTTATCTCCCTGAAGTCACAGTGG
Found at i:52189645 original size:44 final size:43
Alignment explanation
Indices: 52189425--52189988 Score: 329
Period size: 44 Copynumber: 12.9 Consensus size: 43
52189415 AGAGTAAGGA
* * * *
52189425 AGCAGATTTAAGCCGCA-AATCCTATCTCCCTGAAGATGTAGTGG
1 AGCAGATTGAAG-CG-ATAATCTTATCTCCCTGAAGTTGCAGTGG
* * ** ** *
52189469 AGCGGATTAAAGTAATAGATCTTATCTATCTGAAGTTGCAGTAG
1 AGCAGATTGAAGCGATA-ATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * *
52189513 AGTAGATCGCATC-A-GATCTTATCTCCCTGAGGTTGCAGTAG
1 AGCAGATTGAAGCGATAATCTTATCTCCCTGAAGTTGCAGTGG
** * ** *
52189554 AGCAGACCGAAG-AAGTAGATCTTATCTCCCT-AAGCAGTAGTGG
1 AGCAGATTGAAGCGA-TA-ATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
52189597 AGCAGATTGAAGCCGATAATCCTATTTCCCTAAAGTTGTAGTGG
1 AGCAGATTGAAG-CGATAATCTTATCTCCCTGAAGTTGCAGTGG
* ** * * *
52189641 AGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTGCAGTAG
1 AGCAGATTGAAGCGATA-ATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
52189685 AGTAGATCGTAGC-A-AGTCTTATC-CCCTTGAGGTTGCAGTGG
1 AGCAGATTGAAGCGATAATCTTATCTCCC-TGAAGTTGCAGTGG
* * * * * *
52189726 GGTAGATCGAAGATGGAAAATCTTATCTCCCTGAAGTTACAGTGG
1 AGCAGATTGAAG--CGATAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
52189771 AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAATTGTAGTGG
1 AGCAGATTGAAG-CGATAATCTTATCTCCCTGAAGTTGCAGTGG
* ** *
52189815 AGC-GAATTAAAGTAATAAATCTTATCTCTCTGAAGTTGCAGTGG
1 AGCAG-ATTGAAGCGAT-AATCTTATCTCCCTGAAGTTGCAGTGG
* * *
52189859 GGCAGATCGAAGATGGCA-AATCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTGAAG--CG-ATAATCTTATCTCCCTGAAGTTGCAGTGG
* *
52189904 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTGAAG-CGATAATCTTATCTCCCTGAAGTTGCAGTGG
* * ** *
52189948 CGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAG
1 AGCAGATTGAAGCGATA-ATCTTATCTCCCTGAAGTTGCAG
52189989 CAGAGTGGAT
Statistics
Matches: 397, Mismatches: 99, Indels: 48
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.01
41 60 0.15
42 2 0.01
43 41 0.10
44 221 0.56
45 67 0.17
46 3 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (43 bp):
AGCAGATTGAAGCGATAATCTTATCTCCCTGAAGTTGCAGTGG
Done.