Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 264 of 344
Found at i:87991997 original size:30 final size:30
Alignment explanation
Indices: 87991919--87992006 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
87991909 CATAGTATCG
* * *
87991919 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
87991949 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
87991979 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
87992007 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:87994521 original size:45 final size:46
Alignment explanation
Indices: 87994373--87994544 Score: 174
Period size: 45 Copynumber: 3.8 Consensus size: 46
87994363 TATTGGGCAT
* * *
87994373 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
87994419 CCGAACTCGTTGAGTT-AGT-CGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
87994462 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
87994510 CCGAGCT-GTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87994545 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 18, Indels: 15
0.75 0.13 0.11
Matches are distributed among these distances:
43 2 0.02
44 8 0.08
45 50 0.50
46 31 0.31
47 7 0.07
48 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:88006845 original size:25 final size:25
Alignment explanation
Indices: 88006811--88006889 Score: 140
Period size: 25 Copynumber: 3.2 Consensus size: 25
88006801 CTAAATCGAA
88006811 GTAATTGTCCGTATTTTGTACCGAG
1 GTAATTGTCCGTATTTTGTACCGAG
88006836 GTAATTGTCCGTATTTTGTACCGAG
1 GTAATTGTCCGTATTTTGTACCGAG
* *
88006861 GTAATTGTTCATATTTTGTACCGAG
1 GTAATTGTCCGTATTTTGTACCGAG
88006886 GTAA
1 GTAA
88006890 GTTTGTGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.41
Consensus pattern (25 bp):
GTAATTGTCCGTATTTTGTACCGAG
Found at i:88007316 original size:48 final size:48
Alignment explanation
Indices: 88007066--88007341 Score: 183
Period size: 48 Copynumber: 5.8 Consensus size: 48
88007056 GAGTGGATGA
* * * * * **
88007066 GGTCCCGTATAAGACCATATCTGGGATATGGCTTTGGCAGT-AACATGT
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCATTATGT
* * *
88007114 GATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCATCATTATGT
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
* *** * * *
88007162 GATCCCATGTAAGACCATGTCCAAGCCATGGCATTGGCATCATAAT-A
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
* * * * * ** **
88007209 AGACATCGTGTAAGACCA-GAGCTGGGTTAT-AAACTT--CA--A-TATGT
1 GGTC-CCATGTAAGACCATG-TCTGGGACATGGCA-TTGGCATCATTATGT
88007253 GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
1 G-G-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
* *
88007303 GGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
88007342 CCCTACCTTC
Statistics
Matches: 174, Mismatches: 40, Indels: 28
0.72 0.17 0.12
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
45 21 0.12
46 5 0.03
47 6 0.03
48 131 0.75
49 2 0.01
50 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (48 bp):
GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
Found at i:88012160 original size:70 final size:70
Alignment explanation
Indices: 88012070--88012254 Score: 226
Period size: 70 Copynumber: 2.6 Consensus size: 70
88012060 CGACTATTAG
** * * *
88012070 TGGGTGCAAAACATCATCGATTCGTTTGACTAGTGTTGGGCACATCCATCATCGGTTATCCGACT
1 TGGGTGCAAAACATTGTCGATTCGTTCGACTAGTGTTGGGCACATCCATCATCGGTTACCCAACT
88012135 AGCGC
66 AGCGC
* * * * * * **
88012140 TTGGTGCAAAACATTGTCGATTCATTCGACAAATGCTGGGCGCATCCATTGTCGGTTACCCAACT
1 TGGGTGCAAAACATTGTCGATTCGTTCGACTAGTGTTGGGCACATCCATCATCGGTTACCCAACT
*
88012205 AGTGC
66 AGCGC
* *
88012210 TGGGTGCAAAACATTGTCAATTCGTTCGACTAGTGTTGAGCACAT
1 TGGGTGCAAAACATTGTCGATTCGTTCGACTAGTGTTGGGCACAT
88012255 TAGTATAATT
Statistics
Matches: 93, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
70 93 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (70 bp):
TGGGTGCAAAACATTGTCGATTCGTTCGACTAGTGTTGGGCACATCCATCATCGGTTACCCAACT
AGCGC
Found at i:88014638 original size:27 final size:27
Alignment explanation
Indices: 88014607--88014784 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
88014597 TAAATTGTAC
*
88014607 AGCACTAAGTGAGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88014634 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88014660 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88014688 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88014716 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88014743 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88014770 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88014785 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88014721 original size:82 final size:81
Alignment explanation
Indices: 88014608--88014763 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
88014598 AAATTGTACA
* *
88014608 GCACTAAGTGAGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGAGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88014672 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
88014689 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGAGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88014754 TGCGAGTTGA
65 TGCGAATTGA
88014764 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGAGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88014775 original size:82 final size:81
Alignment explanation
Indices: 88014604--88014784 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
88014594 GATTAAATTG
* * *
88014604 TACAGCACTAAGTGAGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88014669 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88014685 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88014749 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88014767 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88014785 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88017326 original size:24 final size:24
Alignment explanation
Indices: 88017294--88017364 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
88017284 CTGTCAGGAG
88017294 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
88017318 AGGATTTAGGAGTTGATAAAGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
88017342 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
88017365 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:88017376 original size:48 final size:47
Alignment explanation
Indices: 88017289--88017388 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 47
88017279 AAAGTCTGTC
** * *
88017289 AGGAGAGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGATAA
1 AGGAGAGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATAA
* *
88017337 AGGATAGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCA
1 AGGAGAGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATAA
88017385 AGGA
1 AGGA
88017389 ACAAGAGGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
46 3 0.07
48 41 0.93
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (47 bp):
AGGAGAGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATAA
Found at i:88018563 original size:27 final size:27
Alignment explanation
Indices: 88018505--88018616 Score: 115
Period size: 27 Copynumber: 4.1 Consensus size: 27
88018495 TGGAAGCGTC
*
88018505 CTGGTGGCTATGCCACAAATTATCTG-AT
1 CTGGTGGCTCTGCCAC--ATTATCTGTAT
88018533 CTGGTGGCTCTGCCACATATATCTGTA-
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
* **
88018560 CTGGTGGTTCTGTAACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
88018588 CTGGT-GCTCTGTCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
88018613 CTGG
1 CTGG
88018617 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.07
26 11 0.15
27 35 0.47
28 23 0.31
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:88035265 original size:39 final size:40
Alignment explanation
Indices: 88035165--88035347 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
88035155 TTGAATGATG
* * * *
88035165 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
88035205 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88035245 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88035284 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
88035325 -CCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
88035348 GAACGAGTAG
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88035331 original size:79 final size:81
Alignment explanation
Indices: 88035166--88035347 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
88035156 TGAATGATGT
*
88035166 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
88035230 GTGCGAGATACTAATT
66 GTGCGAGATACTAATA
* * * * **
88035246 CTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
88035308 TGTGCGAGTTACT-ATAA
65 TGTGCGAGATACTAAT-A
* *
88035325 CCGGGCTATGTCCCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
88035348 GAACGAGTAG
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.65
80 27 0.31
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATA
Found at i:88035355 original size:79 final size:78
Alignment explanation
Indices: 88035218--88035381 Score: 181
Period size: 79 Copynumber: 2.1 Consensus size: 78
88035208 GGACTAAGAT
* * * **
88035218 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAG-TAGCTA
*
88035282 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* *
88035297 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCA-TTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTAGCT
* *
88035360 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
88035375 CCGAAGG
1 CCGAAGG
88035382 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
78 18 0.25
79 45 0.62
80 9 0.12
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:88043527 original size:79 final size:81
Alignment explanation
Indices: 88043391--88043575 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
88043381 TTGAATGATG
*
88043391 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
88043455 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
88043470 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
88043532 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
88043550 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88043576 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:88043589 original size:40 final size:40
Alignment explanation
Indices: 88043392--88043575 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
88043382 TGAATGATGT
* * * *
88043392 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
88043432 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
88043472 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88043510 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88043551 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88043576 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:88043597 original size:79 final size:79
Alignment explanation
Indices: 88043444--88043608 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
88043434 GGACTAAGAT
* **
88043444 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
88043509 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
88043523 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
88043586 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
88043602 CCGAAGG
1 CCGAAGG
88043609 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:88054236 original size:40 final size:40
Alignment explanation
Indices: 88054158--88054338 Score: 285
Period size: 40 Copynumber: 4.5 Consensus size: 40
88054148 GCCCAAGTAT
* * *
88054158 CTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
88054197 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88054237 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88054277 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88054317 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
88054339 CATTCGAATA
Statistics
Matches: 131, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 10 0.08
40 120 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:88061398 original size:40 final size:40
Alignment explanation
Indices: 88061320--88061460 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
88061310 GCCCAAGTAT
* *
88061320 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
88061359 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88061399 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
88061439 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
88061461 CATTCGAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.12
40 80 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:88064699 original size:43 final size:40
Alignment explanation
Indices: 88064652--88064767 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 40
88064642 TCCTAGACGT
88064652 GGTCTTACATGTAATCACATGTCGATGCCACTGACCCAGACAG
1 GGTCTTACATG-AATCACAT-TCGATGCCA-TGACCCAGACAG
* * * *
88064695 GGTCTTACACGAATCACAATTACGATGCCGATGTCCTAGACAT
1 GGTCTTACATGAATCAC-ATT-CGATGCC-ATGACCCAGACAG
*
88064738 GGTCTTACTTGAAATCACATATCGATGCCA
1 GGTCTTACATG-AATCACAT-TCGATGCCA
88064768 ACGTCCAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
42 8 0.13
43 46 0.74
44 8 0.13
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
GGTCTTACATGAATCACATTCGATGCCATGACCCAGACAG
Found at i:88065262 original size:21 final size:21
Alignment explanation
Indices: 88065236--88065278 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
88065226 GCATAAAACA
88065236 AAAAAAACTTACAAAATTTAC
1 AAAAAAACTTACAAAATTTAC
*
88065257 AAAAAAACTTACAAGATTTAC
1 AAAAAAACTTACAAAATTTAC
88065278 A
1 A
88065279 CATAGCAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAAAACTTACAAAATTTAC
Found at i:88071225 original size:87 final size:87
Alignment explanation
Indices: 88071079--88071250 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 87
88071069 AAATATTATC
*
88071079 TCAATGGCATTGATAATTTATTAAGTCATTGCCAAGCCATACTTATGAAATTTAATTACCAAACA
1 TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCCATACTTATGAAATTTAATTACCAAACA
*
88071144 TTTATCTATACATAAATTATTA
66 TTTATCTATAAATAAATTATTA
88071166 TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCCATACTTATGAAATTTAATTACCAAACA
1 TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCCATACTTATGAAATTTAATTACCAAACA
88071231 TTTATCTATAAATAAATTAT
66 TTTATCTATAAATAAATTAT
88071251 AACATTTCTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (87 bp):
TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCCATACTTATGAAATTTAATTACCAAACA
TTTATCTATAAATAAATTATTA
Found at i:88071801 original size:43 final size:44
Alignment explanation
Indices: 88071706--88071808 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 44
88071696 AATACATACC
* * *
88071706 GTACAATGCTAATGTCCCAGACGTGGTCTTACATGTAATCACAT
1 GTACAATGCCAATGTCCCAGAAGTGGTCTTACACGTAATCACAT
* *
88071750 GT-CGATGCCACTGTCCCAGATAG-GGTCTTACACG-AATCACAAT
1 GTACAATGCCAATGTCCCAGA-AGTGGTCTTACACGTAATCAC-AT
*
88071793 -TACAATGCCGATGTCC
1 GTACAATGCCAATGTCC
88071809 TAGACATCGT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
42 7 0.15
43 38 0.79
44 3 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
GTACAATGCCAATGTCCCAGAAGTGGTCTTACACGTAATCACAT
Found at i:88072780 original size:10 final size:11
Alignment explanation
Indices: 88072760--88072804 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 11
88072750 TATTTTATTT
88072760 TATATTTAACA
1 TATATTTAACA
88072771 TATA-TTAACA
1 TATATTTAACA
88072781 TATTATTTAACTTA
1 TA-TATTTAAC--A
88072795 TATATTTAAC
1 TATATTTAAC
88072805 CTTTATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.27
11 6 0.20
12 5 0.17
13 8 0.27
14 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (11 bp):
TATATTTAACA
Found at i:88074601 original size:27 final size:27
Alignment explanation
Indices: 88074571--88074748 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
88074561 ATATTGAGTC
* * * *
88074571 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
88074598 CGCACACTTAGTGCTACGTAACCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88074625 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
88074653 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
88074680 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
88074707 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88074734 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88074749 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:88075248 original size:12 final size:12
Alignment explanation
Indices: 88075231--88075262 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
88075221 ATGGCATACT
88075231 TATGTATATATA
1 TATGTATATATA
88075243 TATGTATATATA
1 TATGTATATATA
*
88075255 TATATATA
1 TATGTATA
88075263 CTTCGGAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:88079539 original size:49 final size:49
Alignment explanation
Indices: 88079465--88079608 Score: 173
Period size: 49 Copynumber: 2.9 Consensus size: 49
88079455 GCCGAAGCTA
*
88079465 TCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * * *
88079514 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
* *
88079563 TTTCGGATACGCATAGTAGCCTGCACTTTGTACTACACATGCGACC
1 TCT-GG-TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
88079609 TCACAATAGA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.04
49 40 0.51
50 2 0.03
51 33 0.42
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:88081131 original size:13 final size:13
Alignment explanation
Indices: 88081113--88081140 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
88081103 ATTATTTCGA
88081113 GAATTTCCCATTG
1 GAATTTCCCATTG
88081126 GAATTTCCCATTG
1 GAATTTCCCATTG
88081139 GA
1 GA
88081141 CCCTGAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (13 bp):
GAATTTCCCATTG
Found at i:88082999 original size:50 final size:50
Alignment explanation
Indices: 88082773--88083000 Score: 248
Period size: 50 Copynumber: 4.6 Consensus size: 50
88082763 CTGATACGCA
* * * *
88082773 TAGTAGCCTGCACTTGGTACTACACATGCGAC-CAACAATCTGGCACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACG
* * * * * *
88082822 TAGTAGCCTGCACGTAGTACTACACACGTGACCTCACCA-TCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAACAGTATGGTACACG
* * * * *
88082872 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-A-TG-GTACACG
*
88082923 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACG
88082973 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
88083001 TGTACTCACA
Statistics
Matches: 151, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 27 0.18
50 75 0.50
51 39 0.26
52 3 0.02
53 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACG
Found at i:88088820 original size:50 final size:46
Alignment explanation
Indices: 88088620--88088887 Score: 169
Period size: 46 Copynumber: 5.7 Consensus size: 46
88088610 TTATGAGAGC
* * * * *
88088620 CAGTGTAAGGCCATGTCTGGGACATGACATTGACATTGAGAC-TAGCACT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT-A-ACGT-GGAGT
* * * * *
88088669 -AGTGTAAGA-CATGTCTGAGACAT-GCATCAACCTGTTAATGT-AAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGA-C--TTAACGTGGAGT
* * *
88088714 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-ACATGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTG--GAGT
* * * *
88088758 CAGTATAAGACCATGTCTGGGACATTGCATCGGCATGGATATATG-GGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-T---TA-ACGTGGAGT
*
88088808 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTGGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTGGAGT
*
88088854 CAATGTAAGACCATGTCTGGGACATGGCATCGAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC
88088888 ATTATACCCT
Statistics
Matches: 174, Mismatches: 28, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
44 10 0.06
45 18 0.10
46 79 0.45
47 16 0.09
48 10 0.06
49 1 0.01
50 34 0.20
51 1 0.01
52 1 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTGGAGT
Found at i:88088855 original size:140 final size:138
Alignment explanation
Indices: 88088575--88088885 Score: 326
Period size: 140 Copynumber: 2.2 Consensus size: 138
88088565 TTTGTGTGCT
* * * *
88088575 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGGCCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAT-AGAGCCAGTATAAGACCATGTCTGG
* *
88088640 GACATGACATTGACATTGAGACTAGCACTAGTGTAAGACATGTCTGAGACATGCATCAACCTGTT
65 GACATGACATCGACATGGAGACTAGCACTAGTGTAAGACATGTCTGAGACATGCATCAACC-GTT
*
88088705 AATGTAAGCC
129 AACGTAAGCC
* * *
88088715 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATGAT-GTGTCAGTATAAGACCATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCCAGTATAAGACCATGTCTGGG
* * * * * *
88088779 ACATTG-CATCGGCATGGATA-TATGGGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGA-
66 ACA-TGACATCGACATGGAGACTA--GCACT-AGTGTAAGA-CATGTCTGAGACAT-GCATCAAC
*
88088841 C-TTAACGTGGAGCC
125 CGTTAACGT-AAGCC
*
88088855 AATGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
88088886 ACATTATACC
Statistics
Matches: 144, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
137 2 0.01
138 34 0.24
139 11 0.08
140 57 0.40
141 28 0.19
142 12 0.08
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (138 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCCAGTATAAGACCATGTCTGGG
ACATGACATCGACATGGAGACTAGCACTAGTGTAAGACATGTCTGAGACATGCATCAACCGTTAA
CGTAAGCC
Found at i:88093507 original size:26 final size:25
Alignment explanation
Indices: 88093478--88093529 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
88093468 TAAGAAGAAA
88093478 TTTTCTAATTAAGATTTAAAATGTTTT
1 TTTTCTAATTAA-ATTTAAAAT-TTTT
* *
88093505 TTTTCTAGTTTAATTTAAAATTTTT
1 TTTTCTAATTAAATTTAAAATTTTT
88093530 ATATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 9 0.39
27 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTTCTAATTAAATTTAAAATTTTT
Found at i:88093761 original size:56 final size:56
Alignment explanation
Indices: 88093693--88093811 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 56
88093683 AGAAACCTTA
*
88093693 AATTTTTGCTACATGTTGCCTTAGTTTTCCCTATATAAACCCTTATTCATTCTACT
1 AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCCTTATTCATTCTACT
*
88093749 AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCTTTATTCATTCTACT
1 AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCCTTATTCATTCTACT
88093805 AATTTTT
1 AATTTTT
88093812 ATATCCTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.48
Consensus pattern (56 bp):
AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCCTTATTCATTCTACT
Found at i:88096900 original size:30 final size:30
Alignment explanation
Indices: 88096866--88096926 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88096856 TCCTTAACTC
88096866 AAACTTTGGAAAAATTACAAGTTTGCCCCT
1 AAACTTTGGAAAAATTACAAGTTTGCCCCT
* * * **
88096896 AAACTTTTGCAAATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAAGTTTGCCCCT
88096926 A
1 A
88096927 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAAGTTTGCCCCT
Found at i:88100823 original size:25 final size:26
Alignment explanation
Indices: 88100790--88100857 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
88100780 AGTTTAAACT
* * *
88100790 AAAAATACTGTAGATAGTATATTTTG
1 AAAACTACTGTAGATAGTATACTGTG
88100816 -AAACTACTGTAGATAGTATACTGTG
1 AAAACTACTGTAGATAGTATACTGTG
*
88100841 AAAAC-ACTCTAGATAGT
1 AAAACTACTGTAGATAGT
88100858 GTATACTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (26 bp):
AAAACTACTGTAGATAGTATACTGTG
Found at i:88108154 original size:43 final size:42
Alignment explanation
Indices: 88108106--88108193 Score: 149
Period size: 43 Copynumber: 2.1 Consensus size: 42
88108096 CTTTTTCTTA
*
88108106 AATGATGTTTAGTGTATCTTTAACGAAAATAAGTAATGCCTTT
1 AATGATGTTTAGTATATCTTTAACGAAAATAAGTAATG-CTTT
*
88108149 AATGATGTTTAGTATATTTTTAACGAAAATAAGTAATGCTTT
1 AATGATGTTTAGTATATCTTTAACGAAAATAAGTAATGCTTT
88108191 AAT
1 AAT
88108194 ATGGGTAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 7 0.16
43 36 0.84
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (42 bp):
AATGATGTTTAGTATATCTTTAACGAAAATAAGTAATGCTTT
Found at i:88108191 original size:21 final size:21
Alignment explanation
Indices: 88108123--88108192 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
88108113 TTTAGTGTAT
88108123 CTTTAACGAAAATAAGTAATG
1 CTTTAACGAAAATAAGTAATG
* *** *
88108144 CCTTTAATGATGTTTAGTATAT-
1 -CTTTAACGAAAATAAGTA-ATG
*
88108166 TTTTAACGAAAATAAGTAATG
1 CTTTAACGAAAATAAGTAATG
88108187 CTTTAA
1 CTTTAA
88108193 TATGGGTAGC
Statistics
Matches: 34, Mismatches: 12, Indels: 5
0.67 0.24 0.10
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (21 bp):
CTTTAACGAAAATAAGTAATG
Found at i:88108289 original size:56 final size:56
Alignment explanation
Indices: 88108203--88108315 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
88108193 TATGGGTAGC
* * *
88108203 AATCCCTTTGCATAACACGTTCATCAATTATGTCGTTTTATTGAAAAACAAATTTA
1 AATCCCTTTCCATAACACGTTCATCAATTATGACGTTTTATTGAAAAACAAAATTA
*
88108259 AATCCCTTTCCATAACACGTTCATCAATTATGAGGTTTTATTGAAAAACAAAATTA
1 AATCCCTTTCCATAACACGTTCATCAATTATGACGTTTTATTGAAAAACAAAATTA
88108315 A
1 A
88108316 TTCATGGAAA
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:0.18, G:0.09, T:0.35
Consensus pattern (56 bp):
AATCCCTTTCCATAACACGTTCATCAATTATGACGTTTTATTGAAAAACAAAATTA
Found at i:88108801 original size:3 final size:3
Alignment explanation
Indices: 88108793--88108847 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
88108783 AACAATTCCT
88108793 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
88108841 TAA TAA T
1 TAA TAA T
88108848 GGTAAAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:88110190 original size:28 final size:28
Alignment explanation
Indices: 88110150--88110220 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
88110140 TTCCATTATA
* * *
88110150 CAATGTATTAGACTTTTTTTTATGGCTG
1 CAATGCATTAGACATTTTTTTATGACTG
88110178 CAATGCATTAGACATTTTTTTATGACTG
1 CAATGCATTAGACATTTTTTTATGACTG
*
88110206 CATTGCATTAGACAT
1 CAATGCATTAGACAT
88110221 AAACTTCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (28 bp):
CAATGCATTAGACATTTTTTTATGACTG
Found at i:88114799 original size:40 final size:40
Alignment explanation
Indices: 88114744--88114855 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
88114734 TATTCGGATG
88114744 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
88114784 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* ** *
88114824 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
88114856 GGGTTATTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.02
40 63 0.98
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:88114862 original size:40 final size:40
Alignment explanation
Indices: 88114760--88114930 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
88114750 GGACTAAGAT
* * * * **
88114760 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAG-TC
*
88114800 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGAGTTATTATAACCGGGTTAAGTC
*
88114840 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* *
88114880 CCGAAGGTATTCGTGCGGGTTATTAT-ACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
*
88114919 CCAAAGGCATTC
1 CCGAAGGCATTC
88114931 ATTCTAGTTG
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 27 0.23
40 89 0.75
41 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
Found at i:88118096 original size:38 final size:38
Alignment explanation
Indices: 88118053--88118128 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
88118043 TCCATCCTTT
88118053 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
88118091 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
88118129 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:88119409 original size:40 final size:40
Alignment explanation
Indices: 88119315--88119459 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
88119305 TACTCGAATG
*
88119315 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* **
88119356 ACATCCGAACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
88119396 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
88119436 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
88119460 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:88133922 original size:46 final size:46
Alignment explanation
Indices: 88133827--88133949 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
88133817 TATCTGTGCT
*
88133827 GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGCC
* *
88133873 GATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCGTCTCA-ATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTCATA-GCC
*
88133919 GATGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAAACATGGTCTTACACTG
88133950 GCTCTCATAA
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
44 10 0.15
45 16 0.24
46 18 0.26
47 14 0.21
48 10 0.15
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGCC
Found at i:88145382 original size:46 final size:45
Alignment explanation
Indices: 88145283--88145404 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 45
88145273 ATTGTGAGAT
* *
88145283 AGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGACAAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCATCGAGACAAG-GCC
* *
88145331 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAA-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA--CAAGGCC
*
88145377 AGTGTAAGACATGTCTGAGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
88145405 AGCTATGAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 41 0.61
47 15 0.22
48 11 0.16
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAAGGCC
Found at i:88148161 original size:21 final size:21
Alignment explanation
Indices: 88148137--88148176 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
88148127 TGTTTCATGG
*
88148137 AAAAATTTCCTAAGTTTTCCT
1 AAAAATTTCCGAAGTTTTCCT
* *
88148158 AAAACTTTTCGAAGTTTTC
1 AAAAATTTCCGAAGTTTTC
88148177 AGTTTAGTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (21 bp):
AAAAATTTCCGAAGTTTTCCT
Found at i:88149972 original size:48 final size:48
Alignment explanation
Indices: 88149894--88150113 Score: 226
Period size: 48 Copynumber: 4.6 Consensus size: 48
88149884 GTCATTAGGG
* ** *
88149894 GATACAATGATTTGGCTTTAGGCCATGATATCGGTACTTCGGGTGCGA
1 GATACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGA
* * **
88149942 GTTACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
1 GATACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGA
* * * *
88149990 GATACATTGGTTTGGCTTCAGGCCATGATATCGGCACTTCAGGAT-CAA
1 GATACATTGATTTGGCTTCGGGCCATGATATCGGCACTTC-GGGTGCGA
* * * ***
88150038 GCTTCATTGATTTGGCTACGGGCCATGATATTATCACTTCGGGTGCGA
1 GATACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGA
* * * *
88150086 GATATATTGAGTTGGATTCGTGCCATGA
1 GATACATTGATTTGGCTTCGGGCCATGA
88150114 GTTTAGCACT
Statistics
Matches: 137, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
47 3 0.02
48 131 0.96
49 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (48 bp):
GATACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGA
Found at i:88150060 original size:96 final size:96
Alignment explanation
Indices: 88149894--88150113 Score: 284
Period size: 96 Copynumber: 2.3 Consensus size: 96
88149884 GTCATTAGGG
* * * * * *
88149894 GATACAATGATTTGGCTTTAGGCCATGATATCGGTACTTCGGGTGCGAGTTACTTTGATTTGGCT
1 GATACATTGATTTGGCTTCAGGCCATGATATCGGCACTTCGGATGCAAGTTACATTGATTTGGCT
*
88149959 TCGGGCCATGATATTAGCACTTCGGGTGCGA
66 ACGGGCCATGATATTAGCACTTCGGGTGCGA
*
88149990 GATACATTGGTTTGGCTTCAGGCCATGATATCGGCACTTCAGGAT-CAAGCTT-CATTGATTTGG
1 GATACATTGATTTGGCTTCAGGCCATGATATCGGCACTTC-GGATGCAAG-TTACATTGATTTGG
*
88150053 CTACGGGCCATGATATTATCACTTCGGGTGCGA
64 CTACGGGCCATGATATTAGCACTTCGGGTGCGA
* * *
88150086 GATATATTGAGTTGGATTC-GTGCCATGA
1 GATACATTGATTTGGCTTCAG-GCCATGA
88150114 GTTTAGCACT
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
95 1 0.01
96 102 0.94
97 5 0.05
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (96 bp):
GATACATTGATTTGGCTTCAGGCCATGATATCGGCACTTCGGATGCAAGTTACATTGATTTGGCT
ACGGGCCATGATATTAGCACTTCGGGTGCGA
Found at i:88160110 original size:40 final size:40
Alignment explanation
Indices: 88160059--88160206 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
88160049 ACTACTTGCT
88160059 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
88160099 CAAATGCCTTCGGGACTTAGCCTAGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
88160139 CAAATGCCTTCGGG-CTTAGCTCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
88160178 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
88160207 CATCCAAATA
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 30 0.33
40 60 0.65
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:88163120 original size:42 final size:43
Alignment explanation
Indices: 88163012--88163124 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
88163002 AGTAAATACA
* * * *
88163012 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACATCG
* * * * *
88163055 ATGCCACTGTCCCAAACAGGGTCTTACATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACATCG
*
88163097 ATTCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
88163125 CGCAAAACAT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACATCG
Found at i:88164241 original size:13 final size:13
Alignment explanation
Indices: 88164223--88164248 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88164213 ACAAATGATC
88164223 AAATTTTCATACA
1 AAATTTTCATACA
88164236 AAATTTTCATACA
1 AAATTTTCATACA
88164249 TGCTATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTTCATACA
Found at i:88179157 original size:55 final size:55
Alignment explanation
Indices: 88179012--88179159 Score: 161
Period size: 55 Copynumber: 2.7 Consensus size: 55
88179002 CGGCCACAAG
* * * *
88179012 ACACGCACGTGTGCCTTGGCCGTGGTCGAGACTGGCTTGGGCAACATGGCTAGCC
1 ACACGCCCGTGTGCCTTGGCCGTGGTCGAGACTGACTTGGGCAACATAGCTACCC
* * * * * * *
88179067 ACACGTCCATGTCCCTTGGCCATGGTTGGGACTGACTTGGGCCACATAGCTACCC
1 ACACGCCCGTGTGCCTTGGCCGTGGTCGAGACTGACTTGGGCAACATAGCTACCC
* * * *
88179122 ATACGCCCGTGTGCCTTGGCCGTGATCAAGCCTGACTT
1 ACACGCCCGTGTGCCTTGGCCGTGGTCGAGACTGACTT
88179160 ACAATTGTAG
Statistics
Matches: 72, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (55 bp):
ACACGCCCGTGTGCCTTGGCCGTGGTCGAGACTGACTTGGGCAACATAGCTACCC
Found at i:88184097 original size:27 final size:26
Alignment explanation
Indices: 88184080--88184149 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
88184070 ATATTAAGTC
88184080 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
88184107 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
88184135 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
88184150 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:88184143 original size:28 final size:28
Alignment explanation
Indices: 88184080--88184177 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
88184070 ATATTAAGTC
*
88184080 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
88184107 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
88184135 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
88184164 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88184178 CAAACTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:88191875 original size:27 final size:26
Alignment explanation
Indices: 88191858--88191927 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
88191848 ATATTAAGTC
88191858 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
88191885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
88191913 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
88191928 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:88191921 original size:28 final size:28
Alignment explanation
Indices: 88191858--88191955 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
88191848 ATATTAAGTC
*
88191858 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
88191885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
88191913 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
88191942 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88191956 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:88203508 original size:21 final size:21
Alignment explanation
Indices: 88203482--88203529 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
88203472 ACTTAAACTG
*
88203482 GAGGCAGCAGCGAGGGAAGCA
1 GAGGCAGCAGCAAGGGAAGCA
* *
88203503 GAGGCAGTAGCAAGGGCAGCA
1 GAGGCAGCAGCAAGGGAAGCA
88203524 GAGGCA
1 GAGGCA
88203530 ACAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.46, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCAAGGGAAGCA
Found at i:88203902 original size:43 final size:43
Alignment explanation
Indices: 88203854--88203985 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 43
88203844 CCTACTATAA
* **
88203854 AACATAGTCTTTAATGGCTTTTTTACAACAAACGCCGCTAAAG
1 AACATAGTCTTTAGTGGCACTTTTACAACAAACGCCGCTAAAG
* * *
88203897 AACATA--CTTTAGCGGCACTTTTACTAA-AATCGCTGCTATAA-
1 AACATAGTCTTTAGTGGCACTTTTAC-AACAAACGCCGCTA-AAG
* *
88203938 AACAT-GATATTTAGTGGCACTTTTACTACAAACGCCGCTAAAG
1 AACATAG-TCTTTAGTGGCACTTTTACAACAAACGCCGCTAAAG
88203981 AACAT
1 AACAT
88203986 GATCTTTTGC
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
41 28 0.39
42 7 0.10
43 36 0.51
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (43 bp):
AACATAGTCTTTAGTGGCACTTTTACAACAAACGCCGCTAAAG
Found at i:88203986 original size:43 final size:43
Alignment explanation
Indices: 88203874--88203997 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
88203864 TTAATGGCTT
* *
88203874 TTTTACAACAAACGCCGCTAAAGAACAT-A-CTTTAGCGGCAC
1 TTTTACTACAAACGCCGCTAAAGAACATGATATTTAGCGGCAC
* *
88203915 TTTTACTA-AAATCGCTGCTATAA-AACATGATATTTAGTGGCAC
1 TTTTACTACAAA-CGCCGCTA-AAGAACATGATATTTAGCGGCAC
* *
88203958 TTTTACTACAAACGCCGCTAAAGAACATGATCTTTTGCGG
1 TTTTACTACAAACGCCGCTAAAGAACATGATATTTAGCGG
88203998 TGTTTGTTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
40 3 0.04
41 19 0.28
42 5 0.07
43 39 0.57
44 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (43 bp):
TTTTACTACAAACGCCGCTAAAGAACATGATATTTAGCGGCAC
Found at i:88205428 original size:12 final size:12
Alignment explanation
Indices: 88205411--88205436 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88205401 CATTCCGAAG
88205411 TATATATATACA
1 TATATATATACA
88205423 TATATATATACA
1 TATATATATACA
88205435 TA
1 TA
88205437 AGTATGCCCA
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:88207539 original size:27 final size:27
Alignment explanation
Indices: 88207508--88207683 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
88207498 TAAATTGTAC
88207508 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88207535 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88207561 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88207589 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88207617 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
88207644 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88207671 AGCACTGAGTGTG
1 AGCACTAAGTGTG
88207684 TGGGCTCAAT
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88207676 original size:82 final size:81
Alignment explanation
Indices: 88207505--88207683 Score: 216
Period size: 82 Copynumber: 2.2 Consensus size: 81
88207495 GATTAAATTG
* *
88207505 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88207570 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88207586 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
88207650 AAGTGTGTGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88207668 TATAGCACTGAGTGTG
1 TACAGCACTAAGTGTG
88207684 TGGGCTCAAT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88207696 original size:27 final size:27
Alignment explanation
Indices: 88207643--88207696 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
88207633 TTTGATTACG
* * *
88207643 TAGCACTAAGTGTGTGAGTTGATTATA
1 TAGCACTAAGTGTGTGAGCTCAATATA
* *
88207670 TAGCACTGAGTGTGTGGGCTCAATATA
1 TAGCACTAAGTGTGTGAGCTCAATATA
88207697 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (27 bp):
TAGCACTAAGTGTGTGAGCTCAATATA
Found at i:88227612 original size:23 final size:23
Alignment explanation
Indices: 88227569--88227613 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
88227559 CTAATAACTC
**
88227569 TAATAATTATTAAGTTTTCTTTA
1 TAATAATTATTAAGTCATCTTTA
88227592 TAATAATTATTAAGTCATCTTT
1 TAATAATTATTAAGTCATCTTT
88227614 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (23 bp):
TAATAATTATTAAGTCATCTTTA
Found at i:88234660 original size:40 final size:40
Alignment explanation
Indices: 88234611--88234751 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
88234601 CGGATGTAAC
88234611 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
88234651 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * *
88234691 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
88234731 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
88234752 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
39 5 0.06
40 80 0.91
41 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:88234752 original size:40 final size:40
Alignment explanation
Indices: 88234601--88234767 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
88234591 GAATTTGGCT
* * * * **
88234601 CGGATGTAACAACCAGCACGAATGCCTTCGGGACTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGTC
* ** * *
88234641 CGGTTATAATAACCCGCACGAATGCCTTCGGGACTTA-AC
1 CGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGTC
* *
88234680 CCGATTATAATAACTAGCACAATTGCCTTC-GGATCTTAGTC
1 CGGA-TATAATAACTAGCACAAATGCCTTCGGGA-CTTAGTC
*
88234721 CGGATATAGTAACTAGCACAAATGCCTTC-GGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGGA-CTTAGTC
88234761 CGGATAT
1 CGGATAT
88234768 CATCTGAATA
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
39 6 0.06
40 99 0.91
41 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
CGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGTC
Found at i:88251372 original size:27 final size:27
Alignment explanation
Indices: 88251341--88251398 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
88251331 ACAATCATAC
**
88251341 ATCATATAGGGGCAAAATTGTCATTTT
1 ATCATATAGGGGCAAAACAGTCATTTT
*
88251368 ATCATATAGGGGCATAACAGTCATTTT
1 ATCATATAGGGGCAAAACAGTCATTTT
88251395 ATCA
1 ATCA
88251399 ATTAGATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (27 bp):
ATCATATAGGGGCAAAACAGTCATTTT
Found at i:88254321 original size:42 final size:42
Alignment explanation
Indices: 88254207--88254357 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
88254197 ATACCAATGT
* * * *
88254207 CATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGC
1 CATATCCCACATATGGACTTACACGAAATCTCATATCGATGC
* * * *
88254249 CAATAGCTCAGC-TATGGTA-TTACACAAAATCTAATATCGATGC
1 C-ATATCCCA-CATATGG-ACTTACACGAAATCTCATATCGATGC
*
88254292 CATATCCCACATATGGACTTACACGAAATCTCAT-GCTGATGC
1 CATATCCCACATATGGACTTACACGAAATCTCATATC-GATGC
* *
88254334 CATATCCCAGATATGGTCTTACAC
1 CATATCCCACATATGGACTTACAC
88254358 ATAAACTTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 3 0.03
42 53 0.60
43 32 0.36
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
CATATCCCACATATGGACTTACACGAAATCTCATATCGATGC
Found at i:88257202 original size:26 final size:25
Alignment explanation
Indices: 88257173--88257389 Score: 137
Period size: 26 Copynumber: 8.4 Consensus size: 25
88257163 GTACTTAGCA
** *
88257173 CCTGCTAAATATTCATCCACTCAAAG
1 CCTGCTAAATAAACA-CGACTCAAAG
*
88257199 CCTGCTAAATAAACATCGGCTCAAAG
1 CCTGCTAAATAAACA-CGACTCAAAG
* * * *
88257225 CTTGCTAAACAATCACTGGCTCAAAG
1 CCTGCTAAATAAACAC-GACTCAAAG
* *
88257251 CCTGCTATATAAACACTAGCTCAAAG
1 CCTGCTAAATAAACACGA-CTCAAAG
* * * *
88257277 CCTGCTAAATAATCACTGGCACAAAT
1 CCTGCTAAATAAACAC-GACTCAAAG
** * * *
88257303 TTTACTAAATAAACACTGGCACAAAG
1 CCTGCTAAATAAACAC-GACTCAAAG
* *
88257329 CTTGCTAAATAAACACCGGCTCAAAG
1 CCTGCTAAATAAACA-CGACTCAAAG
* * *
88257355 CCTGCTAACTAATCACTGGCTCAAAG
1 CCTGCTAAATAAACAC-GACTCAAAG
*
88257381 CTTGCTAAA
1 CCTGCTAAA
88257390 ATCAAGTACA
Statistics
Matches: 154, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.01
26 151 0.98
27 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (25 bp):
CCTGCTAAATAAACACGACTCAAAG
Found at i:88257253 original size:52 final size:52
Alignment explanation
Indices: 88257192--88257389 Score: 254
Period size: 52 Copynumber: 3.8 Consensus size: 52
88257182 TATTCATCCA
*
88257192 CTCAAAGCCTGCTAAATAAACA-TCGGCTCAAAGCTTGCTAAACAATCACTGG
1 CTCAAAGCCTGCTAAATAAACACT-GGCTCAAAGCTTGCTAAATAATCACTGG
* * *
88257244 CTCAAAGCCTGCTATATAAACACTAGCTCAAAGCCTGCTAAATAATCACTGG
1 CTCAAAGCCTGCTAAATAAACACTGGCTCAAAGCTTGCTAAATAATCACTGG
* *** * * * *
88257296 CACAAATTTTACTAAATAAACACTGGCACAAAGCTTGCTAAATAAACACCGG
1 CTCAAAGCCTGCTAAATAAACACTGGCTCAAAGCTTGCTAAATAATCACTGG
* *
88257348 CTCAAAGCCTGCTAACTAATCACTGGCTCAAAGCTTGCTAAA
1 CTCAAAGCCTGCTAAATAAACACTGGCTCAAAGCTTGCTAAA
88257390 ATCAAGTACA
Statistics
Matches: 122, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
52 121 0.99
53 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (52 bp):
CTCAAAGCCTGCTAAATAAACACTGGCTCAAAGCTTGCTAAATAATCACTGG
Found at i:88257311 original size:78 final size:78
Alignment explanation
Indices: 88257173--88257389 Score: 258
Period size: 78 Copynumber: 2.8 Consensus size: 78
88257163 GTACTTAGCA
** * *
88257173 CCTGCTAAATATTCATCCA-CTCAAAGCCTGCTAAATAAACA-TCGGCTCAAAGCTTGCTAAACA
1 CCTGCTAAATAAACA-CCAGCTCAAAGCCTGCTAAATAATCACT-GGCTCAAAGCTTACTAAACA
* *
88257236 ATCACTGGCTCAAAG
64 AACACTGGCACAAAG
* * * ** *
88257251 CCTGCTATATAAACACTAGCTCAAAGCCTGCTAAATAATCACTGGCACAAATTTTACTAAATAAA
1 CCTGCTAAATAAACACCAGCTCAAAGCCTGCTAAATAATCACTGGCTCAAAGCTTACTAAACAAA
88257316 CACTGGCACAAAG
66 CACTGGCACAAAG
* * * *
88257329 CTTGCTAAATAAACACCGGCTCAAAGCCTGCTAACTAATCACTGGCTCAAAGCTTGCTAAA
1 CCTGCTAAATAAACACCAGCTCAAAGCCTGCTAAATAATCACTGGCTCAAAGCTTACTAAA
88257390 ATCAAGTACA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
77 2 0.02
78 113 0.97
79 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (78 bp):
CCTGCTAAATAAACACCAGCTCAAAGCCTGCTAAATAATCACTGGCTCAAAGCTTACTAAACAAA
CACTGGCACAAAG
Found at i:88268546 original size:16 final size:15
Alignment explanation
Indices: 88268519--88268552 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
88268509 ATAACTAGTA
*
88268519 TATAATTATATTTAT
1 TATAATTATATTGAT
88268534 TATAATGTATATTGAT
1 TATAAT-TATATTGAT
88268550 TAT
1 TAT
88268553 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TATAATTATATTGAT
Found at i:88272503 original size:39 final size:39
Alignment explanation
Indices: 88272246--88272502 Score: 372
Period size: 39 Copynumber: 6.5 Consensus size: 39
88272236 ACAAAGCATG
* * * *
88272246 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
88272286 CGGGACTTTAGCCCGGATATAACACCACCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
88272326 CGGGGCTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
88272365 CGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
88272404 TGGGTCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
88272443 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
88272482 CGGGACTTAGCCCGAATATAA
1 CGGGACTTAGCCCGGATATAA
88272503 TTCTCCATTA
Statistics
Matches: 198, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 178 0.90
40 20 0.10
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:88276308 original size:16 final size:17
Alignment explanation
Indices: 88276276--88276313 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
88276266 CAGTTTTATT
*
88276276 TTTTTCTTCTTTCTTAC
1 TTTTTCTTCTCTCTTAC
88276293 TTTTTCTTCTCT-TTAC
1 TTTTTCTTCTCTCTTAC
88276309 TTTTT
1 TTTTT
88276314 TTTGGGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCTTCTCTCTTAC
Found at i:88276314 original size:17 final size:17
Alignment explanation
Indices: 88276270--88276314 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
88276260 TCATATCAGT
* *
88276270 TTTATTTTTTTCTTCTT
1 TTTACTTTTTTCTTCTC
88276287 TCTTAC-TTTTTCTTCTC
1 T-TTACTTTTTTCTTCTC
88276304 TTTACTTTTTT
1 TTTACTTTTTT
88276315 TTGGGGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 17 0.71
18 3 0.12
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTACTTTTTTCTTCTC
Found at i:88291940 original size:37 final size:37
Alignment explanation
Indices: 88291881--88292026 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
88291871 AGCTCAGACG
* * *
88291881 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
88291918 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
88291955 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
88291992 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
88292027 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:88292293 original size:47 final size:47
Alignment explanation
Indices: 88292240--88292620 Score: 584
Period size: 47 Copynumber: 8.0 Consensus size: 47
88292230 TTTCGAATTA
* **
88292240 GCCATTCGGCCTTA-CAACATATATTCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATC-ACACATACGCATGTTCACATTCATCACATTG
* * *
88292287 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
88292334 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
88292381 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
88292428 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
* * ** * *
88292475 GCCATTGGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTC
1 GCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCACATTG
88292528 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
88292575 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
88292621 AAAATCCTAA
Statistics
Matches: 310, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
47 267 0.86
48 1 0.00
49 1 0.00
51 1 0.00
53 40 0.13
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
Found at i:88292563 original size:194 final size:188
Alignment explanation
Indices: 88292240--88292620 Score: 620
Period size: 194 Copynumber: 2.0 Consensus size: 188
88292230 TTTCGAATTA
* **
88292240 GCCATTCGGCCTTACAACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
1 GCCATTCGGCCTTACAACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
* * *
88292305 ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
66 ATATATACAGGTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATGTTCACAT
88292370 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
131 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
*
88292428 GCCATTCGGCCTTATC-ACACATACGCATGTTCACATTCATCACATTGGCCATTGGGCCTTATCA
1 GCCATTCGGCCTTA-CAACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT--
*
88292492 CGCATATATATATACAGGTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATG
63 --C-T-CATATATACAGGTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATG
88292557 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
124 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
88292621 AAAATCCTAA
Statistics
Matches: 178, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
188 56 0.31
189 1 0.01
192 1 0.01
193 1 0.01
194 119 0.67
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (188 bp):
GCCATTCGGCCTTACAACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
ATATATACAGGTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATGTTCACAT
TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
Found at i:88292586 original size:100 final size:100
Alignment explanation
Indices: 88292409--88292597 Score: 351
Period size: 100 Copynumber: 1.9 Consensus size: 100
88292399 ACATACGCAT
*
88292409 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
1 GTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
* *
88292474 GGCCATTGGGCCTTATCACGCATATATATATACAG
66 GGCCATTCGGCCTTATCACACATATATATATACAG
88292509 GTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
1 GTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
88292574 GGCCATTCGGCCTTATCACACATA
66 GGCCATTCGGCCTTATCACACATA
88292598 CGCATGTTCA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (100 bp):
GTTCACATTCATCACATTCGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
GGCCATTCGGCCTTATCACACATATATATATACAG
Found at i:88294937 original size:85 final size:85
Alignment explanation
Indices: 88294808--88294986 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
88294798 TATTTTATTG
*
88294808 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88294873 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88294893 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88294958 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88294978 CCCATGCTC
1 CCCATGCTC
88294987 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:88297893 original size:42 final size:42
Alignment explanation
Indices: 88297832--88297975 Score: 172
Period size: 41 Copynumber: 3.5 Consensus size: 42
88297822 TGTACAGTGA
*
88297832 TATATCAGGCTTATTGCCTAGCAGGATTTGATGCCGGTGTAT
1 TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
*
88297874 GT-TATCAAGCTTATTGCCTAGCAGGCTTT-ATGCCGGTGTAT
1 -TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
* * * *
88297915 TAAATCAGGTTTATTACCTAGCAGGCTCTG-TGCCGGTGTAT
1 TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
88297956 TATA-CTAGGCTT-TATGCCTA
1 TATATC-AGGCTTAT-TGCCTA
88297976 ACAAATTTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
40 3 0.03
41 58 0.67
42 25 0.29
43 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (42 bp):
TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
Found at i:88298581 original size:37 final size:37
Alignment explanation
Indices: 88298540--88298623 Score: 150
Period size: 37 Copynumber: 2.3 Consensus size: 37
88298530 TTATGGCATA
*
88298540 TATAGGCTAATATGTATTTTGTCCTATCTTGGATATG
1 TATAGGCTAATATGTATTTTGTCCGATCTTGGATATG
*
88298577 TATAGGCTAATATGTATTTTTTCCGATCTTGGATATG
1 TATAGGCTAATATGTATTTTGTCCGATCTTGGATATG
88298614 TATAGGCTAA
1 TATAGGCTAA
88298624 CTTATGTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (37 bp):
TATAGGCTAATATGTATTTTGTCCGATCTTGGATATG
Found at i:88301973 original size:20 final size:20
Alignment explanation
Indices: 88301948--88301994 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
88301938 GGTCACACGG
88301948 CCAAGCCACACGCCCATGTA
1 CCAAGCCACACGCCCATGTA
** **
88301968 CCAAGCCGTACGCTTATGTA
1 CCAAGCCACACGCCCATGTA
88301988 CCAAGCC
1 CCAAGCC
88301995 GTGTACCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.40, G:0.17, T:0.15
Consensus pattern (20 bp):
CCAAGCCACACGCCCATGTA
Found at i:88302611 original size:22 final size:22
Alignment explanation
Indices: 88302586--88302630 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
88302576 CTTCAATCAT
*
88302586 TCAAGCATTATAAG-CCAAGATA
1 TCAACCATTATAAGACCAA-ATA
*
88302608 TCAACCATTTTAAGACCAAATA
1 TCAACCATTATAAGACCAAATA
88302630 T
1 T
88302631 ATACATGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (22 bp):
TCAACCATTATAAGACCAAATA
Found at i:88306368 original size:43 final size:44
Alignment explanation
Indices: 88306301--88306428 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 44
88306291 ATATAGCTTG
* * *
88306301 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
*
88306344 T-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
*
88306386 TACAATGCCAATGTCTCAGACATGGTCTTACATGTAATCACAT
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
88306429 CTCGGTAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
42 9 0.12
43 67 0.88
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (44 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
Found at i:88314519 original size:3 final size:3
Alignment explanation
Indices: 88314513--88314587 Score: 72
Period size: 3 Copynumber: 26.3 Consensus size: 3
88314503 ATTTTATTAA
* *
88314513 AAT AAT AA- AAT AAT -TT AA- AAT AAAT AA- AAT AAGA AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA-T AAT AAT AAT
88314555 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
88314588 GAAATAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
2 11 0.18
3 44 0.73
4 5 0.08
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:88314540 original size:19 final size:18
Alignment explanation
Indices: 88314509--88314586 Score: 75
Period size: 20 Copynumber: 4.0 Consensus size: 18
88314499 GAGAATTTTA
88314509 TTAAAATAATAAAATAAT
1 TTAAAATAATAAAATAAT
*
88314527 TTAAAATAAATAAAATAAGAA
1 TTAAAAT-AATAAAAT-A-AT
*
88314548 ATAAAATAATAAAATAAT
1 TTAAAATAATAAAATAAT
*
88314566 AATAATAATAATAATAATAAT
1 -TTAA-AATAATAA-AATAAT
88314587 AGAAATAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.16
19 13 0.25
20 17 0.33
21 13 0.25
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (18 bp):
TTAAAATAATAAAATAAT
Found at i:88314542 original size:9 final size:8
Alignment explanation
Indices: 88314510--88314585 Score: 77
Period size: 8 Copynumber: 9.4 Consensus size: 8
88314500 AGAATTTTAT
88314510 TAAAATAA
1 TAAAATAA
88314518 TAAAATAA
1 TAAAATAA
88314526 TTTAAAATAA
1 --TAAAATAA
*
88314536 -ATAA-AA
1 TAAAATAA
*
88314542 TAAGA-AA
1 TAAAATAA
88314549 TAAAATAA
1 TAAAATAA
88314557 TAAAATAA
1 TAAAATAA
88314565 TAATAATAA
1 TAA-AATAA
88314574 TAATAATAA
1 TAA-AATAA
88314583 TAA
1 TAA
88314586 TAGAAATAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
6 2 0.03
7 11 0.19
8 21 0.36
9 17 0.29
10 8 0.14
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (8 bp):
TAAAATAA
Found at i:88314551 original size:12 final size:13
Alignment explanation
Indices: 88314510--88314597 Score: 88
Period size: 14 Copynumber: 6.5 Consensus size: 13
88314500 AGAATTTTAT
88314510 TAAAATAATAAAA
1 TAAAATAATAAAA
** *
88314523 TAATTTAAAATAAA
1 TAAAATAATA-AAA
*
88314537 TAAAATAA-GAAA
1 TAAAATAATAAAA
88314549 TAAAATAATAAAA
1 TAAAATAATAAAA
88314562 TAATAATAATAATAA
1 TAA-AATAATAA-AA
88314577 TAATAATAATAGAAA
1 TAA-AATAATA-AAA
88314592 TAAAAT
1 TAAAAT
88314598 TTAAAATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
12 11 0.17
13 13 0.21
14 20 0.32
15 18 0.29
16 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:88314593 original size:6 final size:5
Alignment explanation
Indices: 88314516--88314597 Score: 62
Period size: 6 Copynumber: 15.6 Consensus size: 5
88314506 TTATTAAAAT
**
88314516 AATAA AATAA TTTAA AAT-A AATAA AATAAGA AATAA AAT-- AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA
88314565 TAATAA TAATAA TAATAA TAATAGA AATAA AAT
1 -AATAA -AATAA -AATAA -AATA-A AATAA AAT
88314598 TTAAAATTAA
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 26 0.39
6 28 0.42
7 5 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (5 bp):
AATAA
Found at i:88320962 original size:10 final size:10
Alignment explanation
Indices: 88320947--88320973 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
88320937 AAATACATTC
88320947 AATTAAAGAT
1 AATTAAAGAT
88320957 AATTAAAGAT
1 AATTAAAGAT
88320967 AATTAAA
1 AATTAAA
88320974 ATTAAATCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (10 bp):
AATTAAAGAT
Found at i:88321022 original size:15 final size:15
Alignment explanation
Indices: 88321002--88321031 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88320992 ATAATCCTAA
*
88321002 TAATTATCTTAATAT
1 TAATTATCCTAATAT
88321017 TAATTATCCTAATAT
1 TAATTATCCTAATAT
88321032 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:88321661 original size:140 final size:140
Alignment explanation
Indices: 88321407--88321679 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 140
88321397 CATGGCAACC
* * * *
88321407 ACATTTTATGATTGTTAGAATAAATATTTGACGATGACATAAAATCATTGTGCAAATGTTATACA
1 ACATTTCATGATAGTTAGAATAAATATTTGACAATGACATAAAATCATTGTGCAAATGTAATACA
* * * * * * * *
88321472 TATCCGATTAAAATATCTTTGCAAAATAATATTTGCAATCAATGGTATTATTGTTATATAAATGA
66 CAACCAATTAAAATATCTTTACAAAATAATATTTGCAACCAATAGTATTATTGTTACATAAAAGA
88321537 TTTGGTAACT
131 TTTGGTAACT
* * **
88321547 ACATTTCATGATAGTTCA-AATAAATTTTTGACAATGGCATATTATCGA-TGTGC-AATGTAATA
1 ACATTTCATGATAGTT-AGAATAAATATTTGACAATGACATAAAATC-ATTGTGCAAATGTAATA
* *
88321609 CACAACCAATTAAAATA-CTATTACAAAATGATATTTGGCAACCAATATTATTATTGTTACATAA
64 CACAACCAATTAAAATATCT-TTACAAAATAATATTT-GCAACCAATAGTATTATTGTTACATAA
88321673 AAGATTT
127 AAGATTT
88321680 AACATCAAAA
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
138 2 0.02
139 36 0.32
140 71 0.64
141 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (140 bp):
ACATTTCATGATAGTTAGAATAAATATTTGACAATGACATAAAATCATTGTGCAAATGTAATACA
CAACCAATTAAAATATCTTTACAAAATAATATTTGCAACCAATAGTATTATTGTTACATAAAAGA
TTTGGTAACT
Found at i:88326049 original size:3 final size:3
Alignment explanation
Indices: 88326041--88326066 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88326031 ACCTAAGGCA
88326041 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
88326067 ATGGCATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:88327484 original size:13 final size:13
Alignment explanation
Indices: 88327466--88327495 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
88327456 TTACATATTT
88327466 TTATTTTTTAAAA
1 TTATTTTTTAAAA
88327479 TTATTTTTTAAAA
1 TTATTTTTTAAAA
88327492 TTAT
1 TTAT
88327496 AACCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:88329182 original size:117 final size:116
Alignment explanation
Indices: 88329034--88329266 Score: 378
Period size: 117 Copynumber: 2.0 Consensus size: 116
88329024 TATATACTAC
* * *
88329034 TATAATGTAAACATTAAAAATGTTAAAGATGACTAAATATAATTTTTTTATAAATAAAAATATAA
1 TATAATGTAAACATTAAAAATGTTAAAGATGACTAAATAAAACTTTTTTATAAATAAAAAAAT-A
88329099 AAATAGTTAGATATTAAATTAAAATTAATATAAATATTTTAAAAATAATATG
65 AAATAGTTAGATATTAAATTAAAATTAATATAAATATTTTAAAAATAATATG
88329151 TATAATGTAAACATTAAAAAATGTT-AAGATGACTAAATAAAACTTTTTTATAAATAAAAAAATA
1 TATAATGTAAACATT-AAAAATGTTAAAGATGACTAAATAAAACTTTTTTATAAATAAAAAAATA
* * * *
88329215 AAATATTTAGATATTAATTTAAAATTAATATATATATTTTTAAAATAATATG
65 AAATAGTTAGATATTAAATTAAAATTAATATAAATATTTTAAAAATAATATG
88329267 GGTAGACCTA
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
116 49 0.45
117 50 0.46
118 9 0.08
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (116 bp):
TATAATGTAAACATTAAAAATGTTAAAGATGACTAAATAAAACTTTTTTATAAATAAAAAAATAA
AATAGTTAGATATTAAATTAAAATTAATATAAATATTTTAAAAATAATATG
Found at i:88329726 original size:19 final size:21
Alignment explanation
Indices: 88329702--88329751 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
88329692 CGAATATTTT
*
88329702 AATTA-TATATTAAA-ATATA
1 AATTATTAAATTAAATATATA
88329721 AATTATTAAATTAAATATATA
1 AATTATTAAATTAAATATATA
*
88329742 TACTTATTAA
1 -AATTATTAA
88329752 TTATTAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 8 0.31
21 5 0.19
22 8 0.31
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTATTAAATTAAATATATA
Found at i:88329754 original size:21 final size:20
Alignment explanation
Indices: 88329710--88329751 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
88329700 TTAATTATAT
88329710 ATTAAAATATAAATTATTAA
1 ATTAAAATATAAATTATTAA
*
88329730 ATTAAATATATATACTTATTAA
1 ATTAAA-ATATA-AATTATTAA
88329752 TTATTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAAAATATAAATTATTAA
Found at i:88330218 original size:2 final size:2
Alignment explanation
Indices: 88330211--88330235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88330201 ATGTCTCTTT
88330211 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 T
88330236 TTCGAAAAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88333649 original size:21 final size:21
Alignment explanation
Indices: 88333602--88333650 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
88333592 TTCCTAAATT
*
88333602 CTCAACTTCCAATCTTCAATC
1 CTCAATTTCCAATCTTCAATC
*
88333623 CTCAATTTCCAATTTTCAATC
1 CTCAATTTCCAATCTTCAATC
88333644 CTCAATT
1 CTCAATT
88333651 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.39
Consensus pattern (21 bp):
CTCAATTTCCAATCTTCAATC
Found at i:88333799 original size:8 final size:8
Alignment explanation
Indices: 88333786--88333822 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
88333776 GTAAGAAAAT
88333786 TTATTAAA
1 TTATTAAA
88333794 TTATTAAA
1 TTATTAAA
88333802 TTATTAAA
1 TTATTAAA
*
88333810 -TATTTAA
1 TTATTAAA
88333817 TTATTA
1 TTATTA
88333823 TGTTGTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTATTAAA
Found at i:88333807 original size:16 final size:15
Alignment explanation
Indices: 88333786--88333822 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
88333776 GTAAGAAAAT
88333786 TTATTAAATTATTAAA
1 TTATTAAA-TATTAAA
*
88333802 TTATTAAATATTTAA
1 TTATTAAATATTAAA
88333817 TTATTA
1 TTATTA
88333823 TGTTGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTAAATATTAAA
Found at i:88335534 original size:13 final size:13
Alignment explanation
Indices: 88335516--88335541 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88335506 ATTCAGCACC
88335516 AGTTTATTTTACA
1 AGTTTATTTTACA
88335529 AGTTTATTTTACA
1 AGTTTATTTTACA
88335542 CAAGCACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
AGTTTATTTTACA
Found at i:88338504 original size:14 final size:14
Alignment explanation
Indices: 88338485--88338513 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88338475 TATTGGGAAT
88338485 TTATATTAATTTAA
1 TTATATTAATTTAA
88338499 TTATATTAATTTAA
1 TTATATTAATTTAA
88338513 T
1 T
88338514 ATTAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATTAATTTAA
Found at i:88339371 original size:15 final size:15
Alignment explanation
Indices: 88339351--88339380 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88339341 CATTTTATTT
*
88339351 ATATTAGGATAATTA
1 ATATTAAGATAATTA
88339366 ATATTAAGATAATTA
1 ATATTAAGATAATTA
88339381 TTAAGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:88340184 original size:18 final size:18
Alignment explanation
Indices: 88340161--88340202 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
88340151 TCTCCATCTC
*
88340161 AATTTCCGTCATTT-ATTT
1 AATTT-CGTAATTTAATTT
88340179 AATTTCGTAATTTCAATTT
1 AATTTCGTAATTT-AATTT
88340198 AATTT
1 AATTT
88340203 AAATACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 5 0.24
19 9 0.43
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (18 bp):
AATTTCGTAATTTAATTT
Found at i:88341086 original size:35 final size:35
Alignment explanation
Indices: 88341040--88341112 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
88341030 ATTCTTGTGA
*
88341040 ATGAATGAATGTGAATGTTATAAAATTTCCATAGC
1 ATGAATGAATGTGAATGTTATAAAATTGCCATAGC
88341075 ATGAATGAATGTGAATGTTATAAAATTGCCATAGC
1 ATGAATGAATGTGAATGTTATAAAATTGCCATAGC
88341110 ATG
1 ATG
88341113 TCATGTATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (35 bp):
ATGAATGAATGTGAATGTTATAAAATTGCCATAGC
Found at i:88342959 original size:15 final size:17
Alignment explanation
Indices: 88342928--88342961 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
88342918 ATTATGTGGA
88342928 TATTATTATATCGAGTT
1 TATTATTATATCGAGTT
88342945 TATT-TTATA-CGAGTT
1 TATTATTATATCGAGTT
88342960 TA
1 TA
88342962 CTAAGCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TATTATTATATCGAGTT
Found at i:88353092 original size:25 final size:25
Alignment explanation
Indices: 88353076--88353169 Score: 64
Period size: 25 Copynumber: 4.0 Consensus size: 25
88353066 AATAGTATTT
88353076 TATTAAT-TTAATATTAAAGTGATTA
1 TATTAATATTAA-ATTAAAGTGATTA
*
88353101 TCTTAATATTAAATTAAA-T--TTA
1 TATTAATATTAAATTAAAGTGATTA
*
88353123 -A-T-AT-TTAACTTCATAAGT-ATTA
1 TATTAATATTAAATT-A-AAGTGATTA
88353145 TATTAAT-TTAATATTAAAGTGATTA
1 TATTAATATTAA-ATTAAAGTGATTA
88353170 AGTTTAATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
18 6 0.11
19 3 0.05
20 3 0.05
21 1 0.02
22 6 0.11
23 1 0.02
24 6 0.11
25 23 0.42
26 6 0.11
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (25 bp):
TATTAATATTAAATTAAAGTGATTA
Found at i:88353122 original size:68 final size:69
Alignment explanation
Indices: 88353035--88353169 Score: 209
Period size: 69 Copynumber: 2.0 Consensus size: 69
88353025 TTTAATAGAT
* * * *
88353035 TTAATATTAAATTTAATTTAGTACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTAACTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
88353099 TATC
66 TATC
* *
88353103 TTAATATTAAATTAAATTTAATATTTAACTTCATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTAACTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
88353168 TA
66 TA
88353170 AGTTTAATCA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 29 0.48
69 31 0.52
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTAAATTTAATACTTAACTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:88353172 original size:32 final size:32
Alignment explanation
Indices: 88353069--88353172 Score: 93
Period size: 32 Copynumber: 3.1 Consensus size: 32
88353059 TTATCTTAAT
*
88353069 AGTATTTTATTAATTTAATATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTAAAGTGATTA
* * ** *
88353101 TCTTAATATTAAATTAAATTTAATATTTAACTTCA-TA
1 ----AGTATTATATT-AATTTAATA-TTAAAGTGATTA
88353138 AGTATTATATTAATTTAATATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTAAAGTGATTA
88353170 AGT
1 AGT
88353173 TTAATCATAG
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
31 6 0.11
32 14 0.26
33 9 0.17
36 8 0.15
37 11 0.20
38 6 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (32 bp):
AGTATTATATTAATTTAATATTAAAGTGATTA
Found at i:88354593 original size:26 final size:26
Alignment explanation
Indices: 88354564--88354645 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
88354554 TGATACAAAT
88354564 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88354590 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88354616 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88354642 TGAT
1 TGAT
88354646 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88362079 original size:47 final size:45
Alignment explanation
Indices: 88362018--88362184 Score: 151
Period size: 47 Copynumber: 3.6 Consensus size: 45
88362008 TATGAGAGCC
88362018 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGACTAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCTAGACTAGGGCT
* * *
88362066 AGTGTAAGACATGTTTGGGACATGCATCGGC-CTCGAC-AGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCTAGACTAG-G---GCT
* * * * * **
88362113 AGTGTAAGACGTGTCTGGGATATGCATCGGCT-AAGAGTTGTTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCTAGACTAGGGCT
*
88362157 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
88362185 AGCACGCATA
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 32 0.33
46 8 0.08
47 45 0.46
48 10 0.10
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCTAGACTAGGGCT
Found at i:88362178 original size:91 final size:95
Alignment explanation
Indices: 88362014--88362184 Score: 233
Period size: 91 Copynumber: 1.8 Consensus size: 95
88362004 ATATTATGAG
*
88362014 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGACTAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACTAGGGCTAGTGTAAGACATG
* *
88362079 TTTGGGACATGCATCGGCCTCGACAGAGAT
66 TCTAGGACATGCATCGGCCTCGACAGAGAT
* * * * **
88362109 AGCCAGTGTAAGA-CGTGTCTGGGATAT-GCATCGGC-T-AAGAGTTGTTCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACTAGGGCTAGTGTAAGACATG
88362170 TCTAGGACATGCATC
66 TCTAGGACATGCATC
88362185 AGCACGCATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 33 0.49
92 1 0.01
93 8 0.12
94 12 0.18
95 13 0.19
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACTAGGGCTAGTGTAAGACATG
TCTAGGACATGCATCGGCCTCGACAGAGAT
Found at i:88381820 original size:22 final size:21
Alignment explanation
Indices: 88381780--88381850 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
88381770 ATATATTTAG
88381780 GTAATG-TCATAT-ATGGTTA
1 GTAATGTTCATATAATGGTTA
88381799 GGTAATGTTCATATAATGGTTA
1 -GTAATGTTCATATAATGGTTA
*
88381821 GTAATGTCCATGATAA-GGTTA
1 GTAATGTTCAT-ATAATGGTTA
88381842 GTAATGTTC
1 GTAATGTTC
88381851 CATGATGGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.13
21 29 0.63
22 11 0.24
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (21 bp):
GTAATGTTCATATAATGGTTA
Found at i:88389233 original size:47 final size:45
Alignment explanation
Indices: 88389172--88389338 Score: 151
Period size: 47 Copynumber: 3.6 Consensus size: 45
88389162 TATGAGAGCC
88389172 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGACTAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCTAGACTAGGGCT
* * *
88389220 AGTGTAAGACATGTTTGGGACATGCATCGGC-CTCGAC-AGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCTAGACTAG-G---GCT
* * * * * **
88389267 AGTGTAAGACGTGTCTGGGATATGCATCGGCT-AAGAGTTGTTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCTAGACTAGGGCT
*
88389311 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
88389339 AGCACGCATA
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 32 0.33
46 8 0.08
47 45 0.46
48 10 0.10
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCTAGACTAGGGCT
Found at i:88389332 original size:91 final size:95
Alignment explanation
Indices: 88389168--88389338 Score: 233
Period size: 91 Copynumber: 1.8 Consensus size: 95
88389158 ATATTATGAG
*
88389168 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGACTAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACTAGGGCTAGTGTAAGACATG
* *
88389233 TTTGGGACATGCATCGGCCTCGACAGAGAT
66 TCTAGGACATGCATCGGCCTCGACAGAGAT
* * * * **
88389263 AGCCAGTGTAAGA-CGTGTCTGGGATAT-GCATCGGC-T-AAGAGTTGTTCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACTAGGGCTAGTGTAAGACATG
88389324 TCTAGGACATGCATC
66 TCTAGGACATGCATC
88389339 AGCACGCATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 33 0.49
92 1 0.01
93 8 0.12
94 12 0.18
95 13 0.19
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACTAGGGCTAGTGTAAGACATG
TCTAGGACATGCATCGGCCTCGACAGAGAT
Found at i:88406273 original size:6 final size:6
Alignment explanation
Indices: 88406264--88406313 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
88406254 GATGATGATG
**
88406264 TTTAAT TTT-AT TTTAAT TTTAAT TTT-AT TTTCTTT TTTAAT TTT-AT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTT-AAT TTTAAT TTTAAT
88406310 TTTA
1 TTTA
88406314 TGTTTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 15 0.41
6 18 0.49
7 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTAAT
Found at i:88406280 original size:11 final size:11
Alignment explanation
Indices: 88406264--88406313 Score: 64
Period size: 12 Copynumber: 4.4 Consensus size: 11
88406254 GATGATGATG
88406264 TTTAATTTTAT
1 TTTAATTTTAT
88406275 TTTAATTTTAAT
1 TTTAATTTT-AT
* *
88406287 TTTATTTTCTTT
1 TTTAATTT-TAT
88406299 TTTAATTTTAT
1 TTTAATTTTAT
88406310 TTTA
1 TTTA
88406314 TGTTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 15 0.45
12 17 0.52
13 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTAATTTTAT
Done.