Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 201 of 292
Found at i:60038522 original size:30 final size:30
Alignment explanation
Indices: 60038466--60038522 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60038456 AGGCACTTCT
*
60038466 ACACGGGTGATCCACACGCTCGTGTGTGAC
1 ACACGGGTGATCCACACGCCCGTGTGTGAC
*
60038496 ACACGGGTAGA-CCACACGCCCTTGTGT
1 ACACGGGT-GATCCACACGCCCGTGTGT
60038523 CATGGCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.32, G:0.28, T:0.19
Consensus pattern (30 bp):
ACACGGGTGATCCACACGCCCGTGTGTGAC
Found at i:60042727 original size:93 final size:93
Alignment explanation
Indices: 60042614--60042785 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
60042604 CGCCCATAAG
* *
60042614 CGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60042679 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
60042707 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60042772 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
60042786 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60042782 original size:46 final size:46
Alignment explanation
Indices: 60042607--60042782 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
60042597 TGTAACCCGC
* * * * *
60042607 CCATAAGCGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
60042653 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
60042703 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60042746 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60042783 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60042801 original size:46 final size:44
Alignment explanation
Indices: 60042658--60042801 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
60042648 CGCATCCATA
60042658 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
60042705 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
60042751 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
60042797 AGTGA
1 AGTGA
60042802 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:60046268 original size:22 final size:22
Alignment explanation
Indices: 60046227--60046270 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
60046217 TTCATCTAAA
60046227 ATTATTTAAAATAATATAAAAT
1 ATTATTTAAAATAATATAAAAT
60046249 ATTATATTAATAA-AAT-TAAAAT
1 ATTAT-TTAA-AATAATATAAAAT
60046271 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 7 0.35
24 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTATTTAAAATAATATAAAAT
Found at i:60049423 original size:55 final size:55
Alignment explanation
Indices: 60049339--60049455 Score: 189
Period size: 55 Copynumber: 2.1 Consensus size: 55
60049329 GTTGTTTCTT
*
60049339 TTATACCATTCTGAAATTACTCATTAATCTTCATGAATTTTTAAATAAAAAATAA
1 TTATACCATTCTGAAATTACTCATTAATCTTCATAAATTTTTAAATAAAAAATAA
* * *
60049394 TTATATCATTCTTAAATTACTCATTAATCTTCATAAATTTTTAAATAAAAGATAA
1 TTATACCATTCTGAAATTACTCATTAATCTTCATAAATTTTTAAATAAAAAATAA
60049449 TATATAC
1 T-TATAC
60049456 TTAAACACGT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 52 0.93
56 4 0.07
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.42
Consensus pattern (55 bp):
TTATACCATTCTGAAATTACTCATTAATCTTCATAAATTTTTAAATAAAAAATAA
Found at i:60049499 original size:17 final size:16
Alignment explanation
Indices: 60049468--60049505 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
60049458 AAACACGTTC
60049468 AAATT-TAATTTTTTT
1 AAATTGTAATTTTTTT
*
60049483 TAATTGTAATGTTTTTT
1 AAATTGTAAT-TTTTTT
60049500 AAATTG
1 AAATTG
60049506 GATTAGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (16 bp):
AAATTGTAATTTTTTT
Found at i:60064884 original size:155 final size:153
Alignment explanation
Indices: 60064659--60064957 Score: 365
Period size: 153 Copynumber: 1.9 Consensus size: 153
60064649 TGAAAGTTTA
* * * *
60064659 TCATCTTTATGCAGACGTTGATGTTGTCAAGCCTTCTTCCATCTTCCATCTGACCATGGTTGATC
1 TCATCTTTATGCAGACATTAATGATGTCAAGCCTTCTCCCATCTTCCATCTGACCATGGTTGATC
**
60064724 ACGGATTTTCCGCA-CTCAATG-GCACACATCCATCAGTTCATGAG-ACATGCATTCAGCTCAGC
66 ACGGA-TTT--G-ATCTCAATGAGCACACATCCATCAGTTCATG-GTACATGCATTCAGCAAAGC
60064786 CTCAGCACATATTTGTTGTGAATTTTTT
126 CTCAGCACATATTTGTTGTGAATTTTTT
* *
60064814 TCATCTTTATGCA-ACCATTAATGATGTCGATCCTTCTCCCA-CTTCCAGTCTGACCATGGTTGA
1 TCATCTTTATGCAGA-CATTAATGATGTCAAGCCTTCTCCCATCTTCCA-TCTGACCATGGTTGA
** * ** * *
60064877 TTGCGGATTTGATTTCCCTGAGCACATATCCATCATTTCATGGTACATGCATTCAGCAAAGCCTC
64 TCACGGATTTGATCTCAATGAGCACACATCCATCAGTTCATGGTACATGCATTCAGCAAAGCCTC
60064942 AGCACATATTTGTTGT
129 AGCACATATTTGTTGT
60064958 CAATAACTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
151 1 0.01
152 6 0.05
153 54 0.44
154 10 0.08
155 53 0.43
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (153 bp):
TCATCTTTATGCAGACATTAATGATGTCAAGCCTTCTCCCATCTTCCATCTGACCATGGTTGATC
ACGGATTTGATCTCAATGAGCACACATCCATCAGTTCATGGTACATGCATTCAGCAAAGCCTCAG
CACATATTTGTTGTGAATTTTTT
Found at i:60067348 original size:12 final size:12
Alignment explanation
Indices: 60067331--60067363 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60067321 TTCATTCGGT
*
60067331 TTATTAAATAAA
1 TTATTAAAAAAA
60067343 TTATTAAAAAAA
1 TTATTAAAAAAA
60067355 TT-TTAAAAA
1 TTATTAAAAA
60067364 TAAAAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTATTAAAAAAA
Found at i:60067532 original size:2 final size:2
Alignment explanation
Indices: 60067525--60067558 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
60067515 CTATCTATTA
60067525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60067559 GTATGTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60071134 original size:31 final size:31
Alignment explanation
Indices: 60071099--60071164 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
60071089 AAAATTACTT
60071099 AATAACCCAATGACTTAAATAAAAACTTTCA
1 AATAACCCAATGACTTAAATAAAAACTTTCA
** * * *
60071130 AATAATTCACTGGCTTAAATGAAAACTTTCA
1 AATAACCCAATGACTTAAATAAAAACTTTCA
60071161 AATA
1 AATA
60071165 GTTCAATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (31 bp):
AATAACCCAATGACTTAAATAAAAACTTTCA
Found at i:60071610 original size:5 final size:5
Alignment explanation
Indices: 60071599--60071632 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
60071589 TACGTAACAA
*
60071599 AAAATT AAATT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAA
60071633 GACGAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 23 0.88
6 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:60077559 original size:36 final size:37
Alignment explanation
Indices: 60077476--60077584 Score: 175
Period size: 36 Copynumber: 3.0 Consensus size: 37
60077466 TGTAAAAAAG
* * *
60077476 AAAGAAAAGAGAATTTTTGATTGACGTAGATAGTGCA
1 AAAGAAAAGAGAATTTTTTATTGATGTAGACAGTGCA
60077513 AAAGAAAAGAGAATTTTTTATTGATGTAGACAGTG-A
1 AAAGAAAAGAGAATTTTTTATTGATGTAGACAGTGCA
*
60077549 AAAGAAAAGAGAATTTTTTATTGATGTAGACTGTGC
1 AAAGAAAAGAGAATTTTTTATTGATGTAGACAGTGC
60077585 GAATGGAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 35 0.52
37 32 0.48
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (37 bp):
AAAGAAAAGAGAATTTTTTATTGATGTAGACAGTGCA
Found at i:60079778 original size:3 final size:3
Alignment explanation
Indices: 60079770--60079809 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
60079760 AAATAGATAT
60079770 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60079810 GAAATAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:60080583 original size:17 final size:18
Alignment explanation
Indices: 60080561--60080594 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60080551 TAAATGAGTT
60080561 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
60080578 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
60080595 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:60082588 original size:17 final size:17
Alignment explanation
Indices: 60082551--60082588 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
60082541 TTATTTTTAT
*
60082551 TATTATTATCGTATTAC
1 TATTATTATCATATTAC
60082568 TATTATTATCATCATTA-
1 TATTATTATCAT-ATTAC
60082585 TATT
1 TATT
60082589 GTTTCTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (17 bp):
TATTATTATCATATTAC
Found at i:60084193 original size:21 final size:21
Alignment explanation
Indices: 60084135--60084184 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
60084125 AGGCACTATA
* * *
60084135 TGTGTTGTATCAGGTACCTCG
1 TGTGTCGTATCAAGCACCTCG
60084156 TGTGTCGTATCAAGCACCTCG
1 TGTGTCGTATCAAGCACCTCG
60084177 TGTGTCGT
1 TGTGTCGT
60084185 TTTAGGCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAAGCACCTCG
Found at i:60089580 original size:115 final size:113
Alignment explanation
Indices: 60089434--60089663 Score: 338
Period size: 115 Copynumber: 2.0 Consensus size: 113
60089424 TATAAAATTG
* * *
60089434 TGGGGTCAAAGTTAAAATGCTTAAATTAAATTAGTACTTTTTTGAGGGGCCA-AATTAAAAAAAA
1 TGGGGCCAAAGTTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCACAATT-AAAAAAA
* * * *
60089498 ATCATTTGACCGACGTTTAAAAAACG-TTAAATTGATTTTTTTTTAAAGTTT
65 ATCATTTGACCAAAGTCTAAAAAACGCTT-AATTGA-ATTTTTTT-AAGTTT
60089549 TGGGGCCAAAGTTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCACAATTAAAAAAAA
1 TGGGGCCAAAGTTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCACAATTAAAAAAAA
*
60089614 TCATTTGACCAAAGTCTAAAAAAGGCTTAATTGAATTTTTTTAAGTTT
66 TCATTTGACCAAAGTCTAAAAAACGCTTAATTGAATTTTTTTAAGTTT
60089662 TG
1 TG
60089664 AGAGGGGCTA
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
113 8 0.08
114 7 0.07
115 84 0.80
116 6 0.06
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (113 bp):
TGGGGCCAAAGTTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCACAATTAAAAAAAA
TCATTTGACCAAAGTCTAAAAAACGCTTAATTGAATTTTTTTAAGTTT
Found at i:60090464 original size:21 final size:21
Alignment explanation
Indices: 60090440--60090483 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60090430 GAATCTTTAG
*
60090440 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
60090461 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
60090482 TA
1 TA
60090484 GTTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:60090580 original size:7 final size:8
Alignment explanation
Indices: 60090559--60090589 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
60090549 AAGATCATAG
60090559 AATTTTTT
1 AATTTTTT
60090567 AATTTTTT
1 AATTTTTT
60090575 AATTTTTT
1 AATTTTTT
60090583 AATTTTT
1 AATTTTT
60090590 CAAGGGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
AATTTTTT
Found at i:60091008 original size:19 final size:19
Alignment explanation
Indices: 60090981--60091031 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
60090971 AAAGTTTTAT
* *
60090981 TTTAATATTTTTCATAAGC
1 TTTACTATTTTTCACAAGC
*
60091000 TTTACTATTATTACACAAGC
1 TTTACTATT-TTTCACAAGC
*
60091020 TTTTCT-TTTTTC
1 TTTACTATTTTTC
60091032 TTTAACTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.12
19 10 0.38
20 13 0.50
ACGTcount: A:0.25, C:0.16, G:0.04, T:0.55
Consensus pattern (19 bp):
TTTACTATTTTTCACAAGC
Found at i:60092854 original size:15 final size:15
Alignment explanation
Indices: 60092828--60092872 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
60092818 CGAAAATATA
60092828 AAAAGAAAATAAAAAG
1 AAAA-AAAATAAAAAG
*
60092844 AAAACAAATAAAAAG
1 AAAAAAAATAAAAAG
*
60092859 AAAAAAAAGAAAAA
1 AAAAAAAATAAAAA
60092873 AATTAGAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.04
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:60092855 original size:26 final size:23
Alignment explanation
Indices: 60092820--60092875 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
60092810 TATATATACG
*
60092820 AAAATATAAAAAGAAAATAAAAAGA
1 AAAAAATAAAAAG-AAA-AAAAAGA
60092845 AAACAAATAAAAAGAAAAAAAAGA
1 AAA-AAATAAAAAGAAAAAAAAGA
60092869 AAAAAAT
1 AAAAAAT
60092876 TAGAGTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 6 0.21
26 9 0.31
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (23 bp):
AAAAAATAAAAAGAAAAAAAAGA
Found at i:60093548 original size:25 final size:26
Alignment explanation
Indices: 60093500--60093558 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
60093490 TTATTACTGT
* *
60093500 TATTT-TTATATTTATTACTAATATA
1 TATTTATTATAGTTACTACTAATATA
60093525 TATTTATTATAGTTACTACT-ATATA
1 TATTTATTATAGTTACTACTAATATA
*
60093550 TATATATTA
1 TATTTATTA
60093559 CATATATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (26 bp):
TATTTATTATAGTTACTACTAATATA
Found at i:60093877 original size:2 final size:2
Alignment explanation
Indices: 60093824--60093862 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
60093814 CATTATTATT
60093824 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60093863 GTACGTATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60098880 original size:159 final size:159
Alignment explanation
Indices: 60098590--60099006 Score: 633
Period size: 159 Copynumber: 2.6 Consensus size: 159
60098580 GTTTCATTTC
60098590 TGTGAGAAGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTACTTTCAAAAAAATC
1 TGTGAGAAGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTACTTTCAAAAAAATC
* * *
60098655 AACTCATATTACGAAAGGTGAGTTGAGCGTTGGCTCACGTGTTGAGTTACTTTCAATTTCTATTT
66 AACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTATTT
*
60098720 TTATGTTTGTTTTCTAAATCAACTCATAT
131 TTATGTCTGTTTTCTAAATCAACTCATAT
* * *
60098749 TGTGAGAGGTGAGTTAAGACTCGGGGCACGCCGAGGTATTTTCAAATTCTACCTTCAAAAAAATC
1 TGTGAGAAGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTACTTTCAAAAAAATC
*
60098814 AACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTGTTT
66 AACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTATTT
60098879 TTATGTCTGTTTTCTAAATCAACTCATAT
131 TTATGTCTGTTTTCTAAATCAACTCATAT
* * * * * *
60098908 TGCGAGAAGTGAGTTGAGCCTCGAGGTACGCTGAGGTATTTTCAATTATTGT--TTATCAAAAAA
1 TGTGAGAAGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAA--ATTCTACTT-TCAAAAAA
* *
60098971 ATCAACTCATATTGCTAGAGGTTG-GTTGAGCCTTGG
63 ATCAACTCATATTGCGAAAGG-TGAGTTGAGCCTTGG
60099007 GGCACGCTGA
Statistics
Matches: 235, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
159 190 0.81
160 39 0.17
161 6 0.03
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (159 bp):
TGTGAGAAGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTACTTTCAAAAAAATC
AACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTATTT
TTATGTCTGTTTTCTAAATCAACTCATAT
Found at i:60099089 original size:73 final size:73
Alignment explanation
Indices: 60098894--60099268 Score: 326
Period size: 73 Copynumber: 4.9 Consensus size: 73
60098884 TCTGTTTTCT
* * *
60098894 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGTAC-GCTGAGGTATTTTCAATTATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-GAACAGCTGAGGTATTTTCAATTACT
*
60098958 GTTTATCAAAA
64 GTTTAGC-AAA
* ** **
60098969 AAATCAACTCATATTGCTAGAGGTTG-GTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACT
1 AAATCAACTCATATTGCGAGAGG-TGAGTTGAGCCTCAGAACA-GCTGAGGTATTTTCAATTACT
*
60099033 GTTTGGC-AA
64 GTTTAGCAAA
* * * *
60099042 AAATCAACTCATACTGAGAGAGGTGAGTTGAGCCTCAGAACATGCTGAGGTATTTTCGATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACA-GCTGAGGTATTTTCAATTACTG
**
60099107 TTTTTCAATTTATGTTTTCAA
65 --------TTTA-G---CAAA
* **
60099128 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACA-GCTGAGGTATTTTCAATTACTG
*
60099193 TTTGGC-AA
65 TTTAGCAAA
* * * *
60099201 AAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACA-GCTGAGGTATTTTCAATTACTG
60099266 TTT
65 TTT
60099269 TTCAATTTAT
Statistics
Matches: 246, Mismatches: 37, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
72 2 0.01
73 120 0.49
75 55 0.22
76 2 0.01
77 1 0.00
78 3 0.01
81 3 0.01
82 1 0.00
86 59 0.24
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (73 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAGCTGAGGTATTTTCAATTACTGT
TTAGCAAA
Found at i:60099134 original size:234 final size:229
Alignment explanation
Indices: 60098735--60099268 Score: 617
Period size: 234 Copynumber: 2.3 Consensus size: 229
60098725 TTTGTTTTCT
* * *
60098735 AAATCAACTCATATTG-TGAGAGGTGAGTTAAGACTCGGGGCACGCCGAGGTATTTTCAAATTCT
1 AAATCAACTCATATTGCT-AGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATTCT
** * * ** * * *
60098799 ACCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCAC
64 -GTTTCAAAAAAATCAACTCATACTGAGAAAGGTGAGTTGAGCCTCAGC-AACATGCTGAGTCAC
* *
60098864 TTTCAATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
127 TTTCAATTTCTGTTTTTATGTATGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
* * *
60098929 CGAGGTACGCTGAGGTATTTTCAATTATTGTTTATCAAAA
192 CGAGGCACGCTGAGGTATTTTCAATTACTGTTTAGC--AA
*
60098969 AAATCAACTCATATTGCTAGAGGTTG-GTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACT
1 AAATCAACTCATATTGCTAGAGG-TGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT-CT
*** * *
60099033 GTTTGGCAAAAATCAACTCATACTGAGAGAGGTGAGTTGAGCCTCAG-AACATGCTGAGGT-ATT
64 GTTTCAAAAAAATCAACTCATACTGAGAAAGGTGAGTTGAGCCTCAGCAACATGCTGA-GTCACT
* * *
60099096 TTCGATTTCTGTTTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
128 TTCAATTTCTGTTTTT--ATGTATGTTTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
* *
60099161 CTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAA
190 CTCGAGGCACGCTGAGGTATTTTCAATTACTGTTTAGCAA
* * * * * *
60099201 AAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTG
1 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATTCTG
60099266 TTT
65 TTT
60099269 TTCAATTTAT
Statistics
Matches: 256, Mismatches: 35, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
231 26 0.10
232 58 0.23
233 54 0.21
234 115 0.45
235 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (229 bp):
AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCTGT
TTCAAAAAAATCAACTCATACTGAGAAAGGTGAGTTGAGCCTCAGCAACATGCTGAGTCACTTTC
AATTTCTGTTTTTATGTATGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAG
GCACGCTGAGGTATTTTCAATTACTGTTTAGCAA
Found at i:60099150 original size:159 final size:162
Alignment explanation
Indices: 60098967--60099629 Score: 681
Period size: 159 Copynumber: 4.0 Consensus size: 162
60098957 TGTTTATCAA
*
60098967 AAAAATCAACTCATATTGCTAGAGGTTG-GTTGAGCCTTGG-GGCACGCTGAGGTATTTTCAA-T
1 AAAAATCAACTCATATTGCGAGAGG-TGAGTTGAGCCTTGGTGGCACGCTGAGGTATTTTCAAGT
* *
60099029 TACTGTTTGGCAAAAATCAACTCATACTGAGAGAGGTGAGTTGAGCCTCAGAACATGCTGAGGTA
65 TACTGTTTGGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA
60099094 TTTTCGATTTCTGTTTTTCAATTTATG-TTTTC
130 TTTTCGATTTCTGTTTTTCAATTTATGCTTTTC
*
60099126 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GGCACGCTGAGGTATTTTCAA-TT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTGGCACGCTGAGGTATTTTCAAGTT
60099189 ACTGTTTGGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAT
66 ACTGTTTGGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAT
60099254 TTTCGATTTCTGTTTTTCAATTTATG-TTTTC
131 TTTCGATTTCTGTTTTTCAATTTATGCTTTTC
* * * * * * * *
60099285 AAAAATCAA-TGCATATTGCTAAAGGTGAATTGAGTCTCAGGTCGCATAGC-GAGGTATTTTTAA
1 AAAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCT-TGGTGGCA-CGCTGAGGTATTTTCAA
* * * * * * * *
60099348 TTTAC-GTTT-TCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATACGCCGA
63 GTTACTGTTTGGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACAT--GCTGA
* *
60099411 GGTATTTTCAATAGATGTT-T-TTTTTCAATTTCTGCTTCTC
126 GGTATTTTC----GAT-TTCTGTTTTTCAATTTATGCTTTTC
* * * **
60099451 AAAAAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGTCTTGGCTTACACGCTGAGGTATTTTC
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TGGCACGCTGAGGTATTTTC
** *
60099516 AAGTT-CTGTTTTTCAAAAAAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCG
61 AAGTTACTGTTTGGC-----AAAAA-TCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAG---G
* * *
60099580 -CACGCTGAGGTATTTTCAATTTTTCGTTTTTTCAATTTATGCTTTTC
117 ACATGCTGAGGTATTTTCGATTTCT-G-TTTTTCAATTTATGCTTTTC
60099627 AAA
1 AAA
60099630 TTCTACTTTC
Statistics
Matches: 428, Mismatches: 40, Indels: 59
0.81 0.08 0.11
Matches are distributed among these distances:
158 3 0.01
159 183 0.43
160 43 0.10
161 19 0.04
162 19 0.04
165 13 0.03
166 8 0.02
167 2 0.00
169 5 0.01
170 51 0.12
171 3 0.01
172 5 0.01
173 3 0.01
176 23 0.05
177 45 0.11
179 2 0.00
180 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (162 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTGGCACGCTGAGGTATTTTCAAGTT
ACTGTTTGGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAT
TTTCGATTTCTGTTTTTCAATTTATGCTTTTC
Found at i:60099175 original size:86 final size:87
Alignment explanation
Indices: 60099021--60099195 Score: 246
Period size: 86 Copynumber: 2.0 Consensus size: 87
60099011 CGCTGAGGTA
*
60099021 TTTTCAATTACTGTTTGGCAAAAATCAACTCATACTGAGAGAGGTGAGTTGAGCCTCAGAACATG
1 TTTTCAATTACTGTTTGGCAAAAATCAACTCATACTGAGAGAGGTGAGTTGAGCCTCAGAACACG
* *
60099086 CTGAGGTATTTTCGATTTCTGT
66 CTGAGGTATTTTCAATTACTGT
* * * * **
60099108 TTTTCAATTTA-TGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAA-TTACTGTTTGGCAAAAATCAACTCATACTGAGAGAGGTGAGTTGAGCCTCAGAACAC
60099171 GCTGAGGTATTTTCAATTACTGT
65 GCTGAGGTATTTTCAATTACTGT
60099194 TT
1 TT
60099196 GGCAAAAATC
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 63 0.81
87 12 0.15
88 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (87 bp):
TTTTCAATTACTGTTTGGCAAAAATCAACTCATACTGAGAGAGGTGAGTTGAGCCTCAGAACACG
CTGAGGTATTTTCAATTACTGT
Found at i:60099431 original size:74 final size:73
Alignment explanation
Indices: 60099267--60099431 Score: 233
Period size: 74 Copynumber: 2.2 Consensus size: 73
60099257 CGATTTCTGT
*
60099267 TTTTCAATTTATGTTTTCAAAAATCAATGCATATTGCTAAAGGTGAATTGAGTCTCAGGTCGCAT
1 TTTTCAATTTATGTTTTCAAAAATCAATGCATATTGCTAAAGGTGAATTGAGCCTCAGGTC-CAT
60099332 AGCGAGGTA
65 AGCGAGGTA
* * * *
60099341 TTTTTAATTTACGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGT-CATA
1 TTTTCAATTTATGTTTTCAAAAATCAATGCATATTGCTAAAGGTGAATTGAGCCTCAGGTCCATA
60099405 CGCCGAGGTA
66 -G-CGAGGTA
**
60099415 TTTTCAATAGATGTTTT
1 TTTTCAATTTATGTTTT
60099432 TTTTCAATTT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
72 4 0.05
73 1 0.01
74 75 0.94
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (73 bp):
TTTTCAATTTATGTTTTCAAAAATCAATGCATATTGCTAAAGGTGAATTGAGCCTCAGGTCCATA
GCGAGGTA
Found at i:60099565 original size:81 final size:79
Alignment explanation
Indices: 60099432--60099598 Score: 226
Period size: 81 Copynumber: 2.1 Consensus size: 79
60099422 TAGATGTTTT
* * * * **
60099432 TTTTCAATTTCTGCTTCTCAAAAAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGTCTTGGCT
1 TTTTCAAGTTCTGCTTCTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCT
*
60099497 TACACGCTGAGGTA
66 CACACGCTGAGGTA
* *
60099511 TTTTCAAGTTCTGTTTTTCAAAAAAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTCAAGTTCTGCTTCTC-AAAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
60099576 CTCGCACGCTGAGGTA
64 CTCACACGCTGAGGTA
60099592 TTTTCAA
1 TTTTCAA
60099599 TTTTTCGTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
79 16 0.21
80 9 0.12
81 51 0.67
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (79 bp):
TTTTCAAGTTCTGCTTCTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCT
CACACGCTGAGGTA
Found at i:60099789 original size:89 final size:90
Alignment explanation
Indices: 60099619--60099789 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 90
60099609 TTTCAATTTA
* * * *
60099619 TGCTTTTCAAATTCTACTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGT
1 TGCTTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCT
*
60099684 CACATGTCAAGGTATTTTCAAAATC
66 CACATGTCAAGCTATTTTCAAAATC
* *
60099709 TGCTTTTCAAATT-AAGTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGCT
1 TGCTTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCT
* **
60099773 CACGTGTTGAGCTATTT
66 CACATGTCAAGCTATTT
60099790 CTGTTTTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 58 0.82
90 13 0.18
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (90 bp):
TGCTTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCT
CACATGTCAAGCTATTTTCAAAATC
Found at i:60102407 original size:22 final size:21
Alignment explanation
Indices: 60102379--60102431 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
60102369 AAGTAGTATA
*
60102379 TATATATATT-GACTATTTCATG
1 TATATATATTCGAATA-TT-ATG
60102401 TATATAT-TTCGAATATTATG
1 TATATATATTCGAATATTATG
60102421 TATAGTATATT
1 TATA-TATATT
60102432 TCTGACACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.26
21 7 0.26
22 13 0.48
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (21 bp):
TATATATATTCGAATATTATG
Found at i:60104182 original size:37 final size:38
Alignment explanation
Indices: 60104082--60104183 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
60104072 ATATATTTGG
60104082 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
60104118 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
60104160 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
60104184 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:60106111 original size:26 final size:26
Alignment explanation
Indices: 60106074--60106157 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
60106064 TGATACAAAT
* *
60106074 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
60106100 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
60106126 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
60106152 TGATAA
1 TGATAA
60106158 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:60111811 original size:26 final size:26
Alignment explanation
Indices: 60111774--60111857 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
60111764 TGATACAAAT
* *
60111774 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
60111800 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
60111826 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
60111852 TGATAA
1 TGATAA
60111858 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:60113377 original size:25 final size:26
Alignment explanation
Indices: 60113336--60113387 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
60113326 ATTTACAGTT
60113336 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
60113361 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
60113387 T
1 T
60113388 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:60114584 original size:30 final size:30
Alignment explanation
Indices: 60114534--60114595 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
60114524 TTTTGAAAAA
60114534 CAGAAATTAAAAGACCCAACTCA-ACTCTCG
1 CAGAAATTAAAAGACCCAACTCACA-TCTCG
*
60114564 CAGAAATTAAAA-AGCTCAACTCACATCTCG
1 CAGAAATTAAAAGA-CCCAACTCACATCTCG
60114594 CA
1 CA
60114596 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 1 0.03
30 27 0.93
31 1 0.03
ACGTcount: A:0.44, C:0.29, G:0.10, T:0.18
Consensus pattern (30 bp):
CAGAAATTAAAAGACCCAACTCACATCTCG
Found at i:60114827 original size:79 final size:77
Alignment explanation
Indices: 60114729--60114932 Score: 257
Period size: 78 Copynumber: 2.6 Consensus size: 77
60114719 ACCTCGACAT
* * * * *
60114729 GTGACCCAAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAA
1 GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
* *
60114794 AAATGCCTCAGTGT
66 AAA-G-CTCAGCGC
* * * *
60114808 GTGATCTGAA-GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
1 GTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTGA
*
60114872 AAATAGCTCAGCGC
64 AAAAAGCTCAGCGC
60114886 GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
60114933 TTTTGAAAGG
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
77 9 0.08
78 40 0.37
79 33 0.31
80 26 0.24
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (77 bp):
GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
AAAGCTCAGCGC
Found at i:60114905 original size:78 final size:80
Alignment explanation
Indices: 60114729--60115197 Score: 329
Period size: 75 Copynumber: 5.8 Consensus size: 80
60114719 ACCTCGACAT
* * * * *
60114729 GTGACCCAAGGCTCAACTCACATCTCGCAATGTGAGTTGA-TTTTTTTGAAAAATATAAATTGAA
1 GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAA
* *
60114793 AAAATGCCTCAGTGT
66 AAAATGCCTCAGCGC
** *
60114808 GTGATCTGAA-GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
1 GTGA-CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
*
60114872 AAATA-G-CTCAGCGC
65 AAAAATGCCTCAGCGC
* *
60114886 GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATT
1 GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTTGAAAGACAGAAATT
** *
60114951 GAAAAACGGAAATTGAAAATACCTTGGCGT
63 G--AAA---AAA-TG------CCTCAGCGC
** * * * *
60114981 GTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGA-TTTTTTTGACA-ACAGAAATTG--
1 GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAA
* *
60115042 AAATTACCTCA--GC
66 AAAATGCCTCAGCGC
* ** * *
60115055 GTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTG--
1 GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAA
*
60115117 AAAATACCTCA--GC
66 AAAATGCCTCAGCGC
* * *** ** * *
60115130 ATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTGAAAAACAGAAATTGA
1 GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTGA
60115195 AAA
65 AAA
60115198 TACCTCAGCA
Statistics
Matches: 319, Mismatches: 46, Indels: 50
0.77 0.11 0.12
Matches are distributed among these distances:
74 46 0.14
75 56 0.18
76 3 0.01
77 24 0.08
78 39 0.12
79 34 0.11
80 27 0.08
81 22 0.07
82 1 0.00
83 5 0.02
86 3 0.01
88 1 0.00
90 9 0.03
91 10 0.03
95 39 0.12
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (80 bp):
GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAA
AAAATGCCTCAGCGC
Found at i:60114914 original size:245 final size:240
Alignment explanation
Indices: 60114575--60115298 Score: 688
Period size: 252 Copynumber: 3.0 Consensus size: 240
60114565 AGAAATTAAA
* *
60114575 AAGCTCAACTCACATCTCGCAATATGAGTTGAATTTTTTTGAAAA-A-AAA-TGAAAAAAGCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAACAGAAATTGAAAATAGCTCA
*
60114637 GCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAG-AATCT
65 GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAT-T
** * **
60114699 GAAAAACAGATTTTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCGCAATGTGA
129 GAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCACAATACGA
* * * * *
60114764 GTTGATTTTTTTGAAAAATATAAATTGAAAAAATGCCTCAGTGTGTGATCTG
194 GTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCAGCGTGT--CCTG
*
60114816 AAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATAGCTC
* *
60114881 AGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGGCAG
64 AGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTGAAAGACAG
* * * * ** * *
60114946 AAATTGAAAAACGGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAA
124 AAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCACAA
* *
60115011 TACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTG
189 TACGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
* * *
60115063 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATAGCTCA
* ** ** * *
60115128 GCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTT-----------TTT
65 GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATT
*** * ** * *
60115179 GAAAAACAGAAATTGAAAATACCTC-AGCATGT--CTTGAGGCTCAACTAATTTCTCGCAATATG
129 GAAAAACAGAAATTGAAAATACCTCGA-CATGTGACCCAAGGCTCAACTCACATCTCACAATACG
* * *
60115241 AGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTG
193 AGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
*
60115287 AGGCTCAACTCA
1 AAGCTCAACTCA
60115299 TTTTGAACAG
Statistics
Matches: 415, Mismatches: 52, Indels: 49
0.80 0.10 0.09
Matches are distributed among these distances:
224 49 0.12
226 29 0.07
228 29 0.07
239 6 0.01
240 1 0.00
241 40 0.10
242 1 0.00
243 2 0.00
244 34 0.08
245 54 0.13
246 30 0.07
247 35 0.08
249 14 0.03
251 19 0.05
252 69 0.17
253 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (240 bp):
AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATAGCTCAG
CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGA
AAAACAGAAATTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCACAATACGAGT
TGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:60115018 original size:95 final size:95
Alignment explanation
Indices: 60114854--60115027 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 95
60114844 TTGATTTTTT
* * * *
60114854 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
60114919 GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
* ** * * *
60114949 TTGAAAAACGGAAATTGAAAATACCTTGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
60115013 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
60115028 GACAACAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
94 2 0.03
95 66 0.97
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (95 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
Found at i:60115028 original size:252 final size:242
Alignment explanation
Indices: 60114575--60115197 Score: 719
Period size: 252 Copynumber: 2.6 Consensus size: 242
60114565 AGAAATTAAA
* *
60114575 AAGCTCAACTCACATCTCGCAATATGAGTTGAATTTTTTTGAAAA-A-AAA-TGAAAAAAGCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAACAGAAATTGAAAATAGCTCA
*
60114637 GCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA----TTTTTGAAAACAG-AAT
65 GCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAAT
** * **
60114697 CTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCGCAATGT
130 -TGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCACAATAC
* * * * *
60114762 GAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATGCCTCAGTGTGTGATCTG
194 GAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCAGCGTGT--CCTG
*
60114816 AAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATAGCTC
* *
60114881 AGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGGCAG
64 AGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTTTTTGAAA-ACAG
* * * * ** * *
60114946 AAATTGAAAAACGGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAA
126 AAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCACAA
* *
60115011 TACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTG
191 TACGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
* * *
60115063 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATAGCTCA
* * ** * *
60115128 --GCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTGAAAAACAGAA
65 GCGCGTGAGC-CAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTG-AAAACAGAA
60115190 ATTGAAAA
128 ATTGAAAA
60115198 TACCTCAGCA
Statistics
Matches: 328, Mismatches: 38, Indels: 31
0.83 0.10 0.08
Matches are distributed among these distances:
240 1 0.00
241 40 0.12
242 24 0.07
243 5 0.02
244 36 0.11
245 54 0.16
246 28 0.09
247 35 0.11
249 14 0.04
251 19 0.06
252 69 0.21
253 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (242 bp):
AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATAGCTCAG
CGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATT
GAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:60115204 original size:77 final size:75
Alignment explanation
Indices: 60114949--60115301 Score: 453
Period size: 77 Copynumber: 4.7 Consensus size: 75
60114939 AAGGCAGAAA
* ** * *** *
60114949 TTGAAAAACGGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAT
60115014 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * ** **
60115026 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
60115090 GTTGATTTTT
66 GTTGATTTTT
*
60115100 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
60115165 GTTGATTTTTTT
66 GTTGA--TTTTT
* * *
60115177 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
60115242 GTTGA--ATT
66 GTTGATTTTT
*
60115250 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
60115302 TGAACAGAAA
Statistics
Matches: 250, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
72 46 0.18
73 5 0.02
74 40 0.16
75 58 0.23
76 25 0.10
77 76 0.30
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:60115274 original size:149 final size:148
Alignment explanation
Indices: 60114949--60115301 Score: 458
Period size: 149 Copynumber: 2.4 Consensus size: 148
60114939 AAGGCAGAAA
* ** * * ***
60114949 TTGAAAAACGGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCACAATAC
* * * *
60115014 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTC
* *
60115079 TCGTAATATGAGTTGATTTTT
129 TCGCAATATGAGTTGA-TATT
*
60115100 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATACGA
* **
60115165 GTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTT
66 GTTGA--TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCT
60115230 CTCGCAATATGAGTTGA-ATT
128 CTCGCAATATGAGTTGATATT
* *
60115250 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTT
60115302 TGAACAGAAA
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
149 78 0.44
150 5 0.03
151 38 0.21
152 58 0.32
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (148 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTC
GCAATATGAGTTGATATT
Found at i:60115321 original size:49 final size:49
Alignment explanation
Indices: 60115255--60115350 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
60115245 GAATTTTGAA
*
60115255 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
60115304 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
60115351 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:60115521 original size:54 final size:55
Alignment explanation
Indices: 60115423--60115528 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 55
60115413 GAACCGAGGC
* *
60115423 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGAT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGAT
* *
60115477 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CAGAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
60115529 TACCTCAGCG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 35 0.76
55 11 0.24
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGAT
Found at i:60115607 original size:127 final size:128
Alignment explanation
Indices: 60115386--60116120 Score: 972
Period size: 140 Copynumber: 5.5 Consensus size: 128
60115376 TTTTTGAAAG
60115386 ACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGCTG
1 ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
*
60115450 ATTTTGAAAAAGTAGAAATTAAAAGATTCAACCCACCTCTCGCAATATGAGTTGATTCTTG-AAC
63 ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAAAC
60115514 A
128 A
60115515 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
*
60115580 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTG-AACA
66 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAAACA
* **
60115642 ATAGAAATTGAAAATACCTCAATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
*
60115707 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACG
66 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTG-A-AAC-
60115772 TAAATTGAAA
128 ---------A
* *
60115782 ACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
* *
60115847 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCTCCTCTCGCAATATGAGTTAATTCTTGAACAACG
66 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTG-A-AAC-
60115912 TAAATTGAAA
128 ---------A
60115922 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
* *
60115987 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACATCTTGCAATATGAGTTGATTCTTAAACAACG
66 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTT-------G
*
60116052 TAAATTGAAA
124 --AA---ACA
*
60116062 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAG
1 ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60116121 TTGAAATTAA
Statistics
Matches: 560, Mismatches: 21, Indels: 39
0.90 0.03 0.06
Matches are distributed among these distances:
126 3 0.01
127 218 0.39
129 23 0.04
130 3 0.01
140 308 0.55
147 2 0.00
148 2 0.00
150 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (128 bp):
ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAAACA
Found at i:60115618 original size:54 final size:55
Alignment explanation
Indices: 60115550--60115655 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 55
60115540 GACCTGAGGC
*
60115550 TCAACTCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTCTTGAAAAA-TAGAAATTGAAAAGGT
* * *
60115604 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAATAGAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATTCTTGAAAAATAGAAATTGAAAA
60115656 TACCTCAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 35 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTCTTGAAAAATAGAAATTGAAAAGGT
Found at i:60115777 original size:54 final size:54
Alignment explanation
Indices: 60115677--60115782 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
60115667 GACCTGAGGC
*
60115677 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
60115731 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
60115783 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:60116057 original size:54 final size:54
Alignment explanation
Indices: 60115957--60116062 Score: 119
Period size: 54 Copynumber: 1.9 Consensus size: 54
60115947 GACCTGAGGC
* *
60115957 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACATCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
60116011 TCAACCCACATCTTGCAATATGAGTTGATTCTT-AAACAACGT-AAATTGAAAA
1 TCAACCCACATCTCGCAATATGAGCTGATT-TTGAAA-AA-GTAAAATTGAAAA
60116063 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
54 34 0.77
55 8 0.18
56 2 0.05
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (54 bp):
TCAACCCACATCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:60116187 original size:72 final size:71
Alignment explanation
Indices: 60116053--60116218 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
60116043 TAAACAACGT
* * * *
60116053 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTTGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
60116118 GAGTTG
66 GAGTTG
*
60116124 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
60116189 TGAGTTG
65 TGAGTTG
**
60116196 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
60116219 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:60116313 original size:122 final size:125
Alignment explanation
Indices: 60116093--60116340 Score: 369
Period size: 122 Copynumber: 2.0 Consensus size: 125
60116083 GCGTGACCTG
* * *
60116093 AGGCTCAACTCACCTCTTGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
60116158 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA-ACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACA-AAAAATTAAA
* * * * *
60116218 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATGCCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
60116280 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAAATTAAA
60116340 A
1 A
60116341 TTACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 77 0.69
123 8 0.07
124 1 0.01
125 26 0.23
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAAATTAAA
Found at i:60116368 original size:72 final size:70
Alignment explanation
Indices: 60116218--60116393 Score: 203
Period size: 72 Copynumber: 2.5 Consensus size: 70
60116208 AAAAATTAAA
* * * * * * *
60116218 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATGCCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
60116282 CCCCG
66 CCCCG
* *
60116287 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAAATTAAAATTACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAC-AAAAACTAAAAATACCTCAACG
* **
60116352 TGTCTTG
64 TGCCCCG
60116359 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
60116394 CCCTTGAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
69 26 0.29
70 5 0.05
71 6 0.07
72 54 0.59
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:60124700 original size:12 final size:12
Alignment explanation
Indices: 60124680--60124715 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
60124670 TGGGATATGC
*
60124680 AATGTATGAATG
1 AATGCATGAATG
*
60124692 AATGCATGAATA
1 AATGCATGAATG
60124704 AATGCATGAATG
1 AATGCATGAATG
60124716 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:60126447 original size:37 final size:38
Alignment explanation
Indices: 60126347--60126448 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
60126337 ATATATTTGG
60126347 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
60126383 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
60126425 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
60126449 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:60138656 original size:87 final size:87
Alignment explanation
Indices: 60138495--60138822 Score: 482
Period size: 87 Copynumber: 3.8 Consensus size: 87
60138485 CTGTTCTCAG
60138495 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACACGCTGAGGTAATTTCAATTT
60138557 CTGTCTTTAATTTCTACTTTTCC
65 CTGTCTTTAATTTCTACTTTTCC
* *
60138580 AAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGTTCACACGCTTAGGTAATTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACACGCTGAGGTAATTTCAATTTC
60138645 TGTCTTTAATTTCTACTTTTCC
66 TGTCTTTAATTTCTACTTTTCC
* * * *
60138667 AAATAAACTCATATTGCGAGAGATGAGTTGAGCCTCAGTTCACACGCTGAGGTAATTTCAATTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACACGCTGAGGTAATTTCAATTTC
*
60138732 TGTCTTTAATTTCTAGTTTTCC
66 TGTCTTTAATTTCTACTTTTCC
* * * ** * * * *
60138754 AAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTTGGGCCACATGCCGAGGTATTTTCAAATTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACACGCTGAGGTAATTTCAATTTC
60138819 TGTC
66 TGTC
60138823 CTTCAAATTC
Statistics
Matches: 218, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
84 2 0.01
85 35 0.16
87 181 0.83
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (87 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACACGCTGAGGTAATTTCAATTTC
TGTCTTTAATTTCTACTTTTCC
Found at i:60139903 original size:16 final size:16
Alignment explanation
Indices: 60139879--60139919 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
60139869 CCCTGAGCAC
*
60139879 CCCAGCGCCGCAATGT
1 CCCATCGCCGCAATGT
60139895 CCCATCGCCGCAATGT
1 CCCATCGCCGCAATGT
60139911 CCCATCGCC
1 CCCATCGCC
60139920 CATGCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.49, G:0.20, T:0.15
Consensus pattern (16 bp):
CCCATCGCCGCAATGT
Found at i:60140723 original size:30 final size:31
Alignment explanation
Indices: 60140644--60140720 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
60140634 AAGTCCCTCT
*
60140644 CTTTGTTTTTATTTTTAAAATTACCCCAAAG
1 CTTTGTTTTTATTTTTAAAATTACCCCAAAA
60140675 CTTTGTTTTTATTTTTAAAATTACCCCAAAA
1 CTTTGTTTTTATTTTTAAAATTACCCCAAAA
*
60140706 CTTTGTTTTTGTTTT
1 CTTTGTTTTTATTTT
60140721 AAATTTAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.55
Consensus pattern (31 bp):
CTTTGTTTTTATTTTTAAAATTACCCCAAAA
Found at i:60140790 original size:21 final size:21
Alignment explanation
Indices: 60140766--60140810 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
60140756 CGTATTGTCT
*
60140766 TTATT-TTCTTTTTATATATTA
1 TTATTGTTATTTTTATAT-TTA
60140787 TTATTGTTATTTTTATATTTA
1 TTATTGTTATTTTTATATTTA
60140808 TTA
1 TTA
60140811 CTAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTGTTATTTTTATATTTA
Found at i:60141227 original size:21 final size:21
Alignment explanation
Indices: 60141185--60141227 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60141175 TATAAATATA
* *
60141185 TATATATATATCATATAGGTT
1 TATATACATATCATACAGGTT
*
60141206 TATATACATATCATACATGTT
1 TATATACATATCATACAGGTT
60141227 T
1 T
60141228 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (21 bp):
TATATACATATCATACAGGTT
Found at i:60141940 original size:26 final size:25
Alignment explanation
Indices: 60141903--60141986 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
60141893 TGATACAAAT
*
60141903 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
60141929 TGATAATGGGTTAGGTAAATGGTTCA
1 TGATAATGGGTTAGGTAAAT-GTTCA
60141955 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
60141981 TGATAA
1 TGATAA
60141987 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
25 1 0.02
26 51 0.93
27 3 0.05
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:60143477 original size:25 final size:26
Alignment explanation
Indices: 60143449--60143500 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
60143439 TTTACAGTTT
60143449 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
60143474 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
60143500 T
1 T
60143501 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:60147716 original size:25 final size:25
Alignment explanation
Indices: 60147658--60147740 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
60147648 TGATACAAAT
*
60147658 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
60147684 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
60147709 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
60147735 TGATAA
1 TGATAA
60147741 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
25 23 0.42
26 32 0.58
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:60149244 original size:25 final size:26
Alignment explanation
Indices: 60149216--60149267 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
60149206 TTTACAGTTT
60149216 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
60149241 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
60149267 T
1 T
60149268 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:60150385 original size:2 final size:2
Alignment explanation
Indices: 60150378--60150415 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
60150368 GGGTGCTACA
60150378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60150416 TCCTAGATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60150877 original size:20 final size:22
Alignment explanation
Indices: 60150835--60150880 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
60150825 AAGTAGTATA
*
60150835 TATATATTTTGACTATTTCATG
1 TATATATTTTGAATATTTCATG
60150857 TATATATTTTGAATA-TT-ATG
1 TATATATTTTGAATATTTCATG
60150877 TATA
1 TATA
60150881 GTATATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
22 14 0.61
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TATATATTTTGAATATTTCATG
Found at i:60152517 original size:29 final size:29
Alignment explanation
Indices: 60152452--60152520 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
60152442 ATTGATCTTA
* **
60152452 TAATTTGATTATTTTAATACTACAAGGGT
1 TAATTTGATTATTTTAATAATACAAGGAC
* *
60152481 TAAATTGATCTA-TTTAATAATAGAAGGAC
1 TAATTTGAT-TATTTTAATAATACAAGGAC
60152510 TAATTTGATTA
1 TAATTTGATTA
60152521 GATACCAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 2 0.06
29 29 0.88
30 2 0.06
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (29 bp):
TAATTTGATTATTTTAATAATACAAGGAC
Found at i:60154651 original size:2 final size:2
Alignment explanation
Indices: 60154638--60154696 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
60154628 TCAATTCTTT
* * *
60154638 TA TA TA TG TA TA TA TA TA CA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60154680 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
60154697 TATTTTTCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:60155419 original size:2 final size:2
Alignment explanation
Indices: 60155414--60155445 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
60155404 GAATATATTC
60155414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60155446 TACAAAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60157742 original size:12 final size:12
Alignment explanation
Indices: 60157725--60157767 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
60157715 CTCTTAAACC
60157725 TATTTAAATTAA
1 TATTTAAATTAA
60157737 TATTTATAATTAA
1 TATTTA-AATTAA
*
60157750 -ATTTTAAATAAA
1 TA-TTTAAATTAA
60157762 TATTTA
1 TATTTA
60157768 TTAATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTTAAATTAA
Found at i:60157941 original size:23 final size:22
Alignment explanation
Indices: 60157898--60157941 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
60157888 AAAATTAAAA
* * *
60157898 TTTTATTATTTTAATAGATTAT
1 TTTTATAATTTTAAAAAATTAT
60157920 TTTTATAATTTTTAAAAAATTA
1 TTTTATAA-TTTTAAAAAATTA
60157942 AATTAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTATAATTTTAAAAAATTAT
Found at i:60159191 original size:11 final size:11
Alignment explanation
Indices: 60159168--60159200 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
60159158 CTTACCTTCA
*
60159168 TTTTT-TTTAT
1 TTTTTATTTTT
60159178 TTTTTATTTTT
1 TTTTTATTTTT
60159189 TTTTTATTTTT
1 TTTTTATTTTT
60159200 T
1 T
60159201 ATAAATGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:60159191 original size:18 final size:18
Alignment explanation
Indices: 60159168--60159202 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60159158 CTTACCTTCA
60159168 TTTTTTTTATTTTTTATT
1 TTTTTTTTATTTTTTATT
60159186 TTTTTTTTATTTTTTAT
1 TTTTTTTTATTTTTTAT
60159203 AAATGAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTTTTATTTTTTATT
Found at i:60164646 original size:35 final size:35
Alignment explanation
Indices: 60164600--60164705 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
60164590 CACTTGCCTC
*
60164600 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60164635 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
60164670 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60164705 T
1 T
60164706 CACACGCCCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.17, C:0.49, G:0.11, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:60165147 original size:31 final size:31
Alignment explanation
Indices: 60165105--60165179 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
60165095 AAAGAGGGGA
*
60165105 AGCAAAAAAAAAAATCCA-ACAAAAAA-TTCC
1 AGCAAAAAAAAAATTCCAGA-AAAAAATTTCC
60165135 AGCACCAAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAA-TTCCAGAAAAAAATTTCC
60165169 AGCAAAAAAAA
1 AGCAAAAAAAA
60165180 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 4 0.10
32 16 0.41
33 10 0.26
34 9 0.23
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (31 bp):
AGCAAAAAAAAAATTCCAGAAAAAAATTTCC
Found at i:60165149 original size:33 final size:33
Alignment explanation
Indices: 60165107--60165179 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
60165097 AGAGGGGAAG
60165107 CAAAAAAAAAAATCCA-ACAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAGA-AAAAAATTTCCAGCA
**
60165139 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
60165173 -AAAAAAA
1 CAAAAAAA
60165180 CCAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 7 0.19
33 20 0.56
34 9 0.25
ACGTcount: A:0.64, C:0.19, G:0.04, T:0.12
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:60165160 original size:14 final size:15
Alignment explanation
Indices: 60165143--60165178 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
60165133 CCAGCACCAA
60165143 AAAAAAATTTCCAG-
1 AAAAAAATTTCCAGC
60165157 AAAAAAATTTCCAGC
1 AAAAAAATTTCCAGC
60165172 AAAAAAA
1 AAAAAAA
60165179 ACCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAAATTTCCAGC
Found at i:60165466 original size:11 final size:11
Alignment explanation
Indices: 60165437--60165486 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
60165427 CGACCGGATT
* *
60165437 TCCCTTCCCCC
1 TCCCTTCTCTC
60165448 TCCCTTCTCTC
1 TCCCTTCTCTC
60165459 TCCCTTCTCTC
1 TCCCTTCTCTC
60165470 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
60165481 TTCCTT
1 TCCCTT
60165487 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:60166071 original size:2 final size:2
Alignment explanation
Indices: 60166001--60166055 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
60165991 ATCATTTCTA
* * *
60166001 AT AT GT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
60166041 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
60166056 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:60166234 original size:2 final size:2
Alignment explanation
Indices: 60166217--60166255 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
60166207 GTGTATATTT
* *
60166217 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60166256 TTTGCACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:60178381 original size:70 final size:70
Alignment explanation
Indices: 60178294--60178882 Score: 944
Period size: 70 Copynumber: 8.2 Consensus size: 70
60178284 CAAGTGACAG
* *
60178294 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATCTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60178359 GTTTC
66 GTTTC
60178364 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60178429 GTTTC
66 GTTTC
* *
60178434 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60178499 GTTTC
66 GTTTC
* *
60178504 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCACAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
60178569 AATTTATGTTTC
59 AATTTATGTTTC
*
60178581 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60178646 GTTTC
66 GTTTC
*
60178651 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60178716 GTTTC
66 GTTTC
*
60178721 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
60178786 AATTTATGTTTC
59 AATTTATGTTTC
* *
60178798 AAAATCAACTCATATGGCGAGAGGTCAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60178863 GTTTC
66 GTTTC
60178868 AAAAATCAACTCATA
1 -AAAATCAACTCATA
60178883 GGTGAGTTGA
Statistics
Matches: 486, Mismatches: 18, Indels: 29
0.91 0.03 0.05
Matches are distributed among these distances:
70 332 0.68
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 128 0.26
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:60178580 original size:77 final size:77
Alignment explanation
Indices: 60178488--60178860 Score: 585
Period size: 77 Copynumber: 5.0 Consensus size: 77
60178478 GTTGAGGTAA
* *
60178488 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCACAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
60178553 GGTAATTTCAAT
66 GGTAATTTCAAT
*
60178565 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
60178630 GG-----T-AA-
66 GGTAATTTCAAT
*
60178635 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
60178700 GG-----T-AA-
66 GGTAATTTCAAT
*
60178705 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
60178770 GGTAATTTCAAT
66 GGTAATTTCAAT
* *
60178782 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTCAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
60178847 GGTAATTTCAAT
66 GGTAATTTCAAT
60178859 TT
1 TT
60178861 ATGTTTCAAA
Statistics
Matches: 279, Mismatches: 10, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
70 133 0.48
71 2 0.01
72 1 0.00
75 1 0.00
76 2 0.01
77 140 0.50
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAAT
Found at i:60178642 original size:147 final size:140
Alignment explanation
Indices: 60178294--60178882 Score: 944
Period size: 147 Copynumber: 4.1 Consensus size: 140
60178284 CAAGTGACAG
* *
60178294 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATCTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60178359 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
60178424 TTTATGTTTC
131 TTTATGTTTC
* *
60178434 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* *
60178499 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCACAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
60178564 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
60178581 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
60178646 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
60178711 TTTATGTTTC
131 TTTATGTTTC
*
60178721 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
* *
60178786 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTCAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
60178851 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
60178868 AAAAATCAACTCATA
1 -AAAATCAACTCATA
60178883 GGTGAGTTGA
Statistics
Matches: 417, Mismatches: 17, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
140 180 0.43
141 2 0.00
142 1 0.00
145 2 0.00
146 4 0.01
147 214 0.51
148 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:60178662 original size:217 final size:217
Alignment explanation
Indices: 60178294--60178882 Score: 1066
Period size: 217 Copynumber: 2.7 Consensus size: 217
60178284 CAAGTGACAG
* *
60178294 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA--TC-----TC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
60178352 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
60178417 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCAAGACACGTTG
60178482 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
*
60178504 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCACAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
60178569 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
*
60178634 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCAAGACACGTTG
60178699 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
60178721 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
60178786 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTCAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
60178851 ATTTCAATTTATGTTTCAAAAATCAACTCATA
131 ATTTCAATTTATGTTTC-AAAATCAACTCATA
60178883 GGTGAGTTGA
Statistics
Matches: 364, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
210 51 0.14
212 2 0.01
217 297 0.82
218 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:60178936 original size:147 final size:142
Alignment explanation
Indices: 60178314--60178983 Score: 659
Period size: 147 Copynumber: 4.7 Consensus size: 142
60178304 CACATTGCGA
* *
60178314 GAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA--TC----T-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
60178372 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
60178437 ATCAACTCATATT
131 ATCAACTCA-ATT
* * * *
60178450 GCGAGAGGTGAGTTAAGCATCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
* *
60178508 TCAACTCATATTGCGAGAGGTGAGTTGAGCCACAAAACACGTTGAGGTAATTTCAATTTTCAATT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTCAATT
*
60178573 TATGTTTCAAAATCAACTCATATGGCGA
120 TATGTTTCAAAATCAACTCA-AT----T
* *
60178601 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
*
60178659 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
60178724 ATCAACTCATATT
131 ATCAACTCA-ATT
* *
60178737 GCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
* *
60178802 TCAACTCATATGGCGAGAGGTCAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
60178867 CAAAAATCAACTC-A-T
127 C-AAAATCAACTCAATT
**** * * *
60178882 -AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTCCTGTTTTT
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA------A-TTTCCAATT--TATGTTT
*
60178946 CAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
57 C-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
60178984 GTTAATTTCT
Statistics
Matches: 466, Mismatches: 27, Indels: 64
0.84 0.05 0.11
Matches are distributed among these distances:
137 1 0.00
140 185 0.40
141 2 0.00
142 1 0.00
145 3 0.01
146 9 0.02
147 215 0.46
148 11 0.02
149 6 0.01
150 33 0.07
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (142 bp):
GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
ATCAACTCAATT
Found at i:60179025 original size:54 final size:52
Alignment explanation
Indices: 60178933--60179087 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
60178923 TCTACTTTCC
* *
60178933 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
60178987 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
60179038 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
60179087 A
1 A
60179088 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:60179836 original size:34 final size:35
Alignment explanation
Indices: 60179793--60179897 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
60179783 CACTTGCCTC
60179793 TTCCCACTCTCCCATGCTGTCTGCCACCA-CACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60179827 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
60179862 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60179897 T
1 T
60179898 CACACACCCC
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
34 29 0.43
35 38 0.57
ACGTcount: A:0.16, C:0.50, G:0.11, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:60180347 original size:32 final size:30
Alignment explanation
Indices: 60180297--60180370 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 30
60180287 AAAGAGGGGA
60180297 AGCAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAATCCAG-AAAAAATTTCC
**
60180327 AGCACCAAAAAAAATTTCCAGAAAAAATTTCC
1 AGCA--AAAAAAAAAATCCAGAAAAAATTTCC
60180359 AGCAAAAAAAAA
1 AGCAAAAAAAAA
60180371 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 12 0.31
31 6 0.15
32 21 0.54
ACGTcount: A:0.62, C:0.19, G:0.07, T:0.12
Consensus pattern (30 bp):
AGCAAAAAAAAAAATCCAGAAAAAATTTCC
Found at i:60180353 original size:13 final size:14
Alignment explanation
Indices: 60180335--60180367 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
60180325 CCAGCACCAA
60180335 AAAAAATTTCCAG-
1 AAAAAATTTCCAGC
60180348 AAAAAATTTCCAGC
1 AAAAAATTTCCAGC
60180362 AAAAAA
1 AAAAAA
60180368 AAACCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAAATTTCCAGC
Found at i:60180658 original size:11 final size:11
Alignment explanation
Indices: 60180629--60180678 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
60180619 CGACCGGATT
* *
60180629 TCCCTTCCCCC
1 TCCCTTCTCTC
60180640 TCCCTTCTCTC
1 TCCCTTCTCTC
60180651 TCCCTTCTCTC
1 TCCCTTCTCTC
60180662 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
60180673 TTCCTT
1 TCCCTT
60180679 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:60181228 original size:24 final size:23
Alignment explanation
Indices: 60181196--60181249 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
60181186 ATTTCTAATA
60181196 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
60181219 TGTATTATATATATATATATTATG
1 TGTA-TATATATATATATATTATG
*
60181243 TATATAT
1 TGTATAT
60181250 GCCACTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:60181265 original size:2 final size:2
Alignment explanation
Indices: 60181193--60181249 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
60181183 ATCATTTCTA
* * *
60181193 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
60181233 AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
60181250 GCCACTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:60187528 original size:21 final size:21
Alignment explanation
Indices: 60187504--60187559 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 21
60187494 TTAAATAATA
60187504 ATTAAAATTTATTAAGTATAT
1 ATTAAAATTTATTAAGTATAT
* *
60187525 ATT-AAGTAT-TTAAGTATAT
1 ATTAAAATTTATTAAGTATAT
60187544 ATATCAAAATTATATT
1 AT-T-AAAATT-TATT
60187560 TATCTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
19 12 0.46
20 5 0.19
21 3 0.12
22 3 0.12
23 1 0.04
24 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTAAAATTTATTAAGTATAT
Found at i:60203365 original size:13 final size:13
Alignment explanation
Indices: 60203347--60203373 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60203337 ATCTTAATAG
60203347 CCTAGGTACATGC
1 CCTAGGTACATGC
60203360 CCTAGGTACATGC
1 CCTAGGTACATGC
60203373 C
1 C
60203374 AATTTACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (13 bp):
CCTAGGTACATGC
Found at i:60206971 original size:8 final size:8
Alignment explanation
Indices: 60206960--60206997 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
60206950 ATTATTTCTT
60206960 TTATTATA
1 TTATTATA
60206968 TTATTA-A
1 TTATTATA
*
60206975 GTATTATA
1 TTATTATA
60206983 TTATTATAA
1 TTATTAT-A
60206992 TTATTA
1 TTATTA
60206998 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:60206971 original size:20 final size:19
Alignment explanation
Indices: 60206935--60206973 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
60206925 TTCTTTCCTT
* *
60206935 TTTCTTTATTCTTTTATTA
1 TTTCTTTATTATATTATTA
60206954 TTTCTTTTATTATATTATTA
1 TTTC-TTTATTATATTATTA
60206974 AGTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTATTATATTATTA
Found at i:60210048 original size:2 final size:2
Alignment explanation
Indices: 60210043--60210073 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60210033 AAATATATGA
60210043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60210074 GTAGATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60210710 original size:27 final size:27
Alignment explanation
Indices: 60210680--60210752 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
60210670 ATGAAATGCT
* *
60210680 CCGAAGAGCCACTATCACTAAGTTGCA
1 CCGAAGTGCCACAATCACTAAGTTGCA
* * *
60210707 CCGAAGTGCCTCAATCACTGATTTGCA
1 CCGAAGTGCCACAATCACTAAGTTGCA
*
60210734 CCAAAGTGCCACAATCACT
1 CCGAAGTGCCACAATCACT
60210753 TTATGCGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (27 bp):
CCGAAGTGCCACAATCACTAAGTTGCA
Found at i:60212257 original size:28 final size:29
Alignment explanation
Indices: 60212225--60212280 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
60212215 TTCCTTCCTT
60212225 TTTATACTA-ACAT-TATATAATTAAAATG
1 TTTATACTATA-ATATATATAATTAAAATG
* *
60212253 TTTATATTATAATATATATTATTAAAAT
1 TTTATACTATAATATATATAATTAAAAT
60212281 AATAATTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTATACTATAATATATATAATTAAAATG
Found at i:60212542 original size:29 final size:29
Alignment explanation
Indices: 60212497--60212558 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
60212487 TCCTTTCCAC
**
60212497 CTTTGATTATTTCCACTTTAGTCCTTCAA
1 CTTTGATTATTTCCACTTTAACCCTTCAA
*
60212526 CTTTG-TTAATTTTCACTTTAACCCTTCAA
1 CTTTGATT-ATTTCCACTTTAACCCTTCAA
60212555 CTTT
1 CTTT
60212559 TGAATATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.50
Consensus pattern (29 bp):
CTTTGATTATTTCCACTTTAACCCTTCAA
Found at i:60213524 original size:17 final size:17
Alignment explanation
Indices: 60213494--60213533 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
60213484 AAAATAATTA
60213494 AATAAACAATTTAAAAT
1 AATAAACAATTTAAAAT
*
60213511 TATAAA-AATATTAAAAT
1 AATAAACAAT-TTAAAAT
60213528 AATAAA
1 AATAAA
60213534 TTAGTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAACAATTTAAAAT
Found at i:60213979 original size:19 final size:18
Alignment explanation
Indices: 60213946--60213984 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
60213936 AGTTAAATTT
60213946 TAAATTTAAATAACTCAAA
1 TAAATTTAAATAACT-AAA
60213965 TAAA-TTAAATAAACTAAA
1 TAAATTTAAAT-AACTAAA
60213983 TA
1 TA
60213985 TAAAAACGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATTTAAATAACTAAA
Found at i:60215137 original size:4 final size:4
Alignment explanation
Indices: 60215128--60215173 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
60215118 TAAATTACCT
* * *
60215128 TTTC TTTC TTTC GTTC TTTC TTTC TTTC TTTTC TTTT TTTT TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC T
60215174 GTTTGTTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:60216082 original size:104 final size:104
Alignment explanation
Indices: 60215863--60216091 Score: 280
Period size: 104 Copynumber: 2.2 Consensus size: 104
60215853 AATCTTTGCC
* * *
60215863 CTAGATACGAAAATTCAGGATCCTAGAGACAAATGTTTTAGGGAAAACAAAGAGTGTGTGTAATA
1 CTAGATACGAAAA-TCAGGGTCCTAGAGACAAATATTTTAGGGAAAACAAAGAGTGTGTATAATA
60215928 TAGGTTACAAACATTTGAACATTGATCGATGGTCAAGATT
65 TAGGTTACAAACATTTGAACATTGATCGATGGTCAAGATT
* * * * * * * * *
60215968 CAAAAAACGAAAAGCAGGGTCCTGGTGATAAATATTTTAGGGAAAACGAAGAGTTTGTATAATAT
1 CTAGATACGAAAATCAGGGTCCTAGAGACAAATATTTTAGGGAAAACAAAGAGTGTGTATAATAT
* ** * *
60216033 AGGTTACAATCATTTGAATGTTGATCGATGTTCAAAGCTT
66 AGGTTACAAACATTTGAACATTGATCGATGGTC-AAGATT
60216073 -TAGATACGAAAATCAGGGT
1 CTAGATACGAAAATCAGGGT
60216092 TTGAGCAACA
Statistics
Matches: 102, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
104 87 0.85
105 15 0.15
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (104 bp):
CTAGATACGAAAATCAGGGTCCTAGAGACAAATATTTTAGGGAAAACAAAGAGTGTGTATAATAT
AGGTTACAAACATTTGAACATTGATCGATGGTCAAGATT
Found at i:60218803 original size:10 final size:10
Alignment explanation
Indices: 60218780--60218816 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
60218770 TACAACGAAT
60218780 TAAAAAAT-A
1 TAAAAAATAA
60218789 T-AAAAATAA
1 TAAAAAATAA
60218798 TAAAAAATAA
1 TAAAAAATAA
*
60218808 TGAAAAATA
1 TAAAAAATA
60218817 CATACCATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
8 6 0.24
9 3 0.12
10 16 0.64
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:60218803 original size:18 final size:20
Alignment explanation
Indices: 60218780--60218816 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
60218770 TACAACGAAT
60218780 TAAAAAAT-AT-AAAAATAA
1 TAAAAAATAATGAAAAATAA
60218798 TAAAAAATAATGAAAAATA
1 TAAAAAATAATGAAAAATA
60218817 CATACCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (20 bp):
TAAAAAATAATGAAAAATAA
Found at i:60224382 original size:20 final size:20
Alignment explanation
Indices: 60224325--60224384 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
60224315 AATACTACAT
60224325 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
60224344 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
60224367 AAATATGTACATAATATA
1 AAATATGTACATAATATA
60224385 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:60224447 original size:2 final size:2
Alignment explanation
Indices: 60224440--60224514 Score: 59
Period size: 2 Copynumber: 38.5 Consensus size: 2
60224430 TAACATGTAA
*
60224440 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT AGT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
60224481 AA AG AT AT AT AC AT A- AA AT AGT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A
60224515 CGTAATATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
1 4 0.07
2 51 0.86
3 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (2 bp):
AT
Found at i:60224488 original size:25 final size:24
Alignment explanation
Indices: 60224369--60224589 Score: 124
Period size: 23 Copynumber: 9.6 Consensus size: 24
60224359 AATATTAAAA
* * * *
60224369 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTAT-TAAG
* *
60224394 ATACATACATAATATA--ATTAAA
1 ATATATACATAATATAGTATTAAG
* **
60224416 ATATATACATAAGATAACATGTAA-
1 ATATATACATAATATAGTAT-TAAG
* *
60224440 ATATATATAT-ATATA-TA-T-AT
1 ATATATACATAATATAGTATTAAG
*
60224460 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
60224485 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
60224508 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
60224532 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
60224554 A-ATATATATAATATAATATTAAG
1 ATATATACATAATATAGTATTAAG
*
60224577 AAATATA-ATAATA
1 ATATATACATAATA
60224590 ACAAAAAAAG
Statistics
Matches: 156, Mismatches: 28, Indels: 26
0.74 0.13 0.12
Matches are distributed among these distances:
19 1 0.01
20 10 0.06
21 5 0.03
22 37 0.24
23 48 0.31
24 20 0.13
25 35 0.22
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:60225096 original size:18 final size:18
Alignment explanation
Indices: 60225073--60225126 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
60225063 ACAAGTGGTG
60225073 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
60225091 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
60225103 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
60225121 GTGGAG
1 GTGGAG
60225127 TTGGTGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:60225109 original size:30 final size:30
Alignment explanation
Indices: 60225068--60225166 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
60225058 TAGGTACAAG
60225068 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
60225098 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
60225128 TGGTGGTGAAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
60225158 TGGTGGTGG
1 TGGTGGTGG
60225167 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:60225994 original size:87 final size:86
Alignment explanation
Indices: 60225817--60226113 Score: 314
Period size: 87 Copynumber: 3.4 Consensus size: 86
60225807 GTGATCCTAA
* * * * * **
60225817 GCTCAACTCATTTCTCGCAATATGAATTGACTATTTAAAACTAGACATTAAAAACAGAAATTGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAAC-AGAAATTGAAAACAGATTTTGAA
* * *
60225882 AATAGCTCAGTACGTGAGCCAAG
64 AATACCTCAGTACGTGACCCGAG
60225905 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACA-AAATTTGTAAAACAGATTTTGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAGAAA-TTG-AAAACAGATTTTGAA
* *
60225969 AATACCTCGGTATGTGACCCGAG
64 AATACCTCAGTACGTGACCCGAG
* * * * * * *
60225992 GCTCAACTCATTTATCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATT-TTTAAAA-CAGAAATTGAAAACAGATT--TTG
60226057 AAAATACCTCAG--CGTG-CCCGAG
62 AAAATACCTCAGTACGTGACCCGAG
*
60226079 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
60226114 TTGAAAAACA
Statistics
Matches: 177, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
85 2 0.01
86 5 0.03
87 103 0.58
88 45 0.25
89 5 0.03
90 17 0.10
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (86 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAGAAATTGAAAACAGATTTTGAAAA
TACCTCAGTACGTGACCCGAG
Found at i:60226178 original size:77 final size:76
Alignment explanation
Indices: 60226043--60226670 Score: 639
Period size: 77 Copynumber: 8.3 Consensus size: 76
60226033 CATAAATTGA
** *
60226043 AAAAACATTAATTGAAAATACCTCAGC--GTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60226105 TTGATTTTTTTG
66 TTGA-TTTTTTG
* *
60226117 AAAAACATAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
60226182 TTGATTTTTTT
66 TTGATTTTTTG
** * * * * *
60226193 ATGAATAGAAATT-AAAACTACCTCAACGTGT--CCTGAGGCTCAACTCACTTCTTGCAACATGA
1 AAAAACAGAAATTGAAAA-TACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
60226255 GTTGATTTTTTTG
65 GTTGA-TTTTTTG
* * *
60226268 AAAAATAGAAGTTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60226333 TTGATTTTTTTG
66 TTGA-TTTTTTG
* * *
60226345 ACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTG-AAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATG
60226409 AGTTGATTTTTTG
64 AGTTGATTTTTTG
* * *
60226422 AAAAACAGAAATTGAAAACACCTCAGC--ATG---TGAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60226482 TTGA-TTTTTG
66 TTGATTTTTTG
* * * *
60226492 AAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACG-G-GTCTTGAAGCTCAACTCACCTCT
1 ------A-AAA---A-CAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCT
60226555 CGCAATATGAGTTGATTTTTTG
55 CGCAATATGAGTTGATTTTTTG
** * * * * *
60226577 ---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60226637 TTGATTTTTTG
66 TTGATTTTTTG
60226648 AATTAAAACAGAAATTGAAAATA
1 -A--AAAACAGAAATTGAAAATA
60226671 GAAATGGAAA
Statistics
Matches: 471, Mismatches: 48, Indels: 67
0.80 0.08 0.11
Matches are distributed among these distances:
70 7 0.01
71 90 0.19
74 59 0.13
75 32 0.07
76 47 0.10
77 125 0.27
78 49 0.10
79 2 0.00
80 1 0.00
81 21 0.04
84 32 0.07
85 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (76 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTG
Found at i:60226266 original size:151 final size:150
Alignment explanation
Indices: 60226052--60226670 Score: 670
Period size: 151 Copynumber: 4.1 Consensus size: 150
60226042 AAAAAACATT
* *
60226052 AATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* * * *
60226116 GAAAAACATAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
65 GAAAAACAGAAATTGAAAACACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
60226181 GTTGATTTTTTTATGAATAGA
130 GTTGATTTTTTTATGAACAGA
* * *
60226202 AATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTTGCAACATGAGTTGATTTTTT
1 AATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* * *
60226266 TGAAAAATAGAAGTTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
64 TGAAAAACAGAAATTGAAAACACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
**
60226331 AGTTGATTTTTTTGACAAACAGA
129 AGTTGATTTTTTT-ATGAACAGA
* *
60226354 AATTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AATTG-AAAATACCTCAACGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
60226418 TTTGAAAAACAGAAATTGAAAACACCTCAGCA--TG---TGAGGCTCAACTCACTTCTCGCAATA
62 TTTGAAAAACAGAAATTGAAAACACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATA
* *
60226478 TGAGTTGATTTTTGAAAAACATAAATTGAGCAGA
127 TGAGTTGATTTTT--------T-TA-TGAACAGA
* * *
60226512 AATTGAAAATACCTCAACGGGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
** * * * * *
60226577 ---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATAAG
66 AAAAACAGAAATTGAAAACACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
60226637 TTGATTTTTTGAATTAAAACAGA
131 TTGATTTTTT-TA-T-GAACAGA
60226660 AATTGAAAATA
1 AATTGAAAATA
60226671 GAAATGGAAA
Statistics
Matches: 403, Mismatches: 41, Indels: 52
0.81 0.08 0.10
Matches are distributed among these distances:
147 5 0.01
148 16 0.04
149 42 0.10
150 16 0.04
151 111 0.28
152 32 0.08
153 12 0.03
154 37 0.09
155 103 0.26
156 2 0.00
157 17 0.04
158 10 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (150 bp):
AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AAAAACAGAAATTGAAAACACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTATGAACAGA
Found at i:60226417 original size:229 final size:222
Alignment explanation
Indices: 60226054--60226668 Score: 681
Period size: 229 Copynumber: 2.7 Consensus size: 222
60226044 AAAACATTAA
*
60226054 TTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 TTGAAAACACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* * *
60226119 AAACATAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 AAACAGAAATTGAAAATACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* ** * * *
60226184 GATTTTTTTATGAATAGAAATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTTGC
131 GATTTTTTGAAAAACAGAAATTGAAAAC-ACCTCAACATG---TGAGGCTCAACTCACTTCTCGC
60226248 AACATGAGTTGATTTTTTTGAAAAATAGAAG
192 AACATGAGTTGATTTTTTTGAAAAATAGAAG
*
60226279 TTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAACACCTCAGC--GTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
60226344 GACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATG
63 GAAAAACAGAAATTG-AAAATACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATG
*
60226409 AGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACTTCTCGC
127 AGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAACATGTGAGGCTCAACTCACTTCTCGC
*
60226474 AATATGAGTTGA--TTTTTGAAAAACATAAATTGAGCAG
192 AACATGAGTTGATTTTTTTG-AAAA-AT--A--GA--AG
* * * ** *
60226511 AAATTGAAAATACCTCAACGGGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 ---TTGAAAACACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
** * * * *** * *
60226575 TG---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATA
62 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATG
60226635 AGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
127 AGTTGATTTTTTG-A--AAAACAGAAATTGAAAA
60226669 TAGAAATGGA
Statistics
Matches: 339, Mismatches: 32, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
224 6 0.02
225 19 0.06
226 75 0.22
227 4 0.01
228 67 0.20
229 102 0.30
230 7 0.02
232 9 0.03
233 36 0.11
235 14 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (222 bp):
TTGAAAACACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AAACAGAAATTGAAAATACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAAAACAGAAATTGAAAACACCTCAACATGTGAGGCTCAACTCACTTCTCGCAACA
TGAGTTGATTTTTTTGAAAAATAGAAG
Found at i:60226549 original size:155 final size:154
Alignment explanation
Indices: 60225989--60226754 Score: 549
Period size: 151 Copynumber: 4.9 Consensus size: 154
60225979 TATGTGACCC
** * * * * **
60225989 GAGGCTCAACTCATTTATCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAATTG-----ACAGAAA
* ** *
60226054 TTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
60 TTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * *
60226118 AAAACATAAATTGAAAATACCTCAGCGTGT
125 AAAACAGAAATTGAAAACACCTCAGCATGT
** **
60226148 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT---TTA-TGAA-T---AGAAAT
1 -----GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTGACAGAAAT
* * * * *
60226205 T-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTTGCAACATGAGTTGATTTTTTTGA
61 TGAAAA-TACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * *
60226269 AAAATAGAAGTTGAAAACACCTCAGCGTGTGACCT
125 AAAACAGAAATTGAAAACACCTCAGC--ATG---T
***
60226304 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTGAC--AA---ACAGAAATTGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTGACAGAAATTG-AA
* **
60226362 AATACCTCAGCGTGT-AAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
65 AATACCTCAACGTGTCTTG--AA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
60226425 AACAGAAATTGAAAACACCTCAGCATGT
127 AACAGAAATTGAAAACACCTCAGCATGT
*
60226453 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATTGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAATTGA-CAGAAATTGA
* *
60226518 AAATACCTCAACGGGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG---AT
64 AAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
* * * *
60226579 GATAAATTGAAAATACCTCAATGTGACT-T
129 CAGAAATTGAAAACACCTC-A-G-CA-TGT
* * *
60226608 GAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A--AAAACA-AAATTG---ACAGA
* * * * * * * *
60226673 AATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTAATTTTTTT
58 AATTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
60226736 GAAACACATAAATTAAAAA
123 GAAAAACAGAAATTGAAAA
60226755 AAAGAAATTA
Statistics
Matches: 499, Mismatches: 62, Indels: 83
0.77 0.10 0.13
Matches are distributed among these distances:
149 42 0.08
150 16 0.03
151 105 0.21
152 29 0.06
153 16 0.03
154 40 0.08
155 96 0.19
156 10 0.02
157 17 0.03
158 11 0.02
159 48 0.10
160 8 0.02
161 16 0.03
162 1 0.00
163 11 0.02
164 33 0.07
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (154 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTGACAGAAATTGAAA
ATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
GAAATTGAAAACACCTCAGCATGT
Found at i:60226627 original size:71 final size:71
Alignment explanation
Indices: 60226511--60226648 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 71
60226501 AATTGAGCAG
* *
60226511 AAATTGAAAATACCTCAACGGGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGGGACTTGAAGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
60226576 GATGAT
66 GATGAT
* * * *
60226582 AAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGGGACTTGAAGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
60226647 GA
66 GA
60226649 ATTAAAACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGGGACTTGAAGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
GATGAT
Found at i:60226732 original size:159 final size:155
Alignment explanation
Indices: 60226385--60226734 Score: 379
Period size: 155 Copynumber: 2.2 Consensus size: 155
60226375 GTAAGCCAAG
* * ** * *
60226385 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTC-A-G
1 GCTCAACTCACCTCTCGCAATATGAGCTAATTTTTTG---ATGATAAATTGAAAATACCTCAATG
* * * * *
60226448 -CA-TGTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAG
63 TGACT-TGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTGAACAG
* * *
60226511 AAATTGAAAATACCTCAACGGGTCTTGAA
127 AAATGGAAAACACCTCAACGCGTCTTGAA
* *
60226540 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATGTGA
1 GCTCAACTCACCTCTCGCAATATGAGCTAATTTTTTGATGATAAATTGAAAATACCTCAATGTGA
* *
60226605 CTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAAAAT
66 CTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTG-A--AAAACAGAAATTG--AAC
*
60226670 AGAAATGGAAAACACCTC-A-GCGTCTTGAG
125 AGAAATGGAAAACACCTCAACGCGTCTTGAA
* *
60226699 GTTCAACTCATCTCTCGCAATATGAGCTAATTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGCTAATTTTTT
60226735 TGAAACACAT
Statistics
Matches: 166, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
152 17 0.10
153 1 0.01
154 1 0.01
155 69 0.42
156 7 0.04
157 1 0.01
159 52 0.31
160 1 0.01
161 17 0.10
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (155 bp):
GCTCAACTCACCTCTCGCAATATGAGCTAATTTTTTGATGATAAATTGAAAATACCTCAATGTGA
CTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTGAACAGAAAT
GGAAAACACCTCAACGCGTCTTGAA
Done.