Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 169 of 433
Found at i:52728928 original size:38 final size:39
Alignment explanation
Indices: 52728835--52728984 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
52728825 GTGCTGAGAT
* * *
52728835 TGTATCCGGGTTAGAGTCCCACAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
52728874 TGTATCCGGGCT-AAGT-CCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
52728911 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* *
52728950 TGTGTCCGGGCTAAAG-ACCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
52728985 TGCTGTAATA
Statistics
Matches: 104, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
37 32 0.31
38 25 0.24
39 47 0.45
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:52728951 original size:76 final size:77
Alignment explanation
Indices: 52728835--52728984 Score: 248
Period size: 76 Copynumber: 2.0 Consensus size: 77
52728825 GTGCTGAGAT
* * *
52728835 TGTATCCGGGTTAGAGTCCCACAGGCTTCGTGCTGGAAATGTATCCGGGCT-AAGTCCGCAGGCT
1 TGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCAGGCT
52728899 TCGTGCTGGAAA
66 TCGTGCTGGAAA
* *
52728911 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTGTCCGGGCTAAAGACCGCAGGCT
1 TGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCAGGCT
52728976 TCGTGCTGG
66 TCGTGCTGG
52728985 TGCTGTAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
76 47 0.69
77 21 0.31
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.24
Consensus pattern (77 bp):
TGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCAGGCT
TCGTGCTGGAAA
Found at i:52749789 original size:6 final size:6
Alignment explanation
Indices: 52749734--52749826 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
52749724 AAGAAATATT
* * * *
52749734 ATCAGA A-CTAGA ATCAAA ATGAGA ATCA-A ATTAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
52749782 ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATTAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
52749827 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
5 8 0.12
6 50 0.75
7 6 0.09
8 3 0.04
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:52749812 original size:31 final size:31
Alignment explanation
Indices: 52749755--52749826 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
52749745 AATCAAAATG
* *
52749755 AGAATCA-AATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
52749785 AGAATCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
52749816 AGAATTAGAAT
1 AGAATCAGAAT
52749827 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:52750007 original size:27 final size:26
Alignment explanation
Indices: 52749944--52750022 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
52749934 GCATGGCTGT
* *
52749944 CAGAATAGATATTGTGACAGAGTCAC
1 CAGAATAGATATTGTGGCAGAGCCAC
* *
52749970 TAGATAAAGATATTGTGGCAGAGCCAC
1 CAGA-ATAGATATTGTGGCAGAGCCAC
* *
52749997 CAGAATCAGATAATGTGGCAAAGCCA
1 CAGAAT-AGATATTGTGGCAGAGCCA
52750023 TTTAACAGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
26 4 0.09
27 39 0.91
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGAATAGATATTGTGGCAGAGCCAC
Found at i:52750947 original size:27 final size:27
Alignment explanation
Indices: 52750916--52751057 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
52750906 TTAGTTTACC
* *
52750916 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
52750943 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
52750970 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
52750997 AAATTACAGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
52751024 AAATTACTGAAATACCGTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
52751051 AAATTAC
1 AAATTAC
52751058 CCAATTATCG
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
26 4 0.04
27 87 0.91
28 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:52751053 original size:81 final size:81
Alignment explanation
Indices: 52750916--52751066 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
52750906 TTAGTTTACC
* *
52750916 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
52750981 ATATCCTCGATTTGTA
66 ATATCCTCGATTTGTA
** * ** *
52750997 AAATTACAGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCGTCGATTTGTAAAATTACCCA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCA
*
52751061 ATTATC
65 AATATC
52751067 GTTTTACCCT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
81 57 0.95
82 3 0.05
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATATCCTCGATTTGTA
Found at i:52751178 original size:54 final size:54
Alignment explanation
Indices: 52751060--52751320 Score: 432
Period size: 54 Copynumber: 4.8 Consensus size: 54
52751050 AAAATTACCC
* *
52751060 AATTATCGTTTTACCCTCGATTTATAGTATTACTATTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTA-TTTTACCCTCGATTTACAG
* * *
52751115 AATTACCGTTTTATCCTCGACTTATAGAATTACTATTTTACTCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
52751169 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
*
52751223 AATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
* * *
52751277 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCT
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCT
52751321 TAATGTAAAA
Statistics
Matches: 195, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
54 164 0.84
55 31 0.16
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
Found at i:52751336 original size:27 final size:27
Alignment explanation
Indices: 52751068--52751320 Score: 371
Period size: 27 Copynumber: 9.3 Consensus size: 27
52751058 CCAATTATCG
* * *
52751068 TTTTACCCTCGATTTATAGTATTACTA
1 TTTTACCCTCGATTTACAGAATTACCA
*
52751095 TTTTTACCCTCGATTTACAGAATTACCG
1 -TTTTACCCTCGATTTACAGAATTACCA
* * * *
52751123 TTTTATCCTCGACTTATAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACCA
* *
52751150 TTTTACTCTCGATTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACCA
* *
52751177 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACCA
52751204 TTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
* *
52751231 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACCA
52751258 TTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
52751285 TTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
52751312 TTTTACCCT
1 TTTTACCCT
52751321 TAATGTAAAA
Statistics
Matches: 200, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
27 177 0.88
28 23 0.12
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACCA
Found at i:52751346 original size:81 final size:81
Alignment explanation
Indices: 52751068--52751365 Score: 348
Period size: 81 Copynumber: 3.7 Consensus size: 81
52751058 CCAATTATCG
* * * *
52751068 TTTTACCCTCGATTTATAGTATTACT-ATTTTTACCCTCGATTTACAGAATTACCGTTTTATCCT
1 TTTTACCCTCGATTTAAAGAATTACTGA--TTTACCCTCGATTTACAGAATTACCATTTTACCCT
* * *
52751132 CGACTTATAGAATTACTA
64 CGATTTACAGAATTACCA
* * * * * *
52751150 TTTTACTCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCG
1 TTTTACCCTCGATTTAAAGAATTACTGATTTACCCTCGATTTACAGAATTACCATTTTACCCTCG
52751215 ATTTACAGAATTACCA
66 ATTTACAGAATTACCA
*
52751231 TTTTACCCTCGATTTATAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCATTTTACCCTC
1 TTTTACCCTCGATTTAAAGAATTACTGA-TTTACCCTCGATTTACAGAATTACCATTTTACCCTC
52751295 GATTTACAGAATTACCA
65 GATTTACAGAATTACCA
** * * ** * * *
52751312 TTTTACCCTTAATGTAAAAAATTACTGAAATACCCTTGGTTTACAAAATTACCA
1 TTTTACCCTCGATTTAAAGAATTACTGATTTACCCTCGATTTACAGAATTACCA
52751366 AAATACCCTC
Statistics
Matches: 185, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
81 162 0.88
82 23 0.12
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
TTTTACCCTCGATTTAAAGAATTACTGATTTACCCTCGATTTACAGAATTACCATTTTACCCTCG
ATTTACAGAATTACCA
Found at i:52751386 original size:27 final size:27
Alignment explanation
Indices: 52751356--52751427 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
52751346 CTTGGTTTAC
52751356 AAAATTACCAAAATACCCTCGATCAAT
1 AAAATTACCAAAATACCCTCGATCAAT
* * * ***
52751383 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTCGATCAAT
52751410 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
52751428 CTACTTTGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATCAAT
Found at i:52751435 original size:27 final size:26
Alignment explanation
Indices: 52751356--52751454 Score: 72
Period size: 27 Copynumber: 3.7 Consensus size: 26
52751346 CTTGGTTTAC
* ***
52751356 AAAATTACCAAAATACCCTCGATCAAT
1 AAAATTACCAAAATACCC-CTATTTGT
** *
52751383 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
52751410 AAAATTACCAAAATACCCCTACTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
** **
52751437 GTAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
52751455 TTGTAGGGTA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTATTTGT
Found at i:52751634 original size:27 final size:27
Alignment explanation
Indices: 52751439--52751634 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
52751429 TACTTTGTGT
* *
52751439 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52751466 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
52751493 AATAATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52751520 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
52751547 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52751574 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
52751601 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
52751628 AATTACC
1 AATTACC
52751635 ATTTTGCCCC
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:52752077 original size:31 final size:31
Alignment explanation
Indices: 52752036--52752106 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
52752026 TTGCATTCAC
*
52752036 ATTCTAATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
*
52752067 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
52752098 ATTCTGATT
1 ATTCTGATT
52752107 CTGTCACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACCG
Found at i:52752080 original size:6 final size:6
Alignment explanation
Indices: 52752066--52752148 Score: 64
Period size: 6 Copynumber: 13.5 Consensus size: 6
52752056 ACCTGATACC
* * *
52752066 GATTCT GATTTT GATTCT G-TTACCT GATACT GATTCT GATTCT G-TCACCT
1 GATTCT GATTCT GATTCT GATT--CT GATTCT GATTCT GATTCT GAT--TCT
*
52752116 AATTCT GATTCT GATTCT GATTCT -AGTTCT GAT
1 GATTCT GATTCT GATTCT GATTCT GA-TTCT GAT
52752149 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
5 4 0.07
6 49 0.80
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
GATTCT
Found at i:52752098 original size:25 final size:25
Alignment explanation
Indices: 52752062--52752134 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
52752052 TGTTACCTGA
*
52752062 TACC-GATTCTGATTTTGATTCTGT
1 TACCTGATTCTGATTCTGATTCTGT
*
52752086 TACCTGATACTGATTCTGATTCTGT
1 TACCTGATTCTGATTCTGATTCTGT
* *
52752111 CACCTAATTCTGATTCTGATTCTG
1 TACCTGATTCTGATTCTGATTCTG
52752135 ATTCTAGTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 4 0.09
25 39 0.91
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (25 bp):
TACCTGATTCTGATTCTGATTCTGT
Found at i:52752877 original size:22 final size:22
Alignment explanation
Indices: 52752843--52752905 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
52752833 CCACAATAAC
52752843 GGCACACAA-CCATAATCAGGTT
1 GGCACA-AAGCCATAATCAGGTT
*
52752865 GGCACAAAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
*
52752887 GGCGCAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
52752906 AATAATTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 4 0.11
22 29 0.83
23 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:52753450 original size:27 final size:27
Alignment explanation
Indices: 52753420--52753506 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
52753410 GAGCAAAATG
* * *
52753420 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATCTCA
* *
52753447 GTAATTCTACCCTATAGGGGTATGTCA
1 GTAATTCTACCCTACAGGGGTATCTCA
*
52753474 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATCTCA
*
52753501 ATAATT
1 GTAATT
52753507 TTTTAAATCG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATCTCA
Found at i:52753575 original size:27 final size:26
Alignment explanation
Indices: 52753545--52753696 Score: 144
Period size: 27 Copynumber: 5.7 Consensus size: 26
52753535 TATAAATCAG
*
52753545 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-TCGA
** * *
52753572 GGGTATTTCAGTAATTTTACAGGTTGA
1 GGGTATTTTGGTAATTTTACA-ATCGA
* *
52753599 GGGTATTTTAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTAC-AATCGA
* *
52753625 GGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTGGTAATTTTACAATCGA
* *
52753652 GGGGTATTTTGCTAATTTTTCTAATCGA
1 -GGGTATTTTGGTAATTTTAC-AATCGA
52753680 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
52753697 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.04
27 94 0.91
28 5 0.05
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:52753668 original size:81 final size:81
Alignment explanation
Indices: 52753538--52753696 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
52753528 GTAATTCTAT
* * * *
52753538 AAATCAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC-AGGTTGAGGG
1 AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACTA-ATCGAGGG
52753602 TATTTTAGTAATTTCAC
65 TATTTTAGTAATTTCAC
* * *
52753619 AAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TGCTAATTTTTCTAATCGAGG
1 AAATCAGGGGTACTTTGGTAATTTTAC-AACTAGAGGGTATTTCAG-TAATTTTACTAATCGAGG
*
52753682 GTATTTTGGTAATTT
64 GTATTTTAGTAATTT
52753697 GGTAAACTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 1 0.01
81 61 0.91
82 5 0.07
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.41
Consensus pattern (81 bp):
AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACTAATCGAGGGT
ATTTTAGTAATTTCAC
Found at i:52754892 original size:33 final size:33
Alignment explanation
Indices: 52754736--52754885 Score: 108
Period size: 33 Copynumber: 4.5 Consensus size: 33
52754726 AATTGACGGA
* ** *
52754736 TAAGACCATAATTGGGTTATGGCACTATGAATA
1 TAAGACCATGATTGGGTTATGGCACTGCGAATG
* *** * **
52754769 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATGATTGGGTTATGGCACTG-CGA-ATG
*
52754804 TAAGACCATAGCA--GGGTTATGGCACT-CTAATG
1 TAAGACCAT-G-ATTGGGTTATGGCACTGCGAATG
* *
52754836 ATAAGACCATAACTGGGTTATGGCACTGCGAATG
1 -TAAGACCATGATTGGGTTATGGCACTGCGAATG
52754870 TAAGACCATGATTGGG
1 TAAGACCATGATTGGG
52754886 CCATGGCGAT
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
31 1 0.01
32 3 0.03
33 58 0.64
34 7 0.08
35 20 0.22
36 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (33 bp):
TAAGACCATGATTGGGTTATGGCACTGCGAATG
Found at i:52761383 original size:39 final size:39
Alignment explanation
Indices: 52761329--52761599 Score: 454
Period size: 39 Copynumber: 7.0 Consensus size: 39
52761319 AAGACACTGA
52761329 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
52761368 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
52761407 AAATATATCCGGGCCAAAGTCCCGCAAGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
52761446 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
52761485 AAATGTATCTGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
52761524 -AATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
52761562 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
52761600 ATAATATAAT
Statistics
Matches: 217, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 37 0.17
39 180 0.83
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:52771338 original size:19 final size:19
Alignment explanation
Indices: 52771312--52771367 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
52771302 AGAATTTAAC
52771312 AATATTAAATT-TTTTTAT
1 AATATTAAATTATTTTTAT
* *
52771330 AATAGTTAAACTTCTTTTAAT
1 AATA-TTAAA-TTATTTTTAT
52771351 AAT-TTAAATTATTTTTA
1 AATATTAAATTATTTTTA
52771368 ATTTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.34
19 10 0.31
20 2 0.06
21 9 0.28
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (19 bp):
AATATTAAATTATTTTTAT
Found at i:52771368 original size:19 final size:19
Alignment explanation
Indices: 52771306--52771369 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
52771296 TTTTTTAGAA
*
52771306 TTTAACAATATTAAATTTT
1 TTTAATAATATTAAATTTT
*
52771325 TTT-ATAATAGTTAAACTTCT
1 TTTAATAATA-TTAAA-TTTT
52771345 TTTAATAAT-TTAAATTATT
1 TTTAATAATATTAAATT-TT
52771364 TTTAAT
1 TTTAAT
52771370 TTTTAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.18
19 20 0.53
20 6 0.16
21 5 0.13
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAATAATATTAAATTTT
Found at i:52772242 original size:76 final size:76
Alignment explanation
Indices: 52772148--52772301 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
52772138 TAACTTATTT
52772148 TTGTGTCCATATTATATATTATAAAAAATAATATACTTATTAAAAAAATTTGTTAAAGTTTTTTT
1 TTGTGTCCATATTATATATTATAAAAAATAATATACTTATTAAAAAAATTTGTTAAAGTTTTTTT
52772213 ATCATAACTTA
66 ATCATAACTTA
52772224 TTGTGTCCATATTATATATTATAAAAAATAATATACTTATTAAAAAAATTTGTTAAAGTTTTTTT
1 TTGTGTCCATATTATATATTATAAAAAATAATATACTTATTAAAAAAATTTGTTAAAGTTTTTTT
52772289 ATCATAACTTA
66 ATCATAACTTA
52772300 TT
1 TT
52772302 TATTAAAAGA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (76 bp):
TTGTGTCCATATTATATATTATAAAAAATAATATACTTATTAAAAAAATTTGTTAAAGTTTTTTT
ATCATAACTTA
Found at i:52773498 original size:40 final size:39
Alignment explanation
Indices: 52773454--52773545 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 39
52773444 TCATTTTGGA
*
52773454 CCTTAGCCCATCTCAGTACAGTATCAAATATACAGTAGGG
1 CCTTAGCCCATCTCAGTACAGTATCAAA-ACACAGTAGGG
* * *
52773494 CCTTAGGCCA--T---TACAGTATCAGAACACATTAGGG
1 CCTTAGCCCATCTCAGTACAGTATCAAAACACAGTAGGG
*
52773528 CCTTAGCCCATCACAGTA
1 CCTTAGCCCATCTCAGTA
52773546 TCATTAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
34 18 0.44
35 11 0.27
38 1 0.02
39 2 0.05
40 9 0.22
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (39 bp):
CCTTAGCCCATCTCAGTACAGTATCAAAACACAGTAGGG
Found at i:52773532 original size:34 final size:35
Alignment explanation
Indices: 52773470--52773548 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
52773460 CCCATCTCAG
* *
52773470 TACAGTATCAAATATACAGTAGGGCCTTAGGCCAT
1 TACAGTATCAAATACACAGTAGGGCCTTAGCCCAT
* *
52773505 TACAGTATCAGA-ACACATTAGGGCCTTAGCCCAT
1 TACAGTATCAAATACACAGTAGGGCCTTAGCCCAT
*
52773539 CACAGTATCA
1 TACAGTATCA
52773549 TTAACATTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 28 0.72
35 11 0.28
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (35 bp):
TACAGTATCAAATACACAGTAGGGCCTTAGCCCAT
Found at i:52775672 original size:9 final size:8
Alignment explanation
Indices: 52775638--52775669 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
52775628 GTATATTCAT
52775638 TTGTAAAA
1 TTGTAAAA
52775646 TTGTAAAA
1 TTGTAAAA
52775654 TTGTAAAA
1 TTGTAAAA
52775662 TTGTAAAA
1 TTGTAAAA
52775670 ATTTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
TTGTAAAA
Found at i:52775677 original size:9 final size:9
Alignment explanation
Indices: 52775638--52775677 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
52775628 GTATATTCAT
52775638 TTGT-AAAA
1 TTGTAAAAA
52775646 TTGT-AAAA
1 TTGTAAAAA
52775654 TTGT-AAAA
1 TTGTAAAAA
52775662 TTGTAAAAA
1 TTGTAAAAA
*
52775671 TTTTAAA
1 TTGTAAA
52775678 TAGATTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 20 0.67
9 10 0.33
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (9 bp):
TTGTAAAAA
Found at i:52779540 original size:20 final size:20
Alignment explanation
Indices: 52779506--52779543 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52779496 GACTAAACCG
**
52779506 AAAACTTAGGGAATTTTTAC
1 AAAACTTAGAAAATTTTTAC
52779526 AAAACTTAGAAAATTTTT
1 AAAACTTAGAAAATTTTT
52779544 GCTATGTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (20 bp):
AAAACTTAGAAAATTTTTAC
Found at i:52781714 original size:44 final size:44
Alignment explanation
Indices: 52781664--52781757 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
52781654 GTAGAATTTT
52781664 AAATTAGTCCTTGAAATAGCTAGATCAAGCTACAATGATCTCAA
1 AAATTAGTCCTTGAAATAGCTAGATCAAGCTACAATGATCTCAA
52781708 AAATTAGTCCTTGAAATAGCTAGATCAAGCTACAATGATCTCAA
1 AAATTAGTCCTTGAAATAGCTAGATCAAGCTACAATGATCTCAA
52781752 AAATTA
1 AAATTA
52781758 AAAACCATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (44 bp):
AAATTAGTCCTTGAAATAGCTAGATCAAGCTACAATGATCTCAA
Found at i:52784042 original size:15 final size:15
Alignment explanation
Indices: 52784022--52784062 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
52784012 TATAACCCCT
52784022 TCATTCCCTCATTCA
1 TCATTCCCTCATTCA
*
52784037 TCATTCGCTCATTCA
1 TCATTCCCTCATTCA
52784052 TCA-TCCCTCAT
1 TCATTCCCTCAT
52784063 AATTCATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.20, C:0.39, G:0.02, T:0.39
Consensus pattern (15 bp):
TCATTCCCTCATTCA
Found at i:52792552 original size:93 final size:93
Alignment explanation
Indices: 52792440--52792610 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52792430 GCCCATAAGT
* *
52792440 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52792505 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52792533 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52792598 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52792611 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52792626 original size:46 final size:46
Alignment explanation
Indices: 52792432--52792612 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
52792422 TGTAACCCGC
* * *
52792432 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52792478 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52792528 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
52792571 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
52792613 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52795032 original size:30 final size:30
Alignment explanation
Indices: 52794988--52795076 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
52794978 CAAAGATAAC
52794988 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
52795017 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
52795047 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
52795077 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:52795036 original size:15 final size:15
Alignment explanation
Indices: 52794988--52795067 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
52794978 CAAAGATAAC
*
52794988 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52795002 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52795017 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
52795032 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
52795047 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
52795062 AAGAAA
1 AAGAAA
52795068 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52795076 original size:15 final size:15
Alignment explanation
Indices: 52794999--52795076 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
52794989 AGAAAACCGA
52794999 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
52795014 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
52795028 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
52795043 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52795059 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52795074 ATA
1 ATA
52795077 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52798099 original size:93 final size:93
Alignment explanation
Indices: 52797987--52798158 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52797977 GCCCATAAGT
* *
52797987 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52798052 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52798080 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52798145 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
52798159 AAATCCTAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52798154 original size:46 final size:46
Alignment explanation
Indices: 52797979--52798154 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52797969 TGTAACCCGC
* * *
52797979 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52798025 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52798075 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52798118 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52798155 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52809382 original size:40 final size:40
Alignment explanation
Indices: 52809337--52809504 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
52809327 CGGAATATAA
52809337 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52809377 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
52809417 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52809457 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
52809497 CCGGATAT
1 CCGGATAT
52809505 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52819956 original size:66 final size:68
Alignment explanation
Indices: 52819880--52820066 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
52819870 TAGTACCACT
*
52819880 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
52819942 CACG
65 CACG
52819946 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
52820011 ATCACG
63 ATCACG
52820017 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
52820067 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:52819991 original size:71 final size:71
Alignment explanation
Indices: 52819903--52820066 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52819893 CGATTTGTCT
52819903 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52819968 CTTTCA
66 CTTTCA
52819974 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52820039 CTTTCA
66 CTTTCA
52820045 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52820067 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52820104 original size:71 final size:70
Alignment explanation
Indices: 52819903--52820100 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
52819893 CGATTTGTCT
* * *
52819903 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
52819968 CTTTCA
65 CTTTCA
* * *
52819974 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
52820039 CTTTCA
65 CTTTCA
* *
52820045 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
52820101 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52827614 original size:71 final size:71
Alignment explanation
Indices: 52827498--52827661 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52827488 TAGCTCATCT
52827498 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52827563 CTTTCA
66 CTTTCA
52827569 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52827634 CTTTCA
66 CTTTCA
52827640 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52827662 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52827699 original size:71 final size:70
Alignment explanation
Indices: 52827498--52827695 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
52827488 TAGCTCATCT
* * *
52827498 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
52827563 CTTTCA
65 CTTTCA
* * *
52827569 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
52827634 CTTTCA
65 CTTTCA
* *
52827640 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
52827696 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52834063 original size:31 final size:31
Alignment explanation
Indices: 52834028--52834092 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
52834018 CCTTTTTATA
52834028 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
52834059 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
52834090 TTT
1 TTT
52834093 GTTTAACGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:52834360 original size:26 final size:26
Alignment explanation
Indices: 52834302--52834437 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
52834292 CTGGAGGCCT
52834302 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
52834326 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
52834352 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
52834378 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
52834404 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
52834429 AGCCCTTTT
1 AGCCCTTTT
52834438 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 19 0.19
26 72 0.71
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:52834386 original size:52 final size:52
Alignment explanation
Indices: 52834302--52834437 Score: 235
Period size: 52 Copynumber: 2.7 Consensus size: 52
52834292 CTGGAGGCCT
52834302 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
52834352 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
52834404 AGCCCTTTTCAATAAACTGGGGCAT-AGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
52834438 GCACTTCCTC
Statistics
Matches: 83, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
49 5 0.06
50 7 0.08
51 19 0.23
52 52 0.63
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:52834510 original size:20 final size:21
Alignment explanation
Indices: 52834485--52834541 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
52834475 TTATGATTAC
52834485 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAT
52834505 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
52834526 -TCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
52834542 CCACGTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.28
20 23 0.64
21 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:52834523 original size:5 final size:5
Alignment explanation
Indices: 52834493--52834541 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
52834483 ACATCATGTG
* *
52834493 CATAT CATA- CATAT CATGT GCATAT CATAT CAT-T CATGT -ATAT CATAT
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT CATAT CATAT
52834541 C
1 C
52834542 CCACGTATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
4 11 0.30
5 22 0.59
6 4 0.11
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:52841138 original size:25 final size:25
Alignment explanation
Indices: 52841104--52841156 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
52841094 AAACAATGAG
52841104 TTGATATTTGCTAGTGCATTTTTCT
1 TTGATATTTGCTAGTGCATTTTTCT
52841129 TTGATATTTGCTAGTGCATTTTTCT
1 TTGATATTTGCTAGTGCATTTTTCT
52841154 TTG
1 TTG
52841157 TATGCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.17, T:0.57
Consensus pattern (25 bp):
TTGATATTTGCTAGTGCATTTTTCT
Found at i:52850581 original size:52 final size:50
Alignment explanation
Indices: 52850503--52850938 Score: 240
Period size: 50 Copynumber: 8.6 Consensus size: 50
52850493 ATTGTGAGAA
* * *
52850503 CACATGTGTAGTACTATGTGTAGGCTAGTATGTGTTTA-AGACAGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACA-ACA-TTGTTAGGT
** *
52850555 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAACATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAACATTGTTAGGT
* * * * * *
52850605 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CCAATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAC-ATTG-TTAGGT
** * ** * * *
52850656 CATGTGTGGT-GTACTAAGTGAAAACTACTACGTGTATC-AGATGGTTAGGT
1 CACATGT-GTAGTACTAAGTGCAGGCTACTATGTGTA-CAACATTGTTAGGT
* * * * *** *
52850706 CACGTGTGCAGTGCTAAGTGCAGGCTACTACGTGTACTGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAACATTGTTAGGT
* * ** * * * *
52850756 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCATAC--CTGTTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAC-ATT--GTTAGGT
* * * * * * * *
52850807 CACGTGTGCAGTACTAAGTGTAGGTTACTATGTGTATC-AGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CAACATTGTTAGGT
* * * * * * *
52850857 CACGTGTGCAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAACATTGTTAGGT
*
52850907 CGCATGTGTAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
52850939 CTTACCAGAG
Statistics
Matches: 292, Mismatches: 78, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
49 8 0.03
50 187 0.64
51 64 0.22
52 33 0.11
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAACATTGTTAGGT
Found at i:52850691 original size:101 final size:101
Alignment explanation
Indices: 52850554--52850735 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 101
52850544 CAGTTTTAGG
* ** * * *
52850554 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAACATTGTTAGGTCGCATGTGTAGTA
1 TCATGTGTGTAGTACTAAGTGAAAACTACTACGTGTATC-ACATGGTTAGGTCACATGTGCAGTA
52850618 CTAAGTGCAGGCTACTATGCGTACCCAATAGTTTCGA
65 CTAAGTGCAGGCTACTATGCGTACCCAATAGTTTCGA
* * *
52850655 TCATGTGTGGT-GTACTAAGTGAAAACTACTACGTGTATCAGATGGTTAGGTCACGTGTGCAGTG
1 TCATGTGT-GTAGTACTAAGTGAAAACTACTACGTGTATCACATGGTTAGGTCACATGTGCAGTA
52850719 CTAAGTGCAGGCTACTA
65 CTAAGTGCAGGCTACTA
52850736 CGTGTACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
101 67 0.96
102 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TCATGTGTGTAGTACTAAGTGAAAACTACTACGTGTATCACATGGTTAGGTCACATGTGCAGTAC
TAAGTGCAGGCTACTATGCGTACCCAATAGTTTCGA
Found at i:52850783 original size:151 final size:151
Alignment explanation
Indices: 52850549--52850944 Score: 549
Period size: 151 Copynumber: 2.6 Consensus size: 151
52850539 TAAGACAGTT
* * * *
52850549 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAACATTGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGATAGGTCGCATGTGT
* ** * **
52850614 AGTACTAAGTGCAGGCTACTATGCGTACCCAATAGTTTCGATCATGTGTGGTGTACTAAGTGAAA
66 AGTACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCACGTGTGCAGTACTAAGTGAAA
52850679 ACTACTACGTGTATCAGATGG
131 ACTACTACGTGTATCAGATGG
* **
52850700 TTAGGTCACGTGTGCAGTGCTAAGTGCAGGCTACTACGTGTACTGGATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGATAGGTCGCATGTGT
* *** * *
52850765 AGTACTAAGTGCAAGCTACTATGCATACCTGTTAACTTCGATCACGTGTGCAGTACTAAGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCACGTGTGCAGTACTAAGTGAAA
** *
52850830 GTTACTATGTGTATCAGATGG
131 ACTACTACGTGTATCAGATGG
* * * *
52850851 ATAAGTCACGTGTGCAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGATAGGTCGCATGTGT
*
52850916 AGTACTAAGTGCAGGCTACTATGCTTACC
66 AGTACTAAGTGCAGGCTACTATGCATACC
52850945 AGAGAGCTTT
Statistics
Matches: 215, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
151 215 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGATAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCACGTGTGCAGTACTAAGTGAAA
ACTACTACGTGTATCAGATGG
Found at i:52850810 original size:101 final size:101
Alignment explanation
Indices: 52850705--52850886 Score: 240
Period size: 101 Copynumber: 1.8 Consensus size: 101
52850695 GATGGTTAGG
* * * * * * *
52850705 TCACGTGTGCAGTGCTAAGTGCAGGCTACTACGTGTA-CTGGATTGATAGGTCGCATGTGTAGTA
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGATAAGTCACATGTGCAGCA
52850769 CTAAGTGCAAGCTACTATGCATACCTGTTAACTTCGA
65 CTAAGTGCAAGCTACTATGCATACCTGTTAACTTCGA
* * * *
52850806 TCACGTGTGCAGTACTAAGTGTAGGTTACTATGTGTATCAGATGGATAAGTCACGTGTGCAGCAC
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACATGTGCAGCAC
*
52850871 TAAGTGCAGGCTACTA
66 TAAGTGCAAGCTACTA
52850887 CGTGTACCAG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 67 0.99
102 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACATGTGCAGCAC
TAAGTGCAAGCTACTATGCATACCTGTTAACTTCGA
Found at i:52850947 original size:50 final size:50
Alignment explanation
Indices: 52850559--52850936 Score: 289
Period size: 50 Copynumber: 7.5 Consensus size: 50
52850549 TTAGGTCATG
* * *
52850559 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAACATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * * *
52850609 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-CA---ATAGTTTCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG-GTCG--CA
* * ** * * * * *
52850658 TGTGTGGTGTACTAAGTGAAAACTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGT--AGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * **
52850710 TGTGCAGTGCTAAGTGCAGGCTACTACGTGTACTGGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * ** * * * * * *
52850760 TGTGTAGTACTAAGTGCAAGCTACTATGCATACCTG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCGCA
* * * * * * * * *
52850811 TGTGCAGTACTAAGTGTAGGTTACTATGTGTATCAGATGGATAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* *
52850861 TGTGCAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
52850911 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
52850937 TGCTTACCAG
Statistics
Matches: 249, Mismatches: 67, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
46 3 0.01
47 3 0.01
49 12 0.05
50 163 0.65
51 55 0.22
52 8 0.03
54 2 0.01
55 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
Found at i:52851820 original size:180 final size:181
Alignment explanation
Indices: 52851504--52851888 Score: 501
Period size: 180 Copynumber: 2.1 Consensus size: 181
52851494 CATCTGAGAT
*
52851504 CTGTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCGGAATTGTCAAACAATAAAACAAGGG
1 CTGTACTATGAGATAAATAATTTTTAGTGAAGAAAGATCGGAATTGTCAAACAATAAAACAAGGG
*
52851569 TATTGTTAATGAATAAAATGTTCTAATTGGATAAACAAAAAATTCTTAAAATTTTATAGTAAGAA
66 TATTGTTAATGAATAAAATGTACTAATTGGATAAACAAAAAATTCTTAAAATTTTATAGTAAGAA
* * *
52851634 TATATGTGAGTCTAGTTTCTGGGAAAATTAGCAGTTCTTAATTTGGAG-GC
131 TATATGTGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGCGC
* * * * * *
52851684 CTGTACTATGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAATTGTTAAACAATGAAA-TAGTG
1 CTGTACTATGAGATAAATAATTTTTAGTGAAGAAAGATCGGAATTGTCAAACAATAAAACAAG-G
* * * * *
52851748 GTATAT-TTAATGAATAAAATGTACTTATTGGCTTAACCAAAAATT-TTGAAAATTTTATGGTAA
65 GTAT-TGTTAATGAATAAAATGTACTAATTGGATAAACAAAAAATTCTT-AAAATTTTATAGTAA
* * * *
52851811 GATTATATGTGAGTCTAGTTTTTGGAAAAATTAACGGATCTTAATTTGGAGCTC
128 GAATATATGTGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGCGC
*
52851865 CT-TAGCTATAGATATAAATAATTT
1 CTGTA-CTAT-GAGATAAATAATTT
52851889 AGTGACTATG
Statistics
Matches: 178, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
179 4 0.02
180 153 0.86
181 8 0.04
182 13 0.07
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (181 bp):
CTGTACTATGAGATAAATAATTTTTAGTGAAGAAAGATCGGAATTGTCAAACAATAAAACAAGGG
TATTGTTAATGAATAAAATGTACTAATTGGATAAACAAAAAATTCTTAAAATTTTATAGTAAGAA
TATATGTGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGCGC
Found at i:52854410 original size:40 final size:40
Alignment explanation
Indices: 52854325--52854475 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
52854315 AATTGAATGA
* * *
52854325 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
52854365 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
52854406 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
52854445 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
52854476 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:52854489 original size:40 final size:40
Alignment explanation
Indices: 52854362--52854491 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
52854352 ATGCTGGAAA
* * * *
52854362 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
52854402 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
52854442 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
52854482 TTATATCCGG
1 TTATATCCGG
52854492 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:52858102 original size:40 final size:40
Alignment explanation
Indices: 52858017--52858167 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
52858007 AATTGAATGA
* * *
52858017 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
52858057 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
52858098 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
52858137 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
52858168 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:52858181 original size:40 final size:40
Alignment explanation
Indices: 52858054--52858183 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
52858044 ATGCTGGAAA
* * * *
52858054 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
52858094 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
52858134 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
52858174 TTATATCCGG
1 TTATATCCGG
52858184 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:52860189 original size:11 final size:10
Alignment explanation
Indices: 52860157--52860210 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
52860147 CATGAGATTT
52860157 TGATAT-ACA
1 TGATATGACA
*
52860166 TGATTTGACA
1 TGATATGACA
52860176 TGATATGCACA
1 TGATATG-ACA
*
52860187 TGATATG-TA
1 TGATATGACA
52860196 TGATATGCACA
1 TGATATG-ACA
52860207 TGAT
1 TGAT
52860211 GTATTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:52860297 original size:26 final size:26
Alignment explanation
Indices: 52860257--52860328 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
52860247 GAAGAAGTGC
*
52860257 AAAAGGGC-TATGCCCCAGTTTACCGA
1 AAAAGGGCTTTTGCCCCAGTTTACC-A
* *
52860283 AACA-GGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTACCA
52860308 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
52860329 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.17
26 33 0.82
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCA
Found at i:52860341 original size:25 final size:25
Alignment explanation
Indices: 52860267--52860341 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 25
52860257 AAAAGGGCTA
* *
52860267 TGCCCCAGTTTACCGAAACAGGCTTT
1 TGCCCCAGTTTATC-AAAAAGGCTTT
52860293 TGCCCCAGTTTATCAAAAAGGGCTTT
1 TGCCCCAGTTTATCAAAAA-GGCTTT
*
52860319 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAA-AGGCT
52860342 AGGCCTCCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
25 16 0.36
26 28 0.64
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (25 bp):
TGCCCCAGTTTATCAAAAAGGCTTT
Found at i:52860584 original size:31 final size:31
Alignment explanation
Indices: 52860548--52860631 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
52860538 TCGTTACAGT
*
52860548 AAAGGCTTCGGCCTAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
52860579 AAAGGCTTTGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
52860610 GAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
52860632 TTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:52861744 original size:39 final size:39
Alignment explanation
Indices: 52861652--52861758 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 39
52861642 TCTGATCTGC
* * *
52861652 ATTCTATATCTGATTGGGCTAAGGCCCTAATTTATTCTTG
1 ATTCTATATCTGAGTGGGCTAA-GCCCTAATTTATACCTG
*
52861692 ACTCTATATCTGAGCTGGGCTAAGCCCTAATTTATACCT-
1 ATTCTATATCTGAG-TGGGCTAAGCCCTAATTTATACCTG
*
52861731 ATTCTATATCTGAGTGGGCTAAGGCCTA
1 ATTCTATATCTGAGTGGGCTAAGCCCTA
52861759 CACTGATTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 13 0.22
39 13 0.22
40 26 0.43
41 8 0.13
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (39 bp):
ATTCTATATCTGAGTGGGCTAAGCCCTAATTTATACCTG
Found at i:52864832 original size:46 final size:46
Alignment explanation
Indices: 52864779--52864877 Score: 198
Period size: 46 Copynumber: 2.2 Consensus size: 46
52864769 TTCCGTAGAG
52864779 ATCCCTAAGTTATGTTATTATCCCTATTCTAGACTAATAACGTCTA
1 ATCCCTAAGTTATGTTATTATCCCTATTCTAGACTAATAACGTCTA
52864825 ATCCCTAAGTTATGTTATTATCCCTATTCTAGACTAATAACGTCTA
1 ATCCCTAAGTTATGTTATTATCCCTATTCTAGACTAATAACGTCTA
52864871 ATCCCTA
1 ATCCCTA
52864878 GATTGAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (46 bp):
ATCCCTAAGTTATGTTATTATCCCTATTCTAGACTAATAACGTCTA
Found at i:52865503 original size:13 final size:13
Alignment explanation
Indices: 52865485--52865521 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
52865475 CTCGGCAGGG
52865485 ACATGCCCGTGGC
1 ACATGCCCGTGGC
52865498 ACATGCCCGTGGC
1 ACATGCCCGTGGC
*
52865511 ACACGCCCGTG
1 ACATGCCCGTG
52865522 TTTGATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.41, G:0.30, T:0.14
Consensus pattern (13 bp):
ACATGCCCGTGGC
Found at i:52878842 original size:39 final size:38
Alignment explanation
Indices: 52878720--52878848 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 38
52878710 CGGAATATAA
*
52878720 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCA-CTGCAC-AATGCCTTCGGGTCTTAGC
* **
52878760 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCAC-AATGCCTTCGGGTCTTAGC
* *
52878800 CCGGATATAGCCACTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTGCACAA-TGCCTTCGGGTCTTAGC
52878839 CCGGATATAA
1 CCGGATATAA
52878849 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 30 0.39
40 44 0.58
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CCGGATATAACCACTGCACAATGCCTTCGGGTCTTAGC
Found at i:52878869 original size:79 final size:79
Alignment explanation
Indices: 52878720--52878885 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
52878710 CGGAATATAA
* *
52878720 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
52878785 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
52878800 CCGGATATAGCCA-CTGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-
*
52878862 TGTCTTCGGGCTTAGC
64 TGCCTTCGGGCTTAGC
52878878 CCGGATAT
1 CCGGATAT
52878886 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 17 0.23
79 46 0.61
80 12 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:52878881 original size:39 final size:38
Alignment explanation
Indices: 52878736--52878885 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 38
52878726 ATAACCATGT
* * * *
52878736 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-TA-GCCAC
52878776 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCAC
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
* *
52878814 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA-
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-A--GCCAC
* *
52878855 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
52878886 CATTCAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.05
39 42 0.44
40 44 0.46
41 2 0.02
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
Found at i:52886842 original size:40 final size:39
Alignment explanation
Indices: 52886717--52886881 Score: 156
Period size: 40 Copynumber: 4.2 Consensus size: 39
52886707 CGGAATATAA
*
52886717 CCGGATATAACC-GT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCAC-AATGCCTTCGGGTCTTAGC
* ** *
52886755 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCAC-AATGCCTTCGGGTCTTAGC
* *
52886795 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
52886835 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAGC
52886874 CCGGATAT
1 CCGGATAT
52886882 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
38 9 0.09
39 16 0.15
40 80 0.76
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:52886865 original size:80 final size:79
Alignment explanation
Indices: 52886731--52886881 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
52886721 ATATAACCGT
*
52886731 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
52886796 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
52886811 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
52886874 CCGGATAT
64 CCGGATAT
52886882 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:52892257 original size:40 final size:40
Alignment explanation
Indices: 52892212--52892341 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
52892202 CGGAATATAA
52892212 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52892252 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
52892292 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
52892332 CCGGATATAA
1 CCGGATATAA
52892342 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:52892356 original size:40 final size:39
Alignment explanation
Indices: 52892228--52892378 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
52892218 ATAACCATGT
* * *
52892228 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
52892268 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
52892308 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
52892347 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
52892379 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:52892362 original size:80 final size:79
Alignment explanation
Indices: 52892212--52892378 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
52892202 CGGAATATAA
*
52892212 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
52892277 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
52892292 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
52892354 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
52892371 CCGGATAT
1 CCGGATAT
52892379 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:52895344 original size:55 final size:54
Alignment explanation
Indices: 52895202--52895345 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 54
52895192 ATTAGGGTTT
* * * * * *
52895202 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGA
* * * * *
52895256 AAGGAAATCATGTAACACCATGTCAAGACATGGCATTGATAAACTACTATAAGGA
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGA
* ** *
52895311 AATGATCCCATGTAAGACTATGCCAAGGCATGGCA
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCA
52895346 ATGGTGAGTT
Statistics
Matches: 70, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
54 33 0.47
55 37 0.53
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (54 bp):
AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGA
Found at i:52895375 original size:53 final size:54
Alignment explanation
Indices: 52895205--52895408 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 54
52895195 AGGGTTTAAG
* * * * *
52895205 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAT
* * * * * * * * *
52895259 GAAATCATGTAACACCATGTCAAGACATGGCATTGATAAACTACTATAAGGAAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAT
* * * *
52895314 GATCCCATGTAAGACTATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAT
* *
52895367 GATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
52895409 TAAAAGGAAA
Statistics
Matches: 118, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.38
54 33 0.28
55 40 0.34
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAT
Found at i:52899491 original size:26 final size:27
Alignment explanation
Indices: 52899462--52899515 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
52899452 TCACACAAGT
*
52899462 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
52899488 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
52899515 T
1 T
52899516 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:52899564 original size:27 final size:27
Alignment explanation
Indices: 52899516--52899634 Score: 112
Period size: 27 Copynumber: 4.4 Consensus size: 27
52899506 GGGGCAAAAT
* * *
52899516 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* *
52899543 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * * *
52899570 GATATTTCTACCTTACAAGGATATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * * *
52899597 AGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
*
52899624 GATAATTCTAC
1 GGTAATTCTAC
52899635 AACTTATCCA
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:52899595 original size:54 final size:54
Alignment explanation
Indices: 52899532--52899634 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
52899522 TTTACCCCAT
* * * *
52899532 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCTTAC
1 AAGGATATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCTTAC
* *
52899586 AAGGATATCTCAGTAATTCTACCTTATAAGGGTATTTCGATAATTCTAC
1 AAGGATATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTAC
52899635 AACTTATCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (54 bp):
AAGGATATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCTTAC
Found at i:52901480 original size:27 final size:28
Alignment explanation
Indices: 52901381--52901629 Score: 146
Period size: 27 Copynumber: 9.2 Consensus size: 28
52901371 TTAGTTTACC
* * *
52901381 AAATTACCAAAATA-CCCTCGAT-TAGCA
1 AAATTACCGAAATACCCCT-GATATGGTA
* *
52901408 AAATTACCAAAATACCCCT-AGT-TTGTA
1 AAATTACCGAAATACCCCTGA-TATGGTA
* *
52901435 AAATTACCAAAATACCCCTGAT-TTGTA
1 AAATTACCGAAATACCCCTGATATGGTA
* *
52901462 AAATTACTGAAATACCCCTG-TAAGGTA
1 AAATTACCGAAATACCCCTGATATGGTA
* * *
52901489 GAATTACTGAAATACCCCTG-TAAGGTA
1 AAATTACCGAAATACCCCTGATATGGTA
* * *
52901516 GAATTACCGAAATCCCCCT-ATAGGGTA
1 AAATTACCGAAATACCCCTGATATGGTA
* * *
52901543 GAATTACTGAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGATATGGTA
** * *
52901570 GAAA-TACTTAAATACCCTTG-TAGGGTA
1 -AAATTACCGAAATACCCCTGATATGGTA
* *
52901597 GAAA-TACTGAAATACCCCTG-TAGGGTA
1 -AAATTACCGAAATACCCCTGATATGGTA
*
52901624 GAATTA
1 AAATTA
52901630 TTGAGATACA
Statistics
Matches: 196, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 4 0.02
27 185 0.94
28 7 0.04
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (28 bp):
AAATTACCGAAATACCCCTGATATGGTA
Found at i:52901494 original size:54 final size:54
Alignment explanation
Indices: 52901407--52901629 Score: 218
Period size: 54 Copynumber: 4.1 Consensus size: 54
52901397 CTCGATTAGC
* ** * ** *
52901407 AAAATTACCAAAATACCCCTAGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT
1 AAAATTACCGAAATACCCCT-GTAGGGTAGAATTACTGAAATACCCCTGTA-TGGT
* * *
52901461 AAAATTACTGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTATGGT
* * * *
52901515 AGAATTACCGAAATCCCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTATGGT
** * * *
52901569 AGAAA-TACTTAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTATGGT
*
52901623 AGAATTA
1 AAAATTA
52901630 TTGAGATACA
Statistics
Matches: 142, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 4 0.03
54 135 0.95
55 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (54 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTATGGT
Found at i:52901521 original size:81 final size:82
Alignment explanation
Indices: 52901436--52901638 Score: 250
Period size: 81 Copynumber: 2.5 Consensus size: 82
52901426 TAGTTTGTAA
* ** *
52901436 AATTACCAAAATACCCCTGAT-TTGTAAAATTACTGAAATACCCCTGTAAGGTAGAATTACTGAA
1 AATTACCGAAATACCCCTGATAGGGTAAAATTACTGAAATACCCCTGTAAGGTAGAAATACTGAA
52901500 ATACCCCTGTAAGGTAG
66 ATACCCCTGTAAGGTAG
* * * *
52901517 AATTACCGAAATCCCCCT-ATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAATACTTAA
1 AATTACCGAAATACCCCTGATAGGGTAAAATTACTGAAATACCCCTGTAAGGTAGAAATACTGAA
* *
52901581 ATACCCTTGTAGGGTAG
66 ATACCCCTGTAAGGTAG
* * * * *
52901598 AAATACTGAAATACCCCTG-TAGGGTAGAATTATTGAGATAC
1 AATTACCGAAATACCCCTGATAGGGTAAAATTACTGAAATAC
52901639 ATTCGTGGGG
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.02
81 103 0.98
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (82 bp):
AATTACCGAAATACCCCTGATAGGGTAAAATTACTGAAATACCCCTGTAAGGTAGAAATACTGAA
ATACCCCTGTAAGGTAG
Found at i:52901638 original size:27 final size:27
Alignment explanation
Indices: 52901463--52901638 Score: 253
Period size: 27 Copynumber: 6.5 Consensus size: 27
52901453 TGATTTGTAA
*
52901463 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
52901490 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
52901517 AATTACCGAAATCCCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
52901544 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
52901571 AAATACTTAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
52901598 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
52901625 AATTATTGAGATAC
1 AATTACTGAAATAC
52901639 ATTCGTGGGG
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:52902371 original size:2 final size:2
Alignment explanation
Indices: 52902366--52902397 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
52902356 ACACACACAC
52902366 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
52902398 TTCTGTTCTG
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:52902435 original size:27 final size:26
Alignment explanation
Indices: 52902399--52902455 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
52902389 TATATATATT
*
52902399 TCTGTTCTGGTGGCCTAGCCACAATA
1 TCTGTTCTGGTGACCTAGCCACAATA
* * *
52902425 TCTGTATCTGGTGACTTCGTCACAATA
1 TCTGT-TCTGGTGACCTAGCCACAATA
52902452 TCTG
1 TCTG
52902456 GCAGCCTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGTTCTGGTGACCTAGCCACAATA
Found at i:52924144 original size:26 final size:27
Alignment explanation
Indices: 52924115--52924167 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
52924105 AGAAAACAAG
52924115 AAAA-TTAAACAAAATGAACGAGATTT
1 AAAATTTAAACAAAATGAACGAGATTT
*
52924141 AAAATTTAAACAAAATGAATGAGATTT
1 AAAATTTAAACAAAATGAACGAGATTT
52924168 GATCCCGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (27 bp):
AAAATTTAAACAAAATGAACGAGATTT
Found at i:52929408 original size:59 final size:60
Alignment explanation
Indices: 52929305--52929423 Score: 145
Period size: 59 Copynumber: 2.0 Consensus size: 60
52929295 GAGTATGGAA
52929305 AAAGAAAAAAAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
* ** ***
52929365 AAAG-AAAAGAAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAAAAAAAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
52929424 GAAAAGGGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
58 2 0.04
59 42 0.82
60 7 0.14
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (60 bp):
AAAGAAAAAAAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:52930680 original size:40 final size:40
Alignment explanation
Indices: 52930614--52930780 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
52930604 AAATTGAATG
* * *
52930614 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
52930653 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
52930693 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
52930733 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
52930773 ATATCCGG
1 ATATCCGG
52930781 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:52937410 original size:57 final size:56
Alignment explanation
Indices: 52937317--52937425 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 56
52937307 AAAAGAAAAA
52937317 AAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
* ***
52937373 AAAGAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
52937426 GAAAAGGGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 13 0.28
57 30 0.65
58 3 0.07
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (56 bp):
AAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:52938684 original size:40 final size:40
Alignment explanation
Indices: 52938618--52938784 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
52938608 AAATTGAATG
* * *
52938618 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
52938657 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
52938697 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
52938737 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
52938777 ATATCCGG
1 ATATCCGG
52938785 ATATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:52941516 original size:79 final size:82
Alignment explanation
Indices: 52941376--52941560 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
52941366 TCGAATGATG
* * *
52941376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
52941440 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
52941456 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
52941518 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
52941536 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52941561 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:52941568 original size:40 final size:40
Alignment explanation
Indices: 52941377--52941568 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
52941367 CGAATGATGT
* * * * *
52941377 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
52941417 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
52941457 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
52941496 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
52941536 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
52941569 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:52941591 original size:79 final size:79
Alignment explanation
Indices: 52941376--52941593 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
52941366 TCGAATGATG
* * * * ** *
52941376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
52941439 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
52941456 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
52941521 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
52941536 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
52941594 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:52946975 original size:14 final size:14
Alignment explanation
Indices: 52946956--52946987 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
52946946 CCTGTTCGTA
52946956 CAGATTACTCGTTG
1 CAGATTACTCGTTG
52946970 CAGATTACTCGTTG
1 CAGATTACTCGTTG
52946984 CAGA
1 CAGA
52946988 AGTTGGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (14 bp):
CAGATTACTCGTTG
Found at i:52950158 original size:34 final size:33
Alignment explanation
Indices: 52950111--52950186 Score: 107
Period size: 34 Copynumber: 2.3 Consensus size: 33
52950101 GTATGCATTT
52950111 CTGATACTGTACTGAAATGGGCTAAGGCCCACA
1 CTGATACTGTACTGAAATGGGCTAAGGCCCACA
* * * *
52950144 CTGATTCTGTTACTGTATTGGGCTAAGGTCCACA
1 CTGATACTG-TACTGAAATGGGCTAAGGCCCACA
52950178 CTGATACTG
1 CTGATACTG
52950187 CGATTGATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 8 0.22
34 29 0.78
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (33 bp):
CTGATACTGTACTGAAATGGGCTAAGGCCCACA
Found at i:52950200 original size:34 final size:33
Alignment explanation
Indices: 52950127--52950201 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
52950117 CTGTACTGAA
* **
52950127 ATGGGCTAAGGCCCACACTGATTCTGTTACTGT
1 ATGGGCTAAGGCCCACACTGATACTGCGACTGT
* *
52950160 ATTGGGCTAAGGTCCACACTGATACTGCGATTGAT
1 A-TGGGCTAAGGCCCACACTGATACTGCGACTG-T
52950195 ATGGGCT
1 ATGGGCT
52950202 TAAGCCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 1 0.03
34 32 0.91
35 2 0.06
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (33 bp):
ATGGGCTAAGGCCCACACTGATACTGCGACTGT
Found at i:52951398 original size:31 final size:31
Alignment explanation
Indices: 52951360--52951422 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
52951350 CGCATTGCCT
*
52951360 TAGTACCTTGGCTAGATTGTCTAGGCAATCA
1 TAGTACCTTGGCTAGATTGGCTAGGCAATCA
52951391 TAGTACCTTGGCTAGATTGGCTAGGCAATCA
1 TAGTACCTTGGCTAGATTGGCTAGGCAATCA
52951422 T
1 T
52951423 CATATGTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (31 bp):
TAGTACCTTGGCTAGATTGGCTAGGCAATCA
Found at i:52963028 original size:9 final size:10
Alignment explanation
Indices: 52963016--52963072 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 10
52963006 TACGTGGGAT
52963016 ATGATAT-AC
1 ATGATATGAC
*
52963025 ATGA-ATGAT
1 ATGATATGAC
52963034 ATGATATGCAC
1 ATGATATG-AC
52963045 ATGATAT--C
1 ATGATATGAC
52963053 TATGATATGCAC
1 -ATGATATG-AC
52963065 ATGATATG
1 ATGATATG
52963073 TATGAAATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
8 3 0.08
9 16 0.41
10 3 0.08
11 16 0.41
12 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:52963048 original size:20 final size:21
Alignment explanation
Indices: 52963013--52963089 Score: 101
Period size: 20 Copynumber: 3.9 Consensus size: 21
52963003 TGATACGTGG
52963013 GATATGATAT--ACATGA-AT
1 GATATGATATGCACATGATAT
52963031 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
52963052 -CTATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
52963072 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
52963090 GAATTCATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.19
20 41 0.77
21 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:52963050 original size:11 final size:11
Alignment explanation
Indices: 52963034--52963089 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52963024 CATGAATGAT
52963034 ATGATATGCAC
1 ATGATATGCAC
*
52963045 ATGATAT-C-T
1 ATGATATGCAC
52963054 ATGATATGCAC
1 ATGATATGCAC
*
52963065 ATGATATG--T
1 ATGATATGCAC
*
52963074 ATGAAATGCAC
1 ATGATATGCAC
52963085 ATGAT
1 ATGAT
52963090 GAATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:52963167 original size:26 final size:26
Alignment explanation
Indices: 52963138--52963274 Score: 174
Period size: 26 Copynumber: 5.4 Consensus size: 26
52963128 GGAGGAAGTG
*
52963138 GAAAAGGGCTTATGCCTCAGTTTATT
1 GAAAAGGGCTTATGCCCCAGTTTATT
* **
52963164 GAAAAGGGCTTATGCCCCAGTATACC
1 GAAAAGGGCTTATGCCCCAGTTTATT
52963190 GAAAAGGGCTTATGCCCCAGTTTATT
1 GAAAAGGGCTTATGCCCCAGTTTATT
* **
52963216 GAAAAGGGCTTATG-CCTAGTTTACC
1 GAAAAGGGCTTATGCCCCAGTTTATT
52963241 GAAAAGGGCTT-TGCCCCAG-TTATT
1 GAAAAGGGCTTATGCCCCAGTTTATT
52963265 -AAAAGAGGCT
1 GAAAAG-GGCT
52963275 AGGCCTCCAG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
23 5 0.05
24 9 0.09
25 23 0.24
26 59 0.61
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (26 bp):
GAAAAGGGCTTATGCCCCAGTTTATT
Found at i:52963216 original size:52 final size:51
Alignment explanation
Indices: 52963138--52963274 Score: 208
Period size: 52 Copynumber: 2.7 Consensus size: 51
52963128 GGAGGAAGTG
*
52963138 GAAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCAGTATACC
1 GAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTATACC
* *
52963190 GAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCTAGTTTACC
1 GAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTATACC
52963241 GAAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 GAAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
52963275 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 20 0.25
52 39 0.48
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (51 bp):
GAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTATACC
Found at i:52965442 original size:2 final size:2
Alignment explanation
Indices: 52965435--52965466 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
52965425 TCTAGTTGTC
52965435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52965467 CAAATCAAAA
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):
TA
Found at i:52969834 original size:49 final size:49
Alignment explanation
Indices: 52969774--52970107 Score: 604
Period size: 49 Copynumber: 6.9 Consensus size: 49
52969764 GTATGAGATA
*
52969774 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
52969823 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
52969872 --TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
52969919 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
52969968 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
52970017 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
52970064 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
52970108 TATATGTGTG
Statistics
Matches: 276, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
47 92 0.33
49 184 0.67
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:52969856 original size:22 final size:22
Alignment explanation
Indices: 52969828--52969903 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
52969818 GTGTGTATAT
52969828 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
52969850 ATGTGATGAAAGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
52969875 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
52969897 ATGTGAT
1 ATGTGAT
52969904 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:52969883 original size:96 final size:96
Alignment explanation
Indices: 52969776--52970107 Score: 601
Period size: 96 Copynumber: 3.4 Consensus size: 96
52969766 ATGAGATATA
*
52969776 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
*
52969841 TAATGGCCGATGTGATGAAAGTGAAAGTGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTG
52969872 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
*
52969937 TAATGGCCGATGTGATGAATGAGAAAGTGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTG
52969968 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 --TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* *
52970033 CCTAATGGCCCATGTGATGAATGTGAAAGTGTA
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
52970066 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
52970108 TATATGTGTG
Statistics
Matches: 228, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
96 135 0.59
98 93 0.41
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (96 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:52970140 original size:145 final size:144
Alignment explanation
Indices: 52969774--52970107 Score: 598
Period size: 145 Copynumber: 2.3 Consensus size: 144
52969764 GTATGAGATA
*
52969774 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
*
52969839 CCTAATGGCCGATGTGATGAAAGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGAT
66 CCTAATGGCCGATGTGATGAAAGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCCATGTGAT
52969904 GAATGTGAAAGTGTG
131 GAATGTGAAAG-GTG
*
52969919 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
*
52969984 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCCATGTG
66 CCTAATGGCCGATGTGATGAAAGTGAAAGTGTG--TATATGTGATAAGGCCTAATGGCCCATGTG
52970049 ATGAATGTGAAA-GTG
129 ATGAATGTGAAAGGTG
52970064 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
52970108 TATATGTGTG
Statistics
Matches: 182, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
145 141 0.77
147 41 0.23
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (144 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAAAGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCCATGTGAT
GAATGTGAAAGGTG
Found at i:52970248 original size:37 final size:37
Alignment explanation
Indices: 52970194--52970284 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
52970184 AACTTGGAAA
*
52970194 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52970232 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52970269 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
52970285 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:52975721 original size:2 final size:2
Alignment explanation
Indices: 52975716--52975749 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
52975706 TGAAAGTTGA
52975716 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
52975750 TTTTGAAGTA
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:52976278 original size:45 final size:45
Alignment explanation
Indices: 52976214--52976372 Score: 239
Period size: 45 Copynumber: 3.6 Consensus size: 45
52976204 TGTACAGTAC
* * *
52976214 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGAGAGATAT
1 TATTCGGGCCTCTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*
52976259 TATTCAGGCCTCTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTCTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* * *
52976304 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATAT
1 TATTCGGGCCTCTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*
52976349 TATTCGGGCC-CCGAGCCTAGCAGG
1 TATTCGGGCCTCTGAGCCTAGCAGG
52976373 TGAAATGCCA
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
44 12 0.12
45 91 0.88
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTCTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:52977375 original size:3 final size:3
Alignment explanation
Indices: 52977367--52977418 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
52977357 GCTAAGTCTA
52977367 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52977415 AAT A
1 AAT A
52977419 CTGTAGAGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:52977611 original size:37 final size:37
Alignment explanation
Indices: 52977563--52977643 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
52977553 ACCCTTCATG
*
52977563 CATATGTATGTTAATAAAGGGTGTTAACTATTGTTTT
1 CATATTTATGTTAATAAAGGGTGTTAACTATTGTTTT
52977600 CATATTTATGTTAATAAAGGGTGTTAACTATTGTTTT
1 CATATTTATGTTAATAAAGGGTGTTAACTATTGTTTT
52977637 CATATTT
1 CATATTT
52977644 GAATTCTGGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (37 bp):
CATATTTATGTTAATAAAGGGTGTTAACTATTGTTTT
Found at i:52982826 original size:38 final size:38
Alignment explanation
Indices: 52982775--52982864 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
52982765 AACATAGACA
52982775 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
*
52982813 TGTATGTTTGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
52982851 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
52982865 TAGGTAGCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
Found at i:52983518 original size:40 final size:40
Alignment explanation
Indices: 52983461--52983646 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
52983451 TCGAATGATG
* * *
52983461 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
52983501 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52983541 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52983581 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
52983622 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52983647 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.91
41 11 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52983653 original size:80 final size:79
Alignment explanation
Indices: 52983461--52983669 Score: 230
Period size: 80 Copynumber: 2.6 Consensus size: 79
52983451 TCGAATGATG
** * * *
52983461 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTAG-CTAAATCCGG-TTAAG-TCCCGAAGGCA
52983523 TTTGTGCGAGTTACTAAA
62 TTTGTGCGAGTTACTAAA
* **
52983541 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAGTCCCGAAGGCATT
52983605 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* *
52983622 T-CGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAA
52983670 ACTCCGAAGG
Statistics
Matches: 113, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
79 9 0.08
80 91 0.81
81 13 0.12
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:52990968 original size:38 final size:38
Alignment explanation
Indices: 52990917--52991006 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
52990907 AACATAGACA
52990917 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
52990955 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
52990993 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
52991007 TAGGTAGCCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
Found at i:52994301 original size:38 final size:38
Alignment explanation
Indices: 52994250--52994339 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
52994240 AACATAGACA
52994250 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
*
52994288 TGTATGTTTGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
52994326 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
52994340 TAGGTAGCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
Found at i:52995175 original size:40 final size:40
Alignment explanation
Indices: 52994938--52995161 Score: 319
Period size: 40 Copynumber: 5.6 Consensus size: 40
52994928 GAATGATGTT
* * * *
52994938 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATC
1 CGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* **
52994978 CAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
52995018 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
52995058 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
52995098 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
* *
52995138 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGTTAAGTCCCGAAGGCATTTG
52995162 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Done.