Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 278 of 290
Found at i:96120775 original size:44 final size:44
Alignment explanation
Indices: 96120686--96120833 Score: 145
Period size: 44 Copynumber: 3.4 Consensus size: 44
96120676 TATCTGTATC
* **
96120686 ATATGT-AAGCCTATATGTTTAATTATTCGATCTTATACGCGAGA
1 ATATGTGAA-CCTATATGTTTAATTATGCGATCTTATACGTTAGA
* * *
96120730 ATATGTGACCCTATATGTTCAATTATGCGATCTTATATGTTAGA
1 ATATGTGAACCTATATGTTTAATTATGCGATCTTATACGTTAGA
* * ** * * *
96120774 ATTTTTGAAAATATATGTTTAATTATGCGAGCCTATACGTTGGA
1 ATATGTGAACCTATATGTTTAATTATGCGATCTTATACGTTAGA
* *
96120818 ATATGCGAACATATAT
1 ATATGTGAACCTATAT
96120834 ATTAGTACAT
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
44 82 0.99
45 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (44 bp):
ATATGTGAACCTATATGTTTAATTATGCGATCTTATACGTTAGA
Found at i:96125083 original size:6 final size:6
Alignment explanation
Indices: 96125065--96125152 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
96125055 AAGAAACATT
*
96125065 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
96125114 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
96125153 GGGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:96125086 original size:18 final size:18
Alignment explanation
Indices: 96125065--96125152 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 18
96125055 AAGAAACATT
96125065 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
96125083 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
*
96125100 GTGACAGAATCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
96125120 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
96125139 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
96125153 GGGAATGCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
17 3 0.05
18 23 0.40
19 29 0.50
20 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:96125109 original size:31 final size:31
Alignment explanation
Indices: 96125074--96125152 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
96125064 TATCAGAACT
*
96125074 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
96125105 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
96125136 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
96125153 GGGAATGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:96125142 original size:25 final size:24
Alignment explanation
Indices: 96125079--96125125 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
96125069 GAACTAGAAT
96125079 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
96125104 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
96125126 ATCAGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:96125512 original size:27 final size:27
Alignment explanation
Indices: 96125482--96125533 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
96125472 AGTCATGAAA
*
96125482 AAATATGTTAGGCAC-ATAGCCATAGGT
1 AAATACGTTAGGCACGA-AGCCATAGGT
*
96125509 AAATACGTTTGGCACGAAGCCATAG
1 AAATACGTTAGGCACGAAGCCATAG
96125534 TCAAGATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
AAATACGTTAGGCACGAAGCCATAGGT
Found at i:96125972 original size:27 final size:27
Alignment explanation
Indices: 96125941--96126260 Score: 442
Period size: 27 Copynumber: 11.9 Consensus size: 27
96125931 TACCCCACAA
* ** * *
96125941 GGTATCTCGGTAATTCCGCCATATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
96125968 GGTATTTTAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
96125995 GGCATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
96126022 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
96126049 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
96126076 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
96126103 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
96126130 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
96126157 GGTATTGCGGTAATTCTAACCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
96126184 GGTATTTCGGTAATTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
96126211 GGTATTTCGGTAATTCTGCCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
96126238 GGTATTTTAGTAATTCTACCCTA
1 GGTATTTCGGTAATTCTACCCTA
96126261 TTGGGTTGTT
Statistics
Matches: 260, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 260 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:96126349 original size:27 final size:26
Alignment explanation
Indices: 96126319--96126631 Score: 302
Period size: 27 Copynumber: 11.6 Consensus size: 26
96126309 GTAAATCAAT
* *
96126319 GGTATTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAA-ACAAG
*** ** *
96126346 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACA-AACAAG
** * **
96126373 GGTATTTCAGTAATTTCACAAATTAG
1 GGTATTTTGGTAATTTTACAAACAAG
*
96126399 GGATATTTTGGTAATTTTACAAACTAAA
1 GG-TATTTTGGTAATTTTACAAAC-AAG
* *
96126427 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAA-CAAG
*
96126454 GGTATTTTGGTAATTTTATAAACAAAG
1 GGTATTTTGGTAATTTTACAAAC-AAG
*
96126481 GGTATTTTAGTAATTTTACGAAACAAG
1 GGTATTTTGGTAATTTTAC-AAACAAG
**
96126508 GGTATTTTGGTAATTTTGTAAACTAAG
1 GGTATTTTGGTAATTTTACAAAC-AAG
*
96126535 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAA-CAAG
* *
96126562 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAA-CAAG
* *
96126589 GGTATTTTAGTAATTTTACAAACCAG
1 GGTATTTTGGTAATTTTACAAACAAG
96126615 TGGTATTTTGGTAATTT
1 -GGTATTTTGGTAATTT
96126632 GGTAAACTAA
Statistics
Matches: 239, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
26 12 0.05
27 218 0.91
28 9 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACAAG
Found at i:96126431 original size:54 final size:53
Alignment explanation
Indices: 96126373--96126647 Score: 340
Period size: 54 Copynumber: 5.1 Consensus size: 53
96126363 ACAGGTCGAG
* * ** *
96126373 GGTATTTCAGTAATTTCACAAATTAGGGATATTTTGGTAATTTTACAAACTAAA
1 GGTATTTTAGTAATTTTACAAACCAGGG-TATTTTGGTAATTTTATAAACTAAA
96126427 GGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAAC-AAA
1 GGTATTTTAG-TAATTTTACAAACCA-GGGTATTTTGGTAATTTTATAAACTAAA
* * *
96126480 GGGTATTTTAGTAATTTTACGAAACAAGGGTATTTTGGTAATTTTGTAAACTAAG
1 -GGTATTTTAGTAATTTTAC-AAACCAGGGTATTTTGGTAATTTTATAAACTAAA
* * * *
96126535 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTAGTAATTTTACAAACCA-GGGTATTTTGGTAATTTTATAAACTAAA
**
96126589 GGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGTAATTTGGTAAACTAAA
1 GGTATTTTAGTAATTTTACAAACCAG-GGTATTTTGGTAATTTTATAAACTAAA
96126643 -GTATT
1 GGTATT
96126648 CTAAACAGGG
Statistics
Matches: 194, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
53 15 0.08
54 168 0.87
55 11 0.06
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (53 bp):
GGTATTTTAGTAATTTTACAAACCAGGGTATTTTGGTAATTTTATAAACTAAA
Found at i:96126556 original size:108 final size:107
Alignment explanation
Indices: 96126371--96126647 Score: 412
Period size: 108 Copynumber: 2.6 Consensus size: 107
96126361 TTACAGGTCG
* * ** **
96126371 AGGGTATTTCAGTAATTTCACAAATTAGGGATATTTTGGTAATTTTACAAACTAAAGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACAAGGG-TATTTTGGTAATTTTGTAAACTAAAGGTATTTTG
96126436 ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
65 ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
*
96126479 AGGGTATTTTAGTAATTTTACGAAACAAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTG
1 AGGGTATTTTAGTAATTTTAC-AAACAAGGGTATTTTGGTAATTTTGTAAACTAAAGGTATTTTG
* * *
96126544 GTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
65 ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
* *
96126587 AGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGTAATTTGGTAAACTAAA-GTATT
1 AGGGTATTTTAGTAATTTTACAAACAAG-GGTATTTTGGTAATTTTGTAAACTAAAGGTATT
96126648 CTAAACAGGG
Statistics
Matches: 154, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
107 11 0.07
108 136 0.88
109 7 0.05
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.40
Consensus pattern (107 bp):
AGGGTATTTTAGTAATTTTACAAACAAGGGTATTTTGGTAATTTTGTAAACTAAAGGTATTTTGA
TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
Found at i:96126823 original size:17 final size:17
Alignment explanation
Indices: 96126803--96126850 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
96126793 AACTTATCCA
96126803 ATTGGGCCCGTATGCCC
1 ATTGGGCCCGTATGCCC
96126820 ATTGGGCCCGTATGCCC
1 ATTGGGCCCGTATGCCC
*
96126837 ATTGGGCCCATATG
1 ATTGGGCCCGTATG
96126851 GCCCCTTTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.15, C:0.31, G:0.29, T:0.25
Consensus pattern (17 bp):
ATTGGGCCCGTATGCCC
Found at i:96130571 original size:16 final size:16
Alignment explanation
Indices: 96130550--96130583 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
96130540 ATATATGTTA
96130550 TTTTTGAAATGCACAG
1 TTTTTGAAATGCACAG
*
96130566 TTTTTGAAATGCATAG
1 TTTTTGAAATGCACAG
96130582 TT
1 TT
96130584 ATAACCCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (16 bp):
TTTTTGAAATGCACAG
Found at i:96132612 original size:40 final size:40
Alignment explanation
Indices: 96132529--96132871 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
96132519 TTGAATGCTG
* * * * * *
96132529 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
96132569 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
96132609 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
96132649 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
96132689 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
96132729 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
96132769 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
96132809 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
96132848 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
96132872 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:96140716 original size:80 final size:79
Alignment explanation
Indices: 96140632--96140803 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
96140622 GGACTAAGAT
*
96140632 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
96140696 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
96140712 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
96140777 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
96140791 CCGAAGGCATTTG
1 CCGAAGGCATTTG
96140804 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:96140783 original size:39 final size:39
Alignment explanation
Indices: 96140632--96140801 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 39
96140622 GGACTAAGAT
*
96140632 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
96140672 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
96140712 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
96140752 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
96140791 CCGAAGGCATT
1 CCGAAGGCATT
96140802 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
39 38 0.32
40 75 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:96140821 original size:79 final size:80
Alignment explanation
Indices: 96140659--96140836 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
96140649 AGATACAAAT
* * * *
96140659 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
96140724 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
96140739 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
96140803 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
96140818 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
96140837 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:96143097 original size:39 final size:38
Alignment explanation
Indices: 96143050--96143165 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 38
96143040 AGCTCGATAT
* * *
96143050 TTCCAGCACGTAGCTTGCAGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGC-GACCCTAAGTCCGGATATAA
96143089 TTCCAGCACATAGCCTGCGAACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCG-ACCCTAAGTCCGGATATAA
*
96143128 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATA
1 TTCCAGCACATAGCCTGC-GACCCTAAGTCCGGATATA
96143166 CATCACTGAA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 69 0.97
40 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (38 bp):
TTCCAGCACATAGCCTGCGACCCTAAGTCCGGATATAA
Found at i:96160020 original size:49 final size:49
Alignment explanation
Indices: 96159781--96160007 Score: 258
Period size: 49 Copynumber: 4.6 Consensus size: 49
96159771 TGTGAGGTCG
* * * * * * *
96159781 CATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTTA
* ** ** *
96159832 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTTA
* *
96159882 CGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACC-GAATAATTGGTTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATTGGTTA
*
96159931 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTA
*
96159980 CATGTGTAGTACTATGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
96160008 TGCGTACTAG
Statistics
Matches: 152, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 77 0.51
50 43 0.28
51 32 0.21
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTA
Found at i:96162451 original size:49 final size:49
Alignment explanation
Indices: 96162324--96162478 Score: 142
Period size: 49 Copynumber: 3.2 Consensus size: 49
96162314 ACTAATATTA
* ** *
96162324 ATAA-TAATAAGGATAATATAAAAATATATACATGAAATAGTATAAAAACAT
1 ATAACTAAT-AGGAT-ATTTAAAAATATATACATGAAATAACAT-AAAATAT
* *
96162375 ATAACTAAT-GG-TA-TTAAAAATACATACATGAGATAACATAAAATAT
1 ATAACTAATAGGATATTTAAAAATATATACATGAAATAACATAAAATAT
* *
96162421 ATGAA-TAGTAGGATATTTAAAAATATATACATAAAAT-ACATAAATATAT
1 AT-AACTAATAGGATATTTAAAAATATATACATGAAATAACATAAA-ATAT
*
96162470 ATAATTAAT
1 ATAACTAAT
96162479 GGTGCTTAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
46 11 0.13
47 25 0.29
48 12 0.14
49 28 0.33
50 2 0.02
51 4 0.05
52 4 0.05
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (49 bp):
ATAACTAATAGGATATTTAAAAATATATACATGAAATAACATAAAATAT
Found at i:96162684 original size:17 final size:18
Alignment explanation
Indices: 96162647--96162686 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
96162637 TAACAATAAC
*
96162647 AAAATATTGATAATAAAT
1 AAAATAATGATAATAAAT
*
96162665 AAAATAATGAT-ATTAAT
1 AAAATAATGATAATAAAT
96162682 AAAAT
1 AAAAT
96162687 GTAATAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATAATGATAATAAAT
Found at i:96171055 original size:57 final size:57
Alignment explanation
Indices: 96170986--96171099 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
96170976 TCACTGTGAT
*
96170986 AATAAATTCCTTACCCGATTCAGACTGAACCAGAACTGATGCTTCGATCATCAGGGC
1 AATAAATTCCTTACCCGATTCAAACTGAACCAGAACTGATGCTTCGATCATCAGGGC
* *
96171043 AATAAATTCCTTACTCGATTCAAACTGAACCAGAACTGATGCTTCGATTATCAGGGC
1 AATAAATTCCTTACCCGATTCAAACTGAACCAGAACTGATGCTTCGATCATCAGGGC
96171100 TTCCAACTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (57 bp):
AATAAATTCCTTACCCGATTCAAACTGAACCAGAACTGATGCTTCGATCATCAGGGC
Found at i:96176770 original size:21 final size:21
Alignment explanation
Indices: 96176746--96176788 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
96176736 TTGTTCAGAA
96176746 CTTCAACACAAACTTCCTCCT
1 CTTCAACACAAACTTCCTCCT
* ** *
96176767 CTTCCACAGTAACTTTCTCCT
1 CTTCAACACAAACTTCCTCCT
96176788 C
1 C
96176789 AACAACAGAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.02, T:0.33
Consensus pattern (21 bp):
CTTCAACACAAACTTCCTCCT
Found at i:96178574 original size:36 final size:36
Alignment explanation
Indices: 96178525--96178594 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
96178515 GGAGTGCATG
* * *
96178525 CCCAAGCTCGATCATTGAGTCCC-ACAATAGCTTCTC
1 CCCAAACTCGATCAATGAGACCCGA-AATAGCTTCTC
*
96178561 CCCAAACTTGATCAATGAGACCCGAAATAGCTTC
1 CCCAAACTCGATCAATGAGACCCGAAATAGCTTC
96178595 CTTAAACCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.97
37 1 0.03
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (36 bp):
CCCAAACTCGATCAATGAGACCCGAAATAGCTTCTC
Found at i:96185996 original size:42 final size:44
Alignment explanation
Indices: 96185918--96186008 Score: 116
Period size: 42 Copynumber: 2.1 Consensus size: 44
96185908 GTCTACATGT
* *
96185918 AATCAAATATTGATGCCACTGTCCCAAACAGGGTCTTACACG-A
1 AATCAAATATTGATGCCAATGTCCCAAACAGGGTCTTACAAGTA
**
96185961 AATCAAATA-TGATGCCAATGT-CCAAGACATTGTCTTACAAGTA
1 AATCAAATATTGATGCCAATGTCCCAA-ACAGGGTCTTACAAGTA
96186004 AATCA
1 AATCA
96186009 TAAGTCGATG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 4 0.10
42 23 0.55
43 15 0.36
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (44 bp):
AATCAAATATTGATGCCAATGTCCCAAACAGGGTCTTACAAGTA
Found at i:96188945 original size:25 final size:25
Alignment explanation
Indices: 96188911--96188961 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
96188901 TCTTCTCGAG
*
96188911 AATGTTTTTAATTTTTTGATTTGAT
1 AATGTTTTTAATTTTTCGATTTGAT
96188936 AATGTTTTTAATTTTTCGATTTGAT
1 AATGTTTTTAATTTTTCGATTTGAT
96188961 A
1 A
96188962 CTTGGGCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (25 bp):
AATGTTTTTAATTTTTCGATTTGAT
Found at i:96195241 original size:30 final size:30
Alignment explanation
Indices: 96195207--96195267 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96195197 TCCTTAACTC
*
96195207 AAACTTTGGAAAAATTACAGTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * * *
96195237 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
96195267 A
1 A
96195268 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:96199241 original size:68 final size:65
Alignment explanation
Indices: 96199035--96199256 Score: 209
Period size: 64 Copynumber: 3.4 Consensus size: 65
96199025 CATAATTTTG
* * * *
96199035 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTATACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
** * * * * * * * * *
96199098 GCTCTCTTGTTTACATGGTGTCCTTCACGTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACAT-G-GT-ATACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
96199162 GTA
63 GTA
*
96199165 GTTCTCTTGT-CTACATGGTATACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTATACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
96199229 CGTA
62 CGTA
96199233 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTATACA
96199257 TCCCGTATTA
Statistics
Matches: 123, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
63 14 0.11
64 28 0.23
65 5 0.04
66 24 0.20
67 23 0.19
68 28 0.23
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTATACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
Found at i:96199278 original size:68 final size:68
Alignment explanation
Indices: 96199035--96199284 Score: 175
Period size: 68 Copynumber: 3.8 Consensus size: 68
96199025 CATAATTTTG
* * * * * *
96199035 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CT--T--TATCT
1 GCTCTCTTGT-CTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATAATGTCT
96199094 CGTA
65 CGTA
* * * * * * *
96199098 GCTCTCTTGTTTACATGGTGTCCTTCAC-GTGGAACCACACATGCAACCTAGCTACATC-T-A--
1 GCTCTCTTGTCTACATGGTATAC-ACACAGT---ATCACACATGCGACCTAGCTACCTCATAATG
96199158 TCTCGTA
62 TCTCGTA
* * *
96199165 GTTCTCTTGTCTACATGGTATACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATAATGTCTC
96199230 GTA
66 GTA
* * *
96199233 GCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 GCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
96199285 ATATCATCTG
Statistics
Matches: 146, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
63 22 0.15
64 23 0.16
65 1 0.01
66 19 0.13
67 29 0.20
68 50 0.34
69 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (68 bp):
GCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATAATGTCTC
GTA
Found at i:96212021 original size:30 final size:31
Alignment explanation
Indices: 96211986--96212046 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
96211976 GAAGATGATG
* *
96211986 ATGGAG-AAAAAAACTCAAGAAGATCCCTTT
1 ATGGAGAAAAAAAACTAAAGAAGACCCCTTT
96212016 ATGGAGAAAAAAAACTAAAGAAGACCCCTTT
1 ATGGAGAAAAAAAACTAAAGAAGACCCCTTT
96212047 TTCTTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (31 bp):
ATGGAGAAAAAAAACTAAAGAAGACCCCTTT
Found at i:96212287 original size:66 final size:66
Alignment explanation
Indices: 96212176--96212304 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 66
96212166 TTCTTATCCA
* * *
96212176 GACAGTTGTCAGGTGTGACGAAAATTCTTGACGCAATCTGAAATTAACCCATGCAGTGACATTGC
1 GACAGTTGTCAGGTGCGACGAAAATTCTGGACGCAATCTGAAATTAACCCATGCAGCGACATTGC
96212241 G
66 G
* * * * *
96212242 GACATTTGTCAGGTGCGGC-AATAATTCTGGATGCAATCTGGAATTAACTCATGCAGCGACATT
1 GACAGTTGTCAGGTGCGACGAA-AATTCTGGACGCAATCTGAAATTAACCCATGCAGCGACATT
96212305 AATGCAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
65 2 0.04
66 52 0.96
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (66 bp):
GACAGTTGTCAGGTGCGACGAAAATTCTGGACGCAATCTGAAATTAACCCATGCAGCGACATTGC
G
Found at i:96213784 original size:26 final size:26
Alignment explanation
Indices: 96213755--96213808 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
96213745 ACATGAGCTA
*
96213755 TGAAATGGGCTTGCTCACACAAGTTG
1 TGAAATGGGCTTACTCACACAAGTTG
*
96213781 TGAAATGGGCTTACTCACACGAGTTG
1 TGAAATGGGCTTACTCACACAAGTTG
96213807 TG
1 TG
96213809 GGTCAGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
TGAAATGGGCTTACTCACACAAGTTG
Found at i:96216478 original size:32 final size:32
Alignment explanation
Indices: 96216437--96216500 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
96216427 AGAAAGATGT
96216437 TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
1 TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
*
96216469 TAGATTTGTCTGGTCTGAGAAGTGCCAACATA
1 TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
96216501 GTTTTGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (32 bp):
TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
Found at i:96225265 original size:29 final size:27
Alignment explanation
Indices: 96225221--96225310 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 27
96225211 TGAGCATGAC
*
96225221 TATAAATGTGAATTGGGCCTGACGGGCCA
1 TATAAATGTG-ATTGGGCCT-ATGGGCCA
*
96225250 TATAAATATGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCT-ATGGGCCA
*
96225279 TACAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTA-TGGGCCA
96225307 TATA
1 TATA
96225311 CAGGTATTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 1 0.02
28 19 0.36
29 33 0.62
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
TATAAATGTGATTGGGCCTATGGGCCA
Found at i:96227701 original size:29 final size:28
Alignment explanation
Indices: 96227657--96227745 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
96227647 TGAGCATGAC
*
96227657 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
* * *
96227686 TATAAATATGATTTGGG-CTTATGGGCTA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
96227714 TACAAATGTGATTGGGCC-AAGTGGGCCA
1 TATAAATGTGATTGGGCCTAA-TGGGCCA
96227742 TATA
1 TATA
96227746 CTGGTACGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 6 0.12
28 29 0.59
29 14 0.29
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:96233091 original size:27 final size:27
Alignment explanation
Indices: 96233061--96233238 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
96233051 ATATTGAGCC
* * *
96233061 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
96233088 CGCACACTTAGTGCTACGTAATCATA-T
1 CGCACACTTAGTGCTACATAGTCA-ACT
96233115 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
96233143 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
96233170 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
96233197 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
96233224 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96233239 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:96233200 original size:82 final size:81
Alignment explanation
Indices: 96233082--96233237 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
96233072 TGCTATATAA
* *
96233082 TCAACTCGCACACTTAGTGCTACGTAATCATATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCATATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
96233147 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * *
96233164 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCATATCGCACACTTAGTGCAACATAGTCAAATCGCA
96233228 CACTTAGTGC
65 CACTTAGTGC
96233238 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCATATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:96233735 original size:12 final size:12
Alignment explanation
Indices: 96233718--96233744 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
96233708 ATGGCATACT
96233718 TATGTATATATA
1 TATGTATATATA
96233730 TATGTATATATA
1 TATGTATATATA
96233742 TAT
1 TAT
96233745 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:96235246 original size:43 final size:43
Alignment explanation
Indices: 96235183--96235289 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
96235173 TGTGATTACA
* *
96235183 TGTAAGACCATGTCTAGGACATTAGTATTG-TAT-TGTAATTAT-G
1 TGTAAGACCATGTCTGGGACATTAGCATTGTTATATG--ATT-TCG
96235226 TGTAAGACCATGTCTGGGACATTAGCATTGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTAGCATTGTTATATGATTTCG
*
96235269 TGTAAGACCCTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
96235290 GTGCATCAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
42 1 0.02
43 52 0.90
44 3 0.05
45 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTAGCATTGTTATATGATTTCG
Found at i:96248822 original size:48 final size:48
Alignment explanation
Indices: 96248764--96248993 Score: 220
Period size: 48 Copynumber: 4.9 Consensus size: 48
96248754 ACATGGTAGG
* * *
96248764 ATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* * ** * *
96248812 ATGCCAATGCCATGTCCTAGACATGGTCTCACATGGGATCGTAGATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* *
96248860 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* * * ** * *
96248908 ATGTCGAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATCG
1 ATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCA
* * *
96248951 ATGCCAAAGCCATGTCCCATACATAGTCTTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
96248994 CATAACCCTA
Statistics
Matches: 144, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 107 0.74
49 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
Found at i:96261773 original size:93 final size:93
Alignment explanation
Indices: 96261665--96261835 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
96261655 GCCCCTAAGT
*** * * * * * *
96261665 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAGCTTGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
96261730 TGAGTTCGGATGCCTAGTTACATCTTAC
66 CGAGTTCGGATGCCTAGTTACATCTTAC
* *
96261758 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCGTAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
96261823 CGAGTTCGGATGC
66 CGAGTTCGGATGC
96261836 TCAACCATCC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTTAC
Found at i:96265339 original size:16 final size:16
Alignment explanation
Indices: 96265318--96265350 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
96265308 ATGTGGAGAC
96265318 TAACTATACCCAATTG
1 TAACTATACCCAATTG
96265334 TAACTATACCCAATTG
1 TAACTATACCCAATTG
96265350 T
1 T
96265351 TCAGTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (16 bp):
TAACTATACCCAATTG
Found at i:96271407 original size:41 final size:41
Alignment explanation
Indices: 96271350--96271431 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
96271340 TGCCGCCAAT
96271350 GTGTTTCTAACAAATGAAATGAGGTCCACTTAGAAAGAGTG
1 GTGTTTCTAACAAATGAAATGAGGTCCACTTAGAAAGAGTG
*
96271391 GTGTTTCTAACAAATGAAATGAGGTCCACTTAGAACGAGTG
1 GTGTTTCTAACAAATGAAATGAGGTCCACTTAGAAAGAGTG
96271432 TTTTAGATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (41 bp):
GTGTTTCTAACAAATGAAATGAGGTCCACTTAGAAAGAGTG
Found at i:96271792 original size:15 final size:16
Alignment explanation
Indices: 96271762--96271800 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
96271752 TAATAAAAAT
96271762 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
96271779 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
96271794 ATAATTT
1 ATAATTT
96271801 TTAAAAGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:96272192 original size:16 final size:18
Alignment explanation
Indices: 96272168--96272208 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
96272158 TTTTAGTTTA
96272168 TAATATTTTATAT-T-ATG
1 TAAT-TTTTATATATGATG
96272185 TAATTTTTATATATGATG
1 TAATTTTTATATATGATG
96272203 TAATTT
1 TAATTT
96272209 ATAACACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
18 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TAATTTTTATATATGATG
Found at i:96272199 original size:15 final size:17
Alignment explanation
Indices: 96272168--96272206 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 17
96272158 TTTTAGTTTA
96272168 TAATATTTTATATTATG
1 TAATATTTTATATTATG
96272185 TAAT-TTTTATATATGATG
1 TAATATTTTATAT-T-ATG
96272203 TAAT
1 TAAT
96272207 TTATAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 5 0.25
18 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (17 bp):
TAATATTTTATATTATG
Found at i:96273229 original size:15 final size:17
Alignment explanation
Indices: 96273199--96273242 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
96273189 TTAAATGTAA
96273199 AAAATGTGATTTTTAAT
1 AAAATGTGATTTTTAAT
*
96273216 AAAA-GTGATTTTAAAGAT
1 AAAATGTGATTTT-TA-AT
96273234 AAAATGTGA
1 AAAATGTGA
96273243 AATTGATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.35
17 5 0.22
18 6 0.26
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (17 bp):
AAAATGTGATTTTTAAT
Found at i:96273838 original size:9 final size:9
Alignment explanation
Indices: 96273824--96273860 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
96273814 TATAGTTTGA
96273824 TATTCGAAT
1 TATTCGAAT
96273833 TATTCGAAT
1 TATTCGAAT
* *
96273842 TATTTGAGT
1 TATTCGAAT
96273851 TATTCGAAT
1 TATTCGAAT
96273860 T
1 T
96273861 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:96273934 original size:18 final size:18
Alignment explanation
Indices: 96273911--96273945 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
96273901 ATTCAAGTTG
96273911 ACTCGAAGAACTCGATTA
1 ACTCGAAGAACTCGATTA
*
96273929 ACTCGAATAACTCGATT
1 ACTCGAAGAACTCGATT
96273946 CGTTTAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (18 bp):
ACTCGAAGAACTCGATTA
Found at i:96273989 original size:10 final size:9
Alignment explanation
Indices: 96273966--96273993 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
96273956 GAAATTTAAA
96273966 ATTTTTTCG
1 ATTTTTTCG
96273975 ATTTTTTCG
1 ATTTTTTCG
96273984 ATTTTTTCG
1 ATTTTTTCG
96273993 A
1 A
96273994 GTCAAATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.64
Consensus pattern (9 bp):
ATTTTTTCG
Found at i:96275143 original size:47 final size:47
Alignment explanation
Indices: 96275039--96275244 Score: 127
Period size: 47 Copynumber: 4.4 Consensus size: 47
96275029 GTGCACCAGT
* * * * *
96275039 GTAAGACATGTCTGGGACAT-GCTTCGGCCTCACTATGAGAGCTAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCATCACGACGAGAGCTAGC
** *
96275085 AAAAGACCATGTCTGGGACATGGCATCGGCATC-CAGACGAGGGCTAGC
1 GTAAGA-CATGTCTGGGACATGGCATCGGCATCAC-GACGAGAGCTAGC
* * * ** * * * *
96275133 GTAAGACATGTCTGAGACAT-GCTTCAGCCAT-ATTATGAGTGCCAGA
1 GTAAGACATGTCTGGGACATGGCATC-GGCATCACGACGAGAGCTAGC
* * * *
96275179 GTAAGACATGTCTGGGACAT-GCATCGGCCTCGACAGA-GATAGCCAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCATC-AC-GACGAGAGCTAGC
*
96275226 GTAAGACGTGTCTGGGACA
1 GTAAGACATGTCTGGGACA
96275245 CGCATCAGCT
Statistics
Matches: 123, Mismatches: 29, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
45 3 0.02
46 39 0.32
47 58 0.47
48 23 0.19
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGGCATCGGCATCACGACGAGAGCTAGC
Found at i:96285712 original size:21 final size:20
Alignment explanation
Indices: 96285678--96285723 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
96285668 AATATTTAAG
96285678 TATA-TATAAAATATTATTAT
1 TATATTATAAAATATTA-TAT
*
96285698 TATATTATAATATATTATAT
1 TATATTATAAAATATTATAT
96285718 TA-ATTA
1 TATATTA
96285724 AACATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATATTATAAAATATTATAT
Found at i:96286190 original size:43 final size:44
Alignment explanation
Indices: 96286143--96286232 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
96286133 TTTTAAGTGG
*
96286143 TAGTTGAATG-AAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
1 TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
96286186 TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
1 TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
96286230 TAG
1 TAG
96286233 ATTTGATTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 9 0.20
44 36 0.80
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (44 bp):
TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
Found at i:96302175 original size:46 final size:46
Alignment explanation
Indices: 96302125--96302294 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 46
96302115 TTGAGCATCT
*
96302125 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * *
96302171 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* *
96302218 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
*
96302264 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
96302295 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.55
47 29 0.28
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:96302278 original size:93 final size:93
Alignment explanation
Indices: 96302119--96302289 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
96302109 GGATGGTTGA
* * *
96302119 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
96302184 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
96302212 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
96302277 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96302290 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96304674 original size:30 final size:30
Alignment explanation
Indices: 96304640--96304699 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
96304630 TGCAGCCAGT
96304640 GTAGGGAA-TACGAGATTTGTTAAACCCGAG
1 GTAGGGAACT-CGAGATTTGTTAAACCCGAG
96304670 GTAGGGAACTCGAGATTTGTTAAACCCGAG
1 GTAGGGAACTCGAGATTTGTTAAACCCGAG
96304700 TGCCAGCAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (30 bp):
GTAGGGAACTCGAGATTTGTTAAACCCGAG
Found at i:96305387 original size:26 final size:26
Alignment explanation
Indices: 96305351--96305405 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
96305341 GGTTGAATCA
96305351 GATAAATCAGAGGCATTGTCTAGTGT
1 GATAAATCAGAGGCATTGTCTAGTGT
96305377 GATAAATCAGAGGCATTGTCTAGTGT
1 GATAAATCAGAGGCATTGTCTAGTGT
96305403 GAT
1 GAT
96305406 TTCTTCGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (26 bp):
GATAAATCAGAGGCATTGTCTAGTGT
Found at i:96309698 original size:46 final size:46
Alignment explanation
Indices: 96309645--96309813 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 46
96309635 TGAGCATCCA
* *
96309645 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGTCCG
* * * *
96309691 AACTCGTTGAGTTGAGTCCGAGTT--CGT-GAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAA--A--CGTCCG
* * * * *
96309738 AACTCGTTGATTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGTCCG
* *
96309784 AGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
96309814 GGGGTAGGTT
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
43 7 0.07
44 2 0.02
45 1 0.01
46 54 0.56
47 26 0.27
48 1 0.01
49 1 0.01
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGTCCG
Found at i:96309797 original size:93 final size:93
Alignment explanation
Indices: 96309638--96309808 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
96309628 GGATGGTTGA
* * *
96309638 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
96309703 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * * *
96309731 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
96309796 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96309809 ACTTAGGGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96314843 original size:20 final size:20
Alignment explanation
Indices: 96314807--96314853 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
96314797 CTAGAAAATT
*
96314807 TATATATATAACCACATGCA
1 TATATATATAACCACATCCA
*
96314827 TATATATAT-ACATACATCCA
1 TATATATATAAC-CACATCCA
96314847 TA-ATATA
1 TATATATA
96314854 AACACCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (20 bp):
TATATATATAACCACATCCA
Found at i:96323962 original size:20 final size:20
Alignment explanation
Indices: 96323908--96323970 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
96323898 TTCTCAATCA
* *
96323908 TATAAACAGTAATTCATTCG
1 TATAAACAGTACTTCATCCG
*
96323928 -AT-AATAGTAAC-TCATCCG
1 TATAAACAGT-ACTTCATCCG
96323946 TATAAACAGTACTTCATCCG
1 TATAAACAGTACTTCATCCG
96323966 TATAA
1 TATAA
96323971 CACACAGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 11 0.31
19 7 0.20
20 17 0.49
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (20 bp):
TATAAACAGTACTTCATCCG
Found at i:96324171 original size:24 final size:25
Alignment explanation
Indices: 96324131--96324235 Score: 92
Period size: 24 Copynumber: 4.2 Consensus size: 25
96324121 AGTTCCTCCT
* *
96324131 AAGCTGATGGACAGTAAGCTCTGACG
1 AAGCTGA-GAACAGTAAGCTCTTACG
*
96324157 AA-CTGAGAATAGTAAGCTCTTAC-
1 AAGCTGAGAACAGTAAGCTCTTACG
*
96324180 AAGCTGAGAACAGTAACCTCTTACG
1 AAGCTGAGAACAGTAAGCTCTTACG
* * *
96324205 -AGATGATATATCAGTAAGCTCATACG
1 AAGCTGAGA-A-CAGTAAGCTCTTACG
96324231 -AGCTG
1 AAGCTG
96324236 CGGTGAGTCC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.03
24 39 0.60
25 5 0.08
26 19 0.29
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
AAGCTGAGAACAGTAAGCTCTTACG
Found at i:96324967 original size:6 final size:6
Alignment explanation
Indices: 96324956--96325137 Score: 117
Period size: 6 Copynumber: 29.8 Consensus size: 6
96324946 AACCAAAATG
*
96324956 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC
* * *
96325004 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * * * *
96325053 TG-GTGAC AGAATC AGAATT AGAATC AGTATT AGTAA-C AGAATC AGAGTC
1 AGAAT--C AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
96325102 AGAATC AGAATT ACGTGAT- AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
96325138 GTGAATGCAA
Statistics
Matches: 136, Mismatches: 23, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
5 11 0.08
6 111 0.82
7 9 0.07
8 5 0.04
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:96325043 original size:25 final size:24
Alignment explanation
Indices: 96324956--96325076 Score: 118
Period size: 25 Copynumber: 4.7 Consensus size: 24
96324946 AACCAAAATG
* *
96324956 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATTAGTGAC
96324980 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGT----G-A-C
96325010 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTA-GTGAC
*
96325035 AGAATCAGAATCAGAATTTGGTGAC
1 AGAATCAGAATCAGAA-TTAGTGAC
*
96325060 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
96325077 CAGTATTAGT
Statistics
Matches: 83, Mismatches: 4, Indels: 20
0.78 0.04 0.19
Matches are distributed among these distances:
23 1 0.01
24 19 0.23
25 37 0.45
26 3 0.04
27 1 0.01
29 1 0.01
30 18 0.22
31 3 0.04
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATTAGTGAC
Found at i:96325084 original size:86 final size:86
Alignment explanation
Indices: 96324979--96325137 Score: 273
Period size: 86 Copynumber: 1.8 Consensus size: 86
96324969 GAATCAGTAA
*
96324979 CAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGA
1 CAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGA
96325044 ATCAGAATTTGGTGACAGAAT
66 ATCAGAATTTGGTGACAGAAT
* * * *
96325065 CAGAATTAGAATCAGTATTAGTAACAGAATCAGAGTCAGAATCAGAATTACGTGATAGAATCAGA
1 CAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGA
96325130 ATCAGAAT
66 ATCAGAAT
96325138 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (86 bp):
CAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGA
ATCAGAATTTGGTGACAGAAT
Found at i:96325320 original size:27 final size:27
Alignment explanation
Indices: 96325255--96325312 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
96325245 AGCATGGCTG
*
96325255 CCAGA-ACAGATATCGTGACAGAGTCA
1 CCAGATACAGATATCGTGACAGAGCCA
* *
96325281 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATCGTGACAGAGCCA
96325308 CCAGA
1 CCAGA
96325313 ATTAGATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATATCGTGACAGAGCCA
Found at i:96325718 original size:27 final size:26
Alignment explanation
Indices: 96325639--96325721 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
96325629 TCGATCGGTC
* * *
96325639 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
96325665 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
96325692 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
96325719 AAC
1 AAC
96325722 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:96325950 original size:27 final size:27
Alignment explanation
Indices: 96325920--96326115 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
96325910 GGGGCAAAAT
* * * *
96325920 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
96325947 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
96325974 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
96326001 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
96326028 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
96326055 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
96326082 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
96326109 AGTAATT
1 GGTAATT
96326116 GCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:96326150 original size:27 final size:27
Alignment explanation
Indices: 96326120--96326546 Score: 399
Period size: 27 Copynumber: 15.8 Consensus size: 27
96326110 GTAATTGCAC
*
96326120 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
96326147 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
96326174 AA-CTGAAGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAACGA-TAATTCTGTA
* * **
96326201 AATCAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
96326228 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
96326255 AATCGAGGGTAAAGC-AGTAATTCTAT-
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* *
96326281 AAGCTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
* *
96326309 AATTGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* * *
96326336 AA-CTGAGGGTAAAACGGTAATTATATA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
96326363 AATCGAGGGTAAAAC-AGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* *
96326390 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGATAATTCTGTA
* * **
96326417 AATCAAGGGTAAAAC-AGTAATTTTAAA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* *
96326444 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
96326471 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
96326498 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
96326525 AA-CTGAGGGTAAAACGGTAATT
1 AATC-GAGGGTAAAACGATAATT
96326547 NNNNNNNNNN
Statistics
Matches: 337, Mismatches: 44, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
26 11 0.03
27 316 0.94
28 10 0.03
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:96326196 original size:54 final size:55
Alignment explanation
Indices: 96326125--96326546 Score: 526
Period size: 54 Copynumber: 7.8 Consensus size: 55
96326115 TGCACAATCA
* * *
96326125 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACTG
* * * * *
96326179 AAGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAACGA-TAATTTTACAAA-TCG
1 AGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACT-G
* * *
96326233 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAGC-AGTAATTCTATAAGCTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACTG
* * *
96326287 AGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAA-TAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACTG
* *
96326341 AGGGTAAAACGGTAATTATATAAATCGAGGGTAAAAC-AGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACTG
* * * *
96326395 AGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAAC-AGTAATTTTA-AAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACT-G
* *
96326449 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG-GTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACTG
96326503 AGGGTAAAACGGTAATTCTGTAAA-CTGAGGGTAAAACG-GTAATT
1 AGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGAGTAATT
96326547 NNNNNNNNNN
Statistics
Matches: 325, Mismatches: 32, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
53 11 0.03
54 305 0.94
55 9 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (55 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTATAAACTG
Found at i:96326219 original size:81 final size:81
Alignment explanation
Indices: 96326120--96326546 Score: 499
Period size: 81 Copynumber: 5.3 Consensus size: 81
96326110 GTAATTGCAC
* * * * *
96326120 AATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAAGGT-
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
96326184 AAACTAGTAATTCTGTA
66 AAAC-AGTAATTCTATA
* * * *
96326201 AATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTTTGTAAA-TCGAGGGT
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGGT
*
96326265 AAAGCAGTAATTCTAT-
65 AAAACAGTAATTCTATA
* * * * **
96326281 AAGCTGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
* *
96326346 AAAACGGTAATTATATA
65 AAAACAGTAATTCTATA
* *
96326363 AATCGAGGGTAAAAC-AGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTATAAA-TCAAGG
1 AATCGAGGGTAAAACGA-TAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAACT-GAGG
* *
96326425 GTAAAACAGTAATTTTAAA
63 GTAAAACAGTAATTCTATA
*
96326444 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
* *
96326509 AAACGGTAATTCTGTA
66 AAACAGTAATTCTATA
*
96326525 AA-CTGAGGGTAAAACGGTAATT
1 AATC-GAGGGTAAAACGATAATT
96326547 NNNNNNNNNN
Statistics
Matches: 296, Mismatches: 38, Indels: 24
0.83 0.11 0.07
Matches are distributed among these distances:
80 6 0.02
81 281 0.95
82 9 0.03
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTATA
Found at i:96328679 original size:27 final size:27
Alignment explanation
Indices: 96328447--96328662 Score: 310
Period size: 27 Copynumber: 8.0 Consensus size: 27
96328437 CGTCGCTACA
96328447 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * **
96328474 AAGGTAAAACGGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
**
96328501 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
96328528 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
96328555 AGGGTAAAACGGTAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* *
96328582 AGGGTAAAACAGTAATTCTGTAAA-CTA
1 AGGGTAAAACGGTAATTCTGTAAATC-G
96328609 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
96328636 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
96328663 GGAGTACTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 165 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:96335213 original size:53 final size:54
Alignment explanation
Indices: 96335150--96335258 Score: 193
Period size: 53 Copynumber: 2.0 Consensus size: 54
96335140 TAAAAGCTGA
96335150 ACCGCTGAAACATTACAATGATGTGAATTAGATAAT-CCAATACATCAATAAAG
1 ACCGCTGAAACATTACAATGATGTGAATTAGATAATCCCAATACATCAATAAAG
*
96335203 ACCGCTGAAACATTGCAATGATGTGAATTAGATAATCCCCAATACATCAATAAAG
1 ACCGCTGAAACATTACAATGATGTGAATTAGATAAT-CCCAATACATCAATAAAG
96335258 A
1 A
96335259 AGTTATGTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 35 0.66
55 18 0.34
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (54 bp):
ACCGCTGAAACATTACAATGATGTGAATTAGATAATCCCAATACATCAATAAAG
Found at i:96336719 original size:18 final size:18
Alignment explanation
Indices: 96336693--96336734 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
96336683 CTGTTATCAA
* * *
96336693 AATTGAAATTTTATTTCT
1 AATTTAAATTTTAATTCC
96336711 AATTTAAATTTTAATTCC
1 AATTTAAATTTTAATTCC
96336729 AATTTA
1 AATTTA
96336735 CTCAAGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTTAAATTTTAATTCC
Found at i:96339082 original size:45 final size:41
Alignment explanation
Indices: 96339029--96339118 Score: 101
Period size: 45 Copynumber: 2.1 Consensus size: 41
96339019 AGAGAAGTGG
* *
96339029 GGAACATTTA-AGAATGATTATGGTTTTCCTCGAAATGGAGAAAT
1 GGAACATTTAGA-AATCAATATGGTTTT-CTCGAAAT-G-GAAAT
*
96339073 GGAATCATTTAGAAATCAATGTGGTTTTCTCGAAATGGAAAT
1 GGAA-CATTTAGAAATCAATATGGTTTTCTCGAAATGGAAAT
96339115 GGAA
1 GGAA
96339119 ATGAAAATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
42 9 0.22
43 1 0.02
44 12 0.29
45 18 0.44
46 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (41 bp):
GGAACATTTAGAAATCAATATGGTTTTCTCGAAATGGAAAT
Found at i:96349495 original size:158 final size:155
Alignment explanation
Indices: 96349265--96349548 Score: 451
Period size: 158 Copynumber: 1.8 Consensus size: 155
96349255 AATGTTCATA
* *
96349265 TTTTTAAAATAAAAATATTTTTGAATCATACTAAAGGAAAATTTTAAATTCTTAAAATAAAGTTT
1 TTTTTAAAATAAAAATATTTTTGAATCATACTAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTT
*
96349330 TGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATATTGATTTTTTTAATT
66 TGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAATGATTTTTTTAATT
96349395 AAAAAAGAAGAAGAAAAAGTTTAGG
131 AAAAAAGAAGAAGAAAAAGTTTAGG
* * ** *
96349420 TTTTTAAAATAAAAATATGGTTTTTAGTCATTTTAAAGGAAAAGTTTAAATTTTTTAAAACAAAG
1 TTTTTAAAATAAAAATAT--TTTTGAATCATACTAAAGGAAAAGTTTAAA-TTCTTAAAACAAAG
* *
96349485 TTTTGATCTTTTTCTACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAGTAATGATTTTTTT
63 TTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAATGATTTTTTT
96349549 GAAGAAAACT
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
155 18 0.16
157 25 0.22
158 73 0.63
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.44
Consensus pattern (155 bp):
TTTTTAAAATAAAAATATTTTTGAATCATACTAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTT
TGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAATGATTTTTTTAATT
AAAAAAGAAGAAGAAAAAGTTTAGG
Found at i:96349977 original size:40 final size:41
Alignment explanation
Indices: 96349922--96350002 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
96349912 AATTAAAAGC
96349922 AAATTAATTGCTACATCAGTCTTCTGTCTTCCACA-TTTTT
1 AAATTAATTGCTACATCAGTCTTCTGTCTTCCACAGTTTTT
*
96349962 AAATTAATTGCTACATTAGTCTTCTGTCTTCCACAGTTTTT
1 AAATTAATTGCTACATCAGTCTTCTGTCTTCCACAGTTTTT
96350003 TATCTTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (41 bp):
AAATTAATTGCTACATCAGTCTTCTGTCTTCCACAGTTTTT
Found at i:96350179 original size:10 final size:11
Alignment explanation
Indices: 96350163--96350193 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
96350153 TTGTATAATT
96350163 TTTATTTATTC
1 TTTATTTATTC
96350174 -TTATTTATTC
1 TTTATTTATTC
96350184 TTTATTTATT
1 TTTATTTATT
96350194 TTCATGTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTATTC
Found at i:96353125 original size:15 final size:15
Alignment explanation
Indices: 96353107--96353147 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
96353097 ATTATGTTTT
96353107 CTTTTTATTATTTCC
1 CTTTTTATTATTTCC
*
96353122 CTTTTCATTATTTCC
1 CTTTTTATTATTTCC
96353137 CTATTTTATTA
1 CT-TTTTATTA
96353148 CTTTTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (15 bp):
CTTTTTATTATTTCC
Found at i:96353639 original size:3 final size:3
Alignment explanation
Indices: 96353631--96353657 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
96353621 ATCTCAACGT
96353631 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
96353658 AAGATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:96357420 original size:26 final size:26
Alignment explanation
Indices: 96357391--96357474 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
96357381 TGGTACAAAT
96357391 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
96357417 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
96357443 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
96357469 TGATAA
1 TGATAA
96357475 GAATTTCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 53 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:96358485 original size:54 final size:54
Alignment explanation
Indices: 96358403--96358511 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
96358393 CTTGCAGTGA
*
96358403 AATTATGATTATGTGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTG
1 AATTATGATTATGCGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTG
96358457 AATTATGATTATGCGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTG
1 AATTATGATTATGCGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTG
96358511 A
1 A
96358512 TTTCTTATAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (54 bp):
AATTATGATTATGCGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTG
Found at i:96365803 original size:75 final size:75
Alignment explanation
Indices: 96365680--96365826 Score: 258
Period size: 75 Copynumber: 2.0 Consensus size: 75
96365670 CAAATTATAG
* *
96365680 GAACTAAATCCTAAATATGAGCATTGCAGAGGGATCAAAGACATAATTGGATCTAAGTAATTTAG
1 GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGACATAATTGGATCTAAGTAATTGAG
96365745 AATGTAATAA
66 AATGTAATAA
* *
96365755 GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGCCATAATTGGATCTAAGTAATTGGG
1 GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGACATAATTGGATCTAAGTAATTGAG
96365820 AATGTAA
66 AATGTAA
96365827 CATGGATTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (75 bp):
GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGACATAATTGGATCTAAGTAATTGAG
AATGTAATAA
Found at i:96368296 original size:22 final size:19
Alignment explanation
Indices: 96368259--96368301 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
96368249 AATGTTTATC
96368259 ATATATTTTTTTTAAAATA
1 ATATATTTTTTTTAAAATA
96368278 ATATGATTTATTTTATAAAATA
1 ATAT-ATTT-TTTT-TAAAATA
96368300 AT
1 AT
96368302 TGTACTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 4 0.19
21 4 0.19
22 9 0.43
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATATTTTTTTTAAAATA
Found at i:96368399 original size:20 final size:20
Alignment explanation
Indices: 96368360--96368399 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
96368350 TTACACTAAC
*
96368360 TTAATTAAATATTTAAAATT
1 TTAATTAAATATGTAAAATT
* *
96368380 TTAATTTAATATGTATAATT
1 TTAATTAAATATGTAAAATT
96368400 ATATATGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTAATTAAATATGTAAAATT
Found at i:96371311 original size:13 final size:13
Alignment explanation
Indices: 96371293--96371317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96371283 TTTTACTGTT
96371293 TTTTGTTTTTTTG
1 TTTTGTTTTTTTG
96371306 TTTTGTTTTTTT
1 TTTTGTTTTTTT
96371318 AAATTTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTGTTTTTTTG
Found at i:96371604 original size:21 final size:22
Alignment explanation
Indices: 96371578--96371630 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
96371568 TAATATATGC
96371578 ATGTATATATTTTTATATAT-T
1 ATGTATATATTTTTATATATAT
* *
96371599 ATGTATACATTTTTTTATATAT
1 ATGTATATATTTTTATATATAT
96371621 ATGTATATAT
1 ATGTATATAT
96371631 ATACTATGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (22 bp):
ATGTATATATTTTTATATATAT
Found at i:96384103 original size:88 final size:86
Alignment explanation
Indices: 96383915--96384128 Score: 252
Period size: 88 Copynumber: 2.5 Consensus size: 86
96383905 CGGTGAGTTC
* * *
96383915 ACAAGCTTTAACCCCCTAAGCTGTAGGGTAACAAGCTG-AATTTACAGATCTTAAACCCCTAAGC
1 ACAAGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGCTGAAATGTACAAATCTTAAACCCCTAAGC
*
96383979 AGTAGGGAAACAGATCGAGGATG
65 AGTAGGGAAACAGATCGAGCA-G
*** * * * *
96384002 GTGAGCCTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAAATCTTAACCCCCTAAGC
1 ACAAGCTTTAACCCCTAAGCAGTAGGGTAACAAGCTGAA-ATGTACAAATCTTAAACCCCTAAGC
96384067 AGTAGGGAAACAGATCGAAAGCA-
65 AGTAGGGAAACAGATCG--AGCAG
**
96384090 ACAAGCTTTAACCCCTAAATAGTAGGGTAACAAGCTGAA
1 ACAAGCTTTAACCCCTAAGCAGTAGGGTAACAAGCTGAA
96384129 TTTTAAAGAT
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
86 24 0.23
87 7 0.07
88 70 0.67
90 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (86 bp):
ACAAGCTTTAACCCCTAAGCAGTAGGGTAACAAGCTGAAATGTACAAATCTTAAACCCCTAAGCA
GTAGGGAAACAGATCGAGCAG
Found at i:96384322 original size:44 final size:44
Alignment explanation
Indices: 96384274--96384387 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 44
96384264 TTACAAAATC
* **
96384274 TTAACCCCCTAAACAGTAGGGAAACAGATCGAAGGCAACAAGCT
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAACAACAAGCT
* * **
96384318 TTAACCCCCTAAGTAGTAGGGAAACAGATCGAAAATAATGAGCT
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAACAACAAGCT
*
96384362 TTAACCCCCTAAGCAGTAGGGTAACA
1 TTAACCCCCTAAGCAGTAGGGAAACA
96384388 AGCCAAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (44 bp):
TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAACAACAAGCT
Found at i:96384423 original size:43 final size:44
Alignment explanation
Indices: 96384318--96384428 Score: 129
Period size: 43 Copynumber: 2.5 Consensus size: 44
96384308 GCAACAAGCT
* * * *
96384318 TTAACCCCCTAAGTAGTAGGGAAACAGATCGAAAATAATGAGCT
1 TTAACCCCCTAAGTAGTAGGGTAACAGAGCCAAAATAATGAGCC
* *
96384362 TTAACCCCCTAAGCAGTAGGGTAACA-AGCCAAATTTACA-GA-CC
1 TTAACCCCCTAAGTAGTAGGGTAACAGAGCCAAA-ATA-ATGAGCC
96384405 TTAACCCCCTAAGTAGTAGGGTAA
1 TTAACCCCCTAAGTAGTAGGGTAA
96384429 TAGGCTGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 29 0.50
44 28 0.48
45 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (44 bp):
TTAACCCCCTAAGTAGTAGGGTAACAGAGCCAAAATAATGAGCC
Found at i:96385318 original size:28 final size:28
Alignment explanation
Indices: 96385278--96385425 Score: 278
Period size: 28 Copynumber: 5.3 Consensus size: 28
96385268 CATGAGATTG
96385278 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
96385306 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
96385334 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
96385362 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
96385390 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
96385418 GCACTAAG
1 GCACTAAG
96385426 AACATGTTTG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 116 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:96385943 original size:5 final size:5
Alignment explanation
Indices: 96385933--96385958 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
96385923 CAACTCTCTT
96385933 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
96385959 AACTCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:96387854 original size:22 final size:21
Alignment explanation
Indices: 96387829--96387874 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
96387819 AAATTGTTGC
* *
96387829 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
96387851 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
96387872 ATT
1 ATT
96387875 GTCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:96387888 original size:23 final size:23
Alignment explanation
Indices: 96387860--96387943 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
96387850 GATTTGTTCT
96387860 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
* * *
96387883 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
96387906 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
96387929 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
96387944 TGTTTATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:96398471 original size:40 final size:39
Alignment explanation
Indices: 96398440--96398649 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
96398430 GGACTAAGAT
* *
96398440 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
96398480 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
96398520 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
96398560 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
96398600 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
96398639 CCGAAGGCATT
1 CCGAAGGCATT
96398650 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:96398603 original size:120 final size:120
Alignment explanation
Indices: 96398387--96398649 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
96398377 TTGAATGCTG
* *
96398387 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
96398451 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
96398507 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
96398570 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
96398626 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
96398650 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:96398669 original size:79 final size:80
Alignment explanation
Indices: 96398388--96398684 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
96398378 TGAATGCTGT
* ** * * * **
96398388 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
96398451 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
96398468 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
96398532 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
96398548 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
96398612 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
96398627 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
96398685 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:96402846 original size:43 final size:43
Alignment explanation
Indices: 96402752--96402872 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
96402742 TCGAGATGGC
* * * * *
96402752 ATTACATGTAAGACCATGTTTGGGACATTGGAATTGTATTGAG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGAG
*
96402795 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-CG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGAG
* *
96402838 ATTTCGTGTAAGA-CACTGTCTGGGACAGTGGCATC
1 ATTACGTGTAAGACCA-TGTCTGGGACATTGGCATC
96402873 AATAAGTGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.03
43 63 0.93
44 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGAG
Found at i:96404414 original size:48 final size:48
Alignment explanation
Indices: 96404362--96404970 Score: 976
Period size: 48 Copynumber: 12.7 Consensus size: 48
96404352 ACATCTCCTA
96404362 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96404410 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTTATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
*
96404459 -ATATTTCACACTAGCCACTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
* *
96404507 -ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
**
96404555 -ATATTTCACACTAGCCATTCGAATTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
* * * * *
96404603 -ATATTTCACATTAGCCATTCGACTTTATCACATATACCTATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96404650 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96404698 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96404746 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCGTT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96404794 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
96404842 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
96404890 CATATTTCACATTAGCCATTCGGCTTTATCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
*
96404939 -ATATTTCACATTAGCCATTCGGCTTTACCACA
1 CATATTTCACACTAGCCATTCGGCTTTACCACA
96404971 CACATATATA
Statistics
Matches: 531, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
48 530 1.00
49 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
Found at i:96408489 original size:40 final size:40
Alignment explanation
Indices: 96408431--96408578 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
96408421 TTGACAACAA
** *
96408431 TTTGGCTATGTACAGCACTTAGTGTACGATTCAAGATAGC
1 TTTGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
* *
96408471 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGA
1 TTTGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
** * * *
96408511 TTTGGCTATGTATGAAACGTAGTGTGCGAGATT-AAAATTGC
1 TTTGGCTATGTATGGCACTTAGTGTGC--GATTCAAGATAGC
*
96408552 TTTGGCTATGTATTGGTACTTAGTGTG
1 TTTGGCTATGTA-TGGCACTTAGTGTG
96408579 TGAGAATTCG
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
40 58 0.64
41 17 0.19
42 15 0.17
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (40 bp):
TTTGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
Found at i:96411594 original size:48 final size:46
Alignment explanation
Indices: 96411550--96411677 Score: 177
Period size: 48 Copynumber: 2.7 Consensus size: 46
96411540 CTCATATCGG
*
96411550 TGCCGATGCCATGTCCCAAACATGGTCTTACATGGGCACACATATCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACAT-GGCACACATATCA
* *
96411597 TCACCGATGCCATGTCCCAGACATAGTCTTACACTGGCACACATATCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATATC-A
*
96411646 TG-CGATGCCATGTCCCAGACATGGTTTTACAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACAT
96411678 TGGCTCTCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 1 0.01
47 28 0.39
48 40 0.56
49 3 0.04
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (46 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACATGGCACACATATCA
Found at i:96411676 original size:47 final size:46
Alignment explanation
Indices: 96411553--96411709 Score: 172
Period size: 48 Copynumber: 3.3 Consensus size: 46
96411543 ATATCGGTGC
* *
96411553 CGATGCCATGTCCCAAACATGGTCTTACATGGGCACACATATC-ATCAC
1 CGATGCCATGTCCCAGACATGGTCTTACAT-GGCACACATATCAAT--G
*
96411601 CGATGCCATGTCCCAGACATAGTCTTACACTGGCACACATATCAATG
1 CGATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATATCAATG
* * * *
96411648 CGATGCCATGTCCCAGACATGGTTTTACATTGGCTCTCATCTCAGATG
1 CGATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATATCA-ATG
*
96411696 CTGACGCCATGTCC
1 C-GATGCCATGTCC
96411710 AAGATACACG
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
47 38 0.40
48 43 0.45
49 14 0.15
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACATGGCACACATATCAATG
Found at i:96415519 original size:16 final size:16
Alignment explanation
Indices: 96415493--96415544 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
96415483 TATGAATCGA
* *
96415493 CAAAA-GCCGAAATGT
1 CAAAATGCCGAAAAGC
96415508 CAAAATGCCGAAAAGC
1 CAAAATGCCGAAAAGC
*
96415524 CGAAATGCCGAAAAGC
1 CAAAATGCCGAAAAGC
96415540 CAAAA
1 CAAAA
96415545 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 5 0.16
16 27 0.84
ACGTcount: A:0.50, C:0.23, G:0.19, T:0.08
Consensus pattern (16 bp):
CAAAATGCCGAAAAGC
Found at i:96415525 original size:8 final size:8
Alignment explanation
Indices: 96415494--96415545 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
96415484 ATGAATCGAC
96415494 AAAAGCCG
1 AAAAGCCG
* *
96415502 AAATGTC-
1 AAAAGCCG
96415509 AAAATGCCG
1 AAAA-GCCG
96415518 AAAAGCCG
1 AAAAGCCG
*
96415526 AAATGCCG
1 AAAAGCCG
96415534 AAAAGCC-
1 AAAAGCCG
96415541 AAAAG
1 AAAAG
96415546 TTTGGCTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
7 8 0.22
8 24 0.67
9 4 0.11
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:96415834 original size:29 final size:28
Alignment explanation
Indices: 96415763--96415877 Score: 106
Period size: 28 Copynumber: 4.1 Consensus size: 28
96415753 GAATATGAAT
* ** * * *
96415763 GTGACTGGGCCTAACAGGCCAAATAAAT
1 GTGATTGGGCCTAATGGGCCATATACAG
96415791 GTGATTGGGCCTAATGGGCCATATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
*
96415819 GTGATTTGGGCCTAATGGGCCATATGA-AT
1 GTGA-TTGGGCCTAATGGGCCATAT-ACAG
* * * *
96415848 ATGATCGGGCTTAATGGGCCAGATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
96415876 GT
1 GT
96415878 ATGTGAATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.01
28 45 0.63
29 24 0.34
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATACAG
Found at i:96415863 original size:57 final size:57
Alignment explanation
Indices: 96415768--96415877 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
96415758 TGAATGTGAC
* * *
96415768 TGGGCCTAACAGGCCAAATAAATGTGATTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACAGGCCAAATAAATATGATCGGGCCTAATGGGCCAGATACAGGTGATT
** * * *
96415825 TGGGCCTAATGGGCCATATGAATATGATCGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACAGGCCAAATAAATATGATCGGGCCTAATGGGCCAGATACAGGT
96415878 ATGTGAATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (57 bp):
TGGGCCTAACAGGCCAAATAAATATGATCGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:96427748 original size:27 final size:26
Alignment explanation
Indices: 96427708--96427792 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
96427698 CAGCATGGCT
* * * *
96427708 ACCAAAACAAATATTGTGACTGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
*
96427734 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
*
96427761 ACCAGAACAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATA-TTGTGACAGAGCC
96427788 ACCAG
1 ACCAG
96427793 TAAACTCCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.23
27 40 0.77
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:96430608 original size:29 final size:28
Alignment explanation
Indices: 96430553--96430666 Score: 140
Period size: 28 Copynumber: 4.0 Consensus size: 28
96430543 GTGAGCATGA
* *
96430553 ATATAAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
96430581 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
96430610 ATATACAA-GTGATTTGGCCTAATAGGCC
1 ATATA-AATGTGATTGGGCCTAATGGGCC
* * *
96430638 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
96430666 A
1 A
96430667 GATACAAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 47 0.64
29 23 0.31
30 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:96432891 original size:27 final size:27
Alignment explanation
Indices: 96432856--96433028 Score: 220
Period size: 27 Copynumber: 6.4 Consensus size: 27
96432846 TAGATAAGTT
*
96432856 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
96432883 GTAGGATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
96432910 GTAGAATTACCGAAATACCCCTGCAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
96432937 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
96432964 GTAGAAATATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
96432991 GCAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
96433018 GTAAAATTACC
1 GTAGAATTACC
96433029 ATTTTGCCCC
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:96432997 original size:81 final size:81
Alignment explanation
Indices: 96432857--96433010 Score: 245
Period size: 81 Copynumber: 1.9 Consensus size: 81
96432847 AGATAAGTTG
* * *
96432857 TAGAATTACCGAAATACCCCTGTAAGGTAGGATTATCGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAAATATCGAAATACCCCTGTAGGGCAGAATTACCG
96432922 AAATACCCCTGCAGGA
66 AAATACCCCTGCAGGA
* * *
96432938 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCTTGTAGGGCAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAAATATCGAAATACCCCTGTAGGGCAGAATTACCG
*
96433003 AGATACCC
66 AAATACCC
96433011 TTGTGGGGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAAGGTAGAAATATCGAAATACCCCTGTAGGGCAGAATTACCG
AAATACCCCTGCAGGA
Found at i:96435426 original size:39 final size:40
Alignment explanation
Indices: 96435325--96435509 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
96435315 TCGAATGATG
* * *
96435325 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
96435364 ATCCGGACTAAGTTCCAAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
96435405 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
96435444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
96435483 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
96435510 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:96435531 original size:79 final size:78
Alignment explanation
Indices: 96435362--96435532 Score: 193
Period size: 79 Copynumber: 2.2 Consensus size: 78
96435352 CTAAGTGACC
* * *
96435362 ATATCCGGACTAAGTTCCAAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCAT
**
96435427 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * * *
96435441 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGC
1 ATATCC-GGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAAGGC
*
96435505 ATTTGAACGAG-TAGCT
63 ATTGGAACGAGTTA-CT
96435521 ATATCCGGTTAA
1 ATATCCGGTTAA
96435533 ATTCTGAAGG
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 26 0.34
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
ATATCCGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:96443239 original size:79 final size:81
Alignment explanation
Indices: 96443103--96443285 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
96443093 TCGAATGATG
* *
96443103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
96443167 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
96443182 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
96443244 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
96443262 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
96443286 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:96443301 original size:40 final size:40
Alignment explanation
Indices: 96443104--96443287 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
96443094 CGAATGATGT
* * * *
96443104 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
96443144 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
96443184 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
96443222 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
96443263 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
96443288 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:96443309 original size:79 final size:79
Alignment explanation
Indices: 96443156--96443320 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
96443146 GGACTAAGAT
* **
96443156 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
96443221 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
96443235 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
96443298 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
96443314 CCGAAGG
1 CCGAAGG
96443321 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:96444856 original size:26 final size:27
Alignment explanation
Indices: 96444827--96444886 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
96444817 CCACATATAT
*
96444827 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
96444853 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
96444880 ATATCTG
1 ATATCTG
96444887 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:96451546 original size:27 final size:27
Alignment explanation
Indices: 96451512--96451655 Score: 175
Period size: 27 Copynumber: 5.3 Consensus size: 27
96451502 TAGATAAGTT
*
96451512 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
96451539 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
96451566 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
96451592 AATAGAATTACTGAAATACCCTTGT-AG
1 -GTAGAATTACCGAAATACCCCTGTAAG
* * *
96451619 GATAGAAATACCAAAATACCCCTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
96451647 GTAGAATTA
1 GTAGAATTA
96451656 ATGAGATACC
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 98 0.97
28 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:96451588 original size:54 final size:54
Alignment explanation
Indices: 96451512--96451684 Score: 197
Period size: 54 Copynumber: 3.2 Consensus size: 54
96451502 TAGATAAGTT
*
96451512 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTA-TCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAGG
* *
96451566 GTAGAATTACCGAAATACCCCTGT-AGAATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG-GTAGAATTACTGAAATACCCCTGTAGG
* * * * * * ** *
96451620 ATAGAAATACCAAAATACCCCTGTAGGGTAGAATTAATGAGATACCTTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGG
*
96451674 GTAAAATTACC
1 GTAGAATTACC
96451685 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 97 0.96
55 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGG
Found at i:96451665 original size:81 final size:81
Alignment explanation
Indices: 96451513--96451665 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
96451503 AGATAAGTTG
* * * *
96451513 TAGAATTATCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTATCGAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTAACG
96451578 AAATACCCCTGTAGAA
66 AAATACCCCTGTAGAA
*
96451594 TAGAATTA-CTGAAATACCCTTGT-AGGATAGAAATACCAAAATACCCCTGTAGGGTAGAATTAA
1 TAGAATTATC-GAAATACCCCTGTAAGG-TAGAAATACCAAAATACCCCTGTAGGGTAGAATTAA
* *
96451657 TGAGATACC
64 CGAAATACC
96451666 TTTGTGGGGT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 4 0.06
81 59 0.94
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (81 bp):
TAGAATTATCGAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTAACG
AAATACCCCTGTAGAA
Found at i:96452378 original size:27 final size:26
Alignment explanation
Indices: 96452334--96452385 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452324 CTCGCTGCAA
*
96452334 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452361 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452386 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452423 original size:67 final size:67
Alignment explanation
Indices: 96452315--96453160 Score: 1683
Period size: 67 Copynumber: 12.6 Consensus size: 67
96452305 GAGGAAGCGT
96452315 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452380 TA
66 TA
96452382 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452447 TA
66 TA
96452449 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452514 TA
66 TA
96452516 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452581 TA
66 TA
96452583 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452648 TA
66 TA
96452650 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452715 TA
66 TA
96452717 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452782 TA
66 TA
96452784 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452849 TA
66 TA
96452851 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452916 TA
66 TA
96452918 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96452983 TA
66 TA
96452985 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96453050 TA
66 TA
96453052 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
96453117 TA
66 TA
*
96453119 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
96453161 ATATCTGTTC
Statistics
Matches: 778, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 778 1.00
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Done.