Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 201 of 322
Found at i:65981374 original size:25 final size:26
Alignment explanation
Indices: 65981339--65981387 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
65981329 TCTCCAATTC
*
65981339 TTAAACTTGATTTTGA-AATAAAAAA
1 TTAAACATGATTTTGATAATAAAAAA
*
65981364 TTAAACATGATTTTTATAATAAAA
1 TTAAACATGATTTTGATAATAAAA
65981388 CTTATTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (26 bp):
TTAAACATGATTTTGATAATAAAAAA
Found at i:65981451 original size:45 final size:46
Alignment explanation
Indices: 65981402--65981492 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
65981392 TTCTTCACAG
*
65981402 AATTAAA-TTCCTACTATAAAATTTTTAAAAAATACAACCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
* * *
65981447 AATTAAATTTCCTACTTTGAAATTTTCAAAAAATACAATCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
65981493 GACATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 7 0.17
46 34 0.83
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.35
Consensus pattern (46 bp):
AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
Found at i:65986625 original size:91 final size:91
Alignment explanation
Indices: 65986469--65986676 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
65986459 TTGATTTTAG
* *
65986469 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATAAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATAAAATTATATATCACTATTAAATTAT
* *
65986534 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * *
65986561 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATAAAATTATATATCACTATTAAATTATA
65986626 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
65986652 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
65986677 GTTATAATTA
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
91 85 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATAAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:65987328 original size:18 final size:17
Alignment explanation
Indices: 65987300--65987334 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65987290 ATTATTAAGA
*
65987300 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
65987317 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
65987335 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:65987548 original size:44 final size:45
Alignment explanation
Indices: 65987499--65987589 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
65987489 ACCTCTATTC
* * *
65987499 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
65987543 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
65987588 CA
1 CA
65987590 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:65987591 original size:16 final size:16
Alignment explanation
Indices: 65987570--65987638 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
65987560 GATTAGCTAT
65987570 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
65987586 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
65987603 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
65987619 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
65987635 TACA
1 TACA
65987639 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:65987612 original size:33 final size:32
Alignment explanation
Indices: 65987570--65987638 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
65987560 GATTAGCTAT
65987570 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
65987603 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
65987635 TACA
1 TACA
65987639 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:65988147 original size:16 final size:17
Alignment explanation
Indices: 65988126--65988158 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
65988116 TTTTTGATGA
65988126 ATTTGGCAC-CAAATAT
1 ATTTGGCACTCAAATAT
*
65988142 ATTTGGGACTCAAATAT
1 ATTTGGCACTCAAATAT
65988159 TAAAACATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (17 bp):
ATTTGGCACTCAAATAT
Found at i:65990026 original size:48 final size:49
Alignment explanation
Indices: 65989942--65990052 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 49
65989932 CTGCTGGTAG
* *
65989942 ATGTTAGTTGCTAAAAAGATTGGTGGATAAAATGGGCTACAAGTAGGGC
1 ATGTTAGTTGCTAAAAAGATTAGTGGATAAAATGGGCCACAAGTAGGGC
** * * *
65989991 ATGTTAGTTGCTAATTAGA-TAGTGGATAAATTGGGCCACTAGTAGGTC
1 ATGTTAGTTGCTAAAAAGATTAGTGGATAAAATGGGCCACAAGTAGGGC
*
65990039 ATGTTAATTGCTAA
1 ATGTTAGTTGCTAA
65990053 CCATAATGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
48 37 0.69
49 17 0.31
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (49 bp):
ATGTTAGTTGCTAAAAAGATTAGTGGATAAAATGGGCCACAAGTAGGGC
Found at i:65993584 original size:24 final size:24
Alignment explanation
Indices: 65993557--65993604 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
65993547 TGAGTATGTG
65993557 TTAGAGAACAACATATTGAACTGA
1 TTAGAGAACAACATATTGAACTGA
65993581 TTAGAGAACAACATATTGAACTGA
1 TTAGAGAACAACATATTGAACTGA
65993605 CTTATTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (24 bp):
TTAGAGAACAACATATTGAACTGA
Found at i:65997218 original size:46 final size:45
Alignment explanation
Indices: 65997112--65997270 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
65997102 CATATGACCT
*
65997112 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
65997155 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
65997201 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
65997238 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
65997271 ACCACTTATC
Statistics
Matches: 104, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
37 29 0.28
39 2 0.02
40 2 0.02
42 1 0.01
43 9 0.09
44 6 0.06
45 21 0.20
46 34 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:65997239 original size:37 final size:37
Alignment explanation
Indices: 65997197--65997299 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
65997187 AGCTGAAGCT
* *
65997197 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
65997234 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
65997271 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTCTCTTGATCAGA
65997300 AGTACTCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
Found at i:66006295 original size:45 final size:46
Alignment explanation
Indices: 66006228--66006351 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
66006218 CATATGACCT
*
66006228 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
66006271 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
66006317 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
66006352 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:66006334 original size:46 final size:45
Alignment explanation
Indices: 66006228--66006460 Score: 212
Period size: 37 Copynumber: 5.7 Consensus size: 45
66006218 CATATGACCT
*
66006228 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
66006271 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
66006317 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
66006354 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
66006391 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
66006428 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
66006461 ACCACTTATC
Statistics
Matches: 174, Mismatches: 8, Indels: 19
0.87 0.04 0.09
Matches are distributed among these distances:
37 99 0.57
39 2 0.01
40 2 0.01
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.20
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:66006355 original size:37 final size:37
Alignment explanation
Indices: 66006313--66006489 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
66006303 AGCTGAAGCT
* *
66006313 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
66006350 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
66006387 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
66006424 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
66006461 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTCTCTTGATCAGA
66006490 AGTACTCAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 131 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
Found at i:66010973 original size:22 final size:22
Alignment explanation
Indices: 66010942--66010997 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
66010932 CTTCCAAGGA
*
66010942 TAAGTGTTGAATCAGCTCATGG
1 TAAGTCTTGAATCAGCTCATGG
66010964 TAAGTCTTGAATCAGCTCATGG
1 TAAGTCTTGAATCAGCTCATGG
66010986 TAAGTCTTGAAT
1 TAAGTCTTGAAT
66010998 ATATACTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (22 bp):
TAAGTCTTGAATCAGCTCATGG
Found at i:66018712 original size:17 final size:18
Alignment explanation
Indices: 66018676--66018716 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
66018666 TCATTATGAG
* *
66018676 ATAAGAAAATTTTAGTAA
1 ATAAAAAAATTTTAGAAA
66018694 ATAAAAAAATTTTA-AAA
1 ATAAAAAAATTTTAGAAA
66018711 ATAAAA
1 ATAAAA
66018717 TGAATACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
ATAAAAAAATTTTAGAAA
Found at i:66023721 original size:18 final size:18
Alignment explanation
Indices: 66023698--66023740 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
66023688 TGCCAAGTAC
*
66023698 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
66023716 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
66023734 GTTTCCT
1 GTATCCT
66023741 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:66024006 original size:21 final size:21
Alignment explanation
Indices: 66023982--66024021 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
66023972 CAATAGCCAC
*
66023982 AACCA-AATCCCTTGCCGGAGG
1 AACCACAA-CCCTCGCCGGAGG
66024003 AACCACAACCCTCGCCGGA
1 AACCACAACCCTCGCCGGA
66024022 AGCTGATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.40, G:0.20, T:0.10
Consensus pattern (21 bp):
AACCACAACCCTCGCCGGAGG
Found at i:66027421 original size:126 final size:126
Alignment explanation
Indices: 66027196--66027955 Score: 1164
Period size: 126 Copynumber: 6.0 Consensus size: 126
66027186 TTATAGCCTC
* * * *
66027196 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
* * * * *
66027261 ACAGTGCATCCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCATGCTTGAAGCGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
* *** *
66027322 ATTTTTCCACGAACTACTATAGCAAAAGAGTGCCCACGTGGGAACTTTTTTC-AGAAATTTTACT
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGC-TTTTTCAAGAAATTTTACT
* * * * * * *
66027386 GACAGTGCATCCTGCTTGAAGCGTTTTCGGTACTATTTGTTTAGAAACGTCTATTCAGAATT
65 GACAGTGCATCATGCTTGAAGCGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
66027448 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
*
66027513 ACAGTGCATCATGCTTGAAGTGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
66 ACAGTGCATCATGCTTGAAGCGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
66027574 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
*
66027639 ACAGTGCATCATGCTTGAAGTGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
66 ACAGTGCATCATGCTTGAAGCGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
66027700 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
*
66027765 ACAGTGCATCATGCTTGAAGTGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
66 ACAGTGCATCATGCTTGAAGCGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
* * * * *
66027826 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGTTTTTTCTAGAAATTTTGCTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
* * * * * *
66027891 ACAGTGTATCATGCTTGAAACATTTTCCGACACTATTT-TTCCAGAAATGTCTGCTCAGAATT
66 ACAGTGCATCATGCTTGAAGCGTTTT-CGGCACTATTTATT-CAGAAATGTCTACTCAAAATT
66027953 ATT
1 ATT
66027956 CTTGCAGAAA
Statistics
Matches: 595, Mismatches: 35, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
125 6 0.01
126 551 0.93
127 38 0.06
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (126 bp):
ATTTTTCCACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCAAGAAATTTTACTG
ACAGTGCATCATGCTTGAAGCGTTTTCGGCACTATTTATTCAGAAATGTCTACTCAAAATT
Found at i:66028431 original size:16 final size:17
Alignment explanation
Indices: 66028410--66028448 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
66028400 TAAATTTTTT
*
66028410 CCTAAAACCTT-AAAAC
1 CCTAAAACATTAAAAAC
66028426 CCTAAAACATTACAAAAC
1 CCTAAAACATTA-AAAAC
66028444 CCTAA
1 CCTAA
66028449 CTTAACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
18 10 0.50
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (17 bp):
CCTAAAACATTAAAAAC
Found at i:66032562 original size:23 final size:23
Alignment explanation
Indices: 66032534--66032583 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
66032524 AAAATAATCC
*
66032534 TAATTA-AATTTTTGTGTCTTTTT
1 TAATTACAATTTTTGGGT-TTTTT
66032557 TAATTATCAATTTTTGGGTTTTTT
1 TAATTA-CAATTTTTGGGTTTTTT
66032581 TAA
1 TAA
66032584 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 8 0.33
25 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.62
Consensus pattern (23 bp):
TAATTACAATTTTTGGGTTTTTT
Found at i:66033726 original size:42 final size:42
Alignment explanation
Indices: 66033667--66033752 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
66033657 CCAAGCTGGG
*
66033667 CTCCACTTTGAAACAGCTATAAGTACGTACCGTTCCTTTACT
1 CTCCACTTTGAAACAGCTATAAGTACGTACCGTCCCTTTACT
* *
66033709 CTCCACTTTGAAACAGCTATAAGTATGTATCGTCCCTTTACT
1 CTCCACTTTGAAACAGCTATAAGTACGTACCGTCCCTTTACT
66033751 CT
1 CT
66033753 TTCGAAGTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (42 bp):
CTCCACTTTGAAACAGCTATAAGTACGTACCGTCCCTTTACT
Found at i:66041917 original size:33 final size:33
Alignment explanation
Indices: 66041853--66041924 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
66041843 TCATTTCAAG
*
66041853 TTTCACATCTCATTTCATCATTTCAT-TTTTTCA
1 TTTCACATCTCATTTCAT-ATTTCATATTTTCCA
*
66041886 TTTCCCATCTCATATTCAT-TTGTCATATTTTCCA
1 TTTCACATCTCAT-TTCATATT-TCATATTTTCCA
66041920 TTTCA
1 TTTCA
66041925 ATATTTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 2 0.06
33 16 0.48
34 15 0.45
ACGTcount: A:0.21, C:0.25, G:0.01, T:0.53
Consensus pattern (33 bp):
TTTCACATCTCATTTCATATTTCATATTTTCCA
Found at i:66044228 original size:40 final size:39
Alignment explanation
Indices: 66044130--66044392 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
66044120 TCCTCGTTCA
* * * *
66044130 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
66044169 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
66044208 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
66044248 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
66044288 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
66044328 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
66044369 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
66044393 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:66044352 original size:120 final size:119
Alignment explanation
Indices: 66044130--66044392 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
66044120 TCCTCGTTCA
* * *
66044130 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
66044195 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
66044248 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
66044313 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
66044369 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
66044393 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:66044401 original size:41 final size:41
Alignment explanation
Indices: 66044324--66044401 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
66044314 TTTGTATCTC
* * *
66044324 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
66044365 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
66044402 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:66054137 original size:31 final size:31
Alignment explanation
Indices: 66054067--66054126 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
66054057 AAATGGCTAT
* *
66054067 TGAACTATTTGAAAGTTTTTATTTAAGTCAC
1 TGAACTATTTAAAAGTTTTTATTTAACTCAC
66054098 TGAACTATTTAAAAGTTTTTATTTAACTC
1 TGAACTATTTAAAAGTTTTTATTTAACTC
66054127 TCGCGGCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (31 bp):
TGAACTATTTAAAAGTTTTTATTTAACTCAC
Found at i:66054315 original size:22 final size:23
Alignment explanation
Indices: 66054290--66054336 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
66054280 ATTTCAAGTT
* *
66054290 TTAAATTATGTTATTTA-ACTTA
1 TTAAAGTATATTATTTATACTTA
66054312 TT-AAGTATATTATTTATACTTA
1 TTAAAGTATATTATTTATACTTA
66054334 TTA
1 TTA
66054337 TAAAACCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (23 bp):
TTAAAGTATATTATTTATACTTA
Found at i:66055519 original size:22 final size:22
Alignment explanation
Indices: 66055463--66055522 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
66055453 ATCTTTGTTC
66055463 AGCACTTCGGTGCTCTCTGATT
1 AGCACTTCGGTGCTCTCTGATT
*
66055485 ACCA-TTCGTGTGCTCTCT-ATTT
1 AGCACTTCG-GTGCTCTCTGA-TT
66055507 AGCACTTCGGTGCTCT
1 AGCACTTCGGTGCTCT
66055523 TTGGTAGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 5 0.15
22 24 0.73
23 4 0.12
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.38
Consensus pattern (22 bp):
AGCACTTCGGTGCTCTCTGATT
Found at i:66057479 original size:21 final size:23
Alignment explanation
Indices: 66057454--66057500 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
66057444 GTAAAGGATA
66057454 GCACACGACCGTGT-G-ACAGAG
1 GCACACGACCGTGTGGTACAGAG
* *
66057475 GCACATGCCCGTGTGGTACAGAG
1 GCACACGACCGTGTGGTACAGAG
66057498 GCA
1 GCA
66057501 TGGCCGTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 1 0.05
23 9 0.41
ACGTcount: A:0.26, C:0.28, G:0.34, T:0.13
Consensus pattern (23 bp):
GCACACGACCGTGTGGTACAGAG
Found at i:66057502 original size:21 final size:21
Alignment explanation
Indices: 66057462--66057510 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
66057452 TAGCACACGA
66057462 CCGTGT-GACAGAGGCACATGC
1 CCGTGTGGACAGAGG-ACATGC
*
66057483 CCGTGTGGTACAGAGG-CATGG
1 CCGTGTGG-ACAGAGGACATGC
66057504 CCGTGTG
1 CCGTGTG
66057511 ATCAGGCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 17 0.68
22 1 0.04
23 7 0.28
ACGTcount: A:0.18, C:0.24, G:0.39, T:0.18
Consensus pattern (21 bp):
CCGTGTGGACAGAGGACATGC
Found at i:66057636 original size:22 final size:21
Alignment explanation
Indices: 66057583--66057640 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
66057573 GTGAGGGTCT
**
66057583 CACACGCCCGTGTGGCCACTA
1 CACACGCCCGTGTGGCCAAAA
* * *
66057604 GACACGGCCGTGTGTTCCAAAA
1 CACACGCCCGTGTG-GCCAAAA
66057626 CACACGCCCGTGTGG
1 CACACGCCCGTGTGG
66057641 AATCCCTAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.16
Consensus pattern (21 bp):
CACACGCCCGTGTGGCCAAAA
Found at i:66059982 original size:20 final size:19
Alignment explanation
Indices: 66059944--66059982 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
66059934 TTAAAACTTT
* *
66059944 AATTAATTTTTAGTGGAAA
1 AATTAATTTCTACTGGAAA
66059963 AATTAATTCTCTACTGGAAA
1 AATTAATT-TCTACTGGAAA
66059983 CCAAAACTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (19 bp):
AATTAATTTCTACTGGAAA
Found at i:66061348 original size:11 final size:12
Alignment explanation
Indices: 66061321--66061357 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
66061311 GAAAAGAAAA
66061321 TAAAATCTAATT
1 TAAAATCTAATT
66061333 TAAAATCTAA-T
1 TAAAATCTAATT
66061344 TAAAA-CTAAATT
1 TAAAATCT-AATT
66061356 TA
1 TA
66061358 CTCATAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.09
11 8 0.35
12 13 0.57
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATCTAATT
Found at i:66066096 original size:47 final size:46
Alignment explanation
Indices: 66066028--66066290 Score: 164
Period size: 47 Copynumber: 5.6 Consensus size: 46
66066018 GACAAGGGCT
* * *
66066028 AGTGTAAGACGTGTCCGGGACATGTATCAGCCACATTACGATAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCACATGACGATAGCC
* * * *
66066074 AGTGTAAGACTGTGTCTGGGACATGGCATCAGCGTA-AAGATGAGT-GCT
1 AGTGTAAGAC-GTGTCTGGGACAT-GCATCAGC-CACATGACGA-TAGCC
* * * * *
66066122 AGTGTAAGACGTGTCTAGGACATGGATC-GACCTCAATGATGGTAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCAG-CCAC-ATGACGATAGCC
* * * *
66066169 AGTGTAAGACGTGTCTGGGACACGCATCAGCTA-A-GCTTCG-T-GCA
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCACATG--ACGATAGCC
* * * *
66066213 AGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATACACGAGAGCT
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCAC--AT-GACGATAGCC
*
66066261 AGTGTAAGACCATGTCTGGGACATGACATC
1 AGTGTAAGA-CGTGTCTGGGACATG-CATC
66066291 GGCAACTTAA
Statistics
Matches: 168, Mismatches: 29, Indels: 36
0.72 0.12 0.15
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 3 0.02
46 20 0.12
47 57 0.34
48 35 0.21
49 17 0.10
50 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACGTGTCTGGGACATGCATCAGCCACATGACGATAGCC
Found at i:66066100 original size:94 final size:94
Alignment explanation
Indices: 66065980--66066199 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 94
66065970 TGTGAGAGCT
* * * ** *
66065980 AGTGTAAGACCATGTCTGGGAAATGGCATCGGCATTGAGACAAGGGCTAGTGTAAGACGTGTCCG
1 AGTGTAAGA-CGTGTCTGGGACATGGCATCAGCATAAAGACAAGGGCTAGTGTAAGACGTGTCCA
* *
66066045 GGACATGTATC-AGCCAC-ATTACGATAGCC
65 GGACATGGATCGA-CCACAATGACGATAGCC
* ** * *
66066074 AGTGTAAGACTGTGTCTGGGACATGGCATCAGCGTAAAGATGAGTGCTAGTGTAAGACGTGTCTA
1 AGTGTAAGAC-GTGTCTGGGACATGGCATCAGCATAAAGACAAGGGCTAGTGTAAGACGTGTCCA
* * *
66066139 GGACATGGATCGACCTCAATGATGGTAGCC
65 GGACATGGATCGACCACAATGACGATAGCC
*
66066169 AGTGTAAGACGTGTCTGGGACA-CGCATCAGC
1 AGTGTAAGACGTGTCTGGGACATGGCATCAGC
66066200 TAAGCTTCGT
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
93 9 0.08
94 77 0.73
95 20 0.19
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACGTGTCTGGGACATGGCATCAGCATAAAGACAAGGGCTAGTGTAAGACGTGTCCAG
GACATGGATCGACCACAATGACGATAGCC
Found at i:66066905 original size:20 final size:24
Alignment explanation
Indices: 66066866--66066910 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
66066856 TAAATGTATA
66066866 TGATGTTCCTTCTATGAAT-GAAT
1 TGATGTTCCTTCTATGAATGGAAT
66066889 TGATG-TCCTT-T-TGAATGGAAT
1 TGATGTTCCTTCTATGAATGGAAT
66066910 T
1 T
66066911 AGTATATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 5 0.24
23 5 0.24
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (24 bp):
TGATGTTCCTTCTATGAATGGAAT
Found at i:66069994 original size:47 final size:44
Alignment explanation
Indices: 66069882--66070011 Score: 118
Period size: 47 Copynumber: 2.8 Consensus size: 44
66069872 GATCATTTGT
* * *
66069882 GAGCTAGTGTAAGCCATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGG-C-CATTACGA
* *
66069928 GAGCCAGTGTAACACCATGTCCGGGACATGGCATCGG-CATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCCGGGACAT-GCATCGGCCATT---ACGA
** *
66069976 GAGCTAGTGTAAGACATGTCTAGGACATACATCGGC
1 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGC
66070012 TAAATGATGT
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
45 4 0.06
46 17 0.25
47 25 0.37
48 22 0.32
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGCCATTACGA
Found at i:66070072 original size:94 final size:91
Alignment explanation
Indices: 66069882--66070152 Score: 276
Period size: 94 Copynumber: 2.9 Consensus size: 91
66069872 GATCATTTGT
* * * * *
66069882 GAGCTAGTGTAAGCCATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAACACCATG
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCTA-A-TATGAGAGTCAGTATAAAACCATG
* **
66069947 TCCGGGACATGGCATCGGCATTGAGACGA
63 TCTGGGACATGGCATCGGCACAGAGACGA
* * *
66069976 GAGCTAGTGTAAGACATGTCTAGGACATACATCGGCTAA-ATGATGTGTCAGTAAAAAACCATGT
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCTAATATGA-GAGTCAGTATAAAACCATGT
*
66070040 CTGGGACATGGCATCGGCACAGATACGTGA
64 CTGGGACATGGCATCGGCACAGAGAC--GA
* * * *
66070070 GAG-TCAGTGTAAGACCATGTCTGAGACATGGCATCGACTTAACATGAGAGTTAGTATAAGACCA
1 GAGCT-AGTGTAAGA-CATGTCTG-GACAT-GCATCGGC-TAATATGAGAGTCAGTATAAAACCA
66070134 TGTCTGGGACATGGCATCG
61 TGTCTGGGACATGGCATCG
66070153 ACTTAACGTG
Statistics
Matches: 149, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
91 4 0.03
92 37 0.25
93 2 0.01
94 49 0.33
95 12 0.08
96 6 0.04
97 35 0.23
98 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (91 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCGGCTAATATGAGAGTCAGTATAAAACCATGTCT
GGGACATGGCATCGGCACAGAGACGA
Found at i:66070136 original size:47 final size:47
Alignment explanation
Indices: 66069925--66070165 Score: 190
Period size: 47 Copynumber: 5.1 Consensus size: 47
66069915 GGCCACATTA
* * * * *
66069925 TGAGAGCCAGTGTAACACCATGTCCGGGACATGGCATCGGCATTGAGAC-
1 TGAGAGTCAGTATAAGACCATGTCTGGGACATGGCATCGAC-TT-A-ACG
* * * * *
66069974 -GAGAG-CTAGTGTAAGA-CATGTCTAGGACAT-ACATCGGC-TAA-A
1 TGAGAGTC-AGTATAAGACCATGTCTGGGACATGGCATCGACTTAACG
* * * **
66070016 TGATGTGTCAGTAAAAAACCATGTCTGGGACATGGCATCGGCACAGATACG
1 TGA-GAGTCAGTATAAGACCATGTCTGGGACATGGCATC-G-ACTTA-ACG
* * *
66070067 TGAGAGTCAGTGTAAGACCATGTCTGAGACATGGCATCGACTTAACA
1 TGAGAGTCAGTATAAGACCATGTCTGGGACATGGCATCGACTTAACG
*
66070114 TGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACTTAACG
1 TGAGAGTCAGTATAAGACCATGTCTGGGACATGGCATCGACTTAACG
66070161 TGAGA
1 TGAGA
66070166 CATGGTATCG
Statistics
Matches: 155, Mismatches: 25, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 9 0.06
45 14 0.09
46 11 0.07
47 64 0.41
48 17 0.11
49 2 0.01
50 31 0.20
51 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (47 bp):
TGAGAGTCAGTATAAGACCATGTCTGGGACATGGCATCGACTTAACG
Found at i:66070204 original size:70 final size:70
Alignment explanation
Indices: 66070091--66070502 Score: 815
Period size: 70 Copynumber: 5.9 Consensus size: 70
66070081 AGACCATGTC
*
66070091 TGAGACATGGCATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
1 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
66070156 TAACG
66 TAACG
66070161 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
1 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
66070226 TAACG
66 TAACG
66070231 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
1 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
66070296 TAACG
66 TAACG
66070301 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
1 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
66070366 TAACG
66 TAACG
66070371 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
1 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
66070436 TAACG
66 TAACG
66070441 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCG
1 TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCG
66070503 GTATTATACC
Statistics
Matches: 341, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 341 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (70 bp):
TGAGACATGGTATCGACTTAACATGAGAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACT
TAACG
Found at i:66070476 original size:23 final size:23
Alignment explanation
Indices: 66070149--66070468 Score: 126
Period size: 23 Copynumber: 13.7 Consensus size: 23
66070139 GGGACATGGC
* *
66070149 ATCGACTTAACGTGAGACATGGT
1 ATCGACTTAACATGAGACATAGT
**
66070172 ATCGACTTAACATGAGAGTTAGT
1 ATCGACTTAACATGAGACATAGT
* * ** * * *
66070195 ATAAGACCATGTC-TGGGACATGGC
1 AT-CGA-CTTAACATGAGACATAGT
* *
66070219 ATCGACTTAACGTGAGACATGGT
1 ATCGACTTAACATGAGACATAGT
**
66070242 ATCGACTTAACATGAGAGTTAGT
1 ATCGACTTAACATGAGACATAGT
* * ** * * *
66070265 ATAAGACCATGTC-TGGGACATGGC
1 AT-CGA-CTTAACATGAGACATAGT
* *
66070289 ATCGACTTAACGTGAGACATGGT
1 ATCGACTTAACATGAGACATAGT
**
66070312 ATCGACTTAACATGAGAGTTAGT
1 ATCGACTTAACATGAGACATAGT
* * ** * * *
66070335 ATAAGACCATGTC-TGGGACATGGC
1 AT-CGA-CTTAACATGAGACATAGT
* *
66070359 ATCGACTTAACGTGAGACATGGT
1 ATCGACTTAACATGAGACATAGT
**
66070382 ATCGACTTAACATGAGAGTTAGT
1 ATCGACTTAACATGAGACATAGT
* * ** * * *
66070405 ATAAGACCATGTC-TGGGACATGGC
1 AT-CGA-CTTAACATGAGACATAGT
* *
66070429 ATCGACTTAACGTGAGACATGGT
1 ATCGACTTAACATGAGACATAGT
66070452 ATCGACTTAACATGAGA
1 ATCGACTTAACATGAGA
66070469 GTTAGTATAA
Statistics
Matches: 208, Mismatches: 77, Indels: 24
0.67 0.25 0.08
Matches are distributed among these distances:
22 12 0.06
23 144 0.69
24 40 0.19
25 12 0.06
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (23 bp):
ATCGACTTAACATGAGACATAGT
Found at i:66071521 original size:28 final size:28
Alignment explanation
Indices: 66071481--66071541 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
66071471 CACTGGCTAG
66071481 GACACGGGCGTGTCATGGCCGTATGAGA
1 GACACGGGCGTGTCATGGCCGTATGAGA
*
66071509 GACACGGGCGTGTCATGGCCGTGTGAGA
1 GACACGGGCGTGTCATGGCCGTATGAGA
66071537 GACAC
1 GACAC
66071542 CGGCCATAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.39, T:0.16
Consensus pattern (28 bp):
GACACGGGCGTGTCATGGCCGTATGAGA
Found at i:66078118 original size:46 final size:47
Alignment explanation
Indices: 66077973--66078137 Score: 223
Period size: 47 Copynumber: 3.5 Consensus size: 47
66077963 TTTGTGAGAT
*
66077973 AGTGTAAGA-CATGTTTGGGACATGCATTGGCCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCACATTACGAGAGCC
* *
66078019 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCACATT---ACGAGAGCC
*
66078067 AGTGTAAGA-CATGTTTGGGACATGCATTGGCCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCACATTACGAGAGCC
66078113 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
66078138 GCATCGGCAC
Statistics
Matches: 103, Mismatches: 7, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
45 4 0.04
46 32 0.31
47 40 0.39
48 23 0.22
49 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGGCCACATTACGAGAGCC
Found at i:66078133 original size:94 final size:94
Alignment explanation
Indices: 66077972--66078146 Score: 350
Period size: 94 Copynumber: 1.9 Consensus size: 94
66077962 ATTTGTGAGA
66077972 TAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTG
66078037 GGACATGGCATCGGCATTGAGACGAGAGC
66 GGACATGGCATCGGCATTGAGACGAGAGC
66078066 TAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTG
66078131 GGACATGGCATCGGCA
66 GGACATGGCATCGGCA
66078147 CGGATACGTG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 81 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
TAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATTGAGACGAGAGC
Found at i:66078222 original size:47 final size:49
Alignment explanation
Indices: 66078106--66078227 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 49
66078096 GCCACATTAC
* * *
66078106 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATACGT
1 GAGAGTCAGTGTAAGACCATATCTGGGACATGGCATC-GAACGGATACGT
* * ** *
66078156 GAGAGTCAGTGTAAAACCATATTTGGGACATGGCATC-AACTTA-ATGT
1 GAGAGTCAGTGTAAGACCATATCTGGGACATGGCATCGAACGGATACGT
*
66078203 GAGAGTCAGTGTAAGACCATGTCTG
1 GAGAGTCAGTGTAAGACCATATCTG
66078228 AACCATGTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
47 25 0.41
48 3 0.05
50 33 0.54
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (49 bp):
GAGAGTCAGTGTAAGACCATATCTGGGACATGGCATCGAACGGATACGT
Found at i:66101511 original size:7 final size:7
Alignment explanation
Indices: 66101486--66101537 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
66101476 CTCTTTTCAG
*
66101486 ATAAAAA
1 ATAAATA
*
66101493 ATAAATT
1 ATAAATA
66101500 A-AAATA
1 ATAAATA
*
66101506 ACAAATA
1 ATAAATA
66101513 ATAAATA
1 ATAAATA
66101520 ATAAATAAA
1 ATAAAT--A
66101529 ATAAATA
1 ATAAATA
66101536 AT
1 AT
66101538 TATTAAAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 5 0.13
7 26 0.68
9 7 0.18
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAAATA
Found at i:66102259 original size:12 final size:12
Alignment explanation
Indices: 66102242--66102279 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
66102232 CTACCACCTC
66102242 TACATCTACTGT
1 TACATCTACTGT
66102254 TACATCTACT-T
1 TACATCTACTGT
*
66102265 CTACATCTACCGT
1 -TACATCTACTGT
66102278 TA
1 TA
66102280 TGTCAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 1 0.04
12 21 0.91
13 1 0.04
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.39
Consensus pattern (12 bp):
TACATCTACTGT
Found at i:66104523 original size:21 final size:21
Alignment explanation
Indices: 66104499--66104542 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
66104489 ATTGAAAAAA
66104499 GATAAATCACATAAAGTGAAT
1 GATAAATCACATAAAGTGAAT
66104520 GATAAATCACATAAAGTGAAT
1 GATAAATCACATAAAGTGAAT
66104541 GA
1 GA
66104543 GAAGAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (21 bp):
GATAAATCACATAAAGTGAAT
Found at i:66105760 original size:32 final size:32
Alignment explanation
Indices: 66105724--66105784 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
66105714 CCCTTTATCG
*
66105724 GGCTATAAATTCCACTACTGTAAATGAAATCA
1 GGCTATAAATTCCACTAATGTAAATGAAATCA
66105756 GGCTATAAATTCCACTAATGTAAATGAAA
1 GGCTATAAATTCCACTAATGTAAATGAAA
66105785 CTATGTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (32 bp):
GGCTATAAATTCCACTAATGTAAATGAAATCA
Found at i:66106941 original size:43 final size:43
Alignment explanation
Indices: 66106844--66106992 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
66106834 CATGGTGGGA
* * *
66106844 AAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGCATTTGTTGGG
1 AAAGCGCCGCTAAAAGTCATGGCTTTTAGCAGCATTTGTTGAG
* ** *
66106887 GAAGCATCGCTAAAAGTCCTGGCTTTTAGCAG-AGTTTG-TGAG
1 AAAGCGCCGCTAAAAGTCATGGCTTTTAGCAGCA-TTTGTTGAG
* *
66106929 AAAGGCGCCGCTAAAAATCAAT-GCTTTTAGCAGCATTTGTAG-G
1 AAA-GCGCCGCTAAAAGTC-ATGGCTTTTAGCAGCATTTGTTGAG
* *
66106972 AAAATCGCTGCTAAAAGTCAT
1 -AAAGCGCCGCTAAAAGTCAT
66106993 AACCTTTAGC
Statistics
Matches: 84, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
42 8 0.10
43 70 0.83
44 6 0.07
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (43 bp):
AAAGCGCCGCTAAAAGTCATGGCTTTTAGCAGCATTTGTTGAG
Found at i:66107584 original size:23 final size:23
Alignment explanation
Indices: 66107553--66108211 Score: 581
Period size: 23 Copynumber: 28.7 Consensus size: 23
66107543 AAATAAGTAC
* *
66107553 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
66107576 TTAAGCACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
*
66107599 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* * *
66107622 TCAAACACTTCAATTTGCACCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
66107646 TT-AACACTTCAATTTGCACCACT
1 TTAAACACTTCAATTTACAGCA-T
*
66107669 TT-AACA-TCTCAATTAACAGCAT
1 TTAAACACT-TCAATTTACAGCAT
* * *
66107691 TTATACACCTCAA-TTACAGTGA-
1 TTAAACACTTCAATTTACAG-CAT
* * * *
66107713 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
66107736 CTAAACACTTCAATTTGCAGTACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
66107760 TAAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
66107783 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
66107806 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* * *
66107829 TCAAACACTTCAAATTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
66107853 TT-AACACTTCAATTTACAGTAT
1 TTAAACACTTCAATTTACAGCAT
*
66107875 TTAAACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
66107898 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
66107922 TT-AACTCTTCAATTTACAGGAC
1 TTAAACACTTCAATTTACAGCAT
* *
66107944 TAAAACTA-TTCAATTTGCAGCACT
1 TTAAAC-ACTTCAATTTACAGCA-T
* * *
66107968 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCAT
*
66107990 TTAAACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
66108013 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
66108037 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
66108059 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * **
66108083 TT-AACATTTCAATTAACAATAT
1 TTAAACACTTCAATTTACAGCAT
66108105 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* * *
66108128 TCAAACACTTCAATTTGCAGTACT
1 TTAAACACTTCAATTTACAGCA-T
*
66108152 TT-AACACTTTAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* **
66108174 TAAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
66108198 TT-AACATTTCAATT
1 TTAAACACTTCAATT
66108212 AACAAAACAA
Statistics
Matches: 515, Mismatches: 96, Indels: 50
0.78 0.15 0.08
Matches are distributed among these distances:
22 34 0.07
23 447 0.87
24 34 0.07
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:66108212 original size:115 final size:115
Alignment explanation
Indices: 66107555--66108216 Score: 745
Period size: 115 Copynumber: 5.8 Consensus size: 115
66107545 ATAAGTACTT
* * *
66107555 AAACACTTCAATTTGCAACA-TTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAGCATTAAAACACTTCAATTTGCAG
* * ** ** * *
66107619 CA-TTCAAACACTTCAATTTGCACCACTTT-AACACTTCAATTTGCACCACTT-
65 CACTT-TAACATTTCAATTAACAATA-TTTAAACACTTCAATTTACAGCA-TTC
* ** * * * *
66107670 TAACA-TCTCAATTAACAGCA-TTTATACACCTCAA-TTACAGTGA-TAAAACA-TCTCAATGTC
1 AAACACT-TCAATTTGCAGCACTTTA-ACACTTCAATTTACAG-CATTAAAACACT-TCAATTTG
* * ** * * * * *
66107730 CAGCAAC-TAAACACTTCAATTTGCAGTACTTAAAACACTTCAATTTGCAACATTT
62 CAGC-ACTTTAACATTTCAATTAACAATA-TTTAAACACTTCAATTTACAGCATTC
* * * *
66107785 AAGCACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAGCATTCAAACACTTCAAATTGCAG
1 AAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAG
* * * *
66107849 CACTTTAACACTTCAATTTACAGTATTTAAACACTTCAATTTATAGCATTC
65 CACTTTAACATTTCAATTAACAATATTTAAACACTTCAATTTACAGCATTC
* * *
66107900 AAACACTTCAATTTGCAGCACTTTAACTCTTCAATTTACAGGACTAAAACTA-TTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTAAAAC-ACTTCAATTTGCAG
* *
66107964 CACTTTAACATTTCAATTAACAACATTTAAACACTTCAATTTATAGCATTC
65 CACTTTAACATTTCAATTAACAATATTTAAACACTTCAATTTACAGCATTC
66108015 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGC
66108080 ACTTTAACATTTCAATTAACAATATTTAAACACTTCAATTTACAGCATTC
66 ACTTTAACATTTCAATTAACAATATTTAAACACTTCAATTTACAGCATTC
* * *
66108130 AAACACTTCAATTTGCAGTACTTTAACACTTTAATTTACAGCATTAAAACACTTCAATTTGTAGC
1 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGC
66108195 ACTTTAACATTTCAATTAACAA
66 ACTTTAACATTTCAATTAACAA
66108217 AACAACATTT
Statistics
Matches: 481, Mismatches: 49, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
113 1 0.00
114 46 0.10
115 386 0.80
116 47 0.10
117 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (115 bp):
AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGC
ACTTTAACATTTCAATTAACAATATTTAAACACTTCAATTTACAGCATTC
Found at i:66114301 original size:40 final size:40
Alignment explanation
Indices: 66114223--66114446 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
66114213 ACCCAAGTAT
* *
66114223 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
66114262 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
66114302 CTTCGGGACTTAGCCCGGATGTAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66114342 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
66114385 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66114425 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
66114447 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.07
40 112 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:66114421 original size:83 final size:80
Alignment explanation
Indices: 66114223--66114446 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 80
66114213 ACCCAAGTAT
* * * *
66114223 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
66114287 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * * *
66114302 CTTCGGGACTTAGCCCGGATGTAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
66114366 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
66114385 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
66114447 CATCCGAATA
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 13 0.10
80 47 0.38
83 64 0.52
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:66114429 original size:123 final size:119
Alignment explanation
Indices: 66114223--66114444 Score: 336
Period size: 123 Copynumber: 1.8 Consensus size: 119
66114213 ACCCAAGTAT
* * *
66114223 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
**
66114288 ACTAGCATGAATGCCTTCGGGACTTAGCCCGGATGTAATCACTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATCACTAGCACAAATGC
*
66114342 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
* *
66114407 AGTAACTTGCACAAATGTCTTCGGGACTTAGCCCGGAT
62 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
66114445 ATCATCCGAA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 12 0.13
120 10 0.11
121 1 0.01
123 68 0.75
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATCACTAGCACAAATGC
Found at i:66119640 original size:35 final size:35
Alignment explanation
Indices: 66119592--66119662 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
66119582 ATATAGAGAT
66119592 AGTTGGTTACTTGACTAATTTTGTTGGGTGTGTTA
1 AGTTGGTTACTTGACTAATTTTGTTGGGTGTGTTA
*
66119627 AGTTGGTTTCTTGACTAATTTTGTTGGGTGTGTTA
1 AGTTGGTTACTTGACTAATTTTGTTGGGTGTGTTA
66119662 A
1 A
66119663 CCCATGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.06, G:0.28, T:0.49
Consensus pattern (35 bp):
AGTTGGTTACTTGACTAATTTTGTTGGGTGTGTTA
Found at i:66122609 original size:21 final size:21
Alignment explanation
Indices: 66122576--66122628 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
66122566 ATTTCATTAC
* * *
66122576 ACTTAAAAC-TTAAATTTCTA
1 ACTTTAAACTTTAAAATTCAA
66122596 ACTTTAAACTTTAAAATTCAA
1 ACTTTAAACTTTAAAATTCAA
*
66122617 AATCTTAAACTT
1 ACT-TTAAACTT
66122629 GAACTCTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 8 0.30
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ACTTTAAACTTTAAAATTCAA
Found at i:66122733 original size:71 final size:71
Alignment explanation
Indices: 66122653--66122797 Score: 281
Period size: 71 Copynumber: 2.0 Consensus size: 71
66122643 TGCATTCCTT
*
66122653 AAAACCTAATTCCTGAAACTCAAAAACTCTAATAAAAACTCTTATACTCGTACTCTCAATCTAAC
1 AAAACCTAATTCCTAAAACTCAAAAACTCTAATAAAAACTCTTATACTCGTACTCTCAATCTAAC
66122718 CATTTA
66 CATTTA
66122724 AAAACCTAATTCCTAAAACTCAAAAACTCTAATAAAAACTCTTATACTCGTACTCTCAATCTAAC
1 AAAACCTAATTCCTAAAACTCAAAAACTCTAATAAAAACTCTTATACTCGTACTCTCAATCTAAC
66122789 CATTTA
66 CATTTA
66122795 AAA
1 AAA
66122798 TTTAAATCTC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (71 bp):
AAAACCTAATTCCTAAAACTCAAAAACTCTAATAAAAACTCTTATACTCGTACTCTCAATCTAAC
CATTTA
Found at i:66124937 original size:48 final size:48
Alignment explanation
Indices: 66124865--66125038 Score: 192
Period size: 48 Copynumber: 3.6 Consensus size: 48
66124855 TATGTGTGCC
* *
66124865 AGTATAAGACCATGTCTGGGACATGGCATTGGCCACATCATAAGAGCT
1 AGTATAAGACCATGTCTGGAACATGGCATCGGCCACATCATAAGAGCT
* * *
66124913 AGTATAAGACCATGTTTGGAACATGGCATCGG-CA-ATGAGACAAGAGCT
1 AGTATAAGACCATGTCTGGAACATGGCATCGGCCACAT--CATAAGAGCT
* * ** *
66124961 AGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGCGAGCC
1 AGTATAAGACCATGTCTGGAACATGGCATCGGCCAC-ATCATAAGAGCT
* *
66125009 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTATAAGACCATGTCTGGAACATGGCATC
66125039 TGAAATTCAC
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 2 0.02
47 2 0.02
48 99 0.94
49 1 0.01
51 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (48 bp):
AGTATAAGACCATGTCTGGAACATGGCATCGGCCACATCATAAGAGCT
Found at i:66125029 original size:96 final size:96
Alignment explanation
Indices: 66124865--66125038 Score: 278
Period size: 96 Copynumber: 1.8 Consensus size: 96
66124855 TATGTGTGCC
* *
66124865 AGTATAAGACCATGTCTGGGACATGGCATTGGCCACATCATAAGAGCTAGTATAAGACCATGTTT
1 AGTATAAGACCATGTCTGGGACATGGCATCGGCCACATCATAAGAGCCAGTATAAGACCATGTTT
66124930 GGAACATGGCATCGGCAATGAGACAAGAGCT
66 GGAACATGGCATCGGCAATGAGACAAGAGCT
* ** *
66124961 AGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGCGAGCCAGTGTAAGACCATGTT
1 AGTATAAGACCATGTCTGGGACATGGCATCGGCCAC-ATCATAAGAGCCAGTATAAGACCATGTT
66125025 TGGAACATGGCATC
65 TGGAACATGGCATC
66125039 TGAAATTCAC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
96 70 0.99
97 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (96 bp):
AGTATAAGACCATGTCTGGGACATGGCATCGGCCACATCATAAGAGCCAGTATAAGACCATGTTT
GGAACATGGCATCGGCAATGAGACAAGAGCT
Found at i:66137466 original size:16 final size:16
Alignment explanation
Indices: 66137418--66137471 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
66137408 GAGACCTTAA
*
66137418 AAAAAATCAAAATAAAA
1 AAAAAATCAAAA-AAAG
**
66137435 AAAAAGAGAAATAAAAAG
1 AAAAA-ATCAA-AAAAAG
66137453 AAAAAATCAAAAAAAG
1 AAAAAATCAAAAAAAG
66137469 AAA
1 AAA
66137472 GAAAGAATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 11 0.37
19 2 0.07
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAATCAAAAAAAG
Found at i:66138657 original size:64 final size:64
Alignment explanation
Indices: 66138586--66138776 Score: 276
Period size: 63 Copynumber: 3.0 Consensus size: 64
66138576 TCATTCATAA
* * * *
66138586 CACATCTAGTTAGGAGCATTTGATCCATTTTGATTATAGCATCCTAATTATTTGACACAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* ** *
66138650 CACATCTAGTTAGGAGCATTTGGTTCATTTCGATCATAGCATCCTAA-TCGTTGATATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
66138713 CTCATCTAGTTAGGAGCATTTGATTCATTTCGATCATGGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
66138777 AGATACATGA
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
63 56 0.50
64 55 0.50
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:66139092 original size:44 final size:45
Alignment explanation
Indices: 66139023--66139126 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 45
66139013 AGTCACCAGC
* * * *
66139023 CTTATCTCCCTGAAGTTGCAATGGAGCAGGCTCAATATACAAG-T
1 CTTATCTCCCTGAAGCTACAATGGAGCAGACTCAAGATACAAGAT
* * * **
66139067 CTTATCTCCCTGAGGCTACAGTGGAGCAGACTGAAGATTGAAGAT
1 CTTATCTCCCTGAAGCTACAATGGAGCAGACTCAAGATACAAGAT
66139112 CTTATCTCCCT-AAGC
1 CTTATCTCCCTGAAGC
66139127 AGTAGCAGAG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
44 37 0.76
45 12 0.24
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGCTACAATGGAGCAGACTCAAGATACAAGAT
Found at i:66139205 original size:177 final size:177
Alignment explanation
Indices: 66138890--66139288 Score: 401
Period size: 177 Copynumber: 2.3 Consensus size: 177
66138880 GATTATAAAC
* * * * ** * * * *
66138890 CTTATCTCCCTGAAGCTGCAATAGAGCAGGTTGAAGATTGCAGGTCTTATTTCCTTAAGCAGTAA
1 CTTATCTCCCTGAGGCTACAGTGGAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAA
** * * * *
66138955 TGGAATAGACCAAAGATGACGAGTCTTATCTCTATGTACCGGCAATGGAGCAGATTTAAGTCACC
66 CAGAACAGACCAAAGATGACGAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCACC
* *
66139020 AGCCTTATCTCCCTGAAGTTGCAATG-GAGCAGGCTCAATATACAAGT
131 AGCCTTATCTCCCTGAAGTAGCAA-GAGAGCAGGCTCAAGATACAAGT
*
66139067 CTTATCTCCCTGAGGCTACAGTGGAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAGGCTACAGTGGAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAA
* * * * * * *
66139132 CAGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTTAGCCA-C
66 CAGAACAGACCAAAGATGACGAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCACC
* * ** * * **
66139196 TGACCTTATCTCTCTGTGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
131 AG-CCTTATCTCCCTGAAGTAGCAAGAGAGCAGGCTCAAGATACAAGT
* * *
66139244 CTTATCTTCCTAAGG-TAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCCCTGAGGCTA-C-AGTGGAGCAGACTGAAGATTGAAGAT
66139289 TGGGAGAGGT
Statistics
Matches: 181, Mismatches: 37, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
176 5 0.03
177 174 0.96
178 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (177 bp):
CTTATCTCCCTGAGGCTACAGTGGAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAA
CAGAACAGACCAAAGATGACGAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCACC
AGCCTTATCTCCCTGAAGTAGCAAGAGAGCAGGCTCAAGATACAAGT
Found at i:66139403 original size:43 final size:43
Alignment explanation
Indices: 66139348--66139446 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
66139338 ACCTCAAGGC
* * *
66139348 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAACAAGAAAGCAGATTGAAGATTGAGT
* * *
66139391 CTTATCTTTCTGAGGTAACAAGAAAGTAGATTGAAGATTTAAGAT
1 CTTATCTCTCTGAGGTAACAAGAAAGCAGATTGAAGA-TTGAG-T
66139436 CTTATCTCTCT
1 CTTATCTCTCT
66139447 AAGTAGTAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 32 0.68
44 4 0.09
45 11 0.23
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAACAAGAAAGCAGATTGAAGATTGAGT
Found at i:66139426 original size:147 final size:147
Alignment explanation
Indices: 66139152--66139435 Score: 408
Period size: 147 Copynumber: 1.9 Consensus size: 147
66139142 CGAAGATGGC
* * * * * *
66139152 GAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTTAGCCACTGACCTTATCTCTCTGTGGTA
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAACCACAGACCTTATCTCTCTGAGGTA
* *
66139217 GCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGAT
66 GCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGAT
66139282 TGAAGATTGGGAGAGGT
131 TGAAGATTGGGAGAGGT
* * *
66139299 GAATCTTATCTCCATGTACCGGCAATGGAGCAGGTTTAAACCTCAAGGCCTTATCTCTCTGAGGT
1 GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAACCAC-AGACCTTATCTCTCTGAGGT
* * * *
66139364 AGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGTAACAAGAAAGTAGATTGAAGA
65 AGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGA
*
66139428 TTTAAGAT
130 TTGAAGAT
66139436 CTTATCTCTC
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
147 79 0.66
148 41 0.34
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (147 bp):
GAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAACCACAGACCTTATCTCTCTGAGGTA
GCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGAT
TGAAGATTGGGAGAGGT
Found at i:66139666 original size:162 final size:161
Alignment explanation
Indices: 66139383--66139701 Score: 469
Period size: 162 Copynumber: 2.0 Consensus size: 161
66139373 GCAGGTTGAA
* * * * * * *
66139383 GATTGAGTCTTATCTTTCTGAGGTAACAAGAAAGTAGATTGAAGATTTAAGATCTTATCTCTCTA
1 GATTGAGTCTTACCTTCCTGAGGTAACAAGAAAGCAAACTGAAGATTAAAGATCTTATCTCCCTA
* * *
66139448 AGTAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTCAATGTACGGACAATGGAGCAGATTT
66 AGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCAATGTACGGACAATGGAGCAGATTT
* *
66139513 TAGTCACTGGCCTTATCGCTCTGAGGTTGGT
131 TAGCCACTAGCCTTATCGCTCTGAGGTTGGT
* *
66139544 GATTGTAGTCTTACCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTTATCTCCCT
1 GATTG-AGTCTTACCTTCCTGAGGTAACAAGAAAGCAAACTGAAGATTAAAGATCTTATCTCCCT
*
66139609 AAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTACCGG-CAATGGAGCAGAT
65 AAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCAATGTA-CGGACAATGGAGCAGAT
*
66139673 TTTAGCCACTAGCCTTATCTCTCTGAGGT
129 TTTAGCCACTAGCCTTATCGCTCTGAGGT
66139702 AGCAAGAGAG
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
161 5 0.04
162 132 0.94
163 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (161 bp):
GATTGAGTCTTACCTTCCTGAGGTAACAAGAAAGCAAACTGAAGATTAAAGATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCAATGTACGGACAATGGAGCAGATTT
TAGCCACTAGCCTTATCGCTCTGAGGTTGGT
Found at i:66139832 original size:177 final size:177
Alignment explanation
Indices: 66139536--66139867 Score: 452
Period size: 177 Copynumber: 1.9 Consensus size: 177
66139526 TATCGCTCTG
*
66139536 AGGTTGGTGATTGTAGTCTTACCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTT
1 AGGTTGGCGATTGTAGTCTTACCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTT
*
66139601 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTACCGGCAATGG
66 ATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTACCGGCAATGG
* *
66139666 AGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
131 AGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
* * ** * * *
66139713 AGGTTGGCGATTTTAGTCTTATCTTTTTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGATC-T
1 AGGTTGGCGATTGTAGTCTTACCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTT
* * * * * * **
66139777 ATTTCCCTAAAGTAGTTGCGGAGTAGATTGAGGATGG-AGAATCTTATCTCCATGTATTGGCAAT
66 ATCTCCCT-AAGCAGTAGCGGAGCAGATCGAAGATGGCA-AATCTTATCTCCATGTACCGGCAAT
*
66139841 GGAGCAGATTTAAGTCACCAGCCTTAT
129 GGAGCAGATTTAAGCCACCAGCCTTAT
66139868 TTGCCTAAAG
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
176 9 0.07
177 124 0.93
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (177 bp):
AGGTTGGCGATTGTAGTCTTACCTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTAAAGATCTT
ATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTACCGGCAATGG
AGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
Found at i:66145243 original size:8 final size:8
Alignment explanation
Indices: 66145230--66145288 Score: 73
Period size: 8 Copynumber: 7.4 Consensus size: 8
66145220 ACTATCTTTA
66145230 ATATATCT
1 ATATATCT
66145238 ATATATCT
1 ATATATCT
66145246 ATATATCT
1 ATATATCT
*
66145254 ATCTATCT
1 ATATATCT
* *
66145262 ATCTATTT
1 ATATATCT
*
66145270 ATCTATCT
1 ATATATCT
*
66145278 ATATATAT
1 ATATATCT
66145286 ATA
1 ATA
66145289 GGGTAAGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.51
Consensus pattern (8 bp):
ATATATCT
Found at i:66145288 original size:4 final size:4
Alignment explanation
Indices: 66145233--66145279 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
66145223 ATCTTTAATA
* * *
66145233 TATC TATA TATC TATA TATC TATC TATC TATC TATT TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
66145280 ATATATATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (4 bp):
TATC
Found at i:66151774 original size:3 final size:3
Alignment explanation
Indices: 66151766--66151813 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
66151756 ACAGTAGATG
66151766 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66151814 TATGTATAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:66152045 original size:43 final size:43
Alignment explanation
Indices: 66151984--66152267 Score: 236
Period size: 43 Copynumber: 6.5 Consensus size: 43
66151974 TGTTTATGAA
* * *
66151984 AAAAACGCCGTTATAGAACATGACCTTTAACGGCGCTTTTCTC
1 AAAAACGCCGTTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
* * * * *
66152027 AAAAACACCATTAAAGAACATGGCCTTTAGCGGTGCTTTCCCC
1 AAAAACGCCGTTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
*
66152070 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGTTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
* * * * *
66152113 ACAAACGCTGCTAAAGAACATGGCCTTAAGTGGCGCGGCGCTTTTCTG
1 AAAAACGCCGTTAAAGAACATGGCCTT---T--AGCGGCGCTTTTCTC
** *
66152161 ACCAACGCCGTTAAAGAACATGACCTTTAGCGGCGCTTTTGC-C
1 AAAAACGCCGTTAAAGAACATGGCCTTTAGCGGCGCTTTT-CTC
* * * *
66152204 ACAAACGCCACTATAATATAA-A---CCTTTAGCTGCGCTTTTCTC
1 AAAAACGCC-GT-TAA-AGAACATGGCCTTTAGCGGCGCTTTTCTC
* *
66152246 AAAAAATGCCGCTAAAGAACAT
1 -AAAAACGCCGTTAAAGAACAT
66152268 TTAAAATTAT
Statistics
Matches: 195, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
40 3 0.02
41 5 0.03
42 17 0.09
43 123 0.63
44 2 0.01
45 5 0.03
46 4 0.02
48 36 0.18
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGTTAAAGAACATGGCCTTTAGCGGCGCTTTTCTC
Found at i:66152176 original size:48 final size:48
Alignment explanation
Indices: 66152072--66152196 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 48
66152062 CTTTCCCCAA
* *
66152072 AAACGCCGCTAAAGAACATGGCCTTTA-----GCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTAAGCGGCGCGGCGCTTTTCTCAC
* * * *
66152115 AAACGCTGCTAAAGAACATGGCCTTAAGTGGCGCGGCGCTTTTCTGAC
1 AAACGCCGCTAAAGAACATGACCTTAAGCGGCGCGGCGCTTTTCTCAC
* * *
66152163 CAACGCCGTTAAAGAACATGACCTTTAGCGGCGC
1 AAACGCCGCTAAAGAACATGACCTTAAGCGGCGC
66152197 TTTTGCCACA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
43 25 0.37
48 43 0.63
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (48 bp):
AAACGCCGCTAAAGAACATGACCTTAAGCGGCGCGGCGCTTTTCTCAC
Found at i:66152260 original size:134 final size:133
Alignment explanation
Indices: 66152014--66152267 Score: 305
Period size: 134 Copynumber: 1.9 Consensus size: 133
66152004 TGACCTTTAA
* *
66152014 CGGCGCTTTTCTCAAAAACACCATTAAAGAACATGGCCTTTAGCGGTGCTTTCCCCAAAAACGCC
1 CGGCGCTTTTCTCAAAAACACCATTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCC
* * * *
66152079 GCTAAAGAACATGGCCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAACATGGCCTTAAGT
66 ACTAAAGAACA-GACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGAACATGGCCTTAAGT
66152144 GGCG
130 GGCG
* ** * * ** *
66152148 CGGCGCTTTTCTGACCAACGCCGTTAAAGAACATGACCTTTAGCGGCGCTTTTGCCACAAACGCC
1 CGGCGCTTTTCTCAAAAACACCATTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCC
* * *
66152213 ACTATAATATA-A-ACCTTTAGCTGCGCTTTTCTCAAAAAATGCCGCTAAAGAACAT
66 ACTA-AAGA-ACAGACCTTTAGCGGCGCTTTTCTC-AAAAACGCCGCTAAAGAACAT
66152268 TTAAAATTAT
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
133 19 0.19
134 76 0.76
135 4 0.04
136 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (133 bp):
CGGCGCTTTTCTCAAAAACACCATTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCC
ACTAAAGAACAGACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGAACATGGCCTTAAGTG
GCG
Found at i:66152323 original size:23 final size:21
Alignment explanation
Indices: 66152275--66152328 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
66152265 CATTTAAAAT
*
66152275 TATTATTTTAATTAAATAATA
1 TATTATTTTTATTAAATAATA
*
66152296 T-TTATTTTTATGATAAATATTA
1 TATTATTTTTAT--TAAATAATA
*
66152318 TATTATGTTTA
1 TATTATTTTTA
66152329 ATTTTTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.33
21 1 0.04
22 9 0.33
23 8 0.30
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TATTATTTTTATTAAATAATA
Found at i:66155291 original size:54 final size:56
Alignment explanation
Indices: 66155190--66155300 Score: 190
Period size: 54 Copynumber: 2.0 Consensus size: 56
66155180 AATCAATCAA
* *
66155190 TTTTTCTTTAACACATTTGTCAATTTTTTTCTCTTACTCTCTCTTTTTGTTTTTCC
1 TTTTTCTTTAACACATTTGTCAATTTTTTTCTCTTACTCTCGCTTTTTATTTTTCC
66155246 TTTTT-TTTAACACATTTGTCAA-TTTTTTCTCTTACTCTCGCTTTTTATTTTTCC
1 TTTTTCTTTAACACATTTGTCAATTTTTTTCTCTTACTCTCGCTTTTTATTTTTCC
66155300 T
1 T
66155301 ACTGAAAAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 31 0.58
55 17 0.32
56 5 0.09
ACGTcount: A:0.14, C:0.21, G:0.04, T:0.62
Consensus pattern (56 bp):
TTTTTCTTTAACACATTTGTCAATTTTTTTCTCTTACTCTCGCTTTTTATTTTTCC
Found at i:66157033 original size:9 final size:8
Alignment explanation
Indices: 66156961--66157040 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
66156951 ATATTAAATA
66156961 TTAAATTT
1 TTAAATTT
*
66156969 TTAAGTTT
1 TTAAATTT
**
66156977 TTTTATTT
1 TTAAATTT
*
66156985 TTTAATTT
1 TTAAATTT
66156993 TT-AA-TT
1 TTAAATTT
*
66156999 TTAGA-TT
1 TTAAATTT
66157006 TTAAATTTT
1 TTAAA-TTT
66157015 TTGAAGATTT
1 TT-AA-ATTT
66157025 TTATAATTT
1 TTA-AATTT
66157034 TTAAATT
1 TTAAATT
66157041 AACATATAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
6 4 0.07
7 9 0.15
8 25 0.42
9 12 0.20
10 8 0.14
11 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:66157201 original size:156 final size:156
Alignment explanation
Indices: 66157005--66157327 Score: 621
Period size: 156 Copynumber: 2.1 Consensus size: 156
66156995 AATTTTAGAT
*
66157005 TTTAAATTTT-TTGAAGATTTTTATAATTTTTAAATTAACATATAAAATACAAAAAGAAACTTTA
1 TTTAGATTTTATTGAAGATTTTTATAATTTTTAAATTAACATATAAAATACAAAAAGAAACTTTA
66157069 ACAGAAATAAAATCGAATCGATGCATTAAAAAAATACAAAATGACACAGCAATACAAGCATTATT
66 ACAGAAATAAAATCGAATCGATGCATTAAAAAAATACAAAATGACACAGCAATACAAGCATTATT
66157134 CTTTTAAGTATGGTCCGCATTAGTTG
131 CTTTTAAGTATGGTCCGCATTAGTTG
*
66157160 TTTAGATTTTATTGAATATTTTTATAATTTTTAAATTAACATATAAAATACAAAAAGAAACTTTA
1 TTTAGATTTTATTGAAGATTTTTATAATTTTTAAATTAACATATAAAATACAAAAAGAAACTTTA
66157225 ACAGAAATAAAATCGAATCGATGCATTAAAAAAATACAAAATGACACAGCAATACAAGCATTATT
66 ACAGAAATAAAATCGAATCGATGCATTAAAAAAATACAAAATGACACAGCAATACAAGCATTATT
66157290 CTTTTAAGTATGGTCCGCATTAGTTG
131 CTTTTAAGTATGGTCCGCATTAGTTG
66157316 TTTAGATTTTAT
1 TTTAGATTTTAT
66157328 ATAAATGATA
Statistics
Matches: 165, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
155 9 0.05
156 156 0.95
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (156 bp):
TTTAGATTTTATTGAAGATTTTTATAATTTTTAAATTAACATATAAAATACAAAAAGAAACTTTA
ACAGAAATAAAATCGAATCGATGCATTAAAAAAATACAAAATGACACAGCAATACAAGCATTATT
CTTTTAAGTATGGTCCGCATTAGTTG
Found at i:66157819 original size:14 final size:14
Alignment explanation
Indices: 66157802--66157850 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
66157792 ACACTAAAAA
*
66157802 ATAAACCCCAAACC
1 ATAAACCCTAAACC
* *
66157816 ATAAATCATAAACC
1 ATAAACCCTAAACC
66157830 ATAAA-CCTAAACC
1 ATAAACCCTAAACC
66157843 ATAAACCC
1 ATAAACCC
66157851 AAAATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (14 bp):
ATAAACCCTAAACC
Found at i:66157842 original size:6 final size:7
Alignment explanation
Indices: 66157811--66157849 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
66157801 AATAAACCCC
66157811 AAACCAT
1 AAACCAT
*
66157818 AAATCAT
1 AAACCAT
66157825 AAACCAT
1 AAACCAT
66157832 AAACC-T
1 AAACCAT
66157838 AAACCAT
1 AAACCAT
66157845 AAACC
1 AAACC
66157850 CAAAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCAT
Found at i:66157842 original size:13 final size:13
Alignment explanation
Indices: 66157811--66157849 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
66157801 AATAAACCCC
*
66157811 AAACCATAAATCAT
1 AAACCATAAA-CCT
66157825 AAACCATAAACCT
1 AAACCATAAACCT
66157838 AAACCATAAACC
1 AAACCATAAACC
66157850 CAAAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (13 bp):
AAACCATAAACCT
Found at i:66157845 original size:20 final size:21
Alignment explanation
Indices: 66157811--66157849 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
66157801 AATAAACCCC
*
66157811 AAACCATAAATCATAAACCAT
1 AAACCATAAACCATAAACCAT
66157832 AAACC-TAAACCATAAACC
1 AAACCATAAACCATAAACC
66157850 CAAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACCATAAACCATAAACCAT
Found at i:66158071 original size:21 final size:21
Alignment explanation
Indices: 66158026--66158071 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
66158016 ATAAAACAAT
* *
66158026 AAATCATAAACCCCAAACTCT
1 AAATCATAAACCCCAAAATCA
*
66158047 AAATCATAAACCCTAAAATCA
1 AAATCATAAACCCCAAAATCA
66158068 AAAT
1 AAAT
66158072 TCTAATCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATCATAAACCCCAAAATCA
Found at i:66158248 original size:21 final size:22
Alignment explanation
Indices: 66158236--66158284 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
66158226 AACCCTAACT
66158236 CTTAAA-CCATAAACCATAATC
1 CTTAAACCCATAAACCATAATC
* * *
66158257 CTTAAACCCATAATCTATAAAC
1 CTTAAACCCATAAACCATAATC
66158279 CTTAAA
1 CTTAAA
66158285 ATATTTAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
CTTAAACCCATAAACCATAATC
Found at i:66158277 original size:15 final size:16
Alignment explanation
Indices: 66158244--66158279 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
66158234 CTCTTAAACC
66158244 ATAAA-CCATAATCCT
1 ATAAACCCATAATCCT
66158259 -TAAACCCATAAT-CT
1 ATAAACCCATAATCCT
66158273 ATAAACC
1 ATAAACC
66158280 TTAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAACCCATAATCCT
Found at i:66158575 original size:40 final size:39
Alignment explanation
Indices: 66158518--66158610 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
66158508 AAATGAAATG
* * ***
66158518 AAAAA-CGCCACTCATACTCGACCTATAGTTGCGTTTTT
1 AAAAAGCGCCGCTAATACTCGACCTATAACGGCGTTTTT
66158556 CAAAAAGCGCCGCTAATACTCGACCTATAACGGCGTTTTT
1 -AAAAAGCGCCGCTAATACTCGACCTATAACGGCGTTTTT
*
66158596 AAAAAGCGCTGCTAA
1 AAAAAGCGCCGCTAA
66158611 AGCCACTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 19 0.40
40 28 0.60
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (39 bp):
AAAAAGCGCCGCTAATACTCGACCTATAACGGCGTTTTT
Found at i:66159043 original size:39 final size:39
Alignment explanation
Indices: 66158985--66159090 Score: 149
Period size: 39 Copynumber: 2.7 Consensus size: 39
66158975 CATAAGTTTT
* * *
66158985 GCGGCGTTTTTTTAAAAAGCGCCGCTAGTGTGTACCTATA
1 GCGGCG-TTTTTTGAAAAGCGCCGCTAATGTGAACCTATA
* *
66159025 GCGGCGTTTTTTGAAAAGCGCTGCTAATTTGAACCTATA
1 GCGGCGTTTTTTGAAAAGCGCCGCTAATGTGAACCTATA
*
66159064 GCGGCATTTTTTGAAAAGCGCCGCTAA
1 GCGGCGTTTTTTGAAAAGCGCCGCTAA
66159091 AAACGCCGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 53 0.90
40 6 0.10
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (39 bp):
GCGGCGTTTTTTGAAAAGCGCCGCTAATGTGAACCTATA
Found at i:66159105 original size:13 final size:12
Alignment explanation
Indices: 66159077--66159106 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
66159067 GCATTTTTTG
*
66159077 AAAAGCGCCGCT
1 AAAAACGCCGCT
66159089 AAAAACGCCGCT
1 AAAAACGCCGCT
66159101 AAAAAC
1 AAAAAC
66159107 CTGTTTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.30, G:0.17, T:0.07
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:66159139 original size:3 final size:3
Alignment explanation
Indices: 66159125--66159248 Score: 62
Period size: 3 Copynumber: 42.0 Consensus size: 3
66159115 CTGTAGTGGT
* * * * **
66159125 TAA TAA TGA TAA TAA AAA TAA TAA TAA GAA TAA TGA T-A TGT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
66159172 TAA TAGA -GA TAA TAA TAA TAGA TAA TAG CAA TAA TAA TAG T-A TAA
1 TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
66159217 -AA -AA TAA TGAA -AA TAA TGA TAT TAA TACA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA-A TAA
66159249 ATACAAATAG
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
2 10 0.11
3 71 0.79
4 9 0.10
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:66159275 original size:15 final size:14
Alignment explanation
Indices: 66159254--66159292 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
66159244 CATAAATACA
66159254 AATAGAAATATAAT
1 AATAGAAATATAAT
**
66159268 ACATAGAAATATTGT
1 A-ATAGAAATATAAT
66159283 AATAGAAATA
1 AATAGAAATA
66159293 ATAGATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (14 bp):
AATAGAAATATAAT
Found at i:66160495 original size:23 final size:23
Alignment explanation
Indices: 66160468--66160519 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
66160458 TTTGGGCCTG
66160468 TTGGGCCGTGTAACTTAATTTGT
1 TTGGGCCGTGTAACTTAATTTGT
*
66160491 TTGGGTCGTGTAACTTAATTTGT
1 TTGGGCCGTGTAACTTAATTTGT
66160514 TTGGGC
1 TTGGGC
66160520 ATTTTGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (23 bp):
TTGGGCCGTGTAACTTAATTTGT
Found at i:66160979 original size:45 final size:45
Alignment explanation
Indices: 66160930--66161119 Score: 152
Period size: 45 Copynumber: 4.2 Consensus size: 45
66160920 GGAACTTAAA
*
66160930 GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTTAG
1 GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTCAG
** * * * * ** **
66160975 GGAGATAAGGTTTGTGTATTTTTATCCTATTCTGCTGCAACTTCAG
1 GGAGATAAGAATTG-CTAATTTCAACCTGCTCCACTGCAACTTCAG
* * *** * *
66161021 AGAGATAAGGATTG-TGGCTTCGATCTGCTCCACTGCAACTTCAG
1 GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTCAG
* *
66161065 GGAGATAAG-ATCTGCT-ATCTTCAATCTGCTCCACTACAACTTCAG
1 GGAGATAAGAAT-TGCTAAT-TTCAACCTGCTCCACTGCAACTTCAG
66161110 GGAGATAAGA
1 GGAGATAAGA
66161120 CCTGCTATCT
Statistics
Matches: 111, Mismatches: 29, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
43 2 0.02
44 29 0.26
45 46 0.41
46 34 0.31
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
GGAGATAAGAATTGCTAATTTCAACCTGCTCCACTGCAACTTCAG
Found at i:66161125 original size:45 final size:45
Alignment explanation
Indices: 66161038--66161132 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
66161028 AGGATTGTGG
* * *
66161038 CTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACCTGCTAT
66161083 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACCTGCTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACCTGCTAT
66161128 CTTCA
1 CTTCA
66161133 GATTATTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACCTGCTAT
Found at i:66161384 original size:45 final size:45
Alignment explanation
Indices: 66161324--66161620 Score: 173
Period size: 45 Copynumber: 6.6 Consensus size: 45
66161314 TTGTTTATAG
* * * *
66161324 CTTCAATCTGTTCCACTTCAACTTCAGGGAAATAAGATTCGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
* * *
66161369 CTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTA-
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
* * * *
66161413 --TGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTTTATTTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-G-----CTAT
* * ** * *
66161460 AGCTTCAATATATTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
1 --CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
* * *
66161507 CTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTT---TAA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTAT
* * * * **
66161550 CTTCA-ACGTGCTCCACTGCAACTTTAGGGAGATAAGGTTTAG-TGG
1 CTTCAGTC-TGCTCCACTGCAACTTCAGGGAGATAA-GATTCGCTAT
* *
66161595 CTTCAATCTGCTCCACTACAACTTCA
1 CTTCAGTCTGCTCCACTGCAACTTCA
66161621 AGGGTATGGA
Statistics
Matches: 194, Mismatches: 39, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
40 1 0.01
41 28 0.14
42 3 0.02
43 35 0.18
44 1 0.01
45 89 0.46
46 5 0.03
47 3 0.02
51 2 0.01
52 26 0.13
53 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
Found at i:66161434 original size:138 final size:138
Alignment explanation
Indices: 66161239--66161542 Score: 502
Period size: 138 Copynumber: 2.2 Consensus size: 138
66161229 TAACTTTAAC
* *
66161239 CTGCTTCATTGCAACTTCAGGGA-ATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAG
* * * *
66161303 ATAAGATCTGTTTGTTTATAGCTTCAATCTGTTCCACTTCAACTTCAGGGAAATAAGATTCGCTA
66 ATAAGATCTGTTTATTTATAGCTTCAATATATTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
66161368 TCTTCAGT
131 TCTTCAGT
* *
66161376 TTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAG
*
66161441 ATAAGATCTGTTTATTTATAGCTTCAATATATTCCACTGCAACTTCAGGGAAATAAGATTTGCTA
66 ATAAGATCTGTTTATTTATAGCTTCAATATATTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
66161506 TCTTCAGT
131 TCTTCAGT
* *
66161514 CTGCTCCACTACAACTTTAGGGAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
66161543 ACTTTAACTT
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
137 20 0.13
138 134 0.87
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (138 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAG
ATAAGATCTGTTTATTTATAGCTTCAATATATTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
TCTTCAGT
Found at i:66161572 original size:43 final size:44
Alignment explanation
Indices: 66161473--66161585 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 44
66161463 TTCAATATAT
* * * * *
66161473 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTTAGGGAGATAAGACTT-CTAACTTCAGACTGC
*
66161518 TCCACTACAACTTTAGGGAGATAAGACTT-TAACTTCA-ACGTGC
1 TCCACTGCAACTTTAGGGAGATAAGACTTCTAACTTCAGAC-TGC
66161561 TCCACTGCAACTTTAGGGAGATAAG
1 TCCACTGCAACTTTAGGGAGATAAG
66161586 GTTTAGTGGC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 34 0.57
45 25 0.42
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
TCCACTGCAACTTTAGGGAGATAAGACTTCTAACTTCAGACTGC
Found at i:66163931 original size:20 final size:20
Alignment explanation
Indices: 66163894--66163931 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
66163884 ATTTGGTCTA
*
66163894 TTTTGTCCCTTTTGGCTCGT
1 TTTTGTCCCTTTTCGCTCGT
66163914 TTTTGTCTCC-TTTCGCTC
1 TTTTGTC-CCTTTTCGCTC
66163932 TCCTACGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.00, C:0.29, G:0.16, T:0.55
Consensus pattern (20 bp):
TTTTGTCCCTTTTCGCTCGT
Found at i:66165739 original size:9 final size:9
Alignment explanation
Indices: 66165727--66165769 Score: 59
Period size: 9 Copynumber: 4.4 Consensus size: 9
66165717 TAAATTTACT
66165727 AAAAAAATA
1 AAAAAAATA
66165736 AAAAAAATA
1 AAAAAAATA
66165745 AAATAAAATAA
1 AAA-AAAAT-A
66165756 ATAAAAAATA
1 A-AAAAAATA
66165766 AAAA
1 AAAA
66165770 GTAGTTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 15 0.48
10 7 0.23
11 7 0.23
12 2 0.06
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAAATA
Found at i:66165747 original size:5 final size:5
Alignment explanation
Indices: 66165730--66165768 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
66165720 ATTTACTAAA
*
66165730 AAAAT AAAA- AAAAT AAAAT AAAAT AAATAA AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAA
66165769 AGTAGTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:66165749 original size:14 final size:14
Alignment explanation
Indices: 66165730--66165761 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
66165720 ATTTACTAAA
66165730 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
*
66165744 AAAATAAAATAAAT
1 AAAATAAAAAAAAT
66165758 AAAA
1 AAAA
66165762 AATAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:66177952 original size:3 final size:3
Alignment explanation
Indices: 66177934--66178013 Score: 144
Period size: 3 Copynumber: 26.7 Consensus size: 3
66177924 TAAATAGGTA
66177934 AAT AAT AAGT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66177979 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
66178014 GAGTAATATA
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 70 0.93
4 3 0.04
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66178152 original size:3 final size:3
Alignment explanation
Indices: 66178138--66178285 Score: 77
Period size: 3 Copynumber: 49.0 Consensus size: 3
66178128 AATATTACGT
* * * * **
66178138 TAA TAA TGA TAA TAA AAA TAA TAA TAA GAA TAA TGA T-A TGT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * *
66178185 TAA TAG GGA TAA TAA TAA TAGA TAA TAG CAA TAA AAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
66178231 TAA TAGA AAA TAA TAA TAG T-A TAA AAA TAA TGAA -AA TAA TGA TAT
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
66178276 TAA TACA TAA
1 TAA TA-A TAA
66178286 ATACAAATAG
Statistics
Matches: 104, Mismatches: 34, Indels: 14
0.68 0.22 0.09
Matches are distributed among these distances:
2 5 0.05
3 89 0.86
4 10 0.10
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:66178333 original size:15 final size:14
Alignment explanation
Indices: 66178291--66178329 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
66178281 CATAAATACA
*
66178291 AATAGAAATATAAT
1 AATAGAAATATAGT
66178305 ATATAGAAATATAGT
1 A-ATAGAAATATAGT
66178320 AATAGAAATA
1 AATAGAAATA
66178330 ATAGATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AATAGAAATATAGT
Found at i:66187506 original size:20 final size:20
Alignment explanation
Indices: 66187469--66187519 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
66187459 CTATAACAAC
66187469 TCACAAC-TT-CAA-TTATT
1 TCACAACTTTACAACTTATT
66187486 TCAC-ACATTTACAACTTATT
1 TCACAAC-TTTACAACTTATT
*
66187506 TTACAACTTTACAA
1 TCACAACTTTACAA
66187520 AATAGCCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.07
17 4 0.14
18 2 0.07
19 3 0.11
20 15 0.54
21 2 0.07
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (20 bp):
TCACAACTTTACAACTTATT
Found at i:66188327 original size:29 final size:29
Alignment explanation
Indices: 66188273--66188329 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
66188263 ACAAAGTAAA
* *
66188273 AACTACCTAGCTAACAACCAATTGACTTC
1 AACTAACTAGCTAACAACCAACTGACTTC
*
66188302 AACTAACTA-CTAACTAACTAACTGACTT
1 AACTAACTAGCTAAC-AACCAACTGACTT
66188330 GACAAACCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.26
Consensus pattern (29 bp):
AACTAACTAGCTAACAACCAACTGACTTC
Found at i:66190229 original size:37 final size:38
Alignment explanation
Indices: 66190181--66190285 Score: 126
Period size: 37 Copynumber: 2.8 Consensus size: 38
66190171 TGTTTTTAGT
* * * * *
66190181 TGGACTAGCTCTTAGGAGCAAT-TGGCGTGTTATCGGG
1 TGGATTAGCTCTTATGAGCAATCTGACATGTTATCAGG
*
66190218 TGGATTGGCTCTTATGAGC-ATCTGACATGTTATCAGG
1 TGGATTAGCTCTTATGAGCAATCTGACATGTTATCAGG
*
66190255 TGGATTAGCTCTTATGAGC-ATCTGGCATGTT
1 TGGATTAGCTCTTATGAGCAATCTGACATGTT
66190286 TCGGTTGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 2 0.03
37 57 0.97
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (38 bp):
TGGATTAGCTCTTATGAGCAATCTGACATGTTATCAGG
Found at i:66190872 original size:43 final size:43
Alignment explanation
Indices: 66190823--66190907 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
66190813 TGAGGTGCCC
*
66190823 ATGTTAGGCATATTGATTGAATGTTAGATGGTGTGATTTAACT
1 ATGTTAGGCATATTGATTGAATGTTAGATGGGGTGATTTAACT
*
66190866 ATGTTAGGCATATTGGTTGAATGTTAGATGGGGTGATTTAAC
1 ATGTTAGGCATATTGATTGAATGTTAGATGGGGTGATTTAAC
66190908 ATACTTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.05, G:0.28, T:0.40
Consensus pattern (43 bp):
ATGTTAGGCATATTGATTGAATGTTAGATGGGGTGATTTAACT
Found at i:66192611 original size:37 final size:37
Alignment explanation
Indices: 66192561--66192639 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
66192551 TTATTACGAA
* * *
66192561 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
66192598 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
66192635 GTCTT
1 GTCTT
66192640 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:66192883 original size:49 final size:49
Alignment explanation
Indices: 66192758--66193819 Score: 1969
Period size: 49 Copynumber: 21.8 Consensus size: 49
66192748 CCTTTCGGGA
* * * * *
66192758 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66192805 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66192852 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66192901 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66192950 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66192999 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193048 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193097 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193146 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193195 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193244 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193293 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193342 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193391 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193440 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193489 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193538 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193587 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193636 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA--TTAGGC
*
66193687 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66193734 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66193781 CTTATCACATATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATATACACTTTCACATTCATCACATCG
66193820 AATCCTAAAT
Statistics
Matches: 994, Mismatches: 13, Indels: 14
0.97 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 102 0.10
49 877 0.88
51 14 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66198825 original size:18 final size:19
Alignment explanation
Indices: 66198799--66198834 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
66198789 TAGACTAAAT
*
66198799 TCAACTCTCT-AATTTCAC
1 TCAAATCTCTAAATTTCAC
66198817 TCAAATCTCTAAATTTCA
1 TCAAATCTCTAAATTTCA
66198835 AAAATTGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAATCTCTAAATTTCAC
Found at i:66199790 original size:276 final size:276
Alignment explanation
Indices: 66199289--66200121 Score: 1630
Period size: 276 Copynumber: 3.0 Consensus size: 276
66199279 TATTTAAATG
66199289 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
1 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
66199354 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
66 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
66199419 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
131 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
66199484 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
196 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
66199549 CGTGACTATCGGGTCA
261 CGTGACTATCGGGTCA
66199565 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
1 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
66199630 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
66 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
* *
66199695 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCATACAACTAACTTCATAAATAT
131 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
**
66199760 TTTTATTAAATATTTACGAATCTGTTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
196 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
66199825 CGTGACTATCGGGTCA
261 CGTGACTATCGGGTCA
66199841 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
1 TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
66199906 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
66 TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
66199971 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
131 CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
66200036 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
196 TTTTATTAAATATTTACGAATCCATTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
66200101 CGTGACTATCGGGTCA
261 CGTGACTATCGGGTCA
66200117 TTACA
1 TTACA
66200122 ACCAATCAAG
Statistics
Matches: 549, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 549 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (276 bp):
TTACACATGTCATTACCAATACCACACACTTGTTAATTTAAGGTTTAATTGCTTATTTAGTCCCT
TCACTTTTCTCTAATCTATAATTTAACTTTCTCCCTATATGCAATCTAGTCCTTACACCTAATTA
CTCATAAATTAAACAAATTCACCGAATCAAAATCTAATTAACCACACAACTAACTTCGTAAATAT
TTTTATTAAATATTTACGAATCCATTTTCTGAAAATGGAGACCTGAAAATACACTTTCTGATACT
CGTGACTATCGGGTCA
Found at i:66209887 original size:24 final size:24
Alignment explanation
Indices: 66209856--66209903 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66209846 GTTTAGATAA
66209856 TTAATTAATTAAAAGGAACTAAAT
1 TTAATTAATTAAAAGGAACTAAAT
66209880 TTAATTAATTAAAAGGAACTAAAT
1 TTAATTAATTAAAAGGAACTAAAT
66209904 CGTAAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (24 bp):
TTAATTAATTAAAAGGAACTAAAT
Found at i:66209917 original size:24 final size:24
Alignment explanation
Indices: 66209861--66209910 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
66209851 GATAATTAAT
* *
66209861 TAATTAAAAGGAACTAAATTTAAT
1 TAATTAAAAGGAACTAAATGTAAA
66209885 TAATTAAAAGGAACTAAATCGTAAA
1 TAATTAAAAGGAACTAAAT-GTAAA
66209910 T
1 T
66209911 GTTAAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (24 bp):
TAATTAAAAGGAACTAAATGTAAA
Found at i:66230375 original size:28 final size:29
Alignment explanation
Indices: 66230342--66230398 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
66230332 TTTATGTATT
*
66230342 TGTGAAA-TAAGGGCTAAATTGTAAAAAA
1 TGTGAAAGTAAGGGCTAAAGTGTAAAAAA
*
66230370 TGTGAAAGTTTAGGGCTAAAGTGTAAAAA
1 TGTGAAAG-TAAGGGCTAAAGTGTAAAAA
66230399 TTCCCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
30 18 0.72
ACGTcount: A:0.46, C:0.04, G:0.25, T:0.26
Consensus pattern (29 bp):
TGTGAAAGTAAGGGCTAAAGTGTAAAAAA
Found at i:66230839 original size:43 final size:43
Alignment explanation
Indices: 66230750--66230865 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
66230740 TGTGATTACA
* * * *
66230750 TGTAAGACCATCTCTAGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTAATCAGATTATG
66230793 TGTAAGACCATGTCTAGGACATTGGCATCGTTAATCA-ATT-TCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG-TAATCAGATTAT-G
* * * *
66230836 TGTAAAACCTTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
66230866 ATATGTGTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 58 0.92
44 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTAATCAGATTATG
Found at i:66234463 original size:42 final size:42
Alignment explanation
Indices: 66234404--66234525 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
66234394 TTAGGGTTAC
66234404 TGAGA-TTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
66234446 TGAGACTTCGTGTAAGACTATATCTAGGCTATTGGAATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * *
66234489 CGAGACTAT-ATATAAGACCATATTTGGGATATGGCAT
1 TGAGACT-TCGTGTAAGACCATATCTGGGATATGGCAT
66234526 TGGTACGGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:66236359 original size:20 final size:20
Alignment explanation
Indices: 66236334--66236377 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
66236324 AATATTATTT
66236334 TAAAAA-AAGTAAAAAAATTG
1 TAAAAATAA-TAAAAAAATTG
* *
66236354 TAAAAATTATTAAAAAATTG
1 TAAAAATAATAAAAAAATTG
66236374 TAAA
1 TAAA
66236378 TATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
TAAAAATAATAAAAAAATTG
Found at i:66236569 original size:15 final size:15
Alignment explanation
Indices: 66236549--66236579 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66236539 TTTTTTTAGA
66236549 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
66236564 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
66236579 A
1 A
66236580 AAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Done.