Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 233 of 335
Found at i:70381970 original size:12 final size:12
Alignment explanation
Indices: 70381933--70381970 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
70381923 AGCTTGAGTA
*
70381933 CTACCTCGGCCT
1 CTACCACGGCCT
*
70381945 CGACCACGGCCT
1 CTACCACGGCCT
70381957 CTACCACGGCCT
1 CTACCACGGCCT
70381969 CT
1 CT
70381971 TCCCCGAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.13, C:0.50, G:0.18, T:0.18
Consensus pattern (12 bp):
CTACCACGGCCT
Found at i:70385114 original size:32 final size:32
Alignment explanation
Indices: 70385077--70385141 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
70385067 AATGCTTACC
70385077 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
70385109 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
70385141 A
1 A
70385142 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:70388495 original size:43 final size:43
Alignment explanation
Indices: 70388378--70388595 Score: 138
Period size: 43 Copynumber: 5.1 Consensus size: 43
70388368 GTAGCGGCAT
* * ** * *
70388378 TTTTCACACAAACGCCACTATAGAACGTGA-CTTATAGCAGCGC
1 TTTTCCCACAAATGCCACTATAGAATATGACCTT-TAGCGGGGC
* * * * *
70388421 CTTTCCCACAAAAT-TCGCTATAAAATGTGACCTTTAGCGGGGC
1 TTTTCCCAC-AAATGCCACTATAGAATATGACCTTTAGCGGGGC
*
70388464 TTTTCCCACAAATGCCACTGTAGAATATGACCTTTAGC--GGC
1 TTTTCCCACAAATGCCACTATAGAATATGACCTTTAGCGGGGC
* * * * * *
70388505 ATTTTCCCATAAACGCCGCTATTGAACATGACCTTTAGCGGTGC
1 -TTTTCCCACAAATGCCACTATAGAATATGACCTTTAGCGGGGC
* * ** * * * * *
70388549 CTTTACTTCAAATGTCACTATAGAATGTGAGCTTTGGCGGCGC
1 TTTTCCCACAAATGCCACTATAGAATATGACCTTTAGCGGGGC
70388592 TTTT
1 TTTT
70388596 TCTGAAAATG
Statistics
Matches: 132, Mismatches: 37, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
41 3 0.02
42 36 0.27
43 85 0.64
44 8 0.06
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
TTTTCCCACAAATGCCACTATAGAATATGACCTTTAGCGGGGC
Found at i:70388640 original size:44 final size:45
Alignment explanation
Indices: 70388590--70388674 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
70388580 CTTTGGCGGC
* * *
70388590 GCTTTTTCTGAAAA-TGTCGCTAAATGTCGTGTTCTTTAGCACCA
1 GCTTTTTCTAAAAAGTGCCGCTAAAAGTCGTGTTCTTTAGCACCA
* *
70388634 GCTTTTTGTAAAAAGTGCCGCTAAAAGTCTTGTTCTTTAGC
1 GCTTTTTCTAAAAAGTGCCGCTAAAAGTCGTGTTCTTTAGC
70388675 GGTGCTTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 12 0.34
45 23 0.66
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (45 bp):
GCTTTTTCTAAAAAGTGCCGCTAAAAGTCGTGTTCTTTAGCACCA
Found at i:70388682 original size:44 final size:43
Alignment explanation
Indices: 70388580--70388682 Score: 98
Period size: 45 Copynumber: 2.3 Consensus size: 43
70388570 AGAATGTGAG
* * * * *
70388580 CTTTGGCGGCGCTTTTTCTGAAAATGTCGCTAAATGTCGTGTT
1 CTTTAGCGGAGCTTTTTCTAAAAATGCCGCTAAAAGTCGTGTT
** * *
70388623 CTTTAGCACCAGCTTTTTGTAAAAAGTGCCGCTAAAAGTCTTGTT
1 CTTTAGC-GGAGCTTTTTCTAAAAA-TGCCGCTAAAAGTCGTGTT
*
70388668 CTTTAGCGGTGCTTT
1 CTTTAGCGGAGCTTT
70388683 GGAAAGAACT
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
43 6 0.13
44 17 0.37
45 23 0.50
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (43 bp):
CTTTAGCGGAGCTTTTTCTAAAAATGCCGCTAAAAGTCGTGTT
Found at i:70389214 original size:9 final size:9
Alignment explanation
Indices: 70389200--70389244 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
70389190 TGATATTTAT
*
70389200 TTATGTTAG
1 TTATGTAAG
*
70389209 TTATGTAAA
1 TTATGTAAG
70389218 TTATGTAAG
1 TTATGTAAG
70389227 TTATGTAAG
1 TTATGTAAG
70389236 TTATGTAAG
1 TTATGTAAG
70389245 AGCTCCTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:70391341 original size:84 final size:84
Alignment explanation
Indices: 70391200--70391365 Score: 332
Period size: 84 Copynumber: 2.0 Consensus size: 84
70391190 ATTTGCAAAC
70391200 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
1 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
70391265 TTGGAAATAGAGAATCATT
66 TTGGAAATAGAGAATCATT
70391284 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
1 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
70391349 TTGGAAATAGAGAATCA
66 TTGGAAATAGAGAATCA
70391366 AATTCAAATG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (84 bp):
AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
TTGGAAATAGAGAATCATT
Found at i:70392402 original size:26 final size:26
Alignment explanation
Indices: 70392366--70392475 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
70392356 CATGAAATTC
*
70392366 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
70392392 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
70392418 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
70392444 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGAAACATTTACCTAACCTA
70392470 TTATCA
1 TTATCA
70392476 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:70392930 original size:9 final size:9
Alignment explanation
Indices: 70392913--70392998 Score: 75
Period size: 9 Copynumber: 9.6 Consensus size: 9
70392903 TATTTATCTA
*
70392913 TTATCTAAG
1 TTATGTAAG
70392922 TTATGTAAG
1 TTATGTAAG
*
70392931 TTATGATATG
1 TTATG-TAAG
* * *
70392941 ATATAT-AT
1 TTATGTAAG
*
70392949 TTATATAAG
1 TTATGTAAG
70392958 TTATGTAAG
1 TTATGTAAG
*
70392967 TTATGTACG
1 TTATGTAAG
*
70392976 TTATGTGAG
1 TTATGTAAG
*
70392985 GTATGTAAG
1 TTATGTAAG
70392994 TTATG
1 TTATG
70392999 ATATTATATA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
8 5 0.08
9 49 0.82
10 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:70392936 original size:43 final size:45
Alignment explanation
Indices: 70392869--70392980 Score: 158
Period size: 43 Copynumber: 2.5 Consensus size: 45
70392859 CTAAGCCTAT
* *
70392869 GTTATGTAAGTTATG-ACATTTATGATATGATATATATTTATCT-A
1 GTTATGTAAGTTATGTA-AGTTATGATATGATATATATTTATATAA
*
70392913 -TTATCTAAGTTATGTAAGTTATGATATGATATATATTTATATAA
1 GTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAA
*
70392957 GTTATGTAAGTTATGTACGTTATG
1 GTTATGTAAGTTATGTAAGTTATG
70392981 TGAGGTATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 37 0.62
44 2 0.03
45 21 0.35
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (45 bp):
GTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAA
Found at i:70392994 original size:36 final size:36
Alignment explanation
Indices: 70392918--70393036 Score: 94
Period size: 36 Copynumber: 3.5 Consensus size: 36
70392908 ATCTATTATC
* **
70392918 TAAGTTATGTAAGTTATGATATGATATATATTTATA
1 TAAGTTATGTAAGTTATGATACGATATATAGGTATA
* * *
70392954 TAAGTTATGTAAGTTATG-TACGTTATGTGAGGTATG
1 TAAGTTATGTAAGTTATGATACGATATAT-AGGTATA
70392990 TAAGTTATG-ATA-TTAT-AT---ATATATA--TATA
1 TAAGTTATGTA-AGTTATGATACGATATATAGGTATA
*
70393019 TAAGGTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
70393037 TAATTTTAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
29 12 0.18
30 5 0.07
31 1 0.01
32 4 0.06
35 13 0.19
36 32 0.48
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (36 bp):
TAAGTTATGTAAGTTATGATACGATATATAGGTATA
Found at i:70394388 original size:16 final size:16
Alignment explanation
Indices: 70394344--70394391 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
70394334 ATAAATTTTG
70394344 ATTTAATTTAATTATAT
1 ATTT-ATTTAATTATAT
** *
70394361 ATTTATGAAATTTTAT
1 ATTTATTTAATTATAT
*
70394377 TTTTATTTAATTATA
1 ATTTATTTAATTATA
70394392 CATATTTTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTTATTTAATTATAT
Found at i:70395167 original size:19 final size:19
Alignment explanation
Indices: 70395139--70395190 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
70395129 TTGGGATTTT
70395139 GATTGGGGAAAATTT-AGG
1 GATTGGGGAAAATTTAAGG
70395157 GATTAGGGG-AAATTTAAGG
1 GATT-GGGGAAAATTTAAGG
*
70395176 AATTGGGGAAAATTT
1 GATTGGGGAAAATTT
70395191 GTTGGGGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.29
Consensus pattern (19 bp):
GATTGGGGAAAATTTAAGG
Found at i:70395169 original size:18 final size:18
Alignment explanation
Indices: 70395139--70395186 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
70395129 TTGGGATTTT
70395139 GATTGGGGAAAATTT-AGG
1 GATTGGGG-AAATTTAAGG
70395157 GATTAGGGGAAATTTAAGG
1 GATT-GGGGAAATTTAAGG
*
70395176 AATTGGGGAAA
1 GATTGGGGAAA
70395187 ATTTGTTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (18 bp):
GATTGGGGAAATTTAAGG
Found at i:70395694 original size:126 final size:125
Alignment explanation
Indices: 70395412--70395695 Score: 306
Period size: 126 Copynumber: 2.3 Consensus size: 125
70395402 TTTGCAGCGT
* * *
70395412 TTTTTTACCTAGCGCCGCTAATGCCACTAAAGACGCTACCTAAATCGGCACCGTTTTAATTAAAG
1 TTTTTCACCTAGAGCCGCTAATGCCACTAAAGACGCAACCTAAATCGGCACCGTTTTAATTAAAG
* * ** * * *
70395477 TAAAATGTTTTTTTGTGGCGTTTTTTGAGTAGTGACACTAATGGTCGATCTATTACGGCG
66 TAAAATGTTTTTTTGCGGCATTTTTTGACAAGCGACACTAATGCTCGATCTATTACGGAG
* * * ** *
70395537 TTTTTCACATAGTGCCGCTAAAT-CCACTAAAGACGCAACTTAAAAT-GGTGCCGTTTTATTTAA
1 TTTTTCACCTAGAGCCGCT-AATGCCACTAAAGACGCAACCT-AAATCGGCACCGTTTTAATTAA
* * *
70395600 AGTAAATTAT-TTTTTTTGCGGCATTTTTT-ACCAAGCGCCTCTAATGCTCGATCTATTGCGGAG
64 AGTAAA--ATGTTTTTTTGCGGCATTTTTTGA-CAAGCGACACTAATGCTCGATCTATTACGGAG
* *
70395663 TTTTTCACCTAGAGCCGCTAATGCTAATAAAGA
1 TTTTTCACCTAGAGCCGCTAATGCCACTAAAGA
70395696 AACAACACCG
Statistics
Matches: 131, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
125 56 0.43
126 73 0.56
127 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (125 bp):
TTTTTCACCTAGAGCCGCTAATGCCACTAAAGACGCAACCTAAATCGGCACCGTTTTAATTAAAG
TAAAATGTTTTTTTGCGGCATTTTTTGACAAGCGACACTAATGCTCGATCTATTACGGAG
Found at i:70396020 original size:7 final size:7
Alignment explanation
Indices: 70396004--70396099 Score: 93
Period size: 7 Copynumber: 13.7 Consensus size: 7
70395994 CAAATTTTAT
*
70396004 CCCTAGA
1 CCCTAAA
70396011 CCCTAAA
1 CCCTAAA
*
70396018 CCCTAGA
1 CCCTAAA
70396025 CCCTAAA
1 CCCTAAA
* *
70396032 CCATATA
1 CCCTAAA
*
70396039 CCATAAA
1 CCCTAAA
* *
70396046 TCTTAAA
1 CCCTAAA
70396053 CCCTAAA
1 CCCTAAA
70396060 CCCTAAA
1 CCCTAAA
70396067 CCCTAAA
1 CCCTAAA
** *
70396074 CTATACA
1 CCCTAAA
70396081 CCCTAAA
1 CCCTAAA
*
70396088 CACTAAA
1 CCCTAAA
70396095 CCCTA
1 CCCTA
70396100 TATATATATA
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 71 1.00
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:70396247 original size:22 final size:22
Alignment explanation
Indices: 70396202--70396322 Score: 58
Period size: 22 Copynumber: 5.6 Consensus size: 22
70396192 CAAAATCCCG
*
70396202 AACCCTTAAACCCTAACACCCT
1 AACCCTTAAACCCTAACACACT
*
70396224 AACCCTTAAAACCTTAA-ACACT
1 AACCCTT-AAACCCTAACACACT
*
70396246 AAGACCC-T-AACTAC-AACACACT
1 -A-ACCCTTAAAC-CCTAACACACT
* * * *
70396268 AAACCTCAAACCATAA-ACCCT
1 AACCCTTAAACCCTAACACACT
* * *
70396289 AA-ACTCTAAACCTTAAAACACT
1 AACCCT-TAAACCCTAACACACT
70396311 AACCC-TAAACCC
1 AACCCTTAAACCC
70396323 AAAATACTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 23
0.66 0.14 0.21
Matches are distributed among these distances:
20 5 0.07
21 26 0.36
22 27 0.37
23 11 0.15
24 4 0.05
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (22 bp):
AACCCTTAAACCCTAACACACT
Found at i:70396292 original size:14 final size:14
Alignment explanation
Indices: 70396266--70396411 Score: 50
Period size: 14 Copynumber: 10.4 Consensus size: 14
70396256 CTACAACACA
70396266 CTAAACC-TCAAACC
1 CTAAACCAT-AAACC
* * *
70396280 ATAAACCCTAAACT
1 CTAAACCATAAACC
* *
70396294 CTAAACCTTAAAACA
1 CTAAACCAT-AAACC
*
70396309 CT-AACCCTAAACC
1 CTAAACCATAAACC
** *
70396322 C-AAAATACTAAACA
1 CTAAACCA-TAAACC
*
70396336 TTAAACCATAAACC
1 CTAAACCATAAACC
*
70396350 CTAAAATCATAAACC
1 CT-AAACCATAAACC
* * *
70396365 ATAGACCTTAAACC
1 CTAAACCATAAACC
* *
70396379 TTAAA-CATTAAATC
1 CTAAACCA-TAAACC
*
70396393 TTAAAACC-TAAACC
1 CT-AAACCATAAACC
70396407 CTAAA
1 CTAAA
70396412 ATAAAATTAT
Statistics
Matches: 96, Mismatches: 27, Indels: 19
0.68 0.19 0.13
Matches are distributed among these distances:
13 11 0.11
14 58 0.60
15 26 0.27
16 1 0.01
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:70396298 original size:28 final size:28
Alignment explanation
Indices: 70396266--70396320 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
70396256 CTACAACACA
*
70396266 CTAAACCTCAAACCA-TAAACCCTAAACT
1 CTAAACCTCAAAACACT-AACCCTAAACT
*
70396294 CTAAACCTTAAAACACTAACCCTAAAC
1 CTAAACCTCAAAACACTAACCCTAAAC
70396321 CCAAAATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (28 bp):
CTAAACCTCAAAACACTAACCCTAAACT
Found at i:70396320 original size:35 final size:35
Alignment explanation
Indices: 70396275--70396354 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
70396265 ACTAAACCTC
* * *
70396275 AAACCATAAACCCTAAACT-CTAAACCTTAAAACACT
1 AAACCCTAAACCC-AAAATACTAAACATTAAAACA-T
*
70396311 -AACCCTAAACCCAAAATACTAAACATTAAACCAT
1 AAACCCTAAACCCAAAATACTAAACATTAAAACAT
70396345 AAACCCTAAA
1 AAACCCTAAA
70396355 ATCATAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (35 bp):
AAACCCTAAACCCAAAATACTAAACATTAAAACAT
Found at i:70396507 original size:41 final size:41
Alignment explanation
Indices: 70396418--70396531 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
70396408 TAAAATAAAA
* * * *
70396418 TTATCATAAACA-TATCTATTGCTTAACC-TTTGCAGTGTTT
1 TTATCATAAACACT-GCTACTGCTTGACCTTTTGCAGCGTTT
* *
70396458 TTACCATAAACACTGCTACTGCTTGACCTTTTGCGGCGTTT
1 TTATCATAAACACTGCTACTGCTTGACCTTTTGCAGCGTTT
* * *
70396499 TTATCATAAACGCCGCTACTACTTGACCTTTTG
1 TTATCATAAACACTGCTACTGCTTGACCTTTTG
70396532 TTAAAAACGG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 22 0.35
41 40 0.65
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (41 bp):
TTATCATAAACACTGCTACTGCTTGACCTTTTGCAGCGTTT
Found at i:70396682 original size:111 final size:111
Alignment explanation
Indices: 70396486--70396722 Score: 366
Period size: 111 Copynumber: 2.1 Consensus size: 111
70396476 CTGCTTGACC
* * **
70396486 TTTTGCGGCGTTTTTATCATAAACGCCGCTACTACTTGACCTTTTGTTAAAAACGGCGCTATAGC
1 TTTTGCGGCGTTTTTATAATAAACCCCGCTACTACTTGACCTTTTGTTAAAAACACCGCTATAGC
70396551 TCTAACCTTTTGCGACGTTTTCCTATTAGCGCCACTAATGTATAAA
66 TCTAACCTTTTGCGACGTTTTCCTATTAGCGCCACTAATGTATAAA
* * *
70396597 TTTTGCGGCATTTTTATAATAAACCCCGCTACTGCTTGACCTTTTGTTTAAAACACCGCTATAGC
1 TTTTGCGGCGTTTTTATAATAAACCCCGCTACTACTTGACCTTTTGTTAAAAACACCGCTATAGC
* ** *
70396662 TCTAACCTTTTGTGGTGTTTTCCTATTAGCGCCACTAATGTATAAC
66 TCTAACCTTTTGCGACGTTTTCCTATTAGCGCCACTAATGTATAAA
*
70396708 TTTTGTGGCGTTTTT
1 TTTTGCGGCGTTTTT
70396723 TGTCCAAACG
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (111 bp):
TTTTGCGGCGTTTTTATAATAAACCCCGCTACTACTTGACCTTTTGTTAAAAACACCGCTATAGC
TCTAACCTTTTGCGACGTTTTCCTATTAGCGCCACTAATGTATAAA
Found at i:70396743 original size:12 final size:12
Alignment explanation
Indices: 70396728--70396755 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
70396718 TTTTTTGTCC
70396728 AAACGCCACTAA
1 AAACGCCACTAA
70396740 AAACGCCACTAA
1 AAACGCCACTAA
70396752 AAAC
1 AAAC
70396756 CTGTTTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.32, G:0.07, T:0.07
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:70397328 original size:41 final size:40
Alignment explanation
Indices: 70397242--70397328 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 40
70397232 TAAAAAAGAG
*
70397242 CATTAGCAGCGCTTATAAGGAAAAGCCGCTATATGTTGAG
1 CATTAGCAGCGCTTATAAGGAAAAGCCGCTATATGTTGAC
* * * *
70397282 AATTAGCTGCGCTTATATGAGAAACGCCGCTATA-GCTTGAC
1 CATTAGCAGCGCTTATAAG-GAAAAGCCGCTATATG-TTGAC
70397323 CATTAG
1 CATTAG
70397329 AGGCGCCTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
40 17 0.44
41 22 0.56
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (40 bp):
CATTAGCAGCGCTTATAAGGAAAAGCCGCTATATGTTGAC
Found at i:70397978 original size:21 final size:22
Alignment explanation
Indices: 70397924--70397979 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
70397914 GATTAGGGTC
*
70397924 GGGTTAGGGGTTAGTGGTTTA-
1 GGGTTAGGGTTTAGTGGTTTAG
70397945 GGGTTAAGGGTTTA-TGGTTTAG
1 GGGTT-AGGGTTTAGTGGTTTAG
*
70397967 GGGTTAGAGTTTA
1 GGGTTAGGGTTTA
70397980 ATTAGATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (22 bp):
GGGTTAGGGTTTAGTGGTTTAG
Found at i:70399122 original size:158 final size:156
Alignment explanation
Indices: 70398821--70399141 Score: 391
Period size: 158 Copynumber: 2.0 Consensus size: 156
70398811 AAACGCTGCA
**
70398821 AAAAAATAGTATAGTTGAAAGAAAACGGTGTCGTTTTAGTTGGATAGAGTATTAGTGGCATTTTG
1 AAAAAATAGTATAGTTGAAAGAAAACGACGTCGTTTTAGTT-GATAGAGTATTAGTGGCATTTTG
* * * *
70398886 AAAAACGCCGCAACAGAAGTAAAGTGTACTGGAAGCGTCGTCGTTTTAGTTGAATATATAGAGGA
65 AAAAACGCCGCAAAAGAAGTAAAGTGTACTGGAAGCATCGTCATTTTAGTTAAATATATAGAGGA
70398951 TTAGCGGCGTTTTTATAGA-AAACGCCAC
130 TTAGCGGCGTTTTTA-A-ATAAACGCCAC
* * * *
70398979 AAAAGATAGTTTAGTTTAAAGAAAACGACGTCGTTTTAGTAT-ATGAGGGTATTAGTGGCACTTT
1 AAAAAATAGTATAGTTGAAAGAAAACGACGTCGTTTTAGT-TGAT-AGAGTATTAGTGGCA-TTT
* * * * *
70399043 T-AAAAACGCCGCAAAATAATTAAATTTTACTGTACA-CATCGTCATTTTAGTTAAATATATAG-
63 TGAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGA-AGCATCGTCATTTTAGTTAAATATATAGA
*
70399105 GGATTAGCGGCGTTTTTTAAATAAACGCCGC
127 GGATTAGCGGCG-TTTTTAAATAAACGCCAC
70399136 AAAAAA
1 AAAAAA
70399142 CATTAGTGCT
Statistics
Matches: 140, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
156 1 0.01
157 28 0.20
158 105 0.75
159 6 0.04
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (156 bp):
AAAAAATAGTATAGTTGAAAGAAAACGACGTCGTTTTAGTTGATAGAGTATTAGTGGCATTTTGA
AAAACGCCGCAAAAGAAGTAAAGTGTACTGGAAGCATCGTCATTTTAGTTAAATATATAGAGGAT
TAGCGGCGTTTTTAAATAAACGCCAC
Found at i:70399160 original size:158 final size:157
Alignment explanation
Indices: 70398869--70399172 Score: 377
Period size: 158 Copynumber: 1.9 Consensus size: 157
70398859 GTTGGATAGA
* * *
70398869 GTATTAGTGGCATTTTGAAAAACGCCGCAACAGAAGTAAAGTGTACTGGAAGCGTCGTCGTTTTA
1 GTATTAGTGGCATTTTGAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGAAGCATCGTCATTTTA
* * **
70398934 GTTGAATATATAGAGGATTAGCGGCGTTTTTATAGAAAACGCCACAAAAGATAGTTTAGTTTAAA
66 GTTAAATATATAGAGGATTAGCGGCGTTTTTATAAAAAACGCCACAAAAGATACATTAGTTTAAA
70398999 GAAAACGACGTCGTTTTAGTATATGAGG
131 G-AAACGACGTCGTTTTAGTATATGAGG
* * * * *
70399027 GTATTAGTGGCACTTTT-AAAAACGCCGCAAAATAATTAAATTTTACTGTACA-CATCGTCATTT
1 GTATTAGTGGCA-TTTTGAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGA-AGCATCGTCATTT
*
70399090 TAGTTAAATATATAG-GGATTAGCGGCGTTTTT-TAAATAAACGCCGCAAAA-A-ACATTAGTGC
64 TAGTTAAATATATAGAGGATTAGCGGCGTTTTTATAAA-AAACGCCACAAAAGATACATTAGT--
*
70399151 TTAACAGAAACGGCGTCGTTTT
126 TTAA-AGAAACGACGTCGTTTT
70399173 CTTTGGAGAT
Statistics
Matches: 126, Mismatches: 14, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
155 6 0.05
156 4 0.03
157 47 0.37
158 64 0.51
159 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (157 bp):
GTATTAGTGGCATTTTGAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGAAGCATCGTCATTTTA
GTTAAATATATAGAGGATTAGCGGCGTTTTTATAAAAAACGCCACAAAAGATACATTAGTTTAAA
GAAACGACGTCGTTTTAGTATATGAGG
Found at i:70399732 original size:2 final size:2
Alignment explanation
Indices: 70399727--70399760 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
70399717 TTTTATTCCA
70399727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70399761 CCTGATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70400530 original size:26 final size:26
Alignment explanation
Indices: 70400493--70400602 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
70400483 TTGATACAAT
*
70400493 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
70400519 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
70400545 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
70400571 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
70400597 TGATAA
1 TGATAA
70400603 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:70404759 original size:99 final size:98
Alignment explanation
Indices: 70404567--70404761 Score: 252
Period size: 99 Copynumber: 2.0 Consensus size: 98
70404557 ATGTTTACTT
* **
70404567 AAATTAATAAATGCAAATTGAAAGAAAGACTTAACAAGTTTAATGTCATTAAATTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAAAATCATT-AATTAAATATTTTA
* *
70404632 TTTTATTTTTATATTACCTAATTTTTAAATTAAC
65 TTTTATTTTTAAATTACCTAATTATTAAATTAAC
* *
70404666 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAATGTTTAAAAT-ATT-TTGTCAA-ATTTT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAA-GTTTAAAATCATTAAT-TAAATATTTT
*
70404728 ATTTTATTTTTAAATTACTTAATTAAATTAAATT
64 ATTTTATTTTTAAATTACCTAATT--ATTAAATT
70404762 GTATTTAAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
97 28 0.33
98 3 0.04
99 46 0.55
100 7 0.08
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (98 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAAAATCATTAATTAAATATTTTAT
TTTATTTTTAAATTACCTAATTATTAAATTAAC
Found at i:70404780 original size:5 final size:5
Alignment explanation
Indices: 70404772--70404796 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
70404762 GTATTTAAAG
70404772 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
70404797 ATCAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:70404877 original size:5 final size:5
Alignment explanation
Indices: 70404869--70404893 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
70404859 GTATTTAAAG
70404869 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
70404894 ATCAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:70404970 original size:94 final size:95
Alignment explanation
Indices: 70404715--70405170 Score: 719
Period size: 94 Copynumber: 4.8 Consensus size: 95
70404705 TTTAAAATAT
* * *
70404715 TTTGTCAAATTTTATTTTATTTTTAAATTACTTAATTAAATTAAATTGTATTTAAAGTTTTATTT
1 TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
*
70404780 TATTTTATTTTATTTTAATCAAGAAAAAAAC
66 TATTTTATTTTATTTTAATC-AGGAAAAAAC
* *
70404811 TTTTGTCAAATTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 -TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
70404876 TTATTTTATTTTATTTTAATCAGGAAAAAAC
65 TTATTTTATTTTATTTTAATCAGGAAAAAAC
70404907 -TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
1 TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
*
70404971 TATTTTATTTTATTTTAATCA-CAAAAAACC
66 TATTTTATTTTATTTTAATCAGGAAAAAA-C
* *
70405001 TTTGTCTACTTTTATTTTATTGTTAAATTACCTAATTAAAGTAAATTGTATTTAAAG-----TTT
1 TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
70405061 TATTTTATTTTATTTTAATCAGGAAAAAAAAC
66 TATTTTATTTTATTTTAATCAGG--AAAAAAC
*
70405093 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATT
1 -TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
70405158 TTATTTTATTTTA
65 TTATTTTATTTTA
70405171 ATCACAAAAA
Statistics
Matches: 337, Mismatches: 11, Indels: 21
0.91 0.03 0.06
Matches are distributed among these distances:
90 24 0.07
92 1 0.00
93 66 0.20
94 84 0.25
95 54 0.16
96 9 0.03
97 84 0.25
98 15 0.04
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (95 bp):
TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
TATTTTATTTTATTTTAATCAGGAAAAAAC
Found at i:70404971 original size:5 final size:5
Alignment explanation
Indices: 70404963--70404987 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
70404953 GTATTTAAAG
70404963 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
70404988 ATCACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:70405139 original size:93 final size:93
Alignment explanation
Indices: 70404714--70405182 Score: 644
Period size: 93 Copynumber: 5.0 Consensus size: 93
70404704 GTTTAAAATA
* * *
70404714 TTTTGTCAAATTTTATTTTATTTTTAAATTACTTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG-----TT
*
70404779 TTATTTTATTTTATTTTAATCAAG-AAAAAAAC
61 TTATTTTATTTTATTTTAATCAGGAAAAAAAAC
* *
70404811 TTTTGTCAAATTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG-----TT
70404876 TTATTTTATTTTATTTTAATCAGG--AAAAAAC
61 TTATTTTATTTTATTTTAATCAGGAAAAAAAAC
70404907 --TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
* * ** *
70404970 TTATTTTATTTTATTTTAATCACAAAAAAC
66 TTATTTTATTTTA--ATCAGGAAAAAAAAC
* * *
70405000 CTTTGTCTACTTTTATTTTATTGTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
70405065 TTATTTTATTTTAATCAGGAAAAAAAAC
66 TTATTTTATTTTAATCAGGAAAAAAAAC
*
70405093 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
*
70405158 TTATTTTATTTTAATCA-CAAAAAAA
66 TTATTTTATTTTAATCAGGAAAAAAA
70405183 CTTGTAAATA
Statistics
Matches: 346, Mismatches: 20, Indels: 17
0.90 0.05 0.04
Matches are distributed among these distances:
89 20 0.06
91 2 0.01
92 7 0.02
93 95 0.27
94 54 0.16
95 74 0.21
96 7 0.02
97 87 0.25
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (93 bp):
TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
TTATTTTATTTTAATCAGGAAAAAAAAC
Found at i:70405379 original size:10 final size:9
Alignment explanation
Indices: 70405357--70405453 Score: 65
Period size: 9 Copynumber: 10.4 Consensus size: 9
70405347 CAACATAAAT
70405357 ATTTATCATA
1 ATTTA-CATA
*
70405367 TTTTACATA
1 ATTTACATA
70405376 ATTTACATA
1 ATTTACATA
*
70405385 ACTTACATA
1 ATTTACATA
70405394 A--TACATAA
1 ATTTACAT-A
70405402 ATATATATCAT-
1 AT-T-TA-CATA
*
70405413 ATCTTAAATA
1 AT-TTACATA
70405423 ATTTACATA
1 ATTTACATA
**
70405432 ATTTGGATA
1 ATTTACATA
*
70405441 ACTTACATA
1 ATTTACATA
70405450 ATTT
1 ATTT
70405454 TATTTGGTGA
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 45 0.66
10 8 0.12
11 3 0.04
12 2 0.03
13 3 0.04
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (9 bp):
ATTTACATA
Found at i:70408648 original size:29 final size:29
Alignment explanation
Indices: 70408615--70408775 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 29
70408605 GTGACGAGAT
*
70408615 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
70408644 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
70408673 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
70408702 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
70408731 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
70408760 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
70408776 GGCTTAAATT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:70410644 original size:10 final size:10
Alignment explanation
Indices: 70410629--70410660 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
70410619 TTATGTGATT
70410629 ATTTGGTATG
1 ATTTGGTATG
70410639 ATTTGGTATG
1 ATTTGGTATG
*
70410649 TTTTGGTATG
1 ATTTGGTATG
70410659 AT
1 AT
70410661 AACCAAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (10 bp):
ATTTGGTATG
Found at i:70413127 original size:19 final size:18
Alignment explanation
Indices: 70413085--70413127 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
70413075 AAACCCTAAT
70413085 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
70413102 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
70413122 -TTCCCT
1 TTTCCCT
70413128 GCTAATCGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.26
18 4 0.17
19 9 0.39
20 4 0.17
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:70413195 original size:8 final size:8
Alignment explanation
Indices: 70413184--70413221 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
70413174 CTTTATTCTT
70413184 TTATTATA
1 TTATTATA
70413192 TTATTA-A
1 TTATTATA
*
70413199 CTATTATA
1 TTATTATA
70413207 TTATTATAA
1 TTATTAT-A
70413216 TTATTA
1 TTATTA
70413222 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:70421389 original size:15 final size:15
Alignment explanation
Indices: 70421371--70421400 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
70421361 ATTGTTATTT
*
70421371 TTACTATTATTTTAA
1 TTACAATTATTTTAA
70421386 TTACAATTATTTTAA
1 TTACAATTATTTTAA
70421401 ACTTTAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTACAATTATTTTAA
Found at i:70421991 original size:11 final size:11
Alignment explanation
Indices: 70421863--70421991 Score: 61
Period size: 11 Copynumber: 11.7 Consensus size: 11
70421853 TATTTTCTCT
*
70421863 TTATTTTACTA
1 TTATTTTATTA
* *
70421874 TCATTTTACTA
1 TTATTTTATTA
* *
70421885 TTATATTAATA
1 TTATTTTATTA
70421896 TTATTTTATTGTTA
1 TTATTTTA---TTA
*
70421910 TTATTTGATTA
1 TTATTTTATTA
** **
70421921 TTA-AATAAAA
1 TTATTTTATTA
70421931 CTTATTTTATTA
1 -TTATTTTATTA
70421943 TTAATTTTATTA
1 TT-ATTTTATTA
* **
70421955 TTATTTAAAGA
1 TTATTTTATTA
70421966 -TA-TTTATTA
1 TTATTTTATTA
70421975 --ATTTTATTA
1 TTATTTTATTA
70421984 TTATTTTA
1 TTATTTTA
70421992 GAAATATTTA
Statistics
Matches: 87, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
8 1 0.01
9 11 0.13
10 4 0.05
11 48 0.55
12 14 0.16
14 9 0.10
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:70422101 original size:9 final size:9
Alignment explanation
Indices: 70422084--70422130 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
70422074 CAAATATTTA
*
70422084 TTTTGATAT
1 TTTTAATAT
70422093 TTTTAATAT
1 TTTTAATAT
70422102 TTTTAAT-T
1 TTTTAATAT
*
70422110 TATTATATATT
1 TTTTA-ATA-T
70422121 TTTTAATAT
1 TTTTAATAT
70422130 T
1 T
70422131 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 5 0.16
9 19 0.59
10 3 0.09
11 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTAATAT
Found at i:70422104 original size:17 final size:18
Alignment explanation
Indices: 70422082--70422122 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
70422072 GACAAATATT
70422082 TATTTTGATATTT-TTA-A
1 TATTTTGA-ATTTATTATA
*
70422099 TATTTTTAATTTATTATA
1 TATTTTGAATTTATTATA
70422117 TATTTT
1 TATTTT
70422123 TTAATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 10 0.48
18 7 0.33
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTTTGAATTTATTATA
Found at i:70422105 original size:18 final size:18
Alignment explanation
Indices: 70422098--70422135 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
70422088 GATATTTTTA
70422098 ATATTTTTAATTTATTAT
1 ATATTTTTAATTTATTAT
70422116 ATATTTTTTAA--TATTAT
1 ATA-TTTTTAATTTATTAT
70422133 ATA
1 ATA
70422136 AAAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTTAATTTATTAT
Found at i:70422557 original size:22 final size:22
Alignment explanation
Indices: 70422532--70422574 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
70422522 TTATGAAATT
70422532 TAAACAA-AATAATTATAAGAAC
1 TAAACAAGAA-AATTATAAGAAC
*
70422554 TAAAGAAGAAAATTATAAGAA
1 TAAACAAGAAAATTATAAGAA
70422575 AAGGAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (22 bp):
TAAACAAGAAAATTATAAGAAC
Found at i:70423239 original size:23 final size:22
Alignment explanation
Indices: 70423201--70423252 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 22
70423191 TATCTTTTAT
70423201 TATTTTATTTTTATAAATAAATAA
1 TATTTTATTTTTAT-AATAAA-AA
*
70423225 TATTTTA-TTTTATAATTAAAA
1 TATTTTATTTTTATAATAAAAA
70423246 TATTTTA
1 TATTTTA
70423253 AAATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 9 0.33
22 5 0.19
23 6 0.22
24 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTATTTTTATAATAAAAA
Found at i:70425898 original size:17 final size:16
Alignment explanation
Indices: 70425860--70425904 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
70425850 GGGATTAATG
*
70425860 TAAATAATAATATTAAGT
1 TAAAT-ATAA-ATTAAGA
70425878 TAAATATAAATTAAGAA
1 TAAATATAAATTAAG-A
70425895 TAAATATAAA
1 TAAATATAAA
70425905 ATTGTAGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 6 0.24
17 14 0.56
18 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
TAAATATAAATTAAGA
Found at i:70426491 original size:70 final size:70
Alignment explanation
Indices: 70426378--70426517 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
70426368 AAGCATTCAA
70426378 AACATTTTATATTGTTGATCCAGAAAAACTTACTTAGTGTTTTAAAAGATAATTTCATTATAGGT
1 AACATTTTATATTGTTGATCCAGAAAAACTTACTTAGTGTTTTAAAAGATAATTTCATTATAGGT
70426443 TAAAG
66 TAAAG
70426448 AACATTTTATATTGTTGATCCAGAAAAACTTACTTAGTGTTTTAAAAGATAATTTCATTATAGGT
1 AACATTTTATATTGTTGATCCAGAAAAACTTACTTAGTGTTTTAAAAGATAATTTCATTATAGGT
70426513 TAAAG
66 TAAAG
70426518 TGAATGGAAG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.40
Consensus pattern (70 bp):
AACATTTTATATTGTTGATCCAGAAAAACTTACTTAGTGTTTTAAAAGATAATTTCATTATAGGT
TAAAG
Found at i:70427397 original size:54 final size:54
Alignment explanation
Indices: 70427321--70427430 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
70427311 GTCACCAGAT
* *
70427321 ACAGATATTGTGGCAGAACCACCAGAACAGATATA-TGTGGCAGAGCCACCAAG
1 ACAGATATTGTGGCAGAACCACCAGAACAGATAAATTGTAGCAGAGCCACCAAG
* ** *
70427374 ACAGATATATGTGGCAGAGCCACCAGATTAGATAAATTGTAGCATAGCCACCAAG
1 ACAGATAT-TGTGGCAGAACCACCAGAACAGATAAATTGTAGCAGAGCCACCAAG
70427429 AC
1 AC
70427431 GCTTCCTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 8 0.16
54 23 0.47
55 18 0.37
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
ACAGATATTGTGGCAGAACCACCAGAACAGATAAATTGTAGCAGAGCCACCAAG
Found at i:70427406 original size:27 final size:27
Alignment explanation
Indices: 70427313--70427426 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
70427303 GTGACGAAGT
*
70427313 CACCAGATACAGATAT-TGTGGCAGAAC
1 CACCAGAT-CAGATATATGTGGCAGAGC
*
70427340 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
70427367 CACCAAGA-CAGATATATGTGGCAGAGC
1 CACC-AGATCAGATATATGTGGCAGAGC
* * * *
70427394 CACCAGATTAGATAAATTGTAGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
70427422 CACCA
1 CACCA
70427427 AGACGCTTCC
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 10 0.13
27 50 0.65
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:70435345 original size:53 final size:54
Alignment explanation
Indices: 70435256--70435414 Score: 198
Period size: 53 Copynumber: 3.0 Consensus size: 54
70435246 GTGAGGCTGT
* * * * *
70435256 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGTAGAGCCACCAAAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGAATAGCCACCAAAA
* **
70435309 CAGATATATGTGGCAGAGCCACCAGATCA-ATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGAATAGCCACCAAAA
*
70435362 CAGATATATGTGGCAGAGCCACCAGATTAGATAAATTGTGGAATAGCCACCAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGAT-AATTGTGGAATAGCCACCAA
70435415 GACGCTTCCT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.02
53 54 0.59
54 18 0.20
55 18 0.20
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGAATAGCCACCAAAA
Found at i:70435393 original size:27 final size:27
Alignment explanation
Indices: 70435255--70435413 Score: 148
Period size: 27 Copynumber: 5.9 Consensus size: 27
70435245 AGTGAGGCTG
* * *
70435255 TCAGATAT-TGTGACAAAGTCACCAGA
1 TCAGATATATGTGGCAGAGCCACCAGA
* *
70435281 TACAGATAT-TGTGGTAGAGCCACCAAA
1 T-CAGATATATGTGGCAGAGCCACCAGA
*
70435308 ACAGATATATGTGGCAGAGCCACCAGA
1 TCAGATATATGTGGCAGAGCCACCAGA
*
70435335 TCA-ATA-ATTGTGGCATAGCCACCAGGA
1 TCAGATATA-TGTGGCAGAGCCACCA-GA
70435362 -CAGATATATGTGGCAGAGCCACCAGA
1 TCAGATATATGTGGCAGAGCCACCAGA
* * * *
70435388 TTAGATAAATTGTGGAATAGCCACCA
1 TCAGATATA-TGTGGCAGAGCCACCA
70435414 AGACGCTTCC
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 30 0.27
27 64 0.58
28 15 0.14
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
TCAGATATATGTGGCAGAGCCACCAGA
Found at i:70437574 original size:17 final size:16
Alignment explanation
Indices: 70437534--70437578 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
70437524 TTCAATTTTA
70437534 ATATAAAT-ATTCAAT
1 ATATAAATAATTCAAT
70437549 ATGACTAAATAATTCAACT
1 AT-A-TAAATAATTCAA-T
70437568 ATATAAATAAT
1 ATATAAATAAT
70437579 ATAAAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 1 0.04
17 13 0.50
18 7 0.27
19 3 0.12
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (16 bp):
ATATAAATAATTCAAT
Found at i:70438459 original size:17 final size:16
Alignment explanation
Indices: 70438424--70438453 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
70438414 TATGAGTCAT
70438424 ATTTATATTTTAATAA
1 ATTTATATTTTAATAA
70438440 ATTTA-ATTTTAATA
1 ATTTATATTTTAATA
70438454 TAAATTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATATTTTAATAA
Found at i:70441336 original size:53 final size:53
Alignment explanation
Indices: 70441272--70441377 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
70441262 TGTTATAATT
70441272 GTTGCAAATTGTGTTTAATTTTGCTAAAATATATTTCATTCATATAGTTTGCA
1 GTTGCAAATTGTGTTTAATTTTGCTAAAATATATTTCATTCATATAGTTTGCA
*
70441325 GTTGCAAATTGTGTTTCATTTTGCTAAAATATATTTCATTCATATAGTTTGCA
1 GTTGCAAATTGTGTTTAATTTTGCTAAAATATATTTCATTCATATAGTTTGCA
70441378 TACTTAGGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.47
Consensus pattern (53 bp):
GTTGCAAATTGTGTTTAATTTTGCTAAAATATATTTCATTCATATAGTTTGCA
Found at i:70448272 original size:50 final size:48
Alignment explanation
Indices: 70448111--70448279 Score: 172
Period size: 48 Copynumber: 3.6 Consensus size: 48
70448101 GACGAGAACT
* *
70448111 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAATAGAGGTCTC
* *
70448155 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATAGAGGTCTC
* * *
70448203 AGTGTAAGACTATGTCTGGGACATGGCATTGGCACTGATATGTGAGAG-CT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA-AT-AGAG-GTCTC
*
70448253 AGTGTAAGACCATATCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
70448280 GTCGACCTCA
Statistics
Matches: 107, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
44 9 0.08
45 16 0.15
46 8 0.07
48 40 0.37
49 2 0.02
50 27 0.25
51 4 0.04
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATAGAGGTCTC
Found at i:70455759 original size:49 final size:50
Alignment explanation
Indices: 70455454--70455863 Score: 264
Period size: 47 Copynumber: 8.6 Consensus size: 50
70455444 TGAGAGCCAA
* ** * *
70455454 TGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACG--AGAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGTC-AG
* *
70455502 TGTAAGA-CATGTCTGGAACAT-GCATCGGCTACTAG--ATGT----GTCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-AC-AGATATGTAAGAGTCAG
* * *
70455546 TGTAAGACCATGTCTGGGACATGGCATCGGCACATATA-G-AGGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGTCAG
* * * *
70455594 TGTAAGACTATGTCTGGGACATGGCATTGGCAC-G-TATAG-AGGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGATAT-GTAAGAGTCAG
* *
70455642 TGTAAGACCATGTCGGGGACATGGCATCGGCACAGATATGTGAGAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGTC-AG
* * * *
70455692 TGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGAT-TTTAATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTAAGAGTCAG
* * * * *
70455741 TGTAAGACCATGTTTGGGACATGGCATC-G-AC--TTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGAT-ATGTAAGAGTCAG
* * * * * *
70455788 AGTAAGACCATGTCTGGGATATGGCATC-G-AC--TTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGAT-ATGTAAGAGTCAG
*
70455835 AGTAAGACCATGTCTGGGACATGG-ATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
70455864 TATTATACCC
Statistics
Matches: 302, Mismatches: 36, Indels: 49
0.78 0.09 0.13
Matches are distributed among these distances:
44 10 0.03
45 18 0.06
46 23 0.08
47 89 0.29
48 85 0.28
49 37 0.12
50 40 0.13
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGTCAG
Found at i:70455806 original size:47 final size:47
Alignment explanation
Indices: 70455447--70455862 Score: 307
Period size: 48 Copynumber: 8.8 Consensus size: 47
70455437 CACATTATGA
*
70455447 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATTGA-GACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG--GAT
* * * *
70455495 GAGCTAGTGTAAGA-CATGTCTGGAACAT-GCATCGGC-T-ACTAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-TGGAT
* * * * * *
70455539 GTGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATAGAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGGAT
* * * * * * *
70455587 GTGTCAGTGTAAGACTATGTCTGGGACATGGCATTGGCACGT-ATAGAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCG-ACTTGATGGAT
* * * *
70455635 GTGTCAGTGTAAGACCATGTCGGGGACATGGCATCGGCAC-AGATATGTGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTG--ATG-GAT
* * * * **
70455685 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTAAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA--TGGAT
* *
70455735 -AGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
* *
70455781 GAGCCAGAGTAAGACCATGTCTGGGATATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
*
70455828 GAGCCAGAGTAAGACCATGTCTGGGACATGG-ATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
70455863 GTATTATACC
Statistics
Matches: 306, Mismatches: 43, Indels: 40
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.01
44 11 0.04
45 13 0.04
46 19 0.06
47 87 0.28
48 100 0.33
49 35 0.11
50 36 0.12
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
Found at i:70457610 original size:24 final size:24
Alignment explanation
Indices: 70457566--70457611 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
70457556 CGTCAATTCC
* *
70457566 CTATTTTTGATATAATTTTACATT
1 CTATATTTGATATAATCTTACATT
70457590 CTATATTTGAT-TAACTCTTACA
1 CTATATTTGATATAA-TCTTACA
70457612 AGCATTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (24 bp):
CTATATTTGATATAATCTTACATT
Found at i:70459716 original size:24 final size:24
Alignment explanation
Indices: 70459448--70459714 Score: 435
Period size: 24 Copynumber: 11.1 Consensus size: 24
70459438 GCAAAGACCA
*
70459448 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
70459472 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
70459496 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
70459520 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
70459544 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* *
70459568 TATGGCACTAGGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
70459592 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
70459616 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
70459640 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
70459664 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
70459688 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
70459712 TAT
1 TAT
70459715 AGTCACATTC
Statistics
Matches: 232, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 232 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:70468668 original size:19 final size:19
Alignment explanation
Indices: 70468631--70468667 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
70468621 GTTGACCAAA
*
70468631 AATAAATATAATTATTTTT
1 AATAAATATAAATATTTTT
70468650 AATAAATATAAA-ATTTTT
1 AATAAATATAAATATTTTT
70468668 TTTGCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAAATATAAATATTTTT
Found at i:70469564 original size:17 final size:17
Alignment explanation
Indices: 70469539--70469580 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
70469529 TTAAAATTAA
*
70469539 ATAAGAATGGTTATTTT
1 ATAAAAATGGTTATTTT
70469556 ATAAAAATGGTTATTTT
1 ATAAAAATGGTTATTTT
70469573 ATAAAAAT
1 ATAAAAAT
70469581 AAAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (17 bp):
ATAAAAATGGTTATTTT
Found at i:70475379 original size:17 final size:18
Alignment explanation
Indices: 70475346--70475380 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
70475336 AATCATTATA
70475346 CAATTCATCAATCAATTC
1 CAATTCATCAATCAATTC
*
70475364 CAATTC-TCATTCAATTC
1 CAATTCATCAATCAATTC
70475381 AAATATCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (18 bp):
CAATTCATCAATCAATTC
Found at i:70475795 original size:25 final size:26
Alignment explanation
Indices: 70475767--70475824 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
70475757 CTTATTTCAT
* *
70475767 TAAATAAAAAAT-TTTAACAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
70475792 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
70475818 -AAATAAA
1 TAAATAAA
70475825 TATTAAGACA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:70475817 original size:26 final size:24
Alignment explanation
Indices: 70475779--70475827 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
70475769 AATAAAAAAT
* *
70475779 TTTAACAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
70475805 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
70475828 TAAGACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:70475847 original size:21 final size:22
Alignment explanation
Indices: 70475814--70475856 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
70475804 ATTTAAAAAC
* *
70475814 ATAAAAATAAATATTAAGACAA
1 ATAAAAATAAATACTAAAACAA
70475836 ATAAAAAT-AATACTAAAACAA
1 ATAAAAATAAATACTAAAACAA
70475857 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (22 bp):
ATAAAAATAAATACTAAAACAA
Found at i:70476507 original size:20 final size:20
Alignment explanation
Indices: 70476482--70476520 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
70476472 CTAATTACTT
70476482 CTAATTAAAAATAAATTCAC
1 CTAATTAAAAATAAATTCAC
*
70476502 CTAATTAAAAATTAATTCA
1 CTAATTAAAAATAAATTCA
70476521 ACTCACAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
CTAATTAAAAATAAATTCAC
Found at i:70498099 original size:15 final size:15
Alignment explanation
Indices: 70498079--70498111 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
70498069 CTTAGCTAGA
70498079 TTGGTATAGGTATTC
1 TTGGTATAGGTATTC
70498094 TTGGTATAGGTATTC
1 TTGGTATAGGTATTC
70498109 TTG
1 TTG
70498112 TTAGAACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.27, T:0.48
Consensus pattern (15 bp):
TTGGTATAGGTATTC
Found at i:70516523 original size:40 final size:40
Alignment explanation
Indices: 70516488--70516719 Score: 360
Period size: 40 Copynumber: 5.8 Consensus size: 40
70516478 GGATATAGCT
*
70516488 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** *
70516528 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
70516568 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
70516608 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
70516648 ACTAGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
70516688 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
70516720 TTATCATCCG
Statistics
Matches: 176, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 174 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:70520373 original size:28 final size:28
Alignment explanation
Indices: 70520341--70520439 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
70520331 GCAATAAGCC
*
70520341 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
* *
70520369 CGCACACTTAGTGC-TATGTAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
70520397 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
70520426 CGCACACTTAGTGC
1 CGCACACTTAGTGC
70520440 CAATTTGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
27 2 0.03
28 38 0.66
29 17 0.29
30 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:70521811 original size:13 final size:13
Alignment explanation
Indices: 70521793--70521819 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70521783 GCTCGGGAGG
70521793 GACACGCCCGTGT
1 GACACGCCCGTGT
70521806 GACACGCCCGTGT
1 GACACGCCCGTGT
70521819 G
1 G
70521820 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:70523404 original size:20 final size:19
Alignment explanation
Indices: 70523352--70523419 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
70523342 CCAGTAGTTC
70523352 ATCCGTATAACCAATAATTCT
1 ATCCGTATAA-CAATAATT-T
*
70523373 -TCAGTAATAACAATAATTT
1 ATCCGT-ATAACAATAATTT
* * *
70523392 ATCCGTATCAACAGTAAATC
1 ATCCGTAT-AACAATAATTT
70523412 ATCCGTAT
1 ATCCGTAT
70523420 CTATAGTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.08
20 32 0.82
21 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (19 bp):
ATCCGTATAACAATAATTT
Found at i:70523433 original size:20 final size:20
Alignment explanation
Indices: 70523386--70523454 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
70523376 GTAATAACAA
* *
70523386 TAATTTATCCGTATCAACAG
1 TAATTCATCCGTATCAATAG
* *
70523406 TAAATCATCCGTATCTATAG
1 TAATTCATCCGTATCAATAG
* * *
70523426 TAATTCATTCATTTCAATAG
1 TAATTCATCCGTATCAATAG
70523446 TAATTCATC
1 TAATTCATC
70523455 TATTTCAACA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (20 bp):
TAATTCATCCGTATCAATAG
Found at i:70523459 original size:20 final size:20
Alignment explanation
Indices: 70523422--70523462 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
70523412 ATCCGTATCT
70523422 ATAGTAATTCATTCATTTCA
1 ATAGTAATTCATTCATTTCA
70523442 ATAGTAATTCA-TCTATTTCA
1 ATAGTAATTCATTC-ATTTCA
70523462 A
1 A
70523463 CATAGCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAGTAATTCATTCATTTCA
Found at i:70523706 original size:45 final size:45
Alignment explanation
Indices: 70523628--70523765 Score: 163
Period size: 45 Copynumber: 3.0 Consensus size: 45
70523618 CCTGAGCTGA
*
70523628 TGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCCAT-TGAGC
1 TGAACAGTAAGCTCTATTGAGCTAAAACAGTAAGCT-CATATGAGC
* * *
70523673 TGAACAGTAGGCTC-ATATGAGTTAAATCAGTAAGCTCATATGAGC
1 TGAACAGTAAGCTCTAT-TGAGCTAAAACAGTAAGCTCATATGAGC
* * *
70523718 TGAATCAGTAAGCTCTAATGAGCTGAAAATAGTAAGCTCATACGAGC
1 TGAA-CAGTAAGCTCTATTGAGCT-AAAACAGTAAGCTCATATGAGC
70523765 T
1 T
70523766 ATGGTGAGTC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
44 5 0.06
45 38 0.49
46 14 0.18
47 21 0.27
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATTGAGCTAAAACAGTAAGCTCATATGAGC
Found at i:70523764 original size:24 final size:24
Alignment explanation
Indices: 70523632--70523765 Score: 124
Period size: 23 Copynumber: 5.8 Consensus size: 24
70523622 AGCTGATGAA
*
70523632 CAGTAAGCTC-TATTGAGCT-AAAA
1 CAGTAAGCTCATA-TGAGCTGAAAT
*
70523655 CGGTAAGCTCCAT-TGAGCTG-AA-
1 CAGTAAGCT-CATATGAGCTGAAAT
* *
70523677 CAGTAGGCTCATATGAG-TTAAAT
1 CAGTAAGCTCATATGAGCTGAAAT
70523700 CAGTAAGCTCATATGAGCTG-AAT
1 CAGTAAGCTCATATGAGCTGAAAT
70523723 CAGTAAGCTC-TAATGAGCTGAAAAT
1 CAGTAAGCTCAT-ATGAGCTG-AAAT
*
70523748 -AGTAAGCTCATACGAGCT
1 CAGTAAGCTCATATGAGCT
70523766 ATGGTGAGTC
Statistics
Matches: 93, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.04
22 14 0.15
23 53 0.57
24 17 0.18
25 5 0.05
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (24 bp):
CAGTAAGCTCATATGAGCTGAAAT
Found at i:70524594 original size:21 final size:21
Alignment explanation
Indices: 70524547--70524596 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
70524537 AAATCACTTT
*
70524547 ATAAAAC-TTATTAATCTAGC
1 ATAAAACATTAATAATCTAGC
* * *
70524567 TTCAAACATTAATAATCTATC
1 ATAAAACATTAATAATCTAGC
70524588 ATAAAACAT
1 ATAAAACAT
70524597 CTAAAAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAAACATTAATAATCTAGC
Found at i:70525727 original size:43 final size:43
Alignment explanation
Indices: 70525631--70525797 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
70525621 ATCGAGATGT
* **
70525631 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTGTTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
*
70525674 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT--TGTAATGA
** * * * * * *
70525717 GATTTTGTGTAAGACCCTGTCTGGAATAGTGGCATCGGT-ATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT-TGTAATGA
* * * *
70525760 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTA
70525798 CAAGTTTATG
Statistics
Matches: 98, Mismatches: 21, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 85 0.87
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
Found at i:70527375 original size:48 final size:48
Alignment explanation
Indices: 70527059--70527373 Score: 427
Period size: 48 Copynumber: 6.6 Consensus size: 48
70527049 AAATGTGCAT
* * * **
70527059 GTGTAAGAACATGTCTGGGA-TTGGCATTGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
**
70527106 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
* *
70527154 GTGTAAGACCATGTTTGGGACATGCCATCGACGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
* * *
70527202 GTGTAAGACCATGTCTGGGGCATGACATCAACGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
* *
70527250 GTGTAAGACCATGTCTGGGACATAGCATCGGCGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
* * *
70527298 GTGTAAGACCATGTCTGGGACATGGCATTGACGATGATATGTGGAGTC-
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGT-GTGCCA
* * *
70527346 TTGTAAGACCATATCGGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
70527374 TGGTACTTTA
Statistics
Matches: 242, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
47 19 0.08
48 220 0.91
49 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
Found at i:70537740 original size:40 final size:40
Alignment explanation
Indices: 70537638--70537804 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
70537628 AAATTGAATG
* * * * *
70537638 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
70537678 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
70537718 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* * *
70537758 CTATCCGGGCT-AGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTAATT
70537797 ATATCCGG
1 ATATCCGG
70537805 TTATATTCCA
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.29
40 74 0.70
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:70546492 original size:38 final size:38
Alignment explanation
Indices: 70546449--70546587 Score: 134
Period size: 38 Copynumber: 3.4 Consensus size: 38
70546439 TTTCAAATTA
70546449 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
70546487 ACATGTTTAACCGTGGTATATCCACTTAGCACTATGCTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
70546528 GAATCAATATATGTAACCGTGGCATATCCACTTGGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
*
70546572 ACATGTTTAACCGTGG
1 ACATGTATAACCGTGG
70546588 TTTTCTCATT
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
38 41 0.51
39 1 0.01
40 3 0.04
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 25 0.31
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:70554855 original size:31 final size:31
Alignment explanation
Indices: 70554817--70554879 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
70554807 TCGTGACAGG
70554817 TAAGTTTTAAATATTTATAATTAATCATTCT
1 TAAGTTTTAAATATTTATAATTAATCATTCT
*
70554848 TAAGTTTTAAATATTTATAATTAATCGTTCT
1 TAAGTTTTAAATATTTATAATTAATCATTCT
70554879 T
1 T
70554880 GAAACTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (31 bp):
TAAGTTTTAAATATTTATAATTAATCATTCT
Found at i:70565130 original size:13 final size:13
Alignment explanation
Indices: 70565112--70565136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70565102 TGGTTGTGTA
70565112 AAGGACACGGGCC
1 AAGGACACGGGCC
70565125 AAGGACACGGGC
1 AAGGACACGGGC
70565137 ATGTGCCCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:70568440 original size:24 final size:26
Alignment explanation
Indices: 70568413--70568461 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
70568403 AGTTCATGCA
70568413 ATATTAAAGC-ATTTAA-ATACAATT
1 ATATTAAAGCTATTTAACATACAATT
70568437 ATATTAAAGCTTATTTAACATACAA
1 ATATTAAAGC-TATTTAACATACAA
70568462 ACTTACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAATT
Found at i:70574574 original size:69 final size:69
Alignment explanation
Indices: 70574463--70574597 Score: 261
Period size: 69 Copynumber: 2.0 Consensus size: 69
70574453 CATATGGCCT
70574463 GTTCACATTGGCGTGTGACCTTTGAAACTTTAAAAATTTTGTTAACTTTTTGAGAAAATTTGTAT
1 GTTCACATTGGCGTGTGACCTTTGAAACTTTAAAAATTTTGTTAACTTTTTGAGAAAATTTGTAT
70574528 GCCA
66 GCCA
*
70574532 GTTCACATTGGCGTGTGACCTTTGAAACTTTAAAAATTTTGTTAAGTTTTTGAGAAAATTTGTAT
1 GTTCACATTGGCGTGTGACCTTTGAAACTTTAAAAATTTTGTTAACTTTTTGAGAAAATTTGTAT
70574597 G
66 G
70574598 TGCTCGGTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (69 bp):
GTTCACATTGGCGTGTGACCTTTGAAACTTTAAAAATTTTGTTAACTTTTTGAGAAAATTTGTAT
GCCA
Found at i:70591442 original size:41 final size:41
Alignment explanation
Indices: 70591385--70591671 Score: 448
Period size: 41 Copynumber: 7.0 Consensus size: 41
70591375 TAAAAGCCAC
* * *
70591385 CGGTGGATCCATGATCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* **
70591426 CGGTGGATCCACGATCGTCAAGCAACCATGTAATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
70591467 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* * *
70591508 TGGTGGATCCACGGTCATCAAGCAACCATGTGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
70591549 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
70591590 CGGTGGATCTACGGTCGTCAAGCAACCATGTGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
70591631 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
70591672 TTCTTCCTCC
Statistics
Matches: 224, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 224 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:70591529 original size:82 final size:82
Alignment explanation
Indices: 70591385--70591667 Score: 494
Period size: 82 Copynumber: 3.5 Consensus size: 82
70591375 TAAAAGCCAC
* * *
70591385 CGGTGGATCCATGATCGTCAAGCAACCATGCGATCCTTAATCGGTGGATCCACGATCGTCAAGCA
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGGTGGATCCACGGTCGTCAAGCA
*
70591450 ACCATGTAATCCTCAAT
66 ACCATGTGATCCTCAAT
* *
70591467 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATTGGTGGATCCACGGTCATCAAGCA
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGGTGGATCCACGGTCGTCAAGCA
70591532 ACCATGTGATCCTCAAT
66 ACCATGTGATCCTCAAT
*
70591549 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGGTGGATCTACGGTCGTCAAGCA
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGGTGGATCCACGGTCGTCAAGCA
70591614 ACCATGTGATCCTCAAT
66 ACCATGTGATCCTCAAT
*
70591631 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
70591668 CAATTTCTTC
Statistics
Matches: 191, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 191 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (82 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGGTGGATCCACGGTCGTCAAGCA
ACCATGTGATCCTCAAT
Found at i:70592044 original size:27 final size:27
Alignment explanation
Indices: 70591929--70592391 Score: 263
Period size: 27 Copynumber: 17.0 Consensus size: 27
70591919 TTGGTAAATC
* * *
70591929 TACAAACCAAGGGGATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *
70591956 TACAAA-CAAATAGAATTTCTGTAATTT
1 TACAAATC-AAGGGTATTTCTGTAATTT
** *
70591983 TTGAAAGTCAAGGGTATTTTTGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
** *
70592011 TGTAAAT-TAGAGGTATTTCTGTAATTT
1 TACAAATCAAG-GGTATTTCTGTAATTT
* * * *
70592038 TCCAAATCAAGAGTATTTCGGTAAATT
1 TACAAATCAAGGGTATTTCTGTAATTT
* ** *
70592065 TACAAACCAATTGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *
70592092 TTGAAAGTCAAGGGTATGTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
** * * *
70592120 TGTAAATTAGGGGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** * * *
70592147 TTGAAAGTTAAGGGTATTTTTGAGAATTT
1 TACAAA-TCAAGGGTATTTCTG-TAATTT
*
70592176 TCCAAATCAAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
*
70592203 TACAAATCAAGAGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* ** * *
70592230 TATAGGTCGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
*
70592257 TACAAATCAAGGGTAATTTTCGGTAATTT
1 TACAAATCAAGGGT-A-TTTCTGTAATTT
** * ** *
70592286 TGTAAACCAAGGGTATTTCAATAATTC
1 TACAAATCAAGGGTATTTCTGTAATTT
** * *
70592313 TACCCTAT-AGGGGCATTT-TGGTAATTT
1 TA-CAAATCAAGGGTATTTCT-GTAATTT
* * *
70592340 TACAAACCAGGGGTA-TTCAGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** * *
70592366 TGTAAACCAAGGGTATTTCAGTAATT
1 TACAAATCAAGGGTATTTCTGTAATT
70592392 CTACCCTATA
Statistics
Matches: 334, Mismatches: 85, Indels: 34
0.74 0.19 0.08
Matches are distributed among these distances:
26 27 0.08
27 203 0.61
28 72 0.22
29 32 0.10
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:70592071 original size:109 final size:109
Alignment explanation
Indices: 70591943--70592147 Score: 329
Period size: 109 Copynumber: 1.9 Consensus size: 109
70591933 AACCAAGGGG
* * * *
70591943 ATTTCGGTAATTTTACAAACAAATAGAATTTCTGTAATTTTTGAAAGTCAAGGGTATTTTTGTAA
1 ATTTCGGTAAATTTACAAACAAATAGAATTTCTATAATTTTTGAAAGTCAAGGGTATGTCTGTAA
70592008 TTTTGTAAATTAGAGGTATTTCTGTAATTTTCCAAATCAAGAGT
66 TTTTGTAAATTAGAGGTATTTCTGTAATTTTCCAAATCAAGAGT
* * *
70592052 ATTTCGGTAAATTTACAAACCAATTGTATTTCTATAATTTTTGAAAGTCAAGGGTATGTCTGTAA
1 ATTTCGGTAAATTTACAAACAAATAGAATTTCTATAATTTTTGAAAGTCAAGGGTATGTCTGTAA
* *
70592117 TTTTGTAAATTAGGGGTATTTTTGTAATTTT
66 TTTTGTAAATTAGAGGTATTTCTGTAATTTT
70592148 TGAAAGTTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
109 87 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (109 bp):
ATTTCGGTAAATTTACAAACAAATAGAATTTCTATAATTTTTGAAAGTCAAGGGTATGTCTGTAA
TTTTGTAAATTAGAGGTATTTCTGTAATTTTCCAAATCAAGAGT
Found at i:70592081 original size:54 final size:55
Alignment explanation
Indices: 70591943--70592231 Score: 165
Period size: 55 Copynumber: 5.3 Consensus size: 55
70591933 AACCAAGGGG
* ** *
70591943 ATTTCGGTAATTTTACAAACAAATAGAATTTCTGTAATTTTTGAAAGTCAAGGGT
1 ATTTCGGTAATTTTACAAACAAATAGTATTTCTGTAATTTTCCAAAGTCAAGAGT
** ** * * *
70591998 ATTTTTGTAATTTTGTAAATTAGA-GGTATTTCTGTAATTTTCCAAA-TCAAGAGT
1 ATTTCGGTAATTTTACAAA-CAAATAGTATTTCTGTAATTTTCCAAAGTCAAGAGT
* * * * ** *
70592052 ATTTCGGTAAATTTACAAACCAATTGTATTTCTATAATTTTTGAAAGTCAAGGGT
1 ATTTCGGTAATTTTACAAACAAATAGTATTTCTGTAATTTTCCAAAGTCAAGAGT
* * ** ** *** * ** * *
70592107 ATGTCTGTAATTTTGTAAATTAGGGGTATTTTTGTAATTTTTGAAAGTTAAGGGT
1 ATTTCGGTAATTTTACAAACAAATAGTATTTCTGTAATTTTCCAAAGTCAAGAGT
* * ** *
70592162 ATTTTTGAG-AATTTTCCAAATC-AAGGGTATTTCTGTAATTTTACAAA-TCAAGAGT
1 A-TTTCG-GTAATTTTACAAA-CAAATAGTATTTCTGTAATTTTCCAAAGTCAAGAGT
*
70592217 ATTTCGATAATTTTA
1 ATTTCGGTAATTTTA
70592232 TAGGTCGAGG
Statistics
Matches: 175, Mismatches: 52, Indels: 15
0.72 0.21 0.06
Matches are distributed among these distances:
53 1 0.01
54 49 0.28
55 90 0.51
56 34 0.19
57 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (55 bp):
ATTTCGGTAATTTTACAAACAAATAGTATTTCTGTAATTTTCCAAAGTCAAGAGT
Found at i:70592311 original size:110 final size:110
Alignment explanation
Indices: 70591929--70592311 Score: 319
Period size: 109 Copynumber: 3.5 Consensus size: 110
70591919 TTGGTAAATC
* * * ** * * **
70591929 TACAAACCAAGGGGA-TTTCGGTAATTTTACAAACAAATAGAATTTCTGTAATTTTTGAAAGTCA
1 TACAAATCAAGGGTATTTTCGGTAATTTTACAAACCAAGGGTATTTCTATAATTTTACAAAGTCA
* * * * * *
70591993 AGGGTATTTTTGTAATTTTGTAAATTAGAGGTATTTCTGTAATTT
66 AGAGTATGTCTGTAATTTTATAAATGAGGGGTATTTCTGTAATTT
* * * ** **
70592038 TCCAAATCAAGAGTA-TTTCGGTAAATTTACAAACCAATTGTATTTCTATAATTTTTGAAAGTCA
1 TACAAATCAAGGGTATTTTCGGTAATTTTACAAACCAAGGGTATTTCTATAATTTTACAAAGTCA
* * * *
70592102 AGGGTATGTCTGTAATTTTGTAAATTAGGGGTATTTTTGTAATTT
66 AGAGTATGTCTGTAATTTTATAAATGAGGGGTATTTCTGTAATTT
** * * * * *
70592147 TTGAAAGTTAAGGGTATTTTTGAG-AATTTTCCAAATCAAGGGTATTTCTGTAATTTTACAAA-T
1 TACAAA-TCAAGGGTATTTTCG-GTAATTTTACAAACCAAGGGTATTTCTATAATTTTACAAAGT
* ** *
70592210 CAAGAGTATTTC-GATAATTTTATAGGTCGA-GGGTATTTCAGTAATTT
64 CAAGAGTATGTCTG-TAATTTTATAAAT-GAGGGGTATTTCTGTAATTT
** *
70592257 TACAAATCAAGGGTAATTTTCGGTAATTTTGTAAACCAAGGGTATTTCAATAATT
1 TACAAATCAAGGGT-ATTTTCGGTAATTTTACAAACCAAGGGTATTTCTATAATT
70592312 CTACCCTATA
Statistics
Matches: 224, Mismatches: 43, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
109 109 0.49
110 79 0.35
111 35 0.16
112 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.40
Consensus pattern (110 bp):
TACAAATCAAGGGTATTTTCGGTAATTTTACAAACCAAGGGTATTTCTATAATTTTACAAAGTCA
AGAGTATGTCTGTAATTTTATAAATGAGGGGTATTTCTGTAATTT
Found at i:70592410 original size:27 final size:27
Alignment explanation
Indices: 70592380--70592471 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
70592370 AACCAAGGGT
70592380 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* * *
70592407 ATTTCAGTAATTCTATCCTACAGAGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
70592434 ATTTTAGTAATTCTACCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTATAGGGGC
70592461 ATTTCAGTAAT
1 ATTTCAGTAAT
70592472 ACTAGCATAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGGGGC
Found at i:70592417 original size:80 final size:82
Alignment explanation
Indices: 70592244--70592418 Score: 273
Period size: 80 Copynumber: 2.1 Consensus size: 82
70592234 GGTCGAGGGT
* *
70592244 ATTTCAGTAATTTTACAAATCAAGGGTAATTTTCGGTAATTTTGTAAACCAAGGGTATTTCAATA
1 ATTTCAGTAATTTTACAAACCAAGGGTAA-TTTCAGTAATTTTGTAAACCAAGGGTATTTCAATA
70592309 ATTCTACCCTATAGGGGC
65 ATTCTACCCTATAGGGGC
** * *
70592327 ATTTTGGTAATTTTACAAACCAGGGGT-A-TTCAGTAATTTTGTAAACCAAGGGTATTTCAGTAA
1 ATTTCAGTAATTTTACAAACCAAGGGTAATTTCAGTAATTTTGTAAACCAAGGGTATTTCAATAA
70592390 TTCTACCCTATAGGGGC
66 TTCTACCCTATAGGGGC
70592407 ATTTCAGTAATT
1 ATTTCAGTAATT
70592419 CTATCCTACA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
80 60 0.71
82 1 0.01
83 23 0.27
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (82 bp):
ATTTCAGTAATTTTACAAACCAAGGGTAATTTCAGTAATTTTGTAAACCAAGGGTATTTCAATAA
TTCTACCCTATAGGGGC
Found at i:70602369 original size:49 final size:49
Alignment explanation
Indices: 70602297--70602396 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
70602287 AAAATTTCGA
70602297 TACCATGAATTGAGTAGTTTTGTGTAGGTTAAAGGTTAAGAATATCTTG
1 TACCATGAATTGAGTAGTTTTGTGTAGGTTAAAGGTTAAGAATATCTTG
*
70602346 TACCATGAATTGAGTAGTTTTGTGTAGGTTAAAGGTTGAGAATATCTTG
1 TACCATGAATTGAGTAGTTTTGTGTAGGTTAAAGGTTAAGAATATCTTG
70602395 TA
1 TA
70602397 GGTAAATAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (49 bp):
TACCATGAATTGAGTAGTTTTGTGTAGGTTAAAGGTTAAGAATATCTTG
Found at i:70603705 original size:18 final size:18
Alignment explanation
Indices: 70603693--70603743 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
70603683 AAAAAGATAG
70603693 AATAAAATTAAAATTAAA
1 AATAAAATTAAAATTAAA
*
70603711 ATTAAAATTAAAATTAAA
1 AATAAAATTAAAATTAAA
*
70603729 CATAAAGA-TAAAATT
1 AATAAA-ATTAAAATT
70603744 TATTTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AATAAAATTAAAATTAAA
Found at i:70603706 original size:6 final size:6
Alignment explanation
Indices: 70603695--70603728 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
70603685 AAAGATAGAA
70603695 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
70603729 CATAAAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:70605246 original size:30 final size:30
Alignment explanation
Indices: 70605210--70605269 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
70605200 TTCCCGAGCC
70605210 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
70605240 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
70605270 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:70613551 original size:47 final size:47
Alignment explanation
Indices: 70613484--70613780 Score: 522
Period size: 47 Copynumber: 6.3 Consensus size: 47
70613474 CCCTTCGGGA
* * *
70613484 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
70613531 CTTATCACATATATAGACTTTCACATTCATCACCTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
70613578 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
70613625 CTTATCACATATATACACTTTCACATTCATAACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
70613672 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
70613719 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
70613766 CTTATCACATATATA
1 CTTATCACATATATA
70613781 TATCTTGTAC
Statistics
Matches: 240, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 240 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:70619490 original size:27 final size:27
Alignment explanation
Indices: 70619432--70619826 Score: 222
Period size: 27 Copynumber: 14.6 Consensus size: 27
70619422 TTAGTTTACC
* * * *
70619432 AAATTACTAAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
70619459 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
70619486 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
70619513 GAATTACCATTTTACCCTCGATTTTATA
1 AAATTACCAAAATACCCTCGA-TTTATA
* ***** * * *
70619541 GAATTACTGTTTTACCCTTGATTCACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** *
70619568 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
70619595 AAATTACTAAAATACCATCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
70619622 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* * *
70619649 AAATTACCAAAATACCCTAG-TCTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * * * *
70619675 AAATTGCTAAAATATCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
70619702 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
70619729 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
70619756 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCGATTTATA
* * * *
70619783 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
70619810 AAATTATCAAAATACCC
1 AAATTACCAAAATACCC
70619827 CTAATTTACA
Statistics
Matches: 305, Mismatches: 55, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
26 24 0.08
27 256 0.84
28 25 0.08
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:70619558 original size:55 final size:55
Alignment explanation
Indices: 70619471--70619591 Score: 181
Period size: 55 Copynumber: 2.2 Consensus size: 55
70619461 ATTACCAAAG
* *
70619471 TACCCTCGA-TTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTTATAGAATTACCGTTTTACCCTCGATTCACAGAATTACCATTT
* * **
70619525 TACCCTCGATTTTATAGAATTACTGTTTTACCCTTGATTCACAGAATTACTGTTT
1 TACCCTCGATTTTATAGAATTACCGTTTTACCCTCGATTCACAGAATTACCATTT
70619580 TACCCTCGATTT
1 TACCCTCGATTT
70619592 ACAAAATTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 9 0.15
55 51 0.85
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (55 bp):
TACCCTCGATTTTATAGAATTACCGTTTTACCCTCGATTCACAGAATTACCATTT
Found at i:70619794 original size:81 final size:81
Alignment explanation
Indices: 70619621--70619829 Score: 296
Period size: 81 Copynumber: 2.6 Consensus size: 81
70619611 ATCGATTTAC
* * ** * *
70619621 AAAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATA-CCCTAGTCTGTAAAATTGCTAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAA
*
70619685 AATATCCTTGGTTTGT
66 AATATCCCTGGTTTGT
*
70619701 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAA
70619766 AATA-CCACTGGTTTGT
66 AATATCC-CTGGTTTGT
* * *
70619782 GAAATTATCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCCTA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTA
70619830 ATTTACAAAG
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
80 40 0.34
81 76 0.66
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAA
AATATCCCTGGTTTGT
Found at i:70619849 original size:54 final size:55
Alignment explanation
Indices: 70619615--70619854 Score: 155
Period size: 54 Copynumber: 4.5 Consensus size: 55
70619605 AATACCATCG
* **
70619615 ATTTACAAAATTACCA-AAATACCCTC-GATCAGTAAAATTACCAAAATA-CCCTA
1 ATTTAC-AAATTACCAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
* * * * ** *
70619668 GTCTGTA-AAATTGCTA-AAATATCCT-TGGTTTGTAAAATTACCGAAATA-CCCTCA
1 AT-T-TACAAATTACCAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCT-A
* * *
70619722 ATTTGTA-AAATTACCA-AAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTG
1 A-TT-TACAAATTACCAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
* ** * *
70619776 GTTTGTGAAATTATC-GAAATACCCTC-AATTTGTAAAATTATCAAAATACCCCTA
1 ATTT-ACAAATTACCAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
70619830 ATTTACAAAGTTA-CAGAAATACCCT
1 ATTTACAAA-TTACCAGAAATACCCT
70619855 TGACTTTCTA
Statistics
Matches: 148, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
52 1 0.01
53 44 0.30
54 96 0.65
55 7 0.05
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (55 bp):
ATTTACAAATTACCAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
Found at i:70619850 original size:81 final size:81
Alignment explanation
Indices: 70619588--70619852 Score: 277
Period size: 81 Copynumber: 3.3 Consensus size: 81
70619578 TTTACCCTCG
* * ** * * **
70619588 ATTTACAAAATTACTAAAATACCA-TCGATTTACAAAATTACCAAAATACCCTCGATCAGTAAAA
1 ATTTACAAAATTACCAAAATACCACT-GGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAA
70619652 TTACCAAAATA-CCCTA
65 TTACCAAAATACCCCTA
* * ** * * *
70619668 GTCTGTAAAATTGCTAAAATATCC-TTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAA
1 ATTTACAAAATTACCAAAATA-CCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAA
70619732 TTACCAAAATACCCCTA
65 TTACCAAAATACCCCTA
* ** * *
70619749 GTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAAT
1 ATTTACAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
*
70619814 TATCAAAATACCCCTA
66 TACCAAAATACCCCTA
*
70619830 ATTTACAAAGTTA-CAGAAATACC
1 ATTTACAAAATTACCA-AAATACC
70619853 CTTGACTTTC
Statistics
Matches: 157, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
80 62 0.39
81 95 0.61
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
ATTTACAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
TACCAAAATACCCCTA
Found at i:70620000 original size:27 final size:27
Alignment explanation
Indices: 70619970--70620061 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
70619960 ACCCCTATTA
*
70619970 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
70619997 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
70620024 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
70620051 GGTAAAATGAC
1 GGTAAAATGAC
70620062 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:70620972 original size:25 final size:26
Alignment explanation
Indices: 70620862--70621008 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
70620852 GAGGAAGTGC
*
70620862 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
70620888 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
70620914 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
70620940 AAAA-GGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
70620964 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
70620989 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
70621009 ATTAAAGAGG
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
24 18 0.16
25 45 0.40
26 50 0.44
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:70620998 original size:50 final size:51
Alignment explanation
Indices: 70620862--70621008 Score: 244
Period size: 50 Copynumber: 2.9 Consensus size: 51
70620852 GAGGAAGTGC
* *
70620862 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATCG
70620914 AAAAGGGCTTATGCCCCAGTTTACCGAAAA-GGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCG
*
70620964 AAAAGGGCTT-TGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
70621009 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
49 18 0.20
50 38 0.42
51 5 0.05
52 30 0.33
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCG
Found at i:70621200 original size:42 final size:42
Alignment explanation
Indices: 70621153--70621244 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
70621143 TAGTCTCCCC
* ** *
70621153 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
70621195 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
70621237 AAATGGGC
1 AAATGGGC
70621245 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:70622588 original size:15 final size:15
Alignment explanation
Indices: 70622563--70622599 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
70622553 CACCCCAAAT
70622563 TTGGG-CTAGAAGTA
1 TTGGGCCTAGAAGTA
70622577 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
70622592 TTGGGCCT
1 TTGGGCCT
70622600 TGAGTGGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.30
Consensus pattern (15 bp):
TTGGGCCTAGAAGTA
Found at i:70623645 original size:27 final size:27
Alignment explanation
Indices: 70623591--70623720 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
70623581 ATTACCAAAG
* **
70623591 TACCCTCGATTTATAG-ATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
70623617 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
70623644 TACCCTC-ATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
70623670 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
70623697 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
70623721 AAATACCATC
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 39 0.42
27 53 0.58
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:70623692 original size:53 final size:54
Alignment explanation
Indices: 70623591--70623720 Score: 192
Period size: 53 Copynumber: 2.4 Consensus size: 54
70623581 ATTACCAAAG
**
70623591 TACCCTCGATTTATAG-ATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
* *
70623644 TACCCTC-ATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
* *
70623697 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTACTA
70623721 AAATACCATC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 8 0.12
53 47 0.68
54 14 0.20
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
Found at i:70623727 original size:27 final size:27
Alignment explanation
Indices: 70623697--70623971 Score: 229
Period size: 27 Copynumber: 10.2 Consensus size: 27
70623687 ATTACTGTTT
* *
70623697 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
70623724 TACCATCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
70623751 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
70623778 TACCCTAG-TTTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
70623804 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
70623831 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
70623858 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
70623885 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
70623912 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
70623939 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
70623966 TACCCT
1 TACCCT
70623972 TGACTTTTAA
Statistics
Matches: 205, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
26 28 0.14
27 176 0.86
28 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:70623755 original size:54 final size:54
Alignment explanation
Indices: 70623697--70624023 Score: 215
Period size: 54 Copynumber: 6.1 Consensus size: 54
70623687 ATTACTGTTT
* *
70623697 TACCCTCGATTTACAAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
* * * ** * *
70623751 TACCCTCGA-TCAGTAAAATTACCAAAATACCCT-AGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
* * * * * ** **
70623804 TACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
* * *** *
70623858 TACCC-CTAGTTTGTAAAATTACCAAAATACCA-CTGGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACCATC-GGTTTACAAAATTACCAAAA
* * * * *
70623912 TACCCTCAATTTGTAAAATTACCAAAATACC-CCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCATC-GGTTTACAAAATTACCA-AAA
* ** * *
70623966 TACCCTTGACTTT-TAAAAATTA-TGAAATA-CATTGGTTTACAAAATTA-CTAAA
1 TACCCTCGA-TTTAT-AAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
70624018 TACCCT
1 TACCCT
70624024 TGGTTTGTAG
Statistics
Matches: 220, Mismatches: 42, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
52 9 0.04
53 59 0.27
54 140 0.64
55 12 0.05
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
Found at i:70623905 original size:81 final size:81
Alignment explanation
Indices: 70623711--70623945 Score: 350
Period size: 81 Copynumber: 2.9 Consensus size: 81
70623701 CTCGATTTAC
** * * **
70623711 AAAATTACTAAAATACCA-TCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCACT-GGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
70623775 AAATA-CCCTAGTTTGT
65 AAATACCCCTAGTTTGT
*
70623791 AAAATTGCTAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACTAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
70623855 AAATACCCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* *
70623872 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
70623937 AATACCCCT
66 AATACCCCT
70623946 GATTTACAAA
Statistics
Matches: 141, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
80 59 0.42
81 81 0.57
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTGT
Found at i:70623995 original size:81 final size:80
Alignment explanation
Indices: 70623711--70623973 Score: 336
Period size: 81 Copynumber: 3.2 Consensus size: 80
70623701 CTCGATTTAC
* * ** * * **
70623711 AAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTAC-AAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
70623776 AATA-CCCTAGTTTGT
65 AATACCCCTAGTTTGT
*
70623791 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTAC-AAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
70623856 AATACCCCTAGTTTGT
65 AATACCCCTAGTTTGT
*
70623872 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTA-CAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
*
70623936 AAATACCCCT-GATT-T
64 AAATACCCCTAGTTTGT
70623951 ACAAAGTTACAGAAATACCCTTG
1 A-AAA-TTACA-AAATACCCTTG
70623974 ACTTTTAAAA
Statistics
Matches: 164, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
79 2 0.01
80 69 0.42
81 91 0.55
82 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTTTGT
Found at i:70624012 original size:25 final size:25
Alignment explanation
Indices: 70623977--70624029 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
70623967 ACCCTTGACT
70623977 TTTAAAAATTA-TGAAATA-CATTGG
1 TTTAAAAATTACT-AAATACCATTGG
*
70624001 TTTACAAAATTACTAAATACCCTTGG
1 TTTA-AAAATTACTAAATACCATTGG
70624027 TTT
1 TTT
70624030 GTAGATTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 12 0.48
26 9 0.36
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (25 bp):
TTTAAAAATTACTAAATACCATTGG
Found at i:70624112 original size:26 final size:26
Alignment explanation
Indices: 70624083--70624172 Score: 110
Period size: 26 Copynumber: 3.4 Consensus size: 26
70624073 ACCCCTATTA
*
70624083 GGTAAAAAGACCGTAAAGCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCTGTAG
*
70624109 GGTAAAGTGA-CGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAG-CCCTGTAG
* * *
70624135 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCTGTAG
70624162 GGTAAAATGAC
1 GGTAAAATGAC
70624173 GAATATGCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.12
26 26 0.46
27 22 0.39
28 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGTAAAGCCCTGTAG
Found at i:70624157 original size:27 final size:26
Alignment explanation
Indices: 70624091--70624172 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
70624081 TAGGTAAAAA
*
70624091 GACCGTAAAGCCCTGTAGGGTAAAGT
1 GACCGTAAACCCCTGTAGGGTAAAGT
70624117 GA-CGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAA-CCCCTGTAGGGTAAAGT
* *
70624143 GACCGTAATACCCCTGTATGGTAAAAT
1 GACCGTAA-ACCCCTGTAGGGTAAAGT
70624170 GAC
1 GAC
70624173 GAATATGCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
25 6 0.12
26 20 0.40
27 23 0.46
28 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (26 bp):
GACCGTAAACCCCTGTAGGGTAAAGT
Found at i:70624998 original size:26 final size:25
Alignment explanation
Indices: 70624969--70625065 Score: 140
Period size: 25 Copynumber: 3.8 Consensus size: 25
70624959 GAGGAAGTGC
* *
70624969 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTATCG
* *
70624995 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATCG
70625021 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
70625046 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
70625066 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 33 0.51
26 32 0.49
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:70625048 original size:51 final size:51
Alignment explanation
Indices: 70624969--70625077 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
70624959 GAGGAAGTGC
*
70624969 AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
* *
70625021 AAAAGGGCTT-TGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
*
70625069 AAAGAGGCT
1 AAAAAGGCT
70625078 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 7 0.13
49 5 0.10
50 7 0.13
51 24 0.46
52 9 0.17
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Done.