Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 209 of 279
Found at i:68256279 original size:31 final size:31
Alignment explanation
Indices: 68256236--68256318 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
68256226 GAACTAGAAT
*
68256236 CAAAATGAGAATCAGAATCAGAATCAGGTGA
1 CAAAATAAGAATCAGAATCAGAATCAGGTGA
* * *
68256267 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAAAATAAGAATCAGAATCAGAATCAGGTGA
* *
68256298 CAAAATAAGAATTAGTATCAG
1 CAAAATAAGAATCAGAATCAG
68256319 GTAACAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.19
Consensus pattern (31 bp):
CAAAATAAGAATCAGAATCAGAATCAGGTGA
Found at i:68256750 original size:22 final size:23
Alignment explanation
Indices: 68256722--68256783 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
68256712 GCAAATACGT
*
68256722 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAGCCATAATGTAGG
* *
68256744 TTGGCACAGAGCCGT-ATGTAGG
1 TTGGCACAAAGCCATAATGTAGG
*
68256766 TTGGCGCAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
68256784 CAGAATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGTAGG
Found at i:68257204 original size:27 final size:27
Alignment explanation
Indices: 68257174--68257314 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
68257164 GGGCAAAATG
* * * *
68257174 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
68257201 GTAATTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
68257227 GATATTTCTACCCTACAAGGGTATTT-A
1 G-TAATTCTACCCTACAAGGGTATTTCA
*
68257254 GGTAATTCTAACCTACAAGGGTATTTC-
1 -GTAATTCTACCCTACAAGGGTATTTCA
68257281 GATAATTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
68257309 GTAATT
1 GTAATT
68257315 TTGTAAATCA
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.02
27 96 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:68257263 original size:54 final size:54
Alignment explanation
Indices: 68257175--68257314 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
68257165 GGCAAAATGG
* * * * *
68257175 TAATTTTACCCCATAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACCTACAAGGGTATTTCGA
*
68257229 TATTTCTACCCTACAAGGGTATTT-AGGTAATTCTAACCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCA-GTAATTCTAACCTACAAGGGTATTTCGA
68257283 TAATTCTACCCTACAAGGGTATTTCAGTAATT
1 TAATTCTACCCTACAAGGGTATTTCAGTAATT
68257315 TTGTAAATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 75 0.97
55 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACCTACAAGGGTATTTCGA
Found at i:68257338 original size:54 final size:54
Alignment explanation
Indices: 68257175--68257344 Score: 141
Period size: 54 Copynumber: 3.1 Consensus size: 54
68257165 GGCAAAATGG
* * * * * * ***
68257175 TAATTTTACCCCATAAGGGTATCTCA-GTAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTAT-TTAGGTAATTCTAACATACAAGGGTAAAACGA
* * ***
68257229 TATTTCTACCCTACAAGGGTATTTAGGTAATTCTAACCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTAGGTAATTCTAACATACAAGGGTAAAACGA
*
68257283 TAATTCTACCCTACAAGGGTATTTCA-GTAATTTTGTAA-AT-CAAGGGTAAAACGA
1 TAATTCTACCCTACAAGGGTATTT-AGGTAA--TTCTAACATACAAGGGTAAAACGA
68257337 TAATTCTA
1 TAATTCTA
68257345 TAAATTGGGG
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.02
54 91 0.91
55 2 0.02
56 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTAGGTAATTCTAACATACAAGGGTAAAACGA
Found at i:68257383 original size:27 final size:25
Alignment explanation
Indices: 68257353--68257611 Score: 187
Period size: 27 Copynumber: 9.7 Consensus size: 25
68257343 TATAAATTGG
*
68257353 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-TC-A
** *
68257380 GGGTATTTCAGTAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-ATC-A
* *
68257407 GGGTATTTTAGTAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTAC-AATCA
*
68257433 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAATC-A
*
68257460 GGTGTATTTTGGTAATTTTACAAACA
1 GG-GTATTTTGGTAATTTTACAATCA
* *
68257486 TGGGTATTTTGGTAATTTTATAAACCAA
1 -GGGTATTTTGGTAATTTTA-CAATC-A
* * *
68257514 TGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTAC-AA-TCA
* *
68257541 GTGTATTTTGGTAATTTTGTA-AACCAA
1 GGGTATTTTGGTAA-TTT-TACAATC-A
* *
68257568 GGGTATTTTGATAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTAC-AATCA
*
68257594 GGGGTATTTTGGTGATTT
1 -GGGTATTTTGGTAATTT
68257612 GGTATACTAA
Statistics
Matches: 190, Mismatches: 26, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
25 2 0.01
26 28 0.15
27 153 0.81
28 5 0.03
29 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (25 bp):
GGGTATTTTGGTAATTTTACAATCA
Found at i:68257531 original size:80 final size:81
Alignment explanation
Indices: 68257406--68257603 Score: 281
Period size: 80 Copynumber: 2.5 Consensus size: 81
68257396 TTACAGGTCG
* * * * *
68257406 AGGGTATTTTAGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAAACTAGGTGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTAGTAATTTTACAAACTAAGTGTATTTTG
68257471 GTAATTTTACAAA-CA
66 GTAATTTTACAAACCA
* * *
68257486 TGGGTATTTTGGTAATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAAGTGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTAGTAATTTTACAAACTAAGTGTATTTTG
**
68257551 GTAATTTTGTAAACCA
66 GTAATTTTACAAACCA
* *
68257567 AGGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTT
68257604 GGTGATTTGG
Statistics
Matches: 102, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 68 0.67
81 34 0.33
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTAGTAATTTTACAAACTAAGTGTATTTTG
GTAATTTTACAAACCA
Found at i:68257531 original size:134 final size:134
Alignment explanation
Indices: 68257353--68257611 Score: 306
Period size: 134 Copynumber: 1.9 Consensus size: 134
68257343 TATAAATTGG
** * ** *
68257353 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC-AGGTCGAGGGTATTTTA
1 GGGTACTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACT-AAGGGTATTTTA
* * * *
68257417 GTAATTTCACAAATC-AGTGGTATTTTGGTAATTTTACAAACTAGGTGTATTTTGGTAATTTTAC
65 GTAATTTCACAAACCAAG-GGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC
68257481 AAACAT
129 AAACAT
* * * * * *
68257487 GGGTATTTTGGTAATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAAGTGTATTTTGG
1 GGGTACTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTAG
*** *
68257552 TAATTTTGTAAACCAAGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTGATTT
66 TAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTT
68257612 GGTATACTAA
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
134 99 0.96
135 4 0.04
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (134 bp):
GGGTACTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTAG
TAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAA
ACAT
Found at i:68257603 original size:54 final size:54
Alignment explanation
Indices: 68257406--68257611 Score: 256
Period size: 54 Copynumber: 3.8 Consensus size: 54
68257396 TTACAGGTCG
* * * * *
68257406 AGGGTATTTTAGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
68257459 AGGTGTATTTTGGTAATTTTACAAA-CATGGGTATTTTGGTAATTTTATAAACCA
1 AGG-GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * * * *
68257513 ATGGTATTTTAGTAATTTTACAAACTAAGTGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
68257567 AGGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTGATTT
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTT
68257612 GGTATACTAA
Statistics
Matches: 132, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
53 47 0.36
54 85 0.64
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:68267547 original size:27 final size:26
Alignment explanation
Indices: 68267517--68267594 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
68267507 GTCACCAGAC
68267517 ACAGATATTTGTGGCAGAGCCACCAAA
1 ACAGATATTT-TGGCAGAGCCACCAAA
* *
68267544 ACAGATATTTCTGGCAGAACCACCAGA
1 ACAGATATTT-TGGCAGAGCCACCAAA
* *
68267571 ACAGATAATTTGGCATAGCCACCA
1 ACAGATATTTTGGCAGAGCCACCA
68267595 GGATGCTTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 12 0.27
27 33 0.73
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (26 bp):
ACAGATATTTTGGCAGAGCCACCAAA
Found at i:68268787 original size:27 final size:27
Alignment explanation
Indices: 68268757--68269330 Score: 656
Period size: 27 Copynumber: 21.3 Consensus size: 27
68268747 CCAAAGTACT
*
68268757 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
68268784 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ** * *
68268811 CTCAATTTTTAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
68268838 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
68268865 CTC-AGTTTACAGAATTACCGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
68268892 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
68268919 CTC-AGTTTACAGAATTACCGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
68268946 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
68268973 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
68269000 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
68269027 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
68269054 CTCGATTTAAAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** * **
68269081 CTTAATTTATAGAATTAATGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
68269108 CTTGATTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
68269135 CTCGATTTACAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
68269162 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* * *
68269189 CTCAATTTACAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** * * *
68269216 CTCGATTTGTAAAATTATCTTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * * *
68269243 CTTGATTTATAGAATTACTAG-GTTACC
1 CTCGATTTACAGAATTAC-CGTTTTACC
* *
68269270 CTC-AGTTTACAAAATTATCGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
68269297 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
68269324 CTTGATT
1 CTCGATT
68269331 GTAAAATTAC
Statistics
Matches: 472, Mismatches: 63, Indels: 24
0.84 0.11 0.04
Matches are distributed among these distances:
26 6 0.01
27 461 0.98
28 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:68269530 original size:27 final size:27
Alignment explanation
Indices: 68269343--68269530 Score: 216
Period size: 27 Copynumber: 7.0 Consensus size: 27
68269333 AAAATTACTA
* * * *
68269343 AAATACCCCTGTAGGGTAGAATTTCTG
1 AAATACCCTTATAGGGTAGAATTACCG
* **
68269370 AAATACCCCTATAGGGTAGAATTATTG
1 AAATACCCTTATAGGGTAGAATTACCG
* *
68269397 AAATACCCTTATAGGATAGAATTACCA
1 AAATACCCTTATAGGGTAGAATTACCG
*
68269424 AAATACCCTTATAGGGTAGAATTATCG
1 AAATACCCTTATAGGGTAGAATTACCG
68269451 AAATACCCTTATAGGGTAGCAA-TACCG
1 AAATACCCTTATAGGGTAG-AATTACCG
* *
68269478 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTATAGGGTAGAATTACCG
* * * *
68269505 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTATAGGGTAGAATTACC
68269531 ATTTTTCCCC
Statistics
Matches: 141, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 137 0.97
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
AAATACCCTTATAGGGTAGAATTACCG
Found at i:68269633 original size:91 final size:91
Alignment explanation
Indices: 68269478--68269659 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
68269468 AGCAATACCG
68269478 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCATTTTTCCCCTA
1 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCATTTTTCCCCTA
68269543 GAGTGTTAAATGACTGTTTTGCCCTT
66 GAGTGTTAAATGACTGTTTTGCCCTT
*
68269569 AAATACCCTTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCATTTTTCCCCTA
1 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCATTTTTCCCCTA
68269634 GAGTGTTAAATGACTGTTTTGCCCTT
66 GAGTGTTAAATGACTGTTTTGCCCTT
68269660 GTGGGCAAGT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (91 bp):
AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCATTTTTCCCCTA
GAGTGTTAAATGACTGTTTTGCCCTT
Found at i:68269858 original size:27 final size:26
Alignment explanation
Indices: 68269820--68269902 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
68269810 CGGAGGAAGC
*
68269820 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
68269847 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
68269873 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
68269900 GTT
1 GTT
68269903 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:68270022 original size:22 final size:22
Alignment explanation
Indices: 68269990--68270048 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
68269980 CCCGTTATTA
*
68269990 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
68270012 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
68270034 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
68270049 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:68270235 original size:27 final size:27
Alignment explanation
Indices: 68270213--68270286 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
68270203 TAGGTGGGTT
*
68270213 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
68270240 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
68270267 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
68270287 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:68270413 original size:6 final size:6
Alignment explanation
Indices: 68270404--68270578 Score: 123
Period size: 6 Copynumber: 28.8 Consensus size: 6
68270394 TTGCATTCAC
* * * * *
68270404 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTTTG -TTACTA ATACTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATT-CTG ATTCTG
* *
68270453 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
68270502 ATTCTG ATTCT- AGTTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTTTG
1 ATTCTG ATTCTG A-TTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
68270550 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
68270579 CATTTTGGTT
Statistics
Matches: 133, Mismatches: 18, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
5 12 0.09
6 107 0.80
7 11 0.08
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:68270465 original size:30 final size:30
Alignment explanation
Indices: 68270429--68270578 Score: 170
Period size: 30 Copynumber: 5.2 Consensus size: 30
68270419 CTGTCACGTA
*
68270429 ATTCTGATTTTGTTACTAATACTGATTCTG
1 ATTCTGATTCTGTTACTAATACTGATTCTG
68270459 ATTCTGATTCTG----T--TACTGATTCTG
1 ATTCTGATTCTGTTACTAATACTGATTCTG
* *
68270483 ATTCTGATTCTGTCACCTAATTCTGATTCT-
1 ATTCTGATTCTGTTA-CTAATACTGATTCTG
*
68270513 AGTTCTGATTCTGTTACTAATATTGATTCTG
1 A-TTCTGATTCTGTTACTAATACTGATTCTG
* * *
68270544 ATTTTGATTCTGTTACTGATTCTGATTCTG
1 ATTCTGATTCTGTTACTAATACTGATTCTG
68270574 ATTCT
1 ATTCT
68270579 CATTTTGGTT
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
24 23 0.23
26 1 0.01
29 1 0.01
30 53 0.52
31 23 0.23
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGTTACTAATACTGATTCTG
Found at i:68270540 original size:73 final size:73
Alignment explanation
Indices: 68270404--68270567 Score: 194
Period size: 73 Copynumber: 2.2 Consensus size: 73
68270394 TTGCATTCAC
* * *
68270404 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTTTGTTACTAATACTGATTCTGATTCTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTTAGTTACTAATACTGATTCTAATTCTGATTC
68270469 TG-TTACTG
66 TGATT-CTG
* *
68270477 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAGTT-CTGATTCTG-TTACTAATAT-TGA
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATT-TAGTTACTAATACTGATT-CTAAT-TCTGA
*
68270539 TTCTGATTTTG
63 TTCTGATTCTG
68270550 ATTCTG-TTACTGATTCTG
1 ATTCTGATT-CTGATTCTG
68270568 ATTCTGATTC
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
72 4 0.05
73 69 0.86
74 7 0.09
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (73 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTTAGTTACTAATACTGATTCTAATTCTGATTC
TGATTCTG
Found at i:68272625 original size:27 final size:27
Alignment explanation
Indices: 68272595--68273112 Score: 600
Period size: 27 Copynumber: 19.2 Consensus size: 27
68272585 AAAGTATTCC
68272595 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
68272622 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
68272649 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
68272676 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
68272703 TGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
68272730 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
68272757 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
68272784 C-AGTTTACAAAATTACCGTTTTACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
68272811 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
68272838 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
68272865 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
68272892 CGATTTGTAAAATTACAATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
68272919 CGATTTATAGAATTACCGTTTTAGCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
68272946 -AAGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
68272973 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
68273000 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
68273027 TAATTTATAGAATTACTAG-GTTACCCT
1 CGATTTACAGAATTAC-CGTTTTACCCT
*
68273054 C-AGTTTACAAAATTATCC-TTTTACCCT
1 CGA-TTTACAGAATTA-CCGTTTTACCCT
*
68273081 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
68273108 TGATT
1 CGATT
68273113 GTGAAATTAC
Statistics
Matches: 423, Mismatches: 54, Indels: 28
0.84 0.11 0.06
Matches are distributed among these distances:
26 7 0.02
27 409 0.97
28 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:68272740 original size:108 final size:108
Alignment explanation
Indices: 68272596--68273112 Score: 702
Period size: 108 Copynumber: 4.8 Consensus size: 108
68272586 AAGTATTCCC
* * *
68272596 GATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCTCGATTTTTAAA
1 GATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTGTTTTACCCTCGATTTATAGA
* *
68272660 ATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTT
65 ATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTT
*
68272704 GATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAA
68272769 TTACCGTTTTACCCTC-AGTTTACAAAATTACCGTTTTA-CCTT
66 TTACCGTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTT
*
68272811 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAGA
1 -GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTATAGA
* ** ** *
68272876 ATTACCATTTTACCCTCGATTTGTAAAATTACAATTTTACCCTC
65 ATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTT
* * *
68272920 GATTTATAGAATTACCGTTTTAGCCTAAGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAA
* **
68272985 TTACCGTTTTACCCTTGATTTGTAAAATTACCGTTTTACCCTT
66 TTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTT
* * * * * * *
68273028 AATTTATAGAATTACTAG-GTTACCCTCAGTTTACAAAATTA-TCCTTTTACCCTCGATTTACAG
1 GATTTACAGAATTAC-CGTTTTACCCTCAGTTTACAGAATTACT-GTTTTACCCTCGATTTATAG
* *
68273091 AATTACCATTTTACCCTTGATT
64 AATTACCGTTTTACCCTCGATT
68273113 GTGAAATTAC
Statistics
Matches: 370, Mismatches: 32, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
107 6 0.02
108 358 0.97
109 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (108 bp):
GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAA
TTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTT
Found at i:68273147 original size:27 final size:27
Alignment explanation
Indices: 68273117--68273312 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
68273107 TTGATTGTGA
* *
68273117 AATTACTGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
68273144 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
68273171 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68273198 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
68273225 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68273252 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
68273279 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
68273306 AATTACC
1 AATTACC
68273313 ATTTTGCCCT
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:68273322 original size:27 final size:27
Alignment explanation
Indices: 68273292--68273355 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
68273282 TACCGAGATA
*
68273292 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
68273319 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
68273346 CCCTTGTGGG
1 CCCTTGTGGG
68273356 CAAGTGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:68273734 original size:27 final size:27
Alignment explanation
Indices: 68273684--68273761 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
68273674 CTGTTAAGTT
*
68273684 GCTTTGCCACATTATCTGATTCTGGTG
1 GCTTTGCCACAATATCTGATTCTGGTG
*
68273711 GCTTTGCCACAATATTTG-TATCTGGTG
1 GCTTTGCCACAATATCTGAT-TCTGGTG
* * * *
68273738 ACTCTGTCACAATATCAG-TTCTGG
1 GCTTTGCCACAATATCTGATTCTGG
68273762 CAGCCATACT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.14
27 37 0.86
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
GCTTTGCCACAATATCTGATTCTGGTG
Found at i:68275628 original size:23 final size:25
Alignment explanation
Indices: 68275588--68275633 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
68275578 CCAAAGAAGA
* *
68275588 AGAAAAGAGAATAGGAGATGAGAGG
1 AGAAAAGAGAATAAGAGAAGAGAGG
68275613 AGAAAAGA-AA-AAGAGAAGAGA
1 AGAAAAGAGAATAAGAGAAGAGA
68275634 ATGGTCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 2 0.11
25 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (25 bp):
AGAAAAGAGAATAAGAGAAGAGAGG
Found at i:68281950 original size:19 final size:18
Alignment explanation
Indices: 68281911--68281953 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
68281901 CTTTATTATG
*
68281911 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
68281929 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
68281948 TTTTTG
1 TTTTTG
68281954 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:68282165 original size:68 final size:67
Alignment explanation
Indices: 68282092--68282242 Score: 182
Period size: 67 Copynumber: 2.2 Consensus size: 67
68282082 CATCATGTGT
* ** * *
68282092 ACAAGAGAGCTACGAGGCATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGG-A-TAT-ATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCA
68282155 TGTAG
63 TGTAG
* *
68282160 ACAAGAGAGCTACG-GGATATATGTAGCTAGGTCGCATGCATGGTTCTAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGGATATATGTAGCTAGGTCGCATGCATGATACTA-GTGAAGGACACCATG
68282224 TAG
65 TAG
68282227 ACAAGAGAGCTACGAG
1 ACAAGAGAGCTACGAG
68282243 ATAAACTGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 3 0.04
67 28 0.39
68 15 0.21
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGGATATATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCATGT
AG
Found at i:68289081 original size:41 final size:40
Alignment explanation
Indices: 68288929--68289221 Score: 246
Period size: 41 Copynumber: 7.2 Consensus size: 40
68288919 GCTAATCGGG
*
68288929 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * * * *
68288970 G-CTAATAACCAAACTTAGTTTTGAAGGGCTAATTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGCT--TTTGAGCCAGT
* *
68289013 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
*
68289053 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
68289094 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
*
68289137 GTCATAA-CCG-GACTTAGT-TCCGAAGGGC-CTTGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
*
68289176 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
68289217 G-CTAA
1 GTCTAA
68289222 GAGTCGGACT
Statistics
Matches: 206, Mismatches: 21, Indels: 52
0.74 0.08 0.19
Matches are distributed among these distances:
39 23 0.11
40 38 0.18
41 79 0.38
42 38 0.18
43 20 0.10
44 2 0.01
45 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:68289243 original size:123 final size:124
Alignment explanation
Indices: 68288929--68289221 Score: 534
Period size: 124 Copynumber: 2.4 Consensus size: 124
68288919 GCTAATCGGG
* *
68288929 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAGTTTTGA
1 GTCT-AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGA
68288994 AGGGCTAATTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTA
65 AGGGCTAATTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTA
68289054 GTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGAA
1 GTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGAA
**
68289119 GGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTT-GAGCCAGTA
66 GGGCTAATTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTA
68289177 GTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 GTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
68289222 GAGTCGGACT
Statistics
Matches: 164, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
123 54 0.33
124 106 0.65
125 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (124 bp):
GTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGAA
GGGCTAATTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTA
Found at i:68297279 original size:79 final size:81
Alignment explanation
Indices: 68297143--68297327 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
68297133 TTGAATGATG
*
68297143 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
68297207 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
68297222 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
68297284 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
68297302 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68297328 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:68297341 original size:40 final size:39
Alignment explanation
Indices: 68297144--68297327 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
68297134 TGAATGATGT
* * *
68297144 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
68297184 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
68297224 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
68297262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
68297303 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
68297328 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:68297349 original size:79 final size:79
Alignment explanation
Indices: 68297144--68297360 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
68297134 TGAATGATGT
** * * * **
68297144 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
68297207 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
68297224 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
68297289 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
68297303 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
68297361 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:68305212 original size:39 final size:40
Alignment explanation
Indices: 68305117--68305339 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
68305107 TTGAATGATG
*
68305117 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
68305155 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
68305196 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
68305235 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
68305274 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
68305313 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
68305340 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:68305303 original size:79 final size:81
Alignment explanation
Indices: 68305117--68305339 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
68305107 TTGAATGATG
* * *
68305117 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
68305178 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
68305196 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
68305258 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
68305274 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
68305338 TG
66 TG
68305340 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:68305361 original size:79 final size:79
Alignment explanation
Indices: 68305117--68305372 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
68305107 TTGAATGATG
* * * *
68305117 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
68305178 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
68305196 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
68305260 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
68305274 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
68305338 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
68305354 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
68305373 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:68307385 original size:42 final size:41
Alignment explanation
Indices: 68307305--68307454 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
68307295 GAGCTTGGTC
68307305 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
68307346 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
68307388 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
68307429 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
68307455 GAGTCAGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:68307437 original size:41 final size:40
Alignment explanation
Indices: 68307285--68307454 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
68307275 GCTAATCGGG
*
68307285 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
68307326 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
68307369 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
68307409 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
68307450 G-CTAA
1 GTCTAA
68307455 GAGTCAGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:68311169 original size:21 final size:21
Alignment explanation
Indices: 68311121--68311172 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
68311111 TACAGCCTAC
*
68311121 CCACACAGGCGTGTCCCAAAG
1 CCACACGGGCGTGTCCCAAAG
*
68311142 CCACACGGGCGTGTTCCAAAG
1 CCACACGGGCGTGTCCCAAAG
68311163 CCACACGGGC
1 CCACACGGGC
68311173 ATGTAACCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.38, G:0.27, T:0.10
Consensus pattern (21 bp):
CCACACGGGCGTGTCCCAAAG
Found at i:68312774 original size:27 final size:27
Alignment explanation
Indices: 68312744--68312803 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
68312734 TACCCTATAG
* *
68312744 GGGTATGTCGGTCATTTTACACTACAA
1 GGGTATGTCAGTAATTTTACACTACAA
*
68312771 GGGTATTTCAGTAATTTTACACTACAA
1 GGGTATGTCAGTAATTTTACACTACAA
68312798 GGGTAT
1 GGGTAT
68312804 TTTGATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (27 bp):
GGGTATGTCAGTAATTTTACACTACAA
Found at i:68312804 original size:27 final size:27
Alignment explanation
Indices: 68312757--68312845 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
68312747 TATGTCGGTC
68312757 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
*
68312784 ATTTTACACTACAAGGGTATTT-TGATA
1 ATTTTACACTACAAGGGTATTTCAG-TA
* * **
68312811 AGTTTACA-AATCGGGGGTATTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCAGTA
68312838 ATTTTACA
1 ATTTTACA
68312846 AATTAAGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.04
27 49 0.94
28 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:68312846 original size:27 final size:27
Alignment explanation
Indices: 68312770--68313055 Score: 262
Period size: 27 Copynumber: 10.7 Consensus size: 27
68312760 TTACACTACA
* *
68312770 AGGGTATTTCAGTAATTTTAC-ACTACA
1 AGGGTATTTCAGTAATTTTACAAAT-CG
* *
68312797 AGGGTATTT-TGATAAGTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* **
68312824 GGGGTATTTCAGTAATTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
68312851 AGGGTATTT-TGATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
68312878 AGGATATTT-TGATAATTTTACAAATC-
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * * *
68312904 AAGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
68312931 GGGGTATTTCAGTAATTTTATAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
68312958 AGGGTATTTC-GATAATTTCAC-AATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
68312984 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** *
68313011 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
68313038 AGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
68313056 CTCTTTATTA
Statistics
Matches: 214, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
26 43 0.20
27 168 0.79
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:68312956 original size:80 final size:81
Alignment explanation
Indices: 68312770--68313055 Score: 330
Period size: 80 Copynumber: 3.6 Consensus size: 81
68312760 TTACACTACA
* * * *
68312770 AGGGTATTTCAGTAATTTTAC-ACTACAAGGGTATTTTGATAAGTTTACAAATCGGGGGTATTTC
1 AGGGTATTTCAGTAATTTTACAAAT-CAAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTC
* **
68312834 AGTAATTTTACAAATTA
65 GGTAATTTTACAAATCG
* * * *
68312851 AGGGTATTT-TGATAATTTTACAAATCGAGGATATTTTGATAATTTTACAAATC-AAGGTGTTTC
1 AGGGTATTTCAG-TAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTC
*
68312914 GGTAATTTCACAAATCG
65 GGTAATTTTACAAATCG
* * * *
68312931 GGGGTATTTCAGTAATTTTATAAATCAAGGGTATTTCGATAATTTCAC-AATCGAGGGTGTTTCG
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCG
68312995 GTAATTTTACAAATCG
66 GTAATTTTACAAATCG
** **
68313011 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTT-AGTAATTT
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGA-TAATTT
68313056 CTCTTTATTA
Statistics
Matches: 172, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
79 5 0.03
80 121 0.70
81 44 0.26
82 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCG
GTAATTTTACAAATCG
Found at i:68312962 original size:107 final size:107
Alignment explanation
Indices: 68312799--68313055 Score: 329
Period size: 107 Copynumber: 2.4 Consensus size: 107
68312789 ACACTACAAG
* * * *
68312799 GGTATTTTGATAAGTTT-ACAAATCGGGGGTATTTCAGTAATTTTACAAATTAAGGGTATTTTGA
1 GGTATTTCGGTAA-TTTCACAAATCGGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGA
* *
68312863 TAATTTTACAAATCGAGGATATTTTGATAATTTTACAAATC-AA
65 TAATTTCAC-AATCGAGGATATTTCGATAATTTTACAAATCGAA
* *
68312906 GGTGTTTCGGTAATTTCACAAATCGGGGGTATTTCAGTAATTTTATAAATCAAGGGTATTTCGAT
1 GGTATTTCGGTAATTTCACAAATCGGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGAT
* * * *
68312971 AATTTCACAATCGAGGGTGTTTCGGTAATTTTACAAATCGAG
66 AATTTCACAATCGAGGATATTTCGATAATTTTACAAATCGAA
* * * * *
68313013 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTT
1 GGTATTTCGGTAATTTCACAAATCGGGGGTATTTCAGTAATTT
68313056 CTCTTTATTA
Statistics
Matches: 130, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
106 30 0.23
107 100 0.77
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (107 bp):
GGTATTTCGGTAATTTCACAAATCGGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGAT
AATTTCACAATCGAGGATATTTCGATAATTTTACAAATCGAA
Found at i:68313315 original size:16 final size:17
Alignment explanation
Indices: 68313294--68313326 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68313284 CACATTGAAG
68313294 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
68313310 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
68313327 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:68319795 original size:58 final size:57
Alignment explanation
Indices: 68319726--68319837 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 57
68319716 AAGTATACAT
* ** * *
68319726 ACATGCATATGGCCCA-CTAGGCCCAAATTACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATGCATATGGCCCATC-AGGCCC-AATCACATTCATATAGCCCATCAGGCCCAAATC
*
68319784 ACATTCATATGGCCCATCAGGCCCAATCACATTCATATAGCCCATCAGGCCCAA
1 ACATGCATATGGCCCATCAGGCCCAATCACATTCATATAGCCCATCAGGCCCAA
68319838 CTACTTCCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 25 0.53
58 21 0.45
59 1 0.02
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.22
Consensus pattern (57 bp):
ACATGCATATGGCCCATCAGGCCCAATCACATTCATATAGCCCATCAGGCCCAAATC
Found at i:68319820 original size:28 final size:29
Alignment explanation
Indices: 68319726--68319837 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
68319716 AAGTATACAT
* *
68319726 ACATGCATATGGCCCA-CTAGGCCCAAATT
1 ACATTCATATGGCCCATC-AGGCCCAAATC
** *
68319755 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
68319784 ACATTCATATGGCCCATCAGGCCC-AATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
*
68319812 ACATTCATATAGCCCATCAGGCCCAA
1 ACATTCATATGGCCCATCAGGCCCAA
68319838 CTACTTCCCA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
28 27 0.38
29 45 0.62
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.22
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAAATC
Found at i:68322320 original size:50 final size:50
Alignment explanation
Indices: 68322201--68322492 Score: 262
Period size: 50 Copynumber: 5.8 Consensus size: 50
68322191 ATTGTGAGAA
* ** * *** *
68322201 CACATGTGTAGTACTATGTATAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* * *
68322253 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTATGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * * ***
68322303 CGCATGTGTAGTACTAAGTGTAGGCTCCTATGCGTACCCGACAACTTCTAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGT
* * * *
68322354 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* ** *
68322404 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
68322453 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
68322493 TTAGCTTCGG
Statistics
Matches: 193, Mismatches: 46, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
49 38 0.20
50 82 0.42
51 39 0.20
52 34 0.18
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:68322488 original size:99 final size:101
Alignment explanation
Indices: 68322252--68322492 Score: 270
Period size: 101 Copynumber: 2.4 Consensus size: 101
68322242 TGGTTTTAGG
* * * *
68322252 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTATGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
* * * *
68322317 TAAGTGTAGGCTCCTATGCGTACCCGACAACTTCTA
66 TAAGTGCAGGCTACTACGCGTACCCGACAACTTCGA
* * * * *
68322353 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
* ** *** *
68322418 TAAGTGCAGGCTACTACGTGTACTGGA-TTGTT-GG
66 TAAGTGCAGGCTACTACGCGTACCCGACAACTTCGA
* *
68322452 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
68322493 TTAGCTTCGG
Statistics
Matches: 117, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
99 36 0.31
100 2 0.02
101 79 0.68
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCCGACAACTTCGA
Found at i:68328044 original size:43 final size:43
Alignment explanation
Indices: 68327916--68328070 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 43
68327906 CAATGCGATA
* * * * *
68327916 TCCCAGATATGGTCTTACATGTTATCTC-ATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCTCAATA-CAATGCCAATG
* * * * *
68327959 TCTCAGACAGGGTCTTACACGAAAT-TGATTA-ATGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCAATACA--ATGCCAATG
*
68328002 TCCCAGACATGGTCTTACACGTAATCTCAATACAATGTCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCAATACAATGCCAATG
* *
68328045 TCCCAAACATGGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACACGTAATC
68328071 ACATCTCGAT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 83 0.93
44 4 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCTCAATACAATGCCAATG
Found at i:68329927 original size:12 final size:12
Alignment explanation
Indices: 68329910--68329942 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
68329900 TCGTGAGATG
68329910 CACACAGCCT-A
1 CACACAGCCTGA
68329921 CCACACAGCCTGA
1 -CACACAGCCTGA
68329934 CACACAGCC
1 CACACAGCC
68329943 ATATAGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.33, C:0.48, G:0.12, T:0.06
Consensus pattern (12 bp):
CACACAGCCTGA
Found at i:68330469 original size:23 final size:22
Alignment explanation
Indices: 68330421--68330470 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
68330411 GTAACCAAGC
* *
68330421 GAAAAAGGAAAGAGAAGCAAAG
1 GAAAAAGGAAAGAGAAGAAAAA
68330443 GAAAAGAGCGAAAG-GAAGAAAAA
1 GAAAA-AG-GAAAGAGAAGAAAAA
68330466 GAAAA
1 GAAAA
68330471 CAAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (22 bp):
GAAAAAGGAAAGAGAAGAAAAA
Found at i:68335561 original size:57 final size:57
Alignment explanation
Indices: 68335458--68335599 Score: 150
Period size: 57 Copynumber: 2.5 Consensus size: 57
68335448 CATGTTGTAT
*
68335458 AAAGGATTTAGCTCAGACGGGTAATCCTGATGTAAGCCGCTTGAGTATAT-ACTAT-A
1 AAAGGATTTAGCCCAGACGGGTAATCCTGATGTAAGCCGCTTGAGTATATGA-TATGA
** *
68335514 GAGTGGATTTAGCCCAGACGGGTAATCCAT-AT-TAAG-CTCTTCAGAGTATATGATATGA
1 -AAAGGATTTAGCCCAGACGGGTAATCC-TGATGTAAGCCGCTT--GAGTATATGATATGA
* *
68335572 AAAGGATTTAGCCTAGACTGGTAATCCT
1 AAAGGATTTAGCCCAGACGGGTAATCCT
68335600 ATAATATAGC
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
55 4 0.06
56 5 0.07
57 60 0.83
58 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (57 bp):
AAAGGATTTAGCCCAGACGGGTAATCCTGATGTAAGCCGCTTGAGTATATGATATGA
Found at i:68340251 original size:43 final size:43
Alignment explanation
Indices: 68340203--68340350 Score: 174
Period size: 43 Copynumber: 3.4 Consensus size: 43
68340193 TATCAAGATG
* * *
68340203 TGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
*
68340246 TGATTACATGAAAGACCATGTCTGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * * * *
68340289 TGATTTCGTGTAAGACCTTGTCTGGGATAGTGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TA
68340332 TGA-TAGCATGTAAGACCAT
1 TGATTA-CATGTAAGACCAT
68340351 ATCTAGGATA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 3 0.03
43 86 0.97
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:68342791 original size:77 final size:78
Alignment explanation
Indices: 68342659--68342814 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
68342649 AATGCCCCGA
68342659 TGGTATTTATGGATTTAGTGAACAGAATTTTCAGACCAAACCTAGACAGATTCGTGGTTGTTTTC
1 TGGTATTTATGGATTTAGTGAACAGAATTTTCAGACCAAACCTAGACAGATTCGTGGTTGTTTTC
68342724 ATCGATGATATTT
66 ATCGATGATATTT
* * * *
68342737 TGGT-TTTATGGATTTAGTGAACAGAATTTTCAGGCCATACCTGGACAGGTTCGTGGTTGTTTTC
1 TGGTATTTATGGATTTAGTGAACAGAATTTTCAGACCAAACCTAGACAGATTCGTGGTTGTTTTC
68342801 ATCGATGATATTT
66 ATCGATGATATTT
68342814 T
1 T
68342815 TGTAACACGC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 70 0.95
78 4 0.05
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (78 bp):
TGGTATTTATGGATTTAGTGAACAGAATTTTCAGACCAAACCTAGACAGATTCGTGGTTGTTTTC
ATCGATGATATTT
Found at i:68344978 original size:45 final size:46
Alignment explanation
Indices: 68344812--68344987 Score: 167
Period size: 50 Copynumber: 3.7 Consensus size: 46
68344802 AGGGTAAGGT
* * * *
68344812 GCCGATACCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCAAA
* * * * * * *
68344860 GTCGATGTCATGTCCCAGGCATGGTCTTACATTGGCTC-TCATCTATTAGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-ATC-A--A-A
*
68344910 GCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAA
68344955 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
68344988 AGCTCTCGTA
Statistics
Matches: 103, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
45 32 0.31
46 6 0.06
47 2 0.02
48 27 0.26
49 1 0.01
50 34 0.33
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAA
Found at i:68344993 original size:95 final size:98
Alignment explanation
Indices: 68344810--68344994 Score: 259
Period size: 95 Copynumber: 1.9 Consensus size: 98
68344800 ATAGGGTAAG
* * * * *
68344810 GTGCCGATACCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAGTCGATGTCATGTCC
1 GTGCCAATACCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGTCC
* * *
68344875 CAGGCATGGTCTTACATTGGCTCTCATCTATTA
66 CAGACATGGTCTTACACTAGCTCTCATCTATTA
* *
68344908 GTGCCAATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATC-AAGCCGATGCCATGTCC
1 GTGCCAATACCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGTCC
68344970 CAGACATGGTCTTACACTAGCTCTC
66 CAGACATGGTCTTACACTAGCTCTC
68344995 GTATCTCAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 37 0.48
96 7 0.09
97 1 0.01
98 32 0.42
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (98 bp):
GTGCCAATACCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCATCTATTA
Found at i:68346781 original size:66 final size:65
Alignment explanation
Indices: 68346654--68346781 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 65
68346644 TACTATGTGT
* * * * *
68346654 ACACCATGTAGAAAGAGAGCTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAG
1 ACACCATGTAGAAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAAG
68346719 G
65 G
* *
68346720 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGA-AAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
68346782 TTCACCATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 35 0.66
67 16 0.30
68 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.21
Consensus pattern (65 bp):
ACACCATGTAGAAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAGG
Found at i:68346803 original size:63 final size:63
Alignment explanation
Indices: 68346557--68346803 Score: 187
Period size: 63 Copynumber: 3.8 Consensus size: 63
68346547 GATGGTATGT
** * * * * *
68346557 AGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACATTATG
1 AGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A-TA-A
68346621 ATG
61 ATG
* * * * * *
68346624 TAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGA-AAGAGAGCTATGGGATATATG
1 -AGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATG
* * * * *
68346687 TAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
1 -AGCTAGGTCACATGGGTGGTACTAAGT---GTACACCATGTAGACAAGAGAGCTACGAGATAAA
68346752 CTG
62 -TG
*
68346755 -GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 AGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
68346804 CGAACTATAT
Statistics
Matches: 145, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 45 0.31
64 2 0.01
65 1 0.01
66 35 0.24
67 28 0.19
68 32 0.22
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (63 bp):
AGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATG
Found at i:68352516 original size:49 final size:49
Alignment explanation
Indices: 68352443--68352623 Score: 169
Period size: 49 Copynumber: 3.8 Consensus size: 49
68352433 TGGCTAGCAC
* * *
68352443 ATCAAAGTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATAT
1 ATCAAGGTTGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATAT
* * ** *
68352492 ATCAAGGTTGATGCCGTGTTCCAGACAGGTCTTACACTGGCTCTCATCT
1 ATCAAGGTTGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATAT
* * *
68352541 ATC--GGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACACGC--A-
1 ATCAAGGT-T-GATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATAT
** *
68352587 A-CAA-CCTGATGCTATGTCCCAGACAGGTCTTACACTA
1 ATCAAGGTTGATGCCATGTCCCAGACAGGTCTTACACTA
68352624 GCACACATAT
Statistics
Matches: 110, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
44 28 0.25
45 2 0.02
46 1 0.01
47 3 0.03
48 1 0.01
49 75 0.68
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
ATCAAGGTTGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATAT
Found at i:68355690 original size:42 final size:42
Alignment explanation
Indices: 68355644--68355724 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
68355634 CCGTGTCCTT
* *
68355644 CACACGG-CTGAGACATATGGCCGTGTCTCT-ACTCGTGTGTCA
1 CACACGGCCT-AGACACATGCCCGTGTCTCTAAC-CGTGTGTCA
*
68355686 CACACGGCCTAGACACATGCCCGTGTGTCTAACCGTGTG
1 CACACGGCCTAGACACATGCCCGTGTCTCTAACCGTGTG
68355725 GACAATTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 30 0.88
43 4 0.12
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.23
Consensus pattern (42 bp):
CACACGGCCTAGACACATGCCCGTGTCTCTAACCGTGTGTCA
Found at i:68356933 original size:22 final size:22
Alignment explanation
Indices: 68356906--68356955 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
68356896 GAGCTCATAT
*
68356906 TCACATAGTTCCTAGTGACATG
1 TCACATAGTTCCTAGTGAAATG
68356928 TCACATAGTTCCTAGTGAAATG
1 TCACATAGTTCCTAGTGAAATG
68356950 TCACAT
1 TCACAT
68356956 TGTATCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (22 bp):
TCACATAGTTCCTAGTGAAATG
Found at i:68363227 original size:27 final size:27
Alignment explanation
Indices: 68363186--68363239 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
68363176 TGTCACGTGA
* *
68363186 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
68363213 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
68363240 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:68363569 original size:51 final size:49
Alignment explanation
Indices: 68363488--68363625 Score: 195
Period size: 51 Copynumber: 2.8 Consensus size: 49
68363478 TATTGTGAGG
68363488 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAA-TT-GA
* * * * *
68363539 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGA
* *
68363588 TCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
68363626 TAGATAGCCT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 34 0.44
50 2 0.03
51 41 0.53
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGA
Found at i:68372731 original size:126 final size:126
Alignment explanation
Indices: 68372499--68372767 Score: 358
Period size: 126 Copynumber: 2.1 Consensus size: 126
68372489 GGGTTTATGG
* * * *
68372499 TTTTTCTACAATAGTTCTTGAAAAAATAATTTTAAGAAGACGTTTCCAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAAATTTAAGAAGACATTTCCAAACAAATAGTGTCAAAA
* * * * * * * * *
68372564 ACGCTTCAAGTATGACGTAATGTCAGCAAAATTTTTTAAAAAAGCTCCCACGTGGACGTTC
66 ACGCTTCAAGCATGACGCAATATCAACAAAAGTTCTAAAAAAAGCTCCCACGTGGACGCTA
* * * *
68372625 TTTTTCTATAGTAGTTCCTGAAAAAATAAATTTGAGAAGATATTTCTAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAAATTTAAGAAGACATTTCCAAACAAATAGTGTCAAAA
* * *
68372690 ACGCTTCAAGCATGATGCAATATCAACAAAAGTTCTAAAAAAAGCTCTCATGTGGACGCTA
66 ACGCTTCAAGCATGACGCAATATCAACAAAAGTTCTAAAAAAAGCTCCCACGTGGACGCTA
68372751 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
68372768 ATGCTTGGCC
Statistics
Matches: 122, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAAATTTAAGAAGACATTTCCAAACAAATAGTGTCAAAA
ACGCTTCAAGCATGACGCAATATCAACAAAAGTTCTAAAAAAAGCTCCCACGTGGACGCTA
Found at i:68376495 original size:54 final size:52
Alignment explanation
Indices: 68376434--68376546 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 52
68376424 TATAAAATAC
*
68376434 AAATTAATTTAAATTACATAAATGAAAAGAATAATAAATAATATTAAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAA-AA-AATAAATAATATTAAAAAATTA
* * ** *
68376488 AAATTAATTAAAATTACATAAATTAAAAAAATTAAATAATATTCTAAATTTA
1 AAATTAATTAAAATTACATAAATGAAAAAAAATAAATAATATTAAAAAATTA
68376540 AAATTAA
1 AAATTAA
68376547 CCCTTACCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 25 0.47
53 2 0.04
54 26 0.49
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (52 bp):
AAATTAATTAAAATTACATAAATGAAAAAAAATAAATAATATTAAAAAATTA
Found at i:68376542 original size:24 final size:24
Alignment explanation
Indices: 68376468--68376546 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 24
68376458 AAAAGAATAA
** *
68376468 TAAATAATATTAAAAAATTAAAAT
1 TAAATAATATTCTAAATTTAAAAT
* * *
68376492 TAATTAAAATTACATAAATTAAAAAAAT
1 TAAATAATATT-C-TAAATT--TAAAAT
68376520 TAAATAATATTCTAAATTTAAAAT
1 TAAATAATATTCTAAATTTAAAAT
68376544 TAA
1 TAA
68376547 CCCTTACCAT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
24 17 0.40
26 10 0.24
27 1 0.02
28 14 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAATAATATTCTAAATTTAAAAT
Found at i:68377646 original size:11 final size:11
Alignment explanation
Indices: 68377630--68377657 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
68377620 TAAAAAAATT
68377630 AAAATATTTTA
1 AAAATATTTTA
68377641 AAAATATTTTA
1 AAAATATTTTA
68377652 AAAATA
1 AAAATA
68377658 ATATTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:68377743 original size:21 final size:20
Alignment explanation
Indices: 68377712--68377788 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 20
68377702 TGTAAATTTT
68377712 ATTTT-TATATTTTTTTCTA
1 ATTTTATATATTTTTTTCTA
* *
68377731 GATTTTATATA-TTTCTT-GA
1 -ATTTTATATATTTTTTTCTA
*
68377750 ATTTTTTATATATTTATTTCTA
1 A--TTTTATATATTTTTTTCTA
68377772 ATTTTTATATATATTTT
1 A-TTTTATATAT-TTTT
68377789 ATTATGTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 19 0.42
21 19 0.42
22 5 0.11
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTATATATTTTTTTCTA
Found at i:68377758 original size:20 final size:22
Alignment explanation
Indices: 68377733--68377787 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
68377723 TTTTTCTAGA
68377733 TTTTATATATTT-CTT-GAATT
1 TTTTATATATTTACTTCGAATT
* *
68377753 TTTTATATATTTATTTCTAATT
1 TTTTATATATTTACTTCGAATT
68377775 TTTATATATATTT
1 TTT-TATATATTT
68377788 TATTATGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 12 0.40
21 2 0.07
22 7 0.23
23 9 0.30
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATATATTTACTTCGAATT
Found at i:68377791 original size:24 final size:24
Alignment explanation
Indices: 68377740--68377787 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
68377730 AGATTTTATA
68377740 TATTTCTTGAATTTTTTATATATT
1 TATTTCTTGAATTTTTTATATATT
68377764 TATTTC-T-AATTTTTATATATATT
1 TATTTCTTGAATTTTT-TATATATT
68377787 T
1 T
68377788 TATTATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 10 0.43
24 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTCTTGAATTTTTTATATATT
Found at i:68377799 original size:39 final size:40
Alignment explanation
Indices: 68377717--68377800 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
68377707 ATTTTATTTT
* * *
68377717 TATATTTTTTTCTAGATTTTATATATTTCTTGAATTTTTTA
1 TATATTTATTTCTAGATTTTATATATTTCTT-AATTATGTA
68377758 TATATTTATTTCTA-ATTTTTATATATATT-TT-ATTATGTA
1 TATATTTATTTCTAGA-TTTTATATAT-TTCTTAATTATGTA
68377797 TATA
1 TATA
68377801 CATCTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
39 10 0.26
40 1 0.03
41 25 0.66
42 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (40 bp):
TATATTTATTTCTAGATTTTATATATTTCTTAATTATGTA
Found at i:68377939 original size:26 final size:26
Alignment explanation
Indices: 68377908--68377959 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
68377898 TAGAGACATA
68377908 CTTTAAATATCAAATTAAGAAGTGAT
1 CTTTAAATATCAAATTAAGAAGTGAT
68377934 CTTTAAATATCAAATTAAGAAGTGAT
1 CTTTAAATATCAAATTAAGAAGTGAT
68377960 TGTACTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (26 bp):
CTTTAAATATCAAATTAAGAAGTGAT
Found at i:68390858 original size:40 final size:40
Alignment explanation
Indices: 68390805--68391158 Score: 534
Period size: 40 Copynumber: 8.9 Consensus size: 40
68390795 GAATACACAT
*
68390805 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * **
68390845 CACCAGTACGAATGCTCTTCGGGACTTAACCTTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
68390885 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
68390925 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
68390965 CACCAGCACGTATGCTCTTCGGGACTTAGCTCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
68391005 CTCCAGCAC-ATATGCTCATCGGGACTTAGCCCGG--ATAA
1 CACCAGCACGA-ATGCTCTTCGGGACTTAGCCCGGATATAA
* *
68391043 CTCCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
68391083 CTCCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
68391123 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
68391159 CATATATAAC
Statistics
Matches: 286, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
38 35 0.12
40 251 0.88
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:68391098 original size:158 final size:160
Alignment explanation
Indices: 68390805--68391158 Score: 561
Period size: 158 Copynumber: 2.2 Consensus size: 160
68390795 GAATACACAT
* * * *
68390805 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGTACGAATGCTCTTCGGGAC
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCATCGGGAC
* *
68390870 TTAACCTTGATATAACTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACG
66 TTAACCTCGAGATAACTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACG
*
68390935 TATGCTCTTCGGGACTTAGCCCGGATATAA
131 AATGCTCTTCGGGACTTAGCCCGGATATAA
* *
68390965 CACCAGCACGTATGCTCTTCGGGACTTAGCTCGGATATAACTCCAGCAC-ATATGCTCATCGGGA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGA-ATGCTCATCGGGA
* * * *
68391029 CTTAGCC-CG-GATAACTCCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACTCCAGCAC
65 CTTAACCTCGAGATAACTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCAC
68391092 GAATGCTCTTCGGGACTTAGCCCGGATATAA
130 GAATGCTCTTCGGGACTTAGCCCGGATATAA
68391123 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
68391159 CATATATAAC
Statistics
Matches: 179, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
158 115 0.64
159 2 0.01
160 62 0.35
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (160 bp):
CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCATCGGGAC
TTAACCTCGAGATAACTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACG
AATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:68404892 original size:30 final size:30
Alignment explanation
Indices: 68404858--68404918 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
68404848 TCCTTAACTC
68404858 AAACTTTTGCAAAATTACAATTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
* *
68404888 AAACTTTTGCAAATTTACACTTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
68404918 A
1 A
68404919 GGCTCGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTACCCCT
Found at i:68406629 original size:31 final size:30
Alignment explanation
Indices: 68406594--68406665 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
68406584 TTATACAAAA
*
68406594 AAATACACTTATACATATGTTCATAATTCTC
1 AAATACAATTA-ACATATGTTCATAATTCTC
* * *
68406625 AAATAGAATTACCATGTGTTCATAATTCTC
1 AAATACAATTAACATATGTTCATAATTCTC
*
68406655 AAATAGAATTA
1 AAATACAATTA
68406666 CTCATAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 28 0.76
31 9 0.24
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (30 bp):
AAATACAATTAACATATGTTCATAATTCTC
Found at i:68409370 original size:30 final size:30
Alignment explanation
Indices: 68409336--68409394 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
68409326 CCTTAACTCA
* *
68409336 AACTTTGGTAAAATTACAATTTTGCCCCTG
1 AACTTTAGCAAAATTACAATTTTGCCCCTG
* * *
68409366 AACTTTAGCATATTTACACTTTTGCCCCT
1 AACTTTAGCAAAATTACAATTTTGCCCCT
68409395 AGGCTCGGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (30 bp):
AACTTTAGCAAAATTACAATTTTGCCCCTG
Found at i:68429141 original size:27 final size:27
Alignment explanation
Indices: 68429097--68429391 Score: 245
Period size: 27 Copynumber: 10.9 Consensus size: 27
68429087 CCACAAATTG
***
68429097 TAAAATTACCAAAGTACCCTTGATTTA
1 TAAAATTACCATTTTACCCTTGATTTA
* * *
68429124 CAAAATTATCGTTTTACCCTCT-ATTTA
1 TAAAATTACCATTTTACCCT-TGATTTA
*
68429151 TAAAATTACCGTTTTA-CCTTCGATTTA
1 TAAAATTACCATTTTACCCTT-GATTTA
*
68429178 TAAAATTACCATTTTACCCTTGATTTG
1 TAAAATTACCATTTTACCCTTGATTTA
* * * **
68429205 TAGAATTACTATTTCACCCTCAATTTA
1 TAAAATTACCATTTTACCCTTGATTTA
*
68429232 TAGAATTACCATTTTACCCTTGATTTA
1 TAAAATTACCATTTTACCCTTGATTTA
* * *
68429259 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTTGATTTA
* *** *
68429286 TAGAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTTGATTTA
* ** **
68429313 TAGAATTACTGTTTTACCCTCAATTTA
1 TAAAATTACCATTTTACCCTTGATTTA
* *
68429340 CAAAATTACCATTTTACCC-TCAGTTTA
1 TAAAATTACCATTTTACCCTTGA-TTTA
* * * *
68429367 CAAAATTATCGTTTTACCCTCGATT
1 TAAAATTACCATTTTACCCTTGATT
68429392 GTGAAATTAC
Statistics
Matches: 220, Mismatches: 42, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
25 1 0.00
26 4 0.02
27 209 0.95
28 6 0.03
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
TAAAATTACCATTTTACCCTTGATTTA
Found at i:68429176 original size:54 final size:54
Alignment explanation
Indices: 68429111--68429391 Score: 289
Period size: 54 Copynumber: 5.2 Consensus size: 54
68429101 ATTACCAAAG
* * * * *
68429111 TACCCTTGATTTACAAAATTATCGTTTTACCCTCTATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCTATTTATAGAATTACCGTTT
* * **
68429165 TACCTTCGATTTATAAAATTACCATTTTACCCT-TGATTTGTAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCT-ATTTATAGAATTACCGTTT
* * * * *
68429219 CACCCTCAATTTATAGAATTACCATTTTACCCT-TGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCT-ATTTATAGAATTACCGTTT
* *** * *
68429273 TACCCTCGATTTATAGAATTACCAAAGTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCTATTTATAGAATTACCGTTT
* * * * *
68429327 TACCCTCAATTTACAAAATTACCATTTTACCCTC-AGTTTACAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCTA-TTTATAGAATTACCGTTT
68429381 TACCCTCGATT
1 TACCCTCGATT
68429392 GTGAAATTAC
Statistics
Matches: 188, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
53 2 0.01
54 186 0.99
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCTATTTATAGAATTACCGTTT
Found at i:68429388 original size:81 final size:81
Alignment explanation
Indices: 68429111--68429391 Score: 316
Period size: 81 Copynumber: 3.5 Consensus size: 81
68429101 ATTACCAAAG
* * * *
68429111 TACCCTTGATTTACAAAATTATCGTTTTACCCTCTATTTATAAAATTACCGTTTTACCTTCGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
*
68429176 TATAAAATTACCATTT
66 TACAAAATTACCATTT
* ** * * * *
68429192 TACCCTTGATTTGTAGAATTA-C-TATTTCACCCTCAATTTATAGAATTACCATTTTACCCTTGA
1 TACCCTCGATTTACAAAATTATCGT-TTT-ACCCTCGATTTATAGAATTACCGTTTTACCCTCGA
*
68429255 TTTACAGAATTACCATTT
64 TTTACAAAATTACCATTT
* * * **** * *
68429273 TACCCTCGATTTATAGAATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
68429338 TACAAAATTACCATTT
66 TACAAAATTACCATTT
68429354 TACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGA-TTTACAAAATTATCGTTTTACCCTCGATT
68429392 GTGAAATTAC
Statistics
Matches: 167, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 5 0.03
81 159 0.95
82 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:68429457 original size:27 final size:27
Alignment explanation
Indices: 68429422--68429559 Score: 179
Period size: 27 Copynumber: 5.1 Consensus size: 27
68429412 TATAGGATAG
*
68429422 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
* *
68429449 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
*
68429476 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
* **
68429503 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTAATTTGTAA
*
68429530 AATTA-CATAAATACCCTTAACTTTCTAA
1 AATTACCA-AAATACCCTTAA-TTTGTAA
68429558 AA
1 AA
68429560 ATTATAGAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 89 0.91
28 7 0.07
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAATTTGTAA
Found at i:68429488 original size:54 final size:54
Alignment explanation
Indices: 68429422--68429559 Score: 197
Period size: 54 Copynumber: 2.5 Consensus size: 54
68429412 TATAGGATAG
* * **
68429422 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
*
68429476 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
*
68429530 AATTA-CATAAATACCCTTAACTTTCTAAAA
1 AATTACCA-AAATACCCTTAA-TTTGTAAAA
68429560 ATTATAGAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.01
54 66 0.88
55 8 0.11
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
Found at i:68429618 original size:27 final size:27
Alignment explanation
Indices: 68429557--68429608 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
68429547 TAACTTTCTA
68429557 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
68429584 AAAATTACTGAAATACCATTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
68429609 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:68429692 original size:27 final size:27
Alignment explanation
Indices: 68429649--68429722 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
68429639 AAATGACTAA
*
68429649 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
68429676 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
68429703 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
68429723 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:68429726 original size:27 final size:27
Alignment explanation
Indices: 68429662--68429726 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
68429652 ACCCCTAATA
*
68429662 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
68429689 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
68429716 GGTAAAATGAC
1 GGTAAAATGAC
68429727 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:68431957 original size:37 final size:37
Alignment explanation
Indices: 68431907--68431985 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
68431897 TTATTACGAA
* *
68431907 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
68431944 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
68431981 GTCTT
1 GTCTT
68431986 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:68432208 original size:47 final size:47
Alignment explanation
Indices: 68432107--68432404 Score: 452
Period size: 47 Copynumber: 6.3 Consensus size: 47
68432097 TTCGGGACTG
* * * * * * * *
68432107 ATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* * *
68432154 GTCACATATATACACTTTCACATTCCTCACATCAGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
68432201 ATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
68432248 ATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
68432295 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
68432342 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
68432389 ATCACACATATACACT
1 ATCACATATATACACT
68432405 GTCTTGGCTG
Statistics
Matches: 228, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 228 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:68435223 original size:31 final size:31
Alignment explanation
Indices: 68435166--68435279 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
68435156 CGTTTGCAAT
*
68435166 AAAGGCTTCGGCCC-GTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
68435196 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
68435227 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
68435258 AAAGGCCTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
68435280 TCAAGACTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
30 18 0.23
31 60 0.77
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:68447132 original size:19 final size:19
Alignment explanation
Indices: 68447095--68447132 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
68447085 ACCTGTCAGA
*
68447095 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
68447114 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
68447133 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:68453474 original size:16 final size:16
Alignment explanation
Indices: 68453453--68453485 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
68453443 TTGGTTTTAG
68453453 TCGATTCCTTCTTCTC
1 TCGATTCCTTCTTCTC
68453469 TCGATTCCTTCTTCTC
1 TCGATTCCTTCTTCTC
68453485 T
1 T
68453486 TCTTCTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.36, G:0.06, T:0.52
Consensus pattern (16 bp):
TCGATTCCTTCTTCTC
Found at i:68462208 original size:29 final size:28
Alignment explanation
Indices: 68462156--68462262 Score: 99
Period size: 29 Copynumber: 3.8 Consensus size: 28
68462146 ATAATATGAT
* *
68462156 TTGGGCCTAATGGGCTAGATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* * *
68462185 TTGGGCCTAGTGGGCCATAAGAATATAAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* * *
68462214 CTGGGCCAAATGGGCCATTTGAATA-AGA
1 TTGGGCCTAATGGGCCATATGAATAGA-A
*
68462242 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
68462263 CATGTATGTA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 19 0.31
29 42 0.68
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:68467549 original size:28 final size:28
Alignment explanation
Indices: 68467516--68467583 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
68467506 GACTATGAGT
68467516 GTGATTGGGCCTGATAGGCCATATGAAA
1 GTGATTGGGCCTGATAGGCCATATGAAA
* * *
68467544 GTGATTAGGCCTGATGGGCCATATGAAT
1 GTGATTGGGCCTGATAGGCCATATGAAA
*
68467572 GAGATTGGGCCT
1 GTGATTGGGCCT
68467584 AAAGGGAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTGATAGGCCATATGAAA
Found at i:68473865 original size:21 final size:20
Alignment explanation
Indices: 68473833--68473871 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68473823 GTATGACCCC
*
68473833 TATTTTTAGTTTTTTTTCCA
1 TATTTTTAGTTTTGTTTCCA
*
68473853 TATTTTTCTGTTTTGTTTC
1 TATTTTT-AGTTTTGTTTC
68473872 AGATTAGTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTTTAGTTTTGTTTCCA
Found at i:68479340 original size:46 final size:46
Alignment explanation
Indices: 68479287--68479423 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
68479277 TATATATACA
** * * *
68479287 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
*
68479333 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
68479379 TATCTCATACAGGTTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
68479424 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:68479458 original size:47 final size:47
Alignment explanation
Indices: 68479397--68479722 Score: 384
Period size: 47 Copynumber: 7.1 Consensus size: 47
68479387 ACAGGTTTCG
* *
68479397 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
68479444 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
68479491 CATTGGCCATTCGGCCTTATCACACATACACATG-----ATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
** **
68479533 CATTGGCCATTCGGCCTTATCACACGTACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
68479580 CATTGGCCATTC-G----ATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
68479622 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA
* * **
68479673 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
68479720 CAT
1 CAT
68479723 AAAATCCTAA
Statistics
Matches: 246, Mismatches: 19, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
42 80 0.33
43 1 0.00
46 1 0.00
47 122 0.50
49 2 0.01
51 40 0.16
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:68479536 original size:42 final size:43
Alignment explanation
Indices: 68479435--68479649 Score: 226
Period size: 42 Copynumber: 4.9 Consensus size: 43
68479425 TACATGTTCA
* * *
68479435 CATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATG
1 CATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
*
68479478 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATG
1 ----CATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
*
68479525 -ATTCATCACATTGGCCATTCGGCCTTATCACACGTACGCATG
1 CATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
68479567 TTCACATTCATCACATTGGCCATTC-G----ATCACACATACGCATG
1 ----CATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
*
68479609 TTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATA
1 ----CATTCATCACATTGGCCATTCGGCCTTATCACACATA
68479650 TATATACAGG
Statistics
Matches: 150, Mismatches: 8, Indels: 20
0.84 0.04 0.11
Matches are distributed among these distances:
42 80 0.53
43 1 0.01
46 1 0.01
47 68 0.45
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (43 bp):
CATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
Found at i:68479543 original size:89 final size:90
Alignment explanation
Indices: 68479397--68479693 Score: 336
Period size: 89 Copynumber: 3.2 Consensus size: 90
68479387 ACAGGTTTCG
* * * *
68479397 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATG----CATTCATCACATTGGCCATTCGGCCTT
*
68479462 ATCTCATATATGCATGTTCACATTCATCA
62 ATCACATATATGCATGTTCACATTCATCA
68479491 CATTGGCCATTCGGCCTTATCACACATACACATG-ATTCATCACATTGGCCATTCGGCCTTATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGCATTCATCACATTGGCCATTCGGCCTTATCA
** *
68479555 CACGTACGCATGTTCACATTCATCA
66 CATATATGCATGTTCACATTCATCA
*
68479580 CATTGGCCATTC-G----ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATG----CATTCATCACATTGGCCATTCGGCCTT
* *
68479640 ATCACGCATATATATACAGGTTCACATTCATCA
62 ATCA--C--ATATATGCATGTTCACATTCATCA
*
68479673 CATTTGCCATTCGGCCTTATC
1 CATTGGCCATTCGGCCTTATC
68479694 TCATATATAC
Statistics
Matches: 174, Mismatches: 15, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
84 15 0.09
88 1 0.01
89 93 0.53
91 1 0.01
93 30 0.17
94 31 0.18
98 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (90 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGCATTCATCACATTGGCCATTCGGCCTTATCA
CATATATGCATGTTCACATTCATCA
Found at i:68479666 original size:51 final size:48
Alignment explanation
Indices: 68479608--68479722 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 48
68479598 ACATACGCAT
*
68479608 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACA
1 GTTCACATTCATCACATTGGCCATTCGGCCTTAT--CGCATATATACACA
* *
68479658 GGTTCACATTCATCACATTTGCCATTCGGCCTTATCTCATATATACACA
1 -GTTCACATTCATCACATTGGCCATTCGGCCTTATCGCATATATACACA
68479707 -TTCACATTCATCACAT
1 GTTCACATTCATCACAT
68479723 AAAATCCTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
47 16 0.26
49 12 0.20
51 33 0.54
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (48 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCGCATATATACACA
Found at i:68483626 original size:15 final size:15
Alignment explanation
Indices: 68483602--68483632 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68483592 GTATTGATTG
*
68483602 AATGCTTGTGTATGA
1 AATGCATGTGTATGA
68483617 AATGCATGTGTATGA
1 AATGCATGTGTATGA
68483632 A
1 A
68483633 TTATGAGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (15 bp):
AATGCATGTGTATGA
Found at i:68490690 original size:30 final size:30
Alignment explanation
Indices: 68490650--68490740 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
68490640 TACAAGGGTT
* *
68490650 ACACGACTGTGTGGCCAGGCCATGCGCCGC
1 ACACGGCTGTGTGGCCAGGCCATGTGCCGC
*
68490680 ACACGGCTGTGTGGCCAGGCCGTGTGCCGC
1 ACACGGCTGTGTGGCCAGGCCATGTGCCGC
*
68490710 ACAC-GCTATGTGGCCAGGCCATGTGCCGC
1 ACACGGCTGTGTGGCCAGGCCATGTGCCGC
68490739 AC
1 AC
68490741 GTGACTGAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 25 0.45
30 31 0.55
ACGTcount: A:0.15, C:0.35, G:0.34, T:0.15
Consensus pattern (30 bp):
ACACGGCTGTGTGGCCAGGCCATGTGCCGC
Found at i:68499758 original size:132 final size:132
Alignment explanation
Indices: 68499508--68499770 Score: 429
Period size: 132 Copynumber: 2.0 Consensus size: 132
68499498 ATACAATTGG
68499508 CATGCCAATAGGTTATATTGCACGCTGTATGGGATTGACTTATGATGAGATGATGATTCCTGACT
1 CATGCCAATAGGTTATATTGCACGCTGTATGGGATTGACTTATGATGAGATGATGATTCCTGACT
* * **
68499573 TGGTACTATCCACTGATTATACCGGAGTCCAACACTTGGTGTGTTTCGGGAGGATGTTAGCCTAC
66 TGGTACTATCCACTGATTATACCGAAGTCCAACACTTGGTATGTTTCAAGAGGATGTTAGCCTAC
68499638 GA
131 GA
*
68499640 CATGCCAATAGGTTATATTGCACGTTGTATGGGATTGACTTATGATGAGATGATGATTCCTGACT
1 CATGCCAATAGGTTATATTGCACGCTGTATGGGATTGACTTATGATGAGATGATGATTCCTGACT
* * * *
68499705 TGTTACTATCCACTGATTCTACTGAATTCCAACACTTGGTATG-TTCTAAGAGGATGTTAGCCTA
66 TGGTACTATCCACTGATTATACCGAAGTCCAACACTTGGTATGTTTC-AAGAGGATGTTAGCCTA
68499769 CG
130 CG
68499771 GGCTGGGCAC
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
131 3 0.02
132 118 0.98
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (132 bp):
CATGCCAATAGGTTATATTGCACGCTGTATGGGATTGACTTATGATGAGATGATGATTCCTGACT
TGGTACTATCCACTGATTATACCGAAGTCCAACACTTGGTATGTTTCAAGAGGATGTTAGCCTAC
GA
Found at i:68509920 original size:81 final size:80
Alignment explanation
Indices: 68509766--68509944 Score: 263
Period size: 81 Copynumber: 2.2 Consensus size: 80
68509756 AAGCCAAGTA
* * * *
68509766 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
*
68509830 TAACTCGCACCAATG
66 TAACTCGCACAAATG
* *
68509845 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTC-GGGACATAGCCCGGATAT
68509909 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
68509926 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
68509945 TTATCATCCA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 13 0.14
80 26 0.29
81 51 0.57
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:68509948 original size:40 final size:40
Alignment explanation
Indices: 68509766--68509944 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
68509756 AAGCCAAGTA
* * * *
68509766 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
68509805 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
68509845 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
68509885 CCTTCGGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
68509926 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
68509945 TTATCATCCA
Statistics
Matches: 129, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 12 0.09
40 78 0.60
41 39 0.30
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:68511771 original size:39 final size:39
Alignment explanation
Indices: 68511727--68511852 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
68511717 TATGAGATTG
68511727 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
68511766 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
68511805 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
68511844 AAAATATCC
1 AAAATATCC
68511853 AGGTTAAAGA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:68516855 original size:46 final size:45
Alignment explanation
Indices: 68516803--68516977 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
68516793 ATTTGGGCAT
*
68516803 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GC
*** * *
68516849 CTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-C
1 CTGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGC
* *
68516896 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GC
* * *
68516942 CTGAGCTCATTGATTTGAGTCCGAGTTCACTTATGG
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68516978 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGC
Found at i:68518425 original size:37 final size:37
Alignment explanation
Indices: 68518366--68518498 Score: 212
Period size: 37 Copynumber: 3.6 Consensus size: 37
68518356 AGCTCAGACG
* * *
68518366 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
68518403 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
68518440 TAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
68518477 TAATCTCCACACGTAGTCATCG
1 AAATCTCCACACGTAGTCATCG
68518499 TTTAATCACA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:68518554 original size:37 final size:37
Alignment explanation
Indices: 68518504--68518578 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
68518494 CATCGTTTAA
68518504 TCACATGTTACAACATTCACATCGACTATCATATTTG
1 TCACATGTTACAACATTCACATCGACTATCATATTTG
*
68518541 TCACATGTTACAACATTCACATCGACTGTCATATTTG
1 TCACATGTTACAACATTCACATCGACTATCATATTTG
68518578 T
1 T
68518579 AATTCATTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (37 bp):
TCACATGTTACAACATTCACATCGACTATCATATTTG
Found at i:68529295 original size:28 final size:28
Alignment explanation
Indices: 68529251--68529342 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 28
68529241 GGAAGTAGTT
*
68529251 GGGCCTGATGGACCATATGAATGTGATC
1 GGGCCTAATGGACCATATGAATGTGATC
*
68529279 GGGCCTAATGCGA-CATATGAATGTGATT
1 GGGCCTAATG-GACCATATGAATGTGATC
** * * * *
68529307 GGGCCCGATGGGCCATATGAAAGAGATT
1 GGGCCTAATGGACCATATGAATGTGATC
68529335 GGGCCTAA
1 GGGCCTAA
68529343 ACGGGCCAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 1 0.02
28 50 0.94
29 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (28 bp):
GGGCCTAATGGACCATATGAATGTGATC
Found at i:68529711 original size:27 final size:27
Alignment explanation
Indices: 68529680--68529960 Score: 273
Period size: 27 Copynumber: 10.5 Consensus size: 27
68529670 CCAAGGTTTG
68529680 TACCGAAATACCCTCGATTTGTAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
* * *
68529707 TACCG-AGTACCCCCGATTTGAAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
* * *
68529733 TACCGAAATATCATTGATTTGTAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
* *
68529760 T-CGTGAAATACCCTCGATTTGCAAAAT
1 TAC-CGAAATACCCTCGATTTGTAAAAT
** * *
68529787 TATTGAAATACCCTTGATTCGTAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
** *
68529814 TACCGAAATACTATC-AATTGTAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
* *
68529840 TACTGAAATACCCTCAATTTGTAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
** *
68529867 TACCGAACCACCCTCAATTTGTAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
*
68529894 TACTGAAATACCCTCGATTTGTAAAAT
1 TACCGAAATACCCTCGATTTGTAAAAT
** * *
68529921 TATTGAAATACCCTTG-TAGTGTAAAAT
1 TACCGAAATACCCTCGAT-TTGTAAAAT
* *
68529948 GACCGACATACCC
1 TACCGAAATACCC
68529961 CTGTAGGGTA
Statistics
Matches: 206, Mismatches: 43, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
26 46 0.22
27 160 0.78
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TACCGAAATACCCTCGATTTGTAAAAT
Found at i:68529839 original size:107 final size:108
Alignment explanation
Indices: 68529684--68529932 Score: 279
Period size: 107 Copynumber: 2.3 Consensus size: 108
68529674 GGTTTGTACC
* * * * *
68529684 GAAATACCCTCGATTTGTAAAATTACCG-AGTACCCCCGATTTGAAAAATTACCGAAATATCATT
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCACCGAATTGAAAAATTACCGAAATACCATC
* * * * *
68529748 GATTTGTAAAATT-CGTGAAATACCCTCGATTTGCAAAATTATT
66 AATTTGTAAAATTAC-CGAAACACCCTCAATTTGCAAAATTACT
* * * * * * *
68529791 GAAATACCCTTGATTCGTAAAATTACCGAAATACTATC-AATTGTAAAATTACTGAAATACCCTC
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCACCGAATTGAAAAATTACCGAAATACCATC
* *
68529855 AATTTGTAAAATTACCGAACCACCCTCAATTTGTAAAATTACT
66 AATTTGTAAAATTACCGAAACACCCTCAATTTGCAAAATTACT
**
68529898 GAAATACCCTCGATTTGTAAAATTATTGAAATACC
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACC
68529933 CTTGTAGTGT
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
107 110 0.95
108 6 0.05
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (108 bp):
GAAATACCCTCGATTTGTAAAATTACCGAAATACCACCGAATTGAAAAATTACCGAAATACCATC
AATTTGTAAAATTACCGAAACACCCTCAATTTGCAAAATTACT
Found at i:68536554 original size:20 final size:21
Alignment explanation
Indices: 68536512--68536554 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
68536502 AAAGAGAAAT
68536512 TACCAAAATACCCTCGATTTG
1 TACCAAAATACCCTCGATTTG
* *
68536533 TACCGAAATACCC-CGGTTTG
1 TACCAAAATACCCTCGATTTG
68536553 TA
1 TA
68536555 GAATTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (21 bp):
TACCAAAATACCCTCGATTTG
Found at i:68537556 original size:27 final size:27
Alignment explanation
Indices: 68536570--68537543 Score: 1631
Period size: 27 Copynumber: 36.1 Consensus size: 27
68536560 ACCAAAGTAC
* **
68536570 CCCT-GATTTGAAAAATTACCGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
** * *
68536596 CCC-CTGGCTTGTGAAATTATCGAAATA
1 CCCTC-GATTTGTAAAATTATAGAAATA
* *
68536623 TCCT-TATTTTGTAAAATTACTA-AAATA
1 CCCTCGA-TTTGTAAAATTA-TAGAAATA
* * *
68536650 CCCTCAATTTCTAAAGTTATCA-AAATA
1 CCCTCGATTTGTAAAATTAT-AGAAATA
* *
68536677 CCGTC-AATTGTAAAATTACTA-AAATA
1 CCCTCGATTTGTAAAATTA-TAGAAATA
* ** ** **
68536703 CCCTCAATTTGTTTAATTACCGAACCA
1 CCCTCGATTTGTAAAATTATAGAAATA
*
68536730 CCCTCAATTTGTAAAATTACT-GAAATA
1 CCCTCGATTTGTAAAATTA-TAGAAATA
68536757 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536784 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536811 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536838 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536865 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536892 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536919 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536946 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68536973 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537000 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537027 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537054 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537081 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537108 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537135 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537162 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537189 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537216 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537243 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537270 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537297 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537324 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537351 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537378 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537405 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537432 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537459 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537486 CCCTCGATTTGTAAAATTATAGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
*
68537513 CCCTCGATTTGTAAAATTATTGAAATA
1 CCCTCGATTTGTAAAATTATAGAAATA
68537540 CCCT
1 CCCT
68537544 TGTAGTGTAA
Statistics
Matches: 902, Mismatches: 34, Indels: 23
0.94 0.04 0.02
Matches are distributed among these distances:
26 25 0.03
27 875 0.97
28 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (27 bp):
CCCTCGATTTGTAAAATTATAGAAATA
Found at i:68537567 original size:27 final size:27
Alignment explanation
Indices: 68537522--68537587 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
68537512 ACCCTCGATT
* * * *
68537522 TGTAAAATTATTGAAATACCCTTGTAG
1 TGTAAAATGACTGAAATACCCCTATAG
*
68537549 TGTAAAATGACTGACATACCCCTATAG
1 TGTAAAATGACTGAAATACCCCTATAG
*
68537576 GGTAAAATGACT
1 TGTAAAATGACT
68537588 ATTTTTCCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (27 bp):
TGTAAAATGACTGAAATACCCCTATAG
Found at i:68543896 original size:42 final size:41
Alignment explanation
Indices: 68543850--68543958 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 41
68543840 AGATTACGTG
* * *
68543850 TAAGACCATATCTGGGATATGGCATCAATGTGAGACTTCGTA
1 TAAGACCATATCTGGGATATGGCATCAATATGAGA-TCCATA
* * * *
68543892 TAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCATG
1 TAAGACCATATCTGGGATA-TGGCATCAATATGAGATCCATA
*
68543934 TAAGACCATATCTAGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
68543959 TGGTATGGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 6 0.11
42 36 0.64
43 14 0.25
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (41 bp):
TAAGACCATATCTGGGATATGGCATCAATATGAGATCCATA
Found at i:68544021 original size:68 final size:68
Alignment explanation
Indices: 68543906--68544037 Score: 248
Period size: 68 Copynumber: 1.9 Consensus size: 68
68543896 ACCATAGCTG
68543906 GGCTATTGGCATCGATATGAGATCCATGTAAGACCATATCTAGGATATGGCATTGGTATGGTAAC
1 GGCTATTGGCATCGATATGAGATCCATGTAAGACCATATCTAGGATATGGCATTGGTATGGTAAC
68543971 GTA
66 GTA
68543974 GGCTATTGGCATCGATATGAGATCCATGTAAGACCATATCT-GAGATATGGCATTGGTATGGTAA
1 GGCTATTGGCATCGATATGAGATCCATGTAAGACCATATCTAG-GATATGGCATTGGTATGGTAA
68544038 TGTATATGTG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 1 0.02
68 62 0.98
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (68 bp):
GGCTATTGGCATCGATATGAGATCCATGTAAGACCATATCTAGGATATGGCATTGGTATGGTAAC
GTA
Found at i:68545173 original size:25 final size:26
Alignment explanation
Indices: 68545105--68545174 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
68545095 CTCTTTTAAT
* *
68545105 AACTAGGGCAGAGCCC-TTCCTGATA
1 AACTGGGGCAGAGCCCTTTTCTGATA
* *
68545130 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAGAGCCCTTTTCTGATA
68545155 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
68545175 AGTACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 36 0.92
26 3 0.08
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAGAGCCCTTTTCTGATA
Found at i:68546050 original size:26 final size:26
Alignment explanation
Indices: 68545987--68546085 Score: 74
Period size: 27 Copynumber: 3.7 Consensus size: 26
68545977 CATATTCGTT
68545987 ATTTTACCATACAAGGGTATTACGGTC
1 ATTTTACC-TACAAGGGTATTACGGTC
* *
68546014 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTA-CCTACAAGGG-TATTACGGTC
* * ***
68546041 TTTTTACCTATTAAGGGTATTTTAGTC
1 ATTTTACCTA-CAAGGGTATTACGGTC
*
68546068 ATTTCATCCTACAAGGGT
1 ATTTTA-CCTACAAGGGT
68546086 GTTTTGGTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
26 5 0.09
27 43 0.78
28 7 0.13
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (26 bp):
ATTTTACCTACAAGGGTATTACGGTC
Found at i:68546132 original size:27 final size:27
Alignment explanation
Indices: 68546102--68546187 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
68546092 GTAAATCTAC
68546102 AAACCAATGGTATTTCAGTAATTTTGT
1 AAACCAATGGTATTTCAGTAATTTTGT
*
68546129 AAACCAATGGTATTTCTA-TAGTTTT-T
1 AAACCAATGGTATTTC-AGTAATTTTGT
* * *
68546155 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAATGGTATTTCAGTAATTTTGT
68546185 AAA
1 AAA
68546188 TCAGGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.46
28 7 0.15
29 17 0.35
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAATGGTATTTCAGTAATTTTGT
Found at i:68546205 original size:27 final size:26
Alignment explanation
Indices: 68546165--68546348 Score: 172
Period size: 27 Copynumber: 6.8 Consensus size: 26
68546155 AGAAAGTCAA
**
68546165 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAA-CAG
**
68546192 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAACAG
* *
68546218 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-CAG
* *
68546246 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
68546273 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
* **
68546300 GGGTATTTTGGTAATTCTATCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAG
** *
68546327 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
68546349 TCGAGGGTAA
Statistics
Matches: 131, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.03
27 123 0.94
28 4 0.03
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:68546251 original size:54 final size:53
Alignment explanation
Indices: 68546164--68546315 Score: 196
Period size: 54 Copynumber: 2.8 Consensus size: 53
68546154 TAGAAAGTCA
* ** * *
68546164 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT
* * *
68546217 GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT
* *
68546271 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATT
68546316 CTATCCTACA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 83 0.99
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT
Done.