Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 36 of 50
Found at i:15892260 original size:2 final size:2
Alignment explanation
Indices: 15892253--15892299 Score: 53
Period size: 2 Copynumber: 23.5 Consensus size: 2
15892243 CATTAATTTC
*
15892253 AT AT AT AT AT AT AT AT A- AT AA AGT CAT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T -AT AT AT AT AT AT AT AT AT
15892295 AT AT A
1 AT AT A
15892300 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 2 0.05
2 35 0.90
3 1 0.03
4 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:15901873 original size:24 final size:24
Alignment explanation
Indices: 15901844--15901892 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
15901834 GGAAGTAAAA
15901844 ACTATCTAGGGGCAGTTTTGGAAC
1 ACTATCTAGGGGCAGTTTTGGAAC
*
15901868 ACTATCTAGGGGCATTTTTGGAAC
1 ACTATCTAGGGGCAGTTTTGGAAC
15901892 A
1 A
15901893 TTAACTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (24 bp):
ACTATCTAGGGGCAGTTTTGGAAC
Found at i:15902378 original size:23 final size:25
Alignment explanation
Indices: 15902360--15902408 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15902350 AATAAAATTT
15902360 GCTAGAATGAATAAGTAAAATATGA
1 GCTAGAATGAATAAGTAAAATATGA
* *
15902385 GCTGGAATGAATAAGCAAAATATG
1 GCTAGAATGAATAAGTAAAATATG
15902409 CACACACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.22
Consensus pattern (25 bp):
GCTAGAATGAATAAGTAAAATATGA
Found at i:15905117 original size:29 final size:29
Alignment explanation
Indices: 15905082--15905139 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
15905072 TTTAACTCAA
*
15905082 AATAAAAATATAAAAATTTAATTAAATTT
1 AATAAAAAAATAAAAATTTAATTAAATTT
* * *
15905111 AATAAAAAAATAAGAATTTATTTGAATTT
1 AATAAAAAAATAAAAATTTAATTAAATTT
15905140 TCTTAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
AATAAAAAAATAAAAATTTAATTAAATTT
Found at i:15918920 original size:38 final size:38
Alignment explanation
Indices: 15918876--15918973 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
15918866 ACCCTTTATT
* *
15918876 TTGGTTAAAGTATAACCACTCAAATAGTACCA-TTTTAA
1 TTGGTTAAAGTATAATCACTCAAATACTA-CATTTTTAA
*
15918914 TTGGTTAAGGTATAATCACTCAAATACTACATTTTTAA
1 TTGGTTAAAGTATAATCACTCAAATACTACATTTTTAA
**
15918952 TCAGTT-AAGTATAATCACTCAA
1 TTGGTTAAAGTATAATCACTCAA
15918974 GAGAATACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 17 0.32
38 36 0.68
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (38 bp):
TTGGTTAAAGTATAATCACTCAAATACTACATTTTTAA
Found at i:15921300 original size:21 final size:22
Alignment explanation
Indices: 15921265--15921313 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
15921255 TACATTTTGT
*
15921265 CACTTATTTCCTTGAATTTTCA
1 CACTTATTCCCTTGAATTTTCA
15921287 CACTT-TTCCCTTGAATTTTTC-
1 CACTTATTCCCTTGAA-TTTTCA
15921308 CACTTA
1 CACTTA
15921314 GGGTTTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (22 bp):
CACTTATTCCCTTGAATTTTCA
Found at i:15926387 original size:16 final size:17
Alignment explanation
Indices: 15926358--15926399 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
15926348 CAAAATTTAG
*
15926358 ATTTTGATTCTTTTGA-
1 ATTTTTATTCTTTTGAT
*
15926374 ATTTTTATTTTTTTGAT
1 ATTTTTATTCTTTTGAT
15926391 ATTTTTATT
1 ATTTTTATT
15926400 GAATCGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (17 bp):
ATTTTTATTCTTTTGAT
Found at i:15926595 original size:21 final size:21
Alignment explanation
Indices: 15926571--15926643 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
15926561 TCTATTTCAA
* *
15926571 ATGTATCGATATATGTTCATG
1 ATGTATCGATACATGTTCATC
* *
15926592 ATGTATCGATACAT-ATGATC
1 ATGTATCGATACATGTTCATC
*
15926612 ATGTATCAATACATGTTCATC
1 ATGTATCGATACATGTTCATC
*
15926633 ATGTATTGATA
1 ATGTATCGATA
15926644 TAATTTTTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 16 0.38
21 26 0.62
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATGTTCATC
Found at i:15930428 original size:2 final size:2
Alignment explanation
Indices: 15930421--15930450 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15930411 CTTAATTTTG
15930421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15930451 TTGTCTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15931069 original size:2 final size:2
Alignment explanation
Indices: 15931062--15931086 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15931052 CCAAATACCT
15931062 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15931087 TACTCTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15955716 original size:28 final size:27
Alignment explanation
Indices: 15955685--15955738 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
15955675 TTTTAGAGTA
*
15955685 TAGGGGAAAAATGGTAATTTTGCCACCC
1 TAGGGGAAAAATAGTAATTTT-CCACCC
*
15955713 TAGGGGCAAAATAGTAATTTTCCACC
1 TAGGGGAAAAATAGTAATTTTCCACC
15955739 ACCAGGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
TAGGGGAAAAATAGTAATTTTCCACCC
Found at i:15960148 original size:2 final size:2
Alignment explanation
Indices: 15960141--15960171 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15960131 TTTAAATTGT
15960141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15960172 TCTTATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15960369 original size:21 final size:20
Alignment explanation
Indices: 15960345--15960405 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 20
15960335 AAATATATAT
15960345 AATAAAAAATTAATCAAAATA
1 AATAAAAAATTAAT-AAAATA
* *
15960366 AATAAATAAAATAATTAAATA
1 AATAAA-AAATTAATAAAATA
15960387 ATATAATAAAATTAA-AAAA
1 A-ATAA-AAAATTAATAAAA
15960406 AAAGAAAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 15 0.45
22 17 0.52
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAAAAAATTAATAAAATA
Found at i:15960381 original size:26 final size:26
Alignment explanation
Indices: 15960334--15960383 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
15960324 TCTCCAAATA
*
15960334 AAAATATATATAATAAAAAATTAATC
1 AAAATAAATATAATAAAAAATTAATC
15960360 AAAATAAATA-AATAAAATAATTAA
1 AAAATAAATATAATAAAA-AATTAA
15960384 ATAATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAATAAATATAATAAAAAATTAATC
Found at i:15960392 original size:26 final size:25
Alignment explanation
Indices: 15960332--15960405 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 25
15960322 ATTCTCCAAA
*
15960332 TAAA-AATATATAT-AATAAAAAAT
1 TAAATAATATAAATAAATAAAAAAT
*
15960355 T-AATCAAAATAAATAAATAAAATAAT
1 TAAAT-AATATAAATAAATAAAA-AAT
15960381 TAAATAATAT-AATAAAATTAAAAAA
1 TAAATAATATAAAT-AAA-TAAAAAA
15960406 AAAGAAAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 7 0.17
25 10 0.24
26 13 0.32
27 8 0.20
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (25 bp):
TAAATAATATAAATAAATAAAAAAT
Found at i:15960398 original size:13 final size:13
Alignment explanation
Indices: 15960334--15960398 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 13
15960324 TCTCCAAATA
15960334 AAAATATATATAAT
1 AAAATA-ATATAAT
15960348 AAAA-AAT-TAAT
1 AAAATAATATAAT
*
15960359 -CAA-AATA-AAT
1 AAAATAATATAAT
*
15960369 -AAATAAAATAAT
1 AAAATAATATAAT
*
15960381 TAAATAATATAAT
1 AAAATAATATAAT
15960394 AAAAT
1 AAAAT
15960399 TAAAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 10 0.24
11 7 0.17
12 5 0.12
13 16 0.38
14 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATAATATAAT
Found at i:15961742 original size:5 final size:5
Alignment explanation
Indices: 15961719--15961755 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
15961709 AAAAGTCAAT
15961719 AAAT- AAAT- AAATGA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AAA
15961756 AGTATAAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.26
5 19 0.61
6 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:15962104 original size:13 final size:14
Alignment explanation
Indices: 15962086--15962114 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15962076 AATAATAATT
15962086 ATGAAATAAA-AAA
1 ATGAAATAAATAAA
15962099 ATGAAATAAATAAA
1 ATGAAATAAATAAA
15962113 AT
1 AT
15962115 AAAAATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
ATGAAATAAATAAA
Found at i:15966572 original size:13 final size:13
Alignment explanation
Indices: 15966554--15966578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15966544 TTTCTAAAAA
15966554 TTTATAAAATCAT
1 TTTATAAAATCAT
15966567 TTTATAAAATCA
1 TTTATAAAATCA
15966579 CATTTATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15969018 original size:27 final size:26
Alignment explanation
Indices: 15968991--15969043 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
15968981 TAGCGTATAA
15968991 TAAAATAACTCACTAAAAATAAACTAAT
1 TAAAA-AACTCACTAAAAAT-AACTAAT
* *
15969019 TACAAAAGTCACTAAAAATAACTAA
1 TAAAAAACTCACTAAAAATAACTAA
15969044 ATTCTAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 13 0.57
28 4 0.17
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (26 bp):
TAAAAAACTCACTAAAAATAACTAAT
Found at i:15973647 original size:31 final size:30
Alignment explanation
Indices: 15973605--15973712 Score: 171
Period size: 31 Copynumber: 3.5 Consensus size: 30
15973595 GTCAAAGCAA
*
15973605 AAACTAAACCTAACTTACGTACCATGAAGT
1 AAACTAAACCTAACTTACCTACCATGAAGT
*
15973635 AAGAGTAAACCTAACTTACCTACCATGAAGTT
1 AA-ACTAAACCTAACTTACCTACCATGAAG-T
15973667 AAACTAAACCTAACTTACCTACCATGAAGT
1 AAACTAAACCTAACTTACCTACCATGAAGT
15973697 AAAACTAAACCTAACT
1 -AAACTAAACCTAACT
15973713 CGAGCTGTGC
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
30 3 0.04
31 66 0.92
32 3 0.04
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.23
Consensus pattern (30 bp):
AAACTAAACCTAACTTACCTACCATGAAGT
Found at i:15976171 original size:18 final size:17
Alignment explanation
Indices: 15976139--15976173 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15976129 TAAGGAACGA
*
15976139 AAATTTTATATATATTT
1 AAATTTTACATATATTT
15976156 AAATTTATACATATATTT
1 AAATTT-TACATATATTT
15976174 TATGAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATTTTACATATATTT
Found at i:15987734 original size:10 final size:8
Alignment explanation
Indices: 15987702--15987731 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
15987692 TTTAAAAATT
15987702 ATTTTAAA
1 ATTTTAAA
15987710 ATTTTAAA
1 ATTTTAAA
15987718 ATTTTAAA
1 ATTTTAAA
15987726 TATTTT
1 -ATTTT
15987732 TAATTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTTAAA
Found at i:15987868 original size:18 final size:18
Alignment explanation
Indices: 15987847--15987882 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15987837 ATCCACGTAG
15987847 CATTAACTTGAAAGTTGA
1 CATTAACTTGAAAGTTGA
* *
15987865 CATTAATTTGGAAGTTGA
1 CATTAACTTGAAAGTTGA
15987883 AAATGTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (18 bp):
CATTAACTTGAAAGTTGA
Found at i:15989343 original size:2 final size:2
Alignment explanation
Indices: 15989336--15989377 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15989326 ACCTTGCACA
15989336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15989378 TGAATTTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15990425 original size:26 final size:27
Alignment explanation
Indices: 15990396--15990448 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
15990386 ATGTTGAGTT
* * *
15990396 ATTTTATTTTAAGTTG-TTTTAGTTTA
1 ATTTTATATTAAATTGCTTTTAATTTA
15990422 ATTTTATATTAAATTGCTTTTAATTTA
1 ATTTTATATTAAATTGCTTTTAATTTA
15990449 GTTATTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (27 bp):
ATTTTATATTAAATTGCTTTTAATTTA
Found at i:15993542 original size:25 final size:24
Alignment explanation
Indices: 15993514--15993562 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
15993504 AGTTTTTAGA
* *
15993514 TTTTTATGTTTCTGTTTATGATTTT
1 TTTTTATGTTTATGCTTATG-TTTT
15993539 TTTTTATGTTTATGCTTATGTTTT
1 TTTTTATGTTTATGCTTATGTTTT
15993563 GAAGTTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.12, C:0.04, G:0.12, T:0.71
Consensus pattern (24 bp):
TTTTTATGTTTATGCTTATGTTTT
Found at i:15993550 original size:19 final size:21
Alignment explanation
Indices: 15993508--15993552 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
15993498 TTTTGAAGTT
*
15993508 TTTA-GATTTTTATGTTTCTG
1 TTTATGATTTTTATGTTTATG
15993528 TTTATGATTTTT-T-TTTATG
1 TTTATGATTTTTATGTTTATG
15993547 TTTATG
1 TTTATG
15993553 CTTATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 5 0.22
21 7 0.30
ACGTcount: A:0.16, C:0.02, G:0.13, T:0.69
Consensus pattern (21 bp):
TTTATGATTTTTATGTTTATG
Found at i:15995700 original size:19 final size:19
Alignment explanation
Indices: 15995678--15995715 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15995668 CCATTTGACT
*
15995678 TATTGGAGTATGATTTGAG
1 TATTGGAGTACGATTTGAG
15995697 TATTGGAGTACGATTTGAG
1 TATTGGAGTACGATTTGAG
15995716 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.32, T:0.39
Consensus pattern (19 bp):
TATTGGAGTACGATTTGAG
Found at i:16006609 original size:36 final size:36
Alignment explanation
Indices: 16006569--16006668 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 36
16006559 ACAATATCAA
* *
16006569 GTCACGCCCCATTGCTATAGCAAACGACATAGTCAT
1 GTCACGCCCCATTGCCATAGCAAACGACAGAGTCAT
* * ** *
16006605 GTCACGGCCCATTGCCAAAGCAAACGATGGAGTCTT
1 GTCACGCCCCATTGCCATAGCAAACGACAGAGTCAT
16006641 GTCGA-GCCCCATTGCCATAGCAAACGAC
1 GTC-ACGCCCCATTGCCATAGCAAACGAC
16006669 GAAGTTTATA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 52 0.98
37 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (36 bp):
GTCACGCCCCATTGCCATAGCAAACGACAGAGTCAT
Found at i:16008711 original size:28 final size:27
Alignment explanation
Indices: 16008680--16008732 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
16008670 GTATAGAGGT
* *
16008680 AAAATGGTAATTTTGCCACCCCAAGGGA
1 AAAATGATAATTTT-CCACCACAAGGGA
*
16008708 AAAATTATAATTTTCCACCACAAGG
1 AAAATGATAATTTTCCACCACAAGG
16008733 ACATTTGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (27 bp):
AAAATGATAATTTTCCACCACAAGGGA
Found at i:16016155 original size:2 final size:2
Alignment explanation
Indices: 16016148--16016178 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16016138 GTGAGTAAGT
16016148 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16016179 CAAGATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16017969 original size:28 final size:28
Alignment explanation
Indices: 16017904--16018081 Score: 214
Period size: 28 Copynumber: 6.2 Consensus size: 28
16017894 TTAAGACAAC
* *
16017904 TCTTGTCTTTAATTAAGACAAAACATGTTA
1 TCTTGTC-TAAATTAAGAC-AAACATGTTT
*
16017934 TCTTGTCTAAATTGAGACAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* * *
16017962 T-TTGGTCTAGATTAAGAAAAACATATTTT
1 TCTT-GTCTAAATTAAGACAAACAT-GTTT
*
16017991 TCTTGTTTTAAATTAAGACAAACATGTTT
1 TCTTG-TCTAAATTAAGACAAACATGTTT
* *
16018020 TCTTGCCTAAATTAAGACAAATATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
16018048 TCTTGCCTAAATTAAGACAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
16018076 TCTTGT
1 TCTTGT
16018082 GTAACACCCT
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
27 2 0.02
28 79 0.62
29 22 0.17
30 25 0.20
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:16018062 original size:86 final size:86
Alignment explanation
Indices: 16017904--16018081 Score: 236
Period size: 86 Copynumber: 2.1 Consensus size: 86
16017894 TTAAGACAAC
* * *
16017904 TCTTGTCTTTAATTAAGACAAAACATGTTATCTTGTCTAAATTGAGACAAACATGTTTTTTGGTC
1 TCTTGTCTTTAATTAAGACAAAACATGTTATCTTGCCTAAATTAAGACAAACATGTTTTTTGGCC
* *
16017969 TAGATTAAGAAAAACATATTTT
66 TAAATTAAGAAAAACAT-GTTT
* *
16017991 TCTTGT-TTTAAATTAAGAC-AAACATGTTTTCTTGCCTAAATTAAGACAAATATGTTTTCTT-G
1 TCTTGTCTTT-AATTAAGACAAAACATGTTATCTTGCCTAAATTAAGACAAACATGTTTT-TTGG
*
16018053 CCTAAATTAAGACAAACATGTTT
64 CCTAAATTAAGAAAAACATGTTT
16018076 TCTTGT
1 TCTTGT
16018082 GTAACACCCT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
85 9 0.11
86 55 0.68
87 17 0.21
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (86 bp):
TCTTGTCTTTAATTAAGACAAAACATGTTATCTTGCCTAAATTAAGACAAACATGTTTTTTGGCC
TAAATTAAGAAAAACATGTTT
Found at i:16018077 original size:56 final size:56
Alignment explanation
Indices: 16017914--16018080 Score: 203
Period size: 58 Copynumber: 2.9 Consensus size: 56
16017904 TCTTGTCTTT
* * * *
16017914 AATTAAGACAAAACATGTTATCTTGTCTAAATTGAGACAAACATGTTTT-TTGGTCTA
1 AATTAAGAC-AAATATGTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTT-GCCTA
* * *
16017971 GATTAAGAAAAACATAT-TTTTCTTGTTTTAAATTAAGACAAACATGTTTTCTTGCCTA
1 AATTAAG-ACAA-ATATGTTTTCTTG-TCTAAATTAAGACAAACATGTTTTCTTGCCTA
*
16018029 AATTAAGACAAATATGTTTTCTTGCCTAAATTAAGACAAACATGTTTTCTTG
1 AATTAAGACAAATATGTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTG
16018081 TGTAACACCC
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
56 30 0.32
57 26 0.28
58 36 0.38
59 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.39
Consensus pattern (56 bp):
AATTAAGACAAATATGTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGCCTA
Found at i:16021665 original size:30 final size:29
Alignment explanation
Indices: 16021631--16021736 Score: 142
Period size: 29 Copynumber: 3.7 Consensus size: 29
16021621 CATCTTGTCA
*
16021631 AAATTAAGACAAAAGCATGTTTTCTTATTT
1 AAATTAAGACAAAA-CATGTTTTCTTGTTT
* * *
16021661 AAATTAAGACAACACATATTTTCTTGTCT
1 AAATTAAGACAAAACATGTTTTCTTGTTT
* *
16021690 AAATTAAGACAAAACATGTTTTTTTGTTC
1 AAATTAAGACAAAACATGTTTTCTTGTTT
16021719 AAATTAAGAC-AAACATGT
1 AAATTAAGACAAAACATGT
16021737 AAAAACTGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 8 0.12
29 46 0.69
30 13 0.19
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (29 bp):
AAATTAAGACAAAACATGTTTTCTTGTTT
Found at i:16031001 original size:42 final size:42
Alignment explanation
Indices: 16030912--16031041 Score: 95
Period size: 42 Copynumber: 3.1 Consensus size: 42
16030902 TATGATAGTT
* *
16030912 AGGGTAGATTTCCATAATCAATACCCATCTACATTATCATTA
1 AGGGTAGATTTCCATAATCAATACCCATCCACATTATCATCA
* * * *
16030954 TGGGTAGATTTCTATAA-CTAATACCCGTCCACTTTATGC-TCA
1 AGGGTAGATTTCCATAATC-AATACCCATCCACATTAT-CATCA
* * * * * *
16030996 AGGGTAAGGTTGCCATAGTCAATAACTA-CACATATTATCATCA
1 AGGGT-AGATTTCCATAATCAATACCCATC-CACATTATCATCA
16031039 AGG
1 AGG
16031042 ATAATGTTAG
Statistics
Matches: 66, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
41 1 0.02
42 38 0.58
43 26 0.39
44 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
AGGGTAGATTTCCATAATCAATACCCATCCACATTATCATCA
Found at i:16031740 original size:21 final size:20
Alignment explanation
Indices: 16031711--16031749 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16031701 GAAGAACAAA
*
16031711 TATCGAGACATGCAATTGAAG
1 TATCAAGACAT-CAATTGAAG
*
16031732 TATCAAGACCTCAATTGA
1 TATCAAGACATCAATTGA
16031750 GATTGGAAAT
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:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
TATCAAGACATCAATTGAAG
Found at i:16034346 original size:19 final size:19
Alignment explanation
Indices: 16034322--16034358 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16034312 CTTCTAAACT
*
16034322 TCAAATCATACTCGAATAC
1 TCAAATCATACTCCAATAC
16034341 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
16034359 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:16039682 original size:32 final size:32
Alignment explanation
Indices: 16039646--16039772 Score: 130
Period size: 35 Copynumber: 3.8 Consensus size: 32
16039636 TACCGGGATT
*
16039646 AACCAAAACCCAAAGTGATTTTTCAAAGGCTC
1 AACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
* **
16039678 AACCACAACCTTTCACAA-TGGTTTTTCACGGGCTC
1 AACCAAAACC---CA-AAGTGGTTTTTCAAAGGCTC
16039713 AACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
1 AACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
* *
16039745 AACCACAACCTACAACAATGGTTTTTCA
1 AACCAAAACC--CAA-AGTGGTTTTTCA
16039773 CGAGATCCAC
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
31 2 0.03
32 35 0.45
34 3 0.04
35 36 0.46
36 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (32 bp):
AACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
Found at i:16039702 original size:67 final size:67
Alignment explanation
Indices: 16039617--16039792 Score: 248
Period size: 67 Copynumber: 2.6 Consensus size: 67
16039607 GTTTAGCCAA
* *
16039617 AACCTTTCACAATAGTTTTT-ACCGGGATTAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
16039681 CAC
65 CAC
* *
16039684 AACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
16039749 AC
66 AC
* * * *
16039751 AACC-TACAACAATGGTTTTTCACGAGATCCACCAAAATCCAA
1 AACCTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
16039793 CAACTAACTT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
66 2 0.02
67 95 0.97
68 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
AC
Found at i:16039703 original size:35 final size:33
Alignment explanation
Indices: 16039664--16039772 Score: 132
Period size: 35 Copynumber: 3.2 Consensus size: 33
16039654 CCCAAAGTGA
16039664 TTTTTCAAAGGCTCAACCACAACCTTTCACAATGG
1 TTTTTCAAAGGCTCAACCACAACC--TCACAATGG
** *
16039699 TTTTTCACGGGCTCAACCAAAACC-CA-AAGTGG
1 TTTTTCAAAGGCTCAACCACAACCTCACAA-TGG
16039731 TTTTTCAAAGGCTCAACCACAACCTACAACAATGG
1 TTTTTCAAAGGCTCAACCACAACCT-C-ACAATGG
16039766 TTTTTCA
1 TTTTTCA
16039773 CGAGATCCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
31 2 0.03
32 26 0.41
34 1 0.02
35 32 0.51
36 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (33 bp):
TTTTTCAAAGGCTCAACCACAACCTCACAATGG
Found at i:16041480 original size:26 final size:24
Alignment explanation
Indices: 16041433--16041511 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
16041423 CTTAAAACCT
* *
16041433 AAAAACATAAATTC-AAATAAATAA
1 AAAAACAT-AACTCAAAAGAAATAA
16041457 ATGAAAACATAACTCAAAAGAAATAA
1 A--AAAACATAACTCAAAAGAAATAA
*
16041483 AACCAACATAACTCAAAAGAAATAA
1 AA-AAACATAACTCAAAAGAAATAA
16041508 AAAA
1 AAAA
16041512 TATAGCTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
24 3 0.06
25 27 0.57
26 17 0.36
ACGTcount: A:0.68, C:0.13, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAACATAACTCAAAAGAAATAA
Found at i:16042686 original size:2 final size:2
Alignment explanation
Indices: 16042679--16042708 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16042669 AAAGTCCTAC
16042679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16042709 CACATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16043665 original size:2 final size:2
Alignment explanation
Indices: 16043658--16043692 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
16043648 GTACTTACAT
*
16043658 AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
16043693 TATACATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:16043697 original size:10 final size:10
Alignment explanation
Indices: 16043654--16043698 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
16043644 CTAGGTACTT
16043654 ACATACACAC
1 ACATACACAC
16043664 AC--ACACAC
1 ACATACACAC
*
16043672 ACACACACAC
1 ACATACACAC
16043682 ACATACACAC
1 ACATACACAC
*
16043692 ATATACA
1 ACATACA
16043699 TATTCAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 8 0.26
10 23 0.74
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (10 bp):
ACATACACAC
Found at i:16056130 original size:29 final size:29
Alignment explanation
Indices: 16056070--16056206 Score: 140
Period size: 28 Copynumber: 4.8 Consensus size: 29
16056060 CTTTAACATG
16056070 TTTGTCTTAATTT-AGACAAG-AAAATAT
1 TTTGTCTTAATTTAAGACAAGAAAAATAT
*
16056097 GTTTGTTTTAATTTAAGACAAGAAAAATAT
1 -TTTGTCTTAATTTAAGACAAGAAAAATAT
** *
16056127 TTTGTCTTAATGCAA-ACAAGGAAACATA-
1 TTTGTCTTAATTTAAGACAA-GAAAAATAT
*
16056155 TTTGTCTCAATTT-AGACAAGATAAAATATT
1 TTTGTCTTAATTTAAGACAAGA-AAAATA-T
* *
16056185 TTTGTCATAATTAAAGACAAGA
1 TTTGTCTTAATTTAAGACAAGA
16056207 GTTGTCTTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.03
28 35 0.39
29 26 0.29
30 17 0.19
31 8 0.09
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (29 bp):
TTTGTCTTAATTTAAGACAAGAAAAATAT
Found at i:16056159 original size:57 final size:58
Alignment explanation
Indices: 16056070--16056195 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 58
16056060 CTTTAACATG
** * * * * *
16056070 TTTGTCTTAATTTAGACAAGAAAATATGTTTGTTTTAATTTAAGACAAGA-AAAATA-T
1 TTTGTCTTAATGCAAACAAGAAAACATATTTGTCTCAATTT-AGACAAGATAAAATATT
*
16056127 TTTGTCTTAATGCAAACAAGGAAACATATTTGTCTCAATTTAGACAAGATAAAATATT
1 TTTGTCTTAATGCAAACAAGAAAACATATTTGTCTCAATTTAGACAAGATAAAATATT
*
16056185 TTTGTCATAAT
1 TTTGTCTTAAT
16056196 TAAAGACAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 8 0.14
57 39 0.67
58 11 0.19
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (58 bp):
TTTGTCTTAATGCAAACAAGAAAACATATTTGTCTCAATTTAGACAAGATAAAATATT
Found at i:16058817 original size:31 final size:32
Alignment explanation
Indices: 16058782--16058859 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
16058772 ATAAAAACTA
16058782 ATAAATAGT-AAATAA-ATTAAGATAAATAAAC
1 ATAAATAGTAAAATAACATTAAGA-AAATAAAC
* * *
16058813 ATAAA-ATTAAAATAACCTTAATAAAATAAAC
1 ATAAATAGTAAAATAACATTAAGAAAATAAAC
*
16058844 -TAAATAGAAAAATAAC
1 ATAAATAGTAAAATAAC
16058860 TAAATTCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 6 0.15
31 28 0.72
32 5 0.13
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (32 bp):
ATAAATAGTAAAATAACATTAAGAAAATAAAC
Found at i:16061297 original size:13 final size:13
Alignment explanation
Indices: 16061279--16061303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16061269 TTTTAAAAAA
16061279 TTTATAAAATCAT
1 TTTATAAAATCAT
16061292 TTTATAAAATCA
1 TTTATAAAATCA
16061304 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:16062068 original size:75 final size:74
Alignment explanation
Indices: 16061945--16062093 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 74
16061935 CATGCTTCTC
*
16061945 AACCATGGAAATTAAGAAAAAATGCATGGGTAAGGTAAATCACTAGCAAAATCAAAGAAATTTTA
1 AACCATGGAAATTAAGAAAAAATACATGGGTAAGGTAAATCACTAGCAAAATCAAAGAAATTTTA
16062010 CCTTTGCTT
66 CCTTTGCTT
16062019 NAACCATGGAAATTAAGAAAAAATACATGGGTAAGGTAAATCACTAGCAAAATCAAAGAAATTTT
1 -AACCATGGAAATTAAGAAAAAATACATGGGTAAGGTAAATCACTAGCAAAATCAAAGAAATTTT
16062084 ACCTTTGCTT
65 ACCTTTGCTT
16062094 GATCAAATCC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (74 bp):
AACCATGGAAATTAAGAAAAAATACATGGGTAAGGTAAATCACTAGCAAAATCAAAGAAATTTTA
CCTTTGCTT
Found at i:16063248 original size:35 final size:35
Alignment explanation
Indices: 16063209--16063362 Score: 200
Period size: 35 Copynumber: 4.4 Consensus size: 35
16063199 CTTACTCAGC
***
16063209 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
* * *
16063244 TCATGTGCACTCTCTATACGCACATTTTAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
* *
16063279 TCATGTGCACTCCCTACATGAACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
* *
16063314 TCATGTGCACTCCCTACATGAACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
**
16063349 TCACATGCACTCCC
1 TCATGTGCACTCCC
16063363 GCCCACATCA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 106 1.00
ACGTcount: A:0.30, C:0.31, G:0.10, T:0.29
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATCA
Found at i:16088579 original size:21 final size:21
Alignment explanation
Indices: 16088549--16088616 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
16088539 GGATATGTTC
*
16088549 ATGCAATTCATGACAAAGACTG
1 ATGC-ATTCATGATAAAGACTG
* *
16088571 ATGCATTCATAATAAAGATTG
1 ATGCATTCATGATAAAGACTG
*
16088592 ATGCAGTT-ATGATAAGGACTG
1 ATGCA-TTCATGATAAAGACTG
16088613 ATGC
1 ATGC
16088617 CTCCATTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
21 33 0.85
22 6 0.15
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (21 bp):
ATGCATTCATGATAAAGACTG
Found at i:16091630 original size:20 final size:20
Alignment explanation
Indices: 16091591--16091644 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
16091581 TAAAAAAATA
16091591 AATAAT-ATATAAATAATAAT
1 AATAATAATA-AAATAATAAT
* *
16091611 AGTAAATAA-AAAATATTAAT
1 AAT-AATAATAAAATAATAAT
16091631 AATAATAATAAAAT
1 AATAATAATAAAAT
16091645 TTATCTTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.18
20 18 0.64
21 4 0.14
22 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAATAATAAAATAATAAT
Found at i:16091633 original size:26 final size:28
Alignment explanation
Indices: 16091586--16091642 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
16091576 GAGGTTAAAA
*
16091586 AAATAAATAATATATAAATAATAATAGT
1 AAATAAATAATATATAAATAATAATAAT
*
16091614 AAATAAA-AA-ATATTAATAATAATAAT
1 AAATAAATAATATATAAATAATAATAAT
16091640 AAA
1 AAA
16091643 ATTTATCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 18 0.67
27 2 0.07
28 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (28 bp):
AAATAAATAATATATAAATAATAATAAT
Found at i:16092971 original size:190 final size:189
Alignment explanation
Indices: 16092525--16092971 Score: 424
Period size: 189 Copynumber: 2.4 Consensus size: 189
16092515 GAAAAATTTC
* * * * * * * ** ** *
16092525 CTAGGTGAAAGAATGTCCACGGGTCCCACCAGTATGATGGGAGGGCTAGGGAAACCTCTTCAATA
1 CTAGGTGAAAGAATATCCCCAGATCCAACCAGTATGATGGGAGAGCTCGAAAAATATCCTCAATA
* ** *
16092590 AAAAGGCTTTTGCTCGTAATGGGTTTTACATTCATGAAAATATTTTTTCTAAAAAACGTACGATA
66 AAAAGGCTTTTACTCGTAATAAGTTTTACATTCATAAAAATATTTTTTCTAAAAAACGTACGATA
* * ***
16092655 ACCCCGATGATGGGATTTTCTGAAAATCTTGCAAATGCGAGTTTCTCCTGGAAAGTTCT
131 ACCCCGATGATGGAATTTTCTGAAAATCTTGCAAAGGCGAAAATCTCCTGGAAAGTTCT
* * * * * * *
16092714 CTAGGTGAAAGGATATCCTCGGGTCCCACCAGTATGATGGGAGAGCTCGAAAAATATCTTTAATA
1 CTAGGTGAAAGAATATCCCCAGATCCAACCAGTATGATGGGAGAGCTCGAAAAATATCCTCAATA
**
16092779 AAAAGGCTTTTACTCGTAATAAG-TTTACATTCATAAAAATCTAATTTTTTCTAAAATGCGTACG
66 AAAAGGCTTTTACTCGTAATAAGTTTTACATTCATAAAAA--T-ATTTTTTCTAAAAAACGTACG
* **
16092843 ATAACCCCGATGATGGAATTTATTCAT-CAAAT-TTGTGAAGGCGAAAATCT-C-GGATAA-TTC
128 ATAACCCCGATGATGGAA-TT-TTC-TGAAAATCTTGCAAAGGCGAAAATCTCCTGGA-AAGTTC
16092903 T
189 T
* * **
16092904 CTAGGTGAGAGAATATCCCCAGATCCAACCAGTATGATAGGCGA-ATCT-GGGAAATATCCTCAA
1 CTAGGTGAAAGAATATCCCCAGATCCAACCAGTATGAT-GG-GAGAGCTCGAAAAATATCCTCAA
16092967 TAAAA
64 TAAAA
16092972 GGTTATTTGT
Statistics
Matches: 214, Mismatches: 35, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
188 15 0.07
189 75 0.35
190 56 0.26
191 44 0.21
192 16 0.07
193 7 0.03
194 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (189 bp):
CTAGGTGAAAGAATATCCCCAGATCCAACCAGTATGATGGGAGAGCTCGAAAAATATCCTCAATA
AAAAGGCTTTTACTCGTAATAAGTTTTACATTCATAAAAATATTTTTTCTAAAAAACGTACGATA
ACCCCGATGATGGAATTTTCTGAAAATCTTGCAAAGGCGAAAATCTCCTGGAAAGTTCT
Found at i:16094059 original size:3 final size:3
Alignment explanation
Indices: 16094051--16094088 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
16094041 GCTTTATCTC
*
16094051 TAG TAG TAG TAG TAG TAG TAG TAG TAA TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
16094089 TGAGTAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:16102243 original size:74 final size:74
Alignment explanation
Indices: 16102105--16102248 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
16102095 AGCAAATTGT
* * * * *
16102105 AAGATAGAGAAAACTTAGTCAACCAAGAAGCATGGTTAGTCAACTAAGAGCTCGCTGCCAGAAAA
1 AAGATAGAGAAAACTTAATCAACCAAAAAGCATGGTTAGTCAACTAAGAGCACACTACCAGAAAA
16102170 TTTAATTTC
66 TTTAATTTC
* * * *
16102179 AAGATAGAGAAAACTTAATCGACTAAAAAGCATGGTTAGTCAACTAAGAGCACACTATCTGAAAA
1 AAGATAGAGAAAACTTAATCAACCAAAAAGCATGGTTAGTCAACTAAGAGCACACTACCAGAAAA
16102244 TTTAA
66 TTTAA
16102249 ATTTGAATGC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (74 bp):
AAGATAGAGAAAACTTAATCAACCAAAAAGCATGGTTAGTCAACTAAGAGCACACTACCAGAAAA
TTTAATTTC
Found at i:16104545 original size:71 final size:71
Alignment explanation
Indices: 16104470--16104624 Score: 310
Period size: 71 Copynumber: 2.2 Consensus size: 71
16104460 TCTCTGCTTC
16104470 AAATGTATCGATACATTGAGACAATGTATTGATACATGTTCATCAATTGCCAAATCAATCGATAC
1 AAATGTATCGATACATTGAGACAATGTATTGATACATGTTCATCAATTGCCAAATCAATCGATAC
16104535 ATCCTT
66 ATCCTT
16104541 AAATGTATCGATACATTGAGACAATGTATTGATACATGTTCATCAATTGCCAAATCAATCGATAC
1 AAATGTATCGATACATTGAGACAATGTATTGATACATGTTCATCAATTGCCAAATCAATCGATAC
16104606 ATCCTT
66 ATCCTT
16104612 AAATGTATCGATA
1 AAATGTATCGATA
16104625 GAATTCCTCC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 84 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (71 bp):
AAATGTATCGATACATTGAGACAATGTATTGATACATGTTCATCAATTGCCAAATCAATCGATAC
ATCCTT
Found at i:16121943 original size:24 final size:24
Alignment explanation
Indices: 16121912--16121958 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16121902 AATGCAGATG
**
16121912 CAGTCAATGCAGTTGGAGATCCAA
1 CAGTCAATAAAGTTGGAGATCCAA
16121936 CAGTCAATAAAGTTGGAGATCCA
1 CAGTCAATAAAGTTGGAGATCCA
16121959 GCAGGCGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
CAGTCAATAAAGTTGGAGATCCAA
Found at i:16123308 original size:111 final size:111
Alignment explanation
Indices: 16123161--16123372 Score: 318
Period size: 111 Copynumber: 1.9 Consensus size: 111
16123151 CAGGTCACTT
* *
16123161 AATATATAAAAACCAGTCACGCAAACCTAAAAAACTACTGAACAAAAG-TTCCTAAACAACACAT
1 AATATATAAAAACCAGTAACGCAAACCTAAAAAACTACTGAACAAAAGCCT-CTAAACAACACAT
* *
16123225 AAATTGCACAAGTCACTCTCCACCACTCACGCTACAACAGGCAACGC
65 AAATTGCACAAGTCACACGCCACCACTCACGCTACAACAGGCAACGC
* * * *
16123272 AATATATAAAAACCAGTAACGCAAGCCTAAAAAACTATTGAACAAAAGCCTCTAAACAATACATG
1 AATATATAAAAACCAGTAACGCAAACCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACATA
* *
16123337 AATTGCACAAGTCGCACGCCACCACTCACTCTACAA
66 AATTGCACAAGTCACACGCCACCACTCACGCTACAA
16123373 TAGATAATGC
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 89 0.99
112 1 0.01
ACGTcount: A:0.45, C:0.28, G:0.09, T:0.17
Consensus pattern (111 bp):
AATATATAAAAACCAGTAACGCAAACCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACATA
AATTGCACAAGTCACACGCCACCACTCACGCTACAACAGGCAACGC
Found at i:16123513 original size:152 final size:151
Alignment explanation
Indices: 16123237--16123539 Score: 588
Period size: 152 Copynumber: 2.0 Consensus size: 151
16123227 ATTGCACAAG
16123237 TCACTCTCCACCACTCACGCTACAACAGGCAACGCAATATATAAAAACCAGTAACGCAAGCCTAA
1 TCACTCTCCACCACTCACGCTACAACAGGCAACGCAATATATAAAAACCAGTAACGCAAGCCTAA
16123302 AAAACTATTGAACAAAAGCCTCTAAACAATACATGAATTGCACAAGTCGCACGCCACCACTCACT
66 AAAACTATTGAACAAAAGCCTCTAAACAATACATGAATTGCACAAGTCGCACGCCACCACTCACT
*
16123367 CTACAATAGATAATGCAATAT
131 CTACAACAGATAATGCAATAT
16123388 NTCACTCTCCACCACTCACGCTACAACAGGCAACGCAATATATAAAAACCAGTAACGCAAGCCTA
1 -TCACTCTCCACCACTCACGCTACAACAGGCAACGCAATATATAAAAACCAGTAACGCAAGCCTA
16123453 AAAAACTATTGAACAAAAGCCTCTAAACAATACATGAATTGCACAAGTCGCACGCCACCACTCAC
65 AAAAACTATTGAACAAAAGCCTCTAAACAATACATGAATTGCACAAGTCGCACGCCACCACTCAC
16123518 TCTACAACAGATAATGCAATAT
130 TCTACAACAGATAATGCAATAT
16123540 ATAAAAACCA
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (151 bp):
TCACTCTCCACCACTCACGCTACAACAGGCAACGCAATATATAAAAACCAGTAACGCAAGCCTAA
AAAACTATTGAACAAAAGCCTCTAAACAATACATGAATTGCACAAGTCGCACGCCACCACTCACT
CTACAACAGATAATGCAATAT
Found at i:16123590 original size:111 final size:111
Alignment explanation
Indices: 16123396--16124057 Score: 916
Period size: 111 Copynumber: 6.0 Consensus size: 111
16123386 ATNTCACTCT
* * *
16123396 CCACCACTCACGCTACAACAGGCAACGCAATATATAAAAACCAGTAACGCAAGCCTAAAAAACTA
1 CCACCACTCACTCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
* * *
16123461 TTGAACAAAAGCCTCTAAACAATACATGAATTGCACAAGTCGCACG
66 TTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGCG
* * * *
16123507 CCACCACTCACTCTACAACAGATAATGCAATATATAAAAACCAGTCACGTAAACCTAAAAAACTA
1 CCACCACTCACTCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
* *
16123572 CTGAACAAAAATCC-CTAAACAACACATGAATTGCACAAGTCACGCG
66 TTGAAC-AAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGCG
* *
16123618 CCACCACTCACGT-TACAACAGGTAACGCAATATATAAAAATCAGTCATGCAAGCCTAAAAAACT
1 CCACCACTCAC-TCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACT
*
16123682 ATTGAACAAAAGTCTCTAAACAACACATGAATTGCACAAGTCACGCG
65 ATTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGCG
* * *
16123729 CCACCACTCTCTTTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTTAAAAACTA
1 CCACCACTCACTCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
* * * *
16123794 TTGAACAAAAGCCTCTAAACAACACATAAATTCCATAAGTCACGCC
66 TTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGCG
* * * * *
16123840 CCACCACTCTCGCTACAACAGGTAACGCAATATAAAAAAACCAATCACACAAGCCTAAAAAACTA
1 CCACCACTCACTCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
*** * *
16123905 CAAAACAAAAGCCTCTAAACAACACATGAATTCCACAAGTCATGCG
66 TTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGCG
* * * * *
16123951 CCACCACTC-TTGCTACAACAGGTAACGTAATATATAAAAATCAGTCATGCAAGCCTAAAAGACT
1 CCACCACTCACT-CTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACT
* * *
16124015 ATTGAACAAAAACCTCAAAACAACACATGAATTACACAAGTCA
65 ATTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCA
16124058 GTCACGCACC
Statistics
Matches: 488, Mismatches: 58, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
110 6 0.01
111 475 0.97
112 7 0.01
ACGTcount: A:0.45, C:0.27, G:0.10, T:0.18
Consensus pattern (111 bp):
CCACCACTCACTCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAAAACTA
TTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGCG
Found at i:16123628 original size:263 final size:262
Alignment explanation
Indices: 16123161--16123650 Score: 707
Period size: 263 Copynumber: 1.9 Consensus size: 262
16123151 CAGGTCACTT
* *
16123161 AATATATAAAAACCAGTCACGCAAACCTAAAAAACTACTGAACAAAAGTTCCTAAACAACACATA
1 AATATATAAAAACCAGTAACGCAAACCTAAAAAACTACTGAACAAAAGCTCCTAAACAACACATA
* * *
16123226 AATTGCACAAGTCACTCTCCACCACTCACGCTACAACAGGCAACGCAATATATAAAAACCAGTAA
66 AATTGCACAAGTCACACGCCACCACTCACGCTACAACAGACAACGCAATATATAAAAACCAGTAA
* * * *
16123291 CGCAAGCCTAAAAAACTATTGAACAAAAGCCTCTAAACAATACATGAATTGCACAAGTCGCACGC
131 CGCAAACCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACACGC
* *
16123356 CACCACTCAC-TCTACAATAGATAATGCAATATNTCACTCTCCACCACTCACGCTACAACAGGCA
196 CACCACTCACGT-TACAACAGATAACGCAATAT-TCACTCTCCACCACTCACGCTACAACAGGCA
16123420 ACGC
259 ACGC
* * *
16123424 AATATATAAAAACCAGTAACGCAAGCCTAAAAAACTATTGAACAAAAGC-CTCTAAACAATACAT
1 AATATATAAAAACCAGTAACGCAAACCTAAAAAACTACTGAACAAAAGCTC-CTAAACAACACAT
* * * * * *
16123488 GAATTGCACAAGTCGCACGCCACCACTCACTCTACAACAGATAATGCAATATATAAAAACCAGTC
65 AAATTGCACAAGTCACACGCCACCACTCACGCTACAACAGACAACGCAATATATAAAAACCAGTA
* * *
16123553 ACGTAAACCTAAAAAACTACTGAACAAAAATCC-CTAAACAACACATGAATTGCACAAGTCACGC
130 ACGCAAACCTAAAAAACTACTGAAC-AAAAGCCTCTAAACAACACATGAATTGCACAAGTCACAC
*
16123617 GCCACCACTCACGTTACAACAGGTAACGCAATAT
194 GCCACCACTCACGTTACAACAGATAACGCAATAT
16123651 ATAAAAATCA
Statistics
Matches: 200, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
262 1 0.00
263 192 0.96
264 7 0.04
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (262 bp):
AATATATAAAAACCAGTAACGCAAACCTAAAAAACTACTGAACAAAAGCTCCTAAACAACACATA
AATTGCACAAGTCACACGCCACCACTCACGCTACAACAGACAACGCAATATATAAAAACCAGTAA
CGCAAACCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACACGC
CACCACTCACGTTACAACAGATAACGCAATATTCACTCTCCACCACTCACGCTACAACAGGCAAC
GC
Found at i:16125343 original size:15 final size:15
Alignment explanation
Indices: 16125323--16125354 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16125313 ATGCTCAACA
*
16125323 AATATTCAGTCATGT
1 AATATTCAGTCACGT
16125338 AATATTCAGTCACGT
1 AATATTCAGTCACGT
16125353 AA
1 AA
16125355 CGCCTGTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (15 bp):
AATATTCAGTCACGT
Found at i:16125465 original size:102 final size:103
Alignment explanation
Indices: 16125282--16125535 Score: 372
Period size: 102 Copynumber: 2.5 Consensus size: 103
16125272 AGGTAGCTAA
* * * *
16125282 AGTCACGCAATGCCTACAAACAGA-TCACGCAATGCTCAACAAATATTCAGTCATGTAATATTCA
1 AGTCACGTAATGCCTATAAAGA-ACTCACGCAATGCTCAACAAATATTCAGTCAGGTAATATTCA
*
16125346 GTCACGTAACGCCTGTCACGCAACGCT-AACAAATATTC
65 GTCACATAACGCCTGTCACGCAACGCTCAACAAATATTC
* *
16125384 AGTCACGTAATGCCTATAAAGAACTCACACAATGCTCAACAAATATTCAGTTAGGTAATATTCAG
1 AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTCAGTCAGGTAATATTCAG
* *
16125449 TCACATATTA-G-TTGTCACGCAACGCTCAACATATATTC
66 TCACATA--ACGCCTGTCACGCAACGCTCAACAAATATTC
16125487 AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTCA
1 AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTCA
16125536 CGCACTTAAT
Statistics
Matches: 138, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
101 1 0.01
102 77 0.56
103 59 0.43
104 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
AGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTCAGTCAGGTAATATTCAG
TCACATAACGCCTGTCACGCAACGCTCAACAAATATTC
Found at i:16133209 original size:18 final size:18
Alignment explanation
Indices: 16133168--16133210 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16133158 CTTATTCTTC
* *
16133168 TTCTGCTTCTCCTTCTGG
1 TTCTGGTTCTCCTTCCGG
*
16133186 TTCTGGTTCTGCTTCCGG
1 TTCTGGTTCTCCTTCCGG
16133204 TTCTGGT
1 TTCTGGT
16133211 CTATGGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.23, T:0.49
Consensus pattern (18 bp):
TTCTGGTTCTCCTTCCGG
Found at i:16133650 original size:35 final size:35
Alignment explanation
Indices: 16133611--16133681 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
16133601 AGTTTATTTT
*
16133611 ATTACTTTCATATATACAATTTTAATAAGAACAAA
1 ATTACTTTCATATATACAATATTAATAAGAACAAA
*
16133646 ATTACTTTCATATATACAATATTACTAAGAACAAA
1 ATTACTTTCATATATACAATATTAATAAGAACAAA
16133681 A
1 A
16133682 CTATGTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (35 bp):
ATTACTTTCATATATACAATATTAATAAGAACAAA
Found at i:16141615 original size:2 final size:2
Alignment explanation
Indices: 16141608--16141649 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16141598 CTAAGCAAAT
16141608 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
16141650 TACATATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:16142388 original size:21 final size:21
Alignment explanation
Indices: 16142362--16142418 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
16142352 CTCTACTTCA
16142362 AATGTATCGATACATTTAGAT
1 AATGTATCGATACATTTAGAT
16142383 AATGTATCGATACATTTAGAT
1 AATGTATCGATACATTTAGAT
16142404 AATGTATCGATACAT
1 AATGTATCGATACAT
16142419 GTTCATCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTAGAT
Found at i:16144557 original size:18 final size:18
Alignment explanation
Indices: 16144523--16144560 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
16144513 GATGCATTAA
16144523 AAAAATATAAATAATAAT
1 AAAAATATAAATAATAAT
16144541 AAAAA-ATAAATATATAAT
1 AAAAATATAAATA-ATAAT
16144559 AA
1 AA
16144561 GACTAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATAATAAT
Found at i:16144557 original size:21 final size:20
Alignment explanation
Indices: 16144520--16144560 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16144510 ATTGATGCAT
*
16144520 TAAAAAAATATAAATAATAA
1 TAAAAAAAAATAAATAATAA
*
16144540 TAAAAAATAAATATATAATAA
1 TAAAAAA-AAATAAATAATAA
16144561 GACTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAAAAAAATAAATAATAA
Found at i:16146085 original size:2 final size:2
Alignment explanation
Indices: 16146078--16146109 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16146068 ATAATTACCG
*
16146078 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16146110 CTTGAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16149261 original size:47 final size:47
Alignment explanation
Indices: 16149199--16149290 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
16149189 TTTCATTGTA
* * *
16149199 ACATATCAACCTACTACGTTATTATCACATGATATAAAATAAAAAGT
1 ACATATCAACATACTACATCATTATCACATGATATAAAATAAAAAGT
* *
16149246 ACATGTCAACATACTACATCATTGTCACATGATATAAAATAAAAA
1 ACATATCAACATACTACATCATTATCACATGATATAAAATAAAAA
16149291 ATGATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (47 bp):
ACATATCAACATACTACATCATTATCACATGATATAAAATAAAAAGT
Found at i:16152243 original size:42 final size:42
Alignment explanation
Indices: 16152182--16152267 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
16152172 ATAAAATGCA
*
16152182 AATGACATTTTGATCAACAACGGTTAGTTAACCCTTAGTGAT
1 AATGACATTTTGATCAACAACGATTAGTTAACCCTTAGTGAT
*
16152224 AATGACATTTTGATTAACAACGATTAGTTAACCCTTAGTGAT
1 AATGACATTTTGATCAACAACGATTAGTTAACCCTTAGTGAT
16152266 AA
1 AA
16152268 GTGTCTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (42 bp):
AATGACATTTTGATCAACAACGATTAGTTAACCCTTAGTGAT
Found at i:16153874 original size:23 final size:25
Alignment explanation
Indices: 16153826--16153877 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 25
16153816 TTAAGTAGGA
*
16153826 ATATTAATAATATTTATCAATATTT
1 ATATTAATAATATTAATCAATATTT
16153851 ATATTAATAA-ATTAAT-AATATTT
1 ATATTAATAATATTAATCAATATTT
16153874 ATAT
1 ATAT
16153878 ACATGGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 11 0.42
24 5 0.19
25 10 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATTAATAATATTAATCAATATTT
Found at i:16158327 original size:31 final size:31
Alignment explanation
Indices: 16158258--16158403 Score: 118
Period size: 31 Copynumber: 4.7 Consensus size: 31
16158248 ATGTCAGGGA
* * **
16158258 AAATACCCAATCCAAAGATCAAGGTC-AAGAC
1 AAATACCAAATCCAAAGACCAAAATCGAA-AC
*
16158289 GAATACCAAATCCAAATG-CCAAAATCGAAAC
1 AAATACCAAATCCAAA-GACCAAAATCGAAAC
* ** **
16158320 AATTACCAAA-CTTAAGCACCAAGGTCGAAAC
1 AAATACCAAATCCAAAG-ACCAAAATCGAAAC
* * *
16158351 AAATGCCAAATTCAAAGACCAAAATCTAAAC
1 AAATACCAAATCCAAAGACCAAAATCGAAAC
*
16158382 AAATACCAAATCCAAAGTCCAA
1 AAATACCAAATCCAAAGACCAA
16158404 TTCATAATAA
Statistics
Matches: 88, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
29 1 0.01
30 3 0.03
31 78 0.89
32 6 0.07
ACGTcount: A:0.51, C:0.25, G:0.10, T:0.14
Consensus pattern (31 bp):
AAATACCAAATCCAAAGACCAAAATCGAAAC
Found at i:16158441 original size:29 final size:29
Alignment explanation
Indices: 16158356--16158442 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 29
16158346 GAAACAAATG
* *
16158356 CCAAATTCAAAGACCAAAATCTAAACA-AATA
1 CCAAATCCAAAG-TCAAAATC-AAA-ATAATA
* * *
16158387 CCAAATCCAAAGTCCAATTCATAATAATA
1 CCAAATCCAAAGTCAAAATCAAAATAATA
*
16158416 TCAAATCC-AAGTCTAAAATCAAAATAA
1 CCAAATCCAAAGTC-AAAATCAAAATAA
16158443 ATATTGAATC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
28 6 0.13
29 23 0.51
30 5 0.11
31 11 0.24
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.21
Consensus pattern (29 bp):
CCAAATCCAAAGTCAAAATCAAAATAATA
Found at i:16160752 original size:10 final size:10
Alignment explanation
Indices: 16160717--16160755 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
16160707 TTGTGGCTGA
16160717 ATTTGATGAT
1 ATTTGATGAT
*
16160727 ATTTCATGAT
1 ATTTGATGAT
*
16160737 ATTTTGGTGAT
1 A-TTTGATGAT
16160748 ATTTGATG
1 ATTTGATG
16160756 TTTGGTGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (10 bp):
ATTTGATGAT
Found at i:16163709 original size:28 final size:27
Alignment explanation
Indices: 16163678--16163730 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
16163668 TTTTGGAGCA
* *
16163678 TAGGGGTAAAATGGTAATTTTACCACTC
1 TAGGGGCAAAATAGTAATTTT-CCACTC
16163706 TAGGGGCAAAATAGTAATTTTCCAC
1 TAGGGGCAAAATAGTAATTTTCCAC
16163731 CACTAGGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (27 bp):
TAGGGGCAAAATAGTAATTTTCCACTC
Found at i:16163736 original size:28 final size:28
Alignment explanation
Indices: 16163678--16163737 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
16163668 TTTTGGAGCA
* * *
16163678 TAGGGGTAAAATGGTAATTTTACCACTC
1 TAGGGGCAAAATAGTAATTTTACCACAC
16163706 TAGGGGCAAAATAGTAATTTT-CCACCAC
1 TAGGGGCAAAATAGTAATTTTACCA-CAC
16163734 TAGG
1 TAGG
16163738 ACACTTGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (28 bp):
TAGGGGCAAAATAGTAATTTTACCACAC
Found at i:16167572 original size:35 final size:35
Alignment explanation
Indices: 16167521--16167596 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
16167511 CCCAACTCAT
* *
16167521 TCTATTGTCCCATTTT-CCCCTTTCTCTTCTTTCAC
1 TCTACTGTCCCATTTTCCCCCATT-TCTTCTTTCAC
*
16167556 TTTACTGTCCCATTTTCCCCCATTTCTTCTTTCAC
1 TCTACTGTCCCATTTTCCCCCATTTCTTCTTTCAC
16167591 TCTACT
1 TCTACT
16167597 ACTACCATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.11, C:0.37, G:0.03, T:0.50
Consensus pattern (35 bp):
TCTACTGTCCCATTTTCCCCCATTTCTTCTTTCAC
Found at i:16168075 original size:2 final size:2
Alignment explanation
Indices: 16168068--16168128 Score: 88
Period size: 2 Copynumber: 30.5 Consensus size: 2
16168058 GTTGCATGAA
* *
16168068 AT AT AT AT AT AT AN AA AT AT AT -T CAT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
16168110 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
16168129 AAGTAGTAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
1 1 0.02
2 52 0.96
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16169956 original size:36 final size:35
Alignment explanation
Indices: 16169906--16170200 Score: 214
Period size: 36 Copynumber: 7.8 Consensus size: 35
16169896 TATAAATTGT
* *
16169906 GTGCTAGTATAAAGAGCACCTCCTAAGGATCAACAA
1 GTGCTATTATAAAGAGCACCTCC-AAGGATCAAAAA
*
16169942 GTGCTATTACAAAGAGCACCCTCCAAGGAT-AATAAA
1 GTGCTATTATAAAGAGCA-CCTCCAAGGATCAA-AAA
* * *
16169978 TTGTGTGCTAGTATAAAGAGCACCTCCCAAAGATCAATAA
1 ----GTGCTATTATAAAGAGCACCT-CCAAGGATCAAAAA
** * *
16170018 GTATTATTATAAAGAGCATCTTCCAAGGATAATAAATTA
1 GTGCTATTATAAAGAGCA-CCTCCAAGGATCA-AAA--A
* * * *
16170057 TGTGCTAGTATAAAGAACACCTCTCAAAGATCAACAA
1 -GTGCTATTATAAAGAGCACCTC-CAAGGATCAAAAA
* * *
16170094 GTTCTATTATAAAGAGCACCATTCAAGGATAATAAATTA
1 GTGCTATTATAAAGAGCACC-TCCAAGGATCA-AAA--A
*
16170133 TGTGCTATTATAAAGAGCACCCTCCCAAGGATCAATAA
1 -GTGCTATTATAAAGAGCA-CCT-CCAAGGATCAAAAA
*
16170171 GTGCTATTATAAAGAGCACCCTCAAAGGAT
1 GTGCTATTATAAAGAGCA-CCTCCAAGGAT
16170201 AACAAATTGC
Statistics
Matches: 204, Mismatches: 34, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
35 2 0.01
36 78 0.38
37 35 0.17
38 1 0.00
39 10 0.05
40 66 0.32
41 12 0.06
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (35 bp):
GTGCTATTATAAAGAGCACCTCCAAGGATCAAAAA
Found at i:16170026 original size:76 final size:76
Alignment explanation
Indices: 16169897--16170230 Score: 452
Period size: 76 Copynumber: 4.4 Consensus size: 76
16169887 AATGGTGATT
* * *
16169897 ATAAATTGTGTGCTAGTATAAAGAGCACCTCCTAAGGATCAACAAGTGCTATTACAAAGAGCACC
1 ATAAATTGTGTGCTAGTATAAAGAGCACCTCCCAAAGATCAACAAGTGCTATTATAAAGAGCACC
16169962 CTCCAAGGATA
66 CTCCAAGGATA
* ** *
16169973 ATAAATTGTGTGCTAGTATAAAGAGCACCTCCCAAAGATCAATAAGTATTATTATAAAGAGCATC
1 ATAAATTGTGTGCTAGTATAAAGAGCACCTCCCAAAGATCAACAAGTGCTATTATAAAGAGCACC
*
16170038 TTCCAAGGATA
66 CTCCAAGGATA
* * * *
16170049 ATAAATTATGTGCTAGTATAAAGAACACCTCTCAAAGATCAACAAGTTCTATTATAAAGAGCACC
1 ATAAATTGTGTGCTAGTATAAAGAGCACCTCCCAAAGATCAACAAGTGCTATTATAAAGAGCACC
* *
16170114 ATTCAAGGATA
66 CTCCAAGGATA
* * * *
16170125 ATAAATTATGTGCTATTATAAAGAGCACCCTCCCAAGGATCAATAAGTGCTATTATAAAGAGCAC
1 ATAAATTGTGTGCTAGTATAAAGAGCA-CCTCCCAAAGATCAACAAGTGCTATTATAAAGAGCAC
*
16170190 CCTCAAAGGATA
65 CCTCCAAGGATA
* ** *
16170202 ACAAATTGCATGCTAGCATAAAGAGCACC
1 ATAAATTGTGTGCTAGTATAAAGAGCACC
16170231 ACTTTAAATT
Statistics
Matches: 225, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
76 162 0.72
77 63 0.28
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (76 bp):
ATAAATTGTGTGCTAGTATAAAGAGCACCTCCCAAAGATCAACAAGTGCTATTATAAAGAGCACC
CTCCAAGGATA
Found at i:16174799 original size:21 final size:21
Alignment explanation
Indices: 16174732--16174791 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
16174722 GTTCATGCAA
*
16174732 TTCATGACAAAGACTAATACC
1 TTCATGACAAAGACTGATACC
*
16174753 TTCATGACAAAGATTGATACC
1 TTCATGACAAAGACTGATACC
*
16174774 TTCATGGCAAAGACTGAT
1 TTCATGACAAAGACTGAT
16174792 GCCATCATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (21 bp):
TTCATGACAAAGACTGATACC
Found at i:16178974 original size:19 final size:19
Alignment explanation
Indices: 16178947--16178993 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
16178937 TACCAAGGAG
*
16178947 ATAAGATAAAATTTT-TAGA
1 ATAAAATAAAATTTTAT-GA
* *
16178966 ATAAAATAATATTTTATTA
1 ATAAAATAAAATTTTATGA
16178985 ATAAAATAA
1 ATAAAATAA
16178994 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAAAATAAAATTTTATGA
Found at i:16179426 original size:20 final size:20
Alignment explanation
Indices: 16179401--16179438 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16179391 TTGTGGCCCC
16179401 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
16179421 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
16179439 GGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:16179444 original size:20 final size:20
Alignment explanation
Indices: 16179401--16179446 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
16179391 TTGTGGCCCC
*
16179401 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAGA
*
16179421 ATTTGACTTATTGGAGTAGG
1 ATTTGACTTATTGGAGTAGA
16179441 ATTTGA
1 ATTTGA
16179447 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAGA
Found at i:16179826 original size:18 final size:19
Alignment explanation
Indices: 16179792--16179827 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16179782 GAAAACCTAG
*
16179792 GTGAAAATTCAAAGAAAAA
1 GTGAAAAATCAAAGAAAAA
16179811 GTGAAAAATC-AAGAAAA
1 GTGAAAAATCAAAGAAAA
16179828 CAAGCTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.06, G:0.17, T:0.14
Consensus pattern (19 bp):
GTGAAAAATCAAAGAAAAA
Found at i:16180680 original size:13 final size:13
Alignment explanation
Indices: 16180662--16180686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16180652 TGAATAAATG
16180662 TGATTTTATAAAA
1 TGATTTTATAAAA
16180675 TGATTTTATAAA
1 TGATTTTATAAA
16180687 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:16182549 original size:2 final size:2
Alignment explanation
Indices: 16182544--16182591 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
16182534 CATGGTGTGT
16182544 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
16182586 CA CA CA
1 CA CA CA
16182592 TATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:16182596 original size:2 final size:2
Alignment explanation
Indices: 16182591--16182630 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
16182581 ACACACACAC
16182591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16182631 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16188371 original size:25 final size:26
Alignment explanation
Indices: 16188317--16188371 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
16188307 GTAAAATTTT
16188317 TTTTAAACATGGCGTGTAATAAAAT-
1 TTTTAAACATGGCGTGTAATAAAATG
* *
16188342 TTTTTAACATGGCGTGTAATAACATG
1 TTTTAAACATGGCGTGTAATAAAATG
16188368 TTTT
1 TTTT
16188372 CGAAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (26 bp):
TTTTAAACATGGCGTGTAATAAAATG
Found at i:16188371 original size:26 final size:26
Alignment explanation
Indices: 16188297--16188363 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 26
16188287 ACATATTGTC
* **
16188297 AACATGGCATGTAA-AATTTTTTTTA
1 AACATGGCGTGTAATAAAATTTTTTA
16188322 AACATGGCGTGTAATAAAATTTTTT-
1 AACATGGCGTGTAATAAAATTTTTTA
16188347 AACATGGCGTGTAATAA
1 AACATGGCGTGTAATAA
16188364 CATGTTTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 30 0.79
26 8 0.21
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (26 bp):
AACATGGCGTGTAATAAAATTTTTTA
Found at i:16188391 original size:37 final size:36
Alignment explanation
Indices: 16188338--16188409 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 36
16188328 GCGTGTAATA
* * *
16188338 AAATTTTTTAACATGGCGTGTAATAACATGTTTTCG
1 AAATTTTTTAAAATGGCGTGTAACAACATATTTTCG
*
16188374 AAATTTTTTCAAAATGGCTTGTAACAACATATTTTC
1 AAATTTTTT-AAAATGGCGTGTAACAACATATTTTC
16188410 AACAAAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 9 0.29
37 22 0.71
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (36 bp):
AAATTTTTTAAAATGGCGTGTAACAACATATTTTCG
Found at i:16191600 original size:21 final size:21
Alignment explanation
Indices: 16191574--16191620 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
16191564 GTTCATACAA
16191574 TTCATGACAAAGACAGATGCC
1 TTCATGACAAAGACAGATGCC
* *
16191595 TTCATGACAAGGACTGATGCC
1 TTCATGACAAAGACAGATGCC
*
16191616 ATCAT
1 TTCAT
16191621 TCAAAGTCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (21 bp):
TTCATGACAAAGACAGATGCC
Found at i:16192132 original size:16 final size:16
Alignment explanation
Indices: 16192107--16192144 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
16192097 TTACTTTCTT
16192107 TTTA-TTTTA-TTTTA
1 TTTATTTTTATTTTTA
16192121 GTTTATTTTTATTTTTA
1 -TTTATTTTTATTTTTA
16192138 TTTATTT
1 TTTATTT
16192145 AATTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 12 0.57
17 5 0.24
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:16192263 original size:15 final size:15
Alignment explanation
Indices: 16192245--16192307 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
16192235 CATATTTCAC
16192245 AAAAATTTATCAAAA
1 AAAAATTTATCAAAA
* **
16192260 AAAAATTCATGTAAA
1 AAAAATTTATCAAAA
16192275 AAAAATTTATTTCAAAA
1 AAAAATTTA--TCAAAA
*
16192292 AACAATTT-TCAAAA
1 AAAAATTTATCAAAA
16192306 AA
1 AA
16192308 CATTTCGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 8 0.21
15 20 0.51
17 11 0.28
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATTTATCAAAA
Found at i:16192626 original size:8 final size:8
Alignment explanation
Indices: 16192615--16192683 Score: 93
Period size: 8 Copynumber: 8.6 Consensus size: 8
16192605 ATTTACCTAC
16192615 TACCCACT
1 TACCCACT
16192623 TACCCACT
1 TACCCACT
* *
16192631 AACCCATT
1 TACCCACT
16192639 TACCCACT
1 TACCCACT
16192647 TACCCACT
1 TACCCACT
* *
16192655 AACCCATT
1 TACCCACT
16192663 TACCCACT
1 TACCCACT
16192671 TACCCACT
1 TACCCACT
*
16192679 AACCC
1 TACCC
16192684 TTTTTTTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 52 1.00
ACGTcount: A:0.29, C:0.48, G:0.00, T:0.23
Consensus pattern (8 bp):
TACCCACT
Found at i:16192641 original size:16 final size:16
Alignment explanation
Indices: 16192607--16192683 Score: 93
Period size: 16 Copynumber: 4.9 Consensus size: 16
16192597 CATTACATAT
*
16192607 TTACCTACT-ACCCAC
1 TTACCCACTAACCCAC
*
16192622 TTACCCACTAACCCAT
1 TTACCCACTAACCCAC
*
16192638 TTACCCACTTACCCAC
1 TTACCCACTAACCCAC
* * *
16192654 TAACCCATTTACCCAC
1 TTACCCACTAACCCAC
16192670 TTACCCACTAACCC
1 TTACCCACTAACCC
16192684 TTTTTTTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
15 8 0.15
16 44 0.85
ACGTcount: A:0.29, C:0.47, G:0.00, T:0.25
Consensus pattern (16 bp):
TTACCCACTAACCCAC
Found at i:16192642 original size:24 final size:24
Alignment explanation
Indices: 16192615--16192683 Score: 138
Period size: 24 Copynumber: 2.9 Consensus size: 24
16192605 ATTTACCTAC
16192615 TACCCACTTACCCACTAACCCATT
1 TACCCACTTACCCACTAACCCATT
16192639 TACCCACTTACCCACTAACCCATT
1 TACCCACTTACCCACTAACCCATT
16192663 TACCCACTTACCCACTAACCC
1 TACCCACTTACCCACTAACCC
16192684 TTTTTTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.29, C:0.48, G:0.00, T:0.23
Consensus pattern (24 bp):
TACCCACTTACCCACTAACCCATT
Found at i:16192714 original size:24 final size:24
Alignment explanation
Indices: 16192686--16192752 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 24
16192676 ACTAACCCTT
* *
16192686 TTTTTATTTATTTTCTTTTCAGTTA
1 TTTTTATTTATTTTCTCTACA-TTA
16192711 TTTTTATTTATTATTTCTCTACATTA
1 TTTTTATTTA-T-TTTCTCTACATTA
16192737 TTTATTTATTTATTTT
1 -TT-TTTATTTATTTT
16192753 TTGTAGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 10 0.28
26 7 0.19
27 11 0.31
28 8 0.22
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (24 bp):
TTTTTATTTATTTTCTCTACATTA
Found at i:16201569 original size:24 final size:24
Alignment explanation
Indices: 16201536--16201582 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
16201526 GTTAAGTGAG
16201536 TTTTATTTATTA-TTTAATTTTAA
1 TTTTATTTATTAGTTTAATTTTAA
16201559 TTTTAGTTTATTAGTTTTAATTTT
1 TTTTA-TTTATTAG-TTTAATTTT
16201583 TTTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
26 9 0.43
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTATTTATTAGTTTAATTTTAA
Found at i:16202026 original size:203 final size:203
Alignment explanation
Indices: 16201677--16202085 Score: 809
Period size: 203 Copynumber: 2.0 Consensus size: 203
16201667 TACTCTACTT
16201677 CATTACTACATTACTTGTTAACGATACGTGCACTAACGTGAGAAATCAACAACAGTCATGAAGTC
1 CATTACTACATTACTTGTTAACGATACGTGCACTAACGTGAGAAATCAACAACAGTCATGAAGTC
16201742 CAATACACACACGTAGTTTCATAATTGAAAGCTGCTCAAATAAACTTATGAAGAATATTGTATCA
66 CAATACACACACGTAGTTTCATAATTGAAAGCTGCTCAAATAAACTTATGAAGAATATTGTATCA
16201807 ACCATGCATACACGGGTGTTGTACAACTTGTACTTCGACCCTATAAGTCGCTTACACAATACGAT
131 ACCATGCATACACGGGTGTTGTACAACTTGTACTTCGACCCTATAAGTCGCTTACACAATACGAT
16201872 GAGGCATG
196 GAGGCATG
*
16201880 CATTACTACATTACTTGTTAACGATACGTGCACTTACGTGAGAAATCAACAACAGTCATGAAGTC
1 CATTACTACATTACTTGTTAACGATACGTGCACTAACGTGAGAAATCAACAACAGTCATGAAGTC
16201945 CAATACACACACGTAGTTTCATAATTGAAAGCTGCTCAAATAAACTTATGAAGAATATTGTATCA
66 CAATACACACACGTAGTTTCATAATTGAAAGCTGCTCAAATAAACTTATGAAGAATATTGTATCA
16202010 ACCATGCATACACGGGTGTTGTACAACTTGTACTTCGACCCTATAAGTCGCTTACACAATACGAT
131 ACCATGCATACACGGGTGTTGTACAACTTGTACTTCGACCCTATAAGTCGCTTACACAATACGAT
16202075 GAGGCATG
196 GAGGCATG
16202083 CAT
1 CAT
16202086 CAATTTGTTC
Statistics
Matches: 205, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 205 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (203 bp):
CATTACTACATTACTTGTTAACGATACGTGCACTAACGTGAGAAATCAACAACAGTCATGAAGTC
CAATACACACACGTAGTTTCATAATTGAAAGCTGCTCAAATAAACTTATGAAGAATATTGTATCA
ACCATGCATACACGGGTGTTGTACAACTTGTACTTCGACCCTATAAGTCGCTTACACAATACGAT
GAGGCATG
Found at i:16205050 original size:201 final size:201
Alignment explanation
Indices: 16204699--16205132 Score: 593
Period size: 201 Copynumber: 2.2 Consensus size: 201
16204689 GACATGTTAA
* * * * * *
16204699 GCAGACCAAGTAAAATGTTATTACACGCTATGTCTATACGTTCTTACACGCCAACTATAATTATT
1 GCAGACCAAGTAAAATGTTGTTACACGCCATGCCTATACGTTCTTACACACCAAATATAATTACT
* * * * *
16204764 GATTTGTTACACGATATGCCCTACCGACTATGCAGTTTACACACTACACACCATACATGTAATGC
66 AATTTGTTACACGATATGACATACCAACTATGCAGTTTACACACTACACACCATACATATAATGC
16204829 TACCCTAAACCCCAAAAACATTTAACCCACTACACGCTAG-GTAGAAGAAATTCATTGTTGTTAC
131 TACCCTAAACCCCAAAAACATTTAACCCACTACACGCTAGAGTAG-AGAAATTCATTGTTGTTAC
*
16204893 ACGCTAAT
195 AAGCT-AT
* * *
16204901 -CAGATCAAGTAAAATGTTGTTACACGCCATGCCTATATGTTCTTACACACTAAATATAATTACT
1 GCAGACCAAGTAAAATGTTGTTACACGCCATGCCTATACGTTCTTACACACCAAATATAATTACT
* * *
16204965 AATTTGTTACACGATATGACATGCCAACTATGTAGTTTACACACTACACGCCATACATATAATGC
66 AATTTGTTACACGATATGACATACCAACTATGCAGTTTACACACTACACACCATACATATAATGC
* * * * * *
16205030 TACCCTAAACTCCAAAAACATTTAACCCACTGCATGCTAGATTTGAGAAATTTATTGTTGTTACA
131 TACCCTAAACCCCAAAAACATTTAACCCACTACACGCTAGAGTAGAGAAATTCATTGTTGTTACA
16205095 AGCTAT
196 AGCTAT
* * *
16205101 GCAAACCAAGTAAAATATTGTAACACGCCATG
1 GCAGACCAAGTAAAATGTTGTTACACGCCATG
16205133 TTTTTGTTCT
Statistics
Matches: 202, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
200 2 0.01
201 198 0.98
202 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (201 bp):
GCAGACCAAGTAAAATGTTGTTACACGCCATGCCTATACGTTCTTACACACCAAATATAATTACT
AATTTGTTACACGATATGACATACCAACTATGCAGTTTACACACTACACACCATACATATAATGC
TACCCTAAACCCCAAAAACATTTAACCCACTACACGCTAGAGTAGAGAAATTCATTGTTGTTACA
AGCTAT
Found at i:16205800 original size:23 final size:23
Alignment explanation
Indices: 16205767--16206215 Score: 386
Period size: 23 Copynumber: 19.5 Consensus size: 23
16205757 ATTTAAATTT
16205767 ATGTCGTGTCACATATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
* *
16205790 ATATCGTGTCACATATTCCTTCC
1 ATGTCGTGTCACATATTCCCTCC
* * * * *
16205813 GTGTCATCTCACATATTCTCACC
1 ATGTCGTGTCACATATTCCCTCC
*
16205836 ATGGCGTGTCACATATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
* * *
16205859 TTGTCATGTCACATATTCCATCC
1 ATGTCGTGTCACATATTCCCTCC
* * * *
16205882 ATGGCATTTCACGTATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
* *
16205905 ATGTCGTGTCACATATTCTCACC
1 ATGTCGTGTCACATATTCCCTCC
16205928 ATGTCGTGTCACATATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
* *
16205951 ATGGCCTGTCACATATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
* * * *
16205974 ATGTAGTCTCACATATTCTCACC
1 ATGTCGTGTCACATATTCCCTCC
*
16205997 ATGTCGTGTCACATTTTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
*
16206020 ATTTCGTGTCACATATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
* * * *
16206043 ATGGCATGTCACATA-TACTTACC
1 ATGTCGTGTCACATATTCCCT-CC
*
16206066 TTGGT-GTGTCACATATTCCCTCC
1 AT-GTCGTGTCACATATTCCCTCC
* ** *
16206089 ATG--GCGTCACATAAATTTTCACC
1 ATGTCGTGTCACAT--ATTCCCTCC
* * * *
16206112 TTAG-CGTGACACATATTCTCACC
1 AT-GTCGTGTCACATATTCCCTCC
*
16206135 ATGTCGTCTCACATATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
* * * *
16206158 ATGGCATGTCACATATTCTCACC
1 ATGTCGTGTCACATATTCCCTCC
* ** *
16206181 CTACCATGTCACATATTCCCTCC
1 ATGTCGTGTCACATATTCCCTCC
*
16206204 ATGTCGTCTCAC
1 ATGTCGTGTCAC
16206216 GTAATCTCAC
Statistics
Matches: 332, Mismatches: 86, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
21 8 0.02
22 5 0.02
23 307 0.92
24 5 0.02
25 7 0.02
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (23 bp):
ATGTCGTGTCACATATTCCCTCC
Found at i:16206224 original size:46 final size:46
Alignment explanation
Indices: 16206143--16206242 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
16206133 CCATGTCGTC
* * *
16206143 TCACATATTCCCTCCATGGCATGTCACATATTCTCACCCTACCATG
1 TCACATATTCCCTCCATGGCATCTCACATAATCTCACCATACCATG
* * * *
16206189 TCACATATTCCCTCCATGTCGTCTCACGTAATCTCACCATGCCATG
1 TCACATATTCCCTCCATGGCATCTCACATAATCTCACCATACCATG
*
16206235 TCAAATAT
1 TCACATAT
16206243 AGTTTTTACA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.25, C:0.35, G:0.09, T:0.31
Consensus pattern (46 bp):
TCACATATTCCCTCCATGGCATCTCACATAATCTCACCATACCATG
Found at i:16212059 original size:21 final size:22
Alignment explanation
Indices: 16212009--16212067 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
16211999 TTAAGTTACC
16212009 GACATGGCATTCGACCAAGCTGAT
1 GACATGGCATT-GACCAA-CTGAT
16212033 G-C--GGCATTGACCAA-TGAT
1 GACATGGCATTGACCAACTGAT
*
16212051 GACATGGCATTAACCAA
1 GACATGGCATTGACCAA
16212068 GCTAATGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 5 0.16
19 1 0.03
20 6 0.19
21 17 0.55
23 1 0.03
24 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (22 bp):
GACATGGCATTGACCAACTGAT
Found at i:16213011 original size:11 final size:11
Alignment explanation
Indices: 16212995--16213028 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16212985 TTTTTCAGAA
16212995 AAAAAAAAGGG
1 AAAAAAAAGGG
16213006 AAAAAAAGAGGG
1 AAAAAAA-AGGG
*
16213018 AAAAGAAAGGG
1 AAAAAAAAGGG
16213029 TTTTAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGGG
Found at i:16213257 original size:22 final size:23
Alignment explanation
Indices: 16213218--16213263 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
16213208 ATGGTCAATG
16213218 CCATGTCAGCCTGTTCAA-ACCA
1 CCATGTCAGCCTGTTCAATACCA
*
16213240 CCATGTTAGCCTAG-TCAATACCA
1 CCATGTCAGCCT-GTTCAATACCA
16213263 C
1 C
16213264 ATCAGCTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (23 bp):
CCATGTCAGCCTGTTCAATACCA
Found at i:16219266 original size:13 final size:13
Alignment explanation
Indices: 16219248--16219290 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
16219238 CTCATATATC
16219248 TTAAAATTTAAAT
1 TTAAAATTTAAAT
16219261 TTAAAATTTTTAAA-
1 TTAAAA--TTTAAAT
16219275 TTAAAATCTTAAAT
1 TTAAAAT-TTAAAT
16219289 TT
1 TT
16219291 TAATCGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 1 0.04
13 11 0.42
14 8 0.31
15 6 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAAAATTTAAAT
Found at i:16219276 original size:21 final size:21
Alignment explanation
Indices: 16219251--16219291 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16219241 ATATATCTTA
*
16219251 AAATTTAAAT-TTAAAATTTTT
1 AAATTAAAATCTT-AAATTTTT
16219272 AAATTAAAATCTTAAATTTT
1 AAATTAAAATCTTAAATTTT
16219292 AATCGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTAAAATCTTAAATTTTT
Found at i:16219280 original size:14 final size:15
Alignment explanation
Indices: 16219254--16219290 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
16219244 TATCTTAAAA
16219254 TTTAAATTTAAAATT
1 TTTAAATTTAAAATT
16219269 TTTAAA-TTAAAA-T
1 TTTAAATTTAAAATT
*
16219282 CTTAAATTT
1 TTTAAATTT
16219291 TAATCGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 8 0.40
15 6 0.30
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAAATTTAAAATT
Found at i:16221994 original size:27 final size:27
Alignment explanation
Indices: 16221964--16222038 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
16221954 ATTATATATA
16221964 TATAT-ATATATAAAATAAAATAATTAT
1 TATATGATA-ATAAAATAAAATAATTAT
* * *
16221991 TATATGATAATATAATAGAATAGTTAT
1 TATATGATAATAAAATAAAATAATTAT
* * *
16222018 TATGTGAAAATAAAATGAAAT
1 TATATGATAATAAAATAAAAT
16222039 GAGAATACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 36 0.92
28 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (27 bp):
TATATGATAATAAAATAAAATAATTAT
Found at i:16222349 original size:24 final size:22
Alignment explanation
Indices: 16222299--16222350 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
16222289 TTTATTTTTA
16222299 TTTATTAAAATTTTAAAAATTT
1 TTTATTAAAATTTTAAAAATTT
* **
16222321 ATTATTAAAATATTATAATGATTT
1 TTTATTAAAAT-TT-TAAAAATTT
16222345 TTTATT
1 TTTATT
16222351 TTTTCTCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTATTAAAATTTTAAAAATTT
Found at i:16222442 original size:15 final size:16
Alignment explanation
Indices: 16222430--16222521 Score: 52
Period size: 17 Copynumber: 5.7 Consensus size: 16
16222420 AAGGTAAACT
16222430 TTAATATTTTAAAATA
1 TTAATATTTTAAAATA
*
16222446 TTGATATTTT---A-A
1 TTAATATTTTAAAATA
*
16222458 -TAATAATTTAAACATTA
1 TTAATATTTTAAA-A-TA
*
16222475 TTTATAAATTATTGAAAATA
1 -TTA-ATATT-TT-AAAATA
16222495 TTAATAATTTTAAAATA
1 TTAAT-ATTTTAAAATA
16222512 TTAA-ATTTTA
1 TTAATATTTTA
16222522 TAATTTATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 25
0.65 0.07 0.28
Matches are distributed among these distances:
11 7 0.12
12 1 0.02
13 1 0.02
15 7 0.12
16 9 0.16
17 11 0.19
18 3 0.05
19 8 0.14
20 5 0.09
21 3 0.05
22 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAATATTTTAAAATA
Found at i:16228710 original size:37 final size:37
Alignment explanation
Indices: 16228668--16228786 Score: 211
Period size: 37 Copynumber: 3.2 Consensus size: 37
16228658 TAATATTGTG
16228668 TGATGATGTGGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTGGAAGTGTGCGAGTAGGGAGTGCACACA
* * *
16228705 TGATGATGTTGAAGTGTGAGAATAGGGAGTGCACACA
1 TGATGATGTGGAAGTGTGCGAGTAGGGAGTGCACACA
16228742 TGATGATGTGGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTGGAAGTGTGCGAGTAGGGAGTGCACACA
16228779 TGATGATG
1 TGATGATG
16228787 ATATTGCATT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.29, C:0.09, G:0.39, T:0.24
Consensus pattern (37 bp):
TGATGATGTGGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:16229106 original size:22 final size:22
Alignment explanation
Indices: 16229074--16229176 Score: 134
Period size: 22 Copynumber: 4.7 Consensus size: 22
16229064 ACTAGCCTTG
* * *
16229074 TTCTCGTTGCAGCGAAAAAGAA
1 TTCTCGCTGCAGCGAAAATGGA
* *
16229096 TTCTCACTGCAGTGAAAATGGA
1 TTCTCGCTGCAGCGAAAATGGA
*
16229118 TTATCGCTGCAGCGAAAATGGA
1 TTCTCGCTGCAGCGAAAATGGA
* *
16229140 TTCTCGTTGCAGCGAAAATCGA
1 TTCTCGCTGCAGCGAAAATGGA
16229162 TTCTCGCTGCAGCGA
1 TTCTCGCTGCAGCGA
16229177 GACTCTCGGG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 69 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (22 bp):
TTCTCGCTGCAGCGAAAATGGA
Found at i:16234328 original size:19 final size:20
Alignment explanation
Indices: 16234301--16234340 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16234291 GCCACGAACT
16234301 AGATCAAATAAAGAAT-TTA
1 AGATCAAATAAAGAATATTA
* *
16234320 AGATGAAATTAAGAATATTA
1 AGATCAAATAAAGAATATTA
16234340 A
1 A
16234341 AGTCCCAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (20 bp):
AGATCAAATAAAGAATATTA
Done.