Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 29 of 59
Found at i:10657370 original size:13 final size:13
Alignment explanation
Indices: 10657352--10657376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10657342 ATTTTCAAAA
10657352 ATTTTATAAAATT
1 ATTTTATAAAATT
10657365 ATTTTATAAAAT
1 ATTTTATAAAAT
10657377 CTCATTTTCC
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:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:10658593 original size:28 final size:30
Alignment explanation
Indices: 10658530--10658596 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
10658520 GTAAATTTTT
10658530 AAAAATTACACTTTTACCCCCATAAAAGTA
1 AAAAATTACACTTTTACCCCCATAAAAGTA
* * *
10658560 AAAAATTACATTTTTA-CCCCA-AAAATTG
1 AAAAATTACACTTTTACCCCCATAAAAGTA
10658588 AAAAATTAC
1 AAAAATTAC
10658597 CAAAATCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 14 0.41
29 5 0.15
30 15 0.44
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.28
Consensus pattern (30 bp):
AAAAATTACACTTTTACCCCCATAAAAGTA
Found at i:10665047 original size:36 final size:36
Alignment explanation
Indices: 10665007--10665106 Score: 148
Period size: 36 Copynumber: 2.8 Consensus size: 36
10664997 ATGATATTGC
10665007 CTGTGCGCGATGTGGGGGTGCACATGATGGCATTAG
1 CTGTGCGCGATGTGGGGGTGCACATGATGGCATTAG
* *
10665043 CTGTGCGCGATGTGGGGGTACACATGATGGCCTTAG
1 CTGTGCGCGATGTGGGGGTGCACATGATGGCATTAG
** *
10665079 CTGTATGCGATGT-GGGGTGCACACGATG
1 CTGTGCGCGATGTGGGGGTGCACATGATG
10665107 ACTCTGGCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 13 0.22
36 45 0.78
ACGTcount: A:0.17, C:0.18, G:0.40, T:0.25
Consensus pattern (36 bp):
CTGTGCGCGATGTGGGGGTGCACATGATGGCATTAG
Found at i:10665501 original size:74 final size:74
Alignment explanation
Indices: 10665351--10665516 Score: 181
Period size: 74 Copynumber: 2.2 Consensus size: 74
10665341 TGCTGCGGAG
* * * * * *
10665351 AAATTCATTCTCGTTGCAGTGAGAAAGTCTCGGGTGGATGGCCTTAAGCCTTGCTCTGGATTTTA
1 AAATTCATTCTCGTTGCAGCGAGAAACTCTCGGGTGGATGGCCTTAAACCTTGCTCTGAAGTTCA
*
10665416 CTATAGTGA
66 CTATAGCGA
* * * **
10665425 AAATGCATGCTCGTTGCAGCGAGAAACTCTCGGGTGGTTGG-CTTAAAATTTTGCTCTGAAGTTC
1 AAATTCATTCTCGTTGCAGCGAGAAACTCTCGGGTGGATGGCCTT-AAACCTTGCTCTGAAGTTC
* *
10665489 GCTGTAGCGA
65 ACTATAGCGA
10665499 AAATTCATTCTCGCTTGC
1 AAATTCATTCTCG-TTGC
10665517 TCTACTATGC
Statistics
Matches: 74, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
73 3 0.04
74 67 0.91
75 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (74 bp):
AAATTCATTCTCGTTGCAGCGAGAAACTCTCGGGTGGATGGCCTTAAACCTTGCTCTGAAGTTCA
CTATAGCGA
Found at i:10669272 original size:16 final size:16
Alignment explanation
Indices: 10669232--10669273 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10669222 GAAACCAAAA
10669232 TTTAGATTTTGATTCT
1 TTTAGATTTTGATTCT
* *
10669248 TTTGGATTTTGATTTT
1 TTTAGATTTTGATTCT
*
10669264 TTTATATTTT
1 TTTAGATTTT
10669274 TATTGAATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (16 bp):
TTTAGATTTTGATTCT
Found at i:10670468 original size:79 final size:79
Alignment explanation
Indices: 10670385--10670550 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
10670375 CATGAGTTCC
* * * *
10670385 ATTTATGAGATTATG-ACATGTATGCCATG-GATGTATATGTTAAGAATA-TCATGTACTCTGTG
1 ATTTATGAGATTATGCA-ATGCATGCCATGAGATGTATATGTTAAG-ATAGTCATATACACTATG
**
10670447 GGCTAAGCATGTGAGTG
64 GGCTAAGCAAATGA-TG
* * *
10670464 ATTTATGAGATTATGCAATGCATGCCATGAGATGTATGTGTTGAGATAGTCTTATACACTATGGG
1 ATTTATGAGATTATGCAATGCATGCCATGAGATGTATATGTTAAGATAGTCATATACACTATGGG
10670529 CTAAGCAAATGATG
66 CTAAGCAAATGATG
10670543 ATTTATGA
1 ATTTATGA
10670551 AAATATTATA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 39 0.52
80 36 0.48
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (79 bp):
ATTTATGAGATTATGCAATGCATGCCATGAGATGTATATGTTAAGATAGTCATATACACTATGGG
CTAAGCAAATGATG
Found at i:10671708 original size:36 final size:35
Alignment explanation
Indices: 10671646--10671848 Score: 212
Period size: 36 Copynumber: 5.8 Consensus size: 35
10671636 TGATGCGACA
* * *
10671646 ATGTGGTATTTTTGCTCCCACGATGGGCTTTATGT-
1 ATGTGGTATTCTTACCCCCACGATGGGCTTTAT-TC
*
10671681 ATGTGGTATTCTTACCCTCCACGATGGGGTTTATTC
1 ATGTGGTATTCTTACCC-CCACGATGGGCTTTATTC
* * *
10671717 AAGCGGTATTCTTACCCCTCATGATGGGCTTTATTC
1 ATGTGGTATTCTTACCCC-CACGATGGGCTTTATTC
* * **
10671753 ATGTGGTATTCTTATCCCCATGATGGGCTTGGTTC
1 ATGTGGTATTCTTACCCCCACGATGGGCTTTATTC
* * *
10671788 ATGAGGTATTCTTA-CCCCACAATGGGCTTTGTTC
1 ATGTGGTATTCTTACCCCCACGATGGGCTTTATTC
* * *
10671822 ATATGATATTCTTATCCCCACGATGGG
1 ATGTGGTATTCTTACCCCCACGATGGG
10671849 ATTAAGTCAT
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
34 28 0.20
35 55 0.38
36 60 0.42
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (35 bp):
ATGTGGTATTCTTACCCCCACGATGGGCTTTATTC
Found at i:10687774 original size:21 final size:21
Alignment explanation
Indices: 10687750--10687796 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
10687740 ATTCATGCAA
10687750 TTCATGACAAAGA-TAGATGCC
1 TTCATGACAAAGACT-GATGCC
10687771 TTCATGACAAAGACTGATGCC
1 TTCATGACAAAGACTGATGCC
*
10687792 ATCAT
1 TTCAT
10687797 TTAGAGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (21 bp):
TTCATGACAAAGACTGATGCC
Found at i:10691356 original size:16 final size:16
Alignment explanation
Indices: 10691337--10691371 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10691327 GTATAAATCT
*
10691337 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
10691353 CATTTTAATTGAAAAA
1 CATTTTAATTAAAAAA
10691369 CAT
1 CAT
10691372 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:10695135 original size:15 final size:15
Alignment explanation
Indices: 10695115--10695156 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
10695105 TAAAACGACC
10695115 TTAAAACCAAAAACT
1 TTAAAACCAAAAACT
*
10695130 TTAAAATCC-AAAGCT
1 TTAAAA-CCAAAAACT
10695145 TTAAAACCAAAA
1 TTAAAACCAAAA
10695157 TCTCTTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.21
Consensus pattern (15 bp):
TTAAAACCAAAAACT
Found at i:10696427 original size:27 final size:27
Alignment explanation
Indices: 10696397--10696459 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
10696387 AAATTAGTTT
10696397 AGCCATTCATGCTCATATATTGTCATA
1 AGCCATTCATGCTCATATATTGTCATA
10696424 AGCCATTCATGCTCATATATTGTCATA
1 AGCCATTCATGCTCATATATTGTCATA
10696451 AGCCATTCA
1 AGCCATTCA
10696460 ATTTAAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (27 bp):
AGCCATTCATGCTCATATATTGTCATA
Found at i:10698282 original size:19 final size:18
Alignment explanation
Indices: 10698248--10698286 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
10698238 TTTGAAACTC
*
10698248 TTATTTTTTTAGTTATTT
1 TTATTTTTTTAATTATTT
10698266 TTATTTTATTTAATTATTT
1 TTATTTT-TTTAATTATTT
10698285 TT
1 TT
10698287 TTTAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTATTTTTTTAATTATTT
Found at i:10699661 original size:3 final size:3
Alignment explanation
Indices: 10699653--10699690 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
10699643 ACTTTATCTC
* *
10699653 TAG TAG TAG TAC TAG TAA TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
10699691 ACTATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:10706615 original size:57 final size:57
Alignment explanation
Indices: 10706517--10706635 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 57
10706507 AAGGTCTTAT
* *
10706517 CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCATACTA
1 CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCAAATGCAAACTA
*
10706574 CTTTGCATTGCATAGCATTTATTAAATTGCAT-AAATAAATCTATCAAATGCAAACTA
1 CTTTGCA-TGCATAGCATTTATTAAATCGCATAAAATAAATCTATCAAATGCAAACTA
10706631 CTTTG
1 CTTTG
10706636 GATGATTATG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 35 0.60
58 23 0.40
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (57 bp):
CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCAAATGCAAACTA
Found at i:10710312 original size:14 final size:14
Alignment explanation
Indices: 10710293--10710355 Score: 90
Period size: 14 Copynumber: 4.5 Consensus size: 14
10710283 TTCCATCACA
10710293 AATGTTAAATGATG
1 AATGTTAAATGATG
*
10710307 AATGTTAGATGATG
1 AATGTTAAATGATG
*
10710321 AATGTTAATTGATG
1 AATGTTAAATGATG
* *
10710335 AATGTTGATTGATG
1 AATGTTAAATGATG
10710349 AATGTTA
1 AATGTTA
10710356 CTTAATGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.40
Consensus pattern (14 bp):
AATGTTAAATGATG
Found at i:10710325 original size:28 final size:28
Alignment explanation
Indices: 10710293--10710355 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
10710283 TTCCATCACA
10710293 AATGTTAAATGATGAATGTTAGA-TGATG
1 AATGTTAAATGATGAATGTT-GATTGATG
*
10710321 AATGTTAATTGATGAATGTTGATTGATG
1 AATGTTAAATGATGAATGTTGATTGATG
10710349 AATGTTA
1 AATGTTA
10710356 CTTAATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 2 0.06
28 31 0.94
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.40
Consensus pattern (28 bp):
AATGTTAAATGATGAATGTTGATTGATG
Found at i:10723262 original size:53 final size:53
Alignment explanation
Indices: 10723182--10723290 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
10723172 TTGAATGAGA
10723182 ATAATTATATATATTTCAATCAGCATTATTTTGTGATGCATGCATAATTACAT
1 ATAATTATATATATTTCAATCAGCATTATTTTGTGATGCATGCATAATTACAT
10723235 ATAATTATATATATTTCAATCAGCATTATTTTGTGATGCATGCATAATTACAT
1 ATAATTATATATATTTCAATCAGCATTATTTTGTGATGCATGCATAATTACAT
10723288 ATA
1 ATA
10723291 TCTGCAGTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (53 bp):
ATAATTATATATATTTCAATCAGCATTATTTTGTGATGCATGCATAATTACAT
Found at i:10724830 original size:29 final size:28
Alignment explanation
Indices: 10724769--10724865 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 28
10724759 TAAAATAAAT
*
10724769 TTTTATATTTTTATTACTTTAAGTCAAAT--
1 TTTTATATTTTTA-T--TTTAAATCAAATAA
10724798 TTTTATATTTTTATTTTAAATCAAATAA
1 TTTTATATTTTTATTTTAAATCAAATAA
* *
10724826 GTTTTTTTATTTTTTGTTTTAAATCAAATAAAA
1 --TTTTATA-TTTTTATTTTAAATCAAAT--AA
10724859 TTTTATA
1 TTTTATA
10724866 ATTAATGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
26 11 0.19
28 1 0.02
29 13 0.23
30 6 0.11
31 24 0.42
33 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTTATATTTTTATTTTAAATCAAATAA
Found at i:10724840 original size:31 final size:32
Alignment explanation
Indices: 10724797--10724856 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
10724787 TTAAGTCAAA
10724797 TTTTTATATTTTTATTTTAAATCAAATAAGTT
1 TTTTTATATTTTTATTTTAAATCAAATAAGTT
*
10724829 TTTTTAT-TTTTTGTTTTAAATCAAATAA
1 TTTTTATATTTTTATTTTAAATCAAATAA
10724857 AATTTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (32 bp):
TTTTTATATTTTTATTTTAAATCAAATAAGTT
Found at i:10731460 original size:6 final size:6
Alignment explanation
Indices: 10731449--10731473 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10731439 GCCCAAACTA
10731449 CTATCT CTATCT CTATCT CTATCT C
1 CTATCT CTATCT CTATCT CTATCT C
10731474 AGTCTCGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CTATCT
Found at i:10734750 original size:62 final size:62
Alignment explanation
Indices: 10734597--10734756 Score: 212
Period size: 62 Copynumber: 2.6 Consensus size: 62
10734587 CCAAGTACGC
* * * * *
10734597 AAGTTTCTCACTGCAGCGAGAATCAATTTAGTTGCAGCAAGAATAGTGACTCCCAAGACAAA
1 AAGTTTCTCGCTGCAACGAAAATCAATTTGGTTGCAGCAAGAACAGTGACTCCCAAGACAAA
* * * *
10734659 AAGTTTGTCGTTGCAACGAAAATCAATTTGGTTGCAGCGAGAACAGTGACTCTCAAGACAAA
1 AAGTTTCTCGCTGCAACGAAAATCAATTTGGTTGCAGCAAGAACAGTGACTCCCAAGACAAA
* * *
10734721 AAGTTTCTTGCTGCAATGAAAATCAATTTGGCTGCA
1 AAGTTTCTCGCTGCAACGAAAATCAATTTGGTTGCA
10734757 ATGAAAATCT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 84 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (62 bp):
AAGTTTCTCGCTGCAACGAAAATCAATTTGGTTGCAGCAAGAACAGTGACTCCCAAGACAAA
Found at i:10735022 original size:36 final size:36
Alignment explanation
Indices: 10734969--10735101 Score: 117
Period size: 36 Copynumber: 3.7 Consensus size: 36
10734959 TCACCCCAGC
* **
10734969 TCATGTGCAC-TCTCACACCGCACATAGCTAATATTG
1 TCATGTGCACTTC-CACACCGCACATAGCAAATATCA
* *
10735005 TCATGTGCACTTCCACACCGCTCATGGCAAATATCA
1 TCATGTGCACTTCCACACCGCACATAGCAAATATCA
* * * * * *
10735041 TCATGTACACTCCCACACCGCACTTCA-CCATTACCA
1 TCATGTGCACTTCCACACCGCACAT-AGCAAATATCA
* *
10735077 TCATGTGTACTTCCACACCACACAT
1 TCATGTGCACTTCCACACCGCACAT
10735102 GCACGGTTGT
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
36 75 0.97
37 2 0.03
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.26
Consensus pattern (36 bp):
TCATGTGCACTTCCACACCGCACATAGCAAATATCA
Found at i:10736558 original size:2 final size:2
Alignment explanation
Indices: 10736551--10736576 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10736541 CATTATGTTG
10736551 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
10736577 GTTGTGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10736653 original size:42 final size:42
Alignment explanation
Indices: 10736600--10736708 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 42
10736590 ATTGACCTGG
* *
10736600 CTATGTACGAGTGGGAGTGCACATAAGCCGATGCTGACCCGA
1 CTATGTGCGAGTGGGAGTGCACATAAGCCGATGCTGACCCAA
* * *
10736642 CTATGTGCGAGTGGGAGTGCGCAGAAGTCGATGCTGACCCAA
1 CTATGTGCGAGTGGGAGTGCACATAAGCCGATGCTGACCCAA
10736684 CTATGTGCGAGTAGGGAGTGCACAT
1 CTATGTGCGAGT-GGGAGTGCACAT
10736709 GAGCGAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 49 0.83
43 10 0.17
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.20
Consensus pattern (42 bp):
CTATGTGCGAGTGGGAGTGCACATAAGCCGATGCTGACCCAA
Found at i:10738791 original size:21 final size:21
Alignment explanation
Indices: 10738767--10738807 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10738757 AAGAAGAAGA
*
10738767 AGAAAGTGCTGGAAAGTGAGG
1 AGAAAGTGCTAGAAAGTGAGG
10738788 AGAAAGTGCTAGAAAGTGAG
1 AGAAAGTGCTAGAAAGTGAG
10738808 ATATTTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.39, T:0.15
Consensus pattern (21 bp):
AGAAAGTGCTAGAAAGTGAGG
Found at i:10739885 original size:2 final size:2
Alignment explanation
Indices: 10739878--10739909 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10739868 TCCGCCTTAA
10739878 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
10739910 TCAGTTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10742323 original size:30 final size:30
Alignment explanation
Indices: 10742275--10742355 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
10742265 TAACCATAAT
* *
10742275 ACCTTTT-AATGAAGGTATAACCCACAACC
1 ACCTTTTCAATGGAGGTATAACCAACAACC
*
10742304 ACCTTTTCAATGGAGGTATAACCAACAACT
1 ACCTTTTCAATGGAGGTATAACCAACAACC
*
10742334 ACCTTTACAATGGAGGTATAAC
1 ACCTTTTCAATGGAGGTATAAC
10742356 TGACAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 7 0.15
30 40 0.85
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (30 bp):
ACCTTTTCAATGGAGGTATAACCAACAACC
Found at i:10746360 original size:2 final size:2
Alignment explanation
Indices: 10746353--10746385 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10746343 TCAAATCATG
10746353 TA 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 TA T
10746386 TACGAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10749833 original size:2 final size:2
Alignment explanation
Indices: 10749826--10749860 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10749816 AAACAAAATC
10749826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10749861 CACATATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10754972 original size:21 final size:20
Alignment explanation
Indices: 10754935--10754977 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
10754925 TGTTGAAAAT
* * *
10754935 TGTGTAAATTTGGATGATGA
1 TGTGAAAATTTGAATGAGGA
10754955 TGTGAAAATTTTGAATGAGGA
1 TGTGAAAA-TTTGAATGAGGA
10754976 TG
1 TG
10754978 AAATTCCCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (20 bp):
TGTGAAAATTTGAATGAGGA
Found at i:10759846 original size:73 final size:73
Alignment explanation
Indices: 10759713--10759922 Score: 239
Period size: 73 Copynumber: 2.9 Consensus size: 73
10759703 AAGATGGTAG
* * * * * * *
10759713 ACAGAGAGCTCTTAGTTGACTAACATACTTCTTAGTCGATTAAGTTGAT-TTTGCCTTCTGACCC
1 ACAGTGAGCTCTTAGTCGACTAACATGCTTCTTAGTCGATTAAG-TCATCTCTGTCTTCTGAACC
10759777 CAGTTTCAA
65 CAGTTTCAA
10759786 ACAGTGAGCTCTTAGTCGACTAACAATGCTT-TATAGTCGATTAAGTCATCTCTGTC-TCTGAAC
1 ACAGTGAGCTCTTAGTCGACTAAC-ATGCTTCT-TAGTCGATTAAGTCATCTCTGTCTTCTGAAC
*
10759849 CCAGTTTCTA
64 CCAGTTTCAA
* * * * *
10759859 GCAATAAGCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCGTCTCTGT-TTCTAAACC
1 ACAGTGAGCTCTTAGTCGACTAAC-ATGCTTCTTAGTCGATTAAGTCATCTCTGTCTTCTGAACC
10759923 TGCCAACTTC
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
73 96 0.81
74 22 0.19
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (73 bp):
ACAGTGAGCTCTTAGTCGACTAACATGCTTCTTAGTCGATTAAGTCATCTCTGTCTTCTGAACCC
AGTTTCAA
Found at i:10763842 original size:23 final size:23
Alignment explanation
Indices: 10763790--10763843 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
10763780 GAAGAAGGAA
10763790 GAAGA-AGAAGAAGAAGCTGCTG
1 GAAGATAGAAGAAGAAGCTGCTG
* * * *
10763812 AAAAATAGGAGAAGAAGTTGCTG
1 GAAGATAGAAGAAGAAGCTGCTG
10763835 GAAGATAGA
1 GAAGATAGA
10763844 GATATTTATA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.48, C:0.06, G:0.33, T:0.13
Consensus pattern (23 bp):
GAAGATAGAAGAAGAAGCTGCTG
Found at i:10767370 original size:74 final size:73
Alignment explanation
Indices: 10767248--10767453 Score: 213
Period size: 73 Copynumber: 2.8 Consensus size: 73
10767238 GGTAAATAGA
* * * * * *
10767248 GAGCTCTTAGTTGACTAACATACTTCTTAGTAGATTAAGTTGAT-TCTGTCTTCTGACCCCAGTT
1 GAGCTCTTAGTTGACTAATATGCTTTTTAGTCGATTAAGTCG-TCTCTGTCTTCTGAACCCAGTT
10767312 TCAAACAAT
65 TCAAACAAT
* * *
10767321 GAGCTTTTAGTCGACTAATAATGCTTTTTAGTCGATTAAGTCGTCTCTGTC-TCTAAACCCAGTT
1 GAGCTCTTAGTTGACTAAT-ATGCTTTTTAGTCGATTAAGTCGTCTCTGTCTTCTGAACCCAGTT
** *
10767385 TCTGACAGT
65 TCAAACAAT
* * *
10767394 AAGCTCTTAGTTAACTAACTATG-TTTCTTAGTCGATTAAGTCATCTCTGT-TTCTGAACCC
1 GAGCTCTTAGTTGACTAA-TATGCTTT-TTAGTCGATTAAGTCGTCTCTGTCTTCTGAACCC
10767454 GTCAACTTCA
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
72 3 0.03
73 81 0.74
74 26 0.24
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (73 bp):
GAGCTCTTAGTTGACTAATATGCTTTTTAGTCGATTAAGTCGTCTCTGTCTTCTGAACCCAGTTT
CAAACAAT
Found at i:10769039 original size:28 final size:28
Alignment explanation
Indices: 10769007--10769060 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10768997 GACTGAAACT
* *
10769007 TTATTTATGTTTAGTGTAATTTATTTTC
1 TTATTTATGCTTAGAGTAATTTATTTTC
*
10769035 TTATTTATGCTTGGAGTAATTTATTT
1 TTATTTATGCTTAGAGTAATTTATTT
10769061 ATTTTAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.61
Consensus pattern (28 bp):
TTATTTATGCTTAGAGTAATTTATTTTC
Found at i:10775662 original size:43 final size:43
Alignment explanation
Indices: 10775614--10775706 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
10775604 GTAAGAGTAC
* **
10775614 GGAGTGCACATAAGCCGAG-GATGACCC-GATTATGTGCGAATAG
1 GGAGTGCACATAACCCG-GTGATGACCCAG-CCATGTGCGAATAG
* *
10775657 GGAGTGCGCATAACCCGGTGATGACCCAGCCATGTGCGAGTAG
1 GGAGTGCACATAACCCGGTGATGACCCAGCCATGTGCGAATAG
10775700 GGAGTGC
1 GGAGTGC
10775707 GCATGAGCTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 41 0.95
44 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.35, T:0.17
Consensus pattern (43 bp):
GGAGTGCACATAACCCGGTGATGACCCAGCCATGTGCGAATAG
Found at i:10776128 original size:39 final size:39
Alignment explanation
Indices: 10776074--10776155 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
10776064 TCGCTTCAGT
*
10776074 GAGAAACTCTCTGTTTCATCA-GTT-GAATTTTGCTGCAGC
1 GAGAAACTCTCTGTTTC-T-AGGTTACAATTTTGCTGCAGC
10776113 GAGAAAC-CTTCTGTTTCTAGGTTACAATTTTGCTGCAGC
1 GAGAAACTC-TCTGTTTCTAGGTTACAATTTTGCTGCAGC
10776152 GAGA
1 GAGA
10776156 TTCAATCTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
37 1 0.03
38 5 0.13
39 33 0.85
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (39 bp):
GAGAAACTCTCTGTTTCTAGGTTACAATTTTGCTGCAGC
Found at i:10780292 original size:15 final size:15
Alignment explanation
Indices: 10780274--10780303 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10780264 TACAAAAATT
*
10780274 TTCAAAGTCATCTCC
1 TTCAAACTCATCTCC
10780289 TTCAAACTCATCTCC
1 TTCAAACTCATCTCC
10780304 ATGATCACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.37, G:0.03, T:0.33
Consensus pattern (15 bp):
TTCAAACTCATCTCC
Found at i:10785924 original size:15 final size:15
Alignment explanation
Indices: 10785912--10785944 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10785902 ATTCATCTCT
10785912 TTCCATGTCATCTTC
1 TTCCATGTCATCTTC
*
10785927 TTGCATGTCATCTTC
1 TTCCATGTCATCTTC
10785942 TTC
1 TTC
10785945 ACCCTCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.30, G:0.09, T:0.48
Consensus pattern (15 bp):
TTCCATGTCATCTTC
Found at i:10789775 original size:29 final size:29
Alignment explanation
Indices: 10789731--10789911 Score: 185
Period size: 29 Copynumber: 6.4 Consensus size: 29
10789721 GTTTTCACAT
* * *
10789731 TTTTTAACCTTGTTAGGTGCCTTTGCACC
1 TTTTGAACTTTGTTAGGTGCCTTAGCACC
* *
10789760 TTTTGAACTTTATTAGGTGCCTTAGTACC
1 TTTTGAACTTTGTTAGGTGCCTTAGCACC
10789789 TTTTGAACTTTGTTAGGTGCCTTAGCACC
1 TTTTGAACTTTGTTAGGTGCCTTAGCACC
* * * *
10789818 TATGGAACTTTGTAAGGTG---T-GTACC
1 TTTTGAACTTTGTTAGGTGCCTTAGCACC
*
10789843 TTTTGAACTTTGTTAGGTGCTTTAGCACC
1 TTTTGAACTTTGTTAGGTGCCTTAGCACC
* * **
10789872 GTTTG-ACTTTATTAGGCACCTTAGCACC
1 TTTTGAACTTTGTTAGGTGCCTTAGCACC
*
10789900 TTTAG-ACTTTGT
1 TTTTGAACTTTGT
10789912 GGGTACCATA
Statistics
Matches: 125, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
25 20 0.16
26 1 0.01
28 29 0.23
29 75 0.60
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (29 bp):
TTTTGAACTTTGTTAGGTGCCTTAGCACC
Found at i:10815823 original size:17 final size:17
Alignment explanation
Indices: 10815801--10815843 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
10815791 TTTTAGAAAA
10815801 AAAGCATTTGGTCAACT
1 AAAGCATTTGGTCAACT
10815818 AAAGCATTTGGTCAACT
1 AAAGCATTTGGTCAACT
*
10815835 TAAGCATTT
1 AAAGCATTT
10815844 ATTCTCTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (17 bp):
AAAGCATTTGGTCAACT
Found at i:10817763 original size:19 final size:19
Alignment explanation
Indices: 10817736--10817773 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10817726 CCATTTGACT
10817736 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
10817755 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
10817774 GTTAAGAAGT
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:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:10821474 original size:16 final size:18
Alignment explanation
Indices: 10821445--10821483 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
10821435 TATTTCATTA
10821445 AAAT-TAAATAAAAT-TT
1 AAATATAAATAAAATATT
10821461 AAATATAAAT-AAATATT
1 AAATATAAATAAAATATT
10821478 -AATATA
1 AAATATA
10821484 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATAAATAAAATATT
Found at i:10821521 original size:3 final size:3
Alignment explanation
Indices: 10821504--10821540 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
10821494 ACTTATTATG
10821504 TAA TGAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA
10821541 TCTTGAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10822385 original size:18 final size:21
Alignment explanation
Indices: 10822344--10822388 Score: 69
Period size: 18 Copynumber: 2.3 Consensus size: 21
10822334 TAATCATAGA
10822344 AATAAAGTTAATAAAGTTACT
1 AATAAAGTTAATAAAGTTACT
10822365 AATAAAGTT-AT-AA-TTACT
1 AATAAAGTTAATAAAGTTACT
10822383 AATAAA
1 AATAAA
10822389 CTATTATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.46
19 2 0.08
20 2 0.08
21 9 0.38
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (21 bp):
AATAAAGTTAATAAAGTTACT
Found at i:10828669 original size:20 final size:20
Alignment explanation
Indices: 10828644--10828689 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10828634 TTTTGGCCCC
10828644 ATTTGACTTAATGGAGTATA
1 ATTTGACTTAATGGAGTATA
*
10828664 ATTTGACTTAATGGAGTATG
1 ATTTGACTTAATGGAGTATA
10828684 ATTTGA
1 ATTTGA
10828690 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTTGACTTAATGGAGTATA
Found at i:10834825 original size:22 final size:22
Alignment explanation
Indices: 10834797--10834840 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10834787 TTCGATTGGT
**
10834797 ATCAAAGCTTTTGGTTTTAAAG
1 ATCAAAGCTTTTAATTTTAAAG
*
10834819 ATCAAAGTTTTTAATTTTAAAG
1 ATCAAAGCTTTTAATTTTAAAG
10834841 TGGTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (22 bp):
ATCAAAGCTTTTAATTTTAAAG
Found at i:10840258 original size:20 final size:20
Alignment explanation
Indices: 10840233--10840278 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10840223 TTTTGACCCC
10840233 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
10840253 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
10840273 ATTTGA
1 ATTTGA
10840279 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:10840354 original size:28 final size:27
Alignment explanation
Indices: 10840323--10840375 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10840313 TTTGGAGTAT
*
10840323 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
10840351 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
10840376 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:10840381 original size:28 final size:28
Alignment explanation
Indices: 10840323--10840381 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
10840313 TTTGGAGTAT
* *
10840323 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
10840351 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
10840379 AGG
1 AGG
10840382 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:10842466 original size:22 final size:22
Alignment explanation
Indices: 10842424--10842467 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 22
10842414 AGCTTTTACG
10842424 CTATAAAATTATTTACGTATAACT
1 CTATAAAATTATTTA--TATAACT
10842448 CTATAAATATTATTT-TATAA
1 CTATAAA-ATTATTTATATAA
10842468 GAAAATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.26
24 7 0.37
25 7 0.37
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (22 bp):
CTATAAAATTATTTATATAACT
Found at i:10851230 original size:21 final size:21
Alignment explanation
Indices: 10851180--10851231 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
10851170 GCATTAGTCC
* *
10851180 TTGTCATAAATGCATCAATCT
1 TTGTCATGAACGCATCAATCT
* *
10851201 TTATTATGAACGCATCAATCT
1 TTGTCATGAACGCATCAATCT
10851222 TTGTCATGAA
1 TTGTCATGAA
10851232 TTGCATGAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TTGTCATGAACGCATCAATCT
Found at i:10853952 original size:20 final size:20
Alignment explanation
Indices: 10853927--10853966 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10853917 CTACGAATAT
10853927 CTCATTTCTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
*
10853947 CTCATTTTTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
10853967 TTGTTCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.38, G:0.10, T:0.38
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:10854048 original size:2 final size:2
Alignment explanation
Indices: 10854043--10854109 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
10854033 ACTCTCTTTA
* *
10854043 TC TC TC TC TA TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10854085 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
10854110 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.01, C:0.46, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10854051 original size:12 final size:11
Alignment explanation
Indices: 10854034--10854109 Score: 92
Period size: 10 Copynumber: 7.4 Consensus size: 11
10854024 GCTTCCATAA
*
10854034 CTCTCT-TTAT
1 CTCTCTCTTCT
10854044 CTCTCTCTATCT
1 CTCTCTCT-TCT
10854056 CTCTCTC-TCT
1 CTCTCTCTTCT
10854066 CTCTCTC-TCT
1 CTCTCTCTTCT
10854076 CTCTCTCTT-T
1 CTCTCTCTTCT
10854086 CTCTCTC-TCT
1 CTCTCTCTTCT
10854096 CTCTCTC-TCT
1 CTCTCTCTTCT
10854106 CTCT
1 CTCT
10854110 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
9 1 0.02
10 49 0.80
11 2 0.03
12 9 0.15
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.53
Consensus pattern (11 bp):
CTCTCTCTTCT
Found at i:10861506 original size:20 final size:21
Alignment explanation
Indices: 10861483--10861521 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10861473 TTTTTTTTTT
10861483 CACTTCT-CATTGAATTTTCA
1 CACTTCTCCATTGAATTTTCA
* *
10861503 CACTTTTCCCTTGAATTTT
1 CACTTCTCCATTGAATTTT
10861522 TCCACCTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.49
Consensus pattern (21 bp):
CACTTCTCCATTGAATTTTCA
Found at i:10862300 original size:31 final size:32
Alignment explanation
Indices: 10862255--10862323 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
10862245 TGCATTCTTA
* * * *
10862255 TAAATAAATAATATAGTGTTTA-TTTTTTTAT
1 TAAAAAAATAATATAATGTTTACTTGTTTAAT
*
10862286 TAAAAAAATTATATAATGTTTACTTGTTTAAT
1 TAAAAAAATAATATAATGTTTACTTGTTTAAT
10862318 TAAAAA
1 TAAAAA
10862324 TAAATCATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (32 bp):
TAAAAAAATAATATAATGTTTACTTGTTTAAT
Found at i:10869704 original size:17 final size:17
Alignment explanation
Indices: 10869678--10869724 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
10869668 GAGGTTCAAA
*
10869678 TTTT-TTAATATTTTAT
1 TTTTATTAATATTTAAT
*
10869694 TTTTATTAATAATTAAT
1 TTTTATTAATATTTAAT
*
10869711 TATTTATTTATATT
1 T-TTTATTAATATT
10869725 AAATGTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 4 0.16
17 11 0.44
18 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTAATATTTAAT
Found at i:10870372 original size:16 final size:16
Alignment explanation
Indices: 10870353--10870384 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10870343 GGTTTTGAGG
10870353 TTTAAAATTTTTTATT
1 TTTAAAATTTTTTATT
10870369 TTTAAAATTTTTTATT
1 TTTAAAATTTTTTATT
10870385 AATATTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAAAATTTTTTATT
Found at i:10870481 original size:23 final size:24
Alignment explanation
Indices: 10870448--10870493 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
10870438 TATGAGTTGG
* *
10870448 ATTTATTATTTCA-TCATTTATAT
1 ATTTATAATTTCATTCATGTATAT
10870471 ATTTATAATTTCATTCATGTATA
1 ATTTATAATTTCATTCATGTATA
10870494 AGCATTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTATAATTTCATTCATGTATAT
Found at i:10875890 original size:73 final size:72
Alignment explanation
Indices: 10875710--10875893 Score: 176
Period size: 73 Copynumber: 2.5 Consensus size: 72
10875700 AAGTTTTGAA
* *
10875710 CCAACCACCCAAGAGTTTCTTGCTGTAGTGAGAATGAATTTTGCTGTAGCGAAAACTCGGGCAAG
1 CCAACCACCCAAGAGTTTCTTGCTGTAGCGAGAATGAATTTTGCCGTAGCGAAAACTCGGGCAAG
**
10875775 TATTTTAC
66 TA-TAGAC
* ** * * * * * *
10875783 CCAACCACCCGAGAGTTT-TTCGCTACAGCCAGAATGCATTTTTGCCGTAGTGAAAATTTGGGCT
1 CCAACCACCCAAGAGTTTCTT-GCTGTAGCGAGAATG-AATTTTGCCGTAGCGAAAACTCGGGCA
10875847 AGTCA-AGAC
64 AGT-ATAGAC
*
10875856 CTC-AGCACCCAAGAGTTTCTTGCTGTAGCGAGAATGAA
1 C-CAACCACCCAAGAGTTTCTTGCTGTAGCGAGAATGAA
10875894 ATTTCGTTGC
Statistics
Matches: 87, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
72 3 0.03
73 56 0.64
74 27 0.31
75 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (72 bp):
CCAACCACCCAAGAGTTTCTTGCTGTAGCGAGAATGAATTTTGCCGTAGCGAAAACTCGGGCAAG
TATAGAC
Found at i:10881594 original size:2 final size:2
Alignment explanation
Indices: 10881587--10881617 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10881577 NNTATAAAAC
10881587 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10881618 CATACATCAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10881718 original size:43 final size:43
Alignment explanation
Indices: 10881652--10881738 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
10881642 CGCCACACTC
* **
10881652 AGCTTATGTGCACTCCCACACCGCACATAGTTGGGTCATCATT
1 AGCTCATGTGCACTCCCACACCGCACATAACTGGGTCATCATT
**
10881695 AGCTCATGTGCACTCTTACACCGCACATAACTGGGTCATCATT
1 AGCTCATGTGCACTCCCACACCGCACATAACTGGGTCATCATT
10881738 A
1 A
10881739 TCACACAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (43 bp):
AGCTCATGTGCACTCCCACACCGCACATAACTGGGTCATCATT
Found at i:10887722 original size:64 final size:64
Alignment explanation
Indices: 10887629--10887832 Score: 329
Period size: 64 Copynumber: 3.2 Consensus size: 64
10887619 TCCCCACTTT
* *
10887629 GCACATGCACAGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGTACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGCACTTCCCACTCC
*
10887693 GCACATGCACGGTCGAAATTATCACAACCTTTATCATTAAACTGGCATTTGCACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGCACTTCCCACTCC
* * * * *
10887757 GTACATGCACGGTCGTAATTATCACATCCTTTGTCATTCAACTGGCA-TTGCAGTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGCACTTCCCACTCC
10887820 GCACATGCACGGT
1 GCACATGCACGGT
10887833 TGCATCAATT
Statistics
Matches: 130, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 27 0.21
64 103 0.79
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.29
Consensus pattern (64 bp):
GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGCACTTCCCACTCC
Found at i:10893975 original size:43 final size:43
Alignment explanation
Indices: 10893914--10894006 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 43
10893904 TTGTGTGATA
* * * *
10893914 ATGATGACTCAGCTATGTGCGGTATGGGAGTGCACATGAGTTG
1 ATGATGACCCAGCCATGTGCAGTATGGGAGTGCACATAAGTTG
*
10893957 ATGATGACCCAGCCATGTGCAGTGTGGGAGTGCACATAAGTTG
1 ATGATGACCCAGCCATGTGCAGTATGGGAGTGCACATAAGTTG
10894000 ATGATGA
1 ATGATGA
10894007 TGATATTGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (43 bp):
ATGATGACCCAGCCATGTGCAGTATGGGAGTGCACATAAGTTG
Found at i:10901385 original size:43 final size:43
Alignment explanation
Indices: 10901325--10901417 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
10901315 TTGTGTGATA
*
10901325 ATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGTTG
1 ATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
* *
10901368 ATGATGACCCAGTTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
10901411 ATGATGA
1 ATGATGA
10901418 TGATATTGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
Found at i:10902422 original size:33 final size:32
Alignment explanation
Indices: 10902381--10902502 Score: 117
Period size: 33 Copynumber: 3.8 Consensus size: 32
10902371 CTTTCCCTCT
10902381 TCTCTCACCCGACTTCCCCTCTCTCTCAGCAGC
1 TCTCTCACCCGACTTCCCCTCTCTCTCAGC-GC
* * *
10902414 TCTCTCACCTGACTTCCCTTCTTTCTCAGTCGC
1 TCTCTCACCCGACTTCCCCTCTCTCTCAG-CGC
* *
10902447 TCTCTCA-CCTATCTTCCCC-CT-T-TCAACCGC
1 TCTCTCACCCGA-CTTCCCCTCTCTCTC-AGCGC
* *
10902477 TCTCTCACCCGTCTTCCCCTATCTCT
1 TCTCTCACCCGACTTCCCCTCTCTCT
10902503 TAGCCGTTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
30 19 0.26
31 5 0.07
32 5 0.07
33 42 0.58
34 1 0.01
ACGTcount: A:0.11, C:0.48, G:0.07, T:0.34
Consensus pattern (32 bp):
TCTCTCACCCGACTTCCCCTCTCTCTCAGCGC
Found at i:10902637 original size:36 final size:38
Alignment explanation
Indices: 10902577--10902659 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 38
10902567 TATTATGCTG
* *
10902577 GCTGTGATTTAGGTTTGCTATG-AAATATTTTGGGTTT
1 GCTGTGATTTAGGGTTGCTATGAAAATATTTTGAGTTT
* *
10902614 GTTGTGATTT-GGGTTGCTGTGAAAATATTTTGAGTTT
1 GCTGTGATTTAGGGTTGCTATGAAAATATTTTGAGTTT
10902651 GCTGTGATT
1 GCTGTGATT
10902660 ATGCTTATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 9 0.22
37 31 0.77
ACGTcount: A:0.18, C:0.05, G:0.29, T:0.48
Consensus pattern (38 bp):
GCTGTGATTTAGGGTTGCTATGAAAATATTTTGAGTTT
Found at i:10905194 original size:85 final size:85
Alignment explanation
Indices: 10905094--10905301 Score: 238
Period size: 85 Copynumber: 2.4 Consensus size: 85
10905084 CTAAAAGGTA
* * *
10905094 ATATGAATTTGTATTTAATTTATCAAAAGACATAATTTACATTTTTTACAGAAAAAAATGTAAAG
1 ATATGATTTTATATTTAATATATCAAAAGACATAATTTACATTTTTTACAGAAAAAAATG-AAAG
*
10905159 -CCATCATTCTATTTTCAAAG
65 ACCATCATTCTAATTTCAAAG
* * ** ** * *
10905179 ATATGATTTTATATTTCATATATCAAAAGACATAACTTATTTTTTTTTTAGAAAAAATTGGAAGA
1 ATATGATTTTATATTTAATATATCAAAAGACATAATTTACATTTTTTACAGAAAAAAATGAAAGA
* * *
10905244 CTATCTTTTTAATTTCAAAG
66 CCATCATTCTAATTTCAAAG
* * *
10905264 ATATGATTTTCTATTTAATATATCAAAAAACATGATTT
1 ATATGATTTTATATTTAATATATCAAAAGACATAATTT
10905302 TCTATTTCTA
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
84 3 0.03
85 99 0.97
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (85 bp):
ATATGATTTTATATTTAATATATCAAAAGACATAATTTACATTTTTTACAGAAAAAAATGAAAGA
CCATCATTCTAATTTCAAAG
Found at i:10906745 original size:19 final size:20
Alignment explanation
Indices: 10906717--10906754 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
10906707 GAGTAGAGAA
10906717 TTTTGAAATAAAATAATATT
1 TTTTGAAATAAAATAATATT
10906737 TTTTG-AATAAAATAATAT
1 TTTTGAAATAAAATAATAT
10906755 AAAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTGAAATAAAATAATATT
Found at i:10907221 original size:3 final size:3
Alignment explanation
Indices: 10907209--10907243 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
10907199 TAAATGAATC
10907209 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10907244 TAAAGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10923408 original size:35 final size:34
Alignment explanation
Indices: 10923357--10923491 Score: 132
Period size: 35 Copynumber: 4.0 Consensus size: 34
10923347 GAAAAGTTAG
* *
10923357 TTGTTG-GGTTTTGGTTGATCCCGTGAAAACCCA
1 TTGTTGAGGTTTTGGTTGAGCCCGTGAAAAACCA
* **
10923390 TTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGTTG-AGGTTTTGGTTGAGCCCGTGAAAAACCA
*
10923425 CT-TTGA-GTTTTGGTTGAGCCCGTGAAAAACCA
1 TTGTTGAGGTTTTGGTTGAGCCCGTGAAAAACCA
** * **
10923457 TTGTAAAAGGTTATGGTTGAGCCTTTGAAAAACCA
1 TTGT-TGAGGTTTTGGTTGAGCCCGTGAAAAACCA
10923492 CTTTTGGTTA
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
32 24 0.29
33 8 0.10
34 4 0.05
35 46 0.56
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (34 bp):
TTGTTGAGGTTTTGGTTGAGCCCGTGAAAAACCA
Found at i:10923441 original size:67 final size:67
Alignment explanation
Indices: 10923364--10923495 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 67
10923354 TAGTTGTTGG
* * *** *
10923364 GTTTTGGTTGATCCCGTGAAAACCCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACCACTTT
1 GTTTTGGTTGAGCCCGTGAAAAACCATTGTAAAAGGTTATGGTTGAGCCTTTGAAAAACCACTTT
10923429 GA
66 GA
10923431 GTTTTGGTTGAGCCCGTGAAAAACCATTGTAAAAGGTTATGGTTGAGCCTTTGAAAAACCACTTT
1 GTTTTGGTTGAGCCCGTGAAAAACCATTGTAAAAGGTTATGGTTGAGCCTTTGAAAAACCACTTT
10923496 TGGTTATAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (67 bp):
GTTTTGGTTGAGCCCGTGAAAAACCATTGTAAAAGGTTATGGTTGAGCCTTTGAAAAACCACTTT
GA
Found at i:10923444 original size:32 final size:34
Alignment explanation
Indices: 10923397--10923495 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 34
10923387 CCATTGTTGT
* *
10923397 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTT-G
1 AGGTTATGGTTGAGCCTTTGAAAAACCACTTTAA
* **
10923430 A-GTTTTGGTTGAGCCCGTGAAAAACCA-TTGTAAA
1 AGGTTATGGTTGAGCCTTTGAAAAACCACTT-T-AA
10923464 AGGTTATGGTTGAGCCTTTGAAAAACCACTTT
1 AGGTTATGGTTGAGCCTTTGAAAAACCACTTT
10923496 TGGTTATAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
31 2 0.04
32 24 0.44
33 1 0.02
34 1 0.02
35 24 0.44
36 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (34 bp):
AGGTTATGGTTGAGCCTTTGAAAAACCACTTTAA
Found at i:10923519 original size:67 final size:66
Alignment explanation
Indices: 10923397--10923548 Score: 180
Period size: 67 Copynumber: 2.3 Consensus size: 66
10923387 CCATTGTTGT
* * * * * *
10923397 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGAGTTTTGGTTGAGCCCGTGAAAAACCATTGTA
1 AGGTT-TGGTTGAGCCTTTGAAAAACCACTTTGAGTTATAGTTAAGCCCGGGAAAAACCAGTATA
10923462 AA
65 AA
* *
10923464 AGGTTATGGTTGAGCCTTTGAAAAACCACTTTTG-GTTATAGTTAAGCTCGGGAAAAACTAGTAT
1 AGGTT-TGGTTGAGCCTTTGAAAAACCAC-TTTGAGTTATAGTTAAGCCCGGGAAAAACCAGTAT
10923528 AAA
64 AAA
*
10923531 AGGGTTTGGCTGAGCCTT
1 A-GGTTTGGTTGAGCCTT
10923549 GTAAAAGCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 65 0.89
68 8 0.11
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (66 bp):
AGGTTTGGTTGAGCCTTTGAAAAACCACTTTGAGTTATAGTTAAGCCCGGGAAAAACCAGTATAA
A
Found at i:10924864 original size:26 final size:28
Alignment explanation
Indices: 10924806--10924866 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
10924796 ACAAAGGAAA
*
10924806 TCAAAATGGTGATGATTTCACGATAGGG
1 TCAAAATGGTCATGATTTCACGATAGGG
* * *
10924834 GCAAAATGGTCAT-TTTTCAC-CTAGGG
1 TCAAAATGGTCATGATTTCACGATAGGG
10924860 TCAAAAT
1 TCAAAAT
10924867 TTTTAAGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 11 0.39
27 6 0.21
28 11 0.39
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (28 bp):
TCAAAATGGTCATGATTTCACGATAGGG
Found at i:10925879 original size:37 final size:37
Alignment explanation
Indices: 10925825--10925945 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 37
10925815 TGATGTTGGG
*
10925825 TGATGATG-TTGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATGGAGTGTGCGAGTAGGGAGTGCACACA
10925861 TGATGATGATGGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATGGAGTGTGCGAGTAGGGAGTGCACACA
* * * * *
10925898 TGGTGATGATAGAGTGTGCAAGTAAGGAGTTCACACA
1 TGATGATGATGGAGTGTGCGAGTAGGGAGTGCACACA
*
10925935 TGATGACGATG
1 TGATGATGATG
10925946 ATGTATATGT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 8 0.11
37 67 0.89
ACGTcount: A:0.28, C:0.11, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGATGGAGTGTGCGAGTAGGGAGTGCACACA
Found at i:10926169 original size:21 final size:22
Alignment explanation
Indices: 10926126--10926172 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10926116 GGTGCCCTGC
10926126 TTCTCGCTGCGACGAGAAAACA
1 TTCTCGCTGCGACGAGAAAACA
10926148 TTCTCGCTGCG--GAGAGAAACA
1 TTCTCGCTGCGACGAGA-AAACA
10926169 TTCT
1 TTCT
10926173 GTTTTGGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 11 0.46
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (22 bp):
TTCTCGCTGCGACGAGAAAACA
Found at i:10938091 original size:35 final size:33
Alignment explanation
Indices: 10938052--10938171 Score: 111
Period size: 35 Copynumber: 3.6 Consensus size: 33
10938042 TTGATCCCAC
10938052 GAAAAACCATTATTGTAGGTTGTGGTTGAGCCTTT
1 GAAAAACCATT-TTG-AGGTTGTGGTTGAGCCTTT
* * *
10938087 GAAAAATCACTTTG-GGTTTTGGTTGAG-CTTGT
1 GAAAAACCATTTTGAGGTTGTGGTTGAGCCTT-T
* *
10938119 GAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTC
1 GAAAAACCATTTTG--AGGTTGTGGTTGAGCCTTT
* *
10938154 AAAAAACCACTTTG-GGTT
1 GAAAAACCATTTTGAGGTT
10938172 ATACTTAAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
31 3 0.04
32 28 0.41
34 3 0.04
35 32 0.46
36 3 0.04
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (33 bp):
GAAAAACCATTTTGAGGTTGTGGTTGAGCCTTT
Found at i:10938109 original size:67 final size:67
Alignment explanation
Indices: 10938031--10938219 Score: 182
Period size: 67 Copynumber: 2.8 Consensus size: 67
10938021 AAGTTAGTTG
* * * ** *
10938031 TTGGGTTTTGGTTGATCCCACGAAAAACCATTATTG-TAGGTTGTGGTTGAGCCTTTGAAAAATC
1 TTGGGTTTTGGTTGAGCCCACGAAAAACCATT-GTGAAAGGTTGTGGTTGAGCCTTCAAAAAACC
10938095 ACT
65 ACT
****
10938098 TTGGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTCAAAAAACCA
1 TTGGGTTTTGGTTGAGCCCACGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTCAAAAAACCA
10938163 CT
66 CT
* ** * ** * * * *
10938165 TTGGGTTATACTTAAGCCCGGGAAAAACTAGTGTAAAAGGTTTTGGTTGAGCCTT
1 TTGGGTTTTGGTTGAGCCCACGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
10938220 GTAAAAGCCA
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 2 0.02
67 98 0.98
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCCCACGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTCAAAAAACCA
CT
Found at i:10940804 original size:13 final size:13
Alignment explanation
Indices: 10940786--10940810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10940776 GATGTTATAT
10940786 TAGTATAAAAGAA
1 TAGTATAAAAGAA
10940799 TAGTATAAAAGA
1 TAGTATAAAAGA
10940811 TGATTGAAGG
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:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (13 bp):
TAGTATAAAAGAA
Found at i:10943221 original size:20 final size:20
Alignment explanation
Indices: 10943196--10943248 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
10943186 GTTATCTTTA
10943196 AATGTTTATTTTAAGTTAGT
1 AATGTTTATTTTAAGTTAGT
*
10943216 AATG-TTAGTTTTAAGTTATT
1 AATGTTTA-TTTTAAGTTAGT
* *
10943236 TATATTTATTTTA
1 AATGTTTATTTTA
10943249 TGCTTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (20 bp):
AATGTTTATTTTAAGTTAGT
Found at i:10946365 original size:128 final size:128
Alignment explanation
Indices: 10946207--10946458 Score: 459
Period size: 128 Copynumber: 2.0 Consensus size: 128
10946197 TATCCAACTG
*
10946207 AACCTAGTCAGATCTATAGAAAGGAAAAAATTATTATTAAATTACATGTCACCACATGGACTTGA
1 AACCTAGTCAGATATATAGAAAGGAAAAAATTATTATTAAATTACATGTCACCACATGGACTTGA
10946272 TGATATCATTAAAGATAACCATATAATTAATTATAAAATAATTAACTTATTAATTGGATACTA
66 TGATATCATTAAAGATAACCATATAATTAATTATAAAATAATTAACTTATTAATTGGATACTA
*
10946335 AACCTAGTCAGATATGTAGAAAGGAAAAAATTATTATTAAATTACATGTCACCACATGGACTTGA
1 AACCTAGTCAGATATATAGAAAGGAAAAAATTATTATTAAATTACATGTCACCACATGGACTTGA
* * *
10946400 TGATATCATTAAAGATAACCATATAGTTAATTATAAAATAATTAATTTATTGATTGGAT
66 TGATATCATTAAAGATAACCATATAATTAATTATAAAATAATTAACTTATTAATTGGAT
10946459 CATTTTAAAG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 119 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (128 bp):
AACCTAGTCAGATATATAGAAAGGAAAAAATTATTATTAAATTACATGTCACCACATGGACTTGA
TGATATCATTAAAGATAACCATATAATTAATTATAAAATAATTAACTTATTAATTGGATACTA
Found at i:10946524 original size:55 final size:55
Alignment explanation
Indices: 10946410--10946526 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
10946400 TGATATCATT
* * * * *
10946410 AAAGATAACCATATAGTTAATTATAAAATAATTAATTTATTGATTGGATCATTTT
1 AAAGACAACCATATAATTAATTATAAAATAATGAATTTATTGATTAGATCATTTC
* * * * *
10946465 AAAGACAACTATATAATTAATTATAAAATAATGGATTTATTGGTTAGCTTATTTC
1 AAAGACAACCATATAATTAATTATAAAATAATGAATTTATTGATTAGATCATTTC
10946520 AAAGACA
1 AAAGACA
10946527 CGTAGTTGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (55 bp):
AAAGACAACCATATAATTAATTATAAAATAATGAATTTATTGATTAGATCATTTC
Found at i:10947774 original size:20 final size:20
Alignment explanation
Indices: 10947749--10947791 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
10947739 CGTATATACC
10947749 CATCATCATCATCACCAGCT
1 CATCATCATCATCACCAGCT
10947769 CATCATCATCATCACCAGCT
1 CATCATCATCATCACCAGCT
10947789 CAT
1 CAT
10947792 GCGCACTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.40, G:0.05, T:0.26
Consensus pattern (20 bp):
CATCATCATCATCACCAGCT
Found at i:10957808 original size:55 final size:54
Alignment explanation
Indices: 10957658--10957836 Score: 259
Period size: 54 Copynumber: 3.3 Consensus size: 54
10957648 AGTGAGGTTT
* * *
10957658 TCAAGTCTAGTTCGAGATTAAAAACAAGTCACCAAGACCCTTGAAGCGAAGATC
1 TCAAGTCTAGTTCGTGATCAAAAATAAGTCACCAAGACCCTTGAAGCGAAGATC
* * * *
10957712 TCAAGTCTAGTTCATGATCAAGATTAAGTCACCAAAACCCTTGAAGCGAAGATC
1 TCAAGTCTAGTTCGTGATCAAAAATAAGTCACCAAGACCCTTGAAGCGAAGATC
* *
10957766 TCAAGTTCTAGTTCGTGATCAAAAATAAGTCATCAAGGCCCTTGAAGCGAAGATC
1 TCAAG-TCTAGTTCGTGATCAAAAATAAGTCACCAAGACCCTTGAAGCGAAGATC
*
10957821 TCAATTCTAGTTCGTG
1 TCAAGTCTAGTTCGTG
10957837 TTGAAGATCA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 63 0.57
55 47 0.43
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (54 bp):
TCAAGTCTAGTTCGTGATCAAAAATAAGTCACCAAGACCCTTGAAGCGAAGATC
Found at i:10959114 original size:229 final size:229
Alignment explanation
Indices: 10958682--10959140 Score: 609
Period size: 229 Copynumber: 2.0 Consensus size: 229
10958672 TTTTAGAACT
* * **
10958682 AAAACATACCTCCACCCATAGATCACCATGGTGATATTTTAACACATAGAATGGCATATAAAATC
1 AAAACATACCTCCACCCACAGATCACCATGGTGATATTTTAACACATAAAATAACATATAAAATC
** ** * * * *
10958747 ATAAAATCAGAAGTTAACTTTGGCAACGTTCTTTTGCTCGAAATAACAATTTCCTTAATGTAACC
66 ATAAAATCAGAAACTAACCCTGGCAACGTTCTTCTGCTCAAAATAACAATCTCCTTAATGCAACC
* * *
10958812 CACGAACAGCACAAGAAACAAGAACCCTAGCCAATCAAGCTCTTAGCCTTCAATGCTAGTATATA
131 CACGAACACCACAAGAAACAAGAACCCTAGCCAATCAAGCTCATAGCCTTCAATGCTAGTACATA
*
10958877 CAATTTCACCTGA-ACTTTACAGCAAAGGAGGGAG
196 CAATTTCACCTGACACTTT-CAGCAAAGGAGAGAG
*
10958911 AAAACATACCTCTACCCACAGATCACCATGGTGATATTTTAACACATAAAATAACATATAAAATC
1 AAAACATACCTCCACCCACAGATCACCATGGTGATATTTTAACACATAAAATAACATATAAAATC
* * * **
10958976 ATAAAATTAGAAACTAACCCTGGCAATGTTCTTCTGTTCAAAATAGTAATCT-CTTCAATGCAAC
66 ATAAAATCAGAAACTAACCCTGGCAACGTTCTTCTGCTCAAAATAACAATCTCCTT-AATGCAAC
* * * * *
10959040 CCGCGAACACCATAAGAAGCAAGAACCTTAGCCAATCAAGCTCATAGCC-TCTAATGGTAGTACA
130 CCACGAACACCACAAGAAACAAGAACCCTAGCCAATCAAGCTCATAGCCTTC-AATGCTAGTACA
* *
10959104 TACGATTTCACCTGACCCTTTCAGCAAAGGAGAGAG
194 TACAATTTCACCTGACACTTTCAGCAAAGGAGAGAG
10959140 A
1 A
10959141 TTTTAACTAT
Statistics
Matches: 198, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
228 5 0.03
229 189 0.95
230 4 0.02
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (229 bp):
AAAACATACCTCCACCCACAGATCACCATGGTGATATTTTAACACATAAAATAACATATAAAATC
ATAAAATCAGAAACTAACCCTGGCAACGTTCTTCTGCTCAAAATAACAATCTCCTTAATGCAACC
CACGAACACCACAAGAAACAAGAACCCTAGCCAATCAAGCTCATAGCCTTCAATGCTAGTACATA
CAATTTCACCTGACACTTTCAGCAAAGGAGAGAG
Found at i:10959870 original size:15 final size:15
Alignment explanation
Indices: 10959842--10959884 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
10959832 AAAAGAAATT
* *
10959842 TAAAATAAACTAAAA
1 TAAAACAAATTAAAA
*
10959857 TAAAACAAATTAAAT
1 TAAAACAAATTAAAA
*
10959872 TAAAACAACTTAA
1 TAAAACAAATTAA
10959885 CTTGATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAACAAATTAAAA
Found at i:10959877 original size:26 final size:26
Alignment explanation
Indices: 10959823--10959875 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
10959813 AATCAATACT
* *
10959823 AACTAAACTAAAAGAAATTTAAAATA
1 AACTAAAATAAAACAAATTTAAAATA
*
10959849 AACTAAAATAAAACAAA-TTAAATTA
1 AACTAAAATAAAACAAATTTAAAATA
10959874 AA
1 AA
10959876 ACAACTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.23
Consensus pattern (26 bp):
AACTAAAATAAAACAAATTTAAAATA
Found at i:10963368 original size:81 final size:81
Alignment explanation
Indices: 10963282--10963434 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
10963272 TGATTAAACA
* * * * *
10963282 TGGCATCGTAAAGTTTGAT-AGTAAGCATGGCTTTCTTGACTTAGCTATACGCTTGTAAGGTGGC
1 TGGCATCCTAAAGCTTGATGA-TAAGCATGGCTTTCTTGACTTAACTATAAGCTTGAAAGGTGGC
*
10963346 AAGATAATGCCTTAACG
65 AAAATAATGCCTTAACG
* * *
10963363 TGGCATCCTAAAGCTTGGTGATATGCATGGCTTTCTTGACTTAACTATAAGCTTGAAAGGTGGTA
1 TGGCATCCTAAAGCTTGATGATAAGCATGGCTTTCTTGACTTAACTATAAGCTTGAAAGGTGGCA
10963428 AAATAAT
66 AAATAAT
10963435 TGGAGTCACA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 61 0.98
82 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (81 bp):
TGGCATCCTAAAGCTTGATGATAAGCATGGCTTTCTTGACTTAACTATAAGCTTGAAAGGTGGCA
AAATAATGCCTTAACG
Found at i:10964893 original size:55 final size:54
Alignment explanation
Indices: 10964621--10964921 Score: 257
Period size: 54 Copynumber: 5.6 Consensus size: 54
10964611 AGTGAAGTTT
* ** * * **
10964621 TCAAGTCTAGTTCGTGATCAAGACCAAGTCGCCAAAACCCTTGAAGTGAAGATC
1 TCAAGTCTAGTTCATGATCAAGATTAAGTTGCCAAGACCCTTGAAACGAAGATC
* ** * ** * * * *
10964675 TCAAG-CTGAGTTCATGATTAAGACCATGTCACTAAGACCCTTGAAGCAAAGATT
1 TCAAGTCT-AGTTCATGATCAAGATTAAGTTGCCAAGACCCTTGAAACGAAGATC
* **
10964729 TGAAGT-TGAGTTTGTGATCAAGATTAAGTTGCCAAGACCCTTGAAACGAAGATC
1 TCAAGTCT-AGTTCATGATCAAGATTAAGTTGCCAAGACCCTTGAAACGAAGATC
** * * *
10964783 TCAAGTCTAGTTCATGATCAAGAAGAAGTTGCCAAGACCTTTGAAACAAAAATC
1 TCAAGTCTAGTTCATGATCAAGATTAAGTTGCCAAGACCCTTGAAACGAAGATC
* * * *
10964837 TCAAGTTCTAGTTCGTGATCAAGATTAAGTTGTCAAAACCCTT-AATGCGAAGATC
1 TCAAG-TCTAGTTCATGATCAAGATTAAGTTGCCAAGACCCTTGAA-ACGAAGATC
* * *
10964892 TCAAATCTAGTTCATGTTCAAGATCAAGTT
1 TCAAGTCTAGTTCATGATCAAGATTAAGTT
10964922 CGATTTCGTG
Statistics
Matches: 199, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
53 2 0.01
54 155 0.78
55 42 0.21
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (54 bp):
TCAAGTCTAGTTCATGATCAAGATTAAGTTGCCAAGACCCTTGAAACGAAGATC
Found at i:10964895 original size:109 final size:109
Alignment explanation
Indices: 10964621--10964920 Score: 338
Period size: 108 Copynumber: 2.8 Consensus size: 109
10964611 AGTGAAGTTT
** * *
10964621 TCAAG-TCTAGTTCGTGATCAAGACCAAGTCGCCAAAACCCTTGAAGTGAAGATCTCAAG-CTGA
1 TCAAGTTCTAGTTCGTGATCAAGATTAAGTTGCCAAAACCCTTGAAGCGAAGATCTCAAGTCT-A
* * * * * * *
10964684 GTTCATGATTAAGACCATGTCACTAAGACCCTTGAAGCAAAGATT
65 GTTCATGATCAAGAACAAGTCACCAAGACCCTTGAAACAAAAATC
* * * * *
10964729 TGAAGTT-GAGTTTGTGATCAAGATTAAGTTGCCAAGACCCTTGAAACGAAGATCTCAAGTCTAG
1 TCAAGTTCTAGTTCGTGATCAAGATTAAGTTGCCAAAACCCTTGAAGCGAAGATCTCAAGTCTAG
* ** *
10964793 TTCATGATCAAGAAGAAGTTGCCAAGACCTTTGAAACAAAAATC
66 TTCATGATCAAGAACAAGTCACCAAGACCCTTGAAACAAAAATC
* *
10964837 TCAAGTTCTAGTTCGTGATCAAGATTAAGTTGTCAAAACCCTT-AATGCGAAGATCTCAAATCTA
1 TCAAGTTCTAGTTCGTGATCAAGATTAAGTTGCCAAAACCCTTGAA-GCGAAGATCTCAAGTCTA
* *
10964901 GTTCATGTTCAAGATCAAGT
65 GTTCATGATCAAGAACAAGT
10964921 TCGATTTCGT
Statistics
Matches: 158, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
108 91 0.58
109 67 0.42
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (109 bp):
TCAAGTTCTAGTTCGTGATCAAGATTAAGTTGCCAAAACCCTTGAAGCGAAGATCTCAAGTCTAG
TTCATGATCAAGAACAAGTCACCAAGACCCTTGAAACAAAAATC
Found at i:10972097 original size:14 final size:15
Alignment explanation
Indices: 10972080--10972108 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10972070 ATCAATTAAT
10972080 TTAA-ATCAAAATGA
1 TTAATATCAAAATGA
10972094 TTAATATCAAAATGA
1 TTAATATCAAAATGA
10972109 AAACTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
TTAATATCAAAATGA
Found at i:10974176 original size:43 final size:43
Alignment explanation
Indices: 10974078--10974248 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 43
10974068 TCATTCATCG
* **
10974078 TCATGTGCACTCCC-TACTCTCACATAGCCGGGTCATCATCATCAGC
1 TCATGTGCACTCCCATAC-CGCACATAGTTGGG---TCATCATCAGC
*
10974124 TCATGTGCACTCCCATACCGCACATAGTTGGGTTATCATC-GAC
1 TCATGTGCACTCCCATACCGCACATAGTTGGGTCATCATCAG-C
* * *
10974167 TTATGTGCACTCCC-TACTCGCACATAGTCGAGTCATCATCAGC
1 TCATGTGCACTCCCATAC-CGCACATAGTTGGGTCATCATCAGC
* * * * *
10974210 TCATGTGCACTACCACATCACACATAGCTGGGTCATCAT
1 TCATGTGCACTCCCATACCGCACATAGTTGGGTCATCAT
10974249 TATCACACAA
Statistics
Matches: 104, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
42 4 0.04
43 70 0.67
44 2 0.02
46 25 0.24
47 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (43 bp):
TCATGTGCACTCCCATACCGCACATAGTTGGGTCATCATCAGC
Found at i:10974242 original size:86 final size:87
Alignment explanation
Indices: 10974080--10974248 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 87
10974070 ATTCATCGTC
* * * * *
10974080 ATGTGCACTCCCTACTCTCACATAGCCGGGTCATCATCATCAGCTCATGTGCACTCCCATACCGC
1 ATGTGCACTCCCTACTCGCACATAGCCGAG--ATCATCATCAGCTCATGTGCACTACCACACCAC
* *
10974145 ACATAGTTGGGTTATCATCGACTT
64 ACATAGCTGGGTCATCATCGACTT
* *
10974169 ATGTGCACTCCCTACTCGCACATAGTCGAG-TCATCATCAGCTCATGTGCACTACCACATCACAC
1 ATGTGCACTCCCTACTCGCACATAGCCGAGATCATCATCAGCTCATGTGCACTACCACACCACAC
10974233 ATAGCTGGGTCATCAT
66 ATAGCTGGGTCATCAT
10974249 TATCACACAA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
86 44 0.62
89 27 0.38
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.27
Consensus pattern (87 bp):
ATGTGCACTCCCTACTCGCACATAGCCGAGATCATCATCAGCTCATGTGCACTACCACACCACAC
ATAGCTGGGTCATCATCGACTT
Found at i:10975090 original size:20 final size:20
Alignment explanation
Indices: 10975065--10975104 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10975055 AGAAGAACAA
10975065 GAAGCTGCTGGAAAAATGAG
1 GAAGCTGCTGGAAAAATGAG
*
10975085 GAAGCTGCTGGAGAAATGAG
1 GAAGCTGCTGGAAAAATGAG
10975105 ATATTTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.38, T:0.15
Consensus pattern (20 bp):
GAAGCTGCTGGAAAAATGAG
Found at i:10980888 original size:18 final size:17
Alignment explanation
Indices: 10980858--10980896 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10980848 AAAACTAATT
10980858 AAATTCGAGTTTTCAAA
1 AAATTCGAGTTTTCAAA
* *
10980875 AAATGTCGATTTTTCTAA
1 AAAT-TCGAGTTTTCAAA
10980893 AAAT
1 AAAT
10980897 AACCCAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (17 bp):
AAATTCGAGTTTTCAAA
Found at i:10999795 original size:29 final size:28
Alignment explanation
Indices: 10999752--10999924 Score: 166
Period size: 28 Copynumber: 6.0 Consensus size: 28
10999742 TGGCAGCTTT
10999752 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* *
10999780 AACATGCTTAGTCTTAATTTGGACAAGAA
1 AACATG-TTTGTCTTAATTTAGACAAGAA
* *
10999809 AATATGTTTGTCTTAATTTAAGATAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* * * * *
10999839 AATATTTTTTTCTTAATGTAGATAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* *
10999867 AACATATTTGTCTCAATTTAGACAAGATAA
1 AACATGTTTGTCTTAATTTAGACAAG--AA
* * *
10999897 AATATTTTTGTCTTAATTAAAGACAAGA
1 AACATGTTTGTCTTAATT-TAGACAAGA
10999925 GTTGTCTTAA
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
28 40 0.33
29 38 0.32
30 35 0.29
31 7 0.06
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:10999866 original size:58 final size:57
Alignment explanation
Indices: 10999752--10999913 Score: 191
Period size: 58 Copynumber: 2.8 Consensus size: 57
10999742 TGGCAGCTTT
** * * *
10999752 AACATGTTTGTCTTAATTTAGACAAGAAAACAT-GCTTAGTCTTAATTTGGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAAAA-ATATTTTTGTCTTAATGTAGACAAGAA
* * * *
10999809 AATATGTTTGTCTTAATTTAAGATAAGAAAAATATTTTTTTCTTAATGTAGATAAGAA
1 AACATGTTTGTCTTAATTT-AGACAAGAAAAATATTTTTGTCTTAATGTAGACAAGAA
* *
10999867 AACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTGTCTTAAT
1 AACATGTTTGTCTTAATTTAGACAAGA-AAAATATTTTTGTCTTAAT
10999914 TAAAGACAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 27 0.31
58 61 0.69
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (57 bp):
AACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTGTCTTAATGTAGACAAGAA
Found at i:10999893 original size:28 final size:28
Alignment explanation
Indices: 10999752--10999924 Score: 152
Period size: 29 Copynumber: 6.0 Consensus size: 28
10999742 TGGCAGCTTT
*
10999752 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATATTTGTCTTAATTTAGACAAGAA
* * *
10999780 AACATGCTTAGTCTTAATTTGGACAAGAA
1 AACAT-ATTTGTCTTAATTTAGACAAGAA
* * *
10999809 AATATGTTTGTCTTAATTTAAGATAAGAA
1 AACATATTTGTCTTAATTT-AGACAAGAA
* * *
10999838 AA-ATATTTTTTTCTTAATGTAGATAAGAA
1 AACATA--TTTGTCTTAATTTAGACAAGAA
*
10999867 AACATATTTGTCTCAATTTAGACAAGATA
1 AACATATTTGTCTTAATTTAGACAAGA-A
*
10999896 AA-ATATTTTTGTCTTAATTAAAGACAAGA
1 AACATA--TTTGTCTTAATT-TAGACAAGA
10999925 GTTGTCTTAA
Statistics
Matches: 119, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
28 39 0.33
29 47 0.39
30 25 0.21
31 8 0.07
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (28 bp):
AACATATTTGTCTTAATTTAGACAAGAA
Found at i:11001310 original size:31 final size:31
Alignment explanation
Indices: 11001245--11001373 Score: 161
Period size: 31 Copynumber: 4.2 Consensus size: 31
11001235 AGGGGAGGGA
* * * *
11001245 TGTGCTGCCGGGCAGCAC-AATCCCTTGTTG
1 TGTGCTGCCAGGCAGCACAAAGCCCCTGCTG
* * *
11001275 TGTGCTGCCAGGTAGCACAAAGCCCTTGCTA
1 TGTGCTGCCAGGCAGCACAAAGCCCCTGCTG
11001306 TGTGCTGCCAGGCAGCACAAAGCCCCTGCTG
1 TGTGCTGCCAGGCAGCACAAAGCCCCTGCTG
***
11001337 TGTGCTGTTGGGCAGCACAAAGCCCCTGCTG
1 TGTGCTGCCAGGCAGCACAAAGCCCCTGCTG
11001368 TGTGCT
1 TGTGCT
11001374 ATTTCACAGA
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 16 0.18
31 71 0.82
ACGTcount: A:0.17, C:0.30, G:0.29, T:0.23
Consensus pattern (31 bp):
TGTGCTGCCAGGCAGCACAAAGCCCCTGCTG
Found at i:11010548 original size:42 final size:42
Alignment explanation
Indices: 11010489--11010610 Score: 201
Period size: 42 Copynumber: 2.9 Consensus size: 42
11010479 TGTAATGATA
*
11010489 TTGACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
1 TTGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
*
11010531 TTGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCCGTTG
1 TTGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
*
11010573 CTGACCC-GACTATGTGCGAGTAGGAGTGCGCATAAGCC
1 TTGACCCAG-CTATGTGCGAGTAGGAGTGCGCATAAGCC
11010611 ATTGCATATG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (42 bp):
TTGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
Found at i:11016108 original size:2 final size:2
Alignment explanation
Indices: 11016096--11016196 Score: 136
Period size: 2 Copynumber: 50.5 Consensus size: 2
11016086 AATGCTTTAC
*
11016096 AT AT AT GT 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
*
11016138 AGT ANT -T AT AT AT AT GT A- AT AT A- AT AT AT AT AT AT AT AT AT
1 A-T A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11016179 AT AT AT AT AT AT AGT AT A
1 AT AT AT AT AT AT A-T AT A
11016197 CACAAACAAC
Statistics
Matches: 89, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
1 3 0.03
2 81 0.91
3 5 0.06
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11027222 original size:30 final size:29
Alignment explanation
Indices: 11027188--11027296 Score: 105
Period size: 30 Copynumber: 3.7 Consensus size: 29
11027178 TTTCGATAAG
*
11027188 AAAATATGTTTGTCTTAATTTAAGACCAAA
1 AAAATATTTTTGTCTTAATTT-AGACCAAA
* * *
11027218 AAAATATTTTTTGTCGTAATGTAGA-CAAG
1 AAAATA-TTTTTGTCTTAATTTAGACCAAA
* * *
11027247 AAAACATATTTGTCTCAATTTAG-CCAAGA
1 AAAATATTTTTGTCTTAATTTAGACCAA-A
11027276 TAAAATATTTTTGTCTTAATT
1 -AAAATATTTTTGTCTTAATT
11027297 AAAGACAAGA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
28 16 0.26
29 8 0.13
30 26 0.42
31 12 0.19
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (29 bp):
AAAATATTTTTGTCTTAATTTAGACCAAA
Found at i:11027306 original size:59 final size:59
Alignment explanation
Indices: 11027185--11027295 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
11027175 GAGTTTCGAT
* * *
11027185 AAGAAAATATGTTTGTCTTAATTTAAGACCAAAAAAATATTTTTTGTCGTAATGTAGAC
1 AAGAAAACATATTTGTCTCAATTTAAGACCAAAAAAATATTTTTTGTCGTAATGTAGAC
*
11027244 AAGAAAACATATTTGTCTCAATTT-AG-CCAAGATAAAATA-TTTTTGTCTTAAT
1 AAGAAAACATATTTGTCTCAATTTAAGACCAA-A-AAAATATTTTTTGTCGTAAT
11027296 TAAAGACAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 4 0.09
58 15 0.33
59 27 0.59
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.38
Consensus pattern (59 bp):
AAGAAAACATATTTGTCTCAATTTAAGACCAAAAAAATATTTTTTGTCGTAATGTAGAC
Found at i:11035328 original size:9 final size:10
Alignment explanation
Indices: 11035315--11035352 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
11035305 TATAATTAAT
11035315 TATATTAAAAA
1 TATA-TAAAAA
11035326 TATATAAAAA
1 TATATAAAAA
11035336 T-TA-AAAAA
1 TATATAAAAA
11035344 TATATAAAA
1 TATATAAAA
11035353 GTAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.24
9 4 0.16
10 11 0.44
11 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TATATAAAAA
Found at i:11035340 original size:17 final size:17
Alignment explanation
Indices: 11035318--11035362 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
11035308 AATTAATTAT
11035318 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
11035335 ATTAAAAAATATATAAAA
1 ATT-AAAAATATATAAAA
* *
11035353 GTAAAAAATA
1 ATTAAAAATA
11035363 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:11035344 original size:18 final size:17
Alignment explanation
Indices: 11035321--11035362 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
11035311 TAATTATATT
*
11035321 AAAAATATATAAAAATTA
1 AAAAATATAT-AAAAGTA
11035339 AAAAATATATAAAAGTA
1 AAAAATATATAAAAGTA
11035356 AAAAATA
1 AAAAATA
11035363 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAAATATATAAAAGTA
Found at i:11048321 original size:57 final size:57
Alignment explanation
Indices: 11048233--11048351 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 57
11048223 TGTTAATTTG
11048233 TAGTTTAAGCTTGAACTCTACTTAGTGTGTGACAATTCCTTTAGGAGGGTCTTAAAA
1 TAGTTTAAGCTTGAACTCTACTTAGTGTGTGACAATTCCTTTAGGAGGGTCTTAAAA
*
11048290 TAGTTTAAGCTTGAACTCTACTT-GTTGTGTGACAATTCCTTTAGGATGGTCTTAAAA
1 TAGTTTAAGCTTGAACTCTACTTAG-TGTGTGACAATTCCTTTAGGAGGGTCTTAAAA
11048347 TAGTT
1 TAGTT
11048352 CCCACAAGCA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 1 0.02
57 59 0.98
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.39
Consensus pattern (57 bp):
TAGTTTAAGCTTGAACTCTACTTAGTGTGTGACAATTCCTTTAGGAGGGTCTTAAAA
Found at i:11056774 original size:77 final size:77
Alignment explanation
Indices: 11056614--11056779 Score: 251
Period size: 77 Copynumber: 2.2 Consensus size: 77
11056604 TAAATGCTAT
* * *
11056614 ATATTTTAGTTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCCTACTTTAAATGTAATTCCTA
1 ATATTTTAATTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTA
11056679 AAATTAAGGATA
66 AAATTAAGGATA
* * * *
11056691 AAATTTTAATTTTGTGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCTTA
1 ATATTTTAATTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTA
*
11056756 AAATTAAGGATG
66 AAATTAAGGATA
*
11056768 GTATTTTAATTT
1 ATATTTTAATTT
11056780 GAGAAATTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.42
Consensus pattern (77 bp):
ATATTTTAATTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTA
AAATTAAGGATA
Found at i:11061557 original size:13 final size:13
Alignment explanation
Indices: 11061539--11061563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11061529 TTCCAGAAAA
11061539 TTTATAAAATCAT
1 TTTATAAAATCAT
11061552 TTTATAAAATCA
1 TTTATAAAATCA
11061564 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:11064800 original size:2 final size:2
Alignment explanation
Indices: 11064793--11064825 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11064783 ATTATGTTGG
*
11064793 TA TA TA TA TA GA 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 TA T
11064826 GTTGTGCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11065094 original size:2 final size:2
Alignment explanation
Indices: 11065082--11065111 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11065072 GTATTTATCC
*
11065082 AT AT AT GT 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
11065112 GTTTAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11065605 original size:19 final size:19
Alignment explanation
Indices: 11065581--11065617 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11065571 AGGTTTGGTG
11065581 AGAAACCCTCGGCCAGTTA
1 AGAAACCCTCGGCCAGTTA
*
11065600 AGAAACCCTCGGCTAGTT
1 AGAAACCCTCGGCCAGTT
11065618 GATAATTTAA
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:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (19 bp):
AGAAACCCTCGGCCAGTTA
Found at i:11067298 original size:22 final size:22
Alignment explanation
Indices: 11067273--11067340 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
11067263 TTCGGTTGGT
*
11067273 ATCAGAGCATTTGGTTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
*
11067295 ATCAGAACTTTTGGTTTTTTAAAG
1 ATCAGAGCTTTTGG--TTTTAAAG
* * *
11067319 ATTAGAGTTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
11067341 CTGGTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 19 0.50
24 19 0.50
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (22 bp):
ATCAGAGCTTTTGGTTTTAAAG
Found at i:11067445 original size:5 final size:5
Alignment explanation
Indices: 11067396--11067441 Score: 65
Period size: 5 Copynumber: 9.2 Consensus size: 5
11067386 GTGTGGCCCC
* * *
11067396 AAGTT CAGTT AAGTT AAGAT AAGTT AAGTT AAGTT AAGTT AGGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT A
11067442 GGTTGAATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (5 bp):
AAGTT
Found at i:11069105 original size:22 final size:23
Alignment explanation
Indices: 11069083--11069124 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
11069073 ATGAGCATAA
11069083 AAAT-AAATAAATAA-ATAAATA
1 AAATAAAATAAATAAGATAAATA
11069104 AAATAAAATAAATAAGATAAA
1 AAATAAAATAAATAAGATAAA
11069125 AATTTCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (23 bp):
AAATAAAATAAATAAGATAAATA
Found at i:11069109 original size:5 final size:4
Alignment explanation
Indices: 11069083--11069124 Score: 57
Period size: 4 Copynumber: 9.8 Consensus size: 4
11069073 ATGAGCATAA
11069083 AAAT AAAT AAAT AAAT AAAT AAAAT AAAAT AAAT AAGAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT AA-AT AAA
11069125 AATTTCTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 23 0.64
5 13 0.36
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:11069109 original size:9 final size:9
Alignment explanation
Indices: 11069082--11069124 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
11069072 AATGAGCATA
11069082 AAAATAAAT
1 AAAATAAAT
11069091 -AAATAAAT
1 AAAATAAAT
11069099 -AAATAAAAT
1 AAAAT-AAAT
11069108 AAAATAAAT
1 AAAATAAAT
*
11069117 AAGATAAA
1 AAAATAAA
11069125 AATTTCTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 12 0.39
9 15 0.48
10 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:11069349 original size:14 final size:15
Alignment explanation
Indices: 11069324--11069352 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11069314 TTTGGAGATA
11069324 AGTTGAAGCATGCAT
1 AGTTGAAGCATGCAT
11069339 AGTTG-AGCATGCAT
1 AGTTGAAGCATGCAT
11069353 GTAGATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
AGTTGAAGCATGCAT
Found at i:11075618 original size:12 final size:13
Alignment explanation
Indices: 11075596--11075655 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 13
11075586 GCCGACATGT
11075596 GAAGAGAAAAAGA
1 GAAGAGAAAAAGA
11075609 GAAG-GAAAAAGA
1 GAAGAGAAAAAGA
* * *
11075621 CAAAAG-AGAAGA
1 GAAGAGAAAAAGA
*
11075633 GAAAAGAAAAA-A
1 GAAGAGAAAAAGA
11075645 GAAGAAGAAAA
1 GAAG-AGAAAA
11075656 TGGGGGCCCG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 24 0.63
13 14 0.37
ACGTcount: A:0.72, C:0.02, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAGAGAAAAAGA
Done.