Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 56 of 356
Found at i:18177994 original size:12 final size:12
Alignment explanation
Indices: 18177977--18178006 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18177967 CTCTAGTTTT
18177977 CACACGACCTAG
1 CACACGACCTAG
*
18177989 CACACGACCTGG
1 CACACGACCTAG
18178001 CACACG
1 CACACG
18178007 GGCGTATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.43, G:0.20, T:0.07
Consensus pattern (12 bp):
CACACGACCTAG
Found at i:18178091 original size:21 final size:21
Alignment explanation
Indices: 18178067--18178120 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
18178057 ACAGCCTGAA
18178067 ACACGGGCGTGTCCCATAGCC
1 ACACGGGCGTGTCCCATAGCC
* * *
18178088 ACACGGGCATGTCCCCTGGCC
1 ACACGGGCGTGTCCCATAGCC
*
18178109 ACACAGGCGTGT
1 ACACGGGCGTGT
18178121 AACCCCTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.15
Consensus pattern (21 bp):
ACACGGGCGTGTCCCATAGCC
Found at i:18179752 original size:26 final size:26
Alignment explanation
Indices: 18179704--18179772 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 26
18179694 ATAGTAAAAT
* * *
18179704 AAAATGTTTAGATGAAACAATTATAC
1 AAAATGGTTATATGAAACAATTACAC
* * *
18179730 AAAATGGTTATATGGAACGATTACAT
1 AAAATGGTTATATGAAACAATTACAC
* *
18179756 GAAATGGTTATGTGAAA
1 AAAATGGTTATATGAAA
18179773 ATATATGTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (26 bp):
AAAATGGTTATATGAAACAATTACAC
Found at i:18183066 original size:30 final size:30
Alignment explanation
Indices: 18183030--18183089 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
18183020 TTCCCGAGCC
18183030 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
18183060 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
18183090 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:18183561 original size:46 final size:45
Alignment explanation
Indices: 18183511--18183683 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
18183501 TGGTTGAGCA
18183511 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
18183557 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * * *
18183602 CATCCGAACTAGTTGAGTTGAATCCGAGTTCACTTATGGATATGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAATG
* *
18183650 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18183684 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:18183667 original size:93 final size:93
Alignment explanation
Indices: 18183508--18183678 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
18183498 GGATGGTTGA
* * * * *
18183508 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAATCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
18183573 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
18183601 GCATCCGAACTAGTTGAGTTGAATCCGAGTTCACTTATGGATATGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAATCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
18183666 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18183679 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTAGTTGAGTTGAATCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18189994 original size:22 final size:21
Alignment explanation
Indices: 18189958--18190016 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
18189948 TAAAAGGTTT
* *
18189958 TTACAAATCAAATCTCTATGA
1 TTACAAATCATATCTCTAAGA
18189979 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATC-TCTAAGA
*
18190002 TTACATATCATATCT
1 TTACAAATCATATCT
18190017 ACGATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.15
22 18 0.55
23 10 0.30
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (21 bp):
TTACAAATCATATCTCTAAGA
Found at i:18191834 original size:5 final size:5
Alignment explanation
Indices: 18191824--18191852 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
18191814 CTATTTTTAT
18191824 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
18191853 AGGAAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:18194491 original size:7 final size:7
Alignment explanation
Indices: 18194479--18194507 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
18194469 CTCCGATATG
18194479 CCATTGC
1 CCATTGC
18194486 CCATTGC
1 CCATTGC
18194493 CCATTGC
1 CCATTGC
18194500 CCATTGC
1 CCATTGC
18194507 C
1 C
18194508 ATGTGAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.45, G:0.14, T:0.28
Consensus pattern (7 bp):
CCATTGC
Found at i:18194643 original size:22 final size:21
Alignment explanation
Indices: 18194605--18194649 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
18194595 CATCTATCCA
18194605 TTTAATTATTTTAACTTCATAC
1 TTTAATTATTTTAACTTCA-AC
*
18194627 TTTAATCTA-TTTGACTTCAAC
1 TTTAAT-TATTTTAACTTCAAC
18194648 TT
1 TT
18194650 ACTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 15 0.71
23 2 0.10
ACGTcount: A:0.29, C:0.16, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTAATTATTTTAACTTCAAC
Found at i:18195177 original size:21 final size:21
Alignment explanation
Indices: 18195138--18195176 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18195128 ATATTCGAGC
18195138 AATCATTTAACATATAAAAGT
1 AATCATTTAACATATAAAAGT
*
18195159 AATCATTTTACAT-TAAAA
1 AATCATTTAACATATAAAA
18195177 AAAAGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (21 bp):
AATCATTTAACATATAAAAGT
Found at i:18196078 original size:14 final size:15
Alignment explanation
Indices: 18196059--18196098 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
18196049 ATTTCACTTA
18196059 AAAATTTAAATTT-T
1 AAAATTTAAATTTAT
18196073 AAAATTTAAAATTTAT
1 AAAATTT-AAATTTAT
*
18196089 AAAAATTAAA
1 AAAATTTAAA
18196099 AATGATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 9 0.39
16 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATTTAAATTTAT
Found at i:18204108 original size:7 final size:7
Alignment explanation
Indices: 18204096--18204128 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
18204086 ATCTTGGGTC
18204096 TCAATTG
1 TCAATTG
18204103 TCAATTG
1 TCAATTG
18204110 TCAATTG
1 TCAATTG
*
18204117 TCAATTC
1 TCAATTG
18204124 TCAAT
1 TCAAT
18204129 CAGACAGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (7 bp):
TCAATTG
Found at i:18214879 original size:18 final size:19
Alignment explanation
Indices: 18214850--18214887 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18214840 TGTTTTAAAT
*
18214850 TATTTATGAAAATTTTATA
1 TATTTATGAAAAATTTATA
18214869 TATTT-TGAAAAATTTATA
1 TATTTATGAAAAATTTATA
18214887 T
1 T
18214888 GACATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TATTTATGAAAAATTTATA
Found at i:18216476 original size:42 final size:42
Alignment explanation
Indices: 18216415--18216503 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
18216405 CATTTACTAA
* *
18216415 TCCAAAAAGAGTGACAAAATCACATATACCAGTTGTAAATGC
1 TCCAAAAAGAGTGAAAAAATCACACATACCAGTTGTAAATGC
*
18216457 TCCAAAAAGAGTGAAAAAATTACACATACCAGTTGTAAATGC
1 TCCAAAAAGAGTGAAAAAATCACACATACCAGTTGTAAATGC
18216499 TCCAA
1 TCCAA
18216504 TCAAAATTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (42 bp):
TCCAAAAAGAGTGAAAAAATCACACATACCAGTTGTAAATGC
Found at i:18218694 original size:11 final size:11
Alignment explanation
Indices: 18218678--18218702 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18218668 ATATCTAGAA
18218678 TTCTCTTCATT
1 TTCTCTTCATT
18218689 TTCTCTTCATT
1 TTCTCTTCATT
18218700 TTC
1 TTC
18218703 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:18219988 original size:25 final size:25
Alignment explanation
Indices: 18219959--18220010 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
18219949 AAGAATAATT
**
18219959 TGAATATTTGATATTGCATAATAAA
1 TGAATATCCGATATTGCATAATAAA
* *
18219984 TGAATATCCGATATTGCTTACTAAA
1 TGAATATCCGATATTGCATAATAAA
18220009 TG
1 TG
18220011 TCAAACCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCATAATAAA
Found at i:18227295 original size:59 final size:58
Alignment explanation
Indices: 18227162--18227306 Score: 157
Period size: 59 Copynumber: 2.5 Consensus size: 58
18227152 CTATAAAGCT
* * * * *
18227162 TTCAAAGA-CTAACTTGAACAAAAAAAATTCAAGTCCCAATATAGGAACATTTGTCAAG
1 TTCAAA-ACCTAACTTGAAAAAAAAAAATTCAAGTCCCAATATAGAAACAATTATCAAA
* * * *
18227220 TTCAAAGCCTACCTTGAATAAAAAAAAATTCATGTCCTAATATAGAAACAATTATCAAA
1 TTCAAAACCTAACTTGAA-AAAAAAAAATTCAAGTCCCAATATAGAAACAATTATCAAA
* * *
18227279 TTTAAAATCTAACTTGAAAAAAGAAAAT
1 TTCAAAACCTAACTTGAAAAAAAAAAAT
18227307 CCAGACCTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
58 24 0.34
59 47 0.66
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (58 bp):
TTCAAAACCTAACTTGAAAAAAAAAAATTCAAGTCCCAATATAGAAACAATTATCAAA
Found at i:18234545 original size:19 final size:19
Alignment explanation
Indices: 18234521--18234566 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
18234511 ATAATTTTCA
18234521 CATTTTACAAATAAATCCC
1 CATTTTACAAATAAATCCC
18234540 CATTTTACAAATAAATCCC
1 CATTTTACAAATAAATCCC
*
18234559 TATTTTAC
1 CATTTTAC
18234567 GTTTTCAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (19 bp):
CATTTTACAAATAAATCCC
Found at i:18238564 original size:20 final size:21
Alignment explanation
Indices: 18238536--18238574 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18238526 GCTACTCAAG
*
18238536 AAATGTTTCCAA-AAACATCA
1 AAATGTTTCAAAGAAACATCA
*
18238556 AAATTTTTCAAAGAAACAT
1 AAATGTTTCAAAGAAACAT
18238575 AAGACACACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.28
Consensus pattern (21 bp):
AAATGTTTCAAAGAAACATCA
Found at i:18240620 original size:5 final size:5
Alignment explanation
Indices: 18240610--18240695 Score: 50
Period size: 5 Copynumber: 16.4 Consensus size: 5
18240600 CTAATTCTCC
* * *
18240610 TTCTT TTCTT TCTCTT TT-TCT TTCTTT TTCTT TCGCTT TACTT ATCTGT
1 TTCTT TTCTT T-TCTT TTCT-T TTC-TT TTCTT T-TCTT TTCTT TTCT-T
* * *
18240659 TTCTA TTCTT TT-GT TTCTT TTCTA TTCTTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTC-TT TTCTT TT
18240696 ATTTAAACAT
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
4 4 0.06
5 36 0.58
6 21 0.34
7 1 0.02
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (5 bp):
TTCTT
Found at i:18240637 original size:10 final size:10
Alignment explanation
Indices: 18240622--18240694 Score: 60
Period size: 10 Copynumber: 7.1 Consensus size: 10
18240612 CTTTTCTTTC
18240622 TCTTTTTCTT
1 TCTTTTTCTT
18240632 TCTTTTTCTT
1 TCTTTTTCTT
* *
18240642 TCGCTTTACTT
1 TC-TTTTTCTT
*
18240653 ATCTGTTTCTAT
1 -TCTTTTTCT-T
*
18240665 TC-TTTTGTT
1 TCTTTTTCTT
18240674 TC-TTTTCTAT
1 TCTTTTTCT-T
18240684 TCTTTTTCTT
1 TCTTTTTCTT
18240694 T
1 T
18240695 TATTTAAACA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
9 8 0.16
10 21 0.42
11 18 0.36
12 3 0.06
ACGTcount: A:0.05, C:0.19, G:0.04, T:0.71
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:18240693 original size:16 final size:15
Alignment explanation
Indices: 18240610--18240695 Score: 57
Period size: 16 Copynumber: 5.5 Consensus size: 15
18240600 CTAATTCTCC
18240610 TTCTTTTCTTTCTCTTT
1 TTCTTTTC-TT-TCTTT
*
18240627 TTCTTTCTTTTTCTTT
1 TTCTTT-TCTTTCTTT
** * *
18240643 CGCTTTACTTATCTGT
1 TTCTTTTCTT-TCTTT
* *
18240659 TTCTATTCTTT-TGT
1 TTCTTTTCTTTCTTT
18240673 TTCTTTTCTATTCTTT
1 TTCTTTTCT-TTCTTT
18240689 TTCTTTT
1 TTCTTTT
18240696 ATTTAAACAT
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
14 11 0.21
15 5 0.09
16 28 0.53
17 8 0.15
18 1 0.02
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:18243421 original size:17 final size:16
Alignment explanation
Indices: 18243390--18243443 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 16
18243380 ATATTGAATA
18243390 TTTTTTTTATA-TTAT
1 TTTTTTTTATACTTAT
18243405 TTTTTTTATATACTTAT
1 TTTTTTT-TATACTTAT
*
18243422 TCTTATTTTATACTTAT
1 T-TTTTTTTATACTTAT
18243439 TTTTT
1 TTTTT
18243444 AATTGGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 7 0.21
16 7 0.21
17 15 0.44
18 5 0.15
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTTTATACTTAT
Found at i:18249879 original size:18 final size:18
Alignment explanation
Indices: 18249856--18249890 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18249846 ACAAAGAAGA
18249856 AAAG-AAGGAAAGAAAGGG
1 AAAGAAAGGAAA-AAAGGG
18249874 AAAGAAAGGAAAAAAGG
1 AAAGAAAGGAAAAAAGG
18249891 AAATTAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
AAAGAAAGGAAAAAAGGG
Found at i:18250566 original size:18 final size:19
Alignment explanation
Indices: 18250531--18250569 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
18250521 TAAGTATTGA
18250531 TATTGAATTGAATGAAAATG
1 TATTGAATTG-ATGAAAATG
18250551 TATTGAATTG-TGAAAATG
1 TATTGAATTGATGAAAATG
18250569 T
1 T
18250570 GTGAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (19 bp):
TATTGAATTGATGAAAATG
Found at i:18254478 original size:38 final size:39
Alignment explanation
Indices: 18254386--18254478 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 39
18254376 TTTTTTCTAT
*
18254386 AAAATAAGAATATATTATTTTAACATATAGTTTTGTTTAAC
1 AAAATAAGAATATATTATTTT-A-ATATAGTTATGTTTAAC
*
18254427 AAAAT-TGATATATATATATTTGT-ATATA-TTAT-TTTAAC
1 AAAATAAGA-ATATAT-TATTT-TAATATAGTTATGTTTAAC
18254465 AAAATAAGAATATA
1 AAAATAAGAATATA
18254479 CTGTTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
38 16 0.36
39 5 0.11
40 7 0.16
41 11 0.24
42 5 0.11
43 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (39 bp):
AAAATAAGAATATATTATTTTAATATAGTTATGTTTAAC
Found at i:18267139 original size:177 final size:177
Alignment explanation
Indices: 18266837--18267407 Score: 885
Period size: 177 Copynumber: 3.2 Consensus size: 177
18266827 GAAATTGCAG
* * *
18266837 ATCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATTTCTTTGAGGTAGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
* * * *
18266902 AAGAGAGCAGGTTGAAGGTACAAGTCTTATCTTCCTGAGGTAGCAAGAAAGTAGACTGAAATTGC
66 AAGAGAGCAGGTTGAAGGTACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAATTAC
* *
18266967 AGATCTTATCTCCATGTATCGGCTATGGAGCATATCGAAGATGGCGA
131 AGATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAGATGGCGA
*
18267014 ATCTTATCTCCATGTATCGG-TAATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG
1 ATCTTATCTCCATGTATCGGCT-ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG
* * * * *
18267078 CAAGAGAACAGGTTAAAGGTACAAGTCTTATCTTCCTAAGGTAGTAAGGAAGCAAACTGAAATTC
65 CAAGAGAGCAGGTTGAAGGTACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAATTA
18267143 CAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAGATGGCGA
130 CAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAGATGGCGA
* * *
18267191 ATCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
*
18267256 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAA-GTAGCAAGGAAGCAGACTGAAAATT
66 AAGAGAGCAGGTTGAAGGTACAAGTCTTATCTTCCT-AAGGTAGCAAGGAAGCAGACTG-AAATT
* * * *
18267320 ACAAATCTTATCTCCATGTATTGGCTATAGAATAGATCGAAGATGGCGA
129 ACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAGATGGCGA
*
18267369 ATCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
18267408 TATTGGCTTT
Statistics
Matches: 362, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
176 1 0.00
177 271 0.75
178 90 0.25
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (177 bp):
ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTGAAGGTACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAATTAC
AGATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAGATGGCGA
Found at i:18267285 original size:44 final size:46
Alignment explanation
Indices: 18267237--18267333 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 46
18267227 AGCCACCGGC
* ** * *
18267237 CTTATCTCT-CTGAGGTAGCAA-GAGAGCAGGTTGAAGA-TACAAGT
1 CTTATCTCTCCTGAAGTAGCAAGGA-AGCAGACTGAAAATTACAAAT
18267281 CTTATCT-TCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAAAT
1 CTTATCTCTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAAAT
18267326 CTTATCTC
1 CTTATCTC
18267334 CATGTATTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 28 0.64
45 15 0.34
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (46 bp):
CTTATCTCTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAAAT
Found at i:18268835 original size:36 final size:39
Alignment explanation
Indices: 18268745--18268835 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 39
18268735 TTTTTTCTAT
*
18268745 AAAATAAGAATATATTATTTTAACATATAGTTTTGTTTAAC
1 AAAATAAGAATATATTATTTT-A-ATATAGTTATGTTTAAC
*
18268786 AAAAT-TGATATATATT-TTTGT-ATATA-TTAT-TTTAAC
1 AAAATAAGA-ATATATTATTT-TAATATAGTTATGTTTAAC
18268822 AAAATAAGAATATA
1 AAAATAAGAATATA
18268836 CTGTTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
36 16 0.36
37 5 0.11
38 5 0.11
40 5 0.11
41 13 0.30
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (39 bp):
AAAATAAGAATATATTATTTTAATATAGTTATGTTTAAC
Found at i:18278820 original size:21 final size:21
Alignment explanation
Indices: 18278796--18278838 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
18278786 TTTATATTAT
18278796 ATATTT-ATTCTTAATTTTTAA
1 ATATTTCATT-TTAATTTTTAA
*
18278817 ATATTTCATTTTATTTTTTAA
1 ATATTTCATTTTAATTTTTAA
18278838 A
1 A
18278839 AAAAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTTCATTTTAATTTTTAA
Found at i:18279406 original size:23 final size:23
Alignment explanation
Indices: 18279374--18279424 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
18279364 TATAAAATTA
*
18279374 AAAATTAAAT-TA-ATTATGAGTAG
1 AAAATCAAATATATATT-TGAG-AG
18279397 AAAATCAAATATATATTTGAGAG
1 AAAATCAAATATATATTTGAGAG
18279420 AAAAT
1 AAAAT
18279425 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 16 0.64
24 6 0.24
25 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.31
Consensus pattern (23 bp):
AAAATCAAATATATATTTGAGAG
Found at i:18282484 original size:42 final size:42
Alignment explanation
Indices: 18282421--18282547 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
18282411 CTTCGTTTTC
** * *
18282421 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
18282464 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
18282505 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
18282546 TC
1 TC
18282548 TCACTAATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:18282609 original size:47 final size:46
Alignment explanation
Indices: 18282508--18282624 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 46
18282498 TCATATATCG
* * * * *
18282508 ATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTA
1 ATGCCATATCCCAGATATGGTCTTACACGAAGCACATATCACACCA
* * * * *
18282554 ATGTCATATCCCAGATATGATCTTATACAGTAGCATATATCACACCA
1 ATGCCATATCCCAGATATGGTCTTACAC-GAAGCACATATCACACCA
18282601 ATGCCATATCCCAGATATGGTCTT
1 ATGCCATATCCCAGATATGGTCTT
18282625 GTACGGAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
46 23 0.40
47 35 0.60
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (46 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGCACATATCACACCA
Found at i:18282689 original size:31 final size:31
Alignment explanation
Indices: 18282654--18282864 Score: 286
Period size: 31 Copynumber: 6.8 Consensus size: 31
18282644 CTTGTCACTT
*
18282654 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
18282685 GTAGCCGGAGCTACCA-TTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
* *
18282716 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
18282747 GTAGCCAGAA-CTACCACTTTTCACTGATTAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
18282778 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
18282809 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
18282840 GTAGCTGGAA-CTACCACTTTTCACT
1 GTAGC-CGAAGCTACCACTTTTCACT
18282865 TGTCATTTGT
Statistics
Matches: 165, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
30 4 0.02
31 154 0.93
32 7 0.04
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:18282943 original size:50 final size:51
Alignment explanation
Indices: 18282854--18282968 Score: 180
Period size: 50 Copynumber: 2.3 Consensus size: 51
18282844 CTGGAACTAC
* *
18282854 CACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTGTCATTTGTCATTGATCAAATAAGTGTAGCCGAAGCTAT
*
18282905 CACTTATCACTT-TCACTTT-TCCTTGATCAAATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGTGTAGCCGAAGCTAT
18282955 CACTTATCACTTGT
1 CACTTATCACTTGT
18282969 TGCCATGGTC
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
50 44 0.75
51 15 0.25
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (51 bp):
CACTTATCACTTGTCATTTGTCATTGATCAAATAAGTGTAGCCGAAGCTAT
Found at i:18285672 original size:39 final size:39
Alignment explanation
Indices: 18285624--18285770 Score: 186
Period size: 39 Copynumber: 3.8 Consensus size: 39
18285614 TTAATAGGGG
*
18285624 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * *
18285663 TAAATTACTGTATTGAATAATTAATAGTTATTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
18285702 TAAACTACTGCACTGAATATTTGATAGTTACTGAATGAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * *
18285741 TAAATTACTATACTGAATAACTGATTGTTA
1 TAAACTACTGTACTGAATAATTGATAGTTA
18285771 TTGATTGTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (39 bp):
TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:18285681 original size:21 final size:20
Alignment explanation
Indices: 18285624--18285711 Score: 67
Period size: 18 Copynumber: 4.5 Consensus size: 20
18285614 TTAATAGGGG
18285624 TAAACTACTGTATTGAATAA-
1 TAAA-TACTGTATTGAATAAC
** * *
18285644 TTGATAGT-TACTGAATAAC
1 TAAATACTGTATTGAATAAC
18285663 TAAATTACTGTATTGAATAA-
1 TAAA-TACTGTATTGAATAAC
* *
18285683 TTAATAGT-TATTGAATAAC
1 TAAATACTGTATTGAATAAC
18285702 TAAACTACTG
1 TAAA-TACTG
18285712 CACTGAATAT
Statistics
Matches: 50, Mismatches: 12, Indels: 11
0.68 0.16 0.15
Matches are distributed among these distances:
18 19 0.38
19 11 0.22
20 11 0.22
21 9 0.18
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (20 bp):
TAAATACTGTATTGAATAAC
Found at i:18285696 original size:18 final size:18
Alignment explanation
Indices: 18285634--18285700 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
18285624 TAAACTACTG
*
18285634 TATTGAATAATTGATAGT
1 TATTGAATAATTAATAGT
* * *
18285652 TACTGAATAACTAAATTACT
1 TATTGAATAA-TTAA-TAGT
18285672 GTATTGAATAATTAATAGT
1 -TATTGAATAATTAATAGT
18285691 TATTGAATAA
1 TATTGAATAA
18285701 CTAAACTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 19 0.49
19 5 0.13
20 6 0.15
21 9 0.23
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.40
Consensus pattern (18 bp):
TATTGAATAATTAATAGT
Found at i:18285758 original size:78 final size:78
Alignment explanation
Indices: 18285624--18285774 Score: 221
Period size: 78 Copynumber: 1.9 Consensus size: 78
18285614 TTAATAGGGG
* * * * *
18285624 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAATTAATA
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTATACTGAATAACTAATA
18285689 GTTATTGAATAAC
66 GTTATTGAATAAC
* * * *
18285702 TAAACTACTGCACTGAATATTTGATAGTTACTGAATGACTAAATTACTATACTGAATAACTGATT
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTATACTGAATAACTAATA
18285767 GTTATTGA
66 GTTATTGA
18285775 TTGTTTGATA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (78 bp):
TAAACTACTGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTATACTGAATAACTAATA
GTTATTGAATAAC
Found at i:18288202 original size:19 final size:19
Alignment explanation
Indices: 18288178--18288239 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
18288168 TTTATACATT
18288178 TTTATTTTAATATGCACAA
1 TTTATTTTAATATGCACAA
** **
18288197 TTTA--TTACCAT-CA-TT
1 TTTATTTTAATATGCACAA
18288212 TTTATTTTAATATGCACAA
1 TTTATTTTAATATGCACAA
18288231 TTTATTTTA
1 TTTATTTTA
18288240 TTGTTTTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
15 4 0.13
16 2 0.06
17 10 0.32
18 2 0.06
19 13 0.42
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTATTTTAATATGCACAA
Found at i:18289561 original size:18 final size:18
Alignment explanation
Indices: 18289511--18289560 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18289501 AGCTTCTTTT
*
18289511 ATTTGACTTGAAAAATTA
1 ATTTAACTTGAAAAATTA
** *
18289529 ATCCAATTTGAAAAATTA
1 ATTTAACTTGAAAAATTA
18289547 ATTTAACTT-AAAAA
1 ATTTAACTTGAAAAA
18289561 AGCACTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (18 bp):
ATTTAACTTGAAAAATTA
Found at i:18289919 original size:14 final size:14
Alignment explanation
Indices: 18289880--18289924 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
18289870 TAGTTTATGT
18289880 ATTATTATAT-TAA
1 ATTATTATATATAA
*
18289893 ATTATTTAAATATAA
1 ATTA-TTATATATAA
*
18289908 TTTATTATATATAA
1 ATTATTATATATAA
18289922 ATT
1 ATT
18289925 TTCAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 4 0.15
14 16 0.62
15 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTATTATATATAA
Found at i:18291392 original size:21 final size:21
Alignment explanation
Indices: 18291324--18291394 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
18291314 ATAAATTTAC
18291324 AATA-TAAA-ATAATTAATTA
1 AATATTAAATATAATTAATTA
* * *
18291343 ATATCATAAAATAT-ATTTATTGC
1 A-AT-ATTAAATATAATTAATT-A
*
18291366 ATTATTAAATATAATTAATTA
1 AATATTAAATATAATTAATTA
18291387 AATATTAA
1 AATATTAA
18291395 TGTTAATAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
19 1 0.03
20 2 0.05
21 16 0.42
22 16 0.42
23 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
AATATTAAATATAATTAATTA
Found at i:18297279 original size:1 final size:1
Alignment explanation
Indices: 18297273--18297297 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
18297263 CCTTGTTTGG
18297273 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
18297298 ACTCTGAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18304212 original size:21 final size:23
Alignment explanation
Indices: 18304165--18304218 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
18304155 CATTCAAGAT
**
18304165 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
18304188 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
18304209 AAAAT-ATATA
1 AAAATAATATA
18304219 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:18304461 original size:23 final size:25
Alignment explanation
Indices: 18304403--18304464 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 25
18304393 AAACAATAAT
*
18304403 GAAA-ATAATATTAGTATATAAATA
1 GAAATATAATAATAGTATATAAATA
18304427 GAAATA-AA-AATA-TA-ATAAATA
1 GAAATATAATAATAGTATATAAATA
18304448 GAAATATAATAATAGTA
1 GAAATATAATAATAGTA
18304465 GAAATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 13 0.39
22 4 0.12
23 7 0.21
24 8 0.24
25 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
GAAATATAATAATAGTATATAAATA
Found at i:18304476 original size:44 final size:44
Alignment explanation
Indices: 18304422--18304508 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
18304412 ATTAGTATAT
18304422 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
18304466 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
18304509 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:18304493 original size:15 final size:14
Alignment explanation
Indices: 18304420--18304548 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
18304410 ATATTAGTAT
*
18304420 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
18304433 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
18304449 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
18304463 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
18304478 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
18304493 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
18304507 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
18304522 ATAAATATAAATAG
1 ATAAATAAAAATAG
18304536 A-AACATAAAAATA
1 ATAA-ATAAAAATA
18304549 ATAGCAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:18304498 original size:29 final size:28
Alignment explanation
Indices: 18304441--18304548 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
18304431 TAAAAATATA
* * *
18304441 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
18304470 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
18304499 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
18304528 ATAAATAGAAACATAAAAATA
1 ATAAATAGAAACATAAAAATA
18304549 ATAGCAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:18305450 original size:26 final size:24
Alignment explanation
Indices: 18305432--18305483 Score: 86
Period size: 26 Copynumber: 2.1 Consensus size: 24
18305422 AATAAAATTT
18305432 TAATATCTATAAATATAATTAAGAAA
1 TAATATCTATAAATATAA-TAA-AAA
18305458 TAATATCTATAAATATAATAAAAA
1 TAATATCTATAAATATAATAAAAA
18305482 TA
1 TA
18305484 GTATTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 5 0.19
25 3 0.12
26 18 0.69
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TAATATCTATAAATATAATAAAAA
Found at i:18309476 original size:26 final size:24
Alignment explanation
Indices: 18309432--18309481 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
18309422 ATTTGTTTTA
*
18309432 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
18309456 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
18309482 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:18318956 original size:20 final size:20
Alignment explanation
Indices: 18318933--18318971 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18318923 AGTTATGGGT
18318933 TGAATTAGATTT-TAATTAGG
1 TGAATT-GATTTCTAATTAGG
*
18318953 TGAATTTATTTCTAATTAG
1 TGAATTGATTTCTAATTAG
18318972 AAACAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
TGAATTGATTTCTAATTAGG
Found at i:18323478 original size:11 final size:11
Alignment explanation
Indices: 18323462--18323486 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18323452 TTAAATTTTC
18323462 CTATTCAATTT
1 CTATTCAATTT
18323473 CTATTCAATTT
1 CTATTCAATTT
18323484 CTA
1 CTA
18323487 CCTTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:18330498 original size:12 final size:12
Alignment explanation
Indices: 18330465--18330498 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18330455 TTTCTTCTTC
*
18330465 TTCTTCTGTTTT
1 TTCTTCTTTTTT
18330477 TTCTTCTTTTTT
1 TTCTTCTTTTTT
18330489 TTC-TCTTTTT
1 TTCTTCTTTTT
18330499 ATAAACCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (12 bp):
TTCTTCTTTTTT
Found at i:18332842 original size:8 final size:8
Alignment explanation
Indices: 18332800--18332824 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18332790 ATATAGACTA
18332800 AATAAAAT
1 AATAAAAT
18332808 AATAAAAT
1 AATAAAAT
18332816 AATAAAAT
1 AATAAAAT
18332824 A
1 A
18332825 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:18332848 original size:29 final size:31
Alignment explanation
Indices: 18332797--18332869 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
18332787 TATATATAGA
*
18332797 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
18332826 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
18332857 CTAATT-AAATAAT
1 CTAATTAAAATAAT
18332870 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:18332874 original size:29 final size:30
Alignment explanation
Indices: 18332804--18332875 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
18332794 AGACTAAATA
*
18332804 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
18332832 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
18332863 AAATAATTATAAA
1 AAATAATTATAAA
18332876 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:18335484 original size:19 final size:19
Alignment explanation
Indices: 18335460--18335496 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18335450 TTGATTTTAA
18335460 TAGGTTGAATTATTTAATT
1 TAGGTTGAATTATTTAATT
18335479 TAGGTTGAATTATTTAAT
1 TAGGTTGAATTATTTAAT
18335497 CTCGGTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
TAGGTTGAATTATTTAATT
Found at i:18335503 original size:19 final size:19
Alignment explanation
Indices: 18335460--18335504 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
18335450 TTGATTTTAA
*
18335460 TAGGTTGAATTATTTAATT
1 TAGGTTGAATTATTTAATC
18335479 TAGGTTGAATTATTTAATC
1 TAGGTTGAATTATTTAATC
*
18335498 TCGGTTG
1 TAGGTTG
18335505 TAGGTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (19 bp):
TAGGTTGAATTATTTAATC
Found at i:18336724 original size:15 final size:15
Alignment explanation
Indices: 18336704--18336737 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18336694 TTATATATAA
*
18336704 AAAATAATAATAAAG
1 AAAATAATAAAAAAG
*
18336719 AAAATACTAAAAAAG
1 AAAATAATAAAAAAG
18336734 AAAA
1 AAAA
18336738 AAGGCACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAATAATAAAAAAG
Found at i:18337452 original size:18 final size:18
Alignment explanation
Indices: 18337429--18337464 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18337419 CTTTCTATAC
*
18337429 TTATTTATTTGTATTATT
1 TTATTTATTTATATTATT
*
18337447 TTATTTTTTTATATTATT
1 TTATTTATTTATATTATT
18337465 GTATCATTAA
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:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTATTTATTTATATTATT
Found at i:18337765 original size:3 final size:3
Alignment explanation
Indices: 18337757--18337782 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18337747 CACTATATCC
18337757 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
18337783 ATACATACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18348395 original size:16 final size:16
Alignment explanation
Indices: 18348349--18348392 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
18348339 ACGTGAAATT
18348349 TAATATTTTATTAAAA
1 TAATATTTTATTAAAA
*
18348365 TAATATTTTAATTAAGA
1 TAATATTTT-ATTAAAA
18348382 TAAT-TTTTATT
1 TAATATTTTATT
18348393 TAATAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 13 0.50
17 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TAATATTTTATTAAAA
Found at i:18351698 original size:21 final size:22
Alignment explanation
Indices: 18351672--18351718 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
18351662 CTCTGCTCAA
*
18351672 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
18351693 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
18351715 ACTC
1 ACTC
18351719 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:18364226 original size:21 final size:21
Alignment explanation
Indices: 18364202--18364242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18364192 ACACTTTTTT
*
18364202 ATATTTA-AATTTTTTTATAAA
1 ATATTTAGAA-TTATTTATAAA
18364223 ATATTTAGAATTATTTATAA
1 ATATTTAGAATTATTTATAA
18364243 TTCGTGTTTA
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:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATTTAGAATTATTTATAAA
Found at i:18365136 original size:22 final size:23
Alignment explanation
Indices: 18365111--18365153 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
18365101 TAACAATAAT
* *
18365111 AATTTAATTAATAT-GTTATTGA
1 AATTAAATAAATATAGTTATTGA
18365133 AATTAAATAAATATAGTTATT
1 AATTAAATAAATATAGTTATT
18365154 TTATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (23 bp):
AATTAAATAAATATAGTTATTGA
Found at i:18367217 original size:21 final size:21
Alignment explanation
Indices: 18367170--18367226 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
18367160 CTCAATGTAG
*
18367170 AATATTTTCATTTAATTATATT
1 AATATTTT-ATTTATTTATATT
* *
18367192 -CTATTTTATTTATTTATTTT
1 AATATTTTATTTATTTATATT
* *
18367212 AATATTATGTTTATT
1 AATATTTTATTTATT
18367227 ATAAAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
AATATTTTATTTATTTATATT
Found at i:18367444 original size:31 final size:31
Alignment explanation
Indices: 18367399--18367457 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
18367389 AATTCACTAT
18367399 TTAAAATTTCAATACTTAATTTTTCTAACTC
1 TTAAAATTTCAATACTTAATTTTTCTAACTC
* *
18367430 TTAAATTTTTAATACTTAATTTTTCTAA
1 TTAAAATTTCAATACTTAATTTTTCTAA
18367458 TACTTACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.53
Consensus pattern (31 bp):
TTAAAATTTCAATACTTAATTTTTCTAACTC
Found at i:18367468 original size:15 final size:16
Alignment explanation
Indices: 18367405--18367485 Score: 89
Period size: 15 Copynumber: 5.2 Consensus size: 16
18367395 CTATTTAAAA
18367405 TTTC-AATACTTAATT
1 TTTCTAATACTTAATT
*
18367420 TTTCTAACT-CTTAAAT
1 TTTCTAA-TACTTAATT
18367436 TTT-TAATACTTAATT
1 TTTCTAATACTTAATT
*
18367451 TTTCTAATACTTACTT
1 TTTCTAATACTTAATT
**
18367467 TTTC-AGCACTTAATT
1 TTTCTAATACTTAATT
18367482 TTTC
1 TTTC
18367486 AATTTAACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
14 1 0.02
15 28 0.50
16 26 0.46
17 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.01, T:0.54
Consensus pattern (16 bp):
TTTCTAATACTTAATT
Found at i:18367478 original size:31 final size:31
Alignment explanation
Indices: 18367412--18367485 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
18367402 AAATTTCAAT
*
18367412 ACTTAATTTTTCTAACTCTTAAATTTTTAAT
1 ACTTAATTTTTCTAACTCTTAAATTTTTAAC
* *
18367443 ACTTAATTTTTCTAA-TACTT-ACTTTTTCAGC
1 ACTTAATTTTTCTAACT-CTTAAATTTTT-AAC
18367474 ACTTAATTTTTC
1 ACTTAATTTTTC
18367486 AATTTAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.28, C:0.16, G:0.01, T:0.54
Consensus pattern (31 bp):
ACTTAATTTTTCTAACTCTTAAATTTTTAAC
Found at i:18368654 original size:26 final size:26
Alignment explanation
Indices: 18368618--18368683 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
18368608 TTAATTTTAA
18368618 AAAAGCTAAAAAAATAAAAACTATAAT
1 AAAA-CTAAAAAAATAAAAACTATAAT
*
18368645 AAAACTAAAAAAATAATAACTATAAT
1 AAAACTAAAAAAATAAAAACTATAAT
18368671 AAAACTAAAAAAA
1 AAAACTAAAAAAA
18368684 AGGCTAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAACTAAAAAAATAAAAACTATAAT
Found at i:18383794 original size:5 final size:5
Alignment explanation
Indices: 18383784--18383809 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18383774 TAGGACTAAG
18383784 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
18383810 TGATAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:18384890 original size:14 final size:14
Alignment explanation
Indices: 18384867--18384897 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18384857 CGTCGTGTTC
*
18384867 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
18384881 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
18384895 TTA
1 TTA
18384898 AAACAACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:18388594 original size:5 final size:5
Alignment explanation
Indices: 18388560--18388617 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
18388550 ATGTGTTAAA
* * *
18388560 ATATAT ATATT AAATT ATTATT ATGTT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
18388609 ATATT ATAT
1 ATATT ATAT
18388618 AAATAAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
5 29 0.67
6 10 0.23
7 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:18388608 original size:12 final size:12
Alignment explanation
Indices: 18388563--18388618 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
18388553 TGTTAAAATA
*
18388563 TATATATTAAAT
1 TATATATTATAT
*
18388575 TAT-TATTATGTT
1 TATATATTAT-AT
18388587 ATAGTATATTATAT
1 -TA-TATATTATAT
18388601 TATATATTATAT
1 TATATATTATAT
18388613 TATATA
1 TATATA
18388619 AATAAGTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 5 0.14
12 20 0.54
13 4 0.11
14 2 0.05
15 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:18388830 original size:74 final size:74
Alignment explanation
Indices: 18388709--18388857 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
18388699 AAAAAGGAAA
18388709 ATTTGGATTTCAAGGCTCAAAGTTTAATTTGGTAAGTCAATTAAGTCATTTCTTCTTAAATTTTG
1 ATTTGGATTTCAAGGCTCAAAGTTTAATTTGGTAAGTCAATTAAGTCATTTCTTCTTAAATTTTG
18388774 ATGTTTTAG
66 ATGTTTTAG
18388783 ATTTGGATTTCAAGGCTCAAAGTTTAATTTGGTAAGTCAATTAAGTCATTTCTTCTTAAATTTTG
1 ATTTGGATTTCAAGGCTCAAAGTTTAATTTGGTAAGTCAATTAAGTCATTTCTTCTTAAATTTTG
18388848 ATGTTTTAG
66 ATGTTTTAG
18388857 A
1 A
18388858 AGCTTTGGAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (74 bp):
ATTTGGATTTCAAGGCTCAAAGTTTAATTTGGTAAGTCAATTAAGTCATTTCTTCTTAAATTTTG
ATGTTTTAG
Found at i:18390030 original size:18 final size:19
Alignment explanation
Indices: 18390007--18390045 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
18389997 ATATATAGAT
18390007 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
18390025 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
18390044 AT
1 AT
18390046 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:18390387 original size:39 final size:40
Alignment explanation
Indices: 18390277--18390387 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 40
18390267 GACCTCGAGT
* * **
18390277 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** ** * *
18390318 CGATGAGGTACTGGGTACCAACT-TTACTTCGGTTAG-GC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
*
18390356 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
18390388 AACTATCCGA
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.34
39 18 0.34
40 1 0.02
41 16 0.30
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:18390555 original size:18 final size:19
Alignment explanation
Indices: 18390534--18390574 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
18390524 AATGAAATGA
18390534 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
18390552 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
18390571 GAAA
1 GAAA
18390575 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:18394931 original size:46 final size:48
Alignment explanation
Indices: 18394878--18395004 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 48
18394868 TTGGACATCT
* *
18394878 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAACAGGATCC
* * *
18394924 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATATAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAC-AGG-ATCC
18394971 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18395005 GCGGGTTACA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
43 5 0.07
45 4 0.06
46 26 0.39
47 29 0.43
48 2 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (48 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAACAGGATCC
Found at i:18396946 original size:13 final size:13
Alignment explanation
Indices: 18396922--18396960 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
18396912 AACAGGAACC
*
18396922 ACACGATCGTGTG
1 ACACGGTCGTGTG
*
18396935 ACATGGTCGTGTG
1 ACACGGTCGTGTG
*
18396948 ACACGGCCGTGTG
1 ACACGGTCGTGTG
18396961 GCCCAACACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (13 bp):
ACACGGTCGTGTG
Found at i:18397646 original size:5 final size:5
Alignment explanation
Indices: 18397630--18397678 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
18397620 GACATGTTTA
* * *
18397630 TTATT TTCTT TTATT TTCTT TTAAT TTA-T TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
18397679 CCTTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:18397663 original size:19 final size:19
Alignment explanation
Indices: 18397639--18397688 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
18397629 ATTATTTTCT
*
18397639 TTTATTTTCTTTTAATTTA
1 TTTATTTTATTTTAATTTA
*
18397658 TTTATTTTATTTTATTTTA
1 TTTATTTTATTTTAATTTA
**
18397677 TTCCTTTTATTT
1 TTTATTTTATTT
18397689 CGACAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTATTTTAATTTA
Found at i:18399209 original size:6 final size:6
Alignment explanation
Indices: 18399198--18399231 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18399188 GTCCATTCGT
* *
18399198 TTTTTA TTTTTA TTTTTA TGTTTA TTGTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
18399232 CTTAAACTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:18409621 original size:15 final size:16
Alignment explanation
Indices: 18409603--18409637 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18409593 CTTTTTTAGT
18409603 TTTATAATTTT-ATAA
1 TTTATAATTTTCATAA
*
18409618 TTTATAGTTTTCATAA
1 TTTATAATTTTCATAA
18409634 TTTA
1 TTTA
18409638 ATTTTATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTATAATTTTCATAA
Found at i:18421131 original size:21 final size:21
Alignment explanation
Indices: 18421105--18421145 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18421095 AGACGAGCTA
* *
18421105 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
18421126 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
18421146 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:18424411 original size:23 final size:23
Alignment explanation
Indices: 18424344--18424414 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
18424334 ATCACAATAA
*
18424344 TATCATTA-AAAAATACTAAATTGT
1 TATCATTACAAAAATA--AAATTAT
*
18424368 T-TTATT-CACAAAA-AAAA-TAT
1 TATCATTACA-AAAATAAAATTAT
18424388 TATCATTACAAAAATAAAATTAT
1 TATCATTACAAAAATAAAATTAT
18424411 TATC
1 TATC
18424415 TTATTATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
20 3 0.08
21 11 0.29
22 6 0.16
23 13 0.34
24 5 0.13
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.37
Consensus pattern (23 bp):
TATCATTACAAAAATAAAATTAT
Found at i:18426627 original size:15 final size:15
Alignment explanation
Indices: 18426607--18426663 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
18426597 AATTAATATT
18426607 AATATTTTAACAATA
1 AATATTTTAACAATA
*
18426622 AATATTTATTACAATAA
1 AATATTT-TAACAAT-A
* *
18426639 TAATTATATTAATAATA
1 -AA-TATTTTAACAATA
18426656 AATATTTT
1 AATATTTT
18426664 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 12 0.36
16 8 0.24
17 2 0.06
18 7 0.21
19 4 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAACAATA
Found at i:18426793 original size:13 final size:13
Alignment explanation
Indices: 18426775--18426801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18426765 ACATTAAAAA
18426775 CGTTGTAATGAAC
1 CGTTGTAATGAAC
18426788 CGTTGTAATGAAC
1 CGTTGTAATGAAC
18426801 C
1 C
18426802 TGAATTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CGTTGTAATGAAC
Found at i:18427078 original size:13 final size:14
Alignment explanation
Indices: 18427024--18427076 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
18427014 CCAAGAAAAT
*
18427024 AAGTTATTTTTTAA
1 AAGTCATTTTTTAA
18427038 AAGTCATTTTTTAA
1 AAGTCATTTTTTAA
* * *
18427052 AAATTATTTTTTAG
1 AAGTCATTTTTTAA
18427066 AAGTCATTTTT
1 AAGTCATTTTT
18427077 AGTGAAACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (14 bp):
AAGTCATTTTTTAA
Found at i:18428200 original size:9 final size:9
Alignment explanation
Indices: 18428186--18428219 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
18428176 GGTATTTTTC
18428186 GGTAATTCG
1 GGTAATTCG
18428195 GGTAATTCG
1 GGTAATTCG
18428204 GGTAATTCG
1 GGTAATTCG
18428213 GGTAATT
1 GGTAATT
18428220 TTTAACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.35
Consensus pattern (9 bp):
GGTAATTCG
Found at i:18428396 original size:12 final size:12
Alignment explanation
Indices: 18428379--18428403 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18428369 AGTAATTTCG
18428379 GGTCGGTTAACC
1 GGTCGGTTAACC
18428391 GGTCGGTTAACC
1 GGTCGGTTAACC
18428403 G
1 G
18428404 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:18438114 original size:15 final size:15
Alignment explanation
Indices: 18438094--18438123 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18438084 TGAATCAGAG
18438094 AGAAAATTTTCATTC
1 AGAAAATTTTCATTC
18438109 AGAAAATTTTCATTC
1 AGAAAATTTTCATTC
18438124 TGTGTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
AGAAAATTTTCATTC
Found at i:18443905 original size:30 final size:30
Alignment explanation
Indices: 18443869--18443927 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
18443859 TTAATAAAAG
*
18443869 TATATATATCTAGAATGAATATAGACAATA
1 TATATATATCTAAAATGAATATAGACAATA
*
18443899 TATATATATCTAAAATGAATTTAGACAAT
1 TATATATATCTAAAATGAATATAGACAAT
18443928 TGTTTGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (30 bp):
TATATATATCTAAAATGAATATAGACAATA
Found at i:18444016 original size:10 final size:9
Alignment explanation
Indices: 18443995--18444033 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
18443985 AAATATTTTT
18443995 AAAATTATA
1 AAAATTATA
18444004 AAAATTAATAA
1 AAAATT-AT-A
18444015 AAAATTATA
1 AAAATTATA
18444024 AAAATT-TA
1 AAAATTATA
18444032 AA
1 AA
18444034 TATGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.14
9 13 0.46
10 4 0.14
11 7 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:18444052 original size:18 final size:17
Alignment explanation
Indices: 18444010--18444057 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
18444000 TATAAAAATT
*
18444010 AATAAAAA-ATTATAAA
1 AATAAAAATATTAAAAA
**
18444026 AATTTAAATATGTAAAAA
1 AATAAAAATAT-TAAAAA
18444044 AATAAAAATATTAA
1 AATAAAAATATTAA
18444058 TAATTCAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 6 0.24
17 5 0.20
18 14 0.56
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AATAAAAATATTAAAAA
Found at i:18446424 original size:18 final size:18
Alignment explanation
Indices: 18446401--18446440 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18446391 GCTGTTGGTG
18446401 GTGCTCAACCTGCTGGAA
1 GTGCTCAACCTGCTGGAA
* *
18446419 GTGCTCAATCTGCTGGAG
1 GTGCTCAACCTGCTGGAA
18446437 GTGC
1 GTGC
18446441 GCAGGGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (18 bp):
GTGCTCAACCTGCTGGAA
Found at i:18447886 original size:18 final size:18
Alignment explanation
Indices: 18447860--18447973 Score: 73
Period size: 18 Copynumber: 6.7 Consensus size: 18
18447850 CCTGCCGCAA
18447860 CAAGCCCCGGTGGCCAAG
1 CAAGCCCCGGTGGCCAAG
*
18447878 CAGGCCCC----GCCAAAG
1 CAAGCCCCGGTGGCC-AAG
* * *
18447893 CAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAG
18447911 CAAGCCCCGGTGGCCAAG
1 CAAGCCCCGGTGGCCAAG
* *
18447929 CAGGGCCC--T--CCAAAG
1 CAAGCCCCGGTGGCC-AAG
* * *
18447944 CAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAG
18447962 CAAGCCCCGGTG
1 CAAGCCCCGGTG
18447974 CAACTGCTTA
Statistics
Matches: 70, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
14 5 0.07
15 17 0.24
16 1 0.01
18 44 0.63
19 3 0.04
ACGTcount: A:0.25, C:0.39, G:0.32, T:0.05
Consensus pattern (18 bp):
CAAGCCCCGGTGGCCAAG
Found at i:18447915 original size:51 final size:51
Alignment explanation
Indices: 18447860--18447973 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
18447850 CCTGCCGCAA
18447860 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
* *
18447911 CAAGCCCCGGTGGCCAAGCAGGGCCCTCCAAAGCAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
18447962 CAAGCCCCGGTG
1 CAAGCCCCGGTG
18447974 CAACTGCTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.25, C:0.39, G:0.32, T:0.05
Consensus pattern (51 bp):
CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
Found at i:18450961 original size:18 final size:18
Alignment explanation
Indices: 18450940--18450978 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18450930 TTTTTTCTAA
18450940 TATTATTAAT-ATTATCAC
1 TATTATT-ATCATTATCAC
*
18450958 TATTATTATCATTATTAC
1 TATTATTATCATTATCAC
18450976 TAT
1 TAT
18450979 ATCTTAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATTATCATTATCAC
Found at i:18450974 original size:30 final size:31
Alignment explanation
Indices: 18450897--18450974 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
18450887 CCTTTCTTAT
*
18450897 TTATTTTCATTACTTTATTAAATATTATTACTA
1 TTATTTTCATTA--TTATTAAATATTATCACTA
*
18450930 TT-TTTTCTAATATTATT-AATATTATCACTA
1 TTATTTTC-ATTATTATTAAATATTATCACTA
*
18450960 TTATTATCATTATTA
1 TTATTTTCATTATTA
18450975 CTATATCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 20 0.51
31 9 0.23
32 5 0.13
33 5 0.13
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (31 bp):
TTATTTTCATTATTATTAAATATTATCACTA
Found at i:18451190 original size:36 final size:38
Alignment explanation
Indices: 18451107--18451190 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 38
18451097 ATGTTATATT
* *
18451107 ATATATATATTTTTCATATATTATTAACATGTGTTTTTA
1 ATATATATA-TTTTCATATATTATTAACATATATTTTTA
* *
18451146 ATAT-TATATTTT-ATATATTA-TCATATATATTTTTA
1 ATATATATATTTTCATATATTATTAACATATATTTTTA
*
18451181 GTATATATAT
1 ATATATATAT
18451191 ATGTTTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 14 0.36
36 13 0.33
37 4 0.10
38 4 0.10
39 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (38 bp):
ATATATATATTTTCATATATTATTAACATATATTTTTA
Found at i:18451192 original size:21 final size:20
Alignment explanation
Indices: 18451101--18451192 Score: 56
Period size: 20 Copynumber: 4.7 Consensus size: 20
18451091 ATTTTAATGT
18451101 TATATTATATATATATTTTTCA
1 TATATTATATATATA-TTTT-A
* *
18451123 TATATTAT-TA-ACATGTGT-
1 TATATTATATATATAT-TTTA
18451141 T-T-TTA-ATATTATATTTTA
1 TATATTATATA-TATATTTTA
18451159 TATATTATCATATATATTTT-
1 TATATTAT-ATATATATTTTA
18451179 TAGTA-TATATATAT
1 TA-TATTATATATAT
18451193 GTTTATGAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 23
0.67 0.05 0.28
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 5 0.09
19 8 0.14
20 12 0.21
21 12 0.21
22 11 0.20
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (20 bp):
TATATTATATATATATTTTA
Found at i:18451487 original size:50 final size:52
Alignment explanation
Indices: 18451432--18451576 Score: 120
Period size: 50 Copynumber: 2.8 Consensus size: 52
18451422 TCATATATAT
* * * *
18451432 TATGTATATATATTTTCAATAT-TATTATTTATAT-TTGTTATATACTATTC
1 TATGTATATATATTTTCAATATATATTATGTATATATTATTAAATACTATTA
* * *
18451482 TATG--TACATA-TTTCCATATCATCTTATGTATATATTATTAAATACTATTA
1 TATGTATATATATTTTCAATAT-ATATTATGTATATATTATTAAATACTATTA
* * * *
18451532 TATGTATATGTATTTTTAATACCATATTGTATATATATATTATTA
1 TATGTATATATATTTTCAATA-TATA-T-TATGTATATATTATTA
18451577 TTACATTTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
47 8 0.11
48 5 0.07
49 10 0.14
50 21 0.29
52 4 0.06
53 8 0.11
54 1 0.01
55 15 0.21
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (52 bp):
TATGTATATATATTTTCAATATATATTATGTATATATTATTAAATACTATTA
Found at i:18462957 original size:43 final size:43
Alignment explanation
Indices: 18462895--18463011 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
18462885 AAAAAAGGGG
** * *
18462895 AAAAAGATCAAGGTGAAAACTCGAAAAGGGCGTCTTGATGAAC
1 AAAAAGATCAAGGCAAAAACCCGAAAAGGGCGACTTGATGAAC
* *
18462938 AAAAGGATCAAGGCAAAAACCCGAAAAGGGCGACTTGATTAAC
1 AAAAAGATCAAGGCAAAAACCCGAAAAGGGCGACTTGATGAAC
18462981 ACAAAAGAT-AAGG-ATGAAAACCC-AAAAGGGC
1 A-AAAAGATCAAGGCA--AAAACCCGAAAAGGGC
18463012 ATTCTAATGA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 50 0.78
44 13 0.20
ACGTcount: A:0.48, C:0.16, G:0.24, T:0.12
Consensus pattern (43 bp):
AAAAAGATCAAGGCAAAAACCCGAAAAGGGCGACTTGATGAAC
Found at i:18464009 original size:73 final size:73
Alignment explanation
Indices: 18463889--18464114 Score: 294
Period size: 73 Copynumber: 3.0 Consensus size: 73
18463879 TAAAAAAATC
* * * *
18463889 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGCCACCCTGAGGTATTTTTAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
*
18463954 TTGTCAAA
66 TTTTCAAA
18463962 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG-
*
18464027 TTTTCAATTTTCATTTGA
65 ----C--TTTTCA---AA
18464045 AATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
18464108 TTTTCAA
66 TTTTCAA
18464115 TTCTTGCTTT
Statistics
Matches: 136, Mismatches: 7, Indels: 22
0.82 0.04 0.13
Matches are distributed among these distances:
73 60 0.44
74 6 0.04
76 1 0.01
78 1 0.01
80 5 0.04
81 46 0.34
83 17 0.12
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (73 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
TTTTCAAA
Found at i:18464113 original size:14 final size:14
Alignment explanation
Indices: 18464094--18464128 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
18464084 CGCTGAGGTA
18464094 TTTTCAATT-TCTGC
1 TTTTCAATTCT-TGC
18464108 TTTTCAATTCTTGC
1 TTTTCAATTCTTGC
18464122 TTTTCAA
1 TTTTCAA
18464129 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTCTTGC
Found at i:18464170 original size:89 final size:89
Alignment explanation
Indices: 18464044--18464781 Score: 1097
Period size: 89 Copynumber: 8.3 Consensus size: 89
18464034 TTTTCATTTG
18464044 AAATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
*
18464107 CTTTTCAATTCTTGCTTTTCAAAA
66 CTTTTCAATTCCTGCTTTTCAAAA
* *
18464131 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
*
18464196 CTTTTCAATTACTGCTTTTCAAAA
66 CTTTTCAATTCCTGCTTTTCAAAA
18464220 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
18464285 CTTTTCAATTCCTGCTTTTCAAAA
66 CTTTTCAATTCCTGCTTTTCAAAA
*
18464309 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
18464374 CTTTTCAATTCCTGCTTTTCAAAA
66 CTTTTCAATTCCTGCTTTTCAAAA
*
18464398 AAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
18464463 CTTTTCAATTCCTGCTTTTCAAAA
66 CTTTTCAATTCCTGCTTTTCAAAA
* * *
18464487 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCAGAGGTATATTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
* * *
18464552 -TTTT--TTTCAATGTTTTTC--AA
66 CTTTTCAATTC-CTGCTTTTCAAAA
* **
18464572 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGTCACATG-TCGAGGTATTTTCAAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCT-GAGGTATTTTCAATT
** *
18464635 TCTATTTTTCAAATT-CAG-TTTTC--AA
62 TCTGCTTTTC-AATTCCTGCTTTTCAAAA
* * * * * *
18464660 AAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGGGAACGTTGAGGTATTTTTAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
18464725 CTTTTCAATTCCTGCTTTTCAAAAAA
66 CTTTTCAATTCCTGCTTTTC--AAAA
18464751 AAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGA
18464782 ATCCTAGGTC
Statistics
Matches: 594, Mismatches: 38, Indels: 34
0.89 0.06 0.05
Matches are distributed among these distances:
84 2 0.00
85 44 0.07
86 25 0.04
87 46 0.08
88 51 0.09
89 392 0.66
91 34 0.06
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (89 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
CTTTTCAATTCCTGCTTTTCAAAA
Found at i:18464291 original size:14 final size:14
Alignment explanation
Indices: 18464272--18464306 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18464262 CGCTGAGGTA
*
18464272 TTTTCAATTTCTGC
1 TTTTCAATTCCTGC
18464286 TTTTCAATTCCTGC
1 TTTTCAATTCCTGC
18464300 TTTTCAA
1 TTTTCAA
18464307 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTGC
Found at i:18464313 original size:178 final size:178
Alignment explanation
Indices: 18463959--18464781 Score: 1155
Period size: 178 Copynumber: 4.7 Consensus size: 178
18463949 TCTGCTTGTC
18463959 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * *
18464024 TGA-TTTTCAATT--TTCATTT----GAAATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAG
66 T-ACTTTTCAATTACTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
18464080 GGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCTTGCTTTTCAA
130 GGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAA
*
18464129 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
18464194 TACTTTTCAATTACTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TACTTTTCAATTACTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
18464259 GCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAA
131 GCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAA
*
18464307 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * *
18464372 TGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TACTTTTCAATTACTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
18464437 GCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAA
131 GCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAA
* * *
18464485 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCAGAGGTATATTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * * * *
18464550 T-GTTTT--TTTCAATGTTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-G
66 TACTTTTCAATT-ACTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
** ** *
18464609 GGTCACATG-TCGAGGTATTTTCAAAATCTATTTTTCAAATT-CAG-TTTTC--
130 GG-CAC--GCT-GAGGTATTTTCAATTTCTGCTTTTC-AATTCCTGCTTTTCAA
* * * * * *
18464658 AAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGGGAACGTTGAGGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* *
18464723 TGCTTTTCAATTCCTGCTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TACTTTTCAATTACTGCTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
18464782 ATCCTAGGTC
Statistics
Matches: 590, Mismatches: 41, Indels: 35
0.89 0.06 0.05
Matches are distributed among these distances:
169 1 0.00
170 74 0.13
172 5 0.01
173 60 0.10
174 43 0.07
175 15 0.03
176 50 0.08
177 8 0.01
178 302 0.51
179 32 0.05
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (178 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
TACTTTTCAATTACTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
GCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAA
Found at i:18464380 original size:14 final size:14
Alignment explanation
Indices: 18464361--18464395 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18464351 AGCTGAGGTA
*
18464361 TTTTCAATTTCTGC
1 TTTTCAATTCCTGC
18464375 TTTTCAATTCCTGC
1 TTTTCAATTCCTGC
18464389 TTTTCAA
1 TTTTCAA
18464396 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTGC
Found at i:18464426 original size:267 final size:263
Alignment explanation
Indices: 18463959--18464781 Score: 1195
Period size: 267 Copynumber: 3.1 Consensus size: 263
18463949 TCTGCTTGTC
18463959 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * *
18464024 TGATTTTCAATT-TTCATTT--GAAATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGGCA
66 TG-TTTTCAATTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
18464084 CGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCTTGCTTTTCAAAAAAATCAACTCATATTGCG
130 AGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCG
* * *
18464149 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTCTACTTTTCAATTACTGCTTT
195 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTT
18464214 TCAA
260 TCAA
18464218 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
18464283 TGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TG-TTTTCAATT-CTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
18464348 GCAAGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCACATT
127 GCAAGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATT
18464413 GCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGC
192 GCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGC
18464478 TTTTCAA
257 TTTTCAA
* * *
18464485 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCAGAGGTATATTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * *
18464550 TGTTTT--TTTCAATGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGT
66 TGTTTTCAATTC--TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-
** ** *
18464612 CACATG-TCGAGGTATTTTCAAAATCTATTTTTCAAATT-CAG-TTTTC--AAAAATCAACTCAT
128 CA-A-GCT-GAGGTATTTTCAATTTCTGCTTTTC-AATTCCTGCTTTTCAAAAAAATCAACTCAT
* * * * * *
18464672 ATGGCGAGAGGTGAGTTGAGCCTCGGGGAACGTTGAGGTATTTTTAATTTTTGCTTTTCAATTCC
189 ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCC
18464737 TGCTTTTCAAAA
254 TGCTTTTC--AA
18464749 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
18464782 ATCCTAGGTC
Statistics
Matches: 519, Mismatches: 28, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
259 76 0.15
261 5 0.01
262 83 0.16
263 40 0.08
264 44 0.08
265 48 0.09
266 8 0.02
267 215 0.41
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (263 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
TGTTTTCAATTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAA
GCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTT
CAA
Found at i:18464469 original size:14 final size:14
Alignment explanation
Indices: 18464450--18464484 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18464440 CGCTGAGGTA
*
18464450 TTTTCAATTTCTGC
1 TTTTCAATTCCTGC
18464464 TTTTCAATTCCTGC
1 TTTTCAATTCCTGC
18464478 TTTTCAA
1 TTTTCAA
18464485 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTGC
Found at i:18466633 original size:27 final size:26
Alignment explanation
Indices: 18466577--18466633 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
18466567 CAACCTTAAC
* *
18466577 CCTAGGGGTAAATTAGTAATTTTACT
1 CCTAGGGATAAATTAGTAATTTTACA
*
18466603 CCTAGGGATAAATCT-GTAAATTTTCCA
1 CCTAGGGATAAAT-TAGT-AATTTTACA
18466630 CCTA
1 CCTA
18466634 TGAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (26 bp):
CCTAGGGATAAATTAGTAATTTTACA
Found at i:18469418 original size:18 final size:18
Alignment explanation
Indices: 18469397--18469435 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18469387 TTTTTTCTAA
18469397 TATTATTAAT-ATTATCAC
1 TATTATT-ATCATTATCAC
*
18469415 TATTATTATCATTATTAC
1 TATTATTATCATTATCAC
18469433 TAT
1 TAT
18469436 ATCTTAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATTATCATTATCAC
Found at i:18469431 original size:30 final size:31
Alignment explanation
Indices: 18469354--18469431 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
18469344 CCTTTCTTAT
*
18469354 TTATTTTCATTACTTTATTAAATATTATTACTA
1 TTATTTTCATTA--TTATTAAATATTATCACTA
*
18469387 TT-TTTTCTAATATTATT-AATATTATCACTA
1 TTATTTTC-ATTATTATTAAATATTATCACTA
*
18469417 TTATTATCATTATTA
1 TTATTTTCATTATTA
18469432 CTATATCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 20 0.51
31 9 0.23
32 5 0.13
33 5 0.13
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (31 bp):
TTATTTTCATTATTATTAAATATTATCACTA
Found at i:18469651 original size:21 final size:20
Alignment explanation
Indices: 18469605--18469651 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
18469595 TGTGTTTTTA
18469605 ATAT-TATATTTTATATATT
1 ATATATATATTTTATATATT
18469624 ATCATATATATTTT-TAGTA-T
1 AT-ATATATATTTTATA-TATT
18469644 ATATATAT
1 ATATATAT
18469652 GTTTATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 10 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATATATATATTTTATATATT
Found at i:18473105 original size:114 final size:114
Alignment explanation
Indices: 18472916--18473241 Score: 346
Period size: 114 Copynumber: 2.9 Consensus size: 114
18472906 TTTGTTGTTG
* * * * *
18472916 TTTTGTTGTG-TTTTATTT-GATTTAAGTTTGTTTTAAATGTATAATTAGTCTATTTTATTAATG
1 TTTTGTTGTGTTTTTATTTAGATTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATG
* *
18472979 TTATTGTCGTATCTTATATCATTTTTTT-TAGTTTGTA-TT-AAA-GATATT
66 TTTTTGTAGTATCTTATATCATTTTTTTGT-G-TT-TACTTGAAATGATATT
* *
18473027 TTTTGTTGTGTTTTTTATTTAG-TTTTAGATTTGTATTAAAGGTATGATTAATTTGTTTTATTAA
1 TTTTGTTGTG-TTTTTATTTAGATTTAAG-TTTGTATTAAAGGTATGATTAATTTATTTTATTAA
* * * *
18473091 TGTTTTTGTGGTATCTTATATTAGTTTTTTGTGTTTACTTGAAATGTTATT
64 TGTTTTTGTAGTATCTTATATCATTTTTTTGTGTTTACTTGAAATGATATT
* *
18473142 TTTTGTTGTTGTGTTTTA-TTAGCTTTAAGTTTGTATT-AAGGTTTGATTAATTTATTTTATTAA
1 TTTTGTTG-TGT-TTTTATTTAGATTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAA
* * * * *
18473205 TTTTTTTGAAGAATCTTATATCAGTTTTTTGTATTTA
64 TGTTTTTGTAGTATCTTATATCATTTTTTTGTGTTTA
18473242 AGGTATGAAC
Statistics
Matches: 183, Mismatches: 21, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
111 10 0.05
112 2 0.01
113 17 0.09
114 115 0.63
115 27 0.15
116 12 0.07
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (114 bp):
TTTTGTTGTGTTTTTATTTAGATTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATG
TTTTTGTAGTATCTTATATCATTTTTTTGTGTTTACTTGAAATGATATT
Found at i:18480195 original size:15 final size:15
Alignment explanation
Indices: 18480177--18480233 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
18480167 ATGTAAGGGC
*
18480177 AATATATATATAATT
1 AATAAATATATAATT
*
18480192 AATAAATATATAATAC
1 AATAAATATATAAT-T
18480208 AAGTAAA-ATAT-ATT
1 AA-TAAATATATAATT
18480222 AAT-AATATATAA
1 AATAAATATATAA
18480234 AAATAATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 2 0.06
13 5 0.14
14 3 0.09
15 15 0.43
16 6 0.17
17 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AATAAATATATAATT
Done.