Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 88 of 378
Found at i:23817380 original size:42 final size:42
Alignment explanation
Indices: 23817302--23817381 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
23817292 GTGCAAGTTT
* * *
23817302 CACACGGCCAAGACACATGCCCGTGTTCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCATGTTCTAGCCCGTGTAGCA
* *
23817344 CACACGGCTAAGGCACACGCCCATGTCTCT-GCCCGTGT
1 CACACGGCCAAGACACACGCCCATGT-TCTAGCCCGTGT
23817382 GCCCAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATGTTCTAGCCCGTGTAGCA
Found at i:23818227 original size:18 final size:18
Alignment explanation
Indices: 23818190--23818228 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23818180 ATCAAAATTA
*
23818190 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
23818208 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
23818226 AAA
1 AAA
23818229 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:23824741 original size:24 final size:24
Alignment explanation
Indices: 23824714--23824791 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
23824704 AAGTTTGTTC
23824714 TAATTTTTAATGTTGTAATGTATT
1 TAATTTTTAATGTTGTAATGTATT
* ** * *
23824738 TAA--TTT-ATATTACAACGTTTGT
1 TAATTTTTAATGTTGTAATGTAT-T
23824760 TCCAATTTTTAATGTTGTAATGTATT
1 T--AATTTTTAATGTTGTAATGTATT
23824786 TAATTT
1 TAATTT
23824792 ATATTATAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
21 9 0.24
22 5 0.13
24 10 0.26
26 5 0.13
27 9 0.24
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.55
Consensus pattern (24 bp):
TAATTTTTAATGTTGTAATGTATT
Found at i:23824750 original size:48 final size:48
Alignment explanation
Indices: 23824690--23824797 Score: 198
Period size: 48 Copynumber: 2.2 Consensus size: 48
23824680 CCAAAATACC
*
23824690 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATT
*
23824738 TAATTTATATTACAACGTTTGTTCCAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATT
23824786 TAATTTATATTA
1 TAATTTATATTA
23824798 TAAAATTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (48 bp):
TAATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATT
Found at i:23824806 original size:14 final size:14
Alignment explanation
Indices: 23824787--23824821 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
23824777 TAATGTATTT
23824787 AATTTATATTATAA
1 AATTTATATTATAA
23824801 AATTTATATTATAA
1 AATTTATATTATAA
*
23824815 AGTTTAT
1 AATTTAT
23824822 TCCAAGTTGT
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
AATTTATATTATAA
Found at i:23826081 original size:14 final size:14
Alignment explanation
Indices: 23826062--23826096 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
23826052 CAAATTACAT
23826062 GTTAGAATAGTATC
1 GTTAGAATAGTATC
23826076 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
23826090 ATTAGAA
1 GTTAGAA
23826097 AAAAAATGTC
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:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:23828064 original size:74 final size:73
Alignment explanation
Indices: 23827934--23828077 Score: 191
Period size: 74 Copynumber: 2.0 Consensus size: 73
23827924 TTTTTTTTAA
* *
23827934 TTCTCATGTTTTCTTTGCATTTTCCAATTTTTCCTAGGTTTTTTACAACTTCGATAGCTGGTAAA
1 TTCTCATGTTTTCTTTCCATTTTCCAATTTTTCCTAGGTTTTTTACAACTTCGATAGCTAGTAAA
23827999 TGTTATTT
66 TGTTATTT
* * * * *
23828007 TTCTC-TGTTTTCTTTCCAATTTTCGATTTTTTTTCTGGGTTTTTTACAACTTTGATAGCTAGTA
1 TTCTCATGTTTTCTTTCC-ATTTTCCA-ATTTTTCCTAGGTTTTTTACAACTTCGATAGCTAGTA
*
23828071 GATGTTA
64 AATGTTA
23828078 ATTATTTGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
72 11 0.18
73 12 0.20
74 38 0.62
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.53
Consensus pattern (73 bp):
TTCTCATGTTTTCTTTCCATTTTCCAATTTTTCCTAGGTTTTTTACAACTTCGATAGCTAGTAAA
TGTTATTT
Found at i:23830567 original size:13 final size:12
Alignment explanation
Indices: 23830544--23830606 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
23830534 AATAATTTTA
23830544 TATTAAAATTAT
1 TATTAAAATTAT
23830556 TATT-AAA-TAT
1 TATTAAAATTAT
23830566 TATTAATAATTA-
1 TATTAA-AATTAT
*
23830578 TATTAAGAA-TGT
1 TATTAA-AATTAT
23830590 TATT-AAATTAT
1 TATTAAAATTAT
23830601 ATATTA
1 -TATTA
23830607 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:23830571 original size:22 final size:23
Alignment explanation
Indices: 23830544--23830606 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
23830534 AATAATTTTA
23830544 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
23830566 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
23830590 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
23830607 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:23830725 original size:25 final size:26
Alignment explanation
Indices: 23830676--23830726 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
23830666 ATTTTTATTT
*
23830676 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
23830702 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
23830727 ATATACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:23830842 original size:39 final size:40
Alignment explanation
Indices: 23830783--23830896 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 40
23830773 TTTTTCCTTA
*
23830783 TACTATTACAACATCTATTCCATTCAACCAAACATAAT-AAT
1 TACTATTACAGC-TCTATTCCATTCAACCAAACA-AATGAAT
*
23830824 T-CTATTACAGCTCTATTCCATTCCATTCAACCAAACAATTGAAT
1 TACTATTACAGCTC---T--ATTCCATTCAACCAAACAAATGAAT
23830868 TACTGATTACAGCTCTATTCCATTACAAC
1 TACT-ATTACAGCTCTATTCCATT-CAAC
23830897 TCTATTCTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
39 2 0.03
40 9 0.15
41 9 0.15
42 5 0.08
43 3 0.05
44 22 0.35
45 2 0.03
46 10 0.16
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (40 bp):
TACTATTACAGCTCTATTCCATTCAACCAAACAAATGAAT
Found at i:23830850 original size:44 final size:46
Alignment explanation
Indices: 23830799--23830891 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 46
23830789 TACAACATCT
23830799 ATTCCATTCAACCAAACATAAT-AATT-CT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-AATGAATTACTGATTACAGCTCTATTCC
*
23830843 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAAATGAATTACTGATTACAGCTCTATTCC
23830889 ATT
1 ATT
23830892 ACAACTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 2 0.04
44 22 0.49
45 2 0.04
46 19 0.42
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAATGAATTACTGATTACAGCTCTATTCC
Found at i:23830894 original size:16 final size:16
Alignment explanation
Indices: 23830873--23830943 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
23830863 TGAATTACTG
23830873 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
23830889 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCC
* *
23830905 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
23830921 ATTATAGAC-ATATTCC
1 ATTACAG-CTCTATTCC
23830937 ATTACAG
1 ATTACAG
23830944 TGAACCAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 45 0.98
17 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:23830935 original size:32 final size:32
Alignment explanation
Indices: 23830873--23830943 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
23830863 TGAATTACTG
* * *
23830873 ATTACAGCTCTATTCCATTACAACTCTATTCT
1 ATTACAGCTCTATTCAATTACAACTATATTCC
* *
23830905 ATTATAGCTCTATTCAATTATAGAC-ATATTCC
1 ATTACAGCTCTATTCAATTACA-ACTATATTCC
23830937 ATTACAG
1 ATTACAG
23830944 TGAACCAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (32 bp):
ATTACAGCTCTATTCAATTACAACTATATTCC
Found at i:23831942 original size:28 final size:28
Alignment explanation
Indices: 23831906--23831961 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
23831896 GGTCCCCAAA
*
23831906 CACACATATCAAACATATCCCCTGACAC
1 CACACATATCAAACACATCCCCTGACAC
23831934 CACACATATCAAACACATCCCCTGACAC
1 CACACATATCAAACACATCCCCTGACAC
23831962 TAGCCATGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.41, G:0.04, T:0.16
Consensus pattern (28 bp):
CACACATATCAAACACATCCCCTGACAC
Found at i:23835866 original size:21 final size:22
Alignment explanation
Indices: 23835833--23835877 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
23835823 ATCAATACCA
*
23835833 TTACCATTATCATTATTAACAT
1 TTACCATTATCATTATCAACAT
*
23835855 TTACCA-TCTCATTATCAACAT
1 TTACCATTATCATTATCAACAT
23835876 TT
1 TT
23835878 TGCTCACCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (22 bp):
TTACCATTATCATTATCAACAT
Found at i:23839022 original size:2 final size:2
Alignment explanation
Indices: 23839017--23839059 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
23839007 CCACACACAC
23839017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23839059 A
1 A
23839060 AAAGATGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23840218 original size:35 final size:37
Alignment explanation
Indices: 23840147--23840244 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
23840137 ATAATCTTCA
23840147 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
23840185 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
23840220 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
23840245 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:23840244 original size:17 final size:19
Alignment explanation
Indices: 23840147--23840237 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
23840137 ATAATCTTCA
23840147 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
23840166 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
23840185 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
23840202 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
23840220 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
23840238 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:23840263 original size:22 final size:22
Alignment explanation
Indices: 23840147--23840260 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
23840137 ATAATCTTCA
23840147 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
23840166 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
23840185 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
23840202 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
23840220 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
23840242 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
23840261 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:23840550 original size:18 final size:17
Alignment explanation
Indices: 23840527--23840560 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23840517 TTCCCTGATT
*
23840527 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
23840545 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
23840561 GTATTATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:23842896 original size:3 final size:3
Alignment explanation
Indices: 23842888--23842942 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
23842878 CGTATCATAT
23842888 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23842936 TTA TTA T
1 TTA TTA T
23842943 CATATATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23843861 original size:131 final size:129
Alignment explanation
Indices: 23843525--23843866 Score: 402
Period size: 130 Copynumber: 2.6 Consensus size: 129
23843515 AGACGAGATT
* *
23843525 TGATGTTTGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
1 TGATGTTTGCAATTCG-AGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAA
* * * *
23843590 TAATCGAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCGATATG
65 TAATCGAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAACGAAGGCAATATG
* * *
23843655 TGATATTTGGCAA-TC-ATGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAA
1 TGATGTTT-GCAATTCGA--GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAA
* * *
23843718 AATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTAAT
63 AATAATCGAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTT-AAACGAAGGCAAT
23843783 ACT-
127 A-TG
* * * * ** * *
23843786 TGGTGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTATTCAAAA
1 TGATGTTTG-CAATTCGAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAA
* *
23843851 CAATCGAATATTCCTT
65 TAATCGAATATCCCTT
23843867 TAGGTTTTCA
Statistics
Matches: 178, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
128 1 0.01
130 97 0.54
131 76 0.43
132 3 0.02
133 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (129 bp):
TGATGTTTGCAATTCGAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAAT
AATCGAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAACGAAGGCAATATG
Found at i:23843876 original size:131 final size:130
Alignment explanation
Indices: 23843497--23843959 Score: 420
Period size: 131 Copynumber: 3.5 Consensus size: 130
23843487 TCATTCATTC
* * * * * *
23843497 AAAAATTCTTCAAAGCGAAGACGAGATTTGATGTTT-GCAATTCGCAGAATCGTGCCCTAACGTG
1 AAAAATCCTTTAAAACGAAGGCGATA-TTGATGTTTGGCAATTCG-AGAATCATGCCCTAACGTG
* * *
23843561 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATA-TCACTTCAAAATTTCACTCATGTCT
64 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTC-CTTCAAAATTTCACTCATGTCT
23843625 TTT
128 TTT
* * *
23843628 AAAAATCCCTT-AAACGAAGGCGATATGTGATATTTGGCAA-TC-ATGGAATCGTGCCCTAACGT
1 AAAAATCCTTTAAAACGAAGGCGATAT-TGATGTTTGGCAATTCGA--GAATCATGCCCTAACGT
* * * * * *
23843690 GTTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCT
63 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTCAAAATTTCACTCATGTCT
*
23843755 TCT
128 TTT
** * * *
23843758 AAAAATCCTTTAAAACGAAGGTAATACTTGGTGTTTGACAATTCGAGAATCATGCCCTATCGTGC
1 AAAAATCCTTTAAAACGAAGGCGATA-TTGATGTTTGGCAATTCGAGAATCATGCCCTAACGTGC
** * * * * *** *
23843823 TGGGTTGTGATTTCTCGTTTATTCAAAACAATCGAATATTCCTTTAGGTTTTCATTCATGT-TTA
65 TGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTCAAAATTTCACTCATGTCTT-
23843887 TT
129 TT
* * * * *
23843889 AAAAA-CCTTTCAAAATGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGA-GCCCTATCGT
1 AAAAATCCTTT-AAAACGAAGGCGATATT-GATGTTTGGCAATTCGAGAATC-ATGCCCTAACGT
23843952 GCTGGGTT
63 GCTGGGTT
23843960 ACGCTTTTTC
Statistics
Matches: 271, Mismatches: 48, Indels: 26
0.79 0.14 0.08
Matches are distributed among these distances:
128 1 0.00
129 1 0.00
130 114 0.42
131 150 0.55
132 4 0.01
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (130 bp):
AAAAATCCTTTAAAACGAAGGCGATATTGATGTTTGGCAATTCGAGAATCATGCCCTAACGTGCT
GGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTCAAAATTTCACTCATGTCTTTT
Found at i:23855880 original size:132 final size:132
Alignment explanation
Indices: 23855580--23856746 Score: 1705
Period size: 132 Copynumber: 8.9 Consensus size: 132
23855570 ATCTTACAGA
* *
23855580 TCTTGTTTCCTTGAAGTTGCAGTGAAGCAGATCGATGACGGTGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
*
23855645 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCAAAAAGTTGTAGTGGAGTAGGCTGAAATTTT
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCC-TAAAGTTGTAGTGGAGTAGGCTGAAATTTT
23855710 AGG
130 AGG
* * * * *
23855713 TCTTGTTTCCCTAAAGTTGCAGTAAAGCAGATCGAAGACGGTGAATCTTAGCTTCTTGAAGTTGT
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * * *
23855778 AATGAAGCAGATTTAAGTCACCAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
23855843 GG
131 GG
* **
23855845 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAAACGACGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
*
23855910 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
23855975 GG
131 GG
23855977 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * *
23856042 AGTGAAACAGATTTAAGTCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
23856107 GG
131 GG
* *** *
23856109 CCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * * * * * **
23856174 AGTGAGGTAGATTTAAACCACCAACCTAGCTTCCTAAAGTTGTAGTGGAGTAGGTTGAGATTGCA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
23856239 GA
131 GG
* * *
23856241 TCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
*
23856306 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
23856371 GG
131 GG
*
23856373 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAA--------T-C-----TTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * *
23856424 AGTGAAGCAGATTTAAGTCACCAACCTAGCTCCTTAAAGTTGTAGTGGAGTAGGTTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
23856489 GG
131 GG
* *** *
23856491 CCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * * * **
23856556 AGTGAGGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAGATTGCA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
23856621 GA
131 GG
* * * *
23856623 TCTTGTTTCCCTGAAATCGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
*
23856688 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA
23856747 GATTGCAGAT
Statistics
Matches: 927, Mismatches: 93, Indels: 29
0.88 0.09 0.03
Matches are distributed among these distances:
118 109 0.12
123 1 0.00
124 1 0.00
126 1 0.00
127 1 0.00
132 725 0.78
133 89 0.10
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (132 bp):
TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
GG
Found at i:23856610 original size:382 final size:385
Alignment explanation
Indices: 23855641--23856741 Score: 1742
Period size: 382 Copynumber: 2.8 Consensus size: 385
23855631 CTTCCTGAAG
* * *
23855641 TTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCAAAAAGTTGTAGTGGAGTAGGCTGAAA
1 TTGCAGTGAAGCAGATTTAAGTCACCAACCTAGCT-CCATAAAGTTGTAGTGGAGTAGGTTGAAA
* * * *** *
23855706 TTTTAGGTCTTGTTTCCCTAAAGTTGCAGTAAAGCAGATCGAAGACGGTGAATCTTAGC-TTCTT
65 TTTTAGGCCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTC-T
* * * * * * * *
23855770 GAAGTTGTAATGAAGCAGATTTAAGTCACCAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTA
129 GAAGTTGCAGTGAGGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTG
* ** * * * * ** *
23855835 AAATTTTAGGTCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAAACGACGAATCTTGGCTTC
194 AGATTGCAGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTC
23855900 CTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
259 CTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
*
23855965 TAAAATTTTAGGTCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCT
324 TAAAATTTTAGGTCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAA-------T
23856030 TCCTGAA
382 TCC---A
* *
23856037 GTTGCAGTGAAACAGATTTAAGTCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAA
1 -TTGCAGTGAAGCAGATTTAAGTCACCAACCTAGCTCCATAAAGTTGTAGTGGAGTAGGTTGAAA
23856102 TTTTAGGCCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTCTG
65 TTTTAGGCCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTCTG
* *
23856167 AAGTTGCAGTGAGGTAGATTTAAACCACCAACCTAGCTTCCTAAAGTTGTAGTGGAGTAGGTTGA
130 AAGTTGCAGTGAGGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGA
23856232 GATTGCAGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCC
195 GATTGCAGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCC
23856297 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
260 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT
23856362 AAAATTTTAGGTCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAA-T-C-
325 AAAATTTTAGGTCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATTCCA
*
23856420 TTGCAGTGAAGCAGATTTAAGTCACCAACCTAGCTCCTTAAAGTTGTAGTGGAGTAGGTTGAAAT
1 TTGCAGTGAAGCAGATTTAAGTCACCAACCTAGCTCCATAAAGTTGTAGTGGAGTAGGTTGAAAT
23856485 TTTAGGCCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTCTGA
66 TTTAGGCCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTCTGA
23856550 AGTTGCAGTGAGGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAG
131 AGTTGCAGTGAGGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAG
*
23856615 ATTGCAGATCTTGTTTCCCTGAAATCGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCT
196 ATTGCAGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCT
23856680 GAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
261 GAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
23856742 TTGAAGATTG
Statistics
Matches: 665, Mismatches: 38, Indels: 17
0.92 0.05 0.02
Matches are distributed among these distances:
382 317 0.48
387 1 0.00
388 1 0.00
396 310 0.47
397 36 0.05
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (385 bp):
TTGCAGTGAAGCAGATTTAAGTCACCAACCTAGCTCCATAAAGTTGTAGTGGAGTAGGTTGAAAT
TTTAGGCCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGACAAATCTTGGCTTTCTGA
AGTTGCAGTGAGGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAG
ATTGCAGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCT
GAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTA
AAATTTTAGGTCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATTCCA
Found at i:23858912 original size:2 final size:2
Alignment explanation
Indices: 23858905--23858933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23858895 CAACCAAAAT
23858905 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 T
23858934 TATTATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23859039 original size:3 final size:3
Alignment explanation
Indices: 23859031--23859082 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
23859021 CGTATCATAT
23859031 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23859079 TTA T
1 TTA T
23859083 CATATATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23859822 original size:131 final size:132
Alignment explanation
Indices: 23859667--23859920 Score: 375
Period size: 131 Copynumber: 1.9 Consensus size: 132
23859657 ACGGGATTTG
* *
23859667 ATATTTGGCAATTTGCGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCACGTTTGCTCAAAAT
1 ATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCACATTTGCTCAAAAT
* * * *
23859732 AATCGAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTT-AAACGAAGGCGATATG
66 AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATACCTTAAAACGAAGGCGATATG
23859796 AA
131 AA
* * * * * *
23859798 ATATTTGGCAATTCGTGGAATCGTGCCCTAACTTGTTGGGTTGCAATTTCCCATTTGTTTAAAAT
1 ATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCACATTTGCTCAAAAT
* *
23859863 AATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATACTTTAAAACGAAGG
66 AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATACCTTAAAACGAAGG
23859921 TAATACTTGG
Statistics
Matches: 108, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
131 99 0.92
132 9 0.08
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (132 bp):
ATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCACATTTGCTCAAAAT
AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATACCTTAAAACGAAGGCGATATG
AA
Found at i:23859950 original size:131 final size:130
Alignment explanation
Indices: 23859684--23860008 Score: 357
Period size: 131 Copynumber: 2.5 Consensus size: 130
23859674 GCAATTTGCG
* * *
23859684 GAATCGTGCCCTAACGTGTTAGGTTGCAATTTCACGTTTGCTCAAAATAATCGAATATCACTTCA
1 GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTCA
* * * * * *
23859749 AAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCGATATGAAATATTTGGCAATTCGT
66 AAATTTCACTCAGGTCTTCTAAAAATACCTTAAACGAAGGCAATATG-AATATTTGACAATTCGA
*
23859814 G
130 A
* * * * *
23859815 GAATCGTGCCCTAACTTGTTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTCA
1 GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTCA
* * * *
23859880 AAATTTCACTCAGGTCTTCTAAAAATACTTTAAAACGAAGGTAATACTTG-GTGTTTGACAATTC
66 AAATTTCACTCAGGTCTTCTAAAAATACCTT-AAACGAAGGCAATA--TGAATATTTGACAATTC
23859944 -AA
128 GAA
* * * ** * * *
23859946 GAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTT
1 GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTT
23860009 TGGGTTTTCA
Statistics
Matches: 160, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
131 135 0.84
132 23 0.14
134 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (130 bp):
GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTCA
AAATTTCACTCAGGTCTTCTAAAAATACCTTAAACGAAGGCAATATGAATATTTGACAATTCGAA
Found at i:23861286 original size:18 final size:18
Alignment explanation
Indices: 23861263--23861297 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23861253 GAGTTAAACG
23861263 AATCGAGTTATTAGAGTT
1 AATCGAGTTATTAGAGTT
*
23861281 AATCGAGTTATTCGAGT
1 AATCGAGTTATTAGAGT
23861298 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTAGAGTT
Found at i:23861366 original size:9 final size:9
Alignment explanation
Indices: 23861349--23861403 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
23861339 TGAGTTTTCA
23861349 AATTCGAAT
1 AATTCGAAT
*
23861358 AACTCGAAT
1 AATTCGAAT
23861367 AATTCGAAT
1 AATTCGAAT
*
23861376 AATTTGAAT
1 AATTCGAAT
*
23861385 AATTCAAAT
1 AATTCGAAT
23861394 AATTCGAAT
1 AATTCGAAT
23861403 A
1 A
23861404 TCAAACTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23861486 original size:30 final size:31
Alignment explanation
Indices: 23861452--23861511 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
23861442 AAACCTTTTT
* *
23861452 ACTTTTCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
23861482 ACTTTCCCCCCAAAACTTTTACTCCCTTCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCC
23861512 ATCCCAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
Found at i:23861780 original size:17 final size:17
Alignment explanation
Indices: 23861753--23861810 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
23861743 ACTCCCCCTA
*
23861753 TTTATTTCCCCTCAAACT
1 TTTATTTCCCC-AAAACT
23861771 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
*
23861788 TTTATTTTCCCCCTAAACT
1 TTTA-TTT-CCCCAAAACT
23861807 TTTA
1 TTTA
23861811 CTTCTCGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 4 0.12
17 11 0.32
18 4 0.12
19 7 0.21
20 8 0.24
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:23862592 original size:21 final size:21
Alignment explanation
Indices: 23862564--23862619 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
23862554 AACAGCGGTG
*
23862564 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* * *
23862585 GCTGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
23862606 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
23862620 AACAATGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.36, T:0.32
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:23866178 original size:19 final size:19
Alignment explanation
Indices: 23866154--23866192 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23866144 ATTTAATTAC
23866154 ATAATTTATGCAGCTTCTA
1 ATAATTTATGCAGCTTCTA
23866173 ATAATTTATGCAGCTTCTA
1 ATAATTTATGCAGCTTCTA
23866192 A
1 A
23866193 CTCATCTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
ATAATTTATGCAGCTTCTA
Found at i:23866844 original size:25 final size:25
Alignment explanation
Indices: 23866804--23866908 Score: 174
Period size: 25 Copynumber: 4.2 Consensus size: 25
23866794 TGAAATGCCC
23866804 ATCATGGAACATTTACCTAACCCATT
1 ATCAT-GAACATTTACCTAACCCATT
*
23866830 ATCATGAATATTTACCTAACCCATT
1 ATCATGAACATTTACCTAACCCATT
* *
23866855 ATCATGAATATTTACCTAATCCATT
1 ATCATGAACATTTACCTAACCCATT
23866880 ATCATGAACATTTACCTAACCCATT
1 ATCATGAACATTTACCTAACCCATT
23866905 ATCA
1 ATCA
23866909 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 70 0.93
26 5 0.07
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCATGAACATTTACCTAACCCATT
Found at i:23873854 original size:26 final size:26
Alignment explanation
Indices: 23873824--23873931 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
23873814 TGAAATGCCC
23873824 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23873850 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
23873876 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
23873902 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23873928 ATCA
1 ATCA
23873932 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:23882429 original size:13 final size:13
Alignment explanation
Indices: 23882411--23882444 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
23882401 ATTTACTCTG
23882411 AAGGAAAGTCAAC
1 AAGGAAAGTCAAC
*
23882424 AAGGAAAGTCGAC
1 AAGGAAAGTCAAC
23882437 AAGGAAAG
1 AAGGAAAG
23882445 GGGCTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.29, T:0.06
Consensus pattern (13 bp):
AAGGAAAGTCAAC
Found at i:23887331 original size:45 final size:45
Alignment explanation
Indices: 23887273--23887575 Score: 236
Period size: 45 Copynumber: 6.5 Consensus size: 45
23887263 TCAAAACAAG
* * *
23887273 TCTTATCTCCTTGAAGTTACAATGGAGTAGATTGAAGATAGTGAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTCAA
* * *
23887318 TCTTGTCTCCTTGAAGTTACAGTGGAGTAGATTGAAGCTGGAAGTTACAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGAT---AG-T-CAA
* * *
23887368 GTCTTATCT-CTCTGAAGTTGCAGTGGAGTAAACTGAAGATAGTGAA
1 -TCTTATCTCCT-TGAAGTTGCAGTGGAGTAGATTGAAGATAGTCAA
* * * *
23887414 TCTTGTCTTCC-TGGAGTTACAGTGGAGTAGATTGAAGCTGGAAGTTACAA
1 TCTTATC-TCCTTGAAGTTGCAGTGGAGTAGATTGAAGAT---AG-T-CAA
* * *
23887464 GTCTTATCTCCATGAAGTTGCAGTAGAGCAGATTGAAGATAG-CGAA
1 -TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTC-AA
* * * *
23887510 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAAAG-CAGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTCA-A
* *
23887555 CCTTGTCTCCTTGAAGTTGCA
1 TCTTATCTCCTTGAAGTTGCA
23887576 ATAGAGCAGA
Statistics
Matches: 210, Mismatches: 30, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
44 1 0.00
45 123 0.59
46 5 0.02
47 2 0.01
48 8 0.04
49 2 0.01
50 9 0.04
51 60 0.29
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTCAA
Found at i:23887377 original size:96 final size:95
Alignment explanation
Indices: 23887268--23887546 Score: 398
Period size: 96 Copynumber: 2.9 Consensus size: 95
23887258 ATAGATCAAA
* *
23887268 ACAAGTCTTATCTCCTTGAAGTTACAATGGAGTAGATTGAAGATAGTGAATCTTGTCTCCTTGAA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTCC-TGAA
23887333 GTTACAGTGGAGTAGATTGAAGCTGGAAGTT
65 GTTACAGTGGAGTAGATTGAAGCTGGAAGTT
* * *
23887364 ACAAGTCTTATCT-CTCTGAAGTTGCAGTGGAGTAAACTGAAGATAGTGAATCTTGTCTTCCTGG
1 ACAAGTCTTATCTCCT-TGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTC-TCCTGA
23887428 AGTTACAGTGGAGTAGATTGAAGCTGGAAGTT
64 AGTTACAGTGGAGTAGATTGAAGCTGGAAGTT
* * * * *
23887460 ACAAGTCTTATCTCCATGAAGTTGCAGTAGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCT-CCTGAA
* * *
23887525 GTTGCAGTGGAGCAGAATGAAG
65 GTTACAGTGGAGTAGATTGAAG
23887547 AAAGCAGACC
Statistics
Matches: 163, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
95 3 0.02
96 156 0.96
97 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (95 bp):
ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTCCTGAAG
TTACAGTGGAGTAGATTGAAGCTGGAAGTT
Found at i:23888385 original size:20 final size:18
Alignment explanation
Indices: 23888344--23888386 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
23888334 AGTCTCGTTT
23888344 TTCTCTTTTTTTTTTTAC
1 TTCTCTTTTTTTTTTTAC
23888362 TTCTCGTTTCTTTATTTTTA-
1 TTCTC-TTT-TTT-TTTTTAC
23888382 TTCTC
1 TTCTC
23888387 AAATCAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.23
19 3 0.14
20 8 0.36
21 6 0.27
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (18 bp):
TTCTCTTTTTTTTTTTAC
Found at i:23890098 original size:25 final size:26
Alignment explanation
Indices: 23890068--23890122 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
23890058 AAATTATTAT
23890068 TTTTTATATATCTA-T-TTTAAAATTG
1 TTTTTATATAT-TATTGTTTAAAATTG
*
23890093 TTTTTATGTATTATTTGTTTAAAATTG
1 TTTTTATATATTA-TTGTTTAAAATTG
23890120 TTT
1 TTT
23890123 CTTTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 10 0.38
26 1 0.04
27 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (26 bp):
TTTTTATATATTATTGTTTAAAATTG
Found at i:23892120 original size:25 final size:25
Alignment explanation
Indices: 23892086--23892217 Score: 230
Period size: 25 Copynumber: 5.2 Consensus size: 25
23892076 TGATACAAAT
23892086 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
23892111 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
23892136 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
23892162 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
23892187 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
23892212 TGATAA
1 TGATAA
23892218 GAATTTCATG
Statistics
Matches: 104, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
24 13 0.12
25 67 0.64
26 24 0.23
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:23893743 original size:25 final size:25
Alignment explanation
Indices: 23893695--23893743 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
23893685 ACAGTTTTAC
23893695 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
23893720 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
23893744 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:23894233 original size:137 final size:137
Alignment explanation
Indices: 23893987--23894273 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
23893977 GAGTAGTCTC
23893987 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
23894052 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
23894117 ACTGTTA
131 ACTGTTA
23894124 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
23894189 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
23894254 ACTGTTA
131 ACTGTTA
**
23894261 CCTGAATGGGCTT
1 CCCAAATGGGCTT
23894274 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:23898039 original size:26 final size:26
Alignment explanation
Indices: 23898003--23898110 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
23897993 TGATACAAAT
*
23898003 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
23898029 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
23898055 TGATAAT-GGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
23898079 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
23898105 TGATAA
1 TGATAA
23898111 GAATTTCATG
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 11 0.14
25 26 0.33
26 42 0.53
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:23898093 original size:50 final size:52
Alignment explanation
Indices: 23898003--23898110 Score: 193
Period size: 50 Copynumber: 2.1 Consensus size: 52
23897993 TGATACAAAT
23898003 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTTCA
*
23898055 TGATAAT-GGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTTCA
23898105 TGATAA
1 TGATAA
23898111 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 33 0.60
51 15 0.27
52 7 0.13
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTTCA
Found at i:23899613 original size:26 final size:26
Alignment explanation
Indices: 23899584--23899636 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
23899574 TTTACAGTTT
23899584 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
23899610 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
23899636 T
1 T
23899637 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:23900166 original size:137 final size:137
Alignment explanation
Indices: 23899883--23900158 Score: 552
Period size: 137 Copynumber: 2.0 Consensus size: 137
23899873 GAGTAGTCTC
23899883 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
23899948 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
23900013 ACTGTTA
131 ACTGTTA
23900020 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
23900085 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
23900150 ACTGTTA
131 ACTGTTA
23900157 CC
1 CC
23900159 TGAATGGGAA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 139 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:23902651 original size:20 final size:22
Alignment explanation
Indices: 23902640--23902715 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
23902630 TATTTATTAT
*
23902640 TATATATATATATATGTGTGTA
1 TATATATATATATATGTATGTA
23902662 TATATATATATATGATGTA--TA
1 TATATATATATAT-ATGTATGTA
* *
23902683 TGATATGATATTTGTATGTATGT-
1 T-ATAT-ATATATATATGTATGTA
23902706 TATCATATAT
1 TAT-ATATAT
23902716 GTAATAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 3 0.07
22 28 0.62
23 13 0.29
24 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (22 bp):
TATATATATATATATGTATGTA
Found at i:23902701 original size:22 final size:20
Alignment explanation
Indices: 23902628--23902718 Score: 91
Period size: 20 Copynumber: 4.6 Consensus size: 20
23902618 ATTTGAAAAC
*
23902628 TATATTTAT-TAT-TATATA
1 TATATATATGTATGTATATA
*
23902646 TATATATATGTGTGTATATA
1 TATATATATGTATGTATATA
23902666 TATATATATG-ATGTATATGA
1 TATATATATGTATGTATAT-A
* *
23902686 TATGATATTTGTATGTATGT-
1 TAT-ATATATGTATGTATATA
23902706 TATCATATATGTA
1 TAT-ATATATGTA
23902719 ATAAACAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
18 8 0.13
19 9 0.15
20 31 0.51
21 6 0.10
22 7 0.11
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (20 bp):
TATATATATGTATGTATATA
Found at i:23902877 original size:30 final size:30
Alignment explanation
Indices: 23902793--23902877 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
23902783 ATAGTACATA
*
23902793 ATAT-TGTAATTAAATTAAATTAATTATTAT
1 ATATATGTAATTAAATTAAGTTAA-TATTAT
23902823 ATAATATG--ATTAAATTAAGTTAATATTAT
1 AT-ATATGTAATTAAATTAAGTTAATATTAT
23902852 ATATATGTAATTAAATTAAGTTAATA
1 ATATATGTAATTAAATTAAGTTAATA
23902878 GTAGAGCCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
28 5 0.10
29 8 0.16
30 33 0.66
31 2 0.04
32 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATATGTAATTAAATTAAGTTAATATTAT
Found at i:23903001 original size:2 final size:2
Alignment explanation
Indices: 23902978--23903025 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
23902968 TTCCTTACTT
*
23902978 TA TA T- TA TA T- TA TA TA -A AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23903017 TA TA TA TA T
1 TA TA TA TA T
23903026 TACAAGGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23905741 original size:22 final size:21
Alignment explanation
Indices: 23905711--23905757 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
23905701 TACAAATTAA
23905711 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
23905733 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
23905754 ATCT
1 ATCT
23905758 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:23905751 original size:16 final size:16
Alignment explanation
Indices: 23905730--23905780 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
23905720 ATTACAAGAT
23905730 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
23905746 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
23905765 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
23905781 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:23905763 original size:19 final size:21
Alignment explanation
Indices: 23905728--23905770 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
23905718 AGATTACAAG
23905728 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
23905749 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
23905768 ATC
1 ATC
23905771 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:23905910 original size:7 final size:7
Alignment explanation
Indices: 23905893--23905921 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23905883 TTGGACTTTG
23905893 TTTTA-T
1 TTTTATT
23905899 TTTTATT
1 TTTTATT
23905906 TTTTATT
1 TTTTATT
23905913 TTTTATT
1 TTTTATT
23905920 TT
1 TT
23905922 AGTTTAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:23925423 original size:26 final size:26
Alignment explanation
Indices: 23925387--23925496 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
23925377 TGATACAAAT
23925387 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23925413 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23925439 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23925465 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23925491 TGATAA
1 TGATAA
23925497 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:23930272 original size:9 final size:10
Alignment explanation
Indices: 23930258--23930327 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 10
23930248 TATCAAAAAC
23930258 TAATAATA-A
1 TAATAATATA
23930267 TAATAATATA
1 TAATAATATA
23930277 T-A-AATATA
1 TAATAATATA
*
23930285 TAAGTATATATGT
1 TAA-TA-ATAT-A
23930298 TAA-AGATATA
1 TAATA-ATATA
23930308 TAATAA-ATA
1 TAATAATATA
23930317 TTAATAATATA
1 -TAATAATATA
23930328 GAGGTAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
8 7 0.14
9 13 0.27
10 12 0.24
11 10 0.20
12 4 0.08
13 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (10 bp):
TAATAATATA
Found at i:23933938 original size:11 final size:11
Alignment explanation
Indices: 23933877--23933942 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 11
23933867 ATTAATATAT
23933877 TAATATATTTTA
1 TAATA-ATTTTA
23933889 TAACT--TTTTA
1 TAA-TAATTTTA
23933899 -AATAATTTT-
1 TAATAATTTTA
23933908 TACAT--TTTTA
1 TA-ATAATTTTA
23933918 T-ATAATTTTA
1 TAATAATTTTA
23933928 TAATAATTTTA
1 TAATAATTTTA
23933939 TAAT
1 TAAT
23933943 TTTTTGTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 19
0.70 0.00 0.30
Matches are distributed among these distances:
8 3 0.07
9 6 0.13
10 17 0.38
11 15 0.33
12 3 0.07
13 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TAATAATTTTA
Found at i:23934005 original size:10 final size:10
Alignment explanation
Indices: 23933884--23934017 Score: 75
Period size: 10 Copynumber: 13.4 Consensus size: 10
23933874 TATTAATATA
*
23933884 TTTTATAACT
1 TTTTATAATT
23933894 TTTTA-AATAAT
1 TTTTATAAT--T
*
23933905 TTTTA-CATT
1 TTTTATAATT
23933914 TTTATATAA--
1 TTT-TATAATT
*
23933923 TTTTATAATAA
1 TTTTATAAT-T
23933934 TTTTATAATT
1 TTTTATAATT
*
23933944 TTTTGTAA-T
1 TTTTATAATT
**
23933953 TTTTAT-CCT
1 TTTTATAATT
23933962 TTTTATAATT
1 TTTTATAATT
23933972 TTTTAT-ATGT
1 TTTTATAAT-T
* *
23933982 TTATATAATA
1 TTTTATAATT
*
23933992 TTTTACAATT
1 TTTTATAATT
23934002 TTTTATGACATT
1 TTTTAT-A-ATT
23934014 TTTT
1 TTTT
23934018 TTATACAAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
8 5 0.05
9 24 0.25
10 39 0.41
11 21 0.22
12 7 0.07
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:23934005 original size:30 final size:27
Alignment explanation
Indices: 23933900--23934007 Score: 92
Period size: 30 Copynumber: 3.8 Consensus size: 27
23933890 AACTTTTTAA
*
23933900 ATAATTTTTAC-ATTTTTATATAATTTT
1 ATAATTTTTACAATTTTT-TATATTTTT
* *
23933927 ATAATAATTTTATAATTTTTTGTAATTTTT
1 ATAAT--TTTTACAATTTTTTAT-ATTTTT
** *
23933957 ATCCTTTTTATAATTTTTTATATGTTTAT
1 ATAATTTTTACAATTTTTTATAT-TTT-T
23933986 ATAATATTTTACAATTTTTTAT
1 ATAAT-TTTTACAATTTTTTAT
23934008 GACATTTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
27 7 0.11
28 18 0.28
29 11 0.17
30 29 0.45
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (27 bp):
ATAATTTTTACAATTTTTTATATTTTT
Found at i:23935715 original size:14 final size:15
Alignment explanation
Indices: 23935698--23935726 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23935688 GAGTATGGTA
23935698 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
23935712 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
23935727 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:23937512 original size:118 final size:114
Alignment explanation
Indices: 23937166--23937514 Score: 384
Period size: 111 Copynumber: 3.0 Consensus size: 114
23937156 TAATTAAGAA
* * * *
23937166 TTTCTTTGCACTTCTCAGCAACAGTTGGCTGTTGCTATTCATTTGTTGTTTTTCTGGCAACTAAT
1 TTTC-TTGCACTTCTCTGCAACTGCT-GCTGTTGCTATTCATTTGTTGTTTTTC-GGCAACT-GT
* * * * * * *
23937231 GGTTGCTGCTATTTTGCTATTCAATTGCTAGTTGCTGTTATTCAATTGCTGTT
62 TGCTGCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
* * * * * **
23937284 TTTCTTGGCACTTCACTGCAACTACTGACTGCTACAATTCATTTGTTGTTTTTC--C-A--GTAA
1 TTTCTT-GCACTTCTCTGCAACTGCTG-CTGTTGCTATTCATTTGTTGTTTTTCGGCAACTGTTG
*
23937344 CTGCTGCTATTTTTCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
64 CTGCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
23937395 TTTCTTGACACTTCTCTGCAACTGCTAGCTGTTGCTATTCATTTGTTGTTTTTCGGGCAACTGTT
1 TTTCTTG-CACTTCTCTGCAACTGCT-GCTGTTGCTATTCATTTGTTGTTTTTC-GGCAACTGTT
* *
23937460 GCTAGCTGCTATTTTGCTATTCAATTGTTGGCTACTACTATTCAATTGTTGTT
63 GCT-GCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
23937513 TT
1 TT
23937515 AAGATAAGTT
Statistics
Matches: 192, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
110 1 0.01
111 90 0.47
112 1 0.01
114 2 0.01
115 2 0.01
117 7 0.04
118 89 0.46
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (114 bp):
TTTCTTGCACTTCTCTGCAACTGCTGCTGTTGCTATTCATTTGTTGTTTTTCGGCAACTGTTGCT
GCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
Found at i:23944278 original size:20 final size:18
Alignment explanation
Indices: 23944238--23944287 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
23944228 TATCTTGGGC
23944238 TATTTATTGTTTTGTTTTT
1 TATTT-TTGTTTTGTTTTT
*
23944257 TATTTTTGTTTTTTTATCTT
1 TATTTTTGTTTTGTT-T-TT
*
23944277 TATTTTGGTTT
1 TATTTTTGTTT
23944288 ATAATGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 9 0.33
19 6 0.22
20 12 0.44
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (18 bp):
TATTTTTGTTTTGTTTTT
Found at i:23951718 original size:18 final size:17
Alignment explanation
Indices: 23951688--23951739 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
23951678 TTGAGACCTT
* *
23951688 AAAAAAATCAAAATAAA
1 AAAAAAATAAAAAGAAA
23951705 AAAAGAAATAAAAAGAAA
1 AAAA-AAATAAAAAGAAA
*
23951723 AAAATCAA-AAAAAGAAA
1 AAAA-AAATAAAAAGAAA
23951740 GAAAGAATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAAAAATAAAAAGAAA
Found at i:23952861 original size:64 final size:61
Alignment explanation
Indices: 23952760--23952930 Score: 245
Period size: 64 Copynumber: 2.8 Consensus size: 61
23952750 AATAAATCAC
*
23952760 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAA-C-T
* * *
23952823 AACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCACT
1 -ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAACT
* * *
23952885 -CATTTAGTTAGGAGCATTGGATTCATTTCAATCATAGCATCCTAAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAAT
23952931 CATTGGGCAT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
60 41 0.42
62 1 0.01
63 1 0.01
64 55 0.56
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (61 bp):
ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAACT
Found at i:23953390 original size:44 final size:46
Alignment explanation
Indices: 23953307--23953402 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 46
23953297 AGCCACTAGC
** ** *
23953307 CTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAG-T
1 CTTATCTTCTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGAT
23953351 CTTATCTTC-CTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCTCTGAGGTAGCAAGAG-AGCAGACTGAAGATTGAAGAT
23953396 CTTATCT
1 CTTATCT
23953403 CCCTAAGCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 1 0.02
44 33 0.75
45 10 0.23
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (46 bp):
CTTATCTTCTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGAT
Found at i:23953602 original size:177 final size:176
Alignment explanation
Indices: 23953214--23953582 Score: 392
Period size: 177 Copynumber: 2.1 Consensus size: 176
23953204 CTGAAGATTA
* * **
23953214 AAGATCTTATCTCCCTAGGCAGTTACGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATC
1 AAGATCTTATCTCCATAAGCAGCAACGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATC
* * * *
23953279 GGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGA
66 GGCAATGGAGCAGATTTAAGCCACTAGACTTATCTCCCTGAAGTAGCAAGAGAGCAAGTTGGCGA
* * ** **
23953344 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
131 TAG-AGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACCAAAGACGG
* * * *
23953391 AAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATC
1 AAGATCTTATCTCCATAAGCAGCAACGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATC
* * *
23953456 GGCAATGGAGCAGATTTTA-CCACT-GAACTTATCTCCCTGAAGTTGC-AGTGGAGCAAGTTGAA
66 GGCAATGGAGCAGATTTAAGCCACTAG-ACTTATCTCCCTGAAGTAGCAAG-AGAGCAAGTTG--
* * * *
23953518 GTGATAG-GTCTTAT-TTCCTTGAAGTTG-TAGTAGAGCAGACCAAAGACGG
127 GCGATAGAGTCTTATCTTCC-TGAAGTAGCAAGGA-AGCAGACCAAAGACGG
23953567 CAA-ATCTTATCTCCAT
1 -AAGATCTTATCTCCAT
23953583 GTATCGGCAA
Statistics
Matches: 163, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
175 10 0.06
176 67 0.41
177 81 0.50
178 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (176 bp):
AAGATCTTATCTCCATAAGCAGCAACGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATC
GGCAATGGAGCAGATTTAAGCCACTAGACTTATCTCCCTGAAGTAGCAAGAGAGCAAGTTGGCGA
TAGAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACCAAAGACGG
Found at i:23953719 original size:176 final size:176
Alignment explanation
Indices: 23953526--23954304 Score: 950
Period size: 176 Copynumber: 4.4 Consensus size: 176
23953516 AAGTGATAGG
* * * * * * **
23953526 TCTTATTTCCTTGAAGTTGTAGTAGAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGC
* * * * *
23953591 AATGGAGCAGATTTTGCCGCCAACCTTATCTCTTTGAGGTATCAAGAGAGCAGGTTGAAGAATGA
66 AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
23953656 GTCTTATCTTTCT-AGGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
131 GTCTTATCTTTCTGA-GGTAGCAAAAAAGCAGACTGAAAATTGAAGA
* * * *
23953702 TCTTATCTCCATGAAGTTGCAGCGGAACAGATCGAAGACT-GTGAATCTTATCTCCATGTATCGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGA-TGGTGAATCTTATCTCCATGTATCGG
23953766 CAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG
65 CAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG
* *
23953831 AGTCTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
130 AGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
* *
23953878 TCTTATCTCCCTGAAGTTGCA-TCGGAGCAGATCAAAGATGGTGAATCTTATCTCTATGTATTGG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGG
* * * * * *
23953942 AAATGGAGCAGATTTT---ACTAGTCTTATCTCCCTGAGGTAGCAAGAGAGCAGGTTAAAGATTG
65 CAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG
* * *
23954004 AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGGAGATTGAAGA
130 AGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
* * ** * * * *
23954051 TCTTATTTCCC-CAAGCAGTAGTGGAGCAGATCGAATATGGTGAATCTTATCTCTATGTATCGGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGC
*
23954115 AATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG--GCAATT
66 AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG-AA-T
* * * *
23954178 GTAGTCTTATCTTCCTGATGTAGCAAAGAAGCAGACTGAAGATTGAAGA
129 G-AGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
** * * * * * * *
23954227 TCTTATCTCCCT-AAGCAG-ATGTAGAGAAAATTAAGGATGGCGAATCTTATCTCCATGTATTGG
1 TCTTATCTCCCTGAAGTTGCA-GTGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGG
23954290 CAATGGAGCAGATTT
65 CAATGGAGCAGATTT
23954305 AAGTCACCAT
Statistics
Matches: 528, Mismatches: 62, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
172 58 0.11
173 97 0.18
174 1 0.00
175 40 0.08
176 332 0.63
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (176 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGC
AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
GTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
Found at i:23953797 original size:308 final size:309
Alignment explanation
Indices: 23953241--23953803 Score: 830
Period size: 308 Copynumber: 1.8 Consensus size: 309
23953231 GGCAGTTACG
* * * * * *
23953241 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAG
1 GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
** *
23953306 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCA
66 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGCA
** * * * *
23953371 AGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGT
131 AAAAAGCAGACTGAAAATTGAAGATCTTATCTCCATAAGCAGCAGCGGAACAGATCGAAGATGGT
*
23953436 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGAACTTATCTCCCTGAAGTTG
196 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACAGAACTTATCTCCCTGAAGTTG
23953501 CAGTGGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTGAAGTTGTAGTA
261 CAGTGGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTGAAGTTGTAGTA
* *
23953550 GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT-TGCCGCCAA
1 GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
* * *
23953614 CCTTATCTCTTTGAGGTATCAAGAGAGCAGGTTGAAGAATG-AGTCTTATCTTTCT-AGGGTAGC
66 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGA-GGTAGC
**
23953677 AAAAAAGCAGACTGAAAATTGAAGATCTTATCTCCATGAAGTTGCAGCGGAACAGATCGAAGACT
130 AAAAAAGCAGACTGAAAATTGAAGATCTTATCTCCAT-AAGCAGCAGCGGAACAGATCGAAGA-T
* *
23953742 -GTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAG-CCTTATCTCTCTGA
193 GGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCA-CAGAACTTATCTCCCTGA
23953804 GGTAGCAAGA
Statistics
Matches: 225, Mismatches: 25, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
306 1 0.00
307 52 0.23
308 118 0.52
309 54 0.24
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (309 bp):
GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGCA
AAAAAGCAGACTGAAAATTGAAGATCTTATCTCCATAAGCAGCAGCGGAACAGATCGAAGATGGT
GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACAGAACTTATCTCCCTGAAGTTG
CAGTGGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTGAAGTTGTAGTA
Found at i:23953838 original size:43 final size:43
Alignment explanation
Indices: 23953791--23954036 Score: 137
Period size: 43 Copynumber: 5.7 Consensus size: 43
23953781 TACCACCAGC
* *
23953791 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGAATGAGT
* * * * *
23953834 CTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAA-ATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGA-TTAAAGAATG-AG-T
* * * * * * *
23953879 CTTATCTCCCTGAAGTTGCATCG-GAGCAGATCAAAGATGGTGAAT
1 CTTATCTCTCTGAGGTAGCA-AGAGAGCAGATTAAAGA--ATGAGT
* * * * ** *
23953924 CTTATCTCTATGTA-TTGGAAATG-GAGCAGATT--TTACT-AGT
1 CTTATCTCTCTG-AGGTAGCAA-GAGAGCAGATTAAAGAATGAGT
* * *
23953964 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGTTAAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGAATGAGT
* *
23954007 CTTATCTTTCTGAGGTAGCAAGAAAGCAGA
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGA
23954037 CTGGAGATTG
Statistics
Matches: 148, Mismatches: 41, Indels: 28
0.68 0.19 0.13
Matches are distributed among these distances:
39 2 0.01
40 24 0.16
41 1 0.01
42 2 0.01
43 59 0.40
44 9 0.06
45 46 0.31
46 3 0.02
47 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGAATGAGT
Found at i:23954045 original size:43 final size:44
Alignment explanation
Indices: 23953961--23954061 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 44
23953951 AGATTTTACT
* **
23953961 AGTCTTATCTCCCTGAGGTAGCAAGAGAGCAGGTTAAAGATTG-
1 AGTCTTATCTCCCTGAGGTAGCAAGAAAGCAGACTAAAGATTGA
** **
23954004 AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGGAGATTGA
1 AGTCTTATCTCCCTGAGGTAGCAAGAAAGCAGACTAAAGATTGA
*
23954048 AGATCTTATTTCCC
1 AG-TCTTATCTCCC
23954062 CAAGCAGTAG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
43 36 0.78
44 2 0.04
45 8 0.17
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAGGTAGCAAGAAAGCAGACTAAAGATTGA
Found at i:23956741 original size:26 final size:27
Alignment explanation
Indices: 23956712--23956772 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
23956702 AGGTATTTCG
* *
23956712 GTAATTTTGC-ACCTAGGGGTATAATA
1 GTAATTTTCCAACATAGGGGTATAATA
*
23956738 GTAATTTTCCATACATAGGGGTATTATA
1 GTAATTTTCCA-ACATAGGGGTATAATA
23956766 GTAATTT
1 GTAATTT
23956773 AGCAGCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 9 0.30
28 21 0.70
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GTAATTTTCCAACATAGGGGTATAATA
Found at i:23958254 original size:26 final size:26
Alignment explanation
Indices: 23958218--23958353 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
23958208 CATGAAATTC
* *
23958218 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
23958244 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
23958270 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
23958296 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
23958322 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
23958348 TTATCA
1 TTATCA
23958354 ATTTGTATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:23961061 original size:19 final size:18
Alignment explanation
Indices: 23961033--23961093 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
23961023 TGGAAGCTTT
*
23961033 TAAAACCGTTATATTTTAA
1 TAAAAACGTT-TATTTTAA
* *
23961052 TAAAATCGTTTACTTTTAG
1 TAAAAACGTTTA-TTTTAA
*
23961071 GAAAAACGTTGTA-TTTAA
1 TAAAAACGTT-TATTTTAA
23961089 TAAAA
1 TAAAA
23961094 CCGAGTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 10 0.29
19 22 0.65
20 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (18 bp):
TAAAAACGTTTATTTTAA
Found at i:23962017 original size:17 final size:18
Alignment explanation
Indices: 23961984--23962023 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
23961974 CCATGTCGCT
*
23961984 TGCCTGTGTGAGCCCACA
1 TGCCCGTGTGAGCCCACA
23962002 TGCCCGTGTG-GCCCACA
1 TGCCCGTGTGAGCCCACA
*
23962019 CGCCC
1 TGCCC
23962024 CAATTGGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.12, C:0.42, G:0.28, T:0.17
Consensus pattern (18 bp):
TGCCCGTGTGAGCCCACA
Found at i:23962087 original size:70 final size:71
Alignment explanation
Indices: 23961996--23962153 Score: 282
Period size: 70 Copynumber: 2.2 Consensus size: 71
23961986 CCTGTGTGAG
*
23961996 CCCACATGCCCGTGTGGCCCACACGCCCCAATTGGCCTTGGCCCGTATAGATCACACGGTCTGGC
1 CCCACATGCCCGTGTGGCCCACACACCCCAATTGGCCTTGGCCCGTATAGATCACACGGTCTGGC
23962061 TCAAAC
66 TCAAAC
* *
23962067 CCCACACG-CCGTGTGGCCCACACACCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGC
1 CCCACATGCCCGTGTGGCCCACACACCCCAATTGGCCTTGGCCCGTATAGATCACACGGTCTGGC
23962131 TCAAAC
66 TCAAAC
23962137 CCCACATGCCCGTGTGG
1 CCCACATGCCCGTGTGG
23962154 ACTACCCGTT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 67 0.82
71 15 0.18
ACGTcount: A:0.19, C:0.40, G:0.23, T:0.18
Consensus pattern (71 bp):
CCCACATGCCCGTGTGGCCCACACACCCCAATTGGCCTTGGCCCGTATAGATCACACGGTCTGGC
TCAAAC
Found at i:23965956 original size:26 final size:26
Alignment explanation
Indices: 23965919--23966054 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
23965909 TGATACAAAT
* *
23965919 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23965945 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
23965971 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23965997 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23966023 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23966049 TGATAA
1 TGATAA
23966055 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:23971791 original size:26 final size:26
Alignment explanation
Indices: 23971754--23971889 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
23971744 TGATACAAAT
* *
23971754 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23971780 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
23971806 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23971832 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23971858 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23971884 TGATAA
1 TGATAA
23971890 GAATTCATGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:23973701 original size:18 final size:17
Alignment explanation
Indices: 23973678--23973711 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23973668 CCCCAAATGG
23973678 GTTGCATATGTTATTGAT
1 GTTGCATATGTT-TTGAT
*
23973696 GTTGCATGTGTTTTGA
1 GTTGCATATGTTTTGA
23973712 AATGGGCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.06, G:0.26, T:0.50
Consensus pattern (17 bp):
GTTGCATATGTTTTGAT
Found at i:23976604 original size:51 final size:51
Alignment explanation
Indices: 23976528--23976641 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
23976518 TAGCCGGGTT
*
23976528 GCACGCCCGTGTCCTACTTCGTTCACTTCTCCCATGCCTGTGTATCTGTGC
1 GCACGCCCGTGTCCTACTTCGTTCACTTCTCCCATGCCTGTGTATATGTGC
23976579 GCACGCCCGTGTCCTACTTCGTTCACTTCTCCCATGCCTGTGTATATGTGC
1 GCACGCCCGTGTCCTACTTCGTTCACTTCTCCCATGCCTGTGTATATGTGC
23976630 GCACGCCCGTGT
1 GCACGCCCGTGT
23976642 TAATTTGACA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.11, C:0.37, G:0.21, T:0.32
Consensus pattern (51 bp):
GCACGCCCGTGTCCTACTTCGTTCACTTCTCCCATGCCTGTGTATATGTGC
Found at i:23980527 original size:14 final size:14
Alignment explanation
Indices: 23980517--23980549 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23980507 CTGGAATATT
23980517 AAAACA-AGAATTA
1 AAAACACAGAATTA
23980530 AAAACACAGAATTA
1 AAAACACAGAATTA
*
23980544 AGAACA
1 AAAACA
23980550 AATCAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAACACAGAATTA
Found at i:23982840 original size:6 final size:6
Alignment explanation
Indices: 23982829--23982858 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
23982819 TAGCTATAAT
23982829 TAATTA TAATTA TAATTA TAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA
23982859 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:23990809 original size:20 final size:20
Alignment explanation
Indices: 23990784--23990821 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23990774 CCAATGTGGT
* *
23990784 CCACACAGCCTCACACATAC
1 CCACACAACATCACACATAC
23990804 CCACACAACATCACACAT
1 CCACACAACATCACACAT
23990822 GCCTGTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.47, G:0.03, T:0.11
Consensus pattern (20 bp):
CCACACAACATCACACATAC
Found at i:23992461 original size:38 final size:38
Alignment explanation
Indices: 23992402--23992564 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
23992392 TCAATCATGC
*
23992402 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
23992441 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
23992479 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
23992510 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
23992548 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
23992565 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 68 0.60
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:23992467 original size:31 final size:31
Alignment explanation
Indices: 23992425--23992538 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
23992415 CCTTTTCATA
23992425 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
23992462 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
23992494 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
23992525 TTTCATGTTTCATA
1 TTTCATATTTCATA
23992539 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:23992536 original size:69 final size:69
Alignment explanation
Indices: 23992425--23992564 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
23992415 CCTTTTCATA
23992425 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
23992490 GCCT
66 GCCT
*
23992494 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
23992559 GCCT
66 GCCT
23992563 TT
1 TT
23992565 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:23992802 original size:24 final size:24
Alignment explanation
Indices: 23992756--23992850 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
23992746 GCTTTATCAT
*
23992756 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
23992781 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
23992805 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
23992828 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
23992851 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:23992835 original size:47 final size:49
Alignment explanation
Indices: 23992756--23992849 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
23992746 GCTTTATCAT
*
23992756 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
23992805 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
23992850 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:23992926 original size:20 final size:20
Alignment explanation
Indices: 23992901--23992960 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
23992891 TATGATTACC
23992901 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
23992921 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
23992941 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
23992961 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:24000631 original size:32 final size:32
Alignment explanation
Indices: 24000544--24000639 Score: 162
Period size: 31 Copynumber: 3.1 Consensus size: 32
24000534 CCTTTTCATA
24000544 TTTCATATTTCATA-ATACTGGGCCGAAGCCT
1 TTTCATATTTCATATATACTGGGCCGAAGCCT
24000575 TTTCATATTTCATAT-TACTGGGCCGAAGCCT
1 TTTCATATTTCATATATACTGGGCCGAAGCCT
24000606 TTTCAT-TTTCATATTATACTGGGCCGAAGCCT
1 TTTCATATTTCATA-TATACTGGGCCGAAGCCT
24000638 TT
1 TT
24000640 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
30 7 0.11
31 37 0.60
32 18 0.29
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (32 bp):
TTTCATATTTCATATATACTGGGCCGAAGCCT
Found at i:24000920 original size:47 final size:48
Alignment explanation
Indices: 24000831--24000923 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 48
24000821 GCTTTATCAT
*
24000831 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
24000879 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTT
24000924 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
46 12 0.29
47 18 0.43
48 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
Found at i:24000924 original size:23 final size:23
Alignment explanation
Indices: 24000830--24000924 Score: 122
Period size: 23 Copynumber: 4.0 Consensus size: 23
24000820 TGCTTTATCA
*
24000830 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
24000854 TAATAACTGGGGCA-AAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
24000877 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
24000901 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
24000924 T
1 T
24000925 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
23 39 0.61
24 17 0.27
25 8 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:24001000 original size:20 final size:20
Alignment explanation
Indices: 24000975--24001034 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
24000965 TATGATTACC
24000975 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
24000995 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
24001015 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
24001035 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:24001005 original size:11 final size:11
Alignment explanation
Indices: 24000975--24001029 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
24000965 TATGATTACC
24000975 TCATGTGCATA
1 TCATGTGCATA
*
24000986 TCA--TACATA
1 TCATGTGCATA
24000995 TCATGTGCATA
1 TCATGTGCATA
* *
24001006 TCA--TACATT
1 TCATGTGCATA
24001015 TCATGTGCATA
1 TCATGTGCATA
24001026 TCAT
1 TCAT
24001030 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:24001104 original size:25 final size:25
Alignment explanation
Indices: 24001076--24001123 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24001066 ATACATAAAC
* * *
24001076 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
24001101 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
24001124 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:24003414 original size:14 final size:14
Alignment explanation
Indices: 24003387--24003431 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
24003377 TTCTTTTAAA
24003387 ATTAATA-TATATAT
1 ATTAATATTA-ATAT
24003401 ATTAATATTAATAT
1 ATTAATATTAATAT
*
24003415 -TTAAAATTAA-AT
1 ATTAATATTAATAT
24003427 ATTAA
1 ATTAA
24003432 ACTTTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 2 0.07
13 13 0.46
14 11 0.39
15 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTAATATTAATAT
Found at i:24003427 original size:20 final size:21
Alignment explanation
Indices: 24003382--24003431 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
24003372 AATACTTCTT
*
24003382 TTAAA-ATTAATATATATATA
1 TTAAATATTAATATATATAAA
*
24003402 TT-AATATTAATATTTA-AAA
1 TTAAATATTAATATATATAAA
24003421 TTAAATATTAA
1 TTAAATATTAA
24003432 ACTTTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATATTAATATATATAAA
Found at i:24005479 original size:18 final size:18
Alignment explanation
Indices: 24005456--24005491 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24005446 ATTACTTAGC
24005456 CTTTAAGCTAGTCATTTT
1 CTTTAAGCTAGTCATTTT
24005474 CTTTAAGCTAGTCATTTT
1 CTTTAAGCTAGTCATTTT
24005492 GTCCATTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTTAAGCTAGTCATTTT
Found at i:24007040 original size:40 final size:40
Alignment explanation
Indices: 24006985--24007142 Score: 262
Period size: 40 Copynumber: 4.0 Consensus size: 40
24006975 GGAAAAAAAA
* *
24006985 TATAATCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
24007025 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
24007065 TATAATCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * *
24007105 TATAACTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
24007143 GTTACATCCG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:24007166 original size:80 final size:80
Alignment explanation
Indices: 24007000--24007168 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 80
24006990 TCGGGTTAAG
24007000 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* ** *
24007065 TATAATCGGGTTAAG
66 TATAATCGAGCCAAA
* * * * *
24007080 TCCCGAAGGCATTCGTGCGGGTTATTATAACTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
24007145 TA-CATCCGAGCCAAA
66 TATAAT-CGAGCCAAA
*
24007160 TTCCGAAGG
1 TCCCGAAGG
24007169 TATTTATGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 2 0.03
80 75 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
TATAATCGAGCCAAA
Found at i:24011222 original size:8 final size:8
Alignment explanation
Indices: 24011211--24011244 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
24011201 TGTTTTATTA
24011211 TATTATAT
1 TATTATAT
24011219 TATTAT-T
1 TATTATAT
*
24011226 TAATATAT
1 TATTATAT
24011234 TATTATAT
1 TATTATAT
24011242 TAT
1 TAT
24011245 ATACTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:24012290 original size:19 final size:19
Alignment explanation
Indices: 24012266--24012364 Score: 114
Period size: 19 Copynumber: 5.2 Consensus size: 19
24012256 AATCTTTAAG
*
24012266 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
24012285 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24012304 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
24012321 GATATG-ATATGATATGATAT
1 GATATGCA-ATCTTA-GATAT
24012341 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24012362 GAT
1 GAT
24012365 TTTGTAATCT
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
17 17 0.25
18 1 0.01
19 26 0.38
20 14 0.21
21 9 0.13
22 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24012304 original size:14 final size:15
Alignment explanation
Indices: 24012285--24012322 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
24012275 TCTTAGATGT
24012285 GATATG-CAATCTTA
1 GATATGACAATCTTA
24012299 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
24012316 GATATGA
1 GATATGA
24012323 TATGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:24012324 original size:5 final size:5
Alignment explanation
Indices: 24012316--24012346 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
24012306 TACAATCTTA
24012316 GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT G
24012347 CAATCTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:24018497 original size:16 final size:18
Alignment explanation
Indices: 24018476--24018514 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
24018466 TCTAAGATAT
24018476 TACATAACATA-CAA-AA
1 TACATAACATAGCAATAA
24018492 TACATAACATAGCAATAA
1 TACATAACATAGCAATAA
24018510 TACAT
1 TACAT
24018515 TAATTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.23
Consensus pattern (18 bp):
TACATAACATAGCAATAA
Found at i:24019072 original size:22 final size:22
Alignment explanation
Indices: 24019009--24019072 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 22
24018999 TAATATAAAA
24019009 TAAT-TATAATATAT-AAT-AT
1 TAATGTATAATATATAAATAAT
* * *
24019028 GAAAGTAT-ATATGTAAA-AA-
1 TAATGTATAATATATAAATAAT
24019047 TAATGTATAATATATAAATAAT
1 TAATGTATAATATATAAATAAT
24019069 TAAT
1 TAAT
24019073 AAAGATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
19 13 0.39
20 14 0.42
21 2 0.06
22 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
TAATGTATAATATATAAATAAT
Found at i:24019082 original size:19 final size:18
Alignment explanation
Indices: 24019058--24019106 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
24019048 AATGTATAAT
24019058 ATATAAATAATTAATAAAG
1 ATATAAATAATTAA-AAAG
* * *
24019077 ATATAATACAAGTAAAAAT
1 ATATAA-ATAATTAAAAAG
24019096 ATATAAATAAT
1 ATATAAATAAT
24019107 AATGTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATAAATAATTAAAAAG
Found at i:24019102 original size:38 final size:36
Alignment explanation
Indices: 24019055--24019160 Score: 117
Period size: 38 Copynumber: 2.8 Consensus size: 36
24019045 AATAATGTAT
24019055 AATATATAAATAATTAATAAAGAT-ATAATACAAGTAAA
1 AATATATAAATAA-TAATAAA-ATAATAATA-AAGTAAA
**
24019093 AATATATAAATAATAATGTAAAATAATAATAATTTAAA
1 AATATATAAATAATAA--TAAAATAATAATAAAGTAAA
24019131 AATATAT-AATAAATAATAATAATAATAATA
1 AATATATAAAT-AATAATAA-AATAATAATA
24019161 TGAAATAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
36 3 0.05
37 16 0.26
38 32 0.52
39 10 0.16
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
AATATATAAATAATAATAAAATAATAATAAAGTAAA
Found at i:24019122 original size:16 final size:16
Alignment explanation
Indices: 24019101--24019170 Score: 79
Period size: 16 Copynumber: 4.2 Consensus size: 16
24019091 AAAATATATA
*
24019101 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
*
24019117 AATAATAATTTAAAAAT
1 AATAATAATAT-AAAAT
24019134 ATATAATAA-ATAATAAT
1 A-ATAATAATATAA-AAT
*
24019151 AATAATAATATGAAAT
1 AATAATAATATAAAAT
24019167 AATA
1 AATA
24019171 TATGGTTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 26 0.55
17 14 0.30
18 7 0.15
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:24019140 original size:34 final size:36
Alignment explanation
Indices: 24019092--24019173 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 36
24019082 ATACAAGTAA
* * *
24019092 AAATATATAAATAATAATGTAA-AATAATAATAAT-TT
1 AAATA-ATATATAATAA-ATAATAATAATAATAATATG
24019128 AAA-AATATATAATAAATAATAATAATAATAATATG
1 AAATAATATATAATAAATAATAATAATAATAATATG
24019163 AAATAATATAT
1 AAATAATATAT
24019174 GGTTAATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 3 0.08
34 22 0.55
35 5 0.12
36 10 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (36 bp):
AAATAATATATAATAAATAATAATAATAATAATATG
Found at i:24019170 original size:3 final size:3
Alignment explanation
Indices: 24019101--24019160 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
24019091 AAAATATATA
* * *
24019101 AAT AAT AAT -GT AA- AAT AAT AAT AAT -TT AAA AAT ATAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT -AAT
24019145 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
24019161 TGAAATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 6 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24019306 original size:20 final size:19
Alignment explanation
Indices: 24019278--24019319 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
24019268 AGGAAGATAT
24019278 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
24019297 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
24019317 TAA
1 TAA
24019320 TACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:24021171 original size:23 final size:20
Alignment explanation
Indices: 24021133--24021184 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 20
24021123 TGATAATAGA
24021133 AAAATATGAAGTAATAATATAAT
1 AAAATAT-AAGTAATAAT-T-AT
24021156 AAAATATAAGTAAATAATTAT
1 AAAATATAAGT-AATAATTAT
24021177 AAAATATA
1 AAAATATA
24021185 TATAATACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.36
22 5 0.18
23 13 0.46
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
AAAATATAAGTAATAATTAT
Found at i:24021185 original size:23 final size:20
Alignment explanation
Indices: 24021125--24021186 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 20
24021115 TATTAATATG
*
24021125 ATAATAGAAAAATATGAAGTA
1 ATAATATAAAAATAT-AAGTA
24021146 ATAATATAATAAAATATAAGTAA
1 ATAATAT-A-AAAATATAAGT-A
24021169 ATAATTATAAAATATATA
1 ATAA-TATAAAA-ATATA
24021187 TAATACGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 6 0.17
22 8 0.23
23 18 0.51
24 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
ATAATATAAAAATATAAGTA
Found at i:24023012 original size:31 final size:30
Alignment explanation
Indices: 24022971--24023029 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
24022961 CTTCTATTTC
*
24022971 AAAAAAAAAAAAGAAAAAGAGAAAAAAATA
1 AAAAAAAAAAAAGAAAAAGAAAAAAAAATA
*
24023001 AAAAAATAAAAAGGAAAAAGAAAAAAAAA
1 AAAAAA-AAAAAAGAAAAAGAAAAAAAAA
24023030 AAGAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.03
Consensus pattern (30 bp):
AAAAAAAAAAAAGAAAAAGAAAAAAAAATA
Found at i:24023038 original size:8 final size:8
Alignment explanation
Indices: 24022971--24023039 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
24022961 CTTCTATTTC
24022971 AAAAA-AA
1 AAAAAGAA
24022978 AAAAAGAA
1 AAAAAGAA
*
24022986 AAAGAGAA
1 AAAAAGAA
*
24022994 AAAAATAA
1 AAAAAGAA
*
24023002 AAAAATAA
1 AAAAAGAA
24023010 AAAGGAA-AA
1 AAA--AAGAA
24023019 AGAAAA-AA
1 A-AAAAGAA
24023027 AAAAAGAGA
1 AAAAAGA-A
24023036 AAAA
1 AAAA
24023040 TGGAGAGGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
7 9 0.17
8 32 0.60
9 8 0.15
10 4 0.08
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:24023039 original size:1 final size:1
Alignment explanation
Indices: 24022971--24023031 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
24022961 CTTCTATTTC
* * * * * ** *
24022971 AAAAAAAAAAAAGAAAAAGAGAAAAAAATAAAAAAATAAAAAGGAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24023032 GAGAAAAATG
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (1 bp):
A
Done.