Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 39 of 259
Found at i:11748975 original size:15 final size:15
Alignment explanation
Indices: 11748955--11748984 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11748945 CTCTCGGGCC
11748955 ACTAACCCAATTTTT
1 ACTAACCCAATTTTT
11748970 ACTAACCCAATTTTT
1 ACTAACCCAATTTTT
11748985 GTGACGTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
ACTAACCCAATTTTT
Found at i:11753985 original size:14 final size:14
Alignment explanation
Indices: 11753966--11754010 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
11753956 ACAAAAGGGG
11753966 AAAAAAGA-AAAGA
1 AAAAAAGAGAAAGA
11753979 AAGAAAAGAGAAAGA
1 AA-AAAAGAGAAAGA
*
11753994 AAAAAAG-GAAGGA
1 AAAAAAGAGAAAGA
11754007 AAAA
1 AAAA
11754011 CAAAAAGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 11 0.38
14 11 0.38
15 7 0.24
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAAAGAGAAAGA
Found at i:11753985 original size:15 final size:15
Alignment explanation
Indices: 11753966--11753999 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11753956 ACAAAAGGGG
11753966 AAAAAAGA-AAAGAA
1 AAAAAAGAGAAAGAA
*
11753980 AGAAAAGAGAAAGAA
1 AAAAAAGAGAAAGAA
11753995 AAAAA
1 AAAAA
11754000 GGAAGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAGAGAAAGAA
Found at i:11753990 original size:16 final size:15
Alignment explanation
Indices: 11753968--11754000 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11753958 AAAAGGGGAA
11753968 AAAAGA-AAAGAAAG
1 AAAAGAGAAAGAAAG
11753982 AAAAGAGAAAGAAA-
1 AAAAGAGAAAGAAAG
11753996 AAAAG
1 AAAAG
11754001 GAAGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAGAGAAAGAAAG
Found at i:11753999 original size:23 final size:24
Alignment explanation
Indices: 11753965--11754009 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11753955 AACAAAAGGG
11753965 GAAAAAAGAAAA-GAAAGAAAAGA
1 GAAAAAAGAAAAGGAAAGAAAAGA
*
11753988 GAAAGAAA-AAAAGGAAGGAAAA
1 GAAA-AAAGAAAAGGAAAGAAAA
11754010 ACAAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (24 bp):
GAAAAAAGAAAAGGAAAGAAAAGA
Found at i:11777648 original size:19 final size:19
Alignment explanation
Indices: 11777606--11777666 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
11777596 TATATCATAT
11777606 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
11777624 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
11777642 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
11777661 CATATC
1 CATATC
11777667 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:11777823 original size:20 final size:21
Alignment explanation
Indices: 11777786--11777824 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11777776 CTTGGACTTC
**
11777786 ATTTTTTTTGGGGTTTATTAT
1 ATTTTTTTTGGGACTTATTAT
11777807 ATTTTTTTT-GGACTTATT
1 ATTTTTTTTGGGACTTATT
11777825 TCTTGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (21 bp):
ATTTTTTTTGGGACTTATTAT
Found at i:11778222 original size:87 final size:87
Alignment explanation
Indices: 11778053--11778222 Score: 200
Period size: 87 Copynumber: 2.0 Consensus size: 87
11778043 TTTTGACAAT
*
11778053 ACAAAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAAGCCAAATCTGCTGTGT
1 ACAAAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAAGCCAAATCTGCTATGT
* * *
11778118 CTTCGATTTTCTCCTTGTGAAC
66 CTTCAATCTGCTCCTTGTGAAC
* * * * * *
11778140 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA-AAATCATC-TGAAGGTCAGATCTGCTAT
1 ACAAAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAA-CA-CGTGAAAGCCAAATCTGCTAT
* *
11778203 GTCTTTAATCTGCTTCTTGT
64 GTCTTCAATCTGCTCCTTGT
11778223 AAACTTATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
86 3 0.04
87 65 0.94
88 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (87 bp):
ACAAAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAAGCCAAATCTGCTATGT
CTTCAATCTGCTCCTTGTGAAC
Found at i:11778728 original size:205 final size:205
Alignment explanation
Indices: 11778296--11779044 Score: 1204
Period size: 205 Copynumber: 3.7 Consensus size: 205
11778286 CTGTTTCTTT
*
11778296 GATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
* *
11778361 AAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCAGAAGGATACC-AACCATCTTGGAT
66 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
* * * *
11778425 CTGTTTCAG--T---CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCAAAATCGAGAT
131 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
11778485 GCCAAACTTC
196 GCCAAACTTC
* **
11778495 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACATGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
* * * * *
11778560 AAGCTAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTTGAT
66 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
* * *
11778625 CTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTACTCTCCGTCGAAATGGAGAT
131 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
* *
11778690 GGCAGACTTC
196 GCCAAACTTC
* * *
11778700 GATTTGTTCTCTGACAATACAGAGATGCCAAATCAACTTAGATTTGCTTCATCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
*
11778765 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
66 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
11778830 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
131 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
*
11778895 GCCATACTTC
196 GCCAAACTTC
11778905 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
* *
11778970 AAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
66 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
11779035 CTTGCTTCAG
131 C-TGCTTCAG
11779045 CCAGATCTGC
Statistics
Matches: 506, Mismatches: 37, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
199 106 0.21
200 19 0.04
202 1 0.00
205 372 0.74
206 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
GCCAAACTTC
Found at i:11782156 original size:14 final size:14
Alignment explanation
Indices: 11782137--11782164 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11782127 CGTGACCCTC
11782137 TTCTTTCTCTTTTT
1 TTCTTTCTCTTTTT
11782151 TTCTTTCTCTTTTT
1 TTCTTTCTCTTTTT
11782165 AATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCTTTCTCTTTTT
Found at i:11784019 original size:20 final size:20
Alignment explanation
Indices: 11783994--11784039 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11783984 ATTGGGCCTT
11783994 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
11784014 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
11784033 GCCCATA
1 GCCCATA
11784040 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:11784665 original size:8 final size:8
Alignment explanation
Indices: 11784652--11784689 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
11784642 ACAAATGCCT
11784652 GCTTTTCG
1 GCTTTTCG
11784660 GCTTTTCG
1 GCTTTTCG
* *
11784668 ACTTTTTG
1 GCTTTTCG
11784676 GCTTTTCG
1 GCTTTTCG
11784684 GCTTTT
1 GCTTTT
11784690 ACTGATCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.03, C:0.21, G:0.21, T:0.55
Consensus pattern (8 bp):
GCTTTTCG
Found at i:11786465 original size:15 final size:15
Alignment explanation
Indices: 11786428--11786456 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11786418 TTTTTCTATC
11786428 TAATAATAATAATTA
1 TAATAATAATAATTA
11786443 TAATAATAATAATT
1 TAATAATAATAATT
11786457 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:11796512 original size:40 final size:40
Alignment explanation
Indices: 11796468--11796609 Score: 130
Period size: 40 Copynumber: 3.5 Consensus size: 40
11796458 CAGATCAAGT
* *
11796468 ATTAGCGGTG-TTTTTCAAAAAGCGTCGCTGTAGATTGAGC
1 ATTAGCGGCGCTTTTTCAAAAAGCG-CGCTATAGATTGAGC
* * *
11796508 ATTAGCGGCGCTTTTTGAAAATTGC-CTCTATAGATTGAGC
1 ATTAGCGGCGCTTTTTCAAAA-AGCGCGCTATAGATTGAGC
* * * *
11796548 ATTAGTGGAGC-TTTTCAAAAAATGC-CGCTATAGATCGAGT
1 ATTAGCGGCGCTTTTTC-AAAAA-GCGCGCTATAGATTGAGC
*
11796588 ATTAGCGGCGCTTTTTTAAAAA
1 ATTAGCGGCGCTTTTTCAAAAA
11796610 AAGCCGCAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.05
40 63 0.77
41 13 0.16
42 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTTCAAAAAGCGCGCTATAGATTGAGC
Found at i:11796717 original size:40 final size:40
Alignment explanation
Indices: 11796662--11796798 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 40
11796652 AGCTTTAGTG
11796662 GCATTAGCGGCGCTTTTAGAAAAACA-CTGCTATAGATCGA
1 GCATTAGCGGCGCTTTTAGAAAAACATC-GCTATAGATCGA
* *
11796702 GCATTAGCGGTGCTTTTTGAAAAACATCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTAGAAAAACATCGCTATAGATCGA
* ** ** **
11796742 GCATTACCGGCATTTTTTA-AAAAACGCCGCTATAGGCCGA
1 GCATTAGCGGC-GCTTTTAGAAAAACATCGCTATAGATCGA
*
11796782 CCATTAGCGGCGCTTTT
1 GCATTAGCGGCGCTTTT
11796799 CACAAAACGC
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 4 0.05
40 71 0.89
41 5 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTAGAAAAACATCGCTATAGATCGA
Found at i:11796819 original size:196 final size:196
Alignment explanation
Indices: 11796493--11796932 Score: 535
Period size: 196 Copynumber: 2.2 Consensus size: 196
11796483 CAAAAAGCGT
* * *** * * **
11796493 CGCTGTAGATTGAGCATTAGCGGCGCTTTTTGAAAATTGCCTCTATAGATTGAGCATTAGTGGAG
1 CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTACCGGAG
* * ** *
11796558 CTTTTCAAAAAATGCCGCTATAGATCGAGTATTAGCGGCGCTTTTTTAAAAAAAGCCGCAAAAAA
66 CTTTTCAAAAAACGCCGCTATAGACCGACCATTAGCGGCGCTTTTTCAAAAAAAGCCGCAAAAAA
* * *
11796623 ATTAAGCACAACG-TCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTAGAAAAAC
131 ATTAAGCACAACGCT-GTCATTTTATGTTGAGCTTTAGTGGCATTAACAGCGCTTTTAGAAAAAC
11796687 AC
195 AC
* * *
11796689 TGCTATAGATCGAGCATTAGCGGTGCTTTTTGAAAAACATCGCTATAGATCGAGCATTACCGGCA
1 CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTACCGG-A
* * * * *
11796754 -TTTTTTAAAAAACGCCGCTATAGGCCGACCATTAGCGGCGC-TTTTCACAAAACGCCGCAAAAA
65 GCTTTTCAAAAAACGCCGCTATAGACCGACCATTAGCGGCGCTTTTTCAAAAAAAGCCGC-AAAA
* *
11796817 AAATTAAGCACAGCGCTGTCATTTTATGTTGAGCTTTAGTGGCATTAACAGCGCTTTTTGAAAAA
129 AAATTAAGCACAACGCTGTCATTTTATGTTGAGCTTTAGTGGCATTAACAGCGCTTTTAGAAAAA
**
11796882 TGC
194 CAC
*** *
11796885 CGCTATAGATCGAGCATTAGCGGCGCTTTGAAAAAAACGCCGCTATAG
1 CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAG
11796933 GCCAATCATT
Statistics
Matches: 205, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
195 14 0.07
196 189 0.92
197 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (196 bp):
CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTACCGGAG
CTTTTCAAAAAACGCCGCTATAGACCGACCATTAGCGGCGCTTTTTCAAAAAAAGCCGCAAAAAA
ATTAAGCACAACGCTGTCATTTTATGTTGAGCTTTAGTGGCATTAACAGCGCTTTTAGAAAAACA
C
Found at i:11796913 original size:40 final size:40
Alignment explanation
Indices: 11796858--11796965 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
11796848 AGCTTTAGTG
* * * * *
11796858 GCATTAACAGCGCTTTTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGACCAA
*** *
11796898 GCATTAGCGGCGCTTTGAAAAAAACGCCGCTATAGGCCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGACCAA
* *
11796938 TCATTAGCGGTGCTTTTTGAAAAACGCC
1 GCATTAGCGGCGCTTTTTGAAAAACGCC
11796966 ACAGAAAAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGACCAA
Found at i:11797048 original size:155 final size:156
Alignment explanation
Indices: 11796702--11797068 Score: 497
Period size: 156 Copynumber: 2.4 Consensus size: 156
11796692 TATAGATCGA
* ** * * **
11796702 GCATTAGCGGTGCTTTTTGAAAAACATCGCTATAGATCGAGCATTACCGGCATTTTTTAAAAAAC
1 GCATTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTTGAAAAAAAC
* * *
11796767 GCCGCTATAGGCCGACCATTAGCGGCGCTTTTCACAAAACGCCGCAAAAAAAATTAAGCACAGCG
66 GCCGCTATAGGCCAACCATTAGCGGCGCTTTTCACAAAACGCCACAAAAAAAATTAAGCACAACG
**
11796832 CTGTCATTTTATGTTGAGCTTTAGTG
131 CCATCATTTTATGTTGAGCTTTAGTG
* * * *
11796858 GCATTAACAGCGCTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTGAAAAAAAC
1 GCATTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTTGAAAAAAAC
* * * *
11796923 GCCGCTATAGGCCAATCATTAGCGGTGCTTTTTGA-AAAACGCCAC-AGAAAAATTAAGCACAAC
66 GCCGCTATAGGCCAACCATTAGCGGCGC-TTTTCACAAAACGCCACAAAAAAAATTAAGCACAAC
11796986 GCCATCATTTTATGTTGAGCTTTAGT-
130 GCCATCATTTTATGTTGAGCTTTAGTG
* *
11797012 GCATTTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAGTGGCACTTT
1 GCA-TTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTT
11797069 ATCACGCCGC
Statistics
Matches: 183, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
154 3 0.02
155 87 0.48
156 88 0.48
157 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (156 bp):
GCATTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTTGAAAAAAAC
GCCGCTATAGGCCAACCATTAGCGGCGCTTTTCACAAAACGCCACAAAAAAAATTAAGCACAACG
CCATCATTTTATGTTGAGCTTTAGTG
Found at i:11797919 original size:17 final size:18
Alignment explanation
Indices: 11797897--11797930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11797887 TACTAATTTT
11797897 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
11797914 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
11797931 TTAAGAGATA
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:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:11798312 original size:40 final size:40
Alignment explanation
Indices: 11798268--11798351 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
11798258 AAAATTGTAA
* * * *
11798268 AAAAGTCAAGCATTAGCGGTATTTATGATAAAAACACCAC
1 AAAAGGCAAGCAATAGCAGCATTTATGATAAAAACACCAC
* * *
11798308 AAAAGGCAAGTAATAGCAGCGTTTATGATAAAAACGCCAC
1 AAAAGGCAAGCAATAGCAGCATTTATGATAAAAACACCAC
11798348 AAAA
1 AAAA
11798352 AATCAAGTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (40 bp):
AAAAGGCAAGCAATAGCAGCATTTATGATAAAAACACCAC
Found at i:11798997 original size:34 final size:35
Alignment explanation
Indices: 11798953--11799030 Score: 124
Period size: 34 Copynumber: 2.3 Consensus size: 35
11798943 AAGAAGTTAG
*
11798953 TCATTTTAATTTATACA-TTTTTTAAGGAAAACAA
1 TCATTCTAATTTATACATTTTTTTAAGGAAAACAA
11798987 TCATTCTAATTTATACATTTTTTTAAGGAAAACAA
1 TCATTCTAATTTATACATTTTTTTAAGGAAAACAA
*
11799022 T-GTTCTAAT
1 TCATTCTAAT
11799031 ATAATCTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 23 0.56
35 18 0.44
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (35 bp):
TCATTCTAATTTATACATTTTTTTAAGGAAAACAA
Found at i:11801278 original size:29 final size:29
Alignment explanation
Indices: 11801234--11801309 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
11801224 ATGACGGTAT
*
11801234 AAAGTAAAAGTAAGTTAATTTTATTTTTAA
1 AAAGTAAGA-TAAGTTAATTTTATTTTTAA
*
11801264 TAAGTAAGATAAGTTAATTTTATTTTTAA
1 AAAGTAAGATAAGTTAATTTTATTTTTAA
*
11801293 AAAGTAAGATAATTTAA
1 AAAGTAAGATAAGTTAA
11801310 ATGATATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 35 0.83
30 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (29 bp):
AAAGTAAGATAAGTTAATTTTATTTTTAA
Found at i:11801370 original size:18 final size:18
Alignment explanation
Indices: 11801347--11801392 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
11801337 ATATATGAAA
*
11801347 TATTAATTTAAATGTAAG
1 TATTAATTTAAATATAAG
*
11801365 TATTAATTTAAATATAAT
1 TATTAATTTAAATATAAG
11801383 TATTTAATTT
1 TA-TTAATTT
11801393 GATATAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTAATTTAAATATAAG
Found at i:11803095 original size:25 final size:24
Alignment explanation
Indices: 11803017--11803096 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
11803007 AGACTTGCTG
*
11803017 TATTTTATT-TATATCTTTATATTT
1 TATTTTATTCTATATTTTTAT-TTT
* * *
11803041 AATCTAATTCT-TATTATTTA-TTT
1 TATTTTATTCTATATT-TTTATTTT
11803064 TAGTTTTGATTCTATATTTTTATTTT
1 TA-TTTT-ATTCTATATTTTTATTTT
11803090 TATTTTA
1 TATTTTA
11803097 ATATTTAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
23 4 0.09
24 12 0.28
25 18 0.42
26 9 0.21
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (24 bp):
TATTTTATTCTATATTTTTATTTT
Found at i:11803480 original size:85 final size:85
Alignment explanation
Indices: 11803347--11803580 Score: 296
Period size: 85 Copynumber: 2.8 Consensus size: 85
11803337 TAAAAATTTT
* * *
11803347 TTAAAGGTCATGTTTTTTA-TCAGCATTTGTGGGAAAAGCGCCGTTAAAGGTCATG-CTTTTAGT
1 TTAAAGGTCATGTTTTTTAGT-GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTC-TTTAG-
* * * *
11803410 GGA-GTTTGTGGTAAAAGCGCCG
63 CGACGTTGGTGGGAAAAGCGCCA
*
11803432 TTAAAAGTCATGTTTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTCTTTAGCGA
1 TTAAAGGTCATGTTTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTCTTTAGCGA
11803497 CGTTGGTGGGAAAAGCGCCA
66 CGTTGGTGGGAAAAGCGCCA
* * * *
11803517 CTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG-AAAGCGCCTCTAAAGGTCATGTTCTTTAGCG
1 TTAAAGGTCATGTTTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG-TCTTTAGCG
11803581 GTATTTTTTT
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
84 22 0.17
85 108 0.82
86 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (85 bp):
TTAAAGGTCATGTTTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTCTTTAGCGA
CGTTGGTGGGAAAAGCGCCA
Found at i:11803579 original size:42 final size:43
Alignment explanation
Indices: 11803348--11803581 Score: 280
Period size: 42 Copynumber: 5.5 Consensus size: 43
11803338 AAAAATTTTT
* * * *
11803348 TAAAGGTCATGTTTTTTATCAGCATTTGTGGGAAAAGCGCCGT-
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCC-TC
* * * *
11803391 TAAAGGTCATGCT-TTTAGTGGAGTTTGTGGTAAAAGCGCCGT-
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCC-TC
* * * *
11803433 TAAAAGTCATGTTTTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCTC
* * *
11803476 TAAAGGTCATG-TCTTTAGCGACGTTGGTGGGAAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCTC
11803518 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG-AAAGCGCCTC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCTC
11803560 TAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGG
11803582 TATTTTTTTA
Statistics
Matches: 167, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
42 102 0.61
43 65 0.39
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCTC
Found at i:11803848 original size:38 final size:38
Alignment explanation
Indices: 11803804--11803937 Score: 117
Period size: 38 Copynumber: 3.3 Consensus size: 38
11803794 TTTAATTTGT
*
11803804 AAATATGTTGTGCACCCACAACAAGTGGTAGTAATTGC
1 AAATATGTTGTTCACCCACAACAAGTGGTAGTAATTGC
* *
11803842 AAATATGTGGTTCGA-CCACAAACCAAGTGGCGGTTTGTTTAATTTGC
1 AAATATGTTGTTC-ACCCAC-AA-CAAGT---GG-TAG--TAA-TTGC
* *
11803889 AAATTTGTTGTTCACCCACAACAAGTGGTAATAATTGC
1 AAATATGTTGTTCACCCACAACAAGTGGTAGTAATTGC
11803927 AAATATTGTTG
1 AAATA-TGTTG
11803938 GAAAAAATTC
Statistics
Matches: 76, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
38 23 0.30
39 11 0.14
40 5 0.07
41 1 0.01
42 2 0.03
43 2 0.03
44 2 0.03
45 5 0.07
46 6 0.08
47 19 0.25
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (38 bp):
AAATATGTTGTTCACCCACAACAAGTGGTAGTAATTGC
Found at i:11803905 original size:85 final size:85
Alignment explanation
Indices: 11803777--11803932 Score: 258
Period size: 85 Copynumber: 1.8 Consensus size: 85
11803767 TTTGCTCATG
* *
11803777 AACCAAGTGACAGTTTGTTTAATTTGTAAATATGTTGTGCACCCACAACAAGTGGTAGTAATTGC
1 AACCAAGTGACAGTTTGTTTAATTTGCAAATATGTTGTGCACCCACAACAAGTGGTAATAATTGC
11803842 AAATATGTGGTTCGACCACA
66 AAATATGTGGTTCGACCACA
* * * *
11803862 AACCAAGTGGCGGTTTGTTTAATTTGCAAATTTGTTGTTCACCCACAACAAGTGGTAATAATTGC
1 AACCAAGTGACAGTTTGTTTAATTTGCAAATATGTTGTGCACCCACAACAAGTGGTAATAATTGC
11803927 AAATAT
66 AAATAT
11803933 TGTTGGAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (85 bp):
AACCAAGTGACAGTTTGTTTAATTTGCAAATATGTTGTGCACCCACAACAAGTGGTAATAATTGC
AAATATGTGGTTCGACCACA
Found at i:11811102 original size:6 final size:6
Alignment explanation
Indices: 11811083--11811225 Score: 96
Period size: 6 Copynumber: 23.3 Consensus size: 6
11811073 AAGAAACATT
* * *
11811083 ATCAGA A-CTAGA ATTAGA ATCAGA ACCAGA ATCAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
11811131 ATCAGA ATTAG- GTGACAGA ATCAGA ATCAAA ATCAGT ATCAGGTA AT-AGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
11811181 ATCAAA ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
11811226 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
5 7 0.07
6 87 0.84
7 6 0.06
8 4 0.04
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:11811153 original size:31 final size:31
Alignment explanation
Indices: 11811115--11811225 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
11811105 GAACCAGAAT
* * * *
11811115 CAGAATCAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGTATTAGGTAA
* * *
11811146 CAGAATCAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATTAGGTAA
*
11811177 TAGAATCAAAATCAGAATCAGTATTAGGTAA
1 CAGAATCAAAATCAGAATCAGTATTAGGTAA
11811208 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
11811226 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATTAGGTAA
Found at i:11811399 original size:27 final size:26
Alignment explanation
Indices: 11811357--11811458 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
11811347 GCTCAGTTAT
* *
11811357 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
11811384 CAGATATTGTGGCAGAGCCACTAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
11811410 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
11811438 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
11811459 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:11811441 original size:54 final size:53
Alignment explanation
Indices: 11811357--11811459 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 53
11811347 GCTCAGTTAT
* * * *
11811357 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACTAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACTAGAA
* *
11811410 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
11811460 TAACAGAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACTAGAA
Found at i:11811484 original size:54 final size:54
Alignment explanation
Indices: 11811375--11811476 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
11811365 GTGACAGAGT
* * * ** *
11811375 CACCAGATACAGATATTGTGGCAGAGCCACTAGAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCAAAGC
*
11811429 CACCAGAAACAGATAATGTGGCAAAGCCACT-TAACAGA-ATACGTGGCA
1 CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCA
11811477 CAAAGCCATC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 8 0.19
53 6 0.14
54 28 0.67
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCAAAGC
Found at i:11811645 original size:22 final size:22
Alignment explanation
Indices: 11811617--11811681 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
11811607 GCAAATACGT
*
11811617 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
11811639 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
11811661 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
11811682 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:11813604 original size:46 final size:46
Alignment explanation
Indices: 11813431--11813600 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
11813421 TGTAACCCGC
* *
11813431 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * ** * *
11813477 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCATATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
11813527 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
11813570 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
11813601 TTCGAATGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.60
47 28 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:11816033 original size:30 final size:30
Alignment explanation
Indices: 11815990--11816078 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
11815980 CAAATATAAC
11815990 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
11816019 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
11816049 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
11816079 CGATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:11816038 original size:15 final size:15
Alignment explanation
Indices: 11815990--11816069 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
11815980 CAAATATAAC
*
11815990 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
11816004 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
11816019 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
11816034 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
11816049 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
11816064 AAGAAA
1 AAGAAA
11816070 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:11816078 original size:15 final size:15
Alignment explanation
Indices: 11816001--11816078 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
11815991 AGAAAACCGA
*
11816001 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
11816016 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
11816030 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
11816045 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
11816061 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
11816076 ATA
1 ATA
11816079 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:11816872 original size:54 final size:53
Alignment explanation
Indices: 11816752--11816954 Score: 212
Period size: 54 Copynumber: 3.8 Consensus size: 53
11816742 GATATTACAA
* * *
11816752 GGTATCTCGGTAATTCCACCCTATAGGGGTATTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTTGTAATTCTACCCTACAGG
*
11816805 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTTGATAATTCTACCCTACATG
1 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTTG-TAATTCTACCCTACAGG
* * ** * **
11816859 GGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTA-CAAACTAGG
1 GGTATTTCGGTAATTCTACCCTA-TAGGGGTATTTT-GTAATTCTACCCTAC-AGG
* * * *
11816913 GGTATTTTGGTAATTCTATCATACAGGGGTATTTTAGTAATT
1 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTT-GTAATT
11816955 TCATAATCGA
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
53 38 0.30
54 85 0.67
55 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (53 bp):
GGTATTTCGGTAATTCTACCCTATAGGGGTATTTTGTAATTCTACCCTACAGG
Found at i:11816913 original size:81 final size:80
Alignment explanation
Indices: 11816762--11816955 Score: 221
Period size: 81 Copynumber: 2.4 Consensus size: 80
11816752 GGTATCTCGG
* * * ** **
11816762 TAATTCCACCCTATAGGGGTATTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
1 TAATTCTACCCTACAGGGGTATTTAGTAATTTTACCAAACAGGGGTATTTCGGTAATTCTACCAA
11816827 ATAGGGGTATTTTGA
66 ATAGGGGTATTTTGA
* * *
11816842 TAATTCTACCCTACATGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTA-C
1 TAATTCTACCCTACAGGGGTATTT-AGTAATTTTACCAAAC-AGGGGTATTTCGGTAATTCTACC
*
11816905 AAACTAGGGGTATTTTGG
64 AAA-TAGGGGTATTTTGA
* *
11816923 TAATTCTATCATACAGGGGTATTTTAGTAATTT
1 TAATTCTACCCTACAGGGGTA-TTTAGTAATTT
11816956 CATAATCGAG
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 26 0.27
81 67 0.70
82 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.39
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGGTATTTAGTAATTTTACCAAACAGGGGTATTTCGGTAATTCTACCAA
ATAGGGGTATTTTGA
Found at i:11816947 original size:27 final size:27
Alignment explanation
Indices: 11816760--11816954 Score: 180
Period size: 27 Copynumber: 7.3 Consensus size: 27
11816750 AAGGTATCTC
* * *
11816760 GGTAATTCCACCCTATAGGGGTA-TTT
1 GGTAATTCTACCATACAGGGGTATTTT
* * *
11816786 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCATACAGGGGTATTTT
* *
11816813 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCATACAGGGGTATTTT
* * * *
11816840 GATAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCATACAGGGGTATTTT
* * *
11816867 AGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCATAC-AGGGGTATTTT
* *
11816894 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCATAC-AGGGGTATTTT
*
11816921 GGTAATTCTATCATACAGGGGTATTTT
1 GGTAATTCTACCATACAGGGGTATTTT
*
11816948 AGTAATT
1 GGTAATT
11816955 TCATAATCGA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 23 0.16
27 117 0.81
28 4 0.03
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCATACAGGGGTATTTT
Found at i:11816993 original size:27 final size:27
Alignment explanation
Indices: 11816959--11817129 Score: 216
Period size: 27 Copynumber: 6.3 Consensus size: 27
11816949 GTAATTTCAT
*
11816959 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
11816986 AATTGAGGGTAAAACGCTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
11817013 AATCGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
11817040 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
11817067 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
11817094 AATTGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
11817121 AATCGAGGG
1 AATCGAGGG
11817130 CATTTCAATA
Statistics
Matches: 125, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:11817062 original size:81 final size:81
Alignment explanation
Indices: 11816959--11817129 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 81
11816949 GTAATTTCAT
* * * * *
11816959 AATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAACGCTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
* **
11817024 AAATGGTAATTTTTTA
66 AAATGGTAATTCTACA
* *
11817040 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGATAATTCTATAAATTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
11817105 AAATGGTAATTCTACA
66 AAATGGTAATTCTACA
11817121 AATCGAGGG
1 AATCGAGGG
11817130 CATTTCAATA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
AAATGGTAATTCTACA
Found at i:11817142 original size:81 final size:81
Alignment explanation
Indices: 11816976--11817149 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 81
11816966 GGTAAAATGG
* * * * * **
11816976 TAATTTTGTAAATTGAGGGTAAAACGCTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTTTAA
1 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAA
* **
11817041 ATCGAGGGTAAAACGG
66 ATCGAGGGCAAAACAA
* *
11817057 TAATTTTGTAAATCGAGGGTGAAACGATAATTCTATAAATTGAGGGTAAAATGGTAATTCTACAA
1 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAA
***
11817122 ATCGAGGGCATTTCAA
66 ATCGAGGGCAAAACAA
11817138 TAATTTTGTAAA
1 TAATTTTGTAAA
11817150 CAAATGGTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (81 bp):
TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAA
ATCGAGGGCAAAACAA
Found at i:11817215 original size:56 final size:54
Alignment explanation
Indices: 11817111--11817362 Score: 159
Period size: 54 Copynumber: 4.6 Consensus size: 54
11817101 GGTAAAATGG
* * * ** * *
11817111 TAATTCTACAAATCGAGGGCATTTCAATAATTTTGTAAACAAATGGTATTTCTA
1 TAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACAAAGGGTATTTCGA
* ** * *
11817165 TAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATC-AGGGGTATTTCGG
1 TAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTGTAAA-CAAAGGGTATTTCGA
* *** * *
11817221 TAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAAC-TAGTGGTATTTCGG
1 TAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACAAAG-GGTATTTCGA
* * * * * ** * * * *
11817275 TAATTTCACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACAAAGGGTATTTCGA
* *
11817329 TAATTTTACAAA-CTAGAGGTATTTTGGTAATTTT
1 TAATTTTACAAATCAAG-GGTATTTCGGTAATTTT
11817363 ACAAATCAGG
Statistics
Matches: 158, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
53 4 0.03
54 103 0.65
55 16 0.10
56 34 0.22
57 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACAAAGGGTATTTCGA
Found at i:11817223 original size:27 final size:27
Alignment explanation
Indices: 11817169--11817388 Score: 246
Period size: 27 Copynumber: 8.1 Consensus size: 27
11817159 TTTCTATAAT
* * *
11817169 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
** *
11817197 TTTTGTAAATCAGGGGTATTTCGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * *
11817224 TTTTACAAATTAAGGGTATTTCGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * *
11817251 TTTCACAAA-CTAGTGGTATTTCGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* * *
11817278 TTTCACAAACCAGGGGTATTTTGATAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
11817305 TTTTACAAACCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
11817332 TTTTACAAA-CTAGAGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
11817359 TTTTACAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
11817386 TTT
1 TTT
11817389 GGTAAAGTAT
Statistics
Matches: 168, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 158 0.94
28 9 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:11818958 original size:14 final size:12
Alignment explanation
Indices: 11818870--11818958 Score: 60
Period size: 12 Copynumber: 7.2 Consensus size: 12
11818860 TTTTTCTTTG
11818870 TATATTATT-TA
1 TATATTATTATA
11818881 T-TA-TATTATTA
1 TATATTATTA-TA
*
11818892 TATATTATTAGA
1 TATATTATTATA
11818904 TAT-TGTATTACCTA
1 TATAT-TATTA--TA
* *
11818918 CATTTTATTATA
1 TATATTATTATA
*
11818930 TATATTATTTTA
1 TATATTATTATA
11818942 TATATTACTTATCA
1 TATATTA-TTAT-A
11818956 TAT
1 TAT
11818959 TGCTTATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
9 4 0.07
10 2 0.03
11 5 0.08
12 29 0.48
13 8 0.13
14 12 0.20
15 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (12 bp):
TATATTATTATA
Found at i:11818959 original size:21 final size:18
Alignment explanation
Indices: 11818923--11818979 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 18
11818913 ACCTACATTT
11818923 TATTATATATATTATTTTATA
1 TATTAT-TATA-TATTTT-TA
*
11818944 TATTACTTATCATATTGCTTA
1 TATTA-TTAT-ATATT-TTTA
11818965 TATTATTATATATTT
1 TATTATTATATATTT
11818980 CGTTTATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 5 0.16
20 4 0.13
21 19 0.61
22 3 0.10
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTATATATTTTTA
Found at i:11837111 original size:48 final size:48
Alignment explanation
Indices: 11837036--11837565 Score: 898
Period size: 48 Copynumber: 11.0 Consensus size: 48
11837026 CAAGACAAAT
*
11837036 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11837084 ATATGTATATGTGGTAAAGCCGTATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11837132 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11837180 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11837228 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
11837276 ATATATATATGTGGTAAAGCCGTATGGCTAATGTGAAATATTTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11837324 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11837372 ATATGTATATGTGGTAAAGCCGTATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11837420 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11837468 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11837516 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
11837564 AT
1 AT
11837566 GTGTGTATAT
Statistics
Matches: 454, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 454 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:11843014 original size:44 final size:44
Alignment explanation
Indices: 11842956--11843485 Score: 792
Period size: 44 Copynumber: 12.0 Consensus size: 44
11842946 TCACCGGTGA
*
11842956 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGGT-G
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
11842999 ACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATTGAAGATAA
1 -CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
*
11843044 CAGATTTGGCGTCTCCGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
11843088 CAGATTTGGCGTCTCTGTATTGTTAGACAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
11843132 TAGATTTGGCGTCTCTGTATTATCAGAGAGCATATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
11843176 TAGATTTGCCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
11843220 CAGATTTGGCGTCTTTGTATTGTTAGAGAGTAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
11843264 CAGATTTGGCGTCTCTGTATTGTCAGAGAGAAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
**
11843308 TGGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
11843352 CAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
11843396 CGGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAGGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
** *
11843440 CAGATTTGGTATCTCTGTATTGTCAGAGACCAGATTCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGA-TCGAAGATAG
11843485 C
1 C
11843486 CAATTTGACA
Statistics
Matches: 437, Mismatches: 47, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
44 427 0.98
45 10 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
Found at i:11845109 original size:28 final size:27
Alignment explanation
Indices: 11845026--11845114 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 27
11845016 TTTTTCTTTG
11845026 TATATTATTTATTATATTATTATATATTATTA
1 TATATTA-TT-TTATA-TATTAT-TATTA-TA
* *
11845058 TATATTATATTACGTACATT-TTATTATA
1 TATATTATTTTA--TATATTATTATTATA
*
11845086 TATATTATTTTATATATTACTTATCATA
1 TATATTATTTTATATATTA-TTATTATA
11845114 T
1 T
11845115 TGTTTATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
26 5 0.10
28 21 0.44
29 5 0.10
30 4 0.08
31 4 0.08
32 9 0.19
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (27 bp):
TATATTATTTTATATATTATTATTATA
Found at i:11845114 original size:14 final size:12
Alignment explanation
Indices: 11845026--11845133 Score: 70
Period size: 12 Copynumber: 9.1 Consensus size: 12
11845016 TTTTTCTTTG
11845026 TATATTATT-TA
1 TATATTATTATA
11845037 T-TA-TATTATTA
1 TATATTATTA-TA
11845048 TATATTATTATA
1 TATATTATTATA
11845060 TAT-TATATTACGTA
1 TATAT-TATTA--TA
* *
11845074 CATTTTATTATA
1 TATATTATTATA
*
11845086 TATATTATTTTA
1 TATATTATTATA
11845098 TATATTACTTATCA
1 TATATTA-TTAT-A
11845112 TAT-TGT-TTATA
1 TATAT-TATTATA
11845123 T-TATTA-TATA
1 TATATTATTATA
11845133 T
1 T
11845134 TTCGTTTATG
Statistics
Matches: 79, Mismatches: 5, Indels: 27
0.71 0.05 0.24
Matches are distributed among these distances:
9 4 0.05
10 9 0.11
11 8 0.10
12 34 0.43
13 9 0.11
14 14 0.18
15 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (12 bp):
TATATTATTATA
Found at i:11845538 original size:16 final size:19
Alignment explanation
Indices: 11845503--11845539 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
11845493 GTAGGTTAAA
11845503 TTTTCATAGATTATTTGTT
1 TTTTCATAGATTATTTGTT
11845522 TTTTCAT-G-TTA-TTGTT
1 TTTTCATAGATTATTTGTT
11845538 TT
1 TT
11845540 ACATATTCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 1 0.06
19 7 0.39
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (19 bp):
TTTTCATAGATTATTTGTT
Found at i:11847436 original size:40 final size:40
Alignment explanation
Indices: 11847338--11847600 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
11847328 TCCTCGTTCA
* * * * *
11847338 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11847377 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11847417 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11847457 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11847497 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
11847537 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11847577 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11847601 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11854752 original size:40 final size:40
Alignment explanation
Indices: 11854654--11854916 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
11854644 TCCTCGTTCA
* * * * *
11854654 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11854693 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11854733 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11854773 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11854813 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * * *
11854853 AAGGCCTTC-AGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11854893 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11854917 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 36 0.18
40 155 0.78
41 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11879479 original size:27 final size:27
Alignment explanation
Indices: 11879449--11879626 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
11879439 ATATTGAGCC
* *
11879449 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
11879476 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11879503 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
11879531 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11879558 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
11879585 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11879612 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
11879627 GTAAATTTAA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11879588 original size:82 final size:81
Alignment explanation
Indices: 11879470--11879625 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
11879460 TGCTATATAA
* * * *
11879470 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
11879535 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11879552 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11879616 CCCTTAGTGC
65 CACTTAGTGC
11879626 TGTAAATTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11887465 original size:27 final size:27
Alignment explanation
Indices: 11887426--11887603 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
11887416 ACATTGAGCC
* * * *
11887426 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
11887453 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
11887480 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
11887508 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
11887535 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
11887562 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
11887589 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
11887604 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:11887565 original size:82 final size:81
Alignment explanation
Indices: 11887447--11887602 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
11887437 TGCTATATAA
* * * **
11887447 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
11887512 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11887529 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11887593 CCCTTAGTGC
65 CACTTAGTGC
11887603 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11898105 original size:32 final size:33
Alignment explanation
Indices: 11898051--11898116 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
11898041 AGTTAATAAA
*
11898051 TGTGGGATACTAGGGGCATTATAGTAATTCAGC
1 TGTGGGATACTAGGGGCATTATAATAATTCAGC
*
11898084 TGTGGGCTACTA-GGGCATTATAATAATTCAGC
1 TGTGGGATACTAGGGGCATTATAATAATTCAGC
11898116 T
1 T
11898117 ATCATGGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (33 bp):
TGTGGGATACTAGGGGCATTATAATAATTCAGC
Found at i:11902929 original size:44 final size:42
Alignment explanation
Indices: 11902871--11903023 Score: 123
Period size: 44 Copynumber: 3.6 Consensus size: 42
11902861 CGATATGTGT
* * *
11902871 TTTCGTGCAAGACCATGTCTGGGGCATTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTA-TT-TGA
*
11902914 TTTACGTGTAAGACCATGTCTGAGACATCGGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGA
* * * * *
11902957 TTTCATGT-AGACCCTGTCTGGGATAGT-GGCATAGATATTTGG
1 TTTCGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGA
* * * *
11902999 TTACATGTAAGACCACGTTTGGGAC
1 TTTCGTGTAAGACCATGTCTGGGAC
11903024 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 20 0.22
42 18 0.20
43 21 0.23
44 30 0.33
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGA
Found at i:11908802 original size:24 final size:24
Alignment explanation
Indices: 11908745--11908803 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
11908735 CAAACTATAC
**
11908745 CCTAGGGGTATAATGGTAATTTGCA
1 CCTA-GGGTATAATGGTAATTCACA
* *
11908770 CCTAAGGTATAATGGTAATTCATA
1 CCTAGGGTATAATGGTAATTCACA
*
11908794 CTTAGGGTAT
1 CCTAGGGTAT
11908804 TTTAGTAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (24 bp):
CCTAGGGTATAATGGTAATTCACA
Found at i:11910588 original size:13 final size:13
Alignment explanation
Indices: 11910570--11910594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11910560 CTAGACATAC
11910570 AAAATAATAATAA
1 AAAATAATAATAA
11910583 AAAATAATAATA
1 AAAATAATAATA
11910595 GCATCCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAATAATAA
Found at i:11913533 original size:37 final size:38
Alignment explanation
Indices: 11913400--11913539 Score: 165
Period size: 38 Copynumber: 3.7 Consensus size: 38
11913390 AAATCCAAAC
* * *
11913400 ATAACACCAGCACAAAGCCTACGGGACTTTCAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACCCAGAT
* * **
11913440 ATAATACCAGCACTAGGCCTGCATGATTTAACCCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCAGAT
* *
11913478 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCAGAT
*
11913516 A-ATTACCAGCACAAAGCCTGCGGG
1 ATAATACCAGCACAAAGCCTGCGGG
11913540 TTTTTAAGCC
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
37 21 0.24
38 42 0.49
39 3 0.03
40 20 0.23
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCAGAT
Found at i:11913546 original size:38 final size:38
Alignment explanation
Indices: 11913400--11913569 Score: 164
Period size: 38 Copynumber: 4.4 Consensus size: 38
11913390 AAATCCAAAC
* * * *
11913400 ATAACACCAGCACAAAGCCTACGGGACTTTCAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGAT
* * ** *
11913440 ATAATACCAGCACTAGGCCTGCATGATTTAACCCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
11913478 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* *
11913516 A-ATTACCAGCACAAAGCCTGCGGGTTTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
*
11913555 ACAAT-CTCAGCACAA
1 ATAATAC-CAGCACAA
11913570 TTTATTTTAT
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
37 21 0.19
38 47 0.43
39 12 0.11
40 30 0.27
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:11924478 original size:27 final size:27
Alignment explanation
Indices: 11924448--11924625 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
11924438 ATATTGAGCC
* *
11924448 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
11924475 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
11924502 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
11924530 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11924557 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
11924584 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11924611 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
11924626 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11924587 original size:82 final size:81
Alignment explanation
Indices: 11924469--11924624 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
11924459 TGCTATATAA
* * * **
11924469 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
11924534 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11924551 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11924615 CCCTTAGTGC
65 CACTTAGTGC
11924625 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11932460 original size:27 final size:27
Alignment explanation
Indices: 11932430--11932607 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
11932420 ATATTGAGCC
* *
11932430 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
11932457 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
11932484 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
11932512 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11932539 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
11932566 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11932593 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
11932608 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11932569 original size:82 final size:81
Alignment explanation
Indices: 11932451--11932606 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
11932441 TGCTATATAA
* * * **
11932451 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
11932516 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11932533 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11932597 CCCTTAGTGC
65 CACTTAGTGC
11932607 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11934796 original size:64 final size:64
Alignment explanation
Indices: 11934715--11934898 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
11934705 AGAAATTATG
* *
11934715 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GTATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAG-ATAA
* * * * *
11934779 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
11934844 AA
63 AA
* * *
11934846 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
11934899 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 32 0.32
68 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:11937625 original size:40 final size:40
Alignment explanation
Indices: 11937570--11937707 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
11937560 TGGATGATAA
*
11937570 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
11937610 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
11937650 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
11937690 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
11937708 TACTTGGCTT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.17
40 72 0.83
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:11952671 original size:27 final size:26
Alignment explanation
Indices: 11952640--11952817 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
11952630 TAAATTGTAC
11952640 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
11952667 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
11952693 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
11952721 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
11952749 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
11952776 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
11952803 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11952818 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:11952756 original size:82 final size:81
Alignment explanation
Indices: 11952641--11952796 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
11952631 AAATTGTACA
* * *
11952641 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
11952705 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
11952722 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
11952787 TGCGAGTTGA
65 TGCGAATTGA
11952797 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:11952808 original size:82 final size:81
Alignment explanation
Indices: 11952637--11952817 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
11952627 GATTAAATTG
* * *
11952637 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
11952702 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
11952718 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
11952782 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
11952800 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
11952818 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:11960693 original size:27 final size:26
Alignment explanation
Indices: 11960663--11960838 Score: 165
Period size: 27 Copynumber: 6.5 Consensus size: 26
11960653 AAATTGTACA
11960663 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
11960690 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
11960717 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
11960744 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* *
11960772 GCACTAAGTGTGCGATTTGATTACG-T
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
11960798 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
11960825 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
11960839 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 23 0.18
27 77 0.62
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:11960804 original size:81 final size:81
Alignment explanation
Indices: 11960663--11960817 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
11960653 AAATTGTACA
* * *
11960663 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
11960728 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
11960744 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
11960808 TGCGAGTTGA
65 TGCGAATTGA
11960818 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
81 37 0.56
82 29 0.44
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:11960829 original size:81 final size:81
Alignment explanation
Indices: 11960659--11960838 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
11960649 GATTAAATTG
* * *
11960659 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
11960724 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
11960740 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGCACTA
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
* **
11960804 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
11960821 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
11960839 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 54 0.65
82 29 0.35
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:11964405 original size:19 final size:19
Alignment explanation
Indices: 11964383--11964522 Score: 78
Period size: 19 Copynumber: 7.4 Consensus size: 19
11964373 AATAATTACA
*
11964383 ATAAAAATTTATAAATATT
1 ATAAAAATTTATAAAAATT
* *
11964402 ATAAAAATATAAAAAAATT
1 ATAAAAATTTATAAAAATT
*
11964421 A-ATAAAATTAATAAAAAATT
1 ATA-AAAATTTAT-AAAAATT
*
11964441 -T-AAAATTTTTAAAAACTT
1 ATAAAAATTTATAAAAA-TT
* *
11964459 ATGAAAA-TCATAAAAATATT
1 ATAAAAATTTAT-AAAA-ATT
*
11964479 ATAAAAA--TATTAAAATT
1 ATAAAAATTTATAAAAATT
* *
11964496 GATATAAACTTT-TAAAAATC
1 -ATA-AAAATTTATAAAAATT
11964516 ATAAAAA
1 ATAAAAA
11964523 AATCATAACT
Statistics
Matches: 92, Mismatches: 17, Indels: 25
0.69 0.13 0.19
Matches are distributed among these distances:
17 8 0.09
18 19 0.21
19 34 0.37
20 29 0.32
21 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (19 bp):
ATAAAAATTTATAAAAATT
Found at i:11964434 original size:21 final size:20
Alignment explanation
Indices: 11964382--11964493 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 20
11964372 TAATAATTAC
* * *
11964382 AATAAAAATTTATAAATATT
1 AATAAAAATATAAAAAAATT
11964402 -ATAAAAATATAAAAAAATT
1 AATAAAAATATAAAAAAATT
*
11964421 AATAAAATTA-ATAAAAAATT
1 AATAAAAATATA-AAAAAATT
* * * *
11964441 --TAAAATTTTTAAAAACTT
1 AATAAAAATATAAAAAAATT
* *
11964459 -ATGAAAATCATAAAAATATT
1 AATAAAAAT-ATAAAAAAATT
11964479 -ATAAAAATATTAAAA
1 AATAAAAATA-TAAAA
11964494 TTGATATAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
18 14 0.19
19 23 0.32
20 35 0.49
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (20 bp):
AATAAAAATATAAAAAAATT
Found at i:11964445 original size:29 final size:29
Alignment explanation
Indices: 11964318--11964437 Score: 81
Period size: 29 Copynumber: 4.2 Consensus size: 29
11964308 AAAATGAATA
* *
11964318 AAAAATA-AAAAAAATTACTAAA-AAT-T
1 AAAAATATAAAAAAATTAATAAATATTAT
** *
11964344 AAAAATAT-ATTAAATTGATATAAAT-TTCT
1 AAAAATATAAAAAAATT-A-ATAAATATTAT
* * *
11964373 AATAATTACAATAAAAATTTATAAATATTAT
1 AA-AAATATAA-AAAAATTAATAAATATTAT
11964404 AAAAATATAAAAAAATTAATAAA-ATTAAT
1 AAAAATATAAAAAAATTAATAAATATT-AT
11964433 AAAAA
1 AAAAA
11964438 ATTTAAAATT
Statistics
Matches: 71, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
26 13 0.18
27 1 0.01
28 8 0.11
29 22 0.31
30 16 0.23
31 6 0.08
32 5 0.07
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAAATATAAAAAAATTAATAAATATTAT
Found at i:11964453 original size:18 final size:19
Alignment explanation
Indices: 11964386--11964484 Score: 71
Period size: 20 Copynumber: 5.2 Consensus size: 19
11964376 AATTACAATA
* *
11964386 AAAATTTAT-AAATATTAT
1 AAAATTAATAAAAAATTAT
*
11964404 AAAAAT-ATAAAAAAATTAAT
1 AAAATTAAT-AAAAAATT-AT
11964424 AAAATTAATAAAAAATT-T
1 AAAATTAATAAAAAATTAT
** *
11964442 AAAATTTTTAAAAACTTAT
1 AAAATTAATAAAAAATTAT
*
11964461 GAAAA-TCATAAAAATATTAT
1 -AAAATTAATAAAAA-ATTAT
11964481 AAAA
1 AAAA
11964485 ATATTAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
17 2 0.03
18 20 0.31
19 18 0.28
20 23 0.35
21 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTAATAAAAAATTAT
Found at i:11964493 original size:9 final size:11
Alignment explanation
Indices: 11964383--11964490 Score: 57
Period size: 10 Copynumber: 11.1 Consensus size: 11
11964373 AATAATTACA
11964383 ATAAAAAT-TT
1 ATAAAAATATT
11964393 AT--AAATATT
1 ATAAAAATATT
11964402 ATAAAAATA-T
1 ATAAAAATATT
11964412 A-AAAAA-ATT
1 ATAAAAATATT
*
11964421 A-ATAAAAT-TA
1 ATA-AAAATATT
11964431 ATAAAAA-ATT
1 ATAAAAATATT
11964441 -T-AAAAT-TT
1 ATAAAAATATT
* *
11964449 TTAAAAA-CTT
1 ATAAAAATATT
* *
11964459 AT-GAAA-ATC
1 ATAAAAATATT
11964468 ATAAAAATATT
1 ATAAAAATATT
11964479 ATAAAAATATT
1 ATAAAAATATT
11964490 A
1 A
11964491 AAATTGATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 27
0.68 0.07 0.24
Matches are distributed among these distances:
8 11 0.14
9 20 0.26
10 25 0.33
11 20 0.26
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (11 bp):
ATAAAAATATT
Found at i:11965121 original size:10 final size:10
Alignment explanation
Indices: 11965106--11965327 Score: 73
Period size: 10 Copynumber: 22.9 Consensus size: 10
11965096 TTTAAATGAC
*
11965106 ATTTTTAATT
1 ATTTTTAATA
11965116 ATTTTT-ATA
1 ATTTTTAATA
11965125 ATTTATTAA-A
1 ATTT-TTAATA
11965135 ATTTTT-AT-
1 ATTTTTAATA
* *
11965143 ATTATTCATA
1 ATTTTTAATA
11965153 ATTTTT-ATAA
1 ATTTTTAAT-A
11965163 ATGTTTTAAT-
1 AT-TTTTAATA
*
11965173 ATTTTAAAT-
1 ATTTTTAATA
*
11965182 ATATTTTATTA
1 AT-TTTTAATA
*
11965193 A-TTTTATACA
1 ATTTTTA-ATA
*
11965203 AGTTTTAATA
1 ATTTTTAATA
*
11965213 ATTTGTTAA-G
1 ATTT-TTAATA
*
11965223 A--TTTACTA
1 ATTTTTAATA
*
11965231 TATTTTTTATA
1 -ATTTTTAATA
* *
11965242 ATATTTATTA
1 ATTTTTAATA
* *
11965252 GTTTTT-ATG
1 ATTTTTAATA
*
11965261 ATTTTTTAT-
1 ATTTTTAATA
11965270 ATTTTT-ATA
1 ATTTTTAATA
*
11965279 A-GTTTATATA
1 ATTTTTA-ATA
*
11965289 AATTTTAATA
1 ATTTTTAATA
11965299 TATTTTTTAA-A
1 -A-TTTTTAATA
*
11965310 AATTTTAAT-
1 ATTTTTAATA
11965319 ATTTTTAAT
1 ATTTTTAAT
11965328 TTTAATAAAT
Statistics
Matches: 159, Mismatches: 28, Indels: 51
0.67 0.12 0.21
Matches are distributed among these distances:
7 3 0.02
8 12 0.08
9 53 0.33
10 57 0.36
11 26 0.16
12 8 0.05
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:11965138 original size:19 final size:19
Alignment explanation
Indices: 11965116--11965162 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
11965106 ATTTTTAATT
11965116 ATTTTTATAATTTATT-AAA
1 ATTTTTATAA-TTATTCAAA
*
11965135 ATTTTTAT-ATTATTCATA
1 ATTTTTATAATTATTCAAA
11965153 ATTTTTATAA
1 ATTTTTATAA
11965163 ATGTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTATAATTATTCAAA
Found at i:11965175 original size:30 final size:28
Alignment explanation
Indices: 11965106--11965177 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
11965096 TTTAAATGAC
*
11965106 ATTTTTAATTATTTTTATAATTTATTAAA
1 ATTTTTAA-TATTTTCATAATTTATTAAA
11965135 ATTTTT-ATATTATTCATAATTT-TTATAA
1 ATTTTTAATATT-TTCATAATTTATTA-AA
11965163 ATGTTTTAATATTTT
1 AT-TTTTAATATTTT
11965178 AAATATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 7 0.18
28 14 0.37
29 12 0.32
30 5 0.13
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (28 bp):
ATTTTTAATATTTTCATAATTTATTAAA
Found at i:11965275 original size:19 final size:18
Alignment explanation
Indices: 11965229--11965279 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
11965219 TAAGATTTAC
11965229 TATATTTTTTATAATATT
1 TATATTTTTTATAATATT
* *
11965247 TATTAGTTTTTATGAT-TT
1 TA-TATTTTTTATAATATT
*
11965265 TTTATATTTTTATAA
1 TATAT-TTTTTATAA
11965280 GTTTATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 11 0.42
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TATATTTTTTATAATATT
Found at i:11965294 original size:28 final size:28
Alignment explanation
Indices: 11965234--11965305 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
11965224 TTTACTATAT
* * * * *
11965234 TTTTTATAATATTTATTAGTTTTTATGAT
1 TTTTTAT-ATTTTTATAAGTTTATATAAA
11965263 TTTTTATATTTTTATAAGTTTATATAAA
1 TTTTTATATTTTTATAAGTTTATATAAA
11965291 TTTTAATATATTTTT
1 TTTT--TATATTTTT
11965306 TAAAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.56
29 7 0.19
30 9 0.25
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTTATATTTTTATAAGTTTATATAAA
Found at i:11965581 original size:18 final size:19
Alignment explanation
Indices: 11965547--11965597 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
11965537 TTAATTAATT
* * *
11965547 TTTTTTTTATTTTTAAG-G
1 TTTTTTTTATATATAAGCC
11965565 TTTTTTTTATATATAAGCC
1 TTTTTTTTATATATAAGCC
*
11965584 TTTTATTTATATAT
1 TTTTTTTTATATAT
11965598 CCATTCCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTTTTATATATAAGCC
Found at i:11966287 original size:24 final size:24
Alignment explanation
Indices: 11966260--11966306 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11966250 CATCTCTTCT
11966260 TTTTTCTCTGCAT-TTTCTTTTTCC
1 TTTTTC-CTGCATCTTTCTTTTTCC
* *
11966284 TTTTTCCTTCTTCTTTCTTTTTC
1 TTTTTCCTGCATCTTTCTTTTTC
11966307 TTTGTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTCCTGCATCTTTCTTTTTCC
Found at i:11966294 original size:17 final size:17
Alignment explanation
Indices: 11966274--11966306 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11966264 TCTCTGCATT
11966274 TTCTT-TTTCCTTTTTCC
1 TTCTTCTTT-CTTTTTCC
11966291 TTCTTCTTTCTTTTTC
1 TTCTTCTTTCTTTTTC
11966307 TTTGTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCTTCTTTCTTTTTCC
Found at i:11969104 original size:40 final size:40
Alignment explanation
Indices: 11969046--11969246 Score: 246
Period size: 40 Copynumber: 5.0 Consensus size: 40
11969036 CGGATGATAA
* *
11969046 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
11969086 CCGGGCTAAG-CCTTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
* *
11969126 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
11969166 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
11969206 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
11969246 C
1 C
11969247 TGGTTAAATT
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 131 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:11969175 original size:80 final size:80
Alignment explanation
Indices: 11969042--11969246 Score: 306
Period size: 80 Copynumber: 2.6 Consensus size: 80
11969032 TATTCGGATG
* * * * **
11969042 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCTTGAAGGC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCCGAAGGC
*
11969106 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACC
11969122 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
11969187 TTTGTGCGAGTTACC
66 TTTGTGCGAGTTACC
*
11969202 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTA-CTATATC
11969247 TGGTTAAATT
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
79 2 0.02
80 112 0.97
81 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
TTTGTGCGAGTTACC
Found at i:11970833 original size:27 final size:27
Alignment explanation
Indices: 11970803--11970980 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
11970793 ATATTGAGCC
* *
11970803 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
11970830 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11970857 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
11970885 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11970912 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
11970939 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11970966 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
11970981 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11970942 original size:82 final size:81
Alignment explanation
Indices: 11970824--11970979 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
11970814 TGCTATATAA
* * * *
11970824 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
11970889 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11970906 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11970970 CCCTTAGTGC
65 CACTTAGTGC
11970980 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11978819 original size:27 final size:27
Alignment explanation
Indices: 11978789--11978966 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
11978779 ATATTGAGCC
* *
11978789 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
11978816 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11978843 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
11978871 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11978898 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
11978925 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
11978952 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
11978967 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11978928 original size:82 final size:81
Alignment explanation
Indices: 11978810--11978965 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
11978800 TGCTATATAA
* * * *
11978810 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
11978875 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11978892 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
11978956 CCCTTAGTGC
65 CACTTAGTGC
11978966 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11987211 original size:15 final size:15
Alignment explanation
Indices: 11987191--11987219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11987181 GTCACCAAAA
11987191 TATCTACATACTTTT
1 TATCTACATACTTTT
11987206 TATCTACATACTTT
1 TATCTACATACTTT
11987220 CTTTAATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (15 bp):
TATCTACATACTTTT
Found at i:12001178 original size:5 final size:5
Alignment explanation
Indices: 12001157--12001191 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
12001147 CCTCTAGTCC
*
12001157 TTTAC TTTAT TTT-T TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
12001192 AATTAGAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:12001454 original size:19 final size:20
Alignment explanation
Indices: 12001414--12001453 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12001404 TCAAATTAAA
12001414 TAAAAAATATGAACAATTTT
1 TAAAAAATATGAACAATTTT
* *
12001434 TAAAAAATATTAATAATTTT
1 TAAAAAATATGAACAATTTT
12001454 ATTTAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
TAAAAAATATGAACAATTTT
Found at i:12003472 original size:46 final size:48
Alignment explanation
Indices: 12003328--12003688 Score: 236
Period size: 48 Copynumber: 7.7 Consensus size: 48
12003318 ATTGTGTGCT
* * *
12003328 AGTGTAAGA-CATATCTGGGACAT-GCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTA-AGCC
* * * * * *
12003374 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
*
12003422 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
* * * *
12003468 AGTGTAA-AGCATGTCTAGAACAT-GCATCGG-CTACGAGATGT---TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAAGCC
* * * * *
12003511 AGTGTAAGACAATGTTTGGGACATGGCATCGGCAT-GTATAGAGGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG---AGATGTAAGCC
* * * *
12003559 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-GGATATGTAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A-AGCC
* ** *
12003609 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA-AGCC
* *
12003658 AGTGTAAGACCAT-TCTAGGACATGGCGTCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
12003689 TATTATACCC
Statistics
Matches: 254, Mismatches: 40, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
43 8 0.03
44 12 0.05
45 10 0.04
46 67 0.26
47 29 0.11
48 71 0.28
49 20 0.08
50 36 0.14
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
Found at i:12006157 original size:35 final size:35
Alignment explanation
Indices: 12006110--12006208 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 35
12006100 TATATCTAAG
* *
12006110 TATACAATTTCAATATAAGTTCACATGTAATCGAA
1 TATACAAATTCAATATAAGTTCACATGTAACCGAA
** * *
12006145 TACTA-AAATTCAATATAACCTCACATGCAGCCGAA
1 TA-TACAAATTCAATATAAGTTCACATGTAACCGAA
*
12006180 TATACAAGTTCAATATAAGCTT-ACATGTA
1 TATACAAATTCAATATAAG-TTCACATGTA
12006209 CTTACCTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
34 2 0.04
35 46 0.90
36 3 0.06
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (35 bp):
TATACAAATTCAATATAAGTTCACATGTAACCGAA
Found at i:12014358 original size:48 final size:46
Alignment explanation
Indices: 12014257--12014384 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
12014247 GATATTGTGT
* *
12014257 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACACTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACACAACGAGA
* * ** *
12014303 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGA-AACGGGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-ACACAACGAGA
*
12014351 GCTAGTGTAAGACATGTCTGGGATATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
12014385 CTCGAGATGT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 18 0.26
47 27 0.39
48 23 0.33
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACACAACGAGA
Found at i:12014367 original size:47 final size:46
Alignment explanation
Indices: 12014260--12014566 Score: 178
Period size: 46 Copynumber: 6.5 Consensus size: 46
12014250 ATTGTGTGCT
* *
12014260 AGTGTAAGACATGTCTGGGACATGCATCGGCA-ACACTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATAGA-AATGAGAGCC
* * * * *
12014306 AGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAAACGGGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAAATGAGAGCC
* * * *
12014354 AGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATAGAAATG-AGAGCC
* * * * *
12014400 AGTGTAAGACATGTCTAGGACATGCTTCGGC-TACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATA-GAAATGAGAGCC
* * * * * * *
12014444 AGTGCAAGATCATGTCTGGGACATGCCATCAGCACATATA-GAAGTGTC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCATAGAAATG-AGAGCC
* ** * *
12014492 AATGTAAGACCATGTCTGGGATTTAGCATCGGCA-CGAATATGTAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAA-ATG--AGAGCC
*
12014542 AGTGTAAGACCATTTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12014567 GCGTCTGCCT
Statistics
Matches: 201, Mismatches: 44, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
44 10 0.05
45 15 0.07
46 64 0.32
47 29 0.14
48 55 0.27
49 4 0.02
50 24 0.12
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATAGAAATGAGAGCC
Found at i:12014404 original size:46 final size:46
Alignment explanation
Indices: 12014260--12014469 Score: 196
Period size: 46 Copynumber: 4.5 Consensus size: 46
12014250 ATTGTGTGCT
* *
12014260 AGTGTAAGACATGTCTGGGACATGCATCGGCAAC-ACTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGA-GATGTA-AGCC
* * * * ** *
12014306 AGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAAACGGGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGATGTAAGCC
* *
12014354 AGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGTAAGCC
* * *
12014400 AGTGTAAGACATGTCTAGGACATGCTTCGGC-TACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGATGTAAGCC
*
12014444 AGTGCAAGATCATGTCTGGGACATGC
1 AGTGTAAGA-CATGTCTGGGACATGC
12014470 CATCAGCACA
Statistics
Matches: 136, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 60 0.44
47 27 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGTAAGCC
Found at i:12016751 original size:27 final size:26
Alignment explanation
Indices: 12016705--12016778 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
12016695 ATTACTGAAA
* * *
12016705 TACCCTCAAATTGTAAAATTATCAAAG
1 TACCCTCAATTTATAGAATTATC-AAG
***
12016732 TACCCTCAATTTATAGAATTATCGTT
1 TACCCTCAATTTATAGAATTATCAAG
*
12016758 TACCCTCGATTTATAGAATTA
1 TACCCTCAATTTATAGAATTA
12016779 CTGTTTTATC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 20 0.50
27 20 0.50
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (26 bp):
TACCCTCAATTTATAGAATTATCAAG
Found at i:12016784 original size:26 final size:27
Alignment explanation
Indices: 12016732--12016860 Score: 100
Period size: 27 Copynumber: 4.8 Consensus size: 27
12016722 ATTATCAAAG
* * *
12016732 TACCCTCAATTTATAGAATTA-TCGTT
1 TACCCTCGATTTACAGAATTACTAGTT
*
12016758 TACCCTCGATTTATAGAATTACT-GTTT
1 TACCCTCGATTTACAGAATTACTAG-TT
* * * *
12016785 TATCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTAGTT
* * ***
12016812 TACCGTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACTAGTT
* *
12016839 TACCCTCGGTTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
12016861 CAAAATACCC
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
26 21 0.25
27 63 0.75
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTAGTT
Found at i:12016842 original size:27 final size:27
Alignment explanation
Indices: 12016812--12017070 Score: 154
Period size: 27 Copynumber: 9.6 Consensus size: 27
12016802 ATTATTATTT
* *
12016812 TACCGTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
12016839 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
12016866 TACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * ** * *
12016893 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * ** *
12016919 TACCCTTGGTTTGTAAAATTA-TAGAAA
1 TACCCTCGATTTACAAAATTACCA-AAA
* **
12016946 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
12016973 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* ** **
12017000 TACCACT-GGTTTATGAAATTACTGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
** *
12017027 TACCCTC-AGTTTGTAAAACTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
12017054 TACCC-CTGATTTACAAA
1 TACCCTC-GATTTACAAA
12017071 GTTATAGAAA
Statistics
Matches: 188, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
26 29 0.15
27 156 0.83
28 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:12016875 original size:54 final size:55
Alignment explanation
Indices: 12016826--12017142 Score: 247
Period size: 54 Copynumber: 5.8 Consensus size: 55
12016816 GTCGATTTAC
* * *
12016826 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGA-TTAGT
1 AAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAATACCCTCGAGTTTGT
* * ** * *
12016880 AAAATTACCAAAATACCCT-AGTCTGTAAAATTGCTAAAATACCCTTG-GTTTGT
1 AAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAATACCCTCGAGTTTGT
* ** ** * *
12016933 AAAATTA-TAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCA-AAATACCCTCGGTTTACAAAATTACTAAAATACCCTCGAGTTTGT
** *
12016987 AAAATTACCAAAATACCACT-GGTTTATGAAATTACTGAAATACCCTC-AGTTTGT
1 AAAATTACCAAAATACC-CTCGGTTTACAAAATTACTAAAATACCCTCGAGTTTGT
* * * ** * *
12017041 AAAACTACCAAAATACCC-CTGATTTACAAAGTTA-TAGAAATACCCTTAACTTTCT
1 AAAATTACCAAAATACCCTC-GGTTTACAAAATTACTA-AAATACCCTCGAGTTTGT
** * * *
12017096 AAAAATTATAAAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 -AAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAATACCCT
12017143 TGGTTTCTAG
Statistics
Matches: 209, Mismatches: 40, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
52 1 0.00
53 43 0.21
54 120 0.57
55 9 0.04
56 35 0.17
57 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAATACCCTCGAGTTTGT
Found at i:12017019 original size:81 final size:81
Alignment explanation
Indices: 12016826--12017060 Score: 316
Period size: 81 Copynumber: 2.9 Consensus size: 81
12016816 GTCGATTTAC
* * * *
12016826 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCA-AAATACCCTCGATTAGTAAAATTACCA
1 AAAATTACTAAAATACCCT-GGTTTATAAAATTACTAGAAATACCCTCAATTTGTAAAATTACCA
12016890 AAATA-CCCTAGTCTGT
65 AAATACCCCTAGTCTGT
* *
12016906 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTA-TAGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACTAAAATACCC-TGGTTTATAAAATTACTAGAAATACCCTCAATTTGTAAAATTACCA
*
12016970 AAATACCCCTAGTTTGT
65 AAATACCCCTAGTCTGT
* * * *
12016987 AAAATTACCAAAATACCACTGGTTTATGAAATTACT-GAAATACCCTCAGTTTGTAAAACTACCA
1 AAAATTACTAAAATACC-CTGGTTTATAAAATTACTAGAAATACCCTCAATTTGTAAAATTACCA
12017051 AAATACCCCT
65 AAATACCCCT
12017061 GATTTACAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 1 0.01
80 59 0.43
81 75 0.55
82 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTGGTTTATAAAATTACTAGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTCTGT
Found at i:12017232 original size:27 final size:27
Alignment explanation
Indices: 12017202--12017293 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
12017192 ACCTCTATTA
*
12017202 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
12017229 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
12017256 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
12017283 GGTAAAATGAC
1 GGTAAAATGAC
12017294 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:12018164 original size:25 final size:26
Alignment explanation
Indices: 12018093--12018189 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
12018083 GAGGAAGTGC
12018093 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
12018119 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
12018145 GAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
12018170 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
12018190 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 32 0.49
26 33 0.51
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:12018485 original size:31 final size:31
Alignment explanation
Indices: 12018408--12018486 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
12018398 CGTTTACAGT
*
12018408 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
12018439 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
12018470 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
12018487 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:12022388 original size:362 final size:362
Alignment explanation
Indices: 12021723--12022447 Score: 1387
Period size: 362 Copynumber: 2.0 Consensus size: 362
12021713 ATTAAGTTAT
12021723 TCACCGTGGGGTGCTTCGGTAGTTTTTGTGAGAAAGAAAGACAGGTTAATGATATTGTGTATAGA
1 TCACCGTGGGGTGCTTCGGTAGTTTTTGTGAGAAAGAAAGACAGGTTAATGATATTGTGTATAGA
12021788 ATATCGACAGCTCAACAAGGTATCCATGAAGAACAAGTATCCCTTGCCAAGGATCGATGATTTGT
66 ATATCGACAGCTCAACAAGGTATCCATGAAGAACAAGTATCCCTTGCCAAGGATCGATGATTTGT
*
12021853 TCGATTAGTTGAGGGGAGCCACCGTGTTTTCCAAGATTGACTTAAGGCCGTCCTACTATTAGCTA
131 TCGATTAGTTGAGGGGAGCCACCGTGTTTTCCAAGATTGACTTAAGGCCATCCTACTATTAGCTA
12021918 AAGGTTAAGGAGTAAGATGTACTGAAAACCGTGTTTAGAACAAGGTATGGGCACTATGAGTTTCT
196 AAGGTTAAGGAGTAAGATGTACTGAAAACCGTGTTTAGAACAAGGTATGGGCACTATGAGTTTCT
* *
12021983 TGATATGCCCTTCGGTTTAACGAATGCTCCTGCGGTGTTTATGAATTTGATGAATTGCTTTTTCT
261 TGATATGCCCTTCGGTTTAACGAATGCTCCTGCGGTGTTTATGAATTTGATGAACTGCTTTTTCC
*
12022048 GACCATATTTGCATAAGTTTGTAGTGGTCTTTATCGA
326 GACCATATTTGCATAAGTTTGTAATGGTCTTTATCGA
*
12022085 TCACCGTGGGGTGCTTCGGTAGTTTTTGTGAGAAAGAAAGATAGGTTAATGATATTGTGTATAGA
1 TCACCGTGGGGTGCTTCGGTAGTTTTTGTGAGAAAGAAAGACAGGTTAATGATATTGTGTATAGA
12022150 ATATCGACAGCTCAACAAGGTATCCATGAAGAACAAGTATCCCTTGCCAAGGATCGATGATTTGT
66 ATATCGACAGCTCAACAAGGTATCCATGAAGAACAAGTATCCCTTGCCAAGGATCGATGATTTGT
*
12022215 TCGATTAGTTGAGGGGAGGCACCGTGTTTTCCAAGATTGACTTAAGGCCATCCTACTATTAGCTA
131 TCGATTAGTTGAGGGGAGCCACCGTGTTTTCCAAGATTGACTTAAGGCCATCCTACTATTAGCTA
12022280 AAGGTTAAGGAGTAAGATGTACTGAAAACCGTGTTTAGAACAAGGTATGGGCACTATGAGTTTCT
196 AAGGTTAAGGAGTAAGATGTACTGAAAACCGTGTTTAGAACAAGGTATGGGCACTATGAGTTTCT
12022345 TGATATGCCCTTCGGTTTAACGAATGCTCCTGCGGTGTTTATGAATTTGATGAACTGCTTTTTCC
261 TGATATGCCCTTCGGTTTAACGAATGCTCCTGCGGTGTTTATGAATTTGATGAACTGCTTTTTCC
*
12022410 GACCGTATTTGCATAAGTTTGTAATGGTCTTTATCGA
326 GACCATATTTGCATAAGTTTGTAATGGTCTTTATCGA
12022447 T
1 T
12022448 GACATACTGA
Statistics
Matches: 356, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
362 356 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (362 bp):
TCACCGTGGGGTGCTTCGGTAGTTTTTGTGAGAAAGAAAGACAGGTTAATGATATTGTGTATAGA
ATATCGACAGCTCAACAAGGTATCCATGAAGAACAAGTATCCCTTGCCAAGGATCGATGATTTGT
TCGATTAGTTGAGGGGAGCCACCGTGTTTTCCAAGATTGACTTAAGGCCATCCTACTATTAGCTA
AAGGTTAAGGAGTAAGATGTACTGAAAACCGTGTTTAGAACAAGGTATGGGCACTATGAGTTTCT
TGATATGCCCTTCGGTTTAACGAATGCTCCTGCGGTGTTTATGAATTTGATGAACTGCTTTTTCC
GACCATATTTGCATAAGTTTGTAATGGTCTTTATCGA
Found at i:12025332 original size:79 final size:82
Alignment explanation
Indices: 12025221--12025405 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
12025211 GCTACTCGTT
* *
12025221 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
12025284 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
12025301 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
12025364 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
12025381 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12025406 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 36 0.40
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:12025405 original size:40 final size:41
Alignment explanation
Indices: 12025221--12025405 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 41
12025211 GCTACTCGTT
* *
12025221 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTAGCA
* * *
12025261 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* *
12025301 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTAGCA
* * *
12025340 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
12025381 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12025406 CATCATTCGA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:12029455 original size:48 final size:49
Alignment explanation
Indices: 12029388--12029569 Score: 151
Period size: 48 Copynumber: 3.7 Consensus size: 49
12029378 GCTACGAGAT
*
12029388 GTGTCAGTGTAAGATCATGTCTGGGACATGGCATCAGCAC-ATATAG-AA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATAT-GTAA
* ** * *
12029436 GTGTCAATGTAAGACCATGTCTGGGATTTAGCATCGGCACGGATATGTAA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GATATGTAA
* ** * *
12029486 GAG-CTAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTCG--ATGTCAA
1 GTGTC-AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGATATGT-AA
* *
12029535 -TACTCAGTGTAAGGCCATGTCTGGGACATGGCATC
1 GT-GTCAGTGTAAGACCATGTCTGGGACATGGCATC
12029570 GGCATTATAA
Statistics
Matches: 107, Mismatches: 19, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
48 38 0.36
49 31 0.29
50 36 0.34
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATATGTAA
Found at i:12029523 original size:50 final size:50
Alignment explanation
Indices: 12029256--12029573 Score: 205
Period size: 46 Copynumber: 6.7 Consensus size: 50
12029246 ATTGTGTGCT
* * * *
12029256 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAAACG--GGAGCT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGTAAGAGCTC
* * * *
12029303 AGTATAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGT-A-AGC-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGTAAGAGCTC
* * *
12029349 AGTGTAAGA-CATGTCTAGGACAT-GCTTCGGCTACGAGATGT----G-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGTAAGAGCTC
* * *
12029393 AGTGTAAGATCATGTCTGGGACATGGCATCAGCAC-ATATAG-AAGTG-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAT-GTAAGAGCTC
* ** *
12029441 AATGTAAGACCATGTCTGGGATTTAGCATCGGCACGGATATGTAAGAGCT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGTAAGAGCTC
** * *
12029491 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTCG--ATGTCAATA-CTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGT-AAGAGCTC
*
12029540 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
12029574 TTATAACCTA
Statistics
Matches: 219, Mismatches: 33, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
44 14 0.06
45 17 0.08
46 56 0.26
47 22 0.10
48 39 0.18
49 33 0.15
50 35 0.16
51 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGTAAGAGCTC
Found at i:12037768 original size:13 final size:13
Alignment explanation
Indices: 12037749--12037788 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
12037739 AGAGTAATAG
12037749 CACACGGGCGTGT
1 CACACGGGCGTGT
* *
12037762 TACACGGGTGTGT
1 CACACGGGCGTGT
12037775 CACACGGGCGTGT
1 CACACGGGCGTGT
12037788 C
1 C
12037789 CCTTCCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.20
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:12042045 original size:39 final size:40
Alignment explanation
Indices: 12041930--12042072 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
12041920 TACTCGTTCA
* *
12041930 AATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA-C
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACC
*
12041969 AATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AA-TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * *
12042010 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
12042049 AATGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
12042073 CATCATTCGA
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
39 37 0.40
40 51 0.55
41 5 0.05
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:12058494 original size:46 final size:46
Alignment explanation
Indices: 12058427--12058555 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
12058417 TGTAACCCGC
* * * *
12058427 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
12058473 CCATAAGTGAACTCGGACTCAACTCAACGTGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
12058519 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12058556 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Done.