Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 55 of 163
Found at i:13758942 original size:148 final size:149
Alignment explanation
Indices: 13758743--13759035 Score: 408
Period size: 148 Copynumber: 2.0 Consensus size: 149
13758733 TTCAACATTT
* *
13758743 CCTTCCATATCTCCATGGTACAAGATTCGTCGTTGTGGCCTCAATCTTTCCCATCACATCTTCTA
1 CCTTCCATATCTCCATGGTACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTA
* * * * *
13758808 AGGTACTGGGTTCACCGTTACGGGCTCAACTTTTCCCTTCATATCTTCATGATACCAGATTCGCC
66 AGGTACAGGGTTCACCATTACGGCCTCAACCTTTCCCTTCATATCTTCATGATACCAGATTCACC
*
13758873 GTTGCGGCCTCAATCTTTC
131 GTTACGGCCTCAATCTTTC
* **
13758892 CCTT-CATATCTTCATGGTACCGGATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTA
1 CCTTCCATATCTCCATGGTACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTA
* * * * ** * *
13758956 AGGTACAGGGTTTATCATTGCGGCCTTAACCTTTCCCTTCATATCTTTTTGGTACCGGATTCACC
66 AGGTACAGGGTTCACCATTACGGCCTCAACCTTTCCCTTCATATCTTCATGATACCAGATTCACC
13759021 GTTACGGCCTCAATC
131 GTTACGGCCTCAATC
13759036 CTTCTTATCA
Statistics
Matches: 125, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
148 121 0.97
149 4 0.03
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.34
Consensus pattern (149 bp):
CCTTCCATATCTCCATGGTACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTA
AGGTACAGGGTTCACCATTACGGCCTCAACCTTTCCCTTCATATCTTCATGATACCAGATTCACC
GTTACGGCCTCAATCTTTC
Found at i:13758977 original size:99 final size:99
Alignment explanation
Indices: 13758779--13759107 Score: 340
Period size: 99 Copynumber: 3.3 Consensus size: 99
13758769 TCGTCGTTGT
* * * * * * *
13758779 GGCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGTTCACCGTTACGGGCTCAA-CTTTTC
1 GGCCTCAATCTTTCCCTTCATATCTTC-ATGGTACCGGATTCACCGTTACGGCCTCAATC-CTTC
* * * * * * *
13758843 CCTTCATATCTTC-ATGATACCA-GATTCGCCGTTGC
64 CCATCACATCTTCTAAGGTA-CAGGGTTCACCATTGC
** *
13758878 GGCCTCAATCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGCGGCCTCAATCCTTCCC
1 GGCCTCAATCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCCTTCCC
* *
13758943 ATCACATCTTCTAAGGTACAGGGTTTATCATTGC
66 ATCACATCTTCTAAGGTACAGGGTTCACCATTGC
* * ** **
13758977 GGCCTTAACCTTTCCCTTCATATCTTTTTGGTACCGGATTCACCGTTACGGCCTCAATCCTTCTT
1 GGCCTCAATCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCCTTCCC
* * *
13759042 ATCATATCTTTTAAGGTACTGGGTTCACCATTGC
66 ATCACATCTTCTAAGGTACAGGGTTCACCATTGC
* *
13759076 GACCTCAATATTTCCCTTCATATCTTCATGGT
1 GGCCTCAATCTTTCCCTTCATATCTTCATGGT
13759108 TCCTCGATTC
Statistics
Matches: 188, Mismatches: 39, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
98 39 0.21
99 149 0.79
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.36
Consensus pattern (99 bp):
GGCCTCAATCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTACGGCCTCAATCCTTCCC
ATCACATCTTCTAAGGTACAGGGTTCACCATTGC
Found at i:13760929 original size:16 final size:15
Alignment explanation
Indices: 13760903--13760952 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
13760893 TCATATTGAC
* *
13760903 TTTTCTTTCTTTTCT
1 TTTTTTTTCTTCTCT
13760918 TTTCTTTTTCTTCTCT
1 TTT-TTTTTCTTCTCT
*
13760934 TTTTTTTATCTCCTCT
1 TTTTTTT-TCTTCTCT
13760950 TTT
1 TTT
13760953 AATAGTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.23
16 23 0.77
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTTCTTCTCT
Found at i:13764207 original size:70 final size:70
Alignment explanation
Indices: 13764094--13764243 Score: 291
Period size: 70 Copynumber: 2.1 Consensus size: 70
13764084 TGTCCCCAGT
13764094 GGAGTCGCCAAGCTGTCGAAACTATTTTTTCGAAAAAAGTTTAGAAAATTATTTTTAAAATTGAA
1 GGAGTCGCCAAGCTGTCGAAACTATTTTTTCGAAAAAAGTTTAGAAAATTATTTTTAAAATTGAA
13764159 AAATG
66 AAATG
*
13764164 GGAGTCGCCAAGCTGTCGAAACTATTTTTTTGAAAAAAGTTTAGAAAATTATTTTTAAAATTGAA
1 GGAGTCGCCAAGCTGTCGAAACTATTTTTTCGAAAAAAGTTTAGAAAATTATTTTTAAAATTGAA
13764229 AAATG
66 AAATG
13764234 GGAGTCGCCA
1 GGAGTCGCCA
13764244 CCAATCTTTA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 79 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (70 bp):
GGAGTCGCCAAGCTGTCGAAACTATTTTTTCGAAAAAAGTTTAGAAAATTATTTTTAAAATTGAA
AAATG
Found at i:13768802 original size:16 final size:16
Alignment explanation
Indices: 13768773--13768824 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
13768763 TAAAACAACT
* *
13768773 TAACTCTAATTAAAAA
1 TAACTCAAAATAAAAA
*
13768789 TAACTCAAAAT-AAAC
1 TAACTCAAAATAAAAA
*
13768804 TAAACTTAAAATAAAAA
1 T-AACTCAAAATAAAAA
13768821 TAAC
1 TAAC
13768825 ATAAAACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (16 bp):
TAACTCAAAATAAAAA
Found at i:13772321 original size:20 final size:21
Alignment explanation
Indices: 13772295--13772343 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
13772285 CATTTAACAC
13772295 TCATGTATCAATACCTA-TAGG
1 TCATGTATCAATACC-ACTAGG
*
13772316 -CATGTATGAATACCACTAGG
1 TCATGTATCAATACCACTAGG
13772336 TCATGTAT
1 TCATGTAT
13772344 TGATACATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 17 0.68
21 7 0.28
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (21 bp):
TCATGTATCAATACCACTAGG
Found at i:13772349 original size:21 final size:21
Alignment explanation
Indices: 13772295--13772349 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
13772285 CATTTAACAC
**
13772295 TCATGTATCAATACCTATAGG
1 TCATGTATTGATACCTATAGG
13772316 -CATGTA-TGAATACC-ACTAGG
1 TCATGTATTG-ATACCTA-TAGG
13772336 TCATGTATTGATAC
1 TCATGTATTGATAC
13772350 ATGAAAGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 1 0.04
20 15 0.54
21 10 0.36
22 2 0.07
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (21 bp):
TCATGTATTGATACCTATAGG
Found at i:13772609 original size:16 final size:16
Alignment explanation
Indices: 13772573--13772611 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13772563 GTTTGGTTCG
13772573 CTGTAATGGAATAGAT
1 CTGTAATGGAATAGAT
*
13772589 GTGTAATGGAATAGGA-
1 CTGTAATGGAATA-GAT
13772605 CTGTAAT
1 CTGTAAT
13772612 TAGGGATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAT
Found at i:13772849 original size:13 final size:13
Alignment explanation
Indices: 13772831--13772857 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13772821 AAATTTATAT
13772831 TACCCAAACCCAA
1 TACCCAAACCCAA
13772844 TACCCAAACCCAA
1 TACCCAAACCCAA
13772857 T
1 T
13772858 TTACTATACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (13 bp):
TACCCAAACCCAA
Found at i:13773144 original size:58 final size:58
Alignment explanation
Indices: 13773054--13773168 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 58
13773044 ATCAACAAAT
*
13773054 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAA-AACACTCATAAAC
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCATAAAC
* * *
13773112 TAAACCCAAATATTTTTAAACTCAAATATAATTTTATTCCTAAATGACACTCATAAA
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAA
13773169 TAACTCATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 3 0.06
58 49 0.94
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (58 bp):
TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
Found at i:13774120 original size:58 final size:58
Alignment explanation
Indices: 13774051--13774178 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 58
13774041 AATTTTAATG
* * *
13774051 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATACAATTTAAT-AAAATAATATA-TAATTTAATAATATTTTTAACATA
*
13774109 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAATATTTTTAACATA
13774167 ATTATTATTAAA
1 ATTATTATTAAA
13774179 ATATGAATCA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
57 20 0.31
58 44 0.69
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:13778599 original size:21 final size:22
Alignment explanation
Indices: 13778566--13778607 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
13778556 AAGGGTTGTT
13778566 TCTTAGGATTGTCTTTGTGTTAA
1 TCTTAGGA-TGTCTTTGTGTTAA
13778589 TCTTAGG-TGTCTTTGTGTT
1 TCTTAGGATGTCTTTGTGTT
13778608 TATTGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.55
Consensus pattern (22 bp):
TCTTAGGATGTCTTTGTGTTAA
Found at i:13787440 original size:44 final size:44
Alignment explanation
Indices: 13787383--13787473 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
13787373 CAATTTATAA
13787383 CATCTACTAAACCATTAAACAGTCCATACCATTACCAAAACATT
1 CATCTACTAAACCATTAAACAGTCCATACCATTACCAAAACATT
*
13787427 CATCTACTAAACCATTAAACATTCCATACCATTACCAAAACATT
1 CATCTACTAAACCATTAAACAGTCCATACCATTACCAAAACATT
13787471 CAT
1 CAT
13787474 GTCAATAACT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (44 bp):
CATCTACTAAACCATTAAACAGTCCATACCATTACCAAAACATT
Found at i:13787446 original size:23 final size:23
Alignment explanation
Indices: 13787383--13787450 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
13787373 CAATTTATAA
*
13787383 CATCTACTAAACCATTAAACAGT
1 CATCTACTAAACCATTAAACATT
* *
13787406 C--CATACCATTACCA--AAACATT
1 CATC-TACTA-AACCATTAAACATT
13787427 CATCTACTAAACCATTAAACATT
1 CATCTACTAAACCATTAAACATT
13787450 C
1 C
13787451 CATACCATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.26
Consensus pattern (23 bp):
CATCTACTAAACCATTAAACATT
Found at i:13787470 original size:21 final size:21
Alignment explanation
Indices: 13787399--13787471 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
13787389 CTAAACCATT
*
13787399 AAACAGTCCATACCATTACCA
1 AAACATTCCATACCATTACCA
* *
13787420 AAACATT-CAT-CTACTAAACCA
1 AAACATTCCATACCA-T-TACCA
13787441 TTAAACATTCCATACCATTACCA
1 --AAACATTCCATACCATTACCA
13787464 AAACATTC
1 AAACATTC
13787472 ATGTCAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
19 2 0.05
20 4 0.10
21 18 0.44
23 11 0.27
24 4 0.10
25 2 0.05
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (21 bp):
AAACATTCCATACCATTACCA
Found at i:13788841 original size:15 final size:15
Alignment explanation
Indices: 13788821--13788850 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13788811 ATCACATTTC
13788821 CATTTCCATAACCAT
1 CATTTCCATAACCAT
*
13788836 CATTTCCATACCCAT
1 CATTTCCATAACCAT
13788851 TATGCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (15 bp):
CATTTCCATAACCAT
Found at i:13789313 original size:23 final size:23
Alignment explanation
Indices: 13789270--13789314 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13789260 TTTTGTTCAT
*
13789270 AACATAAATAAAATTAAAAATTC
1 AACATAAATAAAATCAAAAATTC
*
13789293 AACAT-AATAATAATCATAAATT
1 AACATAAATAA-AATCAAAAATT
13789315 TACCAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (23 bp):
AACATAAATAAAATCAAAAATTC
Found at i:13792792 original size:25 final size:24
Alignment explanation
Indices: 13792735--13792793 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
13792725 AAAAATAGGT
* *
13792735 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
13792758 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
13792782 TATTTTAATAAT
1 TATATT-ATAAT
13792794 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:13792812 original size:39 final size:38
Alignment explanation
Indices: 13792758--13792844 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
13792748 TCTAATATTA
* *
13792758 TATATTATAATTTTTACT-AATTCATATTTTAATAATAAT
1 TATATTAAAAATTTTACTAAATT-ATA-TTTAATAATAAT
* *
13792797 TATATTAAAAATTTTATTAAATTGTATTTAATAATAAT
1 TATATTAAAAATTTTACTAAATTATATTTAATAATAAT
*
13792835 TATGTTAAAA
1 TATATTAAAA
13792845 TATAATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 21 0.50
39 17 0.40
40 4 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (38 bp):
TATATTAAAAATTTTACTAAATTATATTTAATAATAAT
Found at i:13792889 original size:26 final size:26
Alignment explanation
Indices: 13792794--13792890 Score: 69
Period size: 26 Copynumber: 3.7 Consensus size: 26
13792784 TTTTAATAAT
13792794 AATTATA-TTAA-AA-A-TTTTATTA
1 AATTATATTTAATAATATTTTTATTA
* *
13792816 AATTGTATTTAATAATAATTATGTTAAAATA
1 AATTATATTTAATAAT-ATT-T-TT--ATTA
*
13792847 TAATTA-AATTAATTAATATTTTTATTA
1 -AATTATATTTAA-TAATATTTTTATTA
13792874 AATTATATTTAATAATA
1 AATTATATTTAATAATA
13792891 ATCATTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
22 6 0.11
23 4 0.07
24 2 0.04
26 11 0.19
27 9 0.16
28 1 0.02
29 4 0.07
30 1 0.02
31 11 0.19
32 8 0.14
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
AATTATATTTAATAATATTTTTATTA
Found at i:13793083 original size:16 final size:16
Alignment explanation
Indices: 13793062--13793133 Score: 126
Period size: 16 Copynumber: 4.5 Consensus size: 16
13793052 TGAATTACTG
*
13793062 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
13793078 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
13793094 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
13793110 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
13793126 ATTACAGC
1 ATTACAGC
13793134 GAACCAAACG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 53 1.00
ACGTcount: A:0.28, C:0.32, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:13794539 original size:34 final size:34
Alignment explanation
Indices: 13794496--13794571 Score: 152
Period size: 34 Copynumber: 2.2 Consensus size: 34
13794486 GTAGGGCTAA
13794496 AAAAATAGAACATTGAGATATTGTTATTTTGCCC
1 AAAAATAGAACATTGAGATATTGTTATTTTGCCC
13794530 AAAAATAGAACATTGAGATATTGTTATTTTGCCC
1 AAAAATAGAACATTGAGATATTGTTATTTTGCCC
13794564 AAAAATAG
1 AAAAATAG
13794572 TAAGAGTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (34 bp):
AAAAATAGAACATTGAGATATTGTTATTTTGCCC
Found at i:13797175 original size:25 final size:22
Alignment explanation
Indices: 13797121--13797171 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
13797111 TTATTTTCTT
*
13797121 TTAAAT-ATCATATTTTTATAA
1 TTAAATAAACATATTTTTATAA
*
13797142 TTAAATAAACATATTTTTATTA
1 TTAAATAAACATATTTTTATAA
13797164 TTAAATAA
1 TTAAATAA
13797172 TAAAATCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAATAAACATATTTTTATAA
Found at i:13798477 original size:15 final size:14
Alignment explanation
Indices: 13798429--13798487 Score: 59
Period size: 15 Copynumber: 4.2 Consensus size: 14
13798419 TTAAGTTAGG
*
13798429 ATTTATTATATTTA
1 ATTTAATATATTTA
*
13798443 ATTTAA-ATATATA
1 ATTTAATATATTTA
13798456 A-TTAATATATTTTA
1 ATTTAATATA-TTTA
*
13798470 ATTTAATACAATTTA
1 ATTTAATA-TATTTA
13798485 ATT
1 ATT
13798488 ATTATTATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
12 4 0.11
13 10 0.27
14 9 0.24
15 13 0.35
16 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTAATATATTTA
Found at i:13799096 original size:30 final size:29
Alignment explanation
Indices: 13799062--13799124 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
13799052 GTTAATAATT
* *
13799062 TATAAAAATAGACCAAATCAAAATTTCATA
1 TATAAAAATACACAAAATCAAAATTT-ATA
* * *
13799092 TATAAAATTACACAAAATTAAAGTTTATA
1 TATAAAAATACACAAAATCAAAATTTATA
13799121 TATA
1 TATA
13799125 TAATTGCACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.32
Consensus pattern (29 bp):
TATAAAAATACACAAAATCAAAATTTATA
Found at i:13799107 original size:29 final size:28
Alignment explanation
Indices: 13799075--13799134 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
13799065 AAAAATAGAC
13799075 CAAATCAAAATTTCATATATAAAATTACA
1 CAAATCAAAATTT-ATATATAAAATTACA
* * * *
13799104 CAAAATTAAAGTTTATATATATAATTGCA
1 C-AAATCAAAATTTATATATAAAATTACA
13799133 CA
1 CA
13799135 TAAAATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.04
29 15 0.58
30 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (28 bp):
CAAATCAAAATTTATATATAAAATTACA
Found at i:13799690 original size:34 final size:34
Alignment explanation
Indices: 13799647--13799736 Score: 180
Period size: 34 Copynumber: 2.6 Consensus size: 34
13799637 TTATTTCTAT
13799647 TATTCAATTACTATTGCCTTTTCCTTTTTTGGGG
1 TATTCAATTACTATTGCCTTTTCCTTTTTTGGGG
13799681 TATTCAATTACTATTGCCTTTTCCTTTTTTGGGG
1 TATTCAATTACTATTGCCTTTTCCTTTTTTGGGG
13799715 TATTCAATTACTATTGCCTTTT
1 TATTCAATTACTATTGCCTTTT
13799737 AATGTAAGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.17, C:0.18, G:0.12, T:0.53
Consensus pattern (34 bp):
TATTCAATTACTATTGCCTTTTCCTTTTTTGGGG
Found at i:13806294 original size:3 final size:3
Alignment explanation
Indices: 13806286--13806333 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
13806276 CTTATTAAAC
13806286 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13806334 AACCAAACAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13806407 original size:22 final size:21
Alignment explanation
Indices: 13806364--13806407 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 21
13806354 CTTTTAAAGA
*
13806364 AAAACAATAGAAAATTTTATT
1 AAAACAATAGAAAATTTCATT
13806385 AAAA-AATAGAAAATGATTCATT
1 AAAACAATAGAAAAT--TTCATT
13806407 A
1 A
13806408 CAAGATGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAACAATAGAAAATTTCATT
Found at i:13808633 original size:12 final size:12
Alignment explanation
Indices: 13808611--13808645 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13808601 GCAAATGGAT
*
13808611 CATTTCCATTTC
1 CATTTTCATTTC
*
13808623 CATTTTTATTTC
1 CATTTTCATTTC
13808635 CATTTTCATTT
1 CATTTTCATTT
13808646 TTGGAAACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:13808635 original size:18 final size:18
Alignment explanation
Indices: 13808612--13808647 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13808602 CAAATGGATC
13808612 ATTTCCATTTCCATTTTT
1 ATTTCCATTTCCATTTTT
*
13808630 ATTTCCATTTTCATTTTT
1 ATTTCCATTTCCATTTTT
13808648 GGAAACCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTT
Found at i:13811071 original size:48 final size:49
Alignment explanation
Indices: 13811014--13811162 Score: 128
Period size: 48 Copynumber: 3.3 Consensus size: 49
13811004 ATAAGATGCT
*
13811014 CATATCATTC-CATTTCAATATACTTTTATTCACATATAGCAATATTTA
1 CATAACATTCACATTTCAATATACTTTTATTCACATATAGCAATATTTA
* * **
13811062 CATAACATTCACA-TT-GATATAC---CATGT-A-ATA-A-C---ATGCA
1 CATAACATTCACATTTCAATATACTTTTAT-TCACATATAGCAATATTTA
* *
13811100 CATATCATTC-CATCTCAATATACTTTTATTCACATATAGCAATATTTA
1 CATAACATTCACATTTCAATATACTTTTATTCACATATAGCAATATTTA
13811148 CATAACATTCACATT
1 CATAACATTCACATT
13811163 GATATACTTC
Statistics
Matches: 73, Mismatches: 13, Indels: 29
0.63 0.11 0.25
Matches are distributed among these distances:
37 2 0.03
38 13 0.18
39 6 0.08
41 2 0.03
42 4 0.05
43 6 0.08
44 4 0.05
45 2 0.03
47 6 0.08
48 23 0.32
49 5 0.07
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (49 bp):
CATAACATTCACATTTCAATATACTTTTATTCACATATAGCAATATTTA
Found at i:13811140 original size:86 final size:86
Alignment explanation
Indices: 13810995--13811169 Score: 323
Period size: 86 Copynumber: 2.0 Consensus size: 86
13810985 CAAAATTATT
* * *
13810995 TACCATGTAATAAGATGCTCATATCATTCCATTTCAATATACTTTTATTCACATATAGCAATATT
1 TACCATGTAATAACATGCACATATCATTCCATCTCAATATACTTTTATTCACATATAGCAATATT
13811060 TACATAACATTCACATTGATA
66 TACATAACATTCACATTGATA
13811081 TACCATGTAATAACATGCACATATCATTCCATCTCAATATACTTTTATTCACATATAGCAATATT
1 TACCATGTAATAACATGCACATATCATTCCATCTCAATATACTTTTATTCACATATAGCAATATT
13811146 TACATAACATTCACATTGATA
66 TACATAACATTCACATTGATA
13811167 TAC
1 TAC
13811170 TTCATATCCT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (86 bp):
TACCATGTAATAACATGCACATATCATTCCATCTCAATATACTTTTATTCACATATAGCAATATT
TACATAACATTCACATTGATA
Found at i:13812543 original size:82 final size:82
Alignment explanation
Indices: 13812401--13812554 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 82
13812391 ATATGGTTCC
* ** *
13812401 GTCAATTCATGGCACCCAGTGCCTAGCAGATAAACCTCAATAAGTGAGTTCAACTGTAGTTGGAT
1 GTCAATTCATGGCACCCAGTGCCTAGCAGATAAACCACAATAAGTGAGCCCAACTCTAGTTGGAT
13812466 TAACCAACAATAAATTT
66 TAACCAACAATAAATTT
* * * *
13812483 GTCAATTGC-TGGTACCTAGTGTCTAGCGGATAAACCACAATAAGTGAGCCCAACTCTAGTTGGA
1 GTCAATT-CATGGCACCCAGTGCCTAGCAGATAAACCACAATAAGTGAGCCCAACTCTAGTTGGA
*
13812547 TTATCCAA
65 TTAACCAA
13812555 TGGTTTTGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
82 61 0.98
83 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (82 bp):
GTCAATTCATGGCACCCAGTGCCTAGCAGATAAACCACAATAAGTGAGCCCAACTCTAGTTGGAT
TAACCAACAATAAATTT
Found at i:13816652 original size:25 final size:27
Alignment explanation
Indices: 13816624--13816681 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
13816614 CAAGGCATCC
* *
13816624 AATTAT-AATTTTTT-TTTGATCACTT
1 AATTATAAATTTTTTAGTTGATCACCT
13816649 AATTATAAATTTTTTAAGTTGATCACCT
1 AATTATAAATTTTTT-AGTTGATCACCT
13816677 AATTA
1 AATTA
13816682 ATTGGAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 8 0.29
28 14 0.50
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (27 bp):
AATTATAAATTTTTTAGTTGATCACCT
Found at i:13823712 original size:20 final size:20
Alignment explanation
Indices: 13823687--13823728 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13823677 GGTGAGAAGT
13823687 AAAAGTTTA-AGGGAAAAATA
1 AAAAGTTTAGA-GGAAAAATA
*
13823707 AAAAGTTTTGAGGAAAAATA
1 AAAAGTTTAGAGGAAAAATA
13823727 AA
1 AA
13823729 TAGGGGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAAGTTTAGAGGAAAAATA
Found at i:13832635 original size:18 final size:19
Alignment explanation
Indices: 13832581--13832638 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
13832571 AAATTACAAA
*
13832581 AAAAATTCAAAATATATTTT
1 AAAAATTCAAAATAT-TTAT
*
13832601 CAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
13832620 AAAAATTCTAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
13832638 A
1 A
13832639 TTTTTCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.21
19 13 0.38
20 14 0.41
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:13832910 original size:61 final size:60
Alignment explanation
Indices: 13832774--13832918 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 60
13832764 ATACATTTTG
* * *
13832774 TCAATTTAATCTTAAATCT-AAAAATTCAACAAATTTAGCCTAAATATTTTAAAAATATA
1 TCAATTTAATTTTAATTCTAAAAAATTCAACAAATTTAGCCTAAACATTTTAAAAATATA
* * * *
13832833 T-ATATTTAGTTCTAATTCTAAAAAATTCAATAAATTTAGTCCTAAACA-TTTACAAAATTTA
1 TCA-ATTTAATTTTAATTCTAAAAAATTCAACAAATTTAG-CCTAAACATTTTA-AAAATATA
13832894 TCAATTTAATTTTAATTCTAAAAAA
1 TCAATTTAATTTTAATTCTAAAAAA
13832919 ATTAAATTTG
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
58 1 0.01
59 13 0.18
60 22 0.31
61 35 0.49
62 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (60 bp):
TCAATTTAATTTTAATTCTAAAAAATTCAACAAATTTAGCCTAAACATTTTAAAAATATA
Found at i:13832962 original size:16 final size:15
Alignment explanation
Indices: 13832929--13832967 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13832919 ATTAAATTTG
13832929 TTTTAAAAAAATCGT
1 TTTTAAAAAAATCGT
*
13832944 TTTTAAATAAAAT-GA
1 TTTTAAA-AAAATCGT
13832959 TTTTAAAAA
1 TTTTAAAAA
13832968 TCTAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (15 bp):
TTTTAAAAAAATCGT
Found at i:13833142 original size:2 final size:2
Alignment explanation
Indices: 13833135--13833187 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
13833125 AAAGCAATTT
* *
13833135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
13833177 TA TT TA TA TA T
1 TA TA TA TA TA T
13833188 TTGTGTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:13833261 original size:19 final size:20
Alignment explanation
Indices: 13833239--13833283 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
13833229 TAAAATTTAC
13833239 AAAATATTATAAAA-AACA-T
1 AAAATATTATAAAACAA-ATT
*
13833258 AAAA-GTTATAAAACAAATT
1 AAAATATTATAAAACAAATT
13833277 AAAATAT
1 AAAATAT
13833284 ATGGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 9 0.43
19 11 0.52
20 1 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAATATTATAAAACAAATT
Found at i:13834449 original size:10 final size:10
Alignment explanation
Indices: 13834436--13834548 Score: 56
Period size: 10 Copynumber: 11.6 Consensus size: 10
13834426 ACTTTCTATA
13834436 TTTTTATAAT
1 TTTTTATAAT
** *
13834446 TTTTTGCACTT
1 TTTTTATA-AT
13834457 TTTTTATATAT
1 TTTTTATA-AT
*
13834468 GTTTTATAAT
1 TTTTTATAAT
*
13834478 TTTTT-TCAT
1 TTTTTATAAT
*
13834487 TTTTAAT-A-
1 TTTTTATAAT
* *
13834495 CTTTTATAGT
1 TTTTTATAAT
*
13834505 TTTATAT-AT
1 TTTTTATAAT
* *
13834514 TTCTTATGAT
1 TTTTTATAAT
*
13834524 TTTCTAT-AT
1 TTTTTATAAT
*
13834533 TTTTTATGAT
1 TTTTTATAAT
13834543 TTTTTA
1 TTTTTA
13834549 CTGATTTCAA
Statistics
Matches: 75, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
8 5 0.07
9 22 0.29
10 33 0.44
11 15 0.20
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.67
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:13834474 original size:32 final size:30
Alignment explanation
Indices: 13834432--13834490 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
13834422 TATAACTTTC
13834432 TATATTTTTATAATTTTTTGCACTTTTTTTA
1 TATATTTTTATAATTTTTTGCA-TTTTTTTA
*
13834463 TATATGTTTTATAATTTTTTTCATTTTT
1 TATAT-TTTTATAATTTTTTGCATTTTT
13834491 AATACTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (30 bp):
TATATTTTTATAATTTTTTGCATTTTTTTA
Found at i:13834526 original size:19 final size:19
Alignment explanation
Indices: 13834504--13834545 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13834494 ACTTTTATAG
13834504 TTTTATATATTTCTTATGA
1 TTTTATATATTTCTTATGA
* *
13834523 TTTTCTATATTTTTTATGA
1 TTTTATATATTTCTTATGA
13834542 TTTT
1 TTTT
13834546 TTACTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTATATATTTCTTATGA
Found at i:13834527 original size:11 final size:10
Alignment explanation
Indices: 13834512--13834555 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
13834502 AGTTTTATAT
*
13834512 ATTTCTTATG
1 ATTTTTTATG
*
13834522 ATTTTCTAT-
1 ATTTTTTATG
13834531 ATTTTTTATG
1 ATTTTTTATG
13834541 ATTTTTTACTG
1 ATTTTTTA-TG
13834552 ATTT
1 ATTT
13834556 CAAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 15 0.52
11 6 0.21
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.66
Consensus pattern (10 bp):
ATTTTTTATG
Found at i:13834536 original size:77 final size:79
Alignment explanation
Indices: 13834393--13834537 Score: 170
Period size: 77 Copynumber: 1.9 Consensus size: 79
13834383 TTATACTTTA
* * *
13834393 TATATATTTTTTGTCATTTATAATAATCTTATAACTTTCTATATTTTTATAATTTTTTGCACTTT
1 TATATATTTTTTGTCATTTATAATAATCTTATAACTTTATATATTTTTATAATTTTCTACACTTT
13834458 TTTTATATATGTTT
66 TTTTATATATGTTT
* * * ** * *
13834472 TATA-ATTTTTT-TCATTTTTAATACTTTTATAGTTTTATATATTTCTTATGATTTTCTATA-TT
1 TATATATTTTTTGTCATTTATAATAATCTTATAACTTTATATATTT-TTATAATTTTCTACACTT
13834534 TTTT
65 TTTT
13834538 ATGATTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
77 33 0.60
78 18 0.33
79 4 0.07
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (79 bp):
TATATATTTTTTGTCATTTATAATAATCTTATAACTTTATATATTTTTATAATTTTCTACACTTT
TTTTATATATGTTT
Found at i:13834741 original size:4 final size:4
Alignment explanation
Indices: 13834734--13834778 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
13834724 CTCTATATAT
* * * *
13834734 ATAG ATAG ATAG TTAG ATAG ATAG ATAG TTAG TTAG TTAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
13834779 GAGAGAGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (4 bp):
ATAG
Found at i:13834750 original size:8 final size:8
Alignment explanation
Indices: 13834734--13834777 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
13834724 CTCTATATAT
*
13834734 ATAGATAG
1 ATAGTTAG
13834742 ATAGTTAG
1 ATAGTTAG
*
13834750 ATAGATAG
1 ATAGTTAG
13834758 ATAGTTAG
1 ATAGTTAG
*
13834766 TTAGTTAG
1 ATAGTTAG
13834774 ATAG
1 ATAG
13834778 AGAGAGAGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (8 bp):
ATAGTTAG
Found at i:13834755 original size:16 final size:16
Alignment explanation
Indices: 13834734--13834777 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
13834724 CTCTATATAT
13834734 ATAGATAGATAGTTAG
1 ATAGATAGATAGTTAG
13834750 ATAGATAGATAGTTAG
1 ATAGATAGATAGTTAG
* *
13834766 TTAGTTAGATAG
1 ATAGATAGATAG
13834778 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (16 bp):
ATAGATAGATAGTTAG
Found at i:13834783 original size:2 final size:2
Alignment explanation
Indices: 13834776--13834814 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13834766 TTAGTTAGAT
13834776 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13834815 TGTCACATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13836151 original size:18 final size:18
Alignment explanation
Indices: 13836128--13836162 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13836118 TTTTATTCTA
* *
13836128 TTTATGTCAATTAATTTT
1 TTTATGTAAAATAATTTT
13836146 TTTATGTAAAATAATTT
1 TTTATGTAAAATAATTT
13836163 AAGTTTAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTATGTAAAATAATTTT
Found at i:13838728 original size:31 final size:31
Alignment explanation
Indices: 13838693--13838780 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
13838683 AATTTGATAT
13838693 TTTTTTTTAATTTGATACTTAAACTTAACAA
1 TTTTTTTTAATTTGATACTTAAACTTAACAA
* * * * *
13838724 TTTTTTCTAATTTGGTACCTAAACTTGACAC
1 TTTTTTTTAATTTGATACTTAAACTTAACAA
* *
13838755 TTTTTCTTAAGTTGATACTTAAACTT
1 TTTTTTTTAATTTGATACTTAAACTT
13838781 TTTGGGGTCC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.50
Consensus pattern (31 bp):
TTTTTTTTAATTTGATACTTAAACTTAACAA
Found at i:13848072 original size:39 final size:39
Alignment explanation
Indices: 13848024--13848098 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
13848014 CAGTTTAGTA
* * *
13848024 TTGCGTTACGGTATTTACAGTGTTACTGTCAATTCAATG
1 TTGCATTACGATATTTACAGTGTTACCGTCAATTCAATG
*
13848063 TTGCATTACGATATTTTCAGTGTTACCGTCAATTCA
1 TTGCATTACGATATTTACAGTGTTACCGTCAATTCA
13848099 GTATCTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (39 bp):
TTGCATTACGATATTTACAGTGTTACCGTCAATTCAATG
Found at i:13851738 original size:3 final size:3
Alignment explanation
Indices: 13851730--13851761 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13851720 ATACTGCTAT
*
13851730 TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
13851762 CGTGAACGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:13852839 original size:42 final size:39
Alignment explanation
Indices: 13852736--13852897 Score: 166
Period size: 39 Copynumber: 4.1 Consensus size: 39
13852726 TTTAATATCT
* * *
13852736 AATATACTACTGAATTGGAAGTGACACTGTAAACACTGC
1 AATATACAACTGAACTGGTAGTGACACTGTAAACACTGC
* * *
13852775 AATATACTATTGAACTGGTAGTGACGCTGTAAACACTGC
1 AATATACAACTGAACTGGTAGTGACACTGTAAACACTGC
13852814 GTGACAT-TACAACTGAACTGGTAGTGACACTGTAAACACTGC
1 ---A-ATATACAACTGAACTGGTAGTGACACTGTAAACACTGC
* * **
13852856 AATACTACAA-TCAAACCGACAGTGACACTGTAAACACTGC
1 AATA-TACAACT-GAACTGGTAGTGACACTGTAAACACTGC
13852896 AA
1 AA
13852898 AGTTATCACT
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.02
39 37 0.35
40 31 0.30
42 33 0.31
43 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (39 bp):
AATATACAACTGAACTGGTAGTGACACTGTAAACACTGC
Found at i:13854775 original size:21 final size:21
Alignment explanation
Indices: 13854733--13854776 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
13854723 TCGAGGCACC
* *
13854733 GGTAGAGGTGGTACTATTTTT
1 GGTAGAGGTGGTACCATGTTT
* *
13854754 GGTAGGGGTGGTACCGTGTTT
1 GGTAGAGGTGGTACCATGTTT
13854775 GG
1 GG
13854777 CATAGGTTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.07, G:0.43, T:0.36
Consensus pattern (21 bp):
GGTAGAGGTGGTACCATGTTT
Found at i:13857640 original size:52 final size:52
Alignment explanation
Indices: 13857548--13857682 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
13857538 TAAATGACAA
* ** *
13857548 AGGTCCGATGACTATGTGTCATCGTGCGTATATGTATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGTATCCTTTACGGAAAAAG
* *
13857600 AGGTCCGATGACTATGTGTCATCGTGAGTGTATG-ATTCCTTTATGGAAAAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGTA-TCCTTTACGGAAAAAG
* *
13857652 TGGTCCGATGACTATGTGTTATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
13857683 TAAATGAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 1 0.01
52 72 0.99
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGTATCCTTTACGGAAAAAG
Found at i:13858439 original size:21 final size:21
Alignment explanation
Indices: 13858413--13858464 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
13858403 GAAGTTTTTA
13858413 GTATCGGTAGTAGTAT-GACTT
1 GTATCGGTAGTAGTATCG-CTT
* * *
13858434 GTATCGATAGTTGTCTCGCTT
1 GTATCGGTAGTAGTATCGCTT
13858455 GTATCGGTAG
1 GTATCGGTAG
13858465 AACTATCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.38
Consensus pattern (21 bp):
GTATCGGTAGTAGTATCGCTT
Found at i:13858834 original size:7 final size:7
Alignment explanation
Indices: 13858822--13858854 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
13858812 AATTTATATG
13858822 GAATTTT
1 GAATTTT
13858829 GAATTTT
1 GAATTTT
13858836 GAATTTT
1 GAATTTT
13858843 -AATTATT
1 GAATT-TT
13858850 GAATT
1 GAATT
13858855 AAAAGTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.17
7 16 0.67
8 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (7 bp):
GAATTTT
Found at i:13861055 original size:42 final size:42
Alignment explanation
Indices: 13860986--13861223 Score: 334
Period size: 42 Copynumber: 5.6 Consensus size: 42
13860976 GAACCACTTG
*
13860986 ATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
1 ATGTTTAAA-GGAAGACTCATGTCTCGGGATGAGCATGAGATT
13861029 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* **
13861071 ATATTTAAAGGAAGACTCATGTCTTAGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* *
13861113 ATGTTTAAAGGAAGACTCGTGACTCGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* * * *
13861155 ATGTTTAAAGGAATACTCGTGACTCGGGATGAGCATAAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* *
13861197 GT-TTATAAATGGAAGACTTATGTCTCG
1 ATGTT-TAAA-GGAAGACTCATGTCTCG
13861224 ACTAGAGCAT
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
41 2 0.01
42 154 0.87
43 21 0.12
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
Found at i:13861233 original size:43 final size:44
Alignment explanation
Indices: 13861185--13861280 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 44
13861175 GACTCGGGAT
** *
13861185 GAGCATAAGATTGTTTATAAATGGAAG-ACTTATGTCTC-GACTA
1 GAGCATAAGATCATTTATAAATGGAAGAACTTATGACTCAGA-TA
*
13861228 GAGCATAAGATCATTTGTAAATGGAAGAACTTATGACTCAGATA
1 GAGCATAAGATCATTTATAAATGGAAGAACTTATGACTCAGATA
*
13861272 AAGCATAAG
1 GAGCATAAG
13861281 GTTAATTCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 24 0.52
44 20 0.43
45 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (44 bp):
GAGCATAAGATCATTTATAAATGGAAGAACTTATGACTCAGATA
Found at i:13862426 original size:18 final size:18
Alignment explanation
Indices: 13862403--13862438 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13862393 AATACATGTT
13862403 AACTCAGAAAGAGTTGAA
1 AACTCAGAAAGAGTTGAA
13862421 AACTCAGAAAGAGTTGAA
1 AACTCAGAAAGAGTTGAA
13862439 CCTCAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.22, T:0.17
Consensus pattern (18 bp):
AACTCAGAAAGAGTTGAA
Found at i:13864886 original size:56 final size:56
Alignment explanation
Indices: 13864825--13864934 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
13864815 ATATAGGGGA
* * *
13864825 CACACGAGTTGAGCCCACAGGCGTGTGCTAGACCGTGTGAACATACTGTTTTGTGT
1 CACACGAGCTGAGCACACAGGCGTGTGCCAGACCGTGTGAACATACTGTTTTGTGT
* * * *
13864881 CACACGAGCTGGGCACACGGGCGTGTGCCAGATCGTGTGAATATACTGTTTTGT
1 CACACGAGCTGAGCACACAGGCGTGTGCCAGACCGTGTGAACATACTGTTTTGT
13864935 AGTTTCAGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (56 bp):
CACACGAGCTGAGCACACAGGCGTGTGCCAGACCGTGTGAACATACTGTTTTGTGT
Found at i:13865229 original size:39 final size:39
Alignment explanation
Indices: 13865181--13865303 Score: 120
Period size: 39 Copynumber: 3.1 Consensus size: 39
13865171 TGTTAATATC
*
13865181 TAATATACTACTGAATTAGAAATGACACTGTAAACACTG
1 TAATATACTACTGAACTAGAAATGACACTGTAAACACTG
* * * * *
13865220 TAATGTACTACTGAACTGGCAGTGACACTGTAAACATTG
1 TAATATACTACTGAACTAGAAATGACACTGTAAACACTG
* * * * * *
13865259 CAATATTACAACTGAACTGGCAGTGACACTTTAAACACTG
1 TAATA-TACTACTGAACTAGAAATGACACTGTAAACACTG
*
13865299 CAATA
1 TAATA
13865304 CTACAATTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 36 0.50
40 36 0.50
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (39 bp):
TAATATACTACTGAACTAGAAATGACACTGTAAACACTG
Found at i:13865282 original size:40 final size:40
Alignment explanation
Indices: 13865203--13865341 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
13865193 GAATTAGAAA
* * *
13865203 TGACACTGTAAACACTGTAAT-GTACTACTGAACTGGCAG
1 TGACACTGTAAACACTGCAATACTACAACTGAACTGGCAG
* *
13865242 TGACACTGTAAACATTGCAATATTACAACTGAACTGGCAG
1 TGACACTGTAAACACTGCAATACTACAACTGAACTGGCAG
* * * *
13865282 TGACACTTTAAACACTGCAATACTACAATTGGACCGGCAG
1 TGACACTGTAAACACTGCAATACTACAACTGAACTGGCAG
*
13865322 TGACATTGTAAACACTGCAA
1 TGACACTGTAAACACTGCAA
13865342 CGTTATCACT
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 19 0.22
40 68 0.78
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (40 bp):
TGACACTGTAAACACTGCAATACTACAACTGAACTGGCAG
Found at i:13866816 original size:20 final size:19
Alignment explanation
Indices: 13866783--13866821 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
13866773 ATGGTTGTCA
13866783 TGGATTTGGTTTTTGCTTTT
1 TGGATTTGGTTTTT-CTTTT
13866803 TGGATTT-GTATTTTCTTTT
1 TGGATTTGGT-TTTTCTTTT
13866822 GTCATAGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.08, C:0.05, G:0.21, T:0.67
Consensus pattern (19 bp):
TGGATTTGGTTTTTCTTTT
Found at i:13872013 original size:71 final size:71
Alignment explanation
Indices: 13871854--13871994 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 71
13871844 GGTACTGCTG
* * *
13871854 ATACAACCAAGACTTATATCGGTAGAACAAACTCTAGAGAGCAAAGAAGTTGTGGCCTGGGACTT
1 ATACAACGAAGACTTCTATCGGTAGAACAAACTCTAGAGAGCAAAGAAGTTGTGGCCTGAGACTT
13871919 CTACCA
66 CTACCA
13871925 ATACAACGAAGACTTCTATCGGTAGAACAAACTCTAGAGAGCAAAGAAGTTGTGGCCTGAGACTT
1 ATACAACGAAGACTTCTATCGGTAGAACAAACTCTAGAGAGCAAAGAAGTTGTGGCCTGAGACTT
13871990 CTACC
66 CTACC
13871995 GATATCTGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (71 bp):
ATACAACGAAGACTTCTATCGGTAGAACAAACTCTAGAGAGCAAAGAAGTTGTGGCCTGAGACTT
CTACCA
Found at i:13879190 original size:12 final size:12
Alignment explanation
Indices: 13879153--13879191 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13879143 TTTGTGATCA
13879153 AAATTGGAAGTG
1 AAATTGGAAGTG
* *
13879165 AAAGTGAAAGTG
1 AAATTGGAAGTG
*
13879177 AAATTGGAATTG
1 AAATTGGAAGTG
13879189 AAA
1 AAA
13879192 ATGATATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (12 bp):
AAATTGGAAGTG
Found at i:13880893 original size:27 final size:29
Alignment explanation
Indices: 13880862--13880915 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
13880852 GTCATCTTCT
13880862 TCCCCAA-ACCACCATCC-CCATTTTCGG
1 TCCCCAACACCACCATCCACCATTTTCGG
* *
13880889 TCCCCAACCCCACCTTCCACCATTTTC
1 TCCCCAACACCACCATCCACCATTTTC
13880916 ACTAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 8 0.35
29 8 0.35
ACGTcount: A:0.20, C:0.52, G:0.04, T:0.24
Consensus pattern (29 bp):
TCCCCAACACCACCATCCACCATTTTCGG
Found at i:13883357 original size:71 final size:71
Alignment explanation
Indices: 13883230--13883381 Score: 223
Period size: 71 Copynumber: 2.1 Consensus size: 71
13883220 TCCCTTGGCA
* * * *
13883230 TTACCGATACAACCAAGACTTCTATCGGTAGAACAAACTCTAGTGAGCAAAAAAGTTGTGGCTTG
1 TTACCGATACAACCAAGACTTCTATCAGTAGAACAAACTCTAGAGAGCAAAAAAGTTATGGCCTG
*
13883295 GGATTT
66 GGACTT
* * *
13883301 TTACCGATACAACCAAGACTTCTATCATTAGAACAAACTCTAGAGAGTAAAGAAGTTATGGCCTG
1 TTACCGATACAACCAAGACTTCTATCAGTAGAACAAACTCTAGAGAGCAAAAAAGTTATGGCCTG
13883366 GGACTT
66 GGACTT
*
13883372 CTACCGATAC
1 TTACCGATAC
13883382 CTGGAAGGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (71 bp):
TTACCGATACAACCAAGACTTCTATCAGTAGAACAAACTCTAGAGAGCAAAAAAGTTATGGCCTG
GGACTT
Found at i:13891375 original size:17 final size:17
Alignment explanation
Indices: 13891353--13891392 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
13891343 TTGTAGTATA
*
13891353 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
13891370 ATTGTCACTGCATTTTT
1 ATTGTCACTGCATTTTT
13891387 ATTGTC
1 ATTGTC
13891393 GCTACATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:13892010 original size:13 final size:14
Alignment explanation
Indices: 13891994--13892022 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13891984 AAAAAGAGAG
13891994 AAAAGG-AAAGAAA
1 AAAAGGTAAAGAAA
13892007 AAAAGGTAAAGAAA
1 AAAAGGTAAAGAAA
13892021 AA
1 AA
13892023 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (14 bp):
AAAAGGTAAAGAAA
Found at i:13893871 original size:15 final size:15
Alignment explanation
Indices: 13893848--13893880 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13893838 CAATGCAACC
*
13893848 ATCCTATAATTTGAA
1 ATCCCATAATTTGAA
13893863 ATCCCATAATTTGAA
1 ATCCCATAATTTGAA
13893878 ATC
1 ATC
13893881 AACTTATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (15 bp):
ATCCCATAATTTGAA
Found at i:13901998 original size:29 final size:28
Alignment explanation
Indices: 13901950--13902028 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
13901940 ATATGTATAT
*
13901950 AATAATGTAAAAAAAGAAAGAAAATGATGA
1 AATAAT-TAAAAAAAGAAAGAAAATAAT-A
*
13901980 AATAATTAAAAAAATAAAGAAAATAATA
1 AATAATTAAAAAAAGAAAGAAAATAATA
*
13902008 AAGAATTAAAAAAAGAAAGAA
1 AATAATTAAAAAAAGAAAGAA
13902029 TTTGAAATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 20 0.44
29 19 0.42
30 6 0.13
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.16
Consensus pattern (28 bp):
AATAATTAAAAAAAGAAAGAAAATAATA
Found at i:13908361 original size:21 final size:20
Alignment explanation
Indices: 13908321--13908364 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
13908311 ATATTGATTA
*
13908321 TAAAAAGGATTGATTAAAGT
1 TAAAAAGGATTAATTAAAGT
13908341 TAAAAAGATGATTAATT-AAGT
1 TAAAAAG--GATTAATTAAAGT
13908362 TAA
1 TAA
13908365 TTATGAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TAAAAAGGATTAATTAAAGT
Found at i:13909040 original size:248 final size:248
Alignment explanation
Indices: 13908595--13909100 Score: 940
Period size: 248 Copynumber: 2.0 Consensus size: 248
13908585 ACTCAAGGAC
*
13908595 TAATTTGTGAGTCTGTTAAATTATAAAACTTGCCATTATTGAATAAGCTTATTCTTGAAAGCTTT
1 TAATTT-TGAGTCTGTCAAATTATAAAACTTGCCATTATTGAATAAGCTTATTCTTGAAAGCTTT
*
13908660 TGATGGATTTTTATGTTTGATGGTTAGATTTTATGATTTTGTAAAGCGATTTTTTATAAAGTTAT
65 TGATGGATTTTTATGTTTGATGGTTAGATTTTATGATTTTGTAAAGCGATTTTTTATAAAGTTAG
13908725 GGTTGAGGATTAGATTCTGAAAATGGTGAAATACATGTCCTTGATGTGAAATAATTGCATATAAG
130 GGTTGAGGATTAGATTCTGAAAATGGTGAAATACATGTCCTTGATGTGAAATAATTGCATATAAG
*
13908790 TGTTTGGTGAACATTCATGGATATTCAGATAGTATAGGCTGAAATGAAAAATGG
195 TGTTTGGTGAACAGTCATGGATATTCAGATAGTATAGGCTGAAATGAAAAATGG
13908844 TAATTTTGAGTCTGTCAAATTATAAAACTTGCCATTATTGAATAAGCTTATTCTTGAAAGCTTTT
1 TAATTTTGAGTCTGTCAAATTATAAAACTTGCCATTATTGAATAAGCTTATTCTTGAAAGCTTTT
*
13908909 GATGGATTTTTATGTTTGATGGTTAGATTTTATGATTTTGTAAAGTGATTTTTTATAAAGTTAGG
66 GATGGATTTTTATGTTTGATGGTTAGATTTTATGATTTTGTAAAGCGATTTTTTATAAAGTTAGG
*
13908974 GTTGAGGATTAGATTGTGAAAATGGTGAAATACATGTCCTTGATGTGAAATAATTGCATATAAGT
131 GTTGAGGATTAGATTCTGAAAATGGTGAAATACATGTCCTTGATGTGAAATAATTGCATATAAGT
*
13909039 GTTTGGTGAACAGTCATGGATATTCGGATAGTATAGGCTGAAATGAAAAATGG
196 GTTTGGTGAACAGTCATGGATATTCAGATAGTATAGGCTGAAATGAAAAATGG
*
13909092 TTATTTTGA
1 TAATTTTGA
13909101 ATGTTTTGTA
Statistics
Matches: 250, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
248 244 0.98
249 6 0.02
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (248 bp):
TAATTTTGAGTCTGTCAAATTATAAAACTTGCCATTATTGAATAAGCTTATTCTTGAAAGCTTTT
GATGGATTTTTATGTTTGATGGTTAGATTTTATGATTTTGTAAAGCGATTTTTTATAAAGTTAGG
GTTGAGGATTAGATTCTGAAAATGGTGAAATACATGTCCTTGATGTGAAATAATTGCATATAAGT
GTTTGGTGAACAGTCATGGATATTCAGATAGTATAGGCTGAAATGAAAAATGG
Found at i:13909490 original size:50 final size:49
Alignment explanation
Indices: 13909410--13909548 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 49
13909400 TAAATGGAAA
*
13909410 ACTCATGTCTTGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCAAAG
1 ACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTC-AAG
* *
13909460 ACTCATGTCTCGAGATGAGAATGAGGTTATGTTTAAA-G--G--T--AG
1 ACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCAAG
*
13909502 ACTCATGTCTCGGGATTAGAATGAGATTATGTTTAAAGGAAGACTCA
1 ACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCA
13909549 CTTCTTAGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 15
0.78 0.06 0.15
Matches are distributed among these distances:
42 36 0.47
43 1 0.01
45 2 0.03
47 2 0.03
49 1 0.01
50 34 0.45
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (49 bp):
ACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCAAG
Found at i:13911044 original size:158 final size:158
Alignment explanation
Indices: 13910748--13911080 Score: 396
Period size: 158 Copynumber: 2.1 Consensus size: 158
13910738 TGTTACAGTT
* * * * * * *
13910748 ACAGCTCATGTGAGCATTACATGTTATATGGGTGCTGGTCTTGGATGTCCTACCGATGGCTGATG
1 ACAGCTCGTGTGAGCATTACAGGTTATATAGGTGCTAGTCTTAGATATCCTACCGATGGCTGAGG
* * * * * * * * *
13910813 TCTAACATTTATTGCAGATTCTTCACAGCTCTTGTGAGCAGCATCACGTAACCTAACATCTCAAT
66 TCCAACATTTATTACAGATTCTTCAAAGCTCGTGTAAACAACATCACGTAACCCAACATCTCAAC
* * *
13910878 GCATAGCTCGTGTGAGCAAGCCCATTTC
131 CCACAGCTCGTGTGAACAAGCCCATTTC
* *
13910906 ACATCTCGTGTGAGCATTACAGGTTATATAGGTGTTAGTCTTAGATATCCTACCGATGGCTGAGG
1 ACAGCTCGTGTGAGCATTACAGGTTATATAGGTGCTAGTCTTAGATATCCTACCGATGGCTGAGG
* * ** * **
13910971 TCCGACATTTATTACGGATTCTTCAAAGCTCGTGTAAACAACATCGTGTAACCCCACATCTTGAC
66 TCCAACATTTATTACAGATTCTTCAAAGCTCGTGTAAACAACATCACGTAACCCAACATCTCAAC
* *
13911036 CCACAGCTCGTGTGAACAGGCCCGTTTC
131 CCACAGCTCGTGTGAACAAGCCCATTTC
13911064 ACAGCTCGTGTGAGCAT
1 ACAGCTCGTGTGAGCAT
13911081 ATATGATTAC
Statistics
Matches: 144, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
158 144 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (158 bp):
ACAGCTCGTGTGAGCATTACAGGTTATATAGGTGCTAGTCTTAGATATCCTACCGATGGCTGAGG
TCCAACATTTATTACAGATTCTTCAAAGCTCGTGTAAACAACATCACGTAACCCAACATCTCAAC
CCACAGCTCGTGTGAACAAGCCCATTTC
Found at i:13912385 original size:7 final size:7
Alignment explanation
Indices: 13912373--13912405 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13912363 TGATCGGATC
13912373 GGGTGAA
1 GGGTGAA
13912380 GGGTGAA
1 GGGTGAA
13912387 GGGTGAA
1 GGGTGAA
13912394 GGGTGAA
1 GGGTGAA
13912401 GGGTG
1 GGGTG
13912406 TTATAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.61, T:0.15
Consensus pattern (7 bp):
GGGTGAA
Found at i:13918760 original size:15 final size:15
Alignment explanation
Indices: 13918718--13918768 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
13918708 TCAGATTACA
13918718 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
* *
13918733 TTTAAAAT-A-TTATG
1 TTT-TAGTCACTTATG
13918747 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
*
13918762 TTATAGT
1 TTTTAGT
13918769 TTTGTTACGA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (15 bp):
TTTTAGTCACTTATG
Found at i:13920367 original size:125 final size:125
Alignment explanation
Indices: 13920145--13920369 Score: 371
Period size: 125 Copynumber: 1.8 Consensus size: 125
13920135 TCATGCAATT
* * * *
13920145 TTTTTTCTTGTATGGTTGTTTTGTTTGCATTGTGGAATTAGTGTTCTTAGATTATCACAGATGCG
1 TTTTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGATCACAGACGCG
*
13920210 GCCGAAAGCTAAACCGGTGTGGCAGCTTTTAGATAATGGTTTCTCTATAGATTTTGAATG
66 GCCGAAAGCTAAACCGGTGAGGCAGCTTTTAGATAATGGTTTCTCTATAGATTTTGAATG
*
13920270 TTTTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGGTCACA-AGCGC
1 TTTTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGATCACAGA-CGC
*
13920334 GGCCGAAAGCTAAACCGGTGAGGCTGCTTTTAGATA
65 GGCCGAAAGCTAAACCGGTGAGGCAGCTTTTAGATA
13920370 TTAGATTTTG
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
124 1 0.01
125 91 0.99
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.41
Consensus pattern (125 bp):
TTTTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGATCACAGACGCG
GCCGAAAGCTAAACCGGTGAGGCAGCTTTTAGATAATGGTTTCTCTATAGATTTTGAATG
Found at i:13925112 original size:9 final size:9
Alignment explanation
Indices: 13925079--13925122 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
13925069 TATTAAAGAA
*
13925079 TATAAAATA
1 TATAAAATT
13925088 T-TAAAATAT
1 TATAAAAT-T
*
13925097 TAAAAAATT
1 TATAAAATT
13925106 TATAAAATT
1 TATAAAATT
13925115 TATAAAAT
1 TATAAAAT
13925123 CGGTTCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 6 0.20
9 19 0.63
10 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TATAAAATT
Found at i:13925400 original size:16 final size:16
Alignment explanation
Indices: 13925378--13925431 Score: 65
Period size: 15 Copynumber: 3.3 Consensus size: 16
13925368 TTCAAAATAA
13925378 AAAATAAAAATATTTT
1 AAAATAAAAATATTTT
*
13925394 TAAAT-AAAATATTTT
1 AAAATAAAAATATTTT
*
13925409 AAGAATATAAAATATTAT
1 AA-AATA-AAAATATTTT
13925427 AAAAT
1 AAAAT
13925432 TTAATGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 11 0.34
16 7 0.22
17 3 0.09
18 11 0.34
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAATAAAAATATTTT
Found at i:13939388 original size:34 final size:35
Alignment explanation
Indices: 13939343--13939408 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
13939333 TTAGTTTGTT
13939343 ACACGGCCTGGCCAGACGATCGTGT-ACCCCTTCC
1 ACACGGCCTGGCCAGACGATCGTGTAACCCCTTCC
* * * *
13939377 ACACGGTCTGGCTATACGGTCGTGTAACCCCT
1 ACACGGCCTGGCCAGACGATCGTGTAACCCCT
13939409 ATTTTACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.18, C:0.36, G:0.24, T:0.21
Consensus pattern (35 bp):
ACACGGCCTGGCCAGACGATCGTGTAACCCCTTCC
Found at i:13948119 original size:24 final size:24
Alignment explanation
Indices: 13948092--13948140 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13948082 AAAAGATCGA
13948092 GGATGTAAGGGCATTCACTGGTGT
1 GGATGTAAGGGCATTCACTGGTGT
13948116 GGATGTAAGGGCATTCACTGGTGT
1 GGATGTAAGGGCATTCACTGGTGT
13948140 G
1 G
13948141 AATTAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.39, T:0.29
Consensus pattern (24 bp):
GGATGTAAGGGCATTCACTGGTGT
Found at i:13948407 original size:17 final size:17
Alignment explanation
Indices: 13948369--13948431 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
13948359 TTTAGTTTTA
* *
13948369 AAATTTAGATTTATTTT
1 AAATTTAAATTTATTAT
* *
13948386 GAATTTAAATTT-GTAT
1 AAATTTAAATTTATTAT
13948402 AAAATTTAAATTTATTAT
1 -AAATTTAAATTTATTAT
13948420 AAATTTAAATTT
1 AAATTTAAATTT
13948432 CAAATTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
16 2 0.05
17 33 0.87
18 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
AAATTTAAATTTATTAT
Found at i:13948408 original size:34 final size:34
Alignment explanation
Indices: 13948367--13948431 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
13948357 AATTTAGTTT
* * *
13948367 TAAAATTTAGATTTATTTTGAATTTAAATTTGTA
1 TAAAATTTAAATTTATTATAAATTTAAATTTGTA
13948401 TAAAATTTAAATTTATTATAAATTTAAATTT
1 TAAAATTTAAATTTATTATAAATTTAAATTT
13948432 CAAATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (34 bp):
TAAAATTTAAATTTATTATAAATTTAAATTTGTA
Found at i:13948446 original size:23 final size:23
Alignment explanation
Indices: 13948403--13948446 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
13948393 AATTTGTATA
* *
13948403 AAATTTAAATTTATTATAAATTT
1 AAATTTAAATTAAATATAAATTT
13948426 AAATTTCAAATTAAATA-AAAT
1 AAATTT-AAATTAAATATAAAT
13948447 ATCCAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTTAAATTAAATATAAATTT
Found at i:13949255 original size:18 final size:18
Alignment explanation
Indices: 13949215--13949265 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
13949205 TTTTTAGGTA
*
13949215 ATAATAATAATAAATGTT
1 ATAATAATAATAAATGTG
*
13949233 TTAATAATAATAATAT-TG
1 ATAATAATAATAA-ATGTG
13949251 ATAATAATTAATAAA
1 ATAATAA-TAATAAA
13949266 AAGAAGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
ATAATAATAATAAATGTG
Found at i:13950015 original size:32 final size:33
Alignment explanation
Indices: 13949967--13950030 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
13949957 TACGCGTTTG
13949967 GTCCTTTCACATTTTTTAATTA-TTTTAATTTA
1 GTCCTTTCACATTTTTTAATTATTTTTAATTTA
13949999 GTCCTTTTCACA-TTTTTAATTATTTTTAATTT
1 GTCC-TTTCACATTTTTTAATTATTTTTAATTT
13950031 GGCCCAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.23, C:0.12, G:0.03, T:0.61
Consensus pattern (33 bp):
GTCCTTTCACATTTTTTAATTATTTTTAATTTA
Found at i:13950341 original size:29 final size:29
Alignment explanation
Indices: 13950300--13950366 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
13950290 ATAGGTCCTT
* *
13950300 AAACTGTTCAAAAATTA-TATTTTAACCCTA
1 AAACT-TTCAAAAATCACCATTTT-ACCCTA
* *
13950330 AAACTTTTAAAAATCACCATTTTACCCTC
1 AAACTTTCAAAAATCACCATTTTACCCTA
13950359 AAACTTTC
1 AAACTTTC
13950367 CATAATTCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.40, C:0.22, G:0.01, T:0.36
Consensus pattern (29 bp):
AAACTTTCAAAAATCACCATTTTACCCTA
Found at i:13950418 original size:30 final size:30
Alignment explanation
Indices: 13950370--13950470 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
13950360 AACTTTCCAT
13950370 AATT-CCATTTTTAACCCCGATTTCACCCAA
1 AATTACCA-TTTTAACCCCGATTTCACCCAA
* ** *
13950400 AATTACCATTTTACCCCCGAACTC-TCCAA
1 AATTACCATTTTAACCCCGATTTCACCCAA
* *
13950429 AA-TCCCATTTTAACCCCGATTTCACCAAA
1 AATTACCATTTTAACCCCGATTTCACCCAA
13950458 AATTACCATTTTA
1 AATTACCATTTTA
13950471 CCTCGAACTT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
28 17 0.30
29 11 0.19
30 26 0.46
31 3 0.05
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTACCATTTTAACCCCGATTTCACCCAA
Found at i:13950460 original size:58 final size:59
Alignment explanation
Indices: 13950338--13950771 Score: 460
Period size: 59 Copynumber: 7.4 Consensus size: 59
13950328 TAAAACTTTT
* * * *
13950338 AAAAATCACCATTTTACCCTCAAACTTTCCATAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * *
13950397 CAAAATTACCATTTTACCCCCGAACTCTCCAAAATCCCA-TTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * ** *** *
13950455 AAAAATTACCATTTTA-CCTCGAACTTTTTAAAATTTTATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * * * *
13950513 AAAAATTACCATTTTA-CTCCAGAACTTTTCACAATCTCATTTTTGACCCCAATTTCACC
1 AAAAATTACCATTTTACCCCCA-AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * ** *
13950572 CAAAATTACCATTTTACCCTCCAAACTCTCTAAAATCCCATTTTTAACCCTAATTTTACC
1 AAAAATTACCATTTTACCC-CCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * * *
13950632 AAAAAAATACCATTTTACCCCTAAACTTTCCAAAATCTCATTTTTAACCTCGATTTCACT
1 -AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * * **
13950692 TAAAATTACCATTTTACCCCTAAATTTTCTAAAATCCCATTTTTAACCTTGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* *
13950751 CAAAATTACCATTTTGCCCCC
1 AAAAATTACCATTTTACCCCC
13950772 GAAAGTCAAA
Statistics
Matches: 313, Mismatches: 57, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
57 15 0.05
58 70 0.22
59 147 0.47
60 61 0.19
61 20 0.06
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:13950665 original size:31 final size:32
Alignment explanation
Indices: 13950603--13950666 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
13950593 CAAACTCTCT
* *
13950603 AAAATCCCATTTTTAACCCTAATTTTACCAAA
1 AAAATACCATTTTTAACCCTAACTTTACCAAA
*
13950635 AAAATACCA-TTTTACCCCTAAACTTT-CCAAA
1 AAAATACCATTTTTAACCCT-AACTTTACCAAA
13950666 A
1 A
13950667 TCTCATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (32 bp):
AAAATACCATTTTTAACCCTAACTTTACCAAA
Found at i:13950705 original size:31 final size:30
Alignment explanation
Indices: 13950670--13950765 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 30
13950660 TCCAAAATCT
*
13950670 CATTTTTAACCTCGATTTCACTTAAAATTAC
1 CATTTTTAACCTAGATTTCAC-TAAAATTAC
* * * *
13950701 CA-TTTTACCCCTAAATTT-TCTAAAA-TCC
1 CATTTTTA-ACCTAGATTTCACTAAAATTAC
* *
13950729 CATTTTTAACCTTGATTTCACCCAAAATTAC
1 CATTTTTAACCTAGATTTCA-CTAAAATTAC
13950760 CATTTT
1 CATTTT
13950766 GCCCCCGAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
28 11 0.22
29 10 0.20
30 11 0.22
31 17 0.35
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
CATTTTTAACCTAGATTTCACTAAAATTAC
Found at i:13950707 original size:30 final size:29
Alignment explanation
Indices: 13950673--13950765 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 29
13950663 AAAATCTCAT
*
13950673 TTTTAACCTCGATTTCACTTAAAATTACCA
1 TTTTAACCTAGATTTCAC-TAAAATTACCA
* * * *
13950703 TTTTACCCCTAAATTT-TCTAAAA-TCCCA
1 TTTTA-ACCTAGATTTCACTAAAATTACCA
* *
13950731 TTTTTAACCTTGATTTCACCCAAAATTACCA
1 -TTTTAACCTAGATTTCA-CTAAAATTACCA
13950762 TTTT
1 TTTT
13950766 GCCCCCGAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
28 11 0.23
29 10 0.21
30 15 0.32
31 11 0.23
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTTAACCTAGATTTCACTAAAATTACCA
Found at i:13956522 original size:3 final size:3
Alignment explanation
Indices: 13956514--13956538 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13956504 GGAATTCTTC
13956514 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
13956539 TCAATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13962225 original size:13 final size:13
Alignment explanation
Indices: 13962207--13962231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13962197 TTCCTTTGTT
13962207 AAATACAATTTTC
1 AAATACAATTTTC
13962220 AAATACAATTTT
1 AAATACAATTTT
13962232 GTTTCCACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATACAATTTTC
Found at i:13963646 original size:13 final size:14
Alignment explanation
Indices: 13963630--13963668 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
13963620 AAACATGAGC
13963630 CCAAATA-AAATGT
1 CCAAATACAAATGT
*
13963643 CCAATTACAAATGT
1 CCAAATACAAATGT
13963657 CCAAATTACAAA
1 CCAAA-TACAAA
13963669 GGCCCAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (14 bp):
CCAAATACAAATGT
Found at i:13963656 original size:14 final size:15
Alignment explanation
Indices: 13963637--13963668 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13963627 AGCCCAAATA
13963637 AAATGTCC-AATTAC
1 AAATGTCCAAATTAC
13963651 AAATGTCCAAATTAC
1 AAATGTCCAAATTAC
13963666 AAA
1 AAA
13963669 GGCCCAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AAATGTCCAAATTAC
Found at i:13964450 original size:18 final size:18
Alignment explanation
Indices: 13964410--13964460 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
13964400 TTTTTAGGTA
*
13964410 ATAATAATAATAAATGTT
1 ATAATAATAATAAATGTG
*
13964428 TTAATAATAATAATAT-TG
1 ATAATAATAATAA-ATGTG
13964446 ATAATAATTAATAAA
1 ATAATAA-TAATAAA
13964461 AAGAAGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
ATAATAATAATAAATGTG
Found at i:13965210 original size:33 final size:32
Alignment explanation
Indices: 13965163--13965226 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
13965153 TACGCGTTTG
*
13965163 GTCCTTTCGCATTTTTTAATTA-TTTTAATTTA
1 GTCCTTTCACA-TTTTTAATTATTTTTAATTTA
13965195 GTCCATTTCACATTTTTAATTATTTTTAATTT
1 GTCC-TTTCACATTTTTAATTATTTTTAATTT
13965227 GGCCCAGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.59
Consensus pattern (32 bp):
GTCCTTTCACATTTTTAATTATTTTTAATTTA
Found at i:13965564 original size:30 final size:30
Alignment explanation
Indices: 13965496--13965564 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
13965486 ATAGGTCCTT
*
13965496 AAACTATT-CAAAAATTATATTTTGACCCCA
1 AAACT-TTCCAAAAATCATATTTTGACCCCA
*
13965526 AAAC-TTCCAAAAATCATCATTTT-ACCCCC
1 AAACTTTCCAAAAATCAT-ATTTTGACCCCA
13965555 AAACTTTCCA
1 AAACTTTCCA
13965565 CAATTCCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 2 0.06
29 18 0.53
30 14 0.41
ACGTcount: A:0.41, C:0.28, G:0.01, T:0.30
Consensus pattern (30 bp):
AAACTTTCCAAAAATCATATTTTGACCCCA
Found at i:13965606 original size:59 final size:59
Alignment explanation
Indices: 13965543--13965906 Score: 437
Period size: 59 Copynumber: 6.2 Consensus size: 59
13965533 CAAAAATCAT
* *
13965543 CATTTTACCCCCAAACTTTCCACAATTCCATTTTTAACCTCGATTTCACCCAAAACTAC
1 CATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTAC
* * * *
13965602 CATTTTACCCCCAAACTCTCCAAAATCCCATTTTTAACC-CTGATTTTACCAAAAATTAC
1 CATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCACCCAAAATTAC
* * * *
13965661 CATTTTACCCCTAAACTTTCTAAAATTCCATCTTTGACCTCGATTTCACCCAAAATTAC
1 CATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTAC
* ** *
13965720 CATTTAACCCCCCAAA-TTCTCCAAAATTTTATTTTTAACCTCGATTTCACCAAAAATTAC
1 CATTTTA-CCCCCAAACTT-TCCAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTAC
* * * * * *
13965780 CGTTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCAACTAAAATTAC
1 CATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTAC
** * * * *
13965839 CATTTTACCCTTAAATTTTCCAAAATTTCA-TTTTAACCCCGATTTCACCCAAAATTAT
1 CATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTAC
*
13965897 TATTTTACCC
1 CATTTTACCC
13965907 TTGGAAGTCA
Statistics
Matches: 258, Mismatches: 42, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
58 34 0.13
59 174 0.67
60 50 0.19
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.35
Consensus pattern (59 bp):
CATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTAC
Found at i:13965636 original size:29 final size:29
Alignment explanation
Indices: 13965514--13965637 Score: 74
Period size: 29 Copynumber: 4.2 Consensus size: 29
13965504 CAAAAATTAT
* * *
13965514 ATTTTGACCCCAAAACT-TCCAAAAATCATC
1 ATTTTTACCCCCAAACTCTCC-AAAATC-CC
* * *
13965544 A-TTTTACCCCCAAACTTTCCACAATTCC
1 ATTTTTACCCCCAAACTCTCCAAAATCCC
* * * ** * *
13965572 ATTTTTAACCTCGATTTCACCCAAAACTACC
1 ATTTTTACCCCCAAACTC-TCCAAAA-TCCC
13965603 A-TTTTACCCCCAAACTCTCCAAAATCCC
1 ATTTTTACCCCCAAACTCTCCAAAATCCC
13965631 ATTTTTA
1 ATTTTTA
13965638 ACCCTGATTT
Statistics
Matches: 68, Mismatches: 21, Indels: 11
0.68 0.21 0.11
Matches are distributed among these distances:
28 6 0.09
29 38 0.56
30 20 0.29
31 4 0.06
ACGTcount: A:0.33, C:0.34, G:0.02, T:0.31
Consensus pattern (29 bp):
ATTTTTACCCCCAAACTCTCCAAAATCCC
Found at i:13965786 original size:30 final size:29
Alignment explanation
Indices: 13965566--13965895 Score: 128
Period size: 29 Copynumber: 11.2 Consensus size: 29
13965556 AACTTTCCAC
13965566 AATT-CCATTTTTAACCTCGATTTCACCCAA
1 AATTACCA-TTTTAACCTCGATTTCA-CCAA
* * * * ** *
13965596 AACTACCATTTTACCCCCAAACTCTCCAA
1 AATTACCATTTTAACCTCGATTTCACCAA
* *
13965625 AA-TCCCATTTTTAACC-CTGATTTTACCAAA
1 AATTACCA-TTTTAACCTC-GATTTCACC-AA
* ** *
13965655 AATTACCATTTTACCCCTAAACTTT--CTAA
1 AATTACCATTTTA-ACCTCGA-TTTCACCAA
*
13965684 AATT-CCATCTTTGACCTCGATTTCACCCAA
1 AATTACCAT-TTTAACCTCGATTTCA-CCAA
* * * *
13965714 AATTACCA-TTTAACCCCCCAAATTCTCCAA
1 AATTACCATTTTAA--CCTCGATTTCACCAA
**
13965744 AATT-TTATTTTTAACCTCGATTTCACCAAA
1 AATTACCA-TTTTAACCTCGATTTCACC-AA
* *
13965774 AATTACCGTTTTACCCTCGAACTTT--CCAA
1 AATTACCATTTTAACCTCG-A-TTTCACCAA
* *
13965803 AA-TCCCATTTTTAACCTCGATTTCAACTAA
1 AATTACCA-TTTTAACCTCGATTTC-ACCAA
* ** *
13965833 AATTACCATTTTACCCTTAAATTT-TCCAA
1 AATTACCATTTTAACC-TCGATTTCACCAA
* *
13965862 AATT-TCATTTTAACCCCGATTTCACCCAA
1 AATTACCATTTTAACCTCGATTTCA-CCAA
13965891 AATTA
1 AATTA
13965896 TTATTTTACC
Statistics
Matches: 215, Mismatches: 55, Indels: 60
0.65 0.17 0.18
Matches are distributed among these distances:
27 10 0.05
28 26 0.12
29 69 0.32
30 69 0.32
31 35 0.16
32 6 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
AATTACCATTTTAACCTCGATTTCACCAA
Found at i:13965789 original size:119 final size:117
Alignment explanation
Indices: 13965532--13965906 Score: 466
Period size: 119 Copynumber: 3.2 Consensus size: 117
13965522 CCCAAAACTT
* * * *
13965532 CCAAAAATCATCATTTTACCCCCAAACTTTCCACAATTCCATTTTTAACCTCGATTTCACCCAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAA
* * ** *
13965597 ACTACCATTTTACCCCCAAACTCTCCAAAATCCCATTTTTAACCCTGATTTTA
66 ATTACCATTTTACCCCCAAATTCTCCAAAATTTCATTTTTAACCC-GATTTCA
* * *
13965650 CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATCTTTGACCTCGATTTCACCCAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAA
* *
13965715 ATTACCATTTAACCCCCCAAATTCTCCAAAATTTTATTTTTAACCTCGATTTCA
66 ATTACCATTTTA-CCCCCAAATTCTCCAAAATTTCATTTTTAACC-CGATTTCA
* * * * *
13965769 CCAAAAATTACCGTTTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCAACTAA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAA
** *
13965833 AATTACCATTTTACCCTTAAATTTTCCAAAATTTCA-TTTTAACCCCGATTTCA
65 AATTACCATTTTACCCCCAAATTCTCCAAAATTTCATTTTTAA-CCCGATTTCA
* **
13965886 CCCAAAATTATTATTTTACCC
1 CCAAAAATTACCATTTTACCC
13965907 TTGGAAGTCA
Statistics
Matches: 221, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
117 28 0.13
118 95 0.43
119 97 0.44
120 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCCAAA
ATTACCATTTTACCCCCAAATTCTCCAAAATTTCATTTTTAACCCGATTTCA
Found at i:13972264 original size:18 final size:18
Alignment explanation
Indices: 13972237--13972271 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13972227 CTTTTAAAGT
*
13972237 ATAATGTAAGCCATAATC
1 ATAATATAAGCCATAATC
13972255 ATAATATAAGCCATAAT
1 ATAATATAAGCCATAAT
13972272 TAATATGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (18 bp):
ATAATATAAGCCATAATC
Found at i:13972277 original size:16 final size:17
Alignment explanation
Indices: 13972236--13972277 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
13972226 ACTTTTAAAG
*
13972236 TATAATGTAAGCCATAA
1 TATAATATAAGCCATAA
13972253 TCATAATATAAGCCATAA
1 T-ATAATATAAGCCATAA
13972271 T-TAATAT
1 TATAATAT
13972278 GGGAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
18 16 0.70
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (17 bp):
TATAATATAAGCCATAA
Found at i:13976652 original size:21 final size:20
Alignment explanation
Indices: 13976615--13976657 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
13976605 TTGTCTGGTT
*
13976615 TTTAAATTGGAATTTAAATA
1 TTTAAATTGAAATTTAAATA
13976635 TTTAAATTGAATATTTAAATA
1 TTTAAATTGAA-ATTTAAATA
13976656 TT
1 TT
13976658 CAATTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTAAATTGAAATTTAAATA
Found at i:13981992 original size:6 final size:6
Alignment explanation
Indices: 13981983--13982011 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13981973 TTTGGATAGA
13981983 GAAATG GAAATG GAAATG GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAAT
13982012 TTCCTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:13983312 original size:69 final size:69
Alignment explanation
Indices: 13983233--13983379 Score: 258
Period size: 69 Copynumber: 2.1 Consensus size: 69
13983223 AGATTTTAGT
13983233 AAAACTTTAAATTTATTACTCAATCAAAATTTCATTTTAATTTATTTTATACATTTCTATTTTAA
1 AAAA-TTTAAATTTATTACTCAATCAAAATTTCATTTTAATTTATTTTATACATTTCTATTTTAA
13983298 TATGC
65 TATGC
* *
13983303 AAAATTTAAATTTATTACTCAATCAAAATTTCATTTTGATTTATTTTATACATTTTTATTTTAAT
1 AAAATTTAAATTTATTACTCAATCAAAATTTCATTTTAATTTATTTTATACATTTCTATTTTAAT
*
13983368 ATGT
66 ATGC
13983372 AAAATTTA
1 AAAATTTA
13983380 TTTATAGAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 70 0.95
70 4 0.05
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (69 bp):
AAAATTTAAATTTATTACTCAATCAAAATTTCATTTTAATTTATTTTATACATTTCTATTTTAAT
ATGC
Found at i:13996995 original size:83 final size:83
Alignment explanation
Indices: 13996856--13997021 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
13996846 TTTGGGAGTC
13996856 ATCCACTCCGATGCCCAAGACAAGACATCTTTCTAATTAGACTTGATAGACAACATATTAATCTT
1 ATCCACTCCGATGCCCAAGACAAGACATCTTTCTAATTAGACTTGATAGACAACATATTAATCTT
13996921 TCAATCTGTTTGCTTTTT
66 TCAATCTGTTTGCTTTTT
*
13996939 ATCCACTCCGATGCCCAAGACAAGACATCTTTTTAATTAGACTTGATAGACAACATATTAATCTT
1 ATCCACTCCGATGCCCAAGACAAGACATCTTTCTAATTAGACTTGATAGACAACATATTAATCTT
13997004 TCAATCTGTTTGCTTTTT
66 TCAATCTGTTTGCTTTTT
13997022 TTTATTAGAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (83 bp):
ATCCACTCCGATGCCCAAGACAAGACATCTTTCTAATTAGACTTGATAGACAACATATTAATCTT
TCAATCTGTTTGCTTTTT
Found at i:13999526 original size:11 final size:11
Alignment explanation
Indices: 13999504--13999542 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13999494 TACAACAAAG
13999504 AGAAAA-GAAA
1 AGAAAAGGAAA
13999514 AGAAAAGGAAA
1 AGAAAAGGAAA
*
13999525 AGAAAAGAAAA
1 AGAAAAGGAAA
13999536 ATGAAAA
1 A-GAAAA
13999543 CCTAAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 6 0.23
11 15 0.58
12 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (11 bp):
AGAAAAGGAAA
Found at i:13999526 original size:16 final size:17
Alignment explanation
Indices: 13999500--13999535 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
13999490 ATGCTACAAC
13999500 AAAGAGAAAAGAAAAGA
1 AAAGAGAAAAGAAAAGA
13999517 AAAG-GAAAAGAAAAGA
1 AAAGAGAAAAGAAAAGA
13999533 AAA
1 AAA
13999536 ATGAAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAGAAAAGAAAAGA
Found at i:13999560 original size:5 final size:5
Alignment explanation
Indices: 13999504--13999535 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
13999494 TACAACAAAG
13999504 AGAAA AGAAA AGAAA AGGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA A-GAAA AGAAA AGAAA A
13999536 ATGAAAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:14001668 original size:30 final size:27
Alignment explanation
Indices: 14001614--14001669 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
14001604 TAAAAGTTGA
*
14001614 TAAAAAAAATTTTGGGCTCCTAAAAGC
1 TAAAAAAAATTTTGGGCCCCTAAAAGC
*
14001641 TAAAAAAATTTATTGGGACCCCTTAAAAG
1 TAAAAAAAATT-TTGGG-CCCC-TAAAAG
14001670 TTGGTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 5 0.21
29 3 0.12
30 6 0.25
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (27 bp):
TAAAAAAAATTTTGGGCCCCTAAAAGC
Found at i:14002592 original size:5 final size:6
Alignment explanation
Indices: 14002564--14002602 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
14002554 AAAATAAAAG
* *
14002564 TCCCCC ACCCTC TCCCCC TCCCCC TCCCCC TCCCCC TCC
1 TCCCCC TCCCCC TCCCCC TCCCCC TCCCCC TCCCCC TCC
14002603 TCCATCCCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.03, C:0.79, G:0.00, T:0.18
Consensus pattern (6 bp):
TCCCCC
Found at i:14002611 original size:18 final size:18
Alignment explanation
Indices: 14002566--14002611 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14002556 AATAAAAGTC
*
14002566 CCCCA-CCCTCTCCCCCT
1 CCCCATCCCCCTCCCCCT
*
14002583 CCCCCTCCCCCTCCCCCT
1 CCCCATCCCCCTCCCCCT
14002601 CCTCCATCCCC
1 CC-CCATCCCC
14002612 ACCACCGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.04, C:0.78, G:0.00, T:0.17
Consensus pattern (18 bp):
CCCCATCCCCCTCCCCCT
Found at i:14006424 original size:22 final size:22
Alignment explanation
Indices: 14006399--14006468 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
14006389 AAATGTTTTT
14006399 TTTTATTTTCATTTAGGATGTA
1 TTTTATTTTCATTTAGGATGTA
* * * *
14006421 TTTTCTGTTCCATTTTA--ATTTT
1 TTTTAT-TTTCA-TTTAGGATGTA
14006443 TTTTATTTTCATTTAGGATGTA
1 TTTTATTTTCATTTAGGATGTA
14006465 TTTT
1 TTTT
14006469 CTGTTCCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 20 0.56
23 4 0.11
24 4 0.11
ACGTcount: A:0.19, C:0.07, G:0.10, T:0.64
Consensus pattern (22 bp):
TTTTATTTTCATTTAGGATGTA
Done.