Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 32 of 135
Found at i:12638335 original size:24 final size:24
Alignment explanation
Indices: 12638284--12638337 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
12638274 TCAAATATTC
* *
12638284 AAAAAATTATAATTATAAAATATT
1 AAAAAATGATAATTATAAAATATA
*
12638308 AAAAAATGA-AATTATAAACTTATA
1 AAAAAATGATAATTATAAA-ATATA
12638332 AAAAAA
1 AAAAAA
12638338 AACAACTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAAATGATAATTATAAAATATA
Found at i:12638415 original size:23 final size:23
Alignment explanation
Indices: 12638362--12638426 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
12638352 TTTTTATGAA
*
12638362 ATAAAATTAAATA-ATAA-AAACT
1 ATAAAATTAAAAACATAAGAAA-T
12638384 ATAAAATTATAAAAC-TAAGAAAT
1 ATAAAATTA-AAAACATAAGAAAT
*
12638407 ATAACATTAAAAACATAAGA
1 ATAAAATTAAAAACATAAGA
12638427 GTGGTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 14 0.38
23 20 0.54
24 3 0.08
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (23 bp):
ATAAAATTAAAAACATAAGAAAT
Found at i:12638626 original size:16 final size:16
Alignment explanation
Indices: 12638605--12638651 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
12638595 CGTTTGGTTC
*
12638605 GCTGTAACGGAATAGA
1 GCTGTAATGGAATAGA
*
12638621 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
12638637 GCTGTAATGGAATAG
1 GCTGTAATGGAATAG
12638652 GATTGTAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:12638892 original size:58 final size:59
Alignment explanation
Indices: 12638821--12638980 Score: 202
Period size: 58 Copynumber: 2.7 Consensus size: 59
12638811 TGTTATTAAC
* *
12638821 TTTTAATAAGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATA-
1 TTTTAATATGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAATAT
* * *
12638879 TTTTAACATGATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAATAT
1 TTTTAATATGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAATAT
* * *
12638937 TTTTAATATAATTA-TATTAAAATATGAA-TTAGTAAAAATCATAA
1 TTTTAATATGATTATTATT-AAATAT-AATTTAATAAAAATAATAA
12638981 TATATAATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
57 26 0.30
58 51 0.59
59 10 0.11
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (59 bp):
TTTTAATATGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAATAT
Found at i:12659931 original size:16 final size:16
Alignment explanation
Indices: 12659898--12659929 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12659888 AGATGATTAT
12659898 ATAAAAAATTTAATAA
1 ATAAAAAATTTAATAA
12659914 ATAAAAAATTT-ATAA
1 ATAAAAAATTTAATAA
12659929 A
1 A
12659930 ATGATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAAAATTTAATAA
Found at i:12667704 original size:3 final size:3
Alignment explanation
Indices: 12667696--12667744 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
12667686 AAATGATGTG
*
12667696 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GTT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
12667744 G
1 G
12667745 TTAAAATGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
GAT
Found at i:12669482 original size:17 final size:17
Alignment explanation
Indices: 12669457--12669516 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
12669447 CCAGCAAAGT
12669457 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
* *
12669474 TTAAGTTTATTTTAAAT
1 TTAAATTTATTTTAAAA
* * *
12669491 TTAAATTAATTATAAAT
1 TTAAATTTATTTTAAAA
*
12669508 TTGAATTTA
1 TTAAATTTA
12669517 AGATATATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:12670298 original size:14 final size:14
Alignment explanation
Indices: 12670279--12670337 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
12670269 ATATTATTAA
12670279 TAATAATAATTTTT
1 TAATAATAATTTTT
**
12670293 TAATAATAATTAATAG
1 TAATAATAATT--TTT
12670309 TAATAA-ATATTTTT
1 TAATAATA-ATTTTT
*
12670323 TGATAATAATTTTT
1 TAATAATAATTTTT
12670337 T
1 T
12670338 TTAAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
14 24 0.67
15 2 0.06
16 10 0.28
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TAATAATAATTTTT
Found at i:12671536 original size:29 final size:30
Alignment explanation
Indices: 12671510--12671621 Score: 115
Period size: 30 Copynumber: 3.7 Consensus size: 30
12671500 CTTGACCCCG
12671510 AACTTCCAAAAATTACATTTTTAACCCTAA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
*
12671540 AACTTCCAAAAATTCCATTTTT-ACCCTTAA
1 AACTTCCAAAAATTACATTTTTAACCC-TAA
* *
12671570 AA-TTCCAAAAGTT-CTATTTTTTGA-CCTCAA
1 AACTTCCAAAAATTAC-A-TTTTTAACCCT-AA
*
12671600 AACTTACAAAAATTACCATTTT
1 AACTTCCAAAAATTA-CATTTT
12671622 ACCCCCGGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
28 1 0.01
29 16 0.23
30 37 0.53
31 14 0.20
32 1 0.01
33 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (30 bp):
AACTTCCAAAAATTACATTTTTAACCCTAA
Found at i:12677019 original size:6 final size:6
Alignment explanation
Indices: 12677003--12677125 Score: 116
Period size: 6 Copynumber: 20.5 Consensus size: 6
12676993 TTCAATGAGC
12677003 AAAAG- AAAAGA AAAAGA AAAAG- AAAA-A AAAA-A AAAAGA AAAAGAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG-A
*
12677048 AAAAGA AGAAGAA AAAAGA GAAGAA-A AAGAAGA AAAAGA AAAA-A GAAAAGAA
1 AAAAGA AAAAG-A AAAAGA -AA-AAGA AA-AAGA AAAAGA AAAAGA -AAAAG-A
*
12677100 AAAAGA GAAA-A AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
12677126 GGAGAGGTCG
Statistics
Matches: 102, Mismatches: 4, Indels: 23
0.79 0.03 0.18
Matches are distributed among these distances:
5 23 0.23
6 54 0.53
7 22 0.22
8 3 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:12677023 original size:1 final size:1
Alignment explanation
Indices: 12677003--12677125 Score: 57
Period size: 1 Copynumber: 123.0 Consensus size: 1
12676993 TTCAATGAGC
* * * * * * * * * * *
12677003 AAAAGAAAAGAAAAAGAAAAAGAAAAAAAAAAAAAAGAAAAAGAAAAAAGAAGAAGAAAAAAGAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
12677068 AAGAAAAAGAAGAAAAAGAAAAAAGAAAAGAAAAAAGAGAAAAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12677126 GGAGAGGTCG
Statistics
Matches: 80, Mismatches: 42, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (1 bp):
A
Found at i:12677025 original size:12 final size:12
Alignment explanation
Indices: 12677003--12677125 Score: 116
Period size: 13 Copynumber: 10.2 Consensus size: 12
12676993 TTCAATGAGC
12677003 AAAAG-AAAAGA
1 AAAAGAAAAAGA
12677014 AAAAGAAAAAG-
1 AAAAGAAAAAGA
12677025 AAAA-AAAAA-A
1 AAAAGAAAAAGA
12677035 AAAAGAAAAAGAA
1 AAAAGAAAAAG-A
*
12677048 AAAAGAAGAAGAA
1 AAAAGAAAAAG-A
12677061 AAAAGAGAAGAA-A
1 AAAAGA-AA-AAGA
12677074 AAGAAGAAAAAGA
1 AA-AAGAAAAAGA
12677087 AAAA-AGAAAAGAA
1 AAAAGA-AAAAG-A
*
12677100 AAAAGAGAAA-A
1 AAAAGAAAAAGA
12677111 AAAAGAAAAAGA
1 AAAAGAAAAAGA
12677123 AAA
1 AAA
12677126 GGAGAGGTCG
Statistics
Matches: 95, Mismatches: 4, Indels: 25
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.09
11 25 0.26
12 18 0.19
13 35 0.37
14 6 0.06
15 2 0.02
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:12677038 original size:27 final size:27
Alignment explanation
Indices: 12677003--12677125 Score: 135
Period size: 27 Copynumber: 4.5 Consensus size: 27
12676993 TTCAATGAGC
*
12677003 AAAAGAAAAGAAAAAGAAAAAGAAAAA
1 AAAAAAAAAGAAAAAGAAAAAGAAAAA
* *
12677030 AAAAAAAAAGAAAAAGAAAAA-AGAAG
1 AAAAAAAAAGAAAAAGAAAAAGAAAAA
* *
12677056 AAGAAAAAAG-AGAAGAAAAAGAAGAAA
1 AAAAAAAAAGAAAAAGAAAAAGAA-AAA
*
12677083 AAGAAAAAAG-AAAAGAAAAAAGAGAAAA
1 AAAAAAAAAGAAAAAG-AAAAAGA-AAAA
12677111 AAAAGAAAAAGAAAA
1 AAAA-AAAAAGAAAA
12677126 GGAGAGGTCG
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.11
26 13 0.16
27 36 0.44
28 13 0.16
29 7 0.09
30 3 0.04
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAGAAAAAGAAAAA
Found at i:12678187 original size:50 final size:50
Alignment explanation
Indices: 12678133--12678336 Score: 161
Period size: 50 Copynumber: 4.1 Consensus size: 50
12678123 GGTGGACCGT
* *
12678133 GTACCTCAAAAGACAAGAAAGGAAAGATTTAAGCCGCAACGGTAAATCCA
1 GTACCTCAAAAGACAAGAAGGGAAAGATCTAAGCCGCAACGGTAAATCCA
* * * * *
12678183 GTA-C-CATGAATACATGAAGGGAAATATCTAAGATCG-AACGGTAAATCCA
1 GTACCTCA-AAAGACAAGAAGGGAAAGATCTAAG-CCGCAACGGTAAATCCA
* * ***
12678232 GTACCACAAAA-ATGCAA-AAGGGAAA-AGTCTAAGTCGCAACGGCGGA-CCA
1 GTACCTCAAAAGA--CAAGAAGGGAAAGA-TCTAAGCCGCAACGGTAAATCCA
* * * *
12678281 TGTACCTTAGAAGACAAGAAGGGAAAGATTTAAGCCGCAATGGTAAATCCA
1 -GTACCTCAAAAGACAAGAAGGGAAAGATCTAAGCCGCAACGGTAAATCCA
12678332 GTACC
1 GTACC
12678337 ATGAGGACAT
Statistics
Matches: 120, Mismatches: 21, Indels: 26
0.72 0.13 0.16
Matches are distributed among these distances:
48 2 0.02
49 47 0.39
50 62 0.52
51 9 0.08
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (50 bp):
GTACCTCAAAAGACAAGAAGGGAAAGATCTAAGCCGCAACGGTAAATCCA
Found at i:12678223 original size:49 final size:49
Alignment explanation
Indices: 12678142--12678371 Score: 191
Period size: 49 Copynumber: 4.6 Consensus size: 49
12678132 TGTACCTCAA
* * * *
12678142 AAGACAAGAAAGGAAAGATTTAAGCCGCAACGGTAAATCCAGTACCATG
1 AAGACATGAAGGGAAAGATCTAAGTCGCAACGGTAAATCCAGTACCATG
* * *
12678191 AATACATGAAGGGAAATATCTAAGATCG-AACGGTAAATCCAGTACCA-C
1 AAGACATGAAGGGAAAGATCTAAG-TCGCAACGGTAAATCCAGTACCATG
* *** *
12678239 AA-AAATGCAAAAGGGAAA-AGTCTAAGTCGCAACGGCGGA-CCATGTACCTTAG
1 AAGACATG---AAGGGAAAGA-TCTAAGTCGCAACGGTAAATCCA-GTACCAT-G
* * * *
12678291 AAGACAAGAAGGGAAAGATTTAAGCCGCAATGGTAAATCCAGTACCATG
1 AAGACATGAAGGGAAAGATCTAAGTCGCAACGGTAAATCCAGTACCATG
* *
12678340 AGGACATGAAGGGAAAGATCTGAGATCGCAAC
1 AAGACATGAAGGGAAAGATCTAAG-TCGCAAC
12678372 AGCAGATCCG
Statistics
Matches: 140, Mismatches: 28, Indels: 25
0.73 0.15 0.13
Matches are distributed among these distances:
47 4 0.03
48 2 0.01
49 66 0.47
50 59 0.42
51 4 0.03
52 2 0.01
53 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.16
Consensus pattern (49 bp):
AAGACATGAAGGGAAAGATCTAAGTCGCAACGGTAAATCCAGTACCATG
Found at i:12678306 original size:149 final size:149
Alignment explanation
Indices: 12678031--12678493 Score: 558
Period size: 149 Copynumber: 3.1 Consensus size: 149
12678021 TTACAGGTCT
* *
12678031 CAGTACCA-GAAAGACATGAAGGGAAAGATCTAAGA-CTGAAACGGCGGATCCAGTACCATAAAG
1 CAGTACCATG-AAGACATGAAGGGAAAGATCTAAGATC-GAAACGGCAGATCCAGTACCACAAAG
* * * *
12678094 ATACAAAAAGGAAAGGTCTAAGTCACAATGGTGGACCGTGTACCTCAAAAGACAAGAAAGGAAAG
64 ATACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTC-AAAGACAAGAAAGGAAAG
12678159 ATTTAAGCCGCAACGGTAAATC
128 ATTTAAGCCGCAACGGTAAATC
* * * * *
12678181 CAGTACCATGAATACATGAAGGGAAATATCTAAGATCG-AACGGTAAATCCAGTACCACAAAAAT
1 CAGTACCATGAAGACATGAAGGGAAAGATCTAAGATCGAAACGGCAGATCCAGTACCACAAAGAT
* * * * *
12678245 GCAAAAGGGAAAAGTCTAAGTCGCAACGGCGGACCATGTACCTTAGAAGACAAGAAGGGAAAGAT
66 ACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCA-AAGACAAGAAAGGAAAGAT
*
12678310 TTAAGCCGCAATGGTAAATC
130 TTAAGCCGCAACGGTAAATC
* * * * *
12678330 CAGTACCATGAGGACATGAAGGGAAAGATCTGAGATCGCAACAGCAGATCC-GATACCACAAGGA
1 CAGTACCATGAAGACATGAAGGGAAAGATCTAAGATCGAAACGGCAGATCCAG-TACCACAAAGA
* * *
12678394 TACAAAAGGGAAAGGTTTAAGTCGCAACGACGGACCGTGTACCTCAAA-AAATAGAAAAGGAAAG
65 TACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAAAGACA-AG-AAAGGAAAG
* ***
12678458 ATTTAAGCAGCAACGACGAATC
128 ATTTAAGCCGCAACGGTAAATC
*
12678480 CAGTACCACGAAGA
1 CAGTACCATGAAGA
12678494 TTTGAAAGGG
Statistics
Matches: 265, Mismatches: 41, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
148 3 0.01
149 133 0.50
150 127 0.48
151 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (149 bp):
CAGTACCATGAAGACATGAAGGGAAAGATCTAAGATCGAAACGGCAGATCCAGTACCACAAAGAT
ACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAAAGACAAGAAAGGAAAGATT
TAAGCCGCAACGGTAAATC
Found at i:12679244 original size:206 final size:206
Alignment explanation
Indices: 12678890--12679978 Score: 1507
Period size: 206 Copynumber: 5.3 Consensus size: 206
12678880 ATTACGATTG
* * *
12678890 TTGAAACAGACGGTGCGGTCGTCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* * * *
12678955 CTCGATATAAGCAAATCTTCGAACCTCT-GCTTCCTCATGAGATACTGAGAAGTAGGTCGAAGCA
66 CTCGATGTGAGCAAATCTTCGAACC-CTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* *
12679019 ATAAAATGTTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCTTCTTCCTGATGAGATA
130 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
*
12679084 CAGAGAAGCGGA
195 CAGAGAAGCGAA
* *
12679096 TTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAACCCACG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* * *
12679161 CTCGATGTGAGCAAACCTTCGAATCCTAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAA
66 CTCGATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
12679226 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
131 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
*
12679291 AGAGAAGCAAA
196 AGAGAAGCGAA
** * **
12679302 TTGAAACAAGTGATGCGATCATCTTTTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* * * * * *
12679367 CTCGATGCGGGTAAATCTTCGAACCCCAGCTTTCTGATGAGATACTGAGAAGCAGGTCGAAGAAA
66 CTCGATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* *
12679432 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGATGAGCTAC
131 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
12679497 AGAGAAGCGAA
196 AGAGAAGCGAA
* ** *
12679508 TTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTCAGAAGAAGACCAAATCAAACCCACG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* * * * *
12679573 CTCGATGTGAGTAAATCTTCGAACCCCTAACTTCTTGATAAGATACTGAGAAGCAGGTCGAAGTA
66 CTCGATGTGAGCAAATCTTCGAA-CCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * *
12679638 ATAAAATAGTTAGCTTCCTGATGAGATACGGATAAGTGGACCAAATTCGTCTTCCTGATGAGATA
130 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
*
12679703 CAAAGAAGCGAA
195 CAGAGAAGCGAA
* * * * *
12679715 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGTGAAGAATACTAAATCAAACCTATG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* *
12679780 CTCGATGTGAGCAAACCTTCGAATCCC-AGCTTCCAGATGAGATACTGAGAAGCAGGTCGAAGCA
66 CTCGATGTGAGCAAATCTTCGAA-CCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * * * * * * *
12679844 ATAAAGTGGTTAGCTTCCTGATGAGACACAGAGAAGTGAACCAAATCCGTCTTCCTGTTGAAACA
130 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
* *
12679909 CAGAGAAGTGGA
195 CAGAGAAGCGAA
** ** * * * * * * *
12679921 TCAAAACAAGTGACGCGGTCGTCTTCCTGATCAAATACTAAGAAGAAGGCCAAGTCAA
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
12679979 TGAAACCAGA
Statistics
Matches: 783, Mismatches: 98, Indels: 4
0.88 0.11 0.00
Matches are distributed among these distances:
205 2 0.00
206 595 0.76
207 186 0.24
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (206 bp):
TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
CTCGATGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
AGAGAAGCGAA
Found at i:12679830 original size:413 final size:411
Alignment explanation
Indices: 12678890--12679978 Score: 1552
Period size: 413 Copynumber: 2.6 Consensus size: 411
12678880 ATTACGATTG
* * *
12678890 TTGAAACAGACGGTGCGGTCGTCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* * * * *
12678955 CTCGATATAAGCAAATCTTCGAACCTCTGCTTCCTCATGAGATACTGAGAAGTAGGTCGAAGCAA
66 CTCGATGTGAGCAAATCTTCGAACC-CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * *
12679020 TAAAATGTTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCTTCTTCCTGATGAGATAC
130 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGCTAC
* **
12679085 AGAGAAGCGGATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATAC-AGAGAAGAAGACCAA
195 AGAGAAGCGGATTAAAACAAGTGACGCGGTCATCTTCCTGATGAGATACTA-AGAAGAAGACCAA
* * * *
12679149 ATCAAACCCACGCTCGATGTGAGCAAACCTTCGAATCCTAGCTTCCTGATGAGATATTGAGAAGC
259 ATCAAACCCACGCTCGATGTGAGCAAACCTTCGAACCCTAACTTCCTGATAAGATACTGAGAAGC
* *
12679214 AGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTC
324 AGGTCGAAGCAATAAAATAGTTAGCTTCCTGATGAGATACGGAGAAGTGGACCAAATTCGTCTTC
*
12679279 CTGATGAGATACAGAGAAGCAAA
389 CTGATGAGATACAAAGAAGCAAA
** * **
12679302 TTGAAACAAGTGATGCGATCATCTTTTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* * * * *
12679367 CTCGATGCGGGTAAATCTTCGAACCCCAGCTTTCTGATGAGATACTGAGAAGCAGGTCGAAGAAA
66 CTCGATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
*
12679432 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGATGAGCTAC
130 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGCTAC
* * *
12679497 AGAGAAGCGAATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTCAGAAGAAGACCAAA
195 AGAGAAGCGGATTAAAACAAGTGACGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAA
* * *
12679562 TCAAACCCACGCTCGATGTGAGTAAATCTTCGAACCCCTAACTTCTTGATAAGATACTGAGAAGC
260 TCAAACCCACGCTCGATGTGAGCAAACCTTCGAA-CCCTAACTTCCTGATAAGATACTGAGAAGC
* *
12679627 AGGTCGAAGTAATAAAATAGTTAGCTTCCTGATGAGATACGGATAAGTGGACCAAATTCGTCTTC
324 AGGTCGAAGCAATAAAATAGTTAGCTTCCTGATGAGATACGGAGAAGTGGACCAAATTCGTCTTC
*
12679692 CTGATGAGATACAAAGAAGCGAA
389 CTGATGAGATACAAAGAAGCAAA
* * * * *
12679715 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGTGAAGAATACTAAATCAAACCTATG
1 TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
* *
12679780 CTCGATGTGAGCAAACCTTCGAATCCCAGCTTCCAGATGAGATACTGAGAAGCAGGTCGAAGCAA
66 CTCGATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * * * * * *
12679845 TAAAGTGGTTAGCTTCCTGATGAGACACAGAGAAGTGAACCAAATCCGTCTTCCTGTTGAAAC-A
130 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATG-AGCTA
* * * * * *
12679909 CAGAGAAGTGGATCAAAACAAGTGACGCGGTCGTCTTCCTGATCAAATACTAAGAAGAAGGCCAA
194 CAGAGAAGCGGATTAAAACAAGTGACGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAA
*
12679974 GTCAA
259 ATCAA
12679979 TGAAACCAGA
Statistics
Matches: 596, Mismatches: 77, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
412 260 0.44
413 334 0.56
414 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (411 bp):
TTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACG
CTCGATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT
AAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGCTACA
GAGAAGCGGATTAAAACAAGTGACGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAAT
CAAACCCACGCTCGATGTGAGCAAACCTTCGAACCCTAACTTCCTGATAAGATACTGAGAAGCAG
GTCGAAGCAATAAAATAGTTAGCTTCCTGATGAGATACGGAGAAGTGGACCAAATTCGTCTTCCT
GATGAGATACAAAGAAGCAAA
Found at i:12680317 original size:17 final size:17
Alignment explanation
Indices: 12680292--12680351 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
12680282 CCAACAAAGT
12680292 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
* *
12680309 TTAAGTTTATTTTAAAT
1 TTAAATTTATTTTAAAA
* *
12680326 TTAAATTTATTATAAAT
1 TTAAATTTATTTTAAAA
*
12680343 TTGAATTTA
1 TTAAATTTA
12680352 AGATATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:12682325 original size:30 final size:30
Alignment explanation
Indices: 12682284--12682385 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
12682274 GAACTTTTCC
*
12682284 AAATTATATTTTTAACCTCAAAACTTCCAA
1 AAATTACATTTTTAACCTCAAAACTTCCAA
* * * *
12682314 AAGTTACATTTTTACCCTCGAAA-GTCCAA
1 AAATTACATTTTTAACCTCAAAACTTCCAA
* *
12682343 AAATTACATTTTTGACC-CTAAAACTTGCAA
1 AAATTACATTTTTAACCTC-AAAACTTCCAA
12682373 AAATTATCATTTT
1 AAATTA-CATTTT
12682386 ACCCCCGAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.02
29 22 0.38
30 29 0.50
31 6 0.10
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTTAACCTCAAAACTTCCAA
Found at i:12682347 original size:59 final size:59
Alignment explanation
Indices: 12682284--12682414 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
12682274 GAACTTTTCC
* * *
12682284 AAATTATATTTTTAA-CCTCAAAACTTCCAAAAGTTA-CATTTTTACCCTCGAAAGTCCAA
1 AAATTACATTTTTAACCCT-AAAACTTCCAAAAATTATCA-TTTTACCCCCGAAAGTCCAA
* * *
12682343 AAATTACATTTTTGACCCTAAAACTTGCAAAAATTATCATTTTACCCCCGAATGTCCAA
1 AAATTACATTTTTAACCCTAAAACTTCCAAAAATTATCATTTTACCCCCGAAAGTCCAA
* *
12682402 AAACTCCATTTTT
1 AAATTACATTTTT
12682415 GATCTCGATT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 57 0.92
60 5 0.08
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.34
Consensus pattern (59 bp):
AAATTACATTTTTAACCCTAAAACTTCCAAAAATTATCATTTTACCCCCGAAAGTCCAA
Found at i:12682402 original size:29 final size:29
Alignment explanation
Indices: 12682309--12682414 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 29
12682299 CCTCAAAACT
* *
12682309 TCCAAAAGTTACATTTTTACCCTCGAAAG
1 TCCAAAAATTACATTTTTACCCTCGAATG
**
12682338 TCCAAAAATTACATTTTTGACCCTAAAACT-
1 TCCAAAAATTACATTTTT-ACCCTCGAA-TG
* *
12682368 TGCAAAAATTATCA-TTTTACCCCCGAATG
1 TCCAAAAATTA-CATTTTTACCCTCGAATG
* *
12682397 TCCAAAAACTCCATTTTT
1 TCCAAAAATTACATTTTT
12682415 GATCTCGATT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
28 3 0.05
29 35 0.57
30 21 0.34
31 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCTCGAATG
Found at i:12684257 original size:22 final size:22
Alignment explanation
Indices: 12684210--12684257 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
12684200 TGATCTAAGG
* *
12684210 AAAAATAAAAGAAACTGAATTA
1 AAAAATAAAAGAAAATGAACTA
12684232 AAAAATAAAAGAAAATAGAACTA
1 AAAAATAAAAGAAAAT-GAACTA
12684255 AAA
1 AAA
12684258 GAAGTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATGAACTA
Found at i:12685098 original size:19 final size:19
Alignment explanation
Indices: 12685074--12685116 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12685064 AAATATAAAT
12685074 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
12685093 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
12685112 TAAAT
1 TAAAT
12685117 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:12686670 original size:18 final size:18
Alignment explanation
Indices: 12686647--12686683 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12686637 ACAATTCATA
12686647 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
12686665 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
12686683 T
1 T
12686684 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:12687014 original size:17 final size:18
Alignment explanation
Indices: 12686980--12687015 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12686970 TGAATTTCTA
12686980 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
12686998 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
12687015 T
1 T
12687016 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:12688113 original size:424 final size:426
Alignment explanation
Indices: 12687319--12688173 Score: 1606
Period size: 424 Copynumber: 2.0 Consensus size: 426
12687309 TTCTAAAACA
12687319 TCTAATTTAAGAGAAAAGAGCTTAATTGACTTACCAATTAAAGCTTAAAGCTTCAAAATTCTAGT
1 TCTAATTTAAGAGAAAAGAGCTTAATTGACTTACCAATTAAAGCTTAAAGCTTCAAAATTCTAGT
12687384 TTCCCCTTTTTCTTTTTCCTTTCCTTTTCGTTTAAGCTTCTGTTCTTCTATTCCTTCTTTTGTTT
66 TTCCCCTTTTTCTTTTTCCTTTCCTTTTCGTTTAAGCTTCTGTTCTTCTATTCCTTCTTTTGTTT
12687449 CTTTTTATTTTCTTTATTCTTTTATGTCTTATATATATATATATATATTAGTTAGTAATAATATT
131 CTTTTTATTTTCTTTATTCTTTTATGTC---T-TATATATATATATATTAGTTAGTAATAATATT
12687514 AATATATTAGAAATATCTATTTGCTTAAATAATAAGTAAATTAATATTTATTTTACAAATGTACA
192 AATATATTAGAAATATCTATTTGCTTAAATAATAAGTAAATTAATATTTATTTTACAAATGTACA
12687579 AATATAATTTTTACACACGTATATTTTATTACCATACATTTGGCTTTAATTTATATATATTTCAT
257 AATATAATTTTTACACACGTATATTTTATTACCATACATTTGGCTTTAATTTATATATATTTCAT
*
12687644 TAATCTAATAAGATAATATCAATTAAATAATAATTTATACTATTATATTCTAATATTAATTAATA
322 TAATCTAATAAGATAACATCAATTAAATAATAATTTATACTATTATATTCTAATATTAATTAATA
12687709 ATAACTTAAATCATTAAAAATCTTTAGATTTTTCTCATTG
387 ATAACTTAAATCATTAAAAATCTTTAGATTTTTCTCATTG
12687749 TCTAATTTAAGAGAAAAGAGCTTAATTGACTTACCAATTAAAGCTTAAAGCTTCAAAATTCTAGT
1 TCTAATTTAAGAGAAAAGAGCTTAATTGACTTACCAATTAAAGCTTAAAGCTTCAAAATTCTAGT
* * * *
12687814 TTTCCTTTTTTTTTTTTCCTTTCCTTTTCGTTTAAGCTTCTGTTCTTTTATTCCTTCTTTTGTTT
66 TTCCCCTTTTTCTTTTTCCTTTCCTTTTCGTTTAAGCTTCTGTTCTTCTATTCCTTCTTTTGTTT
12687879 CTTTTTATTTTCTTTATTCTTTTATGTC-T-TATATATATATATTAGTTAGTAATAATATTAATA
131 CTTTTTATTTTCTTTATTCTTTTATGTCTTATATATATATATATTAGTTAGTAATAATATTAATA
*
12687942 TATTATAAATATCTATTTGCTTAAATAATAAGTAAATTAATATTTATTTTACAAATGTACAAATA
196 TATTAGAAATATCTATTTGCTTAAATAATAAGTAAATTAATATTTATTTTACAAATGTACAAATA
12688007 TAATTTTTACACACGTATATTTTATTACCATACATTTGGCTTTAATTTATATATATTTCATTAAT
261 TAATTTTTACACACGTATATTTTATTACCATACATTTGGCTTTAATTTATATATATTTCATTAAT
12688072 CTAATAAGATAACATCAATTAAATAATAATTTATACTATTATATTCTAATATTAATTAATAATAA
326 CTAATAAGATAACATCAATTAAATAATAATTTATACTATTATATTCTAATATTAATTAATAATAA
12688137 CTTAAATCATTAAAAATCTTTAGATTTTTCTCATTG
391 CTTAAATCATTAAAAATCTTTAGATTTTTCTCATTG
12688173 T
1 T
12688174 TTTGTAGCCT
Statistics
Matches: 419, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
424 264 0.63
425 1 0.00
430 154 0.37
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (426 bp):
TCTAATTTAAGAGAAAAGAGCTTAATTGACTTACCAATTAAAGCTTAAAGCTTCAAAATTCTAGT
TTCCCCTTTTTCTTTTTCCTTTCCTTTTCGTTTAAGCTTCTGTTCTTCTATTCCTTCTTTTGTTT
CTTTTTATTTTCTTTATTCTTTTATGTCTTATATATATATATATTAGTTAGTAATAATATTAATA
TATTAGAAATATCTATTTGCTTAAATAATAAGTAAATTAATATTTATTTTACAAATGTACAAATA
TAATTTTTACACACGTATATTTTATTACCATACATTTGGCTTTAATTTATATATATTTCATTAAT
CTAATAAGATAACATCAATTAAATAATAATTTATACTATTATATTCTAATATTAATTAATAATAA
CTTAAATCATTAAAAATCTTTAGATTTTTCTCATTG
Found at i:12690804 original size:23 final size:22
Alignment explanation
Indices: 12690775--12690873 Score: 128
Period size: 23 Copynumber: 4.3 Consensus size: 22
12690765 GCTGGGTAAT
*
12690775 AGTAAGCACACATAGTGC-AATC
1 AGTAAGCACACACAGTGCGAA-C
12690797 TAGTAAGCACACACAGTGCTGAAC
1 -AGTAAGCACACACAGTGC-GAAC
12690821 AGTAAGCACACACAGTGCTGAAC
1 AGTAAGCACACACAGTGC-GAAC
*
12690844 AGTAAGCACACACAGTGTTGAAC
1 AGTAAGCACACACAGTG-CGAAC
12690867 AGTAAGC
1 AGTAAGC
12690874 GCGCTAGTGT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
23 68 0.96
24 1 0.01
25 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (22 bp):
AGTAAGCACACACAGTGCGAAC
Found at i:12690829 original size:46 final size:45
Alignment explanation
Indices: 12690775--12690873 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 45
12690765 GCTGGGTAAT
*
12690775 AGTAAGCACACATAGTGC-AATCTAGTAAGCACACACAGTGCTGAAC
1 AGTAAGCACACACAGTGCGAA-C-AGTAAGCACACACAGTGCTGAAC
*
12690821 AGTAAGCACACACAGTGCTGAACAGTAAGCACACACAGTGTTGAAC
1 AGTAAGCACACACAGTGC-GAACAGTAAGCACACACAGTGCTGAAC
12690867 AGTAAGC
1 AGTAAGC
12690874 GCGCTAGTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
46 46 0.94
47 1 0.02
48 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (45 bp):
AGTAAGCACACACAGTGCGAACAGTAAGCACACACAGTGCTGAAC
Found at i:12690974 original size:24 final size:26
Alignment explanation
Indices: 12690936--12690983 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
12690926 TCTACATGGG
12690936 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
12690962 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
12690984 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:12697286 original size:48 final size:48
Alignment explanation
Indices: 12697211--12697309 Score: 171
Period size: 48 Copynumber: 2.1 Consensus size: 48
12697201 ATCGGTTATC
*
12697211 AAAATGGCCCAGCAAATTATCGAATTTTCTTTAAAAAATAATCATATT
1 AAAATGACCCAGCAAATTATCGAATTTTCTTTAAAAAATAATCATATT
* *
12697259 AAAATGACCCAGTAAATTATCGGATTTTCTTTAAAAAATAATCATATT
1 AAAATGACCCAGCAAATTATCGAATTTTCTTTAAAAAATAATCATATT
12697307 AAA
1 AAA
12697310 CATTTGTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (48 bp):
AAAATGACCCAGCAAATTATCGAATTTTCTTTAAAAAATAATCATATT
Found at i:12704461 original size:40 final size:40
Alignment explanation
Indices: 12704416--12704494 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
12704406 TAACTTCTGA
* *
12704416 TTTTTGTTAGTTTATTACATATAAATTGTTGAAATATTAT
1 TTTTTGTTAATTAATTACATATAAATTGTTGAAATATTAT
* *
12704456 TTTTTGTTAATTAATTACATTTAAATTGTTGAACTATTA
1 TTTTTGTTAATTAATTACATATAAATTGTTGAAATATTA
12704495 ATTCTTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (40 bp):
TTTTTGTTAATTAATTACATATAAATTGTTGAAATATTAT
Found at i:12704494 original size:22 final size:22
Alignment explanation
Indices: 12704428--12704494 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
12704418 TTTGTTAGTT
*
12704428 TATTACATATAAATTGTTGAAA
1 TATTACATTTAAATTGTTGAAA
* *
12704450 TATT--ATTT--TTTGTT-AAT
1 TATTACATTTAAATTGTTGAAA
*
12704467 TAATTACATTTAAATTGTTGAAC
1 T-ATTACATTTAAATTGTTGAAA
12704490 TATTA
1 TATTA
12704495 ATTCTTAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
17 3 0.09
18 8 0.24
20 7 0.21
22 13 0.38
23 3 0.09
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.51
Consensus pattern (22 bp):
TATTACATTTAAATTGTTGAAA
Found at i:12705757 original size:4 final size:5
Alignment explanation
Indices: 12705731--12705759 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
12705721 TAAAATTATG
12705731 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
12705760 TAATAAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:12705761 original size:15 final size:15
Alignment explanation
Indices: 12705731--12705759 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12705721 TAAAATTATG
12705731 ATTTTATTTTATTTT
1 ATTTTATTTTATTTT
12705746 ATTTTA-TTTATTTT
1 ATTTTATTTTATTTT
12705760 TAATAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTATTTTATTTT
Found at i:12706700 original size:16 final size:16
Alignment explanation
Indices: 12706679--12706711 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12706669 AAAAAACTAC
12706679 TTTCTTTAATTGCTAT
1 TTTCTTTAATTGCTAT
*
12706695 TTTCTTTATTTGCTAT
1 TTTCTTTAATTGCTAT
12706711 T
1 T
12706712 AATATATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTCTTTAATTGCTAT
Found at i:12711012 original size:38 final size:38
Alignment explanation
Indices: 12710956--12711251 Score: 246
Period size: 38 Copynumber: 7.8 Consensus size: 38
12710946 CCAAACAAAT
* * *
12710956 ATAAACACTGGCACAAAGCCTGCTAGGCACGAAACCTG
1 ATAAACACCGACATAAAGCCTGCTAGGCACGAAACCTG
* * * *
12710994 ATAAACATCGACATAAAGCCTGTTAGGTACG-AAGCTCG
1 ATAAACACCGACATAAAGCCTGCTAGGCACGAAACCT-G
* * ** * * *
12711032 ATAAACACCGGCATATAGCCTATTAGACACGAAGCCCG
1 ATAAACACCGACATAAAGCCTGCTAGGCACGAAACCTG
* *
12711070 ATAAACACCGGCATAAAGCTTGCTAGGCACGAAA-CTCG
1 ATAAACACCGACATAAAGCCTGCTAGGCACGAAACCT-G
*
12711108 ATAAACACC-AGCATAAAGCCTGCTAGGCACAAAACCTG
1 ATAAACACCGA-CATAAAGCCTGCTAGGCACGAAACCTG
* * *
12711146 ATAAACACCAGCACA-AAA-CCTGTTAGGCATG-AATCTCG
1 ATAAACACC-G-ACATAAAGCCTGCTAGGCACGAAACCT-G
* * * *
12711184 ACAAACACCGGCATAAAGCCTG-TGAGGCACGAAGCCTA
1 ATAAACACCGACATAAAGCCTGCT-AGGCACGAAACCTG
* *
12711222 ATAAGCACCGACATAAAGCTTGCTAGGCAC
1 ATAAACACCGACATAAAGCCTGCTAGGCAC
12711252 AAAGGTCGAT
Statistics
Matches: 204, Mismatches: 40, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
36 2 0.01
37 14 0.07
38 174 0.85
39 11 0.05
40 2 0.01
41 1 0.00
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (38 bp):
ATAAACACCGACATAAAGCCTGCTAGGCACGAAACCTG
Found at i:12711085 original size:76 final size:76
Alignment explanation
Indices: 12710956--12711268 Score: 335
Period size: 76 Copynumber: 4.1 Consensus size: 76
12710946 CCAAACAAAT
* * * *
12710956 ATAAACACTGGCACAAAGCCTGCTAGGCACGAAACCTGATAAACATCGACATAAAGCCTGTTAGG
1 ATAAACACCGGCATAAAGCCTGCTAGGCACGAAACCTGATAAACACCGACATAAAGCCTGCTAGG
*
12711021 TACGAAGCTCG
66 CACGAAGCTCG
* ** * * * * *
12711032 ATAAACACCGGCATATAGCCTATTAGACACGAAGCCCGATAAACACCGGCATAAAGCTTGCTAGG
1 ATAAACACCGGCATAAAGCCTGCTAGGCACGAAACCTGATAAACACCGACATAAAGCCTGCTAGG
*
12711097 CACGAAACTCG
66 CACGAAGCTCG
* * *
12711108 ATAAACACCAGCATAAAGCCTGCTAGGCACAAAACCTGATAAACACCAGCACA-AAA-CCTGTTA
1 ATAAACACCGGCATAAAGCCTGCTAGGCACGAAACCTGATAAACACC-G-ACATAAAGCCTGCTA
* *
12711171 GGCATGAATCTCG
64 GGCACGAAGCTCG
* * * * *
12711184 ACAAACACCGGCATAAAGCCTG-TGAGGCACGAAGCCTAATAAGCACCGACATAAAGCTTGCTAG
1 ATAAACACCGGCATAAAGCCTGCT-AGGCACGAAACCTGATAAACACCGACATAAAGCCTGCTAG
* *
12711248 GCACAAAGGTCG
65 GCACGAAGCTCG
*
12711260 ATAGACACC
1 ATAAACACC
12711269 TATATGAAAC
Statistics
Matches: 191, Mismatches: 41, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
74 3 0.02
75 5 0.03
76 177 0.93
77 4 0.02
78 2 0.01
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (76 bp):
ATAAACACCGGCATAAAGCCTGCTAGGCACGAAACCTGATAAACACCGACATAAAGCCTGCTAGG
CACGAAGCTCG
Found at i:12711190 original size:114 final size:115
Alignment explanation
Indices: 12710958--12711254 Score: 334
Period size: 114 Copynumber: 2.6 Consensus size: 115
12710948 AAACAAATAT
* * * * *
12710958 AAACACTGGCACAAAGCCTGCTAGGCACGAAACCTGATAAACATCGACATAAAGCCTGTTAGGTA
1 AAACACCGGCATAAAGCCTGCTAGGCACGAAACCTGATAAACACCGACATAAAGCCTGCTAGGCA
* * * * * * *
12711023 C-GAAGCTCGATAAACACCGGCATATAGCCTATTAGACACGAAGCCCGAT
66 CAAAACCTCGATAAACACCAGCACAAAACCTATTAGACACGAAGCCCGAC
*
12711072 AAACACCGGCATAAAGCTTGCTAGGCACGAAA-CTCGATAAACACC-AGCATAAAGCCTGCTAGG
1 AAACACCGGCATAAAGCCTGCTAGGCACGAAACCT-GATAAACACCGA-CATAAAGCCTGCTAGG
* * * * *
12711135 CACAAAACCT-GATAAACACCAGCACAAAACCTGTTAGGCATGAATCTCGAC
64 CACAAAACCTCGATAAACACCAGCACAAAACCTATTAGACACGAAGCCCGAC
* * * *
12711186 AAACACCGGCATAAAGCCTG-TGAGGCACGAAGCCTAATAAGCACCGACATAAAGCTTGCTAGGC
1 AAACACCGGCATAAAGCCTGCT-AGGCACGAAACCTGATAAACACCGACATAAAGCCTGCTAGGC
12711250 ACAAA
65 ACAAA
12711255 GGTCGATAGA
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
113 4 0.03
114 143 0.93
115 7 0.05
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (115 bp):
AAACACCGGCATAAAGCCTGCTAGGCACGAAACCTGATAAACACCGACATAAAGCCTGCTAGGCA
CAAAACCTCGATAAACACCAGCACAAAACCTATTAGACACGAAGCCCGAC
Found at i:12712366 original size:14 final size:16
Alignment explanation
Indices: 12712336--12712368 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
12712326 GATTAAATAT
12712336 TAATTAACAACTAAAA
1 TAATTAACAACTAAAA
12712352 TAATTAA-AA-TAAAA
1 TAATTAACAACTAAAA
12712366 TAA
1 TAA
12712369 AGAGTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
TAATTAACAACTAAAA
Found at i:12733068 original size:5 final size:5
Alignment explanation
Indices: 12733058--12733087 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
12733048 TAGTGAAATA
*
12733058 ATTAT ATTAT ATTAT ATTAT ACTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
12733088 TGGCAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:12733817 original size:28 final size:29
Alignment explanation
Indices: 12733786--12733851 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
12733776 TATTATAGAT
*
12733786 TATAGAAAATTATAAA-ATTTTATAAAAATA
1 TATAGAAAATTA-AAATA-ATTATAAAAATA
12733816 TAT--AAAATTAAAATAATTATAAAAATTA
1 TATAGAAAATTAAAATAATTATAAAAA-TA
12733844 TATAGAAA
1 TATAGAAA
12733852 TATTTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
27 12 0.39
28 13 0.42
30 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (29 bp):
TATAGAAAATTAAAATAATTATAAAAATA
Found at i:12733819 original size:20 final size:20
Alignment explanation
Indices: 12733785--12733824 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12733775 ATATTATAGA
12733785 TTATAGAAAATTATAAAATT
1 TTATAGAAAATTATAAAATT
12733805 TTATA-AAAATATATAAAATT
1 TTATAGAAAAT-TATAAAATT
12733825 AAAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
TTATAGAAAATTATAAAATT
Found at i:12733833 original size:9 final size:9
Alignment explanation
Indices: 12733784--12733845 Score: 65
Period size: 9 Copynumber: 6.7 Consensus size: 9
12733774 TATATTATAG
12733784 ATTATAGAAA
1 ATTATA-AAA
12733794 ATTATAAAA
1 ATTATAAAA
*
12733803 TTTTATAAAA
1 -ATTATAAAA
12733813 A-TATATAAA
1 ATTATA-AAA
12733822 ATTA-AAATA
1 ATTATAAA-A
12733831 ATTATAAAA
1 ATTATAAAA
12733840 ATTATA
1 ATTATA
12733846 TAGAAATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
8 6 0.13
9 20 0.44
10 19 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
ATTATAAAA
Found at i:12735412 original size:31 final size:31
Alignment explanation
Indices: 12735368--12735489 Score: 129
Period size: 31 Copynumber: 3.9 Consensus size: 31
12735358 CATAATAGAA
* * *
12735368 AATTGATAAATATGGTGGACTCATACATGTG
1 AATTCATAGATATGGTGAACTCATACATGTG
* *
12735399 GATTCATAGATATGGTGAACTCATACAAGTG
1 AATTCATAGATATGGTGAACTCATACATGTG
* * * * *
12735430 AATTCACA-ACTATAGCGAATTCATACATGCG
1 AATTCATAGA-TATGGTGAACTCATACATGTG
*
12735461 AATTAATAGATATGGTGAACTCATACATG
1 AATTCATAGATATGGTGAACTCATACATG
12735490 CGAACTGTGT
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
30 1 0.01
31 70 0.97
32 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (31 bp):
AATTCATAGATATGGTGAACTCATACATGTG
Found at i:12736740 original size:6 final size:6
Alignment explanation
Indices: 12736724--12736773 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
12736714 GGGATATGAG
* *
12736724 TGGCTT CGGCTT TGGCTT TGGCTT TGGCTT TGGCTG TGGCTT TGGCTT
1 TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT
12736772 TG
1 TG
12736774 TTAAATAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.18, G:0.36, T:0.46
Consensus pattern (6 bp):
TGGCTT
Found at i:12740815 original size:2 final size:2
Alignment explanation
Indices: 12740808--12740859 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
12740798 TCTTCCTACT
12740808 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12740850 TC TC TC TC TC
1 TC TC TC TC TC
12740860 CCTTTTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:12743762 original size:21 final size:20
Alignment explanation
Indices: 12743707--12743766 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
12743697 TTCAGTTTAC
*
12743707 CAATAAATATATTATTTACAA
1 CAATAAATATATT-TATACAA
* * *
12743728 CAAAAAGATTTATTTATACATG
1 CAATAA-ATATATTTATACA-A
12743750 CAATAAATATATTTATA
1 CAATAAATATATTTATA
12743767 AAATTTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.38
Consensus pattern (20 bp):
CAATAAATATATTTATACAA
Found at i:12748792 original size:53 final size:52
Alignment explanation
Indices: 12748728--12748827 Score: 137
Period size: 53 Copynumber: 1.9 Consensus size: 52
12748718 TAAAAAATTA
*
12748728 AAAAAAAATATAAAAACACATAAATACTTTCAAAATATATAATAATAATTTTT
1 AAAAAAAATATAAAAACAAATAAATACTTTCAAAA-ATATAATAATAATTTTT
* * ** *
12748781 AAAAAATATATAACAGTAAATAAATATTTTCAAAAATATAATAATAA
1 AAAAAAAATATAAAAACAAATAAATACTTTCAAAAATATAATAATAA
12748828 ATTTACATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
52 12 0.29
53 29 0.71
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (52 bp):
AAAAAAAATATAAAAACAAATAAATACTTTCAAAAATATAATAATAATTTTT
Found at i:12748828 original size:24 final size:25
Alignment explanation
Indices: 12748747--12748829 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 25
12748737 ATAAAAACAC
*
12748747 ATAAATACTTTCAAAATATATAATA
1 ATAAATATTTTCAAAATATATAATA
*
12748772 AT-AAT-TTTTAAAAAATATATAACAGTAA
1 ATAAATATTTT-CAAAATATAT-A-A-T-A
12748800 ATAAATATTTTCAAAA-ATATAATA
1 ATAAATATTTTCAAAATATATAATA
12748824 ATAAAT
1 ATAAAT
12748830 TTACATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
23 3 0.06
24 19 0.40
25 4 0.08
26 2 0.04
27 2 0.04
28 7 0.15
29 7 0.15
30 4 0.08
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (25 bp):
ATAAATATTTTCAAAATATATAATA
Found at i:12748828 original size:28 final size:27
Alignment explanation
Indices: 12748747--12748829 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 27
12748737 ATAAAAACAC
*
12748747 ATAAATACTTTC-AAAATATATAAT-A
1 ATAAATATTTTCAAAAATATATAATAA
*
12748772 AT-AAT-TTTTAAAAAATATATAACAGTAA
1 ATAAATATTTTCAAAAATATAT-A-A-TAA
12748800 ATAAATATTTTCAAAAATATAATAATAA
1 ATAAATATTTTCAAAAATAT-ATAATAA
12748828 AT
1 AT
12748830 TTACATTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
23 3 0.06
24 12 0.26
25 3 0.06
26 1 0.02
27 1 0.02
28 8 0.17
29 4 0.09
30 13 0.28
31 2 0.04
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (27 bp):
ATAAATATTTTCAAAAATATATAATAA
Found at i:12751588 original size:2 final size:2
Alignment explanation
Indices: 12751581--12751624 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
12751571 CAACAATAAT
12751581 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12751623 TA
1 TA
12751625 AATTGTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12752124 original size:23 final size:23
Alignment explanation
Indices: 12752075--12752126 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
12752065 ATTATAGTAT
* *
12752075 GAAATTGATATTAATAAGTTTAT
1 GAAATTGAAATTAATAAGTTTAA
*
12752098 GAAATTGAAATTAA-AATTTTCAA
1 GAAATTGAAATTAATAAGTTT-AA
12752121 GAAATT
1 GAAATT
12752127 CTATCAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (23 bp):
GAAATTGAAATTAATAAGTTTAA
Found at i:12753981 original size:19 final size:20
Alignment explanation
Indices: 12753945--12753985 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
12753935 CTTAAAAGAC
12753945 ATTTTAAATTTTTCTTAAAA
1 ATTTTAAATTTTTCTTAAAA
12753965 ATTTTAAATTTTT-TTAAAA
1 ATTTTAAATTTTTCTTAAAA
12753984 AT
1 AT
12753986 AGAACTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTAAATTTTTCTTAAAA
Found at i:12758940 original size:22 final size:22
Alignment explanation
Indices: 12758912--12758960 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
12758902 GTTAATATGA
12758912 ATTTTAATGATAGAAAATGGAG
1 ATTTTAATGATAGAAAATGGAG
* *
12758934 ATTTTAATTATAGAAGATGGAG
1 ATTTTAATGATAGAAAATGGAG
12758956 -TTTTA
1 ATTTTA
12758961 GAAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (22 bp):
ATTTTAATGATAGAAAATGGAG
Found at i:12759410 original size:24 final size:26
Alignment explanation
Indices: 12759383--12759440 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
12759373 TTCACATTAT
* **
12759383 TACTTGATTT-TTT-TTTCAATTTGA
1 TACTTGATTTGTTTATCTCAATTAAA
12759407 TACTTGAATTTGTTTATCTCAATTAAA
1 TACTTG-ATTTGTTTATCTCAATTAAA
12759434 TACTTGA
1 TACTTGA
12759441 GTTTAGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 6 0.21
25 4 0.14
26 4 0.14
27 14 0.50
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (26 bp):
TACTTGATTTGTTTATCTCAATTAAA
Found at i:12764802 original size:27 final size:25
Alignment explanation
Indices: 12764772--12764825 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
12764762 TCCAAAATTA
*
12764772 AATTGTATTCTATTTTATTTAATATAT
1 AATTG-ATTCTAATTT-TTTAATATAT
* *
12764799 AATTGATTTTAATTTTTTATTATAT
1 AATTGATTCTAATTTTTTAATATAT
12764824 AA
1 AA
12764826 AAGTATGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.46
26 8 0.33
27 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
AATTGATTCTAATTTTTTAATATAT
Found at i:12770184 original size:13 final size:12
Alignment explanation
Indices: 12770153--12770192 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
12770143 TGGACTTTTT
*
12770153 AAATTAAATTTA
1 AAATTTAATTTA
12770165 AAATTTAATTTA
1 AAATTTAATTTA
12770177 AAACTTT-ATTTA
1 AAA-TTTAATTTA
12770189 AAAT
1 AAAT
12770193 ATAAATGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 1 0.04
12 22 0.85
13 3 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTTAATTTA
Found at i:12770723 original size:42 final size:41
Alignment explanation
Indices: 12770671--12770812 Score: 144
Period size: 42 Copynumber: 3.4 Consensus size: 41
12770661 CTTGACTAGG
* * *
12770671 GGTAAAAGATTGGATGAGGTCTTCAATCCGTCCCATGATCGA
1 GGTAAGAGATTGGATGAAGTCTTCAATCTG-CCCATGATCGA
*
12770713 GGTAAGAGATTGGATGATAG-CTGCAATCTGCACCATGATC-A
1 GGTAAGAGATTGGATGA-AGTCTTCAATCTGC-CCATGATCGA
* * * *
12770754 GGGTAAGAGATTGGATGATGTTTTCAATCTGCCCCATGATTGG
1 -GGTAAGAGATTGGATGAAGTCTTCAATCTG-CCCATGATCGA
*
12770797 GGTAAGAGATTAGATG
1 GGTAAGAGATTGGATG
12770813 GTGACGTAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
41 3 0.04
42 79 0.94
43 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (41 bp):
GGTAAGAGATTGGATGAAGTCTTCAATCTGCCCATGATCGA
Found at i:12771224 original size:49 final size:49
Alignment explanation
Indices: 12771158--12771641 Score: 430
Period size: 49 Copynumber: 9.9 Consensus size: 49
12771148 AGGTACATGG
* * *
12771158 TTCGCCGTTGCGACTTAAATCTTTCCTTTCAAATCTTCGTGGTACTAGA
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTCGTGGTACTAGA
* * * * *
12771207 TTCGCTGTTGTGGCTTAAATTTTTCCCTTCATGT-TTC-TAAGGTAC-AAA
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTCGT--GGTACTAGA
* *
12771255 GTTCACCGTTGCGACTTAAATCTTTCCCTTCATATCTTCGTGGTACTAGA
1 -TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTCGTGGTACTAGA
* * * * * * *
12771305 TTCACCGTTGCGGCTTAAATTTTTTCCTTCAT-GCTTCTGAGGTACAAGG
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTC-GTGGTACTAGA
* * * *
12771354 TTCGCCATTGTGACTTAAA-CATTTCCCTTCAAATCTTCGTGGTACTAGA
1 TTCGCCGTTGCGGCTTAAATC-TTTCCCTTCATATCTTCGTGGTACTAGA
* *
12771403 TTCGTCGTTGCGGCTTAAATCTTTCCCTTCATATCTTCGTGGTCCTAGA
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTCGTGGTACTAGA
* * * * ** *
12771452 TTCGCCGTTGTGGCTTAAGTCTTTCCCTTCAT-GCTTCTGAGGTAAAAGG
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTC-GTGGTACTAGA
* * * *
12771501 TTCGCCGTTACGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGA
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTCGTGGTACTAGA
** * *
12771550 TTCATCGTTGCGGCTTAAATCTTTCCCTT--TATGCTTC-TAAGGTACAAGG
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATAT-CTTCGT--GGTACTAGA
* * * *
12771599 TTCACCGTTGCGACTTAAACCTTTCCCTCCATATCCTT-GTGGT
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATAT-CTTCGTGGT
12771642 GATGAAAACT
Statistics
Matches: 345, Mismatches: 72, Indels: 36
0.76 0.16 0.08
Matches are distributed among these distances:
47 5 0.01
48 17 0.05
49 301 0.87
50 14 0.04
51 8 0.02
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (49 bp):
TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATATCTTCGTGGTACTAGA
Found at i:12773434 original size:18 final size:16
Alignment explanation
Indices: 12773393--12773445 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
12773383 CCTTTGCGGG
*
12773393 TTTTCTTCTTGACTTTCT
1 TTTTCTTCTT--CTTTTT
12773411 TTTTCTTC--CTTTTT
1 TTTTCTTCTTCTTTTT
12773425 CTTTTCTTCTTCTTTTT
1 -TTTTCTTCTTCTTTTT
12773442 TTTT
1 TTTT
12773446 TTAAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 5 0.16
15 8 0.26
16 4 0.13
17 6 0.19
18 8 0.26
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTCTTCTTCTTTTT
Found at i:12773447 original size:18 final size:18
Alignment explanation
Indices: 12773413--12773445 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12773403 GACTTTCTTT
12773413 TTCTTCCTTTTTCTTTTC
1 TTCTTCCTTTTTCTTTTC
12773431 TTCTT-CTTTTT-TTTT
1 TTCTTCCTTTTTCTTTT
12773446 TTAAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTCTTCCTTTTTCTTTTC
Found at i:12778450 original size:18 final size:16
Alignment explanation
Indices: 12778418--12778476 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 16
12778408 TGCAAGGGGC
12778418 GGCAGAGAAGGCCTTG
1 GGCAGAGAAGGCCTTG
12778434 GGCAGAGGAATGGCCTTG
1 GGCAGA-GAA-GGCCTTG
* * *
12778452 GGTAGCAGAAGAGTCTCG
1 GGCAG-AGAAG-GCCTTG
12778470 GGCAGAG
1 GGCAGAG
12778477 GAGAAGTCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 6 0.17
17 6 0.17
18 22 0.63
19 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.44, T:0.14
Consensus pattern (16 bp):
GGCAGAGAAGGCCTTG
Found at i:12786009 original size:37 final size:38
Alignment explanation
Indices: 12785955--12786029 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
12785945 CTGCATCAGG
* * *
12785955 AGAAAATTGAGGAAAATTATACAAT-GAAGCACAAAAT
1 AGAAAATAGAGGAAAATTAGACAATGGAACCACAAAAT
* *
12785992 AGAAAATAGAGGGAAATTAGATAATGGAACCACAAAAT
1 AGAAAATAGAGGAAAATTAGACAATGGAACCACAAAAT
12786030 CAAGCTGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 21 0.66
38 11 0.34
ACGTcount: A:0.56, C:0.08, G:0.19, T:0.17
Consensus pattern (38 bp):
AGAAAATAGAGGAAAATTAGACAATGGAACCACAAAAT
Found at i:12786457 original size:21 final size:21
Alignment explanation
Indices: 12786431--12786480 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
12786421 GCAATTTGAA
12786431 CAATCAATCTTCTGCCGTATG
1 CAATCAATCTTCTGCCGTATG
12786452 CAATCAATCTTCTGCCGTATG
1 CAATCAATCTTCTGCCGTATG
12786473 CAATCAAT
1 CAATCAAT
12786481 AACAAGATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (21 bp):
CAATCAATCTTCTGCCGTATG
Found at i:12786890 original size:6 final size:6
Alignment explanation
Indices: 12786879--12786923 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
12786869 TCGTAGCTTG
12786879 TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCA
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCA
12786924 CTTTCCTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.49, G:0.00, T:0.33
Consensus pattern (6 bp):
TCATCC
Found at i:12789216 original size:8 final size:7
Alignment explanation
Indices: 12789183--12789215 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
12789173 AAAAAAATCG
12789183 AAAATTCA
1 AAAATT-A
12789191 AAAATTA
1 AAAATTA
12789198 AAAATTA
1 AAAATTA
12789205 AAAATTA
1 AAAATTA
12789212 AAAA
1 AAAA
12789216 AAGATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:12790922 original size:42 final size:42
Alignment explanation
Indices: 12790845--12790989 Score: 125
Period size: 42 Copynumber: 3.5 Consensus size: 42
12790835 GGTGATGATT
* * * ** * * *
12790845 GAACTGGTGGGGGTGGAGAATGGATGGGTGGTGGAGGATAGT
1 GAACTGGTAGAGGTGGAGAGTGGATGCATGATGGAGGAGAGA
* *
12790887 GAATTGGTAGAGGTGGAGAGTGGATGCATGATGGAGGGGAGA
1 GAACTGGTAGAGGTGGAGAGTGGATGCATGATGGAGGAGAGA
* * * **
12790929 GAACTGTTGGTGGTGGAGAGTGGATGTTTGATGGAGGAGAGA
1 GAACTGGTAGAGGTGGAGAGTGGATGCATGATGGAGGAGAGA
*
12790971 GAACCGG-A-A-GTGGAGAGTG
1 GAACTGGTAGAGGTGGAGAGTG
12790990 AACTAGTGGA
Statistics
Matches: 82, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
39 10 0.12
42 72 0.88
ACGTcount: A:0.26, C:0.03, G:0.50, T:0.21
Consensus pattern (42 bp):
GAACTGGTAGAGGTGGAGAGTGGATGCATGATGGAGGAGAGA
Found at i:12790968 original size:21 final size:20
Alignment explanation
Indices: 12790901--12790969 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
12790891 TGGTAGAGGT
*
12790901 GGAGAGTGGATGCATGATGGA
1 GGAGAGTGGATG-TTGATGGA
* * * * *
12790922 GGGGAGAGAACTGTTGGTGGT
1 GGAGAGTGGA-TGTTGATGGA
12790943 GGAGAGTGGATGTTTGATGGA
1 GGAGAGTGGATG-TTGATGGA
12790964 GGAGAG
1 GGAGAG
12790970 AGAACCGGAA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.51, T:0.22
Consensus pattern (20 bp):
GGAGAGTGGATGTTGATGGA
Found at i:12791004 original size:21 final size:22
Alignment explanation
Indices: 12790980--12791073 Score: 58
Period size: 21 Copynumber: 4.5 Consensus size: 22
12790970 AGAACCGGAA
12790980 GTGGAGAGTGA-ACTAGTGGAG
1 GTGGAGAGTGAGACTAGTGGAG
* *
12791001 GTGGAGAGAG-GATGCATGGTGGAG
1 GTGGAGAGTGAGA--C-TAGTGGAG
* *
12791025 G-GGAGA--GA-ATTAGTGGTG
1 GTGGAGAGTGAGACTAGTGGAG
* *
12791043 GTAGAGAAT-AGACTAGTGGAG
1 GTGGAGAGTGAGACTAGTGGAG
12791064 GTGGAGAGTG
1 GTGGAGAGTG
12791074 GGCTCGTGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 19
0.65 0.12 0.23
Matches are distributed among these distances:
18 7 0.13
19 4 0.08
20 1 0.02
21 27 0.51
23 6 0.11
24 8 0.15
ACGTcount: A:0.29, C:0.03, G:0.49, T:0.19
Consensus pattern (22 bp):
GTGGAGAGTGAGACTAGTGGAG
Found at i:12791104 original size:63 final size:62
Alignment explanation
Indices: 12790967--12791389 Score: 236
Period size: 63 Copynumber: 6.8 Consensus size: 62
12790957 TGATGGAGGA
** * * * * *
12790967 GAGAGAACCGGAAGT-G-GAGAGT-GAACTAGTGGAGGTGGAGAG-AGGATGCATGGTGGAGGG
1 GAGAGAACCGGTGGTGGTGAGAGTAG-ACTAGTGGAGTTGGAGAGTGGGCT-CGTGGTGGAAGG
*** * *
12791027 GAGAGAATTAGTGGTGGTAGAGAATAGACTAGTGGAGGTGGAGAGTGGGCTCGTGGTGGAAGG
1 GAGAGAACCGGTGGTGGT-GAGAGTAGACTAGTGGAGTTGGAGAGTGGGCTCGTGGTGGAAGG
** * ** * * ** *
12791090 GAGAGAACCGGTGGTAATGGAGAGTAGACTAGTGGAGTTAGAGAGTGAACGCATAATAG-AGAG
1 GAGAGAACCGGTGGTGGT-GAGAGTAGACTAGTGGAGTTGGAGAGTGGGCTCGTGGTGGAAG-G
* * * * *
12791153 GAAAGAACCGGTGGTGGTGAAGAGT-GAACTGGTGGAGTTGAAGAGTGGTCGCGTGGTGG-AGAG
1 GAGAGAACCGGTGGTGGTG-AGAGTAG-ACTAGTGGAGTTGGAGAGTGGGCTCGTGGTGGAAG-G
* * * * *
12791216 GAAAGAACCGGTGGTGGTGAAAAGTGGACT-GATGGAGTTGAAGAGTGGGCGT-GTGGTGGATGG
1 GAGAGAACCGGTGGTGGTG-AGAGTAGACTAG-TGGAGTTGGAGAGTGGGC-TCGTGGTGGAAGG
* * * * * * * *
12791279 GAGAGAATCGGTGGTGGTGGAGAGTGGGCTAGTGGAGTTGGAAAGTCGACGCGTGGT-AAAGAG
1 GAGAGAACCGGTGGTGGT-GAGAGTAGACTAGTGGAGTTGGAGAGTGGGCTCGTGGTGGAAG-G
* * * * * *
12791342 GAGAGAAACGGTGATGGTGAAGAGTGGATTGGTAGAGTTGGAGAGTGG
1 GAGAGAACCGGTGGTGGTG-AGAGTAGACTAGTGGAGTTGGAGAGTGG
12791390 ACTGATGGAA
Statistics
Matches: 285, Mismatches: 61, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
60 10 0.04
61 1 0.00
62 8 0.03
63 258 0.91
64 8 0.03
ACGTcount: A:0.28, C:0.06, G:0.47, T:0.19
Consensus pattern (62 bp):
GAGAGAACCGGTGGTGGTGAGAGTAGACTAGTGGAGTTGGAGAGTGGGCTCGTGGTGGAAGG
Found at i:12791179 original size:189 final size:189
Alignment explanation
Indices: 12790984--12791367 Score: 427
Period size: 189 Copynumber: 2.0 Consensus size: 189
12790974 CCGGAAGTGG
* * * **
12790984 AGAGTGAACTAGTGGAGGTGGAGAGAGGAT-GCATGGTGGAGGGGAGAGAATTAGTGGTGGTAGA
1 AGAGTGAACTAGTGGAGGTGAAGAGAGG-TCGCATGGTGGAGAGGAAAGAACCAGTGGTGGT-GA
* *
12791048 GAA-TAGACT-AGTGGAGGTGGAGAGTGGGC-TCGTGGTGGAAGGGAGAGAACCGGTGGTAATGG
64 AAAGTAGACTGA-TGGAGGTGAAGAGTGGGCGT-GTGGTGGAAGGGAGAGAACCGGTGGTAATGG
* * * *
12791110 AGAGTAGACTAGTGGAGTTAGAGAGT-GAACGCATAATAGAGAGGAAAGAACCGGTGGTGGTGA
127 AGAGTAGACTAGTGGAGTTAGAAAGTCG-ACGCATAATAAAGAGGAAAGAAACGGTGATGGTGA
* * * * *
12791173 AGAGTGAACTGGTGGAGTTGAAGAGTGGTCGCGTGGTGGAGAGGAAAGAACCGGTGGTGGTGAAA
1 AGAGTGAACTAGTGGAGGTGAAGAGAGGTCGCATGGTGGAGAGGAAAGAACCAGTGGTGGTGAAA
* * * * **
12791238 AGTGGACTGATGGAGTTGAAGAGTGGGCGTGTGGTGGATGGGAGAGAATCGGTGGTGGTGGAGAG
66 AGTAGACTGATGGAGGTGAAGAGTGGGCGTGTGGTGGAAGGGAGAGAACCGGTGGTAATGGAGAG
* * * * ** *
12791303 TGGGCTAGTGGAGTTGGAAAGTCGACGCGTGGTAAAGAGGAGAGAAACGGTGATGGTGA
131 TAGACTAGTGGAGTTAGAAAGTCGACGCATAATAAAGAGGAAAGAAACGGTGATGGTGA
12791362 AGAGTG
1 AGAGTG
12791368 GATTGGTAGA
Statistics
Matches: 161, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
188 5 0.03
189 153 0.95
190 3 0.02
ACGTcount: A:0.28, C:0.07, G:0.46, T:0.19
Consensus pattern (189 bp):
AGAGTGAACTAGTGGAGGTGAAGAGAGGTCGCATGGTGGAGAGGAAAGAACCAGTGGTGGTGAAA
AGTAGACTGATGGAGGTGAAGAGTGGGCGTGTGGTGGAAGGGAGAGAACCGGTGGTAATGGAGAG
TAGACTAGTGGAGTTAGAAAGTCGACGCATAATAAAGAGGAAAGAAACGGTGATGGTGA
Found at i:12791181 original size:21 final size:21
Alignment explanation
Indices: 12791157--12791241 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
12791147 AGAGAGGAAA
12791157 GAACCGGTGGTGGTGAAGAGT
1 GAACCGGTGGTGGTGAAGAGT
* * *
12791178 GAACTGGTGGAGTTGAAGAGT
1 GAACCGGTGGTGGTGAAGAGT
** * * **
12791199 G-GTCGCGTGGTGGAGAGGAAA
1 GAACCG-GTGGTGGTGAAGAGT
*
12791220 GAACCGGTGGTGGTGAAAAGT
1 GAACCGGTGGTGGTGAAGAGT
12791241 G
1 G
12791242 GACTGATGGA
Statistics
Matches: 43, Mismatches: 19, Indels: 4
0.65 0.29 0.06
Matches are distributed among these distances:
20 1 0.02
21 40 0.93
22 2 0.05
ACGTcount: A:0.26, C:0.08, G:0.47, T:0.19
Consensus pattern (21 bp):
GAACCGGTGGTGGTGAAGAGT
Found at i:12791291 original size:126 final size:126
Alignment explanation
Indices: 12791156--12791389 Score: 299
Period size: 126 Copynumber: 1.9 Consensus size: 126
12791146 TAGAGAGGAA
* * * **
12791156 AGAACCGGTGGTGGTGAAGAGTGAACTGGTGGAGTT-GAAGAGTGGTCGCGTGGTGGAGAGGAAA
1 AGAACCGGTGGTGGTGAAGAGTGAACTAGTGGAGTTGGAA-AGTCGACGCGTGGTAAAGAGGAAA
* * *
12791220 GAACCGGTGGTGGTGAAAAGTGGACTGATGGAGTTGAAGAGTGGGCGTGTGGTGGATGGGAG
65 GAAACGGTGATGGTGAAAAGTGGACTGATAGAGTTGAAGAGTGGGCGTGTGGTGGATGGGAG
* * ** *
12791282 AGAATCGGTGGTGGTGGAGAGTGGGCTAGTGGAGTTGGAAAGTCGACGCGTGGTAAAGAGGAGAG
1 AGAACCGGTGGTGGTGAAGAGTGAACTAGTGGAGTTGGAAAGTCGACGCGTGGTAAAGAGGAAAG
* * * *
12791347 AAACGGTGATGGTGAAGAGTGGATTGGTAGAGTTGGAGAGTGG
66 AAACGGTGATGGTGAAAAGTGGACTGATAGAGTTGAAGAGTGG
12791390 ACTGATGGAA
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
126 87 0.97
127 3 0.03
ACGTcount: A:0.26, C:0.06, G:0.48, T:0.20
Consensus pattern (126 bp):
AGAACCGGTGGTGGTGAAGAGTGAACTAGTGGAGTTGGAAAGTCGACGCGTGGTAAAGAGGAAAG
AAACGGTGATGGTGAAAAGTGGACTGATAGAGTTGAAGAGTGGGCGTGTGGTGGATGGGAG
Found at i:12791601 original size:63 final size:63
Alignment explanation
Indices: 12791524--12791665 Score: 185
Period size: 63 Copynumber: 2.2 Consensus size: 63
12791514 AGTGAATGCA
* * * * *
12791524 TGGTGGATAAGAGAGAACTGATGGTAGTGAAGAGTGGAGTGATAGAGTTGAAGAGTCGACGCG
1 TGGTGGATAAGAGAGAACCGAAGATAGTGAAGAGTAGAGTGATAGAGTTGAAGAGTCGACACG
** * *
12791587 TGGTGGATGGGAGAGAACCGAAGATGGTGAAGAGTAGAGTGATAGAGTTGAAGAGTTGACACG
1 TGGTGGATAAGAGAGAACCGAAGATAGTGAAGAGTAGAGTGATAGAGTTGAAGAGTCGACACG
*
12791650 TGGTGGAGTTAGAGAG
1 TGGTGGA-TAAGAGAG
12791666 TGGAGTGATG
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
63 61 0.91
64 6 0.09
ACGTcount: A:0.32, C:0.06, G:0.42, T:0.20
Consensus pattern (63 bp):
TGGTGGATAAGAGAGAACCGAAGATAGTGAAGAGTAGAGTGATAGAGTTGAAGAGTCGACACG
Found at i:12791784 original size:63 final size:63
Alignment explanation
Indices: 12791711--12791858 Score: 172
Period size: 63 Copynumber: 2.3 Consensus size: 63
12791701 TGAAGAGTGA
* * * * *
12791711 ACTAGTAGAGTTGGAGAGTGGACGCGTTATGGA-GGAGAGAGAACCGACAGTGACGGAGAATGG
1 ACTAGCAGAGTTGGAGAGTGGACGCATGATGGAGGGA-AAAGAACCAACAGTGACGGAGAATGG
* * * * *
12791774 ACTGGCAGAGTTGAAGAGTGTACGCATGATGGAGGGAAAAGAACCAATAGTGACGGAGAGTGG
1 ACTAGCAGAGTTGGAGAGTGGACGCATGATGGAGGGAAAAGAACCAACAGTGACGGAGAATGG
**
12791837 ACTAGTGGAGTTGGAGAGTGGA
1 ACTAGCAGAGTTGGAGAGTGGA
12791859 TTAATGGAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
63 66 0.96
64 3 0.04
ACGTcount: A:0.32, C:0.10, G:0.41, T:0.17
Consensus pattern (63 bp):
ACTAGCAGAGTTGGAGAGTGGACGCATGATGGAGGGAAAAGAACCAACAGTGACGGAGAATGG
Found at i:12791853 original size:21 final size:21
Alignment explanation
Indices: 12791828--12792068 Score: 132
Period size: 21 Copynumber: 11.5 Consensus size: 21
12791818 CAATAGTGAC
*
12791828 GGAGAGTGGACTAGTGGAGTT
1 GGAGAGTGGACTGGTGGAGTT
* **
12791849 GGAGAGTGGATTAATGGAGTT
1 GGAGAGTGGACTGGTGGAGTT
12791870 GGAGAGTGGAC--GTGTG-G-T
1 GGAGAGTGGACTGGTG-GAGTT
* * * **
12791888 AGAGAG-GAAAGAATCGGTGGTGAC
1 GGAGAGTG---GACT-GGTGGAGTT
*
12791912 GGAGAGTGGACTAGTGGAGTT
1 GGAGAGTGGACTGGTGGAGTT
** * * * *
12791933 AAAGAGTAGATTGATGGGGTT
1 GGAGAGTGGACTGGTGGAGTT
* * *
12791954 GGAAAGTGAACTGGTAGAGTT
1 GGAGAGTGGACTGGTGGAGTT
* * * *
12791975 GAAGAGTGGATTGATAGAGTT
1 GGAGAGTGGACTGGTGGAGTT
* * *
12791996 GGAGAATGGACTGGTAGATTT
1 GGAGAGTGGACTGGTGGAGTT
* *
12792017 GGAGAGTGGATTGGTGGAGTC
1 GGAGAGTGGACTGGTGGAGTT
* *
12792038 GAAGAGTGGACTGATGGAGTT
1 GGAGAGTGGACTGGTGGAGTT
12792059 GGAGAGTGGA
1 GGAGAGTGGA
12792069 TGCGTGGTGG
Statistics
Matches: 161, Mismatches: 49, Indels: 20
0.70 0.21 0.09
Matches are distributed among these distances:
17 1 0.01
18 6 0.04
19 3 0.02
20 3 0.02
21 134 0.83
22 4 0.02
23 4 0.02
24 5 0.03
25 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (21 bp):
GGAGAGTGGACTGGTGGAGTT
Found at i:12791874 original size:42 final size:41
Alignment explanation
Indices: 12791828--12792069 Score: 173
Period size: 42 Copynumber: 5.8 Consensus size: 41
12791818 CAATAGTGAC
*
12791828 GGAGAGTGGACTAGTGGAGTTGGAGAGTGGATTAATGGAGTT
1 GGAGAGTGGACT-GTGGAGTTGGAGAGTGGATTGATGGAGTT
* ** * * * * **
12791870 GGAGAGTGGACGTGTGGTAG--AGAGGAAAGAATCGGTGGTGAC
1 GGAGAGTGGAC-TGTGG-AGTTGGA-GAGTGGATTGATGGAGTT
** * *
12791912 GGAGAGTGGACTAGTGGAGTTAAAGAGTAGATTGATGGGGTT
1 GGAGAGTGGACT-GTGGAGTTGGAGAGTGGATTGATGGAGTT
* * * * *
12791954 GGAAAGTGAACTGGTAGAGTTGAAGAGTGGATTGATAGAGTT
1 GGAGAGTGGACT-GTGGAGTTGGAGAGTGGATTGATGGAGTT
* * * * *
12791996 GGAGAATGGACTGGTAGATTTGGAGAGTGGATTGGTGGAGTC
1 GGAGAGTGGACT-GTGGAGTTGGAGAGTGGATTGATGGAGTT
*
12792038 GAAGAGTGGACTGATGGAGTTGGAGAGTGGAT
1 GGAGAGTGGACTG-TGGAGTTGGAGAGTGGAT
12792070 GCGTGGTGGA
Statistics
Matches: 153, Mismatches: 40, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
41 6 0.04
42 142 0.93
43 5 0.03
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (41 bp):
GGAGAGTGGACTGTGGAGTTGGAGAGTGGATTGATGGAGTT
Found at i:12792134 original size:21 final size:21
Alignment explanation
Indices: 12792102--12792149 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12792092 GGTAGTGACA
*
12792102 GAGAGTAGACTGATTGAGTTG
1 GAGAGTAGACTGATGGAGTTG
*
12792123 GAGAGT-GAACTGGTGGAGTTG
1 GAGAGTAG-ACTGATGGAGTTG
*
12792144 AAGAGT
1 GAGAGT
12792150 CGACGCGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.29, C:0.04, G:0.42, T:0.25
Consensus pattern (21 bp):
GAGAGTAGACTGATGGAGTTG
Found at i:12792149 original size:42 final size:42
Alignment explanation
Indices: 12791828--12792149 Score: 156
Period size: 42 Copynumber: 7.7 Consensus size: 42
12791818 CAATAGTGAC
* * * *
12791828 GGAGAGTGGACTAGTGGAGTTGGAGAGTGGATTAATGGAGTT
1 GGAGAGTGAACTGGTGGAGTTGAAGAGTGGATTGATGGAGTT
* * * ** * * * * **
12791870 GGAGAGTGGAC-GTGTGGTAG-AGAGGAAAGAATCGGTGGTGAC
1 GGAGAGTGAACTG-GTGG-AGTTGAAGAGTGGATTGATGGAGTT
* * * * *
12791912 GGAGAGTGGACTAGTGGAGTTAAAGAGTAGATTGATGGGGTT
1 GGAGAGTGAACTGGTGGAGTTGAAGAGTGGATTGATGGAGTT
* * *
12791954 GGAAAGTGAACTGGTAGAGTTGAAGAGTGGATTGATAGAGTT
1 GGAGAGTGAACTGGTGGAGTTGAAGAGTGGATTGATGGAGTT
* * * * * * *
12791996 GGAGAATGGACTGGTAGATTTGGAGAGTGGATTGGTGGAGTC
1 GGAGAGTGAACTGGTGGAGTTGAAGAGTGGATTGATGGAGTT
* * * * *
12792038 GAAGAGTGGACTGATGGAGTTGGAGAGTGGATGCGTGGTGGAG--
1 GGAGAGTGAACTGGTGGAGTTGAAGAGTGGAT---TGATGGAGTT
** * * *
12792081 GG-GAAAGAACTGGT--AG-TGACAGAGAGTAGACTGATTGAGTT
1 GGAGAGTGAACTGGTGGAGTTG--A-AGAGTGGATTGATGGAGTT
12792122 GGAGAGTGAACTGGTGGAGTTGAAGAGT
1 GGAGAGTGAACTGGTGGAGTTGAAGAGT
12792150 CGACGCGTGT
Statistics
Matches: 205, Mismatches: 59, Indels: 32
0.69 0.20 0.11
Matches are distributed among these distances:
39 8 0.04
40 2 0.01
41 4 0.02
42 175 0.85
43 4 0.02
44 2 0.01
45 10 0.05
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.23
Consensus pattern (42 bp):
GGAGAGTGAACTGGTGGAGTTGAAGAGTGGATTGATGGAGTT
Found at i:12792205 original size:84 final size:84
Alignment explanation
Indices: 12792017--12792210 Score: 219
Period size: 84 Copynumber: 2.3 Consensus size: 84
12792007 TGGTAGATTT
* * * * * * * *
12792017 GGAGAGTGGATTGGTGGAGTCGAAGAGTGGACTGATGGAGTTGGAGAGTGGATGCGTGGTGGAGG
1 GGAGAGTAGAATGGTGGAGTTGGAGAGTGAACTGATGGAGTTGAAGAGTCGACGCGTGGTGGAGG
*
12792082 GGAAAGAACTGGTAGTGAC
66 AGAAAGAACTGGTAGTGAC
* * * * * *
12792101 AGAGAGTAGACTGATTGAGTTGGAGAGTGAACTGGTGGAGTTGAAGAGTCGACGCGTGTTGGAGG
1 GGAGAGTAGAATGGTGGAGTTGGAGAGTGAACTGATGGAGTTGAAGAGTCGACGCGTGGTGGAGG
*
12792166 AGAAAGAA-TCGGTGGTGAC
66 AGAAAGAACT-GGTAGTGAC
*
12792185 GGAGAGTAGAATGGTGGAGTTAGAGA
1 GGAGAGTAGAATGGTGGAGTTGGAGA
12792211 ATGGATTAAT
Statistics
Matches: 89, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 1 0.01
84 88 0.99
ACGTcount: A:0.28, C:0.06, G:0.45, T:0.21
Consensus pattern (84 bp):
GGAGAGTAGAATGGTGGAGTTGGAGAGTGAACTGATGGAGTTGAAGAGTCGACGCGTGGTGGAGG
AGAAAGAACTGGTAGTGAC
Found at i:12792262 original size:21 final size:21
Alignment explanation
Indices: 12792186--12792263 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 21
12792176 GGTGGTGACG
* * *
12792186 GAGAGTAGAATGGTGGAGTTA
1 GAGAGTGGATTGGTGAAGTTA
* **
12792207 GAGAATGGATTAAT-AGAGTTA
1 GAGAGTGGATTGGTGA-AGTTA
* *
12792228 AAGAGT-GAGCTGGTGAAGTTA
1 GAGAGTGGA-TTGGTGAAGTTA
12792249 GAGAGTGGATTGGTG
1 GAGAGTGGATTGGTG
12792264 GATTCGGAGA
Statistics
Matches: 40, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
20 2 0.05
21 35 0.88
22 3 0.08
ACGTcount: A:0.33, C:0.01, G:0.40, T:0.26
Consensus pattern (21 bp):
GAGAGTGGATTGGTGAAGTTA
Found at i:12792406 original size:33 final size:34
Alignment explanation
Indices: 12792349--12792416 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
12792339 GGACTAGCGA
* * *
12792349 AGTTGGAGAGTGGATTAATGGAGTTGGAGA-TGG
1 AGTTGAAGAGTGGACTAATGGAGTTGAAGAGTGG
* *
12792382 AGTTGAAGAGTGGACTGATTGAGTTGAAGAGTGG
1 AGTTGAAGAGTGGACTAATGGAGTTGAAGAGTGG
12792416 A
1 A
12792417 TTGGTAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.29, C:0.01, G:0.43, T:0.26
Consensus pattern (34 bp):
AGTTGAAGAGTGGACTAATGGAGTTGAAGAGTGG
Found at i:12792513 original size:159 final size:159
Alignment explanation
Indices: 12792250--12792537 Score: 353
Period size: 159 Copynumber: 1.8 Consensus size: 159
12792240 GTGAAGTTAG
** * * * * * *
12792250 AGAGTGGATTGGTGGATTCGGAGAGTCGACTAGTGGAGCTGGAGAGTGGACGCGTGGTAGAGGGG
1 AGAGTGGATTGGTAAAGTCGAAGAGTCGACTAGTGGAGCTAGAGAGTGGACACGTGATAAAGGGG
* * * *
12792315 AAAGAACTTGTGGTGATAGAGAGTGGACTAGCGAAGTTGGAGAGTGGATTAATGGAGTTGGAGAT
66 AAAGAACTTGTGGTGACAGAGAGTCGACTAGCGAAGTTGGAGAATGGATTAATGGAGTTAGAGAT
12792380 GGAGTTGAAGAGTGGACTGATTGAGTTGA
131 GGAGTTGAAGAGTGGACTGATTGAGTTGA
**
12792409 AGAGTGGATTGGTAAAGTCGAAGAGTCGGTTAGTGGAGCTAGAGAGTGGACACGTGATAAAGGGG
1 AGAGTGGATTGGTAAAGTCGAAGAGTCGACTAGTGGAGCTAGAGAGTGGACACGTGATAAAGGGG
* * * * * * ** *
12792474 AGAGAA-TTAGTGGTGGCGGAGAGTCGATTGGTGGTGTTGGAGAATGGATTGATGGAGTTAGAGA
66 AAAGAACTT-GTGGTGACAGAGAGTCGACTAGCGAAGTTGGAGAATGGATTAATGGAGTTAGAGA
12792538 GTGAATTGGT
Statistics
Matches: 105, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
158 2 0.02
159 103 0.98
ACGTcount: A:0.28, C:0.06, G:0.43, T:0.23
Consensus pattern (159 bp):
AGAGTGGATTGGTAAAGTCGAAGAGTCGACTAGTGGAGCTAGAGAGTGGACACGTGATAAAGGGG
AAAGAACTTGTGGTGACAGAGAGTCGACTAGCGAAGTTGGAGAATGGATTAATGGAGTTAGAGAT
GGAGTTGAAGAGTGGACTGATTGAGTTGA
Found at i:12792515 original size:21 final size:20
Alignment explanation
Indices: 12792491--12792550 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
12792481 TAGTGGTGGC
*
12792491 GGAGAGTCGATTGGTGGTGTT
1 GGAGAGT-GATTGGTGGAGTT
* *
12792512 GGAGAATGGATTGATGGAGTT
1 GGAGAGT-GATTGGTGGAGTT
*
12792533 AGAGAGTGAATTGGTGGA
1 GGAGAGTG-ATTGGTGGA
12792551 CTTAAAGAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.25, C:0.02, G:0.45, T:0.28
Consensus pattern (20 bp):
GGAGAGTGATTGGTGGAGTT
Found at i:12792559 original size:21 final size:21
Alignment explanation
Indices: 12792521--12792561 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12792511 TGGAGAATGG
* *
12792521 ATTGATGGAGTTAGAGAGTGA
1 ATTGATGGACTTAAAGAGTGA
*
12792542 ATTGGTGGACTTAAAGAGTG
1 ATTGATGGACTTAAAGAGTG
12792562 GACACGTAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.37, T:0.29
Consensus pattern (21 bp):
ATTGATGGACTTAAAGAGTGA
Found at i:12792765 original size:63 final size:63
Alignment explanation
Indices: 12792532--12792765 Score: 224
Period size: 63 Copynumber: 3.7 Consensus size: 63
12792522 TTGATGGAGT
* * ** * *
12792532 TAGAGAGTGAATTGGTGGACTTAAAGAGTGGACACGTAGTGGAAGGGAAAGAA-C--TAGTGG
1 TAGAGAGTGGATTGGTGGAGTTGGAGAGTGGACACGTAGTGGAGGGGAGAGAATCGGTAGTGG
* * * * * * *
12792592 TGGCGTAGAATGGATTGGTGGAGTTGGAGATTAGATACGTGGTGGAGAGGAGAGAATCGGT-GAT
1 T--AG-AGAGTGGATTGGTGGAGTTGGAGAGTGGACACGTAGTGGAGGGGAGAGAATCGGTAG-T
*
12792656 GA
62 GG
* * *
12792658 CAGAGAGTGGATTGGTGGAGTTGGAGAGTGGACTCGTGGTGGAGGGGAGAGAATCGGTAGTGG
1 TAGAGAGTGGATTGGTGGAGTTGGAGAGTGGACACGTAGTGGAGGGGAGAGAATCGGTAGTGG
* * *
12792721 TAGAGAGTGGACTGGTGAAGGTGGAGAGTGGACACGTAGTGGAGG
1 TAGAGAGTGGATTGGTGGAGTTGGAGAGTGGACACGTAGTGGAGG
12792766 TGAAAAGTGG
Statistics
Matches: 137, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
60 1 0.01
62 1 0.01
63 128 0.93
64 3 0.02
65 1 0.01
66 3 0.02
ACGTcount: A:0.28, C:0.06, G:0.45, T:0.21
Consensus pattern (63 bp):
TAGAGAGTGGATTGGTGGAGTTGGAGAGTGGACACGTAGTGGAGGGGAGAGAATCGGTAGTGG
Found at i:12792918 original size:63 final size:63
Alignment explanation
Indices: 12792850--12793014 Score: 165
Period size: 63 Copynumber: 2.6 Consensus size: 63
12792840 CAGGTAGTGA
* * *
12792850 CGAAGAGTGGACTGTTGGAGTTGGAGAGTTGATTGATGGGGTT-GATGAGTGGACTAGTGGAGT
1 CGAAGAGTGGACTGATGGAGTTGGAGAGTTGATTGATGGAGTTGGA-GAGTGGACTAGTAGAGT
* * * * * * * * *
12792913 TGAAGATTGGA-TAGATGGAGTTGGAGAATGGACTGGTGGATTTGGAGAGTGGATTGGTAGAGT
1 CGAAGAGTGGACT-GATGGAGTTGGAGAGTTGATTGATGGAGTTGGAGAGTGGACTAGTAGAGT
*
12792976 CGGAGAGTGGACTGATGGAGTTGGAGAG-TGAATTGATGG
1 CGAAGAGTGGACTGATGGAGTTGGAGAGTTG-ATTGATGG
12793015 TGGAAGAGCA
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
62 2 0.03
63 74 0.94
64 3 0.04
ACGTcount: A:0.25, C:0.04, G:0.44, T:0.27
Consensus pattern (63 bp):
CGAAGAGTGGACTGATGGAGTTGGAGAGTTGATTGATGGAGTTGGAGAGTGGACTAGTAGAGT
Found at i:12793012 original size:21 final size:21
Alignment explanation
Indices: 12792853--12793014 Score: 139
Period size: 21 Copynumber: 7.7 Consensus size: 21
12792843 GTAGTGACGA
* *
12792853 AGAGTGGACTGTTGGAGTTGG
1 AGAGTGGATTGATGGAGTTGG
* *
12792874 AGAGTTGATTGATGGGGTT-G
1 AGAGTGGATTGATGGAGTTGG
* *
12792894 ATGAGTGGACT-AGTGGAGTTGA
1 A-GAGTGGATTGA-TGGAGTTGG
* *
12792916 AGATTGGATAGATGGAGTTGG
1 AGAGTGGATTGATGGAGTTGG
* * * *
12792937 AGAATGGACTGGTGGATTTGG
1 AGAGTGGATTGATGGAGTTGG
* * *
12792958 AGAGTGGATTGGTAGAGTCGG
1 AGAGTGGATTGATGGAGTTGG
*
12792979 AGAGTGGACTGATGGAGTTGG
1 AGAGTGGATTGATGGAGTTGG
*
12793000 AGAGTGAATTGATGG
1 AGAGTGGATTGATGG
12793015 TGGAAGAGCA
Statistics
Matches: 109, Mismatches: 28, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.03
21 104 0.95
22 2 0.02
ACGTcount: A:0.25, C:0.03, G:0.44, T:0.28
Consensus pattern (21 bp):
AGAGTGGATTGATGGAGTTGG
Found at i:12793108 original size:21 final size:21
Alignment explanation
Indices: 12793039--12793109 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
12793029 CTGGCGGTGA
* * **
12793039 TAGAAAGTGGACTGATTGAGT
1 TAGAGAGTGGATTGATAAAGT
*
12793060 TAGAGAGTGGATTGATGAAGT
1 TAGAGAGTGGATTGATAAAGT
* *
12793081 TAAAGAGTGGATTGGTAAAGT
1 TAGAGAGTGGATTGATAAAGT
*
12793102 TTGAGAGT
1 TAGAGAGT
12793110 CGACATGTGC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.34, C:0.01, G:0.35, T:0.30
Consensus pattern (21 bp):
TAGAGAGTGGATTGATAAAGT
Found at i:12793204 original size:21 final size:21
Alignment explanation
Indices: 12793147--12793206 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
12793137 ATGGTGACGA
* *
12793147 AGAGTGGAATGGTGGAGTTGG
1 AGAGTGGATTGATGGAGTTGG
* *
12793168 AGAGTAGATTAATGGAGTTGG
1 AGAGTGGATTGATGGAGTTGG
*
12793189 AGAGTGGATTGTTGGAGT
1 AGAGTGGATTGATGGAGT
12793207 CGAAGAGCCG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.45, T:0.28
Consensus pattern (21 bp):
AGAGTGGATTGATGGAGTTGG
Found at i:12793213 original size:21 final size:21
Alignment explanation
Indices: 12793144--12793213 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
12793134 CCAATGGTGA
* *
12793144 CGAAGAGTGGAATGGTGGAGT
1 CGAAGAGTGGATTGATGGAGT
* * * *
12793165 TGGAGAGTAGATTAATGGAGT
1 CGAAGAGTGGATTGATGGAGT
* * *
12793186 TGGAGAGTGGATTGTTGGAGT
1 CGAAGAGTGGATTGATGGAGT
12793207 CGAAGAG
1 CGAAGAG
12793214 CCGACTGGTG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.29, C:0.03, G:0.44, T:0.24
Consensus pattern (21 bp):
CGAAGAGTGGATTGATGGAGT
Found at i:12793395 original size:21 final size:21
Alignment explanation
Indices: 12793337--12793395 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
12793327 GTGGTGAAGA
* *
12793337 AGAGTCGACTGGTAGAGTTGG
1 AGAGTGGACTGGAAGAGTTGG
* * *
12793358 AGAATGGA-TTGATAGAGTTTG
1 AGAGTGGACTGGA-AGAGTTGG
12793379 AGAGTGGACTGGAAGAG
1 AGAGTGGACTGGAAGAG
12793396 CTAGAGAATG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.07
21 24 0.83
22 3 0.10
ACGTcount: A:0.31, C:0.05, G:0.41, T:0.24
Consensus pattern (21 bp):
AGAGTGGACTGGAAGAGTTGG
Found at i:12793674 original size:24 final size:24
Alignment explanation
Indices: 12793647--12793718 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
12793637 CGGATGGACA
12793647 TGGAGAGTGGACAGGTGGTGGAGG
1 TGGAGAGTGGACAGGTGGTGGAGG
* *
12793671 TGGAGAGTGGACAGATGGTAGAGG
1 TGGAGAGTGGACAGGTGGTGGAGG
* * *
12793695 TGGAAAGTAGACGGGTGGTGGAGG
1 TGGAGAGTGGACAGGTGGTGGAGG
12793719 GGAAAGAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.25, C:0.04, G:0.54, T:0.17
Consensus pattern (24 bp):
TGGAGAGTGGACAGGTGGTGGAGG
Found at i:12793748 original size:21 final size:21
Alignment explanation
Indices: 12793724--12793778 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
12793714 GGAGGGGAAA
*
12793724 GAACTAGTGGTGGTGGAAAGT
1 GAACTGGTGGTGGTGGAAAGT
** *
12793745 GAACTGGTGAAGGTGGAGAGT
1 GAACTGGTGGTGGTGGAAAGT
*
12793766 GGACTGGTGGTGG
1 GAACTGGTGGTGG
12793779 AGGGGTGAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.05, G:0.49, T:0.22
Consensus pattern (21 bp):
GAACTGGTGGTGGTGGAAAGT
Found at i:12793780 original size:18 final size:18
Alignment explanation
Indices: 12793731--12793806 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 18
12793721 AAAGAACTAG
* *
12793731 TGGTGGTGGAAAGTGAAC
1 TGGTGGTGGAGAGTGGAC
12793749 TGGTGAAGGTGGAGAGTGGAC
1 TGGT---GGTGGAGAGTGGAC
*
12793770 TGGTGGTGGAGGGGTGAGAAC
1 TGGTGGTGGA-GAGTG-G-AC
12793791 TGGTGGTGGTAGAGTG
1 TGGTGGTGG-AGAGTG
12793807 TGGACGAGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.21
19 4 0.09
20 1 0.02
21 31 0.66
22 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.53, T:0.22
Consensus pattern (18 bp):
TGGTGGTGGAGAGTGGAC
Found at i:12793905 original size:105 final size:105
Alignment explanation
Indices: 12793704--12793905 Score: 237
Period size: 105 Copynumber: 1.9 Consensus size: 105
12793694 GTGGAAAGTA
* ** *
12793704 GACGGGTGGTGGAGGGGAAAGAACTAGTGGTGGTGGAAAGTGAACTGGTGAAGGTGGAGAGTGGA
1 GACGAGTGGTGGAGAAGAAAGAACGAGTGGTGGTGGAAAGTGAACTGGTGAAGGTGGAGAGTGGA
* * ** * *
12793769 CTGGTGGTGGAGGGGTGAGAACTGGTGGTGGTAGAGTGTG
66 CTGGTGGTAGAGAGGAAAGAACTGATAGTGGTAGAGTGTG
* * * * *
12793809 GACGAGTGGTGGAGAAGAAAGAACCGAG-GGTGGTGGAGAGTGAATTGGTGGAGGTGGTGCGTGG
1 GACGAGTGGTGGAGAAGAAAGAA-CGAGTGGTGGTGGAAAGTGAACTGGTGAAGGTGGAGAGTGG
12793873 AC-GGATGGTAGAGAGGAAAGAACTGATAGTGGT
65 ACTGG-TGGTAGAGAGGAAAGAACTGATAGTGGT
12793906 GGATAGGGAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
104 2 0.03
105 75 0.94
106 3 0.04
ACGTcount: A:0.26, C:0.05, G:0.50, T:0.19
Consensus pattern (105 bp):
GACGAGTGGTGGAGAAGAAAGAACGAGTGGTGGTGGAAAGTGAACTGGTGAAGGTGGAGAGTGGA
CTGGTGGTAGAGAGGAAAGAACTGATAGTGGTAGAGTGTG
Found at i:12793996 original size:63 final size:64
Alignment explanation
Indices: 12793929--12794101 Score: 167
Period size: 63 Copynumber: 2.8 Consensus size: 64
12793919 GTGAAAGTGA
* *
12793929 AGAGTGGTCGAGTTG-TGGAAGGGAGAGAACTGGTGGTAGTGGAGAGTAAACT-AGTGGAGGTAG
1 AGAGTGGACGAGGTGATGGAAGGGAGAGAACTGGTGGTAGTGGAGAGTAAACTGA-TGGAGGTAG
* * * * * * * *
12793992 AGAGTGGACG-GGTGATGG-TGAGGAGAGAATTAGTTGTGGTGGAGAGTGAACTGATGGTGGTGG
1 AGAGTGGACGAGGTGATGGAAG-GGAGAGAACTGGTGGTAGTGGAGAGTAAACTGATGGAGGTAG
* * * *
12794055 AGAGTGGAC-AGGTGTTGGAAGGGAGAGAACTGGCGATTGTGGAGAGT
1 AGAGTGGACGAGGTGATGGAAGGGAGAGAACTGGTGGTAGTGGAGAGT
12794102 GGATGCGTGG
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
62 4 0.05
63 81 0.93
64 2 0.02
ACGTcount: A:0.27, C:0.05, G:0.47, T:0.21
Consensus pattern (64 bp):
AGAGTGGACGAGGTGATGGAAGGGAGAGAACTGGTGGTAGTGGAGAGTAAACTGATGGAGGTAG
Found at i:12806461 original size:16 final size:14
Alignment explanation
Indices: 12806426--12806453 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12806416 TCTTTAATTA
12806426 TATTATATATTATC
1 TATTATATATTATC
12806440 TATTATATATTATC
1 TATTATATATTATC
12806454 ATTTTTATCT
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:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATATATTATC
Found at i:12808237 original size:29 final size:29
Alignment explanation
Indices: 12808195--12808254 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
12808185 TGTAACCTAA
12808195 TTTAGCTGAATTGATTTAACATTGGTTGG
1 TTTAGCTGAATTGATTTAACATTGGTTGG
* *
12808224 TTTAGTTGAATTGATTTAATATTGGTTGG
1 TTTAGCTGAATTGATTTAACATTGGTTGG
12808253 TT
1 TT
12808255 AAATCGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.50
Consensus pattern (29 bp):
TTTAGCTGAATTGATTTAACATTGGTTGG
Found at i:12816437 original size:17 final size:17
Alignment explanation
Indices: 12816415--12816450 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
12816405 ATCCAATTTC
12816415 AATT-AAATTATTTAATA
1 AATTAAAATT-TTTAATA
12816432 AATTAAAATTTTTAATA
1 AATTAAAATTTTTAATA
12816449 AA
1 AA
12816451 CAAACAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAAATTTTTAATA
Found at i:12816608 original size:6 final size:6
Alignment explanation
Indices: 12816599--12816641 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
12816589 GGTTTTTTTT
*
12816599 TTTTAA TTTTAA TTTTAA TTTTATA TTTCTAT TTTTAAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTA-A TTT-TAA TTTT-AA TTTT
12816642 TAATCAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 18 0.56
7 12 0.38
8 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:12816620 original size:20 final size:21
Alignment explanation
Indices: 12816597--12816645 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
12816587 CAGGTTTTTT
12816597 TTTTTTAATTT-TAATTTTAA
1 TTTTTTAATTTCTAATTTTAA
* *
12816617 TTTTAT-ATTTCTATTTTTAA
1 TTTTTTAATTTCTAATTTTAA
*
12816637 ATTTTTAAT
1 TTTTTTAAT
12816646 CAAATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 17 0.74
21 2 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTAATTTCTAATTTTAA
Found at i:12817158 original size:21 final size:21
Alignment explanation
Indices: 12817132--12817172 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12817122 TTATTTGAAA
*
12817132 TTTAAAACAAACTGCCTAACT
1 TTTAAAACAAACTACCTAACT
12817153 TTTAAAACAAACTACCTAAC
1 TTTAAAACAAACTACCTAAC
12817173 CTTATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.27
Consensus pattern (21 bp):
TTTAAAACAAACTACCTAACT
Found at i:12817475 original size:14 final size:14
Alignment explanation
Indices: 12817458--12817489 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
12817448 GTTCGAGGTA
12817458 CAAGATTCGGGATC
1 CAAGATTCGGGATC
12817472 CAAGATTCGGGATC
1 CAAGATTCGGGATC
12817486 CAAG
1 CAAG
12817490 GTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (14 bp):
CAAGATTCGGGATC
Found at i:12836056 original size:15 final size:16
Alignment explanation
Indices: 12836036--12836069 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12836026 ATTTTTAAGA
12836036 TTTTTA-AAATGATTT
1 TTTTTAGAAATGATTT
*
12836051 TTTTTAGAAATTATTT
1 TTTTTAGAAATGATTT
12836067 TTT
1 TTT
12836070 GAATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTTAGAAATGATTT
Found at i:12838992 original size:25 final size:23
Alignment explanation
Indices: 12838956--12839076 Score: 95
Period size: 24 Copynumber: 5.0 Consensus size: 23
12838946 ACTGAGTCTT
*
12838956 CCAGAAATTTAGCTCATACGAGC
1 CCAGAAATTTAGCTCACACGAGC
12838979 CCAGACAACTTTAGCTCACACGAGC
1 CCAGA-AA-TTTAGCTCACACGAGC
*
12839004 CCA-AAATGGTTAGCTCTCACGAGC
1 CCAGAAAT--TTAGCTCACACGAGC
* *
12839028 CCA-AAATGGTTAGCTCTCATGAGC
1 CCAGAAAT--TTAGCTCACACGAGC
**
12839052 CCA-AAATGGTTAGCTCTTACGAGC
1 CCAGAAAT--TTAGCTCACACGAGC
12839076 C
1 C
12839077 TAAAATTCAC
Statistics
Matches: 89, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
22 1 0.01
23 7 0.08
24 63 0.71
25 18 0.20
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (23 bp):
CCAGAAATTTAGCTCACACGAGC
Found at i:12839024 original size:24 final size:24
Alignment explanation
Indices: 12838989--12839082 Score: 152
Period size: 24 Copynumber: 3.9 Consensus size: 24
12838979 CCAGACAACT
*
12838989 TTAGCTCACACGAGCCCAAAATGG
1 TTAGCTCTCACGAGCCCAAAATGG
12839013 TTAGCTCTCACGAGCCCAAAATGG
1 TTAGCTCTCACGAGCCCAAAATGG
*
12839037 TTAGCTCTCATGAGCCCAAAATGG
1 TTAGCTCTCACGAGCCCAAAATGG
* *
12839061 TTAGCTCTTACGAGCCTAAAAT
1 TTAGCTCTCACGAGCCCAAAAT
12839083 TCACTATTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (24 bp):
TTAGCTCTCACGAGCCCAAAATGG
Found at i:12840828 original size:24 final size:23
Alignment explanation
Indices: 12840799--12840859 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
12840789 AAACCTGTTG
12840799 TTTTTTTAATATTTT-TTACTGT
1 TTTTTTTAATATTTTATTACTGT
* *
12840821 TTTCTTTTATTATTTTATTACTAT
1 TTT-TTTTAATATTTTATTACTGT
* *
12840845 TTTTTTCACTATTTT
1 TTTTTTTAATATTTT
12840860 GCTATAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.09
23 21 0.64
24 9 0.27
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTTTTAATATTTTATTACTGT
Found at i:12843067 original size:31 final size:29
Alignment explanation
Indices: 12842986--12843083 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 29
12842976 TATAGGGCCT
*
12842986 AATATTTACAAAAGTGTTCAAATAAAAGTCA
1 AATATTT-C-AAAGTGTTCAAATAAAAGTAA
* *
12843017 AATATTTCAAAGTGGTCAAATAACAATTAA
1 AATATTTCAAAGTGTTCAAATAA-AAGTAA
* *
12843047 AACTTTTTGC-AAGTGTTCAAATAAGAGTAA
1 AA-TATTT-CAAAGTGTTCAAATAAAAGTAA
*
12843077 AACATTT
1 AATATTT
12843084 TTTAAAGTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
29 17 0.31
30 13 0.24
31 24 0.44
32 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (29 bp):
AATATTTCAAAGTGTTCAAATAAAAGTAA
Found at i:12843085 original size:31 final size:31
Alignment explanation
Indices: 12842996--12843100 Score: 92
Period size: 31 Copynumber: 3.5 Consensus size: 31
12842986 AATATTTACA
* *
12842996 AAAGTGTTCAAATAAAAGT-CAA-ATATTTC
1 AAAGTGTTCAAATAAAAGTAAAACATTTTTC
* *
12843025 AAAGTGGTCAAATAACAATTAAAAC-TTTTTGC
1 AAAGTGTTCAAATAA-AAGTAAAACATTTTT-C
* *
12843057 -AAGTGTTCAAATAAGAGTAAAACATTTTTT
1 AAAGTGTTCAAATAAAAGTAAAACATTTTTC
**
12843087 AAAGTACTCAAATA
1 AAAGTGTTCAAATA
12843101 TAGTATATTG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
29 14 0.23
30 10 0.17
31 35 0.58
32 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.31
Consensus pattern (31 bp):
AAAGTGTTCAAATAAAAGTAAAACATTTTTC
Found at i:12846901 original size:11 final size:11
Alignment explanation
Indices: 12846867--12846907 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
12846857 TATTTTAAGT
*
12846867 ATAAATATATA
1 ATAAATATTTA
*
12846878 TTAAA-ATTT-
1 ATAAATATTTA
12846887 ATAAATATTTA
1 ATAAATATTTA
12846898 ATAAATATTT
1 ATAAATATTT
12846908 TATAGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 4 0.16
10 7 0.28
11 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATAAATATTTA
Found at i:12846902 original size:20 final size:21
Alignment explanation
Indices: 12846866--12846907 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12846856 ATATTTTAAG
*
12846866 TATAAATATATATTAAA-ATT
1 TATAAATATATAATAAATATT
*
12846886 TATAAATATTTAATAAATATT
1 TATAAATATATAATAAATATT
12846907 T
1 T
12846908 TATAGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAAATATATAATAAATATT
Found at i:12847185 original size:17 final size:16
Alignment explanation
Indices: 12847173--12847210 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 16
12847163 CCAAATTATT
12847173 TTTATTTTGAAATTAAA
1 TTTATTTT-AAATTAAA
12847190 TTTATTTTAAATTTAAA
1 TTTATTTTAAA-TTAAA
12847207 TTTA
1 TTTA
12847211 ATATTATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTATTTTAAATTAAA
Found at i:12847211 original size:23 final size:22
Alignment explanation
Indices: 12847167--12847228 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
12847157 CCGGGTCCAA
* *
12847167 ATTATTTTTATTTTGAAATTAA-
1 ATTATTTTAAATTT-AAATTAAT
12847189 ATTTATTTTAAATTTAAATTTAAT
1 A-TTATTTTAAATTTAAA-TTAAT
*
12847213 ATTATTGTAAATTTAA
1 ATTATTTTAAATTTAA
12847229 TAAAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 4 0.12
23 29 0.85
24 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
ATTATTTTAAATTTAAATTAAT
Found at i:12847949 original size:17 final size:17
Alignment explanation
Indices: 12847917--12847950 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12847907 GACGTTTTAA
*
12847917 CATTAATATTACTAATG
1 CATTAATAATACTAATG
*
12847934 CATTAATAATATTAATG
1 CATTAATAATACTAATG
12847951 GTTGTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTAATAATACTAATG
Found at i:12849257 original size:29 final size:29
Alignment explanation
Indices: 12849170--12849340 Score: 152
Period size: 30 Copynumber: 5.8 Consensus size: 29
12849160 CCCTAAGCTG
* *
12849170 TCCAAAAATTATATTTTGACCCCT-AAACT
1 TCCAAAAATTACATTTTTA-CCCTAAAACT
* *
12849199 TCTCCAAAATTACATTTTTTA-CCTCGAAACT
1 TC-CAAAAATTACA-TTTTTACCCT-AAAACT
* * *
12849230 TACAAAAAGTACACTTTTACCCTAAAACT
1 TCCAAAAATTACATTTTTACCCTAAAACT
* *
12849259 TCCAAAAATTCCATTTTTGACCTTAAAACT
1 TCCAAAAATTACATTTTT-ACCCTAAAACT
* *
12849289 TTCAAAAATTACGTTTTTACCCTCAAAA-T
1 TCCAAAAATTACATTTTTACCCT-AAAACT
12849318 TCCAAAAATTACCATTTTT-CCCT
1 TCCAAAAATTA-CATTTTTACCCT
12849341 CGAATATCCA
Statistics
Matches: 115, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
29 48 0.42
30 56 0.49
31 11 0.10
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCTAAAACT
Found at i:12849268 original size:59 final size:59
Alignment explanation
Indices: 12849190--12849344 Score: 172
Period size: 59 Copynumber: 2.6 Consensus size: 59
12849180 ATATTTTGAC
*
12849190 CCCT-AAACTTCTCCAAAATTACATTTTTTACCTCGAAACTTACAAAAAGTACACTTTTA
1 CCCTAAAACTTC-CAAAAATTACATTTTTTACCTCGAAACTTACAAAAAGTACACTTTTA
* * ** * * **
12849249 CCCTAAAACTTCCAAAAATTCCATTTTTGACCTTAAAACTTTCAAAAATTACGTTTTTA
1 CCCTAAAACTTCCAAAAATTACATTTTTTACCTCGAAACTTACAAAAAGTACACTTTTA
*
12849308 CCCTCAAAA-TTCCAAAAATTACCA-TTTTTCCCTCGAA
1 CCCT-AAAACTTCCAAAAATTA-CATTTTTTACCTCGAA
12849345 TATCCAAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
59 66 0.84
60 13 0.16
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (59 bp):
CCCTAAAACTTCCAAAAATTACATTTTTTACCTCGAAACTTACAAAAAGTACACTTTTA
Found at i:12849341 original size:29 final size:28
Alignment explanation
Indices: 12849204--12849356 Score: 112
Period size: 30 Copynumber: 5.2 Consensus size: 28
12849194 AAACTTCTCC
* * *
12849204 AAAATTACATTTTTTACCTCGAAACTTACA
1 AAAATTACA-TTTTTCCCTC-AAAATTCCA
* *
12849234 AAAAGTACACTTTTACCCT-AAAACTTCCA
1 AAAATTACA-TTTTTCCCTCAAAA-TTCCA
* * * *
12849263 AAAATTCCATTTTTGACCTTAAAACTTTCA
1 AAAATTACATTTTT-CCCTCAAAA-TTCCA
*
12849293 AAAATTACGTTTTTACCCTCAAAATTCCA
1 AAAATTACATTTTT-CCCTCAAAATTCCA
*
12849322 AAAATTACCATTTTTCCCTC-GAATATCCA
1 AAAATTA-CATTTTTCCCTCAAAAT-TCCA
12849351 AAAATT
1 AAAATT
12849357 TCGTTTTTGA
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
28 10 0.10
29 40 0.40
30 49 0.49
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTACATTTTTCCCTCAAAATTCCA
Found at i:12849364 original size:29 final size:29
Alignment explanation
Indices: 12849204--12849364 Score: 107
Period size: 29 Copynumber: 5.5 Consensus size: 29
12849194 AAACTTCTCC
* * *
12849204 AAAATTACATTTTTTA-CCTCGAAACTTACA
1 AAAATTAC-GTTTTTACCCTC-AAAATTCCA
* **
12849234 AAAAGTACACTTTTACCCT-AAAACTTCCA
1 AAAATTACGTTTTTACCCTCAAAA-TTCCA
* * * *
12849263 AAAATTCCATTTTTGA-CCTTAAAACTTTCA
1 AAAATTACGTTTTT-ACCCTCAAAA-TTCCA
12849293 AAAATTACGTTTTTACCCTCAAAATTCCA
1 AAAATTACGTTTTTACCCTCAAAATTCCA
* *
12849322 AAAATTACCATTTTT-CCCTC-GAATATCCA
1 AAAATTA-CGTTTTTACCCTCAAAAT-TCCA
*
12849351 AAAATTTCGTTTTT
1 AAAATTACGTTTTT
12849365 GATCCCGATT
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
28 12 0.11
29 50 0.47
30 45 0.42
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTACGTTTTTACCCTCAAAATTCCA
Done.