Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 45 of 292
Found at i:12572155 original size:7 final size:6
Alignment explanation
Indices: 12572139--12572185 Score: 76
Period size: 6 Copynumber: 7.5 Consensus size: 6
12572129 ATTATTTCTC
12572139 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTTA TTTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTT
12572186 CTTCCTCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 27 0.68
7 13 0.32
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:12574123 original size:23 final size:22
Alignment explanation
Indices: 12574081--12574125 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
12574071 AAATAAGTCA
* *
12574081 AGTATAATAATATAATATAAAT
1 AGTATAATAATAAAAGATAAAT
12574103 AGTATATATAATAAAAGATAAAT
1 AGTATA-ATAATAAAAGATAAAT
12574126 TTTTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
AGTATAATAATAAAAGATAAAT
Found at i:12574251 original size:26 final size:26
Alignment explanation
Indices: 12574192--12574253 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
12574182 CCAATTTTAA
* *
12574192 AAATTATATAATAAGTAATTTAAAAT
1 AAATAATATAATAAGTAATATAAAAT
*
12574218 AAACAATATAATAA-T-ATATAAATAT
1 AAATAATATAATAAGTAATATAAA-AT
12574243 GAAATAATATA
1 -AAATAATATA
12574254 GGAAAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 6 0.20
25 3 0.10
26 21 0.70
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (26 bp):
AAATAATATAATAAGTAATATAAAAT
Found at i:12574395 original size:15 final size:16
Alignment explanation
Indices: 12574371--12574421 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
12574361 TATATAGTAA
*
12574371 AATATAATATGTAATA-
1 AATAT-ATATGAAATAG
12574387 AATATATAT-AAATAG
1 AATATATATGAAATAG
*
12574402 AATATA-ATGAAATAT
1 AATATATATGAAATAG
12574417 AATAT
1 AATAT
12574422 GATAAGGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.19
15 20 0.65
16 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
AATATATATGAAATAG
Found at i:12574546 original size:43 final size:41
Alignment explanation
Indices: 12574467--12574544 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
12574457 TAAGTATTCT
*
12574467 ACATATAAAAATACAGTAACATAAATAGTATATAATATATA
1 ACATATAAAAAAACAGTAACATAAATAGTATATAATATATA
12574508 ACATATAAAAAAACAG--A-ATAAATA-TATAT-ATATATA
1 ACATATAAAAAAACAGTAACATAAATAGTATATAATATATA
12574544 A
1 A
12574545 TAAAATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 8 0.22
37 5 0.14
38 7 0.19
39 1 0.03
41 15 0.42
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (41 bp):
ACATATAAAAAAACAGTAACATAAATAGTATATAATATATA
Found at i:12574553 original size:39 final size:40
Alignment explanation
Indices: 12574469--12574553 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 40
12574459 AGTATTCTAC
* *
12574469 ATATAAAAATACAGTAACATAAATAGTATATAATATATAAC
1 ATATAAAAAAACAG-AACATAAATAGTATATAATATATAAA
12574510 ATATAAAAAAACAG-A-ATAAATA-TATATATATATAATAAA
1 ATATAAAAAAACAGAACATAAATAGTATATA-ATAT-ATAAA
12574549 ATATA
1 ATATA
12574554 TAATAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
37 6 0.15
38 11 0.28
39 10 0.25
41 13 0.32
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (40 bp):
ATATAAAAAAACAGAACATAAATAGTATATAATATATAAA
Found at i:12575297 original size:2 final size:2
Alignment explanation
Indices: 12575292--12575320 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12575282 ACTGTTTACA
12575292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12575321 CATTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12591206 original size:53 final size:53
Alignment explanation
Indices: 12591126--12591287 Score: 207
Period size: 53 Copynumber: 3.1 Consensus size: 53
12591116 GTATTTTTCA
* *
12591126 ATTTGTAAGACACAATGCTGTCAGTCTTGAACAAAATCGTTTAATTATCTTTT
1 ATTTGTAAGACACAATGTTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
* * * *
12591179 ATTTGTAAGACAGAATGTTGTCGGTCTTGAACAAAATCATTTAATTATGTATT
1 ATTTGTAAGACACAATGTTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
* * * * * * *
12591232 ATTTGCAAGACCCAATATTGTCGATCTTGAACAAAATAGTTTAATTTTTTTTT
1 ATTTGTAAGACACAATGTTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
12591285 ATT
1 ATT
12591288 ATTGAGAAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 93 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (53 bp):
ATTTGTAAGACACAATGTTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
Found at i:12595495 original size:20 final size:20
Alignment explanation
Indices: 12595472--12595509 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12595462 TCAATTTTAA
* *
12595472 TTTTAAATTTAAAAAATCAC
1 TTTTAAACTAAAAAAATCAC
12595492 TTTTAAACTAAAAAAATC
1 TTTTAAACTAAAAAAATC
12595510 TGACATTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTAAACTAAAAAAATCAC
Found at i:12602373 original size:14 final size:14
Alignment explanation
Indices: 12602354--12602400 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
12602344 ACAAAAGGGG
12602354 AAAAAAGA-AAAGA
1 AAAAAAGAGAAAGA
12602367 AAGAAAAGAGAAAGA
1 AA-AAAAGAGAAAGA
*
12602382 AAAAAAG-GAAGGA
1 AAAAAAGAGAAAGA
12602395 AAAAAA
1 AAAAAA
12602401 AAAAATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 13 0.42
14 11 0.35
15 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAAAGAGAAAGA
Found at i:12602373 original size:15 final size:15
Alignment explanation
Indices: 12602354--12602401 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
12602344 ACAAAAGGGG
12602354 AAAAAAGA-AAAGAA
1 AAAAAAGAGAAAGAA
*
12602368 AGAAAAGAGAAAG-A
1 AAAAAAGAGAAAGAA
*
12602382 AAAAAAG-GAAGGAA
1 AAAAAAGAGAAAGAA
12602396 AAAAAA
1 AAAAAA
12602402 AAAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 4 0.14
14 21 0.72
15 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAGAGAAAGAA
Found at i:12602387 original size:23 final size:24
Alignment explanation
Indices: 12602353--12602405 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
12602343 AACAAAAGGG
12602353 GAAAAAAGAAAA-GAAAGAAAAGA
1 GAAAAAAGAAAAGGAAAGAAAAGA
*
12602376 GAAAGAAA-AAAAGGAAGGAAAA-A
1 GAAA-AAAGAAAAGGAAAGAAAAGA
*
12602399 AAAAAAA
1 GAAAAAA
12602406 TTTAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.12
23 12 0.46
24 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (24 bp):
GAAAAAAGAAAAGGAAAGAAAAGA
Found at i:12604520 original size:15 final size:15
Alignment explanation
Indices: 12604500--12604529 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12604490 CATTTTATTT
*
12604500 ATATTAGGATAATTA
1 ATATTAAGATAATTA
12604515 ATATTAAGATAATTA
1 ATATTAAGATAATTA
12604530 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:12610950 original size:6 final size:6
Alignment explanation
Indices: 12610939--12610979 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
12610929 CAACCCAATT
12610939 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
12610980 TTTATTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:12611935 original size:99 final size:99
Alignment explanation
Indices: 12611759--12611955 Score: 274
Period size: 99 Copynumber: 2.0 Consensus size: 99
12611749 TAATTTCTAA
* *
12611759 GAATGTGTTGGGCTGAGTAACCGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACTTCAAAAGGT
1 GAATGTGATGGGCTGAGTAACCGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACGTCAAAAGGT
* * *
12611824 TCGATATGTTCCT-AGGAATAATAAAAAAATTAG
66 ACGATATATTCCTAAGGAAAAATAAAAAAATTAG
*
12611857 GAATGTGATGGGCTGAGTAACCGGG-GTAGGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAG
1 GAATGTGATGGGCTGAGTAACCGGGTG-A-GGTGCTTGGGTTGTCATCTCTCTTCACGTCAAAAG
* *
12611921 GTAC-AGTATATTCCTAAGTAAAAATAAATAAATTA
64 GTACGA-TATATTCCTAAGGAAAAATAAAAAAATTA
12611956 AATTAAAATT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
97 1 0.01
98 26 0.30
99 44 0.51
100 16 0.18
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (99 bp):
GAATGTGATGGGCTGAGTAACCGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACGTCAAAAGGT
ACGATATATTCCTAAGGAAAAATAAAAAAATTAG
Found at i:12612585 original size:15 final size:15
Alignment explanation
Indices: 12612565--12612594 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12612555 CATTTTATTT
*
12612565 ATATTAGGATAATTA
1 ATATTAAGATAATTA
12612580 ATATTAAGATAATTA
1 ATATTAAGATAATTA
12612595 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:12625972 original size:22 final size:20
Alignment explanation
Indices: 12625937--12626035 Score: 73
Period size: 19 Copynumber: 5.0 Consensus size: 20
12625927 AAAGGATATC
* *
12625937 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCT-CAAGAT
12625958 TACAAAATCATATCTTCAAGAT
1 TAC-AAATCATATC-TCAAGAT
* *
12625980 TGCATATCATATCT-AAGAT
1 TACAAATCATATCTCAAGAT
*
12625999 T--ATATCATATCT-AAGAT
1 TACAAATCATATCTCAAGAT
* *
12626016 TGCATATCATATCT-AAGAT
1 TACAAATCATATCTCAAGAT
12626035 T
1 T
12626036 GCATATCCTT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
17 17 0.24
19 23 0.33
20 1 0.01
21 12 0.17
22 16 0.23
23 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (20 bp):
TACAAATCATATCTCAAGAT
Found at i:12625999 original size:19 final size:19
Alignment explanation
Indices: 12625964--12626042 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
12625954 AGATTACAAA
12625964 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
12625985 ATCATATCTAAGATT--AT
1 ATCATATCTAAGATTGCAT
12626002 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12626021 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12626040 ATC
1 ATC
12626043 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:12626019 original size:36 final size:38
Alignment explanation
Indices: 12625964--12626035 Score: 130
Period size: 36 Copynumber: 1.9 Consensus size: 38
12625954 AGATTACAAA
12625964 ATCATATCTTCAAGATTGCATATCATATCTAAGATTAT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTAT
12626002 ATCATATC-T-AAGATTGCATATCATATCTAAGATT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATT
12626036 GCATATCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTAT
Found at i:12626051 original size:36 final size:35
Alignment explanation
Indices: 12625965--12626052 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 35
12625955 GATTACAAAA
*
12625965 TCATAT-CTTCAAGATTGCATATCATATCTAAGAT
1 TCATATCCTTAAAGATTGCATATCATATCTAAGAT
* *
12625999 T-ATATCATATCTAAGATTGCATATCATATCTAAGAT
1 TCATATCCT-T-AAAGATTGCATATCATATCTAAGAT
12626035 TGCATATCCTTAAAGATT
1 T-CATATCCTTAAAGATT
12626053 ATATTTCCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
33 4 0.09
34 2 0.04
35 1 0.02
36 31 0.69
37 1 0.02
38 6 0.13
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (35 bp):
TCATATCCTTAAAGATTGCATATCATATCTAAGAT
Found at i:12626601 original size:87 final size:87
Alignment explanation
Indices: 12626437--12626601 Score: 197
Period size: 87 Copynumber: 1.9 Consensus size: 87
12626427 ACAATACAGA
* *
12626437 GATGCCAAATCATCTTAGATCTACTTCAGCATAAACATGTGAAAGCCAAATCTACTATGTCTTCG
1 GATGCCAAATCATCTTAGATCTACTTCAGCATAAACATCTGAAAGCCAAATCTACTATGTCTTCA
* *
12626502 ATTTTCTCCTTGTGAACACAAG
66 ATATGCTCCTTGTGAACACAAG
* * * * * * * *
12626524 GATGCCAAATCATCTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTCAGATCTGCTATGTCTTT
1 GATGCCAAATCATCTTAGATCTACTTCAGCATAAA-CATCTGAAAGCCAAATCTACTATGTCTTC
*
12626588 AATATGCTTCTTGT
65 AATATGCTCCTTGT
12626602 AAACTTATGA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
86 3 0.05
87 61 0.95
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTACTTCAGCATAAACATCTGAAAGCCAAATCTACTATGTCTTCA
ATATGCTCCTTGTGAACACAAG
Found at i:12627099 original size:205 final size:200
Alignment explanation
Indices: 12626675--12627218 Score: 874
Period size: 205 Copynumber: 2.7 Consensus size: 200
12626665 CTGTTTCTTT
* *
12626675 GATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAGCGTAAGCACGCGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
*
12626740 AAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATACC-AACCATCTTGGAT
66 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
* * **
12626804 CTGTTTCAGTCATCTGAAGGTTAGATCTGTTATGTATCTGCTCTCCATCGAAATGGAGATGGCAG
131 CTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATACCAG
*
12626869 ACTTT
196 ACTTC
* * * *
12626874 GATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCATCGTAACCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
*
12626939 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
66 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
*
12627004 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
131 CTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGAT
12627069 ACCAGACTTC
191 ACCAGACTTC
12627079 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
* * *
12627144 AAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATTTTGGAT
66 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
12627209 CTTGCTTCAG
131 C-TGCTTCAG
12627219 CCAGATCGGC
Statistics
Matches: 316, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
199 108 0.34
200 21 0.07
202 1 0.00
205 178 0.56
206 8 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (200 bp):
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGA
AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
CTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATACCAG
ACTTC
Found at i:12628174 original size:8 final size:8
Alignment explanation
Indices: 12628161--12628209 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
12628151 GGCCTCTCCA
12628161 TTTTTATT
1 TTTTTATT
12628169 TTTTTA-T
1 TTTTTATT
12628176 TTTTTAGTT
1 TTTTTA-TT
12628185 TTCTTT-TT
1 TT-TTTATT
*
12628193 TTTTTCTT
1 TTTTTATT
12628201 TTTTT-TT
1 TTTTTATT
12628208 TT
1 TT
12628210 GAAATAGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 14 0.38
8 17 0.46
9 3 0.08
10 3 0.08
ACGTcount: A:0.06, C:0.04, G:0.02, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:12628197 original size:11 final size:11
Alignment explanation
Indices: 12628167--12628208 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
12628157 TCCATTTTTA
*
12628167 TTTTTTTATTT
1 TTTTTTTCTTT
12628178 TTTAGTTTTCTTT
1 TTT--TTTTCTTT
12628191 TTTTTTTCTTT
1 TTTTTTTCTTT
12628202 TTTTTTT
1 TTTTTTT
12628209 TGAAATAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 18 0.64
13 10 0.36
ACGTcount: A:0.05, C:0.05, G:0.02, T:0.88
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:12631652 original size:16 final size:17
Alignment explanation
Indices: 12631631--12631663 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12631621 CACATTGAAG
12631631 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
12631647 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
12631664 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:12632613 original size:20 final size:20
Alignment explanation
Indices: 12632588--12632633 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
12632578 ATTGGGCCTT
12632588 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
12632608 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
12632627 GCCCATA
1 GCCCATA
12632634 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:12633257 original size:8 final size:8
Alignment explanation
Indices: 12633244--12633282 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
12633234 CACAAATGCT
12633244 GGCTTTTC
1 GGCTTTTC
12633252 GGCTTTTC
1 GGCTTTTC
* *
12633260 GACTTTTT
1 GGCTTTTC
*
12633268 AGCTTTTC
1 GGCTTTTC
12633276 GGCTTTT
1 GGCTTTT
12633283 ACTGATCTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.05, C:0.21, G:0.21, T:0.54
Consensus pattern (8 bp):
GGCTTTTC
Found at i:12635066 original size:15 final size:15
Alignment explanation
Indices: 12635029--12635057 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12635019 TTTTTCTATC
12635029 TAATAATAATAATTA
1 TAATAATAATAATTA
12635044 TAATAATAATAATT
1 TAATAATAATAATT
12635058 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:12635128 original size:12 final size:12
Alignment explanation
Indices: 12635113--12635137 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12635103 GTAAATAATA
12635113 ATAAAAATTTTC
1 ATAAAAATTTTC
12635125 ATAAAAATTTTC
1 ATAAAAATTTTC
12635137 A
1 A
12635138 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:12638793 original size:19 final size:19
Alignment explanation
Indices: 12638751--12638811 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
12638741 CATATCATAT
12638751 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
12638769 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
12638787 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
12638806 CATATC
1 CATATC
12638812 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:12645186 original size:40 final size:40
Alignment explanation
Indices: 12645142--12645415 Score: 154
Period size: 40 Copynumber: 7.0 Consensus size: 40
12645132 GTCGCTGTAA
* * *
12645142 ATTGAGCATTAGCGGCGCTTTTTGAAAATTGCCTCTATAG
1 ATTGAGCATTAGCGGCGCTTTTTAAAAAATGCCGCTATAG
* *
12645182 ATTGAGCATTAGCGGAGCTTTTCAAAAAATGCCGCTATAG
1 ATTGAGCATTAGCGGCGCTTTTTAAAAAATGCCGCTATAG
* ** * * * *
12645222 ATCGAGCATTAATGGCGCTTTTTAAAAAAAGCCGCAAAAA
1 ATTGAGCATTAGCGGCGCTTTTTAAAAAATGCCGCTATAG
* * * * * *** * *
12645262 ATTAAGCA-CAACGTCGTCGTTTT--ATGTTG-AGCTTTAG
1 ATTGAGCATTAGCGGCG-CTTTTTAAAAAATGCCGCTATAG
* **
12645299 --TG-GCATTAGCGGC-ATTTTTAGAAAAACACCGCTATAG
1 ATTGAGCATTAGCGGCGCTTTTTA-AAAAATGCCGCTATAG
* *
12645336 ATCGAGCATTAGCGGTGCTTTTTGAAAAACAT--CGCTATAG
1 ATTGAGCATTAGCGGCGCTTTTT-AAAAA-ATGCCGCTATAG
* * * **
12645376 ATCGAGCATTACCGGCACTTTTTAAAAAGCGCCGCTATAG
1 ATTGAGCATTAGCGGCGCTTTTTAAAAAATGCCGCTATAG
12645416 GCCGACCATT
Statistics
Matches: 169, Mismatches: 51, Indels: 28
0.68 0.21 0.11
Matches are distributed among these distances:
33 4 0.02
34 3 0.02
35 5 0.03
36 1 0.01
37 9 0.05
38 2 0.01
39 11 0.07
40 123 0.73
41 9 0.05
42 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (40 bp):
ATTGAGCATTAGCGGCGCTTTTTAAAAAATGCCGCTATAG
Found at i:12645426 original size:40 final size:40
Alignment explanation
Indices: 12645301--12645450 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
12645291 AGCTTTAGTG
*
12645301 GCATTAGCGGCA-TTTTTAGAAAAACACCGCTATAGATCGA
1 GCATTAGCGGCACTTTTTA-CAAAACACCGCTATAGATCGA
** *
12645341 GCATTAGCGGTGCTTTTTGA-AAAACATCGCTATAGATCGA
1 GCATTAGCGGCACTTTTT-ACAAAACACCGCTATAGATCGA
* * **
12645381 GCATTACCGGCACTTTTTA-AAAAGCGCCGCTATAGGCCGA
1 GCATTAGCGGCACTTTTTACAAAA-CACCGCTATAGATCGA
* * *
12645421 CCATTAGCGGCACTTTTCACAAAACGCCGC
1 GCATTAGCGGCACTTTTTACAAAACACCGC
12645451 AAAAAAATTA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 5 0.05
40 78 0.84
41 9 0.10
42 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
GCATTAGCGGCACTTTTTACAAAACACCGCTATAGATCGA
Found at i:12645538 original size:195 final size:194
Alignment explanation
Indices: 12645145--12645541 Score: 503
Period size: 194 Copynumber: 2.0 Consensus size: 194
12645135 GCTGTAAATT
*** * * *
12645145 GAGCATTAGCGGCGCTTTTTGAAAATTGCCTCTATAGATTGAGCATTAGCGGAGCTTTTCAAAAA
1 GAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTACCGGAGCTTTTCAAAAA
* * * * * *
12645210 ATGCCGCTATAGATCGAGCATTAATGGCGCTTTTTAAAAAAAGCCGCAAAAAATTAAGCACAACG
66 ACGCCGCTATAGACCGACCATTAACGGCACTTTTCAAAAAAAGCCGCAAAAAATTAAGCACAACG
* *
12645275 TCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGCATTTTTAGAAAAACACCGCTATAGATC
131 TCGTCGTTTTATATTGAGCTTTAGTGGCATTAACGGCATTTTTAGAAAAACACCGCTATAGATC
* * *
12645339 GAGCATTAGCGGTGCTTTTTGAAAAACATCGCTATAGATCGAGCATTACCGGCA-CTTTTTAAAA
1 GAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTACCGG-AGCTTTTCAAAA
* * * * * *
12645403 AGCGCCGCTATAGGCCGACCATTAGCGGCACTTTTCACAAAACGCCGCAAAAAAATTAAGCACAG
65 AACGCCGCTATAGACCGACCATTAACGGCACTTTTCAAAAAAAGCCGC-AAAAAATTAAGCACAA
* **
12645468 CG-CTGTCGTTTTATATTGAGCTTTAGTGGCATTAACGGCGCTTTTT-GAAAAATGCCGCTATAG
129 CGTC-GTCGTTTTATATTGAGCTTTAGTGGCATTAACGGC-ATTTTTAGAAAAACACCGCTATAG
12645531 ATC
192 ATC
12645534 GAGCATTA
1 GAGCATTA
12645542 AGGACAAACC
Statistics
Matches: 173, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
194 91 0.53
195 77 0.45
196 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (194 bp):
GAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTACCGGAGCTTTTCAAAAA
ACGCCGCTATAGACCGACCATTAACGGCACTTTTCAAAAAAAGCCGCAAAAAATTAAGCACAACG
TCGTCGTTTTATATTGAGCTTTAGTGGCATTAACGGCATTTTTAGAAAAACACCGCTATAGATC
Found at i:12646625 original size:17 final size:18
Alignment explanation
Indices: 12646603--12646636 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12646593 TACTAATTTT
12646603 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
12646620 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
12646637 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:12647019 original size:41 final size:41
Alignment explanation
Indices: 12646974--12647065 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 41
12646964 TAAAAATTAT
* ***
12646974 AAAAAGTCAAACATTAGCGGTGTTTATAATAAAAACGCCAC
1 AAAAAGTCAAACAATAGCAACGTTTATAATAAAAACGCCAC
* * * *
12647015 AAAAAGT-AAATAATAGCAACGTTTATGATAAAAATGCCAT
1 AAAAAGTCAAACAATAGCAACGTTTATAATAAAAACGCCAC
*
12647055 AAAAAATCAAA
1 AAAAAGTCAAA
12647066 TTATTTTGGA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
40 31 0.76
41 10 0.24
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.22
Consensus pattern (41 bp):
AAAAAGTCAAACAATAGCAACGTTTATAATAAAAACGCCAC
Found at i:12647686 original size:17 final size:17
Alignment explanation
Indices: 12647664--12647721 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
12647654 AAGTTAGTCA
12647664 TTTTAATTTATACATTT
1 TTTTAATTTATACATTT
*** * **
12647681 TTTTAAGGAAAACAATCA
1 TTTTAATTTATAC-ATTT
12647699 TTTTAATTTATACATTT
1 TTTTAATTTATACATTT
12647716 TTTTAA
1 TTTTAA
12647722 GGAAAACAAT
Statistics
Matches: 28, Mismatches: 12, Indels: 2
0.67 0.29 0.05
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTAATTTATACATTT
Found at i:12647707 original size:35 final size:35
Alignment explanation
Indices: 12647661--12647731 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
12647651 AAGAAGTTAG
12647661 TCATTTTAATTTATACATTTTTTTAAGGAAAACAA
1 TCATTTTAATTTATACATTTTTTTAAGGAAAACAA
12647696 TCATTTTAATTTATACATTTTTTTAAGGAAAACAA
1 TCATTTTAATTTATACATTTTTTTAAGGAAAACAA
12647731 T
1 T
12647732 GTTCTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.46
Consensus pattern (35 bp):
TCATTTTAATTTATACATTTTTTTAAGGAAAACAA
Found at i:12649988 original size:29 final size:29
Alignment explanation
Indices: 12649943--12650020 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
12649933 ATGACGGTAT
* *
12649943 AAAGTAAAAGTAAGTTAATTTTATTTTTAA
1 AAAGTAAGA-TAAGTTAAATTTATTTTTAA
12649973 AAAGTAAGATAAGTTAAATTTATTTTTAA
1 AAAGTAAGATAAGTTAAATTTATTTTTAA
*
12650002 AAAGTAAGATAATTTAAAT
1 AAAGTAAGATAAGTTAAAT
12650021 GATATTCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 37 0.82
30 8 0.18
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (29 bp):
AAAGTAAGATAAGTTAAATTTATTTTTAA
Found at i:12650108 original size:18 final size:18
Alignment explanation
Indices: 12650056--12650101 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
12650046 ATATATGAAA
*
12650056 TATTAATTTAAATGTAAG
1 TATTAATTTAAATATAAG
12650074 TATTAATTTAAATATAAG
1 TATTAATTTAAATATAAG
12650092 TATTTAATTT
1 TA-TTAATTT
12650102 GATATAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TATTAATTTAAATATAAG
Found at i:12652214 original size:85 final size:83
Alignment explanation
Indices: 12652051--12652282 Score: 247
Period size: 85 Copynumber: 2.7 Consensus size: 83
12652041 AAAATTTTTT
* * * * *
12652051 TAAAGGTCATGTTTTTTA-TCGGCGTTTGTGGGAAAAACGCCGTTAAAGGTCATG-CTTTTAGTG
1 TAAAGGTCATGTTCTTTAGT-GGCGTTTGT-GGAAAAGCGCTGCTAAAGGTCATGTC-TTTAG-C
* * *
12652114 GAGTTTGGGGTAAAAGCGCCGC
62 AAGTTTGGGGGAAAAGCGCCAC
*
12652136 TAAAAGTCATGTTCTTTAGTGGCGTTTGTCGGAAAAGCGCTGCTAAAGGTCATGTCTTTAGCAAC
1 TAAAGGTCATGTTCTTTAGTGGCGTTTGT-GGAAAAGCGCTGCTAAAGGTCATGTCTTTAGCAA-
12652201 G-TTGGTGGGAAAAGCGCCAC
64 GTTTGG-GGGAAAAGCGCCAC
* * *
12652221 TAAAGGTCACGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCT-CTAAAAGTCATGTTCTTTAGC
1 TAAAGGTCATGTTCTTTAGTGGCGTTTGTGGAAAAGCG-CTGCTAAAGGTCATG-TCTTTAGC
12652283 GGCATTTTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
84 25 0.20
85 100 0.79
86 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (83 bp):
TAAAGGTCATGTTCTTTAGTGGCGTTTGTGGAAAAGCGCTGCTAAAGGTCATGTCTTTAGCAAGT
TTGGGGGAAAAGCGCCAC
Found at i:12652280 original size:42 final size:43
Alignment explanation
Indices: 12652051--12652285 Score: 257
Period size: 42 Copynumber: 5.5 Consensus size: 43
12652041 AAAATTTTTT
* * *
12652051 TAAAGGTCATGTTTTTTATCGGCGTTTGTGGGAAAAACGCCGT-
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCC-TC
* * * *
12652094 TAAAGGTCATGCT-TTTAGTGGAGTTTG-GGGTAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG-AAAAGCGCCTC
* * *
12652136 TAAAAGTCATGTTCTTTAGTGGCGTTTGTCGGAAAAGCG-CTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCT-C
** * *
12652179 TAAAGGTCATG-TCTTTAGCAACGTTGGTGGGAAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCTC
*
12652221 TAAAGGTCACGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCTC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCTC
*
12652263 TAAAAGTCATGTTCTTTAGCGGC
1 TAAAGGTCATGTTCTTTAGCGGC
12652286 ATTTTTTTAC
Statistics
Matches: 160, Mismatches: 25, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.02
42 97 0.61
43 58 0.36
44 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCTC
Found at i:12652489 original size:16 final size:16
Alignment explanation
Indices: 12652470--12652501 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12652460 AACAATGTGG
12652470 TTTGTTCATGAACCAA
1 TTTGTTCATGAACCAA
12652486 TTTGTTCATGAACCAA
1 TTTGTTCATGAACCAA
12652502 GTGACAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
TTTGTTCATGAACCAA
Found at i:12652597 original size:85 final size:85
Alignment explanation
Indices: 12652496--12652651 Score: 240
Period size: 85 Copynumber: 1.8 Consensus size: 85
12652486 TTTGTTCATG
* * * *
12652496 AACCAAGTGACAGTTTGTTTAATTTGTAAATATGTTGTGCACCCACAACAAGTGGTAGTAATTTC
1 AACCAAGTGACAGTTTGTTTAATTTGCAAATATGTTGTGCACCCACAACAAGTGGTAATAACTAC
12652561 AAATATGTGGTTCGACCACA
66 AAATATGTGGTTCGACCACA
* * * *
12652581 AACCAAGTGGCGGTTTGTTTAATTTGCAAATTTGTTGTTCACCCACAACAAGTGGTAATAACTAC
1 AACCAAGTGACAGTTTGTTTAATTTGCAAATATGTTGTGCACCCACAACAAGTGGTAATAACTAC
12652646 AAATAT
66 AAATAT
12652652 TGTTGGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (85 bp):
AACCAAGTGACAGTTTGTTTAATTTGCAAATATGTTGTGCACCCACAACAAGTGGTAATAACTAC
AAATATGTGGTTCGACCACA
Found at i:12656741 original size:17 final size:18
Alignment explanation
Indices: 12656704--12656741 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12656694 GGTCACTCTC
*
12656704 TCAATAAACTATAATAGT
1 TCAATAAACTATAAGAGT
*
12656722 TCAATAAATTAT-AGAGT
1 TCAATAAACTATAAGAGT
12656739 TCA
1 TCA
12656742 CTTCTCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (18 bp):
TCAATAAACTATAAGAGT
Found at i:12657540 original size:39 final size:39
Alignment explanation
Indices: 12657456--12657608 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
12657446 TATGGTAACC
** * *
12657456 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
12657496 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
12657535 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
12657574 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
12657609 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:12657581 original size:78 final size:79
Alignment explanation
Indices: 12657425--12657607 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
12657415 TCATTCAAAC
* * **
12657425 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
12657490 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
12657505 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
12657569 CAATTTGCACAATT
66 CAATTTGCACAATT
12657583 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
12657608 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:12661777 original size:6 final size:6
Alignment explanation
Indices: 12661768--12661895 Score: 127
Period size: 6 Copynumber: 20.8 Consensus size: 6
12661758 TATTAGAACT
*
12661768 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-GTGAC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
* * *
12661817 AGAATC AGAATC AAAATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* *
12661866 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
12661896 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.05
6 84 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:12661823 original size:31 final size:31
Alignment explanation
Indices: 12661768--12661895 Score: 179
Period size: 31 Copynumber: 4.2 Consensus size: 31
12661758 TATTAGAACT
*
12661768 AGAATCAGAATCA-G-AATCAGAATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATCAAAATC
* *
12661798 AGAATCAGAATCAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
* *
12661829 AAAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
*
12661860 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
12661891 AGAAT
1 AGAAT
12661896 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.14
31 76 0.84
32 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGGTAACAGAATCAAAATC
Found at i:12662069 original size:27 final size:26
Alignment explanation
Indices: 12662027--12662128 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
12662017 GCTCAGTTAT
* *
12662027 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
12662054 CAGATATTGTGGCAGAGCCACTAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
12662080 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
12662108 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
12662129 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:12662111 original size:54 final size:53
Alignment explanation
Indices: 12662027--12662129 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 53
12662017 GCTCAGTTAT
* * * *
12662027 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACTAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACTAGAA
* *
12662080 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
12662130 TAACAGAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACTAGAA
Found at i:12662154 original size:54 final size:54
Alignment explanation
Indices: 12662045--12662146 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
12662035 GTGACAGAGT
* * * ** *
12662045 CACCAGATACAGATATTGTGGCAGAGCCACTAGAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCAAAGC
*
12662099 CACCAGAAACAGATAATGTGGCAAAGCCACT-TAACAGA-ATACGTGGCA
1 CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCA
12662147 CAAAGCCATC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 8 0.19
53 6 0.14
54 28 0.67
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCAAAGC
Found at i:12666659 original size:30 final size:30
Alignment explanation
Indices: 12666616--12666704 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
12666606 CAAATATAAC
12666616 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
12666645 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
12666675 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
12666705 CGATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:12666664 original size:15 final size:15
Alignment explanation
Indices: 12666616--12666695 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
12666606 CAAATATAAC
*
12666616 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
12666630 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
12666645 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
12666660 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
12666675 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
12666690 AAGAAA
1 AAGAAA
12666696 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:12666704 original size:15 final size:15
Alignment explanation
Indices: 12666627--12666704 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
12666617 AGAAAACCGA
*
12666627 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
12666642 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
12666656 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
12666671 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
12666687 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
12666702 ATA
1 ATA
12666705 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:12667661 original size:27 final size:27
Alignment explanation
Indices: 12667377--12667653 Score: 315
Period size: 27 Copynumber: 10.3 Consensus size: 27
12667367 GATATTACAA
* * *
12667377 GGTATCTCGGTAATTCCACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
12667404 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
12667431 GCTATTTCGGTAATTTTACTCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
12667458 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
12667485 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
12667512 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
12667539 GGTATTTCGGTAATTCTACCCTACATG
1 GGTATTTCGGTAATTCTACCCTACAGG
* **
12667566 GGTATTTCGGTAATTTTA-CAAACTAGG
1 GGTATTTCGGTAATTCTACCCTAC-AGG
* * ** *
12667593 GGTATTTTGGTAATTTTA-CAAATTAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGG
* **
12667620 GGTATTTTGGTAATTCTATGCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
12667647 GGTATTT
1 GGTATTT
12667654 TAGTAATTTC
Statistics
Matches: 216, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
26 3 0.01
27 212 0.98
28 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:12667700 original size:27 final size:27
Alignment explanation
Indices: 12667666--12667863 Score: 261
Period size: 27 Copynumber: 7.3 Consensus size: 27
12667656 GTAATTTCAT
12667666 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
12667693 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
12667720 AATCAAGGGTAAAACGCTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
12667747 AATCGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
12667774 AATCGAGGATAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
12667801 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
12667828 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
12667855 AATCGAGGG
1 AATCGAGGG
12667864 CATTTCAATA
Statistics
Matches: 150, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:12667776 original size:81 final size:81
Alignment explanation
Indices: 12667666--12667849 Score: 296
Period size: 81 Copynumber: 2.3 Consensus size: 81
12667656 GTAATTTCAT
* * *
12667666 AATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGATAAAACGGTAATTTTGTAAATCAAGGGTA
*
12667731 AAACGCTAATTCTGTA
66 AAACGCTAATTCTATA
* * *
12667747 AATCGAGGGTAAAATGGTAATTTTTTAAATCGAGGATAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGATAAAACGGTAATTTTGTAAATCAAGGGTA
*
12667812 AAACGGTAATTCTATA
66 AAACGCTAATTCTATA
12667828 AATCGAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAATGGTAATT
12667850 CTACAAATCG
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGATAAAACGGTAATTTTGTAAATCAAGGGTA
AAACGCTAATTCTATA
Found at i:12667876 original size:81 final size:81
Alignment explanation
Indices: 12667666--12667892 Score: 229
Period size: 81 Copynumber: 2.8 Consensus size: 81
12667656 GTAATTTCAT
* ** * ** ***
12667666 AATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAACAATAATTTTGTAAATCAAGGGTA
*
12667731 AAACGCTAATTCTGTA
66 AAACGCTAATTCTATA
* ** * ** * *
12667747 AATCGAGGGTAAAATGGTAATTTTTTAAATCGAGGATAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAACAATAATTTTGTAAATCAAGGGTA
*
12667812 AAACGGTAATTCTATA
66 AAACGCTAATTCTATA
* *** * *
12667828 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCATTTCAATAATTTTGTAAACCAATGGTA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAACAATAATTTTGTAAATCAAGGGTA
12667893 TTTCTATAAT
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 124 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAACAATAATTTTGTAAATCAAGGGTA
AAACGCTAATTCTATA
Found at i:12667967 original size:27 final size:27
Alignment explanation
Indices: 12667844--12668047 Score: 119
Period size: 27 Copynumber: 7.5 Consensus size: 27
12667834 GGGTAAAATG
* *
12667844 GTAATTCTACAAATC-GAGGGCATTTCA
1 GTAATTTTACAAATCAG-GGGTATTTCA
* ** * **
12667871 ATAATTTTGTAAACCAATGGTATTTCTA
1 GTAATTTTACAAATCAGGGGTATTTC-A
* * **
12667899 -TAATTTTTAGAAAGTCAAGGGTATTTTT
1 GTAA-TTTTACAAA-TCAGGGGTATTTCA
* **
12667927 GTAATCTTGTAAATCAGGGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTCA
* *
12667954 GTAATTTTACAAAT-TGAGGGTATTTCG
1 GTAATTTTACAAATCAG-GGGTATTTCA
* * *
12667981 GTAATTTCACAAACCAGGGGTATTT-T
1 GTAATTTTACAAATCAGGGGTATTTCA
* **
12668007 GATAATTTTACAAACCAGGGGTATTTTG
1 G-TAATTTTACAAATCAGGGGTATTTCA
12668035 GTAATTTTACAAA
1 GTAATTTTACAAA
12668048 CTAGAGGTAT
Statistics
Matches: 137, Mismatches: 31, Indels: 18
0.74 0.17 0.10
Matches are distributed among these distances:
26 2 0.01
27 106 0.77
28 16 0.12
29 13 0.09
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAATCAGGGGTATTTCA
Found at i:12668048 original size:27 final size:27
Alignment explanation
Indices: 12667917--12668068 Score: 162
Period size: 27 Copynumber: 5.6 Consensus size: 27
12667907 AGAAAGTCAA
* * ** *
12667917 GGGTATTTTTGTAATCTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** **
12667944 GGGTATTTCAGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
12667970 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
*
12667998 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
12668025 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
12668052 AGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
12668069 GGTAAAGTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 104 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:12669579 original size:10 final size:10
Alignment explanation
Indices: 12669552--12669670 Score: 70
Period size: 10 Copynumber: 11.6 Consensus size: 10
12669542 TTTTTCTTTG
12669552 TATATTATTTA
1 TATATTA-TTA
12669563 TTATATTATTA
1 -TATATTATTA
12669574 TATATTATTA
1 TATATTATTA
12669584 TATATTGTATTA
1 TATA-T-TATTA
*
12669596 CCTACATT-TTA
1 --TATATTATTA
12669607 T-TA-TA-TA
1 TATATTATTA
* *
12669614 TATATAAATA
1 TATATTATTA
12669624 TATTATT-TTA
1 TA-TATTATTA
12669634 TATATTACTTA
1 TATATTA-TTA
**
12669645 TCATATTGCT-
1 T-ATATTATTA
12669655 TATATTATTA
1 TATATTATTA
12669665 TATATT
1 TATATT
12669671 TCGTTTATGA
Statistics
Matches: 85, Mismatches: 9, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
7 4 0.05
8 3 0.04
9 12 0.14
10 29 0.34
11 15 0.18
12 18 0.21
13 1 0.01
14 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (10 bp):
TATATTATTA
Found at i:12669587 original size:12 final size:12
Alignment explanation
Indices: 12669552--12669650 Score: 66
Period size: 12 Copynumber: 8.2 Consensus size: 12
12669542 TTTTTCTTTG
12669552 TATATTATT-TA
1 TATATTATTATA
12669563 T-TA-TATTATTA
1 TATATTATTA-TA
12669574 TATATTATTATA
1 TATATTATTATA
12669586 TAT-TGTATTACCTA
1 TATAT-TATTA--TA
* *
12669600 CATTTTATTATA
1 TATATTATTATA
*
12669612 TATA-TA-TAAA
1 TATATTATTATA
*
12669622 TATATTATTTTA
1 TATATTATTATA
12669634 TATATTACTTATCA
1 TATATTA-TTAT-A
12669648 TAT
1 TAT
12669651 TGCTTATATT
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
9 4 0.06
10 9 0.13
11 9 0.13
12 25 0.36
13 8 0.12
14 13 0.19
15 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (12 bp):
TATATTATTATA
Found at i:12680211 original size:44 final size:44
Alignment explanation
Indices: 12680161--12680688 Score: 743
Period size: 44 Copynumber: 12.0 Consensus size: 44
12680151 TCACCGGTGA
* * *
12680161 CAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGGT-G
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * * *
12680204 ATAGATTTGGCGTCTCAGTATTGACAGAGAGCAGATCAAATATAG
1 -CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * *
12680249 CAGATTTGGCATCTTTGTATTGTGAGAGAGCAGATCGAAGATGG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12680293 TAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12680337 TAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
*
12680381 CAGATTTGGCGTCTTTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12680425 CAGATTTGGCGTCTTTGTATTGTCAGAGAGCAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
12680469 CAAATTTGGCGTCTCTGTATTGTCAGAGAGAAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12680513 CGGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * *
12680557 CAGATTTGGCATCTCTGTATTGTTAGAGAGGAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
*
12680601 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAGGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
12680645 CAGATTTGGCGTTTCTGTACTGTCAGAGACCAGATTCGAAGATA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGA-TCGAAGATA
12680689 ACCGATCTGG
Statistics
Matches: 432, Mismatches: 50, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
44 423 0.98
45 9 0.02
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
Found at i:12682360 original size:28 final size:27
Alignment explanation
Indices: 12682277--12682365 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 27
12682267 TTTTTCTTTG
12682277 TATATTATTTATTATATTATTATATATTATTA
1 TATATTA-TT-TTATA-TATTAT-TATTA-TA
* *
12682309 TATATTATATTACCTACATT-TTATTATA
1 TATATTATTTTA--TATATTATTATTATA
*
12682337 TATATTATTTTATATATTACTTATCATA
1 TATATTATTTTATATATTA-TTATTATA
12682365 T
1 T
12682366 TGCTTATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
26 5 0.10
28 21 0.44
29 5 0.10
30 4 0.08
31 4 0.08
32 9 0.19
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (27 bp):
TATATTATTTTATATATTATTATTATA
Found at i:12682365 original size:14 final size:12
Alignment explanation
Indices: 12682277--12682365 Score: 69
Period size: 12 Copynumber: 7.2 Consensus size: 12
12682267 TTTTTCTTTG
12682277 TATATTATT-TA
1 TATATTATTATA
12682288 T-TA-TATTATTA
1 TATATTATTA-TA
12682299 TATATTATTATA
1 TATATTATTATA
12682311 TAT-TATATTACCTA
1 TATAT-TATTA--TA
* *
12682325 CATTTTATTATA
1 TATATTATTATA
*
12682337 TATATTATTTTA
1 TATATTATTATA
12682349 TATATTACTTATCA
1 TATATTA-TTAT-A
12682363 TAT
1 TAT
12682366 TGCTTATATT
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
9 4 0.06
10 2 0.03
11 5 0.08
12 30 0.48
13 8 0.13
14 13 0.21
15 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATTATTATA
Found at i:12682371 original size:12 final size:11
Alignment explanation
Indices: 12682277--12682379 Score: 53
Period size: 12 Copynumber: 9.6 Consensus size: 11
12682267 TTTTTCTTTG
*
12682277 TATATTATTTA
1 TATATTACTTA
12682288 TTATATTA-TTA
1 -TATATTACTTA
12682299 TATATTA-TTA
1 TATATTACTTA
12682309 TATATTA--TA
1 TATATTACTTA
*
12682318 T-TACCTACATT-
1 TATA-TTAC-TTA
12682329 T-TATTA--TA
1 TATATTACTTA
*
12682337 TATATTATTTTA
1 TATATTA-CTTA
12682349 TATATTACTTA
1 TATATTACTTA
*
12682360 TCATATTGCTTA
1 T-ATATTACTTA
12682372 TATTATTA
1 TA-TATTA
12682380 TATATTTCGT
Statistics
Matches: 75, Mismatches: 5, Indels: 22
0.74 0.05 0.22
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 10 0.13
10 19 0.25
11 11 0.15
12 31 0.41
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (11 bp):
TATATTACTTA
Found at i:12693038 original size:44 final size:44
Alignment explanation
Indices: 12692988--12693561 Score: 817
Period size: 44 Copynumber: 13.0 Consensus size: 44
12692978 TCACCGGTGA
*
12692988 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGGT-G
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * ** *
12693031 ACAGATTTGGCATCTCCGTATTGACAGAGAGCAGATTAAAGATAA
1 -CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12693076 CAGATTTGGCGTCTCCGTATTGTCAGAGAGTAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
*
12693120 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * *
12693164 TAGATTTAGCGTCTCTGTATTGTTAGACAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12693208 TAGATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
12693252 TAGATTTGCCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
12693296 CAGATTTGGCATCTTTGTATTGTTAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12693340 CAGATTTGGCGTCTCTGTATTGTCAGAGAGAAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
** *
12693384 TGGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12693428 CAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
12693472 CGGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAGGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
** *
12693516 CAGATTTGGTATCTCTGTATTGTCAGAGACCAGATTCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGA-TCGAAGATAG
12693561 C
1 C
12693562 CAATTTGACA
Statistics
Matches: 472, Mismatches: 56, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
44 462 0.98
45 10 0.02
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
Found at i:12695128 original size:10 final size:10
Alignment explanation
Indices: 12695101--12695209 Score: 68
Period size: 10 Copynumber: 10.7 Consensus size: 10
12695091 TTTTCTTTGT
12695101 ATATATTTATT
1 ATATA-TTATT
12695112 ATATTATTATGT
1 ATA-TATTAT-T
12695124 AT-TATTATAT
1 ATATATTAT-T
*
12695134 ATTATATTACGT
1 A-TATATTA-TT
* *
12695146 ACATTTTATT
1 ATATATTATT
12695156 ATATA-TA-T
1 ATATATTATT
12695164 AT-TATT-TT
1 ATATATTATT
12695172 ATATATTACTT
1 ATATATTA-TT
*
12695183 ATCATATTGTT
1 AT-ATATTATT
12695194 -TATATTATT
1 ATATATTATT
12695203 ATATATT
1 ATATATT
12695210 TCGTTTATGA
Statistics
Matches: 77, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
7 2 0.03
8 7 0.09
9 13 0.17
10 19 0.25
11 19 0.25
12 17 0.22
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (10 bp):
ATATATTATT
Found at i:12695168 original size:14 final size:14
Alignment explanation
Indices: 12695100--12695189 Score: 57
Period size: 14 Copynumber: 6.4 Consensus size: 14
12695090 TTTTTCTTTG
12695100 TATATAT-TTATTA
1 TATATATATTATTA
12695113 TAT-TATTATGTATTA
1 TATATA-TAT-TATTA
12695128 T-TATATATTA-TA
1 TATATATATTATTA
* *
12695140 TTACGTACATTTTATTA
1 -TA--TATATATTATTA
12695157 TATATATATTATT-
1 TATATATATTATTA
12695170 T-TATATATTACTTA
1 TATATATATTA-TTA
12695184 TCATAT
1 T-ATAT
12695190 TGTTTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 23
0.69 0.05 0.26
Matches are distributed among these distances:
12 13 0.22
13 10 0.17
14 15 0.25
15 8 0.13
16 12 0.20
17 2 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (14 bp):
TATATATATTATTA
Found at i:12695170 original size:19 final size:19
Alignment explanation
Indices: 12695081--12695209 Score: 61
Period size: 19 Copynumber: 6.4 Consensus size: 19
12695071 TATAAAAGTG
* *
12695081 TATATATTATTTT-TCTTTG
1 TATATATTATTTTAT-TATA
*
12695100 TATATATTTATTATATTAT-
1 TATATA-TTATTTTATTATA
*
12695119 TATGTATTATTATATATTATA
1 TATATATTATT-T-TATTATA
*
12695140 T-TACGTA-CATTTTATTATA
1 TATA--TATTATTTTATTATA
12695159 TATATATTATTTTATATATTA
1 TATATATTATTTTAT-TA-TA
*
12695180 CTTATCATATTGTTTATATTAT-
1 --TAT-ATATTATTT-TATTATA
12695202 TATATATT
1 TATATATT
12695210 TCGTTTATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
18 7 0.08
19 31 0.36
20 23 0.26
21 7 0.08
22 2 0.02
23 4 0.05
24 10 0.11
25 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (19 bp):
TATATATTATTTTATTATA
Found at i:12698711 original size:27 final size:27
Alignment explanation
Indices: 12698655--12698887 Score: 240
Period size: 27 Copynumber: 8.7 Consensus size: 27
12698645 TAGAATACTT
*
12698655 TAGTTTACTAAAA-TACC-AAATACCCT
1 TAGTTTA-TAAAATTACCAAAATACCCC
*
12698681 TGGTTTATAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
12698708 TGGTTTGTAAAATTACCAAAATA-CCA
1 TAGTTTATAAAATTACCAAAATACCCC
12698734 TCAGTTTATAAAATTACCAAAATACCCC
1 T-AGTTTATAAAATTACCAAAATACCCC
* *
12698762 TGGTTTATAAAATTACCAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
*
12698789 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * **
12698816 TAATTTGTGAAATTACTGAAATA-CCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * *
12698842 TCGACTTGTAAAATTACCAAAGTACCCC
1 TAG-TTTATAAAATTACCAAAATACCCC
* *
12698870 CAATTTATAAAATTACCA
1 TAGTTTATAAAATTACCA
12698888 TTTTACCCTC
Statistics
Matches: 173, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
25 5 0.03
26 17 0.10
27 145 0.84
28 6 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:12698741 original size:54 final size:54
Alignment explanation
Indices: 12698658--12698925 Score: 265
Period size: 54 Copynumber: 5.0 Consensus size: 54
12698648 AATACTTTAG
** **
12698658 TTTACTAAAA-TACC-AAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATACCCTCAGTTTATAAAATTACCAAAATACCCCTAA
* * **
12698711 TTTGTAAAATTACCAAAATACCATCAGTTTATAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTCAGTTTATAAAATTACCAAAATACCCCTAA
* *
12698765 TTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAA
1 TTTATAAAATTACCAAAATACCCTCAGTTTATAAAATTACCAAAATACCCCTAA
* * ** * * * *
12698819 TTTGTGAAATTACTGAAATACCCTC-GACTTGTAAAATTACCAAAGTACCCCCAA
1 TTTATAAAATTACCAAAATACCCTCAG-TTTATAAAATTACCAAAATACCCCTAA
*** * * *
12698873 TTTATAAAATTACCATTTTACCCTCAATTTACAAAATTATTC-AAATACCCCTA
1 TTTATAAAATTACCAAAATACCCTCAGTTTATAAAATTA-CCAAAATACCCCTA
12698926 TAGGGTAGAA
Statistics
Matches: 178, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
52 5 0.03
53 8 0.04
54 164 0.92
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (54 bp):
TTTATAAAATTACCAAAATACCCTCAGTTTATAAAATTACCAAAATACCCCTAA
Found at i:12698829 original size:81 final size:80
Alignment explanation
Indices: 12698658--12698924 Score: 270
Period size: 81 Copynumber: 3.3 Consensus size: 80
12698648 AATACTTTAG
* *
12698658 TTTACTAAAA-TACCAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATT
1 TTTA-TAAAATTACCAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATT
*
12698722 ACCAAAATACCATCAG
65 ACCAAAATACCATCAA
*
12698738 TTTATAAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATT
1 TTTATAAAATTACC-AAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATT
*
12698803 ACCAAAATACC-CCTAA
65 ACCAAAATACCATC-AA
* * * ** * * * * *
12698819 TTTGTGAAATTACTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAAT
1 TTTATAAAATTAC-CAAATACCCCT-GGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAAT
*** *
12698883 TACCATTTTACCCTCAA
64 TACCAAAATACCATCAA
* *
12698900 TTTACAAAATTATTCAAATACCCCT
1 TTTATAAAATTA-CCAAATACCCCT
12698925 ATAGGGTAGA
Statistics
Matches: 154, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
79 5 0.03
80 13 0.08
81 131 0.85
82 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (80 bp):
TTTATAAAATTACCAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
CCAAAATACCATCAA
Found at i:12698894 original size:27 final size:27
Alignment explanation
Indices: 12698684--12698911 Score: 152
Period size: 27 Copynumber: 8.4 Consensus size: 27
12698674 ATACCCTTGG
* ***
12698684 TTTATAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAGTACCCCCAA
* * ** *
12698711 TTTGTAAAATTACCAAAATACCATCAG
1 TTTATAAAATTACCAAAGTACCCCCAA
* ***
12698738 TTTATAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAGTACCCCCAA
* ** *
12698765 TTTATAAAATTACCAAAATACCCTTAG
1 TTTATAAAATTACCAAAGTACCCCCAA
* * *
12698792 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTATAAAATTACCAAAGTACCCCCAA
* * * * *
12698819 TTTGTGAAATTACTGAAA-TACCCTCGA
1 TTTATAAAATTAC-CAAAGTACCCCCAA
* *
12698846 CTTGTAAAATTACCAAAGTACCCCCAA
1 TTTATAAAATTACCAAAGTACCCCCAA
*** *
12698873 TTTATAAAATTACCATTTTACCCTCAA
1 TTTATAAAATTACCAAAGTACCCCCAA
*
12698900 TTTACAAAATTA
1 TTTATAAAATTA
12698912 TTCAAATACC
Statistics
Matches: 167, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 3 0.02
27 161 0.96
28 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (27 bp):
TTTATAAAATTACCAAAGTACCCCCAA
Found at i:12698937 original size:27 final size:27
Alignment explanation
Indices: 12698907--12699101 Score: 234
Period size: 27 Copynumber: 7.2 Consensus size: 27
12698897 CAATTTACAA
* *
12698907 AATTATTCAAATACCCCTATAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
*
12698934 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
*
12698961 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
*
12698988 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
**
12699015 AATTAC-CGAAATACCTTTGTAGGGTAG
1 AATTACTC-AAATACCCCTGTAGGGTAG
*
12699042 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACTC-AAATACCCCTGTAGGGTAG
* * * *
12699069 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACTC-AAATACCCCTGTAGGGTAG
12699096 AATTAC
1 AATTAC
12699102 CATTTTGCCC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTCAAATACCCCTGTAGGGTAG
Found at i:12699238 original size:21 final size:21
Alignment explanation
Indices: 12699213--12699262 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
12699203 ATATTGTTAT
12699213 ACATGATAGGACATGATATGC
1 ACATGATAGGACATGATATGC
* **
12699234 ACATGATATGTTATGATATGC
1 ACATGATAGGACATGATATGC
*
12699255 GCATGATA
1 ACATGATA
12699263 TGCTATGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (21 bp):
ACATGATAGGACATGATATGC
Found at i:12699239 original size:11 final size:11
Alignment explanation
Indices: 12699213--12699287 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
12699203 ATATTGTTAT
*
12699213 ACATGATA-GG
1 ACATGATATGC
12699223 ACATGATATGC
1 ACATGATATGC
12699234 ACATGATATG-
1 ACATGATATGC
**
12699244 TTATGATATGC
1 ACATGATATGC
*
12699255 GCATGATATGC
1 ACATGATATGC
* *
12699266 -TATGATATAC
1 ACATGATATGC
* *
12699276 TCATTATATGC
1 ACATGATATGC
12699287 A
1 A
12699288 TGGATGGGGT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
10 24 0.47
11 27 0.53
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:12699286 original size:21 final size:21
Alignment explanation
Indices: 12699225--12699273 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
12699215 ATGATAGGAC
*
12699225 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
*
12699246 ATGATATGCGCATGATATGCT
1 ATGATATGCACATGATATGCT
12699267 ATGATAT
1 ATGATAT
12699274 ACTCATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:12699371 original size:23 final size:23
Alignment explanation
Indices: 12699320--12699391 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 23
12699310 GAGGAAGTGC
12699320 TAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAG-TTAT
*
12699344 CAAAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTTGCCCCAGTTAT
**
12699367 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAG-GGCTTTGCC-CCAGTTAT
12699392 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.21
24 25 0.60
25 8 0.19
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TAAAAGGGCTTTGCCCCAGTTAT
Found at i:12708843 original size:44 final size:42
Alignment explanation
Indices: 12708795--12708877 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 42
12708785 ATTGAGAAAA
* * *
12708795 CACTAAGTTTGCGGAAT-TATTATAGCTTTGGCTAATCTTTAAAG
1 CACTAAGTGTGCGG-ATGT-TTAAAGCATTGG-TAATCTTTAAAG
12708839 CACTAAGTGTGCGGATGTTTAAAGCATTGGTAATCTTTA
1 CACTAAGTGTGCGGATGTTTAAAGCATTGGTAATCTTTA
12708878 GAAAGTCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 9 0.26
43 12 0.34
44 14 0.40
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.37
Consensus pattern (42 bp):
CACTAAGTGTGCGGATGTTTAAAGCATTGGTAATCTTTAAAG
Found at i:12711882 original size:40 final size:40
Alignment explanation
Indices: 12711827--12712008 Score: 312
Period size: 40 Copynumber: 4.6 Consensus size: 40
12711817 TGGATGATAA
12711827 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
12711867 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
12711907 CCGGGCTAAGTCCTGAAGGCATTTGT-CGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
12711946 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
12711986 CCGGGCTATGTCACGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
12712009 CAAGTAAGTA
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.27
40 98 0.73
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:12711959 original size:79 final size:79
Alignment explanation
Indices: 12711827--12712008 Score: 303
Period size: 79 Copynumber: 2.3 Consensus size: 79
12711817 TGGATGATAA
*
12711827 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
12711892 TGAGAGTTACTATAT
65 TGAGAGTTACTATAT
12711907 CCGGGCTAAGTCCTGAAGGCATTTGT-CGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
*
12711971 TGCGAGTTACTATAT
65 TGAGAGTTACTATAT
*
12711986 CCGGGCTATGTCACGAAGGCATT
1 CCGGGCTAAGTC-CGAAGGCATT
12712009 CAAGTAAGTA
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
79 73 0.75
80 24 0.25
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
GAGAGTTACTATAT
Found at i:12712039 original size:79 final size:79
Alignment explanation
Indices: 12711827--12712043 Score: 271
Period size: 79 Copynumber: 2.7 Consensus size: 79
12711817 TGGATGATAA
* * * *
12711827 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTAGT-CAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
12711892 TGAGAGTTACTATAT
65 TGAGAGTTACTATAT
* *
12711907 CCGGGCTAAGTCCTGAAGGCATTTGTCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
1 CCGGGCTAAGTCCTGAAGGCATTAGTCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
*
12711972 GCGAGTTACTATAT
66 GAGAGTTACTATAT
* * *
12711986 CCGGGCTATGTCAC-GAAGGCATTCAAGT-AAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTC-CTGAAGGCATT--AGTCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
12712044 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
79 87 0.70
80 36 0.29
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCTGAAGGCATTAGTCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
GAGAGTTACTATAT
Found at i:12713813 original size:15 final size:18
Alignment explanation
Indices: 12713780--12713816 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12713770 ATGGTTGAGT
12713780 ATCATTTTTAATATCATC
1 ATCATTTTTAATATCATC
12713798 ATCATTTTTAATATCATC
1 ATCATTTTTAATATCATC
12713816 A
1 A
12713817 GAAATAGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (18 bp):
ATCATTTTTAATATCATC
Found at i:12729826 original size:66 final size:66
Alignment explanation
Indices: 12729752--12729924 Score: 176
Period size: 66 Copynumber: 2.6 Consensus size: 66
12729742 CATCATGTGT
* * *
12729752 ACAAGAGAGCTACAAGAATTATGATGT-GCTAGGTCGCATGGGTGATACTA-TG-TGTACACCAT
1 ACAAGAGAGCTAC-AGAA-TAT-ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCAT
12729814 GTAG
63 GTAG
* * * * *
12729818 ACAAGAGAGCTACGGTATATATGTAGCTAGGTCGCATGTGTGTTTCCAGTGAAGGACACCATGTA
1 ACAAGAGAGCTACAGAATATATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTA
12729883 G
66 G
* * *
12729884 ACAAGAGAGCTAC-GAGATAAAT-TGGCTAGGTCACATGGGTG
1 ACAAGAGAGCTACAGA-ATATATGTAGCTAGGTCGCATGGGTG
12729925 GTAATGAGTG
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
63 4 0.04
64 22 0.24
65 21 0.23
66 43 0.48
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (66 bp):
ACAAGAGAGCTACAGAATATATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTA
G
Found at i:12744426 original size:19 final size:19
Alignment explanation
Indices: 12744404--12744443 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12744394 ATTTACCCAT
12744404 AAAATGAATAAAAAATAAA
1 AAAATGAATAAAAAATAAA
* * *
12744423 AAAATTACTAAAAATTAAA
1 AAAATGAATAAAAAATAAA
12744442 AA
1 AA
12744444 TATATTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAATGAATAAAAAATAAA
Found at i:12744555 original size:20 final size:19
Alignment explanation
Indices: 12744494--12744568 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 19
12744484 ATTTCTAAAT
*
12744494 ATTATAAAATTAATAAAAA
1 ATTATAAAAATAATAAAAA
* **
12744513 ATT-TAAAATTTTTAAAAA
1 ATTATAAAAATAATAAAAA
* *
12744531 CTTATAAAAATCATAAAAA
1 ATTATAAAAATAATAAAAA
* *
12744550 TATTATATAAATATTAAAA
1 -ATTATAAAAATAATAAAA
12744569 TTGATATAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
18 15 0.34
19 15 0.34
20 14 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTATAAAAATAATAAAAA
Found at i:12744588 original size:20 final size:20
Alignment explanation
Indices: 12744544--12744589 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
12744534 ATAAAAATCA
*
12744544 TAAAAATATTATATAAATAT
1 TAAAAATATGATATAAATAT
*
12744564 T-AAAAT-TGATATAAACTTT
1 TAAAAATATGATATAAA-TAT
12744583 TAAAAAT
1 TAAAAAT
12744590 CATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAAAATATGATATAAATAT
Found at i:12745196 original size:10 final size:10
Alignment explanation
Indices: 12745181--12745402 Score: 66
Period size: 10 Copynumber: 22.9 Consensus size: 10
12745171 TTTAAATGAC
*
12745181 ATTTTTAATT
1 ATTTTTAATA
12745191 ATTTTT-ATA
1 ATTTTTAATA
12745200 ATTTATTAA-A
1 ATTT-TTAATA
12745210 ATTTTT-AT-
1 ATTTTTAATA
* *
12745218 ATTATTCATA
1 ATTTTTAATA
12745228 ATTTTT-ATAA
1 ATTTTTAAT-A
12745238 ATGTTTTAAT-
1 AT-TTTTAATA
*
12745248 ATTTTAAAT-
1 ATTTTTAATA
*
12745257 ATATTTTATTA
1 AT-TTTTAATA
12745268 A-TTTT-ATGCA
1 ATTTTTAAT--A
*
12745278 AGTTTTAATA
1 ATTTTTAATA
*
12745288 ATTTGTTAA-G
1 ATTT-TTAATA
*
12745298 A--TTTACTA
1 ATTTTTAATA
*
12745306 TATTTTTTATA
1 -ATTTTTAATA
* *
12745317 ATATTTATTA
1 ATTTTTAATA
* *
12745327 GTTTTT-ATG
1 ATTTTTAATA
*
12745336 ATTTTTTAT-
1 ATTTTTAATA
12745345 ATTTTT-ATA
1 ATTTTTAATA
*
12745354 A-GTTTATATA
1 ATTTTTA-ATA
*
12745364 AATTTTAATA
1 ATTTTTAATA
12745374 TATTTTTTAA-A
1 -A-TTTTTAATA
*
12745385 AATTTTAAT-
1 ATTTTTAATA
12745394 ATTTTTAAT
1 ATTTTTAAT
12745403 TTTAATAAAT
Statistics
Matches: 159, Mismatches: 26, Indels: 55
0.66 0.11 0.23
Matches are distributed among these distances:
7 3 0.02
8 13 0.08
9 52 0.33
10 56 0.35
11 25 0.16
12 10 0.06
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:12745213 original size:19 final size:19
Alignment explanation
Indices: 12745191--12745237 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
12745181 ATTTTTAATT
12745191 ATTTTTATAATTTATT-AAA
1 ATTTTTATAA-TTATTCAAA
*
12745210 ATTTTTAT-ATTATTCATA
1 ATTTTTATAATTATTCAAA
12745228 ATTTTTATAA
1 ATTTTTATAA
12745238 ATGTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTATAATTATTCAAA
Found at i:12745250 original size:30 final size:28
Alignment explanation
Indices: 12745181--12745252 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
12745171 TTTAAATGAC
*
12745181 ATTTTTAATTATTTTTATAATTTATTAAA
1 ATTTTTAA-TATTTTCATAATTTATTAAA
12745210 ATTTTT-ATATTATTCATAATTT-TTATAA
1 ATTTTTAATATT-TTCATAATTTATTA-AA
12745238 ATGTTTTAATATTTT
1 AT-TTTTAATATTTT
12745253 AAATATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 7 0.18
28 14 0.37
29 12 0.32
30 5 0.13
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (28 bp):
ATTTTTAATATTTTCATAATTTATTAAA
Found at i:12745350 original size:19 final size:18
Alignment explanation
Indices: 12745304--12745354 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
12745294 TAAGATTTAC
12745304 TATATTTTTTATAATATT
1 TATATTTTTTATAATATT
* *
12745322 TATTAGTTTTTATGAT-TT
1 TA-TATTTTTTATAATATT
*
12745340 TTTATATTTTTATAA
1 TATAT-TTTTTATAA
12745355 GTTTATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 11 0.42
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TATATTTTTTATAATATT
Found at i:12745369 original size:28 final size:28
Alignment explanation
Indices: 12745309--12745380 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
12745299 TTTACTATAT
* * * * *
12745309 TTTTTATAATATTTATTAGTTTTTATGAT
1 TTTTTAT-ATTTTTATAAGTTTATATAAA
12745338 TTTTTATATTTTTATAAGTTTATATAAA
1 TTTTTATATTTTTATAAGTTTATATAAA
12745366 TTTTAATATATTTTT
1 TTTT--TATATTTTT
12745381 TAAAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.56
29 7 0.19
30 9 0.25
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTTATATTTTTATAAGTTTATATAAA
Found at i:12745426 original size:38 final size:36
Alignment explanation
Indices: 12745364--12745437 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
12745354 AGTTTATATA
*
12745364 AATTTTAATATATTTTTTAAAAATTTTAATATTTTT
1 AATTTTAATATAATTTTTAAAAATTTTAATATTTTT
* **
12745400 AATTTTAATAAATAATTTTTATAAATTTTTTTATTTTT
1 AATTTTAAT--ATAATTTTTAAAAATTTTAATATTTTT
12745438 TAATAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 9 0.28
38 23 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (36 bp):
AATTTTAATATAATTTTTAAAAATTTTAATATTTTT
Found at i:12745663 original size:18 final size:17
Alignment explanation
Indices: 12745633--12745668 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
12745623 TTTTTTTTTT
*
12745633 TAAGGTTTTTTTATATA
1 TAAGCTTTTTTTATATA
12745650 TAAGCTTTTATTTATATA
1 TAAGCTTTT-TTTATATA
12745668 T
1 T
12745669 CCATTCCTTT
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:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (17 bp):
TAAGCTTTTTTTATATA
Found at i:12746358 original size:24 final size:24
Alignment explanation
Indices: 12746331--12746377 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12746321 CATCTCTTCT
12746331 TTTTTCTCTGCAT-TTTCTTTTTCC
1 TTTTTC-CTGCATCTTTCTTTTTCC
* *
12746355 TTTTTCCTTCTTCTTTCTTTTTC
1 TTTTTCCTGCATCTTTCTTTTTC
12746378 TTTGTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTCCTGCATCTTTCTTTTTCC
Found at i:12746365 original size:17 final size:17
Alignment explanation
Indices: 12746345--12746377 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12746335 TCTCTGCATT
12746345 TTCTT-TTTCCTTTTTCC
1 TTCTTCTTT-CTTTTTCC
12746362 TTCTTCTTTCTTTTTC
1 TTCTTCTTTCTTTTTC
12746378 TTTGTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCTTCTTTCTTTTTCC
Found at i:12752831 original size:15 final size:15
Alignment explanation
Indices: 12752811--12752839 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12752801 GTCACCAAAA
12752811 TATCTACATACTTTT
1 TATCTACATACTTTT
12752826 TATCTACATACTTT
1 TATCTACATACTTT
12752840 CTTTAATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (15 bp):
TATCTACATACTTTT
Found at i:12767078 original size:23 final size:21
Alignment explanation
Indices: 12767031--12767071 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12767021 TCAAATTAAA
12767031 TAAAAAATATGAACAATTTTT
1 TAAAAAATATGAACAATTTTT
* *
12767052 TAAAAAATATTAATAATTTT
1 TAAAAAATATGAACAATTTT
12767072 ATTTAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAATATGAACAATTTTT
Found at i:12769046 original size:48 final size:47
Alignment explanation
Indices: 12768994--12769261 Score: 180
Period size: 48 Copynumber: 5.7 Consensus size: 47
12768984 TATGAGAGCC
*
12768994 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGAGACGAAAGCT
* * *
12769042 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTC-TCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-GAGACGAAAGCT
* * * * *
12769088 AGTGTAA-AGCATGTCTAGAACAT-GCATCGGC-T---ACGAGATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAGACGA-AAGCT
* * * * *
12769130 CAGTGTAAGACAATGTTTGGGACATGGCATCGGCATGTATA-G-AGGTGT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATG-AGACGAAAG-CT
* * * * *
12769178 CAGTGTAAGACCATGTCTGGGACATGGCGTTGGCACGGATATGTAAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGAGACG-AA-AGCT
*
12769229 AGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
12769262 TTCGATTTCG
Statistics
Matches: 176, Mismatches: 26, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 7 0.04
44 11 0.06
45 12 0.07
46 43 0.24
47 16 0.09
48 44 0.25
49 3 0.02
50 33 0.19
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAGACGAAAGCT
Found at i:12769093 original size:46 final size:45
Alignment explanation
Indices: 12768948--12769262 Score: 189
Period size: 46 Copynumber: 6.7 Consensus size: 45
12768938 ATTGTGTGCG
* * *
12768948 AGTGTAAGACATATCTGGGACATGCATCGGC-C-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA-TGT-A-AGCC
* * * * *
12768994 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGATGTAAGCC
12769042 AGTGTAAGACATGTCTGGGACATGCATCGGTCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATGTAAGCC
* * *
12769088 AGTGTAA-AGCATGTCTAGAACATGCATCGGCTACGAGATGT---TC
1 AGTGTAAGA-CATGTCTGGGACATGCATCGGCT-CGAGATGTAAGCC
* * *
12769131 AGTGTAAGACAATGTTTGGGACATGGCATCGGCAT-GTATAGAGGT--GTC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-TCG---AGATGTAAGCC
* * * * *
12769179 AGTGTAAGACCATGTCTGGGACATGGCGTTGGCACGGATATGTAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTC-GAGATGT-A-AGCC
*
12769229 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCT
12769263 TCGATTTCGA
Statistics
Matches: 216, Mismatches: 30, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
43 9 0.04
44 12 0.06
45 11 0.05
46 65 0.30
47 31 0.14
48 50 0.23
49 3 0.01
50 33 0.15
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGTAAGCC
Found at i:12772606 original size:18 final size:19
Alignment explanation
Indices: 12772577--12772612 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
12772567 TTTTGATATT
12772577 TTGGGCTTAATGGGCCAAA
1 TTGGGCTTAATGGGCCAAA
12772596 TTGGG-TTAATGGGCCAA
1 TTGGGCTTAATGGGCCAA
12772613 CGGGCCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (19 bp):
TTGGGCTTAATGGGCCAAA
Found at i:12772742 original size:28 final size:28
Alignment explanation
Indices: 12772710--12772774 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
12772700 ATTTACTAGA
*
12772710 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
12772738 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
12772766 ATACCCCTA
1 ATACCCCTA
12772775 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:12772933 original size:27 final size:28
Alignment explanation
Indices: 12772900--12772969 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
12772890 TGCCATAAAT
* **
12772900 TATCTGTTCTGGTGGCCCTACCAC-GTA
1 TATCTGTTCTGGTGGCACTACCACAAAA
*
12772927 TATCTGTTCTGGTGGCACTGCCACAAAA
1 TATCTGTTCTGGTGGCACTACCACAAAA
12772955 TATCTGTATCTGGTG
1 TATCTGT-TCTGGTG
12772970 ACTCTGTCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.59
28 8 0.22
29 7 0.19
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (28 bp):
TATCTGTTCTGGTGGCACTACCACAAAA
Found at i:12772980 original size:29 final size:28
Alignment explanation
Indices: 12772890--12772980 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
12772880 TTGGTGGCTA
* * * *
12772890 TGCCATAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* ** *
12772918 TACCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
12772945 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
12772974 TGTCACA
1 TGCCACA
12772981 TTTTCTGTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
27 22 0.45
28 12 0.24
29 15 0.31
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:12773458 original size:19 final size:19
Alignment explanation
Indices: 12773434--12773472 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12773424 TTAATTATTT
* *
12773434 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
12773453 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
12773472 T
1 T
12773473 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:12774673 original size:35 final size:35
Alignment explanation
Indices: 12774629--12774724 Score: 97
Period size: 35 Copynumber: 2.7 Consensus size: 35
12774619 ATCTAAGTAC
* *
12774629 ACAATTTCAATATAAGTTCACATGTAATCGAATACT
1 ACAAATTCAATATAAGTTCACATGTAACCGAATA-T
** * *
12774665 A-AAATTCAATATAACCTCACATGTAGCCGTATAT
1 ACAAATTCAATATAAGTTCACATGTAACCGAATAT
*
12774699 ACAAGTTCAATATAAGCTT-ACATGTA
1 ACAAATTCAATATAAG-TTCACATGTA
12774725 CTTACCTATG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.04
35 45 0.92
36 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (35 bp):
ACAAATTCAATATAAGTTCACATGTAACCGAATAT
Found at i:12785147 original size:27 final size:27
Alignment explanation
Indices: 12785101--12785175 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
12785091 ATTACTGAAA
* * *
12785101 TACCCTCAAATTGTAAAATTATCAAAG
1 TACCCTCAATTTATAGAATTATCAAAG
****
12785128 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCAATTTATAGAATTATCAAAG
*
12785155 TACCCTCGATTTATAGAATTA
1 TACCCTCAATTTATAGAATTA
12785176 CTGTTTTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTATAGAATTATCAAAG
Found at i:12785181 original size:27 final size:27
Alignment explanation
Indices: 12785128--12785231 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
12785118 ATTATCAAAG
* *
12785128 TACCCTCAATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
12785155 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
12785182 TATCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
12785209 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
12785232 AAAATACCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
27 66 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:12785239 original size:27 final size:27
Alignment explanation
Indices: 12785209--12785547 Score: 233
Period size: 27 Copynumber: 12.6 Consensus size: 27
12785199 ATTATTGTTT
**
12785209 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* ** *
12785236 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
** *
12785263 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * *
12785290 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
12785316 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTA-AAA
* *
12785343 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
12785370 TACCCTAG-TTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * *
12785396 TACCACT-GGTTTGTGAAATTACTGAAA
1 TACC-CTCGATTTGTAAAATTACTAAAA
* * *
12785423 TACCCTCAATTTGTAAAACTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
** *
12785450 TACCC-CTGATTTACAAAGTTA-TAGAAA
1 TACCCTC-GATTTGTAAAATTACTA-AAA
* *
12785477 TACCCTTGACTTTCTAAAAATTA-TAAAAA
1 TACCCTCGA-TTTGT-AAAATTACT-AAAA
* * * ** *
12785506 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
12785533 TACCCTTGGTTTGTA
1 TACCCTCGATTTGTA
12785548 GATTTACCAA
Statistics
Matches: 253, Mismatches: 46, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
26 50 0.20
27 177 0.70
28 8 0.03
29 17 0.07
30 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:12785249 original size:54 final size:54
Alignment explanation
Indices: 12785115--12785256 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 54
12785105 CTCAAATTGT
* * * *
12785115 AAAATTA-TCAAAGTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACT-AAAATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* **** * * *
12785169 AGAATTACTGTTTTATCCTTGATTTACAGAATTATTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* *
12785223 AAAATTACTAAAATACCCTCGGTTTACAAAATTA
1 AAAATTACTAAAATACCCTCGATTTACAGAATTA
12785257 CCAAAATACC
Statistics
Matches: 67, Mismatches: 20, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
Found at i:12785267 original size:54 final size:54
Alignment explanation
Indices: 12785209--12785559 Score: 264
Period size: 54 Copynumber: 6.5 Consensus size: 54
12785199 ATTATTGTTT
** * *
12785209 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
** * * ** *
12785263 TACCCTCGATCAGTAAAATTACCAAAATACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
* * ** ** *
12785316 TACCCTTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCA-AAATACCCTCGGTTTACAAAATTACTAAAA
* *** *
12785370 TACCCTAG-TTTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACC-CTCGGTTTACAAAATTACTAAAA
* * * *
12785423 TACCCTCAATTTGTAAAACTACCAAAATACCC-CTGATTTACAAAGTTA-TAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTC-GGTTTACAAAATTACTA-AAA
* * ** * * *
12785477 TACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
* * * *
12785533 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
12785560 CACCATTGTA
Statistics
Matches: 234, Mismatches: 51, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
52 2 0.01
53 82 0.35
54 104 0.44
55 8 0.03
56 37 0.16
57 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
Found at i:12785327 original size:80 final size:80
Alignment explanation
Indices: 12785223--12785454 Score: 315
Period size: 80 Copynumber: 2.9 Consensus size: 80
12785213 CTCGATTTAC
* ** * **
12785223 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
12785288 AATACCCTAGTCTGT
66 AATACCCTAGTCTGT
*
12785303 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCA-AAATACCCTCAATTTGTAAAATTACCA
*
12785367 AAATACCCTAGTTTGT
65 AAATACCCTAGTCTGT
* * ** *
12785383 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAACTACCA
1 AAAATTACTAAAATACC-CTTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
12785447 AAATACCC
65 AAATACCC
12785455 CTGATTTACA
Statistics
Matches: 135, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.01
80 132 0.98
81 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:12785629 original size:27 final size:27
Alignment explanation
Indices: 12785599--12785689 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 27
12785589 CCCCTATTAT
*
12785599 GTAAAAAGACCGTAAAACCCCTGTAGG
1 GTAAAATGACCGTAAAACCCCTGTAGG
* * *
12785626 GTAAAGTGACCGTAAAGCCCTTGTAGG
1 GTAAAATGACCGTAAAACCCCTGTAGG
* * *
12785653 GTAAAGTGACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAAAACCCCTGTAGG
12785680 GTAAAATGAC
1 GTAAAATGAC
12785690 GAATATGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
GTAAAATGACCGTAAAACCCCTGTAGG
Found at i:12786518 original size:26 final size:26
Alignment explanation
Indices: 12786489--12786624 Score: 197
Period size: 26 Copynumber: 5.3 Consensus size: 26
12786479 GAGGAAGTGC
*
12786489 AAAAGGGCTTATGTCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
12786515 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
12786541 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
12786567 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
12786593 AAAAGGGCTT-TGCCCCA-ATTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
12786616 AAAAGGGCT
1 AAAAGGGCT
12786625 AGGCCTCCAG
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 9 0.09
24 3 0.03
25 7 0.07
26 85 0.82
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:12786865 original size:31 final size:31
Alignment explanation
Indices: 12786830--12786906 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
12786820 CGTTTACAGT
12786830 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
12786861 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
12786892 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
12786907 GTAACCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:12795562 original size:47 final size:47
Alignment explanation
Indices: 12795509--12795702 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
12795499 TTAGGATTTT
* *
12795509 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
12795556 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
12795603 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
12795650 AATGTAATGAATGTGAACATGTATATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATG--CATATATGTGATAAGGCCGAATGGCC
12795699 AATG
1 AATG
12795703 CGAAATGTGT
Statistics
Matches: 136, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 110 0.81
49 26 0.19
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:12795812 original size:46 final size:46
Alignment explanation
Indices: 12795676--12795812 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
12795666 ACATGTATAT
* * *
12795676 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
12795722 ATATGAGATAAAGCCGAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
12795768 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATG
12795813 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
Found at i:12798583 original size:48 final size:50
Alignment explanation
Indices: 12798516--12798744 Score: 156
Period size: 48 Copynumber: 4.7 Consensus size: 50
12798506 GCTACGAGAT
* *
12798516 GTGTCAGTGTAAGATCATGTCTGGGACATGGCATCAGCACATATA-G-AA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATGTAA
* ** * *
12798564 GTGTCAATGTAAGACCATGTCTGGGATTTAGCATCGGCACAGATATGTAA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATGTAA
* ** * *
12798614 GAG-CTAGTGTAAGACCATGTCTGGGACATGGTGTCGGC-CTCG--ATGTCAA
1 GTGTC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-AGATATGT-AA
* * * * *
12798663 -TACTCAGTGTAAGGCCATGTCTGGGACATGGCATC-G-AC--TTGATGGAT
1 GT-GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAT-ATGTAA
* * *
12798710 GAGCCAGTGTAAAACCATGTCTGGGACATGGCATC
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATC
12798745 CGCATTATAA
Statistics
Matches: 142, Mismatches: 27, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
47 30 0.21
48 47 0.33
49 32 0.23
50 33 0.23
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATGTAA
Found at i:12798651 original size:50 final size:51
Alignment explanation
Indices: 12798384--12798744 Score: 190
Period size: 46 Copynumber: 7.6 Consensus size: 51
12798374 ATTGTGTGCT
** * * *
12798384 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAAACG--GGAGCT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGCTC
* * * * *
12798431 AGTGTAAGA-CATATCTAGGACAT-GCATAGGC-CTCGAAATGT-A-AGC-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTAAGAGCTC
* * *
12798477 AGTGTAAGA-CATGTCTAGGACAT-GCTTCGGCTAC-GAGATGT----G-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGATATGTAAGAGCTC
* * * *
12798521 AGTGTAAGATCATGTCTGGGACATGGCATCAGCACATATA-G-AAGTG-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGCTC
* ** *
12798569 AATGTAAGACCATGTCTGGGATTTAGCATCGGCACAGATATGTAAGAGCT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGCTC
** * *
12798619 AGTGTAAGACCATGTCTGGGACATGGTGTCGGC-CTCG--ATGTCAATA-CTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGT-AAGAGCTC
* * * *
12798668 AGTGTAAGGCCATGTCTGGGACATGGCATC-G-AC--TTGATGGATGAGC-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAT-ATGTAAGAGCTC
*
12798715 AGTGTAAAACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
12798745 CGCATTATAA
Statistics
Matches: 250, Mismatches: 40, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 57 0.23
47 52 0.21
48 49 0.20
49 32 0.13
50 32 0.13
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (51 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTAAGAGCTC
Done.