Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 61 of 78
Found at i:12333013 original size:2 final size:2
Alignment explanation
Indices: 12333006--12333031 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12332996 ATCATACATA
12333006 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12333032 CAACATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12333870 original size:3 final size:3
Alignment explanation
Indices: 12333862--12333913 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
12333852 ACGCTCACGG
*
12333862 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
12333910 GAA G
1 GAA G
12333914 CTCTATTCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12346805 original size:28 final size:28
Alignment explanation
Indices: 12346768--12346821 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
12346758 ACTTTTGTTA
*
12346768 GGTAAAATTATAAAAATACCCTTATGGG
1 GGTAAAATTAAAAAAATACCCTTATGGG
12346796 GGTAAAATTAAAAAAATACCCTTATG
1 GGTAAAATTAAAAAAATACCCTTATG
12346822 TTCTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (28 bp):
GGTAAAATTAAAAAAATACCCTTATGGG
Found at i:12346962 original size:5 final size:5
Alignment explanation
Indices: 12346952--12346987 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
12346942 CAGCTTAGCC
12346952 CAACT CAACT CAACT CAACT CAACT CAACT CAACT C
1 CAACT CAACT CAACT CAACT CAACT CAACT CAACT C
12346988 TATGGTGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (5 bp):
CAACT
Found at i:12350345 original size:431 final size:432
Alignment explanation
Indices: 12349711--12350644 Score: 1584
Period size: 431 Copynumber: 2.2 Consensus size: 432
12349701 AATTTTATGA
* * * *
12349711 AAAATATAAATTTAAGAACTAAATTGAATAAATATGAAATTACAAATTAAAATTTAAATAAATT-
1 AAAA-ATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
* * * *
12349775 AACAACACATATTGATGAGGGATCAAATCTAAATAATTTTTAATTGTGAGGTTTAAATTAATATA
65 AACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACA
*
12349840 AAAAAGTACAAAAATATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATATATAAGTAATA
130 AAAAAGTACAAAAATATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
*
12349905 AATATGGGCCAATTTCAGATGCAAATATAATTTTAAGGACTAAATTGAACAAATATGTAATTACA
195 AATATGGGCCAATTTCAGATGCAAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACA
*
12349970 AATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAAT
260 AATAAAAAGTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAAT
* * * *
12350035 TTTGAGGTTTAAATTAATA-CAAAAAGTACTAAATTATACCCATCTAAAAAGTTATGAGCCAATT
325 TGTGAGGTTTAAATAAATATAAAAAAGTACTAAATTATACCCATCTAAAAAGTTAAGAGCCAATT
12350099 AAAAAATATAAATAAGTAATAAGTATGGGCCAATTTCAGATGC
390 AAAAAATATAAATAAGTAATAAGTATGGGCCAATTTCAGATGC
12350142 AAAAATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAAAATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
12350207 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
** *
12350272 AAAAGTATTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
131 AAAAGTACAAAAATATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
* *
12350337 GTATGGGCCAATTTCATATGCAAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAA
196 ATATGGGCCAATTTCAGATGCAAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAA
* *
12350402 ATAAAAAGTTAAATAAATTAAACAACACACATTGATGAGGGATTAAATCAGAATAATTTTAAATT
261 ATAAAAAGTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATT
* * *
12350467 GTGAGGTTTAAATAAATATAAAAAAGTACTAAATTATACCCATTTAAAAAGTTAAGGGTCAATTA
326 GTGAGGTTTAAATAAATATAAAAAAGTACTAAATTATACCCATCTAAAAAGTTAAGAGCCAATTA
*
12350532 AAAAATATAAATAAGTAATAAGTTTGGGCCAATTTCAGATGC
391 AAAAATATAAATAAGTAATAAGTATGGGCCAATTTCAGATGC
* * *
12350574 AAATATAATTTTAAGGAATAAATTGAACATATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAAAATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
12350639 ACAACA
66 ACAACA
12350645 TAAAGGGATA
Statistics
Matches: 472, Mismatches: 29, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
430 55 0.12
431 267 0.57
432 150 0.32
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (432 bp):
AAAAATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
AAAAGTACAAAAATATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
ATATGGGCCAATTTCAGATGCAAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAA
ATAAAAAGTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATT
GTGAGGTTTAAATAAATATAAAAAAGTACTAAATTATACCCATCTAAAAAGTTAAGAGCCAATTA
AAAAATATAAATAAGTAATAAGTATGGGCCAATTTCAGATGC
Found at i:12350391 original size:216 final size:215
Alignment explanation
Indices: 12349712--12350644 Score: 1573
Period size: 216 Copynumber: 4.3 Consensus size: 215
12349702 ATTTTATGAA
* * * *
12349712 AAATATAAATTTAAGAACTAAATTGAATAAATATGAAATTACAAATTAAAATTTAAATAAATT-A
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * *
12349776 ACAACACATATTGATGAGGGATCAAATCTAAATAATTTTTAATTGTGAGGTTTAAATTAATATAA
66 ACAACACACATTGATGAGGGATCAAATC-AAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
* * *
12349841 AAAAGTACAAAAATATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATATATAAGTAATAA
130 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
*
12349906 ATATGGGCCAATTTCAGATGC
195 GTATGGGCCAATTTCAGATGC
*
12349927 AAATATAATTTTAAGGACTAAATTGAACAAATATGTAATTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
*
12349992 ACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATTTTGAGGTTTAAATTAATAC-A
66 ACAACACACATTGATGAGGGATCAAATC-AAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
* *
12350056 AAAAGTACTAAATTATACCCATCTAAAAAGTTATGAGCCAATTAAAAAATATAAATAAGTAATAA
130 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
12350121 GTATGGGCCAATTTCAGATGC
195 GTATGGGCCAATTTCAGATGC
*
12350142 AAAAATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
12350207 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATC-AAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
*
12350272 AAAAGTATTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
130 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
*
12350337 GTATGGGCCAATTTCATATGC
195 GTATGGGCCAATTTCAGATGC
*
12350358 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAAGTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * *
12350423 ACAACACACATTGATGAGGGATTAAATCAGAATAATTTTAAATTGTGAGGTTTAAATAAATATAA
66 ACAACACACATTGATGAGGGATCAAATCA-AATAATTTTAAATTGTGAGGTTTAAATTAATACAA
* *
12350488 AAAAGTACTAAATTATACCCATTTAAAAAGTTAAGGGTCAATTAAAAAATATAAATAAGTAATAA
130 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
*
12350553 GTTTGGGCCAATTTCAGATGC
195 GTATGGGCCAATTTCAGATGC
* *
12350574 AAATATAATTTTAAGGAATAAATTGAACATATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
12350639 ACAACA
66 ACAACA
12350645 TAAAGGGATA
Statistics
Matches: 678, Mismatches: 37, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
215 264 0.39
216 414 0.61
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (215 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAA
AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAG
TATGGGCCAATTTCAGATGC
Found at i:12350753 original size:2 final size:2
Alignment explanation
Indices: 12350742--12351007 Score: 144
Period size: 2 Copynumber: 131.5 Consensus size: 2
12350732 TTGAAACAAC
* *
12350742 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * *
12350785 TA TA TA AA GTA TA TA TA T- TA TA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * **
12350827 TA TA TT TA TA T- TA T- TT TA TA CTA TA TA TA -A GC TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * *
12350866 TA TA TA TA TA TA TA T- TA TG CA TA AA T- TA TA TA TA CCA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
12350907 TA AA CTA TA -A TA CTA TA TA GT- TCA TA TA TGA -A CTA TA -A AA
1 TA TA -TA TA TA TA -TA TA TA -TA T-A TA TA T-A TA -TA TA TA TA
*
12350947 CTA TA TA TA AA CTA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12350990 TA TA TA TA TA GTA TA TA T
1 TA TA TA TA TA -TA TA TA T
12351008 GGTTTAAGGT
Statistics
Matches: 204, Mismatches: 31, Indels: 58
0.70 0.11 0.20
Matches are distributed among these distances:
1 13 0.06
2 172 0.84
3 19 0.09
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:12350779 original size:11 final size:10
Alignment explanation
Indices: 12350746--12350823 Score: 52
Period size: 11 Copynumber: 7.3 Consensus size: 10
12350736 AACAACTATA
*
12350746 ATATATATAT
1 ATATAAATAT
*
12350756 ATATATATAT
1 ATATAAATAT
12350766 ATATAAACTAT
1 ATATAAA-TAT
*
12350777 ATAGT--TTAT
1 ATA-TAAATAT
12350786 ATATAAAGTAT
1 ATATAAA-TAT
12350797 ATATATTATATAT
1 ATATA--A-ATAT
12350810 ATATAAACTAT
1 ATATAAA-TAT
12350821 ATA
1 ATA
12350824 GTTTATATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
8 1 0.02
9 6 0.11
10 17 0.30
11 21 0.38
12 1 0.02
13 9 0.16
14 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (10 bp):
ATATAAATAT
Found at i:12351089 original size:41 final size:39
Alignment explanation
Indices: 12351038--12351176 Score: 108
Period size: 41 Copynumber: 3.4 Consensus size: 39
12351028 TTTATGGAAT
*
12351038 TATATATAAACTATATAGTTTATATATAGTAGTATTTAAAC
1 TATATATAAACTATATAGTTTA-ATATAGTA-TATGTAAAC
* * *
12351079 TATATATAAACAATATA-TACTAACTTATATTATATGTAAAC
1 TATATATAAACTATATAGT-TTAA--TATAGTATATGTAAAC
*
12351120 TATATAT--ACTATATAGTTTACATATGAATTATATGTATAA-
1 TATATATAAACTATATAGTTTA-ATAT--AGTATATGTA-AAC
12351160 -ACTATATAAACTATATA
1 TA-TATATAAACTATATA
12351177 TATAAACTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
38 3 0.04
39 10 0.12
40 19 0.23
41 35 0.43
42 14 0.17
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (39 bp):
TATATATAAACTATATAGTTTAATATAGTATATGTAAAC
Found at i:12351178 original size:13 final size:13
Alignment explanation
Indices: 12351162--12351186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12351152 ATGTATAAAC
12351162 TATATAAACTATA
1 TATATAAACTATA
12351175 TATATAAACTAT
1 TATATAAACTAT
12351187 GTAAACTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATAAACTATA
Found at i:12351198 original size:22 final size:22
Alignment explanation
Indices: 12351038--12351198 Score: 91
Period size: 22 Copynumber: 7.2 Consensus size: 22
12351028 TTTATGGAAT
* *
12351038 TATATATAAACTATAT--AGTT
1 TATATATAAACTATATAAACTA
* * *
12351058 TATATATAGTAGTATTTAAACTA
1 TATATATA-AACTATATAAACTA
*
12351081 TATATA-AACAATATATACTAACTTA
1 TATATATAA-ACTATATA--AAC-TA
*
12351106 TATTATATGTAAACTATATATACTA
1 TA-TATA--TAAACTATATAAACTA
* * *
12351131 TATAGT-T-TAC-ATATGAATTA
1 TATA-TATAAACTATATAAACTA
*
12351151 TATGTATAAACTATATAAACTA
1 TATATATAAACTATATAAACTA
*
12351173 TATATATAAACTATGTAAACTA
1 TATATATAAACTATATAAACTA
12351195 TATA
1 TATA
12351199 GTTTACATAT
Statistics
Matches: 106, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
19 1 0.01
20 19 0.18
21 9 0.08
22 40 0.38
23 8 0.08
24 5 0.05
25 9 0.08
26 6 0.06
28 7 0.07
29 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (22 bp):
TATATATAAACTATATAAACTA
Found at i:12351239 original size:24 final size:24
Alignment explanation
Indices: 12351193--12351242 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
12351183 CTATGTAAAC
*
12351193 TATATAGTTTACATATGACCTATA
1 TATATAGTTTACATATGAACTATA
** *
12351217 TATATAGTTTATTTGTGAACTATA
1 TATATAGTTTACATATGAACTATA
12351241 TA
1 TA
12351243 AACTATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (24 bp):
TATATAGTTTACATATGAACTATA
Found at i:12351255 original size:2 final size:2
Alignment explanation
Indices: 12351250--12351360 Score: 50
Period size: 2 Copynumber: 53.0 Consensus size: 2
12351240 ATAAACTATT
* * * *
12351250 TA TA TA GTA TA TA CA -A TA TA TA TA -A AA TA TA GTT TA TA TT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
12351292 TA TA CTA CA TA TA GT- TGA TA TT TA TA TA CTA TA TA T- TA TA TA
1 TA TA -TA TA TA TA -TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA
*
12351334 TA TA AA CTA TA TA GTA TA TA TA GTA TA
1 TA TA TA -TA TA TA -TA TA TA TA -TA TA
12351361 ATTTACATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
1 4 0.05
2 66 0.79
3 14 0.17
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:12351262 original size:9 final size:8
Alignment explanation
Indices: 12351250--12351360 Score: 50
Period size: 9 Copynumber: 13.2 Consensus size: 8
12351240 ATAAACTATT
12351250 TATATAGTA
1 TATATA-TA
*
12351259 TATACA-A
1 TATATATA
12351266 TATATATA
1 TATATATA
*
12351274 -AAATATA
1 TATATATA
* *
12351281 GTTTATATT
1 -TATATATA
12351290 TATATACTA
1 TATATA-TA
*
12351299 CATATAGT-
1 TATATA-TA
*
12351307 TGATATTTA
1 T-ATATATA
12351316 TATACTATA
1 TATA-TATA
12351325 TAT-TATA
1 TATATATA
*
12351332 TATATAAA
1 TATATATA
12351340 CTATATAGTA
1 -TATATA-TA
12351350 TATATAGTA
1 TATATA-TA
12351359 TA
1 TA
12351361 ATTTACATAT
Statistics
Matches: 77, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
7 19 0.25
8 13 0.17
9 44 0.57
10 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:12351303 original size:24 final size:24
Alignment explanation
Indices: 12351276--12351327 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
12351266 TATATATAAA
*
12351276 ATATAGTTTATATTTATATACTAC
1 ATATAGTTGATATTTATATACTAC
*
12351300 ATATAGTTGATATTTATATACTAT
1 ATATAGTTGATATTTATATACTAC
12351324 ATAT
1 ATAT
12351328 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (24 bp):
ATATAGTTGATATTTATATACTAC
Found at i:12351376 original size:34 final size:36
Alignment explanation
Indices: 12351314--12351380 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
12351304 AGTTGATATT
*
12351314 TATATACTATATATTATATATATAAACTATATAGTA
1 TATATACTATATATTATACATATAAACTATATAGTA
* *
12351350 TATATAGTATA-ATT-TACATATGAACTATATA
1 TATATACTATATATTATACATATAAACTATATA
12351381 TAAAAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 15 0.54
35 3 0.11
36 10 0.36
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATAGTA
Found at i:12351426 original size:25 final size:26
Alignment explanation
Indices: 12351377--12351433 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
12351367 ATATGAACTA
12351377 TATATAAAAACTATATAAACTATAGTT
1 TATATAAAAACTATAT-AACTATAGTT
*
12351404 TATATATAAACTATAT-ACTATAGTT
1 TATATAAAAACTATATAACTATAGTT
*
12351429 GATAT
1 TATAT
12351434 TTATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 13 0.46
27 15 0.54
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (26 bp):
TATATAAAAACTATATAACTATAGTT
Found at i:12351560 original size:18 final size:18
Alignment explanation
Indices: 12351537--12351571 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12351527 ATAGTTGATA
*
12351537 TTTACATGTGAACTATAG
1 TTTACATATGAACTATAG
12351555 TTTACATATGAACTATA
1 TTTACATATGAACTATA
12351572 TATAAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:12351610 original size:102 final size:103
Alignment explanation
Indices: 12351420--12351613 Score: 232
Period size: 102 Copynumber: 1.9 Consensus size: 103
12351410 TAAACTATAT
* * *
12351420 ACTATAGTTGATATTTATATATAAATTATATAGTTGATATATGAACTATATATAAACTGTAGTAA
1 ACTATAGTTGATATTTACATATAAA-TATATAGTTGACATATGAACTATATATAAACTATAGTAA
* * * *
12351485 AACTATATAGTTTATATACGAACTATACTTTACATGTAA
65 AACCATACAGTTCACATACGAACTATACTTTACATGTAA
* * * *
12351524 ACTATAGTTGATATTTACATGTGAA-CTATAGTTTACATATGAACTATATATAAAAACTATA-T-
1 ACTATAGTTGATATTTACATATAAATATATAGTTGACATATGAACTATATAT--AAACTATAGTA
*
12351586 AAACCATACAGTTCACATATGAACTATA
64 AAACCATACAGTTCACATACGAACTATA
12351614 TATATATAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
102 46 0.61
103 1 0.01
104 29 0.38
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (103 bp):
ACTATAGTTGATATTTACATATAAATATATAGTTGACATATGAACTATATATAAACTATAGTAAA
ACCATACAGTTCACATACGAACTATACTTTACATGTAA
Found at i:12351716 original size:67 final size:65
Alignment explanation
Indices: 12351645--12351870 Score: 186
Period size: 67 Copynumber: 3.5 Consensus size: 65
12351635 CTATATAAAC
*
12351645 TATTTATATAGTATATACTACATATATAAACTATAGTTTATATTTATATAATGCATACTATATTT
1 TATTTATATACTATATA-TACATATATAAACTATA-TTTATATTTATATAATGCATACTATATTT
12351710 TA
64 TA
* * *
12351712 TATTTATATCCTATATATCATATATATAAACTATA--TATA-CTATAT-A-G--TA-TA-ATTTA
1 TATTTATATACTATATAT-ACATATATAAACTATATTTATATTTATATAATGCATACTATATTT-
*
12351768 CA
64 TA
** * * * * *
12351770 TATGAACTATAC-ATAAAAAC-TATATAAACTATAATTTATATTTATATACTACATACTATAGTT
1 TATTTA-TATACTATATATACATATATAAACTAT-ATTTATATTTATATAATGCATACTATATTT
12351833 TA
64 TA
* *
12351835 TATTTATATACTATATATTATATATAAAAACTATAT
1 TATTTATATACTATATA-TACATATATAAACTATAT
12351871 ATACTATATA
Statistics
Matches: 121, Mismatches: 22, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
56 12 0.10
57 6 0.05
58 11 0.09
59 10 0.08
60 5 0.04
61 1 0.01
62 1 0.01
63 5 0.04
64 11 0.09
65 11 0.09
66 7 0.06
67 41 0.34
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.45
Consensus pattern (65 bp):
TATTTATATACTATATATACATATATAAACTATATTTATATTTATATAATGCATACTATATTTTA
Found at i:12351811 original size:123 final size:123
Alignment explanation
Indices: 12351667--12351925 Score: 437
Period size: 123 Copynumber: 2.1 Consensus size: 123
12351657 ATATACTACA
* * * *
12351667 TATATAAACTATAGTTTATATTTATATAATGCATACTATATTTTATATTTATATCCTATATATCA
1 TATATAAACTATAATTTATATTTATATAATACATACTATAGTTTATATTTATATACTATATATCA
*
12351732 TATATATAAACTATATATACTATATAGTATAATTTACATATGAACTATACATAAAAAC
66 TATATAAAAACTATATATACTATATAGTATAATTTACATATGAACTATACATAAAAAC
* *
12351790 TATATAAACTATAATTTATATTTATATACTACATACTATAGTTTATATTTATATACTATATATTA
1 TATATAAACTATAATTTATATTTATATAATACATACTATAGTTTATATTTATATACTATATATCA
*
12351855 TATATAAAAACTATATATACTATATAGTATAATTTACATATGAACTATATATAAAAAC
66 TATATAAAAACTATATATACTATATAGTATAATTTACATATGAACTATACATAAAAAC
*
12351913 CATATAAACTATA
1 TATATAAACTATA
12351926 TACTATAGTT
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 127 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (123 bp):
TATATAAACTATAATTTATATTTATATAATACATACTATAGTTTATATTTATATACTATATATCA
TATATAAAAACTATATATACTATATAGTATAATTTACATATGAACTATACATAAAAAC
Found at i:12351829 original size:20 final size:20
Alignment explanation
Indices: 12351806--12351858 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
12351796 AACTATAATT
12351806 TATATTTATATACTACATAC
1 TATATTTATATACTACATAC
* *
12351826 TATAGTTTATAT-TTATATAC
1 TATA-TTTATATACTACATAC
12351846 TATATATTATATA
1 TATAT-TTATATA
12351859 TAAAAACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 7 0.25
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATTTATATACTACATAC
Found at i:12351834 original size:27 final size:27
Alignment explanation
Indices: 12351797--12351856 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
12351787 AACTATATAA
12351797 ACTATAATTTATATTTATATACTACAT
1 ACTATAATTTATATTTATATACTACAT
* *
12351824 ACTATAGTTTATATTTATATACTATAT
1 ACTATAATTTATATTTATATACTACAT
*
12351851 ATTATA
1 ACTATA
12351857 TATAAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (27 bp):
ACTATAATTTATATTTATATACTACAT
Found at i:12351945 original size:27 final size:27
Alignment explanation
Indices: 12351915--12351986 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
12351905 ATAAAAACCA
* *
12351915 TATAAACTATATACTATAGTTGATATT
1 TATAAACTATATACTATAATTGATACT
* * *
12351942 TATATACTATATAATATAATTTATACT
1 TATAAACTATATACTATAATTGATACT
*
12351969 TATATAA-TTTATACTATA
1 TATA-AACTATATACTATA
12351987 TAAATTCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (27 bp):
TATAAACTATATACTATAATTGATACT
Found at i:12351975 original size:15 final size:14
Alignment explanation
Indices: 12351955--12351989 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
12351945 ATACTATATA
12351955 ATATAATTTATACTT
1 ATATAATTTATAC-T
12351970 ATATAATTTATACT
1 ATATAATTTATACT
12351984 ATATAA
1 ATATAA
12351990 ATTCAAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATTTATACT
Found at i:12352092 original size:18 final size:19
Alignment explanation
Indices: 12352071--12352114 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
12352061 ATTTACTACA
*
12352071 TATATAGTTTATATAT-AC
1 TATATAGTTTACATATAAC
12352089 TATATAGTTTACATATGAAC
1 TATATAGTTTACATAT-AAC
12352109 TATATA
1 TATATA
12352115 TAAAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.65
20 8 0.35
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (19 bp):
TATATAGTTTACATATAAC
Found at i:12352148 original size:35 final size:35
Alignment explanation
Indices: 12352111--12352331 Score: 278
Period size: 33 Copynumber: 6.5 Consensus size: 35
12352101 ATATGAACTA
*
12352111 TATATAAAAACTATATA-T-TATATAGTTCATTAG
1 TATATATAAACTATATATTATATATAGTTCATTAG
*
12352144 TATATATAAACTATACA-T-TATATAGTTCATTAG
1 TATATATAAACTATATATTATATATAGTTCATTAG
* * ** *
12352177 TATATATAAACTTTATAGTATATATA-AACTATATGG
1 TATATATAAACTATATATTATATATAGTTC-AT-TAG
*
12352213 TATATATAAACTATACATTATATATAGTTCATTAG
1 TATATATAAACTATATATTATATATAGTTCATTAG
12352248 TATATATAAACTATATATTATATATAGTTCATTAGG
1 TATATATAAACTATATATTATATATAGTTCATTA-G
12352284 T-TATATAAACTATATA-T-TATATAGTTCATTAG
1 TATATATAAACTATATATTATATATAGTTCATTAG
*
12352316 TATATATAACCTATAT
1 TATATATAAACTATAT
12352332 CTTAATTTAT
Statistics
Matches: 166, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
32 2 0.01
33 73 0.44
34 3 0.02
35 58 0.35
36 29 0.17
37 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (35 bp):
TATATATAAACTATATATTATATATAGTTCATTAG
Found at i:12352167 original size:18 final size:18
Alignment explanation
Indices: 12352141--12352273 Score: 116
Period size: 18 Copynumber: 7.6 Consensus size: 18
12352131 TATAGTTCAT
12352141 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* **
12352159 CA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
12352174 TAGTATATATAAACTTTA
1 TAGTATATATAAACTATA
12352192 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
12352210 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * **
12352228 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
12352245 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
12352263 TATTATATATA
1 TAGTATATATA
12352274 GTTCATTAGG
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
15 3 0.03
16 8 0.09
17 19 0.22
18 58 0.66
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:12352251 original size:104 final size:104
Alignment explanation
Indices: 12352111--12352306 Score: 299
Period size: 106 Copynumber: 1.9 Consensus size: 104
12352101 ATATGAACTA
*
12352111 TATATAAAAACTATATATTATATAGTTCATTAGTATATATAAACTATACA-T-TATATAGTTCAT
1 TATATAAAAACTATACATTATATAGTTCATTAGTATATATAAACTATACATTATATATAGTTCAT
*
12352174 TA-GTATATATAAACTTTATAGTATATATAAACTATATGG
66 TAGGT-TATATAAACTATATAGTATATATAAACTATATGG
* *
12352213 TATATATAAACTATACATTATATATAGTTCATTAGTATATATAAACTATATATTATATATAGTTC
1 TATATAAAAACTATACA-T-TATATAGTTCATTAGTATATATAAACTATACATTATATATAGTTC
*
12352278 ATTAGGTTATATAAACTATATATTATATA
64 ATTAGGTTATATAAACTATATAGTATATA
12352307 GTTCATTAGT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
102 15 0.18
103 1 0.01
104 31 0.37
105 1 0.01
106 34 0.40
107 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (104 bp):
TATATAAAAACTATACATTATATAGTTCATTAGTATATATAAACTATACATTATATATAGTTCAT
TAGGTTATATAAACTATATAGTATATATAAACTATATGG
Found at i:12352881 original size:111 final size:113
Alignment explanation
Indices: 12352677--12352890 Score: 305
Period size: 111 Copynumber: 1.9 Consensus size: 113
12352667 TTCATCCCAA
* *
12352677 AAACCCTTATTTGATCTTCAGAAACACCAAAACTCAAACCATTTCATGTTTTTTTCTGATCAAAC
1 AAACCATTATTTGATCTTCAGAAACACCAAAACTCAAACCATTTCA-CTTTTTTTCTGATCAAAC
12352742 ACCCAAAAATTCATCTCATGTTCATCCGTGTTCATCCCAGTTCTTCTCC
65 ACCCAAAAATTCATCTCATGTTCATCCGTGTTCATCCCAGTTCTTCTCC
12352791 AAACCATTATTTGATCTTC-GCAAACACCAAAA-TCTAAACCCA-TTC-CTTTTTTTC-GATCAA
1 AAACCATTATTTGATCTTCAG-AAACACCAAAACTC-AAA-CCATTTCACTTTTTTTCTGATCAA
* *
12352851 ACACCCAAAAGTTCATC-CATTGTTCATCCGTGTTCTTCCC
63 ACACCCAAAAATTCATCTCA-TGTTCATCCGTGTTCATCCC
12352891 TAAACCCTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
110 2 0.02
111 41 0.45
112 8 0.09
113 3 0.03
114 35 0.38
115 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (113 bp):
AAACCATTATTTGATCTTCAGAAACACCAAAACTCAAACCATTTCACTTTTTTTCTGATCAAACA
CCCAAAAATTCATCTCATGTTCATCCGTGTTCATCCCAGTTCTTCTCC
Found at i:12353106 original size:6 final size:6
Alignment explanation
Indices: 12353097--12353248 Score: 88
Period size: 6 Copynumber: 25.2 Consensus size: 6
12353087 ACTCGAATCT
* * * * * **
12353097 AACCAA AACCCT AACCTA AACCCA AACCCA AACTCA AACCTA AACTTA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * * *
12353145 AAACCA AACCCTA AACCTA AACCCA AACCCA AACCTA AGCCCA GACCCA
1 AACCCA AACCC-A AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * * * *** * * *
12353194 AACCTA AACTCG AACTCG AACTTT AACCTA AACCCT AACTCA AACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
12353242 AACCCA A
1 AACCCA A
12353249 TCTAAACTTG
Statistics
Matches: 111, Mismatches: 34, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
6 106 0.95
7 5 0.05
ACGTcount: A:0.47, C:0.39, G:0.03, T:0.12
Consensus pattern (6 bp):
AACCCA
Found at i:12353123 original size:18 final size:18
Alignment explanation
Indices: 12353109--12353248 Score: 111
Period size: 18 Copynumber: 7.7 Consensus size: 18
12353099 CCAAAACCCT
* *
12353109 AACCTAAACCCAAACCCA
1 AACCCAAACCCAAACCTA
* * *
12353127 AACTCAAACCTAAACTTA
1 AACCCAAACCCAAACCTA
*
12353145 AAACCAAACCCTAAACCTA
1 AACCCAAACCC-AAACCTA
12353164 AACCCAAACCCAAACCTA
1 AACCCAAACCCAAACCTA
* *
12353182 AGCCCAGACCCAAACCTA
1 AACCCAAACCCAAACCTA
* * * * * *
12353200 AACTCGAACTCGAACTTT
1 AACCCAAACCCAAACCTA
* *
12353218 AACCTAAACCCTAA-CTCA
1 AACCCAAACCCAAACCT-A
12353236 AACCCAAACCCAA
1 AACCCAAACCCAA
12353249 TCTAAACTTG
Statistics
Matches: 91, Mismatches: 29, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
17 1 0.01
18 74 0.81
19 16 0.18
ACGTcount: A:0.46, C:0.39, G:0.03, T:0.12
Consensus pattern (18 bp):
AACCCAAACCCAAACCTA
Found at i:12355104 original size:65 final size:64
Alignment explanation
Indices: 12354976--12355133 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 64
12354966 TTAAATTGAG
*
12354976 CATCGAATGCATTTCATGCATCGATGCACATACCATGCACAGATCCACTAAGGATGTTATGAAAA
1 CATCGAATGCATTTGATGCATCGATGCACATACCATGCACAGATCCACTAAGGATGTTATG-AAA
* * * *
12355041 CATCGAATGCATTTGATGCATCGATGTACCA-ACCATGCATC-GATGCACTCTAGCTAT-TT-TG
1 CATCGAATGCATTTGATGCATCGATGCA-CATACCATGCA-CAGATCCACT-AAG-GATGTTATG
12355102 AAA
62 AAA
* *
12355105 CATCTAATGCACTTGATGCATCGATGCAC
1 CATCGAATGCATTTGATGCATCGATGCAC
12355134 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 1 0.01
64 28 0.35
65 43 0.53
66 7 0.09
67 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (64 bp):
CATCGAATGCATTTGATGCATCGATGCACATACCATGCACAGATCCACTAAGGATGTTATGAAA
Found at i:12363120 original size:65 final size:63
Alignment explanation
Indices: 12363034--12363219 Score: 185
Period size: 65 Copynumber: 2.9 Consensus size: 63
12363024 AATTAAATTG
* * * *
12363034 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGTTGCACTGAGGATGTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTATG-A
* * * * * * *
12363099 AACATCGAATGTATTTGATGCATCGATACACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTATGA
* * * *
12363163 AACATCGAATGCACTTGATGCATCGATGCAC-TCTTAGTGCACCGATGCACTAAGGAT
1 AACATCGAATGCATTTGATGCATCGATGCACAAC-CA-TGCACCGATGCACTCAGGAT
12363220 CCAACAGTCA
Statistics
Matches: 98, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 44 0.45
65 49 0.50
66 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTATGA
Found at i:12363193 original size:17 final size:19
Alignment explanation
Indices: 12363165--12363213 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
12363155 TATTTTGAAA
12363165 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
12363183 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
12363202 CACCGATGCACT
1 CATCGATGCACT
12363214 AAGGATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:12364362 original size:21 final size:21
Alignment explanation
Indices: 12364325--12364405 Score: 117
Period size: 21 Copynumber: 3.8 Consensus size: 21
12364315 GATTGTCCAT
12364325 GGGGTACAGATTCCCCCCCCAG
1 GGGGTACAGATT-CCCCCCCAG
12364347 GGGGTACAGATTCCCCCCCAG
1 GGGGTACAGATTCCCCCCCAG
*
12364368 GGGGTACCGATTCCCCCCCAG
1 GGGGTACAGATTCCCCCCCAG
* * *
12364389 GGTGTACCGAATCCCCC
1 GGGGTACAGATTCCCCC
12364406 TGTCTAACGG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 44 0.79
22 12 0.21
ACGTcount: A:0.17, C:0.41, G:0.27, T:0.15
Consensus pattern (21 bp):
GGGGTACAGATTCCCCCCCAG
Found at i:12365706 original size:19 final size:20
Alignment explanation
Indices: 12365682--12365729 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
12365672 AACGATTTTC
*
12365682 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
12365701 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
12365721 TTTTGAAAA
1 TTTTGAAAA
12365730 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:12367221 original size:21 final size:20
Alignment explanation
Indices: 12367178--12367255 Score: 129
Period size: 20 Copynumber: 3.9 Consensus size: 20
12367168 GATTGTCCAT
12367178 GGGGTACAGATTCCCCCCAG
1 GGGGTACAGATTCCCCCCAG
12367198 GGGGTACAGATTCCCCCCAG
1 GGGGTACAGATTCCCCCCAG
*
12367218 GGGGAACAGATTCCCCCCCAG
1 GGGGTACAGATT-CCCCCCAG
*
12367239 GGGGTACCGATTCCCCC
1 GGGGTACAGATTCCCCC
12367256 TGTCTAACGA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 36 0.67
21 18 0.33
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.14
Consensus pattern (20 bp):
GGGGTACAGATTCCCCCCAG
Found at i:12367243 original size:41 final size:40
Alignment explanation
Indices: 12367178--12367255 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 40
12367168 GATTGTCCAT
*
12367178 GGGGTACAGATTCCCCCCAGGGGGTACAGATTCCCCCCAG
1 GGGGAACAGATTCCCCCCAGGGGGTACAGATTCCCCCCAG
*
12367218 GGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCCC
1 GGGGAACAGATT-CCCCCCAGGGGGTACAGATTCCCCC
12367256 TGTCTAACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 11 0.31
41 24 0.69
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.14
Consensus pattern (40 bp):
GGGGAACAGATTCCCCCCAGGGGGTACAGATTCCCCCCAG
Found at i:12368215 original size:3 final size:3
Alignment explanation
Indices: 12368207--12368234 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12368197 CACCTTATGG
12368207 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
12368235 GTCCAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:12369052 original size:20 final size:20
Alignment explanation
Indices: 12369029--12369072 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
12369019 TTCTGTTTTA
* *
12369029 TTCTGTTTTATATTGTTTGC
1 TTCTGTTTAATATTGCTTGC
12369049 TTCTGTTTAATATTGCTTGC
1 TTCTGTTTAATATTGCTTGC
12369069 TTCT
1 TTCT
12369073 ACTTGATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.14, T:0.61
Consensus pattern (20 bp):
TTCTGTTTAATATTGCTTGC
Found at i:12369081 original size:20 final size:20
Alignment explanation
Indices: 12369038--12369082 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12369028 ATTCTGTTTT
* **
12369038 ATATTGTTTGCTTCTGTTTA
1 ATATTGCTTGCTTCTACTTA
*
12369058 ATATTGCTTGCTTCTACTTG
1 ATATTGCTTGCTTCTACTTA
12369078 ATATT
1 ATATT
12369083 TGTAAGGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.56
Consensus pattern (20 bp):
ATATTGCTTGCTTCTACTTA
Found at i:12369199 original size:23 final size:22
Alignment explanation
Indices: 12369169--12369213 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
12369159 TGCTTTCTTA
*
12369169 ATGCATGATGCTTTCTGAATTG
1 ATGCATGATGCTTGCTGAATTG
*
12369191 ATGCAATGATGGTTGCTGAATTG
1 ATGC-ATGATGCTTGCTGAATTG
12369214 GTACATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (22 bp):
ATGCATGATGCTTGCTGAATTG
Found at i:12369223 original size:23 final size:23
Alignment explanation
Indices: 12369173--12369224 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
12369163 TTCTTAATGC
* *
12369173 ATGATGCTTTCTGAATTGATGCA
1 ATGATGCTTGCTGAATTGATACA
* *
12369196 ATGATGGTTGCTGAATTGGTACA
1 ATGATGCTTGCTGAATTGATACA
*
12369219 TTGATG
1 ATGATG
12369225 ATTGTCGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (23 bp):
ATGATGCTTGCTGAATTGATACA
Found at i:12369824 original size:13 final size:13
Alignment explanation
Indices: 12369805--12369842 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
12369795 TAATTTAGTG
12369805 ATTATAAATAA-A
1 ATTATAAATAAGA
12369817 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
12369832 ATTATAAATAA
1 ATTATAAATAA
12369843 TATAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:12371604 original size:41 final size:40
Alignment explanation
Indices: 12371479--12371615 Score: 133
Period size: 41 Copynumber: 3.5 Consensus size: 40
12371469 TTGAAACAAC
*
12371479 TATA-ATATATATA-TATATA-TATATATATA-TATATAG
1 TATATATATATATATTATATACTATATATAAACTATATAG
* *
12371515 TTTATATATAAAGTATATATATTA-TATATATAAACTATATAG
1 TATATATATATA-TAT-TATA-TACTATATATAAACTATATAG
* * *
12371557 TTTATATTTATATTATTATATACTATATATAAGCTATATTA-
1 TATATATATATA-TATTATATACTATATATAAACTATA-TAG
12371598 TATATATATATATATTAT
1 TATATATATATATATTAT
12371616 GCATAAATTA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.04
37 6 0.07
38 2 0.02
40 12 0.14
41 39 0.46
42 22 0.26
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (40 bp):
TATATATATATATATTATATACTATATATAAACTATATAG
Found at i:12371631 original size:2 final size:2
Alignment explanation
Indices: 12371479--12371612 Score: 118
Period size: 2 Copynumber: 67.5 Consensus size: 2
12371469 TTGAAACAAC
*
12371479 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
12371521 TA TA AA GTA TA TA TA T- TA TA TA TA TA AA CTA TA TA GTT TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* **
12371563 TT TA TA T- TA T- TA TA TA CTA TA TA TA -A GC TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
12371602 TA TA TA TA TA T
1 TA TA TA TA TA T
12371613 TATGCATAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
1 6 0.06
2 96 0.89
3 6 0.06
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:12371668 original size:94 final size:96
Alignment explanation
Indices: 12371492--12371680 Score: 228
Period size: 94 Copynumber: 2.0 Consensus size: 96
12371482 AATATATATA
* *
12371492 TATATATATATATATATATATAGTTTATATATAAAGTATATATATTATATATATAAACTATATAG
1 TATATATATATATATATATATAG-TTATACATAAAGTATATATATTACATATATAAACTATATAG
* * *
12371557 TTTATATTTATATTATTATATACTATATATAAGC
65 TTCATATTGATACTATTA-A-ACTATATATAAGC
* *
12371591 TATAT-TATATATATATATATA-TTATGCATAAA-T-TATATA-TACCATGTATAAACTATATAG
1 TATATATATATATATATATATAGTTATACATAAAGTATATATATTA-CATATATAAACTATATAG
12371651 TTCATATATGA-ACTATTAAACTATATATAA
65 TTCATAT-TGATACTATTAAACTATATATAA
12371681 ACTACATAGT
Statistics
Matches: 81, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
92 11 0.14
93 3 0.04
94 34 0.42
95 3 0.04
96 9 0.11
98 16 0.20
99 5 0.06
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (96 bp):
TATATATATATATATATATATAGTTATACATAAAGTATATATATTACATATATAAACTATATAGT
TCATATTGATACTATTAAACTATATATAAGC
Found at i:12371701 original size:22 final size:22
Alignment explanation
Indices: 12371675--12371716 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12371665 ATTAAACTAT
12371675 ATATAAACTACATAGTTTATTA
1 ATATAAACTACATAGTTTATTA
* *
12371697 ATATAAATTATATAGTTTAT
1 ATATAAACTACATAGTTTAT
12371717 ATATGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATAAACTACATAGTTTATTA
Found at i:12371765 original size:17 final size:17
Alignment explanation
Indices: 12371745--12371840 Score: 68
Period size: 17 Copynumber: 5.3 Consensus size: 17
12371735 CTATACAATT
* *
12371745 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
12371762 TATAATTATAAATAATA
1 TATATTTATAAATTATA
12371779 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
*
12371797 TAGTTTATTAATATAAACTATA
1 TA---TATT--TATAAATTATA
*
12371819 TA-ATTTATATATATATA
1 TATATTTATAAAT-TATA
12371836 TATAT
1 TATAT
12371841 GGTTTAGGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
16 5 0.08
17 24 0.39
18 17 0.27
21 4 0.06
22 12 0.19
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:12371796 original size:79 final size:80
Alignment explanation
Indices: 12371695--12371841 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
12371685 CATAGTTTAT
** *
12371695 TAATATAAATTATATAGTTTATATA-TGAATTATATATAAACTATACAATTTATATTTATATAT-
1 TAATATAAATTATATAAATTATATAGTGAATTA-ATATAAACTATACAATTTATATATATATATA
12371758 TATGTATAATTATAAA
65 TATGTATAATTATAAA
* * ** *
12371774 TAATATATATTGTATAAATTATATAGTTTATTAATATAAACTATATAATTTATATATATATATAT
1 TAATATAAATTATATAAATTATATAGTGAATTAATATAAACTATACAATTTATATATATATATAT
12371839 ATG
66 ATG
12371842 GTTTAGGGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 49 0.84
80 9 0.16
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (80 bp):
TAATATAAATTATATAAATTATATAGTGAATTAATATAAACTATACAATTTATATATATATATAT
ATGTATAATTATAAA
Found at i:12371818 original size:22 final size:24
Alignment explanation
Indices: 12371773--12371835 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 24
12371763 ATAATTATAA
* * *
12371773 ATAATATATAT-TGTATAAATTAT
1 ATAATTTATATATATATAAACTAT
*
12371796 ATAGTTTAT-TA-ATATAAACTAT
1 ATAATTTATATATATATAAACTAT
12371818 ATAATTTATATATATATA
1 ATAATTTATATATATATA
12371836 TATATGGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 18 0.56
23 9 0.28
24 5 0.16
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
ATAATTTATATATATATAAACTAT
Found at i:12371831 original size:20 final size:20
Alignment explanation
Indices: 12371488--12371730 Score: 85
Period size: 20 Copynumber: 12.3 Consensus size: 20
12371478 CTATAATATA
* *
12371488 TATATATATATATATATATA-
1 TATATA-ATTTATATATAAAC
* *
12371508 TATATAGTTTATATATAAAG
1 TATATAATTTATATATAAAC
12371528 TATATATATTATATATATAAAC
1 TATATA-ATT-TATATATAAAC
* * * *
12371550 TATATAGTTTATATTTATAT
1 TATATAATTTATATATAAAC
* *
12371570 TAT-TATATACTATATATAAGC
1 TATATA-AT-TTATATATAAAC
*
12371591 --TAT-A-TTATATATATA-
1 TATATAATTTATATATAAAC
** *
12371606 TATAT-A-TTATGCATAAAT
1 TATATAATTTATATATAAAC
** *
12371624 TATAT-ATACCATGTATAAAC
1 TATATAAT-TTATATATAAAC
* * *
12371644 TATATAGTTCATATATGAAC
1 TATATAATTTATATATAAAC
**
12371664 TAT-TAAACTATATATAAAC
1 TATATAATTTATATATAAAC
* * *
12371683 TACATAGTTTATTAATATAAAT
1 TATATAATTTA-T-ATATAAAC
* * *
12371705 TATATAGTTTATATATGAAT
1 TATATAATTTATATATAAAC
12371725 TATATA
1 TATATA
12371731 TAAACTATAC
Statistics
Matches: 167, Mismatches: 41, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
16 8 0.05
17 12 0.07
18 7 0.04
19 26 0.16
20 67 0.40
21 14 0.08
22 33 0.20
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATAATTTATATATAAAC
Found at i:12371998 original size:33 final size:33
Alignment explanation
Indices: 12371943--12372041 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 33
12371933 AACTTATATT
* *
12371943 ATATGTAAACTA--TATATACTATATAGTTTAC
1 ATATATAAACTATGTATAAACTATATAGTTTAC
*** *
12371974 ATAT-TAATTA-TATGTATAAACTATATAAACTAT
1 ATATATAA--ACTATGTATAAACTATATAGTTTAC
12372007 ATATATAAACTATG--TAAACTATATAGTTTAC
1 ATATATAAACTATGTATAAACTATATAGTTTAC
12372038 ATAT
1 ATAT
12372042 GACCTATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
30 3 0.06
31 23 0.43
32 2 0.04
33 22 0.42
34 3 0.06
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (33 bp):
ATATATAAACTATGTATAAACTATATAGTTTAC
Found at i:12372011 original size:13 final size:13
Alignment explanation
Indices: 12371995--12372019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12371985 ATGTATAAAC
12371995 TATATAAACTATA
1 TATATAAACTATA
12372008 TATATAAACTAT
1 TATATAAACTAT
12372020 GTAAACTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATAAACTATA
Found at i:12372031 original size:22 final size:22
Alignment explanation
Indices: 12371942--12372031 Score: 87
Period size: 22 Copynumber: 4.2 Consensus size: 22
12371932 TAACTTATAT
* *
12371942 TATATGTAAACTATATATACTA
1 TATATATAAACTATATAAACTA
* * *
12371964 TATAGT-T-TAC-ATATTAATTA
1 TATA-TATAAACTATATAAACTA
*
12371984 TATGTATAAACTATATAAACTA
1 TATATATAAACTATATAAACTA
*
12372006 TATATATAAACTATGTAAACTA
1 TATATATAAACTATATAAACTA
12372028 TATA
1 TATA
12372032 GTTTACATAT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.02
20 11 0.20
21 4 0.07
22 37 0.69
23 1 0.02
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (22 bp):
TATATATAAACTATATAAACTA
Found at i:12372074 original size:26 final size:26
Alignment explanation
Indices: 12372026--12372110 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
12372016 CTATGTAAAC
* *
12372026 TATATAGTTTACATA-TGACCTATATA
1 TATATAGTTTA-TTAGTGAACTATATA
12372052 TATATAGTTTATTAGTGAACTATATA
1 TATATAGTTTATTAGTGAACTATATA
*
12372078 -A-ACTA-TTTATATAGTATATACTATATA
1 TATA-TAGTTTAT-TAGT-GA-ACTATATA
12372105 TATATA
1 TATATA
12372111 ATATAGTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
24 6 0.12
25 9 0.18
26 22 0.45
27 8 0.16
28 3 0.06
29 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (26 bp):
TATATAGTTTATTAGTGAACTATATA
Found at i:12372097 original size:7 final size:6
Alignment explanation
Indices: 12372085--12372198 Score: 67
Period size: 7 Copynumber: 18.3 Consensus size: 6
12372075 ATAAACTATT
* * *
12372085 TATATA GTATATA CTATATA TATATA -ATATA GTTTATA TTTATA TACTACA
1 TATATA -TATATA -TATATA TATATA TATATA -TATATA TATATA TA-TATA
* *
12372136 TAT-TA TAGT-TGA TATTTA TATAT- TATATA T-TATA TATATA AACTATA
1 TATATA TA-TAT-A TATATA TATATA TATATA TATATA TATATA TA-TATA
12372183 TAGTATA TATAGTA TA
1 TA-TATA TATA-TA TA
12372199 ATTTACATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
5 18 0.20
6 30 0.34
7 40 0.45
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (6 bp):
TATATA
Found at i:12372100 original size:18 final size:17
Alignment explanation
Indices: 12372072--12372193 Score: 80
Period size: 18 Copynumber: 7.4 Consensus size: 17
12372062 ATTAGTGAAC
*
12372072 TATATAAACTATTTATA
1 TATATATACTATTTATA
*
12372089 TAGTATATACTATATATA
1 TA-TATATACTATTTATA
12372107 TATA-ATA-TAGTTTATA
1 TATATATACTA-TTTATA
* **
12372123 TTTATATACTACATAT-
1 TATATATACTATTTATA
12372139 TATAGT-TGA-TATTTATA
1 TATA-TAT-ACTATTTATA
12372156 TAT-TATA-TA-TTATA
1 TATATATACTATTTATA
* *
12372170 TATATAAACTATATAGTA
1 TATATATACTATTTA-TA
12372188 TATATA
1 TATATA
12372194 GTATAATTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
14 8 0.10
15 9 0.11
16 23 0.28
17 17 0.21
18 25 0.30
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (17 bp):
TATATATACTATTTATA
Found at i:12372115 original size:27 final size:27
Alignment explanation
Indices: 12372085--12372191 Score: 57
Period size: 27 Copynumber: 4.0 Consensus size: 27
12372075 ATAAACTATT
12372085 TATATAGTATATACTATATA-TATAT-A
1 TATATAGT-TATACTATATAGTATATAA
*
12372111 -ATATAGTT-TA-TATTTA-TATACTACA
1 TATATAGTTATACTATATAGTATA-TA-A
* * *
12372136 TATTATAGTTGATATTTATATATTATATAT
1 TA-TATAGTT-ATA-CTATATAGTATATAA
*
12372166 TATATA-TATAAACTATATAGTATATA
1 TATATAGT-TATACTATATAGTATATA
12372192 TAGTATAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
22 9 0.14
23 3 0.05
24 1 0.02
25 8 0.12
26 1 0.02
27 19 0.30
28 3 0.05
29 7 0.11
30 2 0.03
31 7 0.11
32 4 0.06
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (27 bp):
TATATAGTTATACTATATAGTATATAA
Found at i:12372156 original size:47 final size:47
Alignment explanation
Indices: 12372100--12372189 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
12372090 AGTATATACT
* * *
12372100 ATATATATATAATATAGT-TTATATTTATATACTACATATTATAGTTG
1 ATATATATATAATATA-TATTATATATATAAACTACATAGTATAGTTG
* * *
12372147 ATATTTATATATTATATATTATATATATAAACTATATAGTATA
1 ATATATATATAATATATATTATATATATAAACTACATAGTATA
12372190 TATAGTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 1 0.03
47 35 0.97
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (47 bp):
ATATATATATAATATATATTATATATATAAACTACATAGTATAGTTG
Found at i:12372192 original size:20 final size:19
Alignment explanation
Indices: 12372072--12372560 Score: 135
Period size: 20 Copynumber: 24.2 Consensus size: 19
12372062 ATTAGTGAAC
12372072 TATATAAACTAT-T-TATA
1 TATATAAACTATATATATA
*
12372089 TAGTATATACTATATATATA
1 TA-TATAAACTATATATATA
* * * *
12372109 TA-ATATAGTTTATATTTA
1 TATATAAACTATATATATA
*
12372127 TATACTACA-TATTATAGTTGATA
1 TATA-TAAACTA-TATA--T-ATA
* * *
12372150 TTTATATATTATATATTATA
1 TATATAAACTATATA-TATA
12372170 TATATAAACTATATAGTATA
1 TATATAAACTATATA-TATA
* *
12372190 TATAGTATAATTTACATTTGAACTATA
1 TATA-TA-AA-CT--ATAT--A-TATA
* *
12372217 TATAAAAACTATATAAACTA
1 TATATAAACTATATATA-TA
* * *
12372237 TATACTATAGT-TGATATTTA
1 TATA-TAAACTAT-ATATATA
*
12372257 TATATAAATTATATAGT-TGA
1 TATATAAACTATATA-TAT-A
*
12372277 TATATAAACTATATATAAA
1 TATATAAACTATATATATA
* *
12372296 CTGTAGTAAAACTATATAGTTTA
1 -TATA-T-AAACTATATA-TATA
**
12372319 TATACGAACTATAGT-T-TA
1 TATATAAACTATA-TATATA
* *
12372337 CATATGAACTATATATATAAA
1 TATATAAACTATATATAT--A
12372358 CTATATAAACTATATAGT-TCA
1 -TATATAAACTATATA-TAT-A
* *
12372379 CATATGAACTATATATATA
1 TATATAAACTATATATATA
* *
12372398 GTTTATTAGTGAACTATATAAACTA
1 ---TA-TA-TAAACTATATATA-TA
* * * *
12372423 TTTATATAGTATATACTACA
1 TATATAAACTATATA-TATA
*
12372443 TATATAAACTATAGTTTATA
1 TATATAAACTATA-TATATA
* *
12372463 TTTATATACTATATAT-TA
1 TATATAAACTATATATATA
*
12372481 TATATATAATTATATACTATA
1 TATATA-AACTATATA-TATA
*
12372502 TAT-TATA-TATATA-AT-
1 TATATAAACTATATATATA
*
12372517 TATATACTA-TATATTATATA
1 TATATA-AACTATA-TATATA
12372537 TATATAAACTATATATACTA
1 TATATAAACTATATATA-TA
12372557 TATA
1 TATA
12372561 GTATAATTTA
Statistics
Matches: 355, Mismatches: 63, Indels: 105
0.68 0.12 0.20
Matches are distributed among these distances:
15 3 0.01
16 4 0.01
17 9 0.03
18 53 0.15
19 35 0.10
20 143 0.40
21 23 0.06
22 42 0.12
23 13 0.04
24 13 0.04
25 7 0.02
26 1 0.00
27 9 0.03
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.44
Consensus pattern (19 bp):
TATATAAACTATATATATA
Found at i:12372290 original size:11 final size:11
Alignment explanation
Indices: 12372276--12372313 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12372266 TATATAGTTG
12372276 ATATATAAACT
1 ATATATAAACT
12372287 ATATATAAACT
1 ATATATAAACT
*
12372298 GTAGTA-AAACT
1 ATA-TATAAACT
12372309 ATATA
1 ATATA
12372314 GTTTATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (11 bp):
ATATATAAACT
Found at i:12372332 original size:60 final size:59
Alignment explanation
Indices: 12372268--12372391 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 59
12372258 ATATAAATTA
* * * *
12372268 TATAGTTGATATATAAAC-TATATATAAACTGTAGTAAAACTATATAGTTTATATACGAAC
1 TATAGTTGACATATAAACATATATATAAACTATA-T-AAACTATATAGTTCACATACGAAC
* * *
12372328 TATAGTTTACATATGAACTATATATATAAACTATATAAACTATATAGTTCACATATGAAC
1 TATAGTTGACATATAAAC-ATATATATAAACTATATAAACTATATAGTTCACATACGAAC
12372388 TATA
1 TATA
12372392 TATATAGTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 40 0.73
61 1 0.02
62 14 0.25
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (59 bp):
TATAGTTGACATATAAACATATATATAAACTATATAAACTATATAGTTCACATACGAAC
Found at i:12372333 original size:18 final size:18
Alignment explanation
Indices: 12372310--12372349 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12372300 AGTAAAACTA
*
12372310 TATAGTTTATATACGAAC
1 TATAGTTTACATACGAAC
*
12372328 TATAGTTTACATATGAAC
1 TATAGTTTACATACGAAC
12372346 TATA
1 TATA
12372350 TATATAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (18 bp):
TATAGTTTACATACGAAC
Found at i:12372354 original size:42 final size:41
Alignment explanation
Indices: 12372308--12372403 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
12372298 GTAGTAAAAC
*
12372308 TATATAGTTTATATACGAAC-TATAGTTTACATATGAACTATA
1 TATATAGTTTATATA--AACATATAGTTCACATATGAACTATA
***
12372350 TATATAAACTATATAAACTATATAGTTCACATATGAACTATA
1 TATATAGTTTATATAAAC-ATATAGTTCACATATGAACTATA
12372392 TATATAGTTTAT
1 TATATAGTTTAT
12372404 TAGTGAACTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
40 3 0.07
42 42 0.93
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (41 bp):
TATATAGTTTATATAAACATATAGTTCACATATGAACTATA
Found at i:12372355 original size:24 final size:24
Alignment explanation
Indices: 12372328--12372417 Score: 70
Period size: 24 Copynumber: 4.0 Consensus size: 24
12372318 ATATACGAAC
12372328 TATAGTTTACATATGAACTATATA
1 TATAGTTTACATATGAACTATATA
* *
12372352 TATA---AACTATAT-AA--A-CTA
1 TATAGTTTAC-ATATGAACTATATA
*
12372370 TATAGTTCACATATGAACTATATA
1 TATAGTTTACATATGAACTATATA
*
12372394 TATAGTTTA-TTAGTGAACTATATA
1 TATAGTTTACATA-TGAACTATATA
12372418 AACTATTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
18 6 0.12
19 1 0.02
20 4 0.08
21 8 0.16
22 4 0.08
23 3 0.06
24 25 0.49
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (24 bp):
TATAGTTTACATATGAACTATATA
Found at i:12372426 original size:24 final size:25
Alignment explanation
Indices: 12372383--12372432 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
12372373 AGTTCACATA
*
12372383 TGAACTATATATATAGTTTAT-TAG
1 TGAACTATATAAATAGTTTATATAG
12372407 TGAACTATATAAACTA-TTTATATAG
1 TGAACTATATAAA-TAGTTTATATAG
12372432 T
1 T
12372433 ATATACTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (25 bp):
TGAACTATATAAATAGTTTATATAG
Found at i:12372430 original size:2 final size:2
Alignment explanation
Indices: 12372425--12372565 Score: 98
Period size: 2 Copynumber: 69.0 Consensus size: 2
12372415 ATAAACTATT
* * * *
12372425 TA TA TA GTA TA TA CTA CA TA TA TA AA CTA TA GTT TA TA TT TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
12372469 TA CTA TA TA T- TA TA TA TA TA -A T- TA TA TA CTA TA TA T- TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
12372509 TA TA TA -A T- TA TA TA CTA TA TA T- TA TA TA TA TA TA AA CTA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
12372550 TA TA CTA TA TA GTA TA
1 TA TA -TA TA TA -TA TA
12372566 ATTTACATTT
Statistics
Matches: 112, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
1 7 0.06
2 88 0.79
3 17 0.15
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12372495 original size:26 final size:26
Alignment explanation
Indices: 12372459--12372568 Score: 156
Period size: 26 Copynumber: 4.3 Consensus size: 26
12372449 AACTATAGTT
*
12372459 TATATTTATATACTATATATTATATA
1 TATAATTATATACTATATATTATATA
12372485 TATAATTATATACTATATATTATATA
1 TATAATTATATACTATATATTATATA
12372511 TATAATTATATACTATATATTATATA
1 TATAATTATATACTATATATTATATA
12372537 TAT-A-TA-A-ACTATATATACTATATA
1 TATAATTATATACTATATAT--TATATA
12372561 GTATAATT
1 -TATAATT
12372569 TACATTTGAA
Statistics
Matches: 78, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
22 9 0.12
23 1 0.01
24 8 0.10
25 4 0.05
26 55 0.71
27 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (26 bp):
TATAATTATATACTATATATTATATA
Found at i:12372558 original size:7 final size:7
Alignment explanation
Indices: 12372425--12372565 Score: 82
Period size: 7 Copynumber: 20.6 Consensus size: 7
12372415 ATAAACTATT
*
12372425 TATATAG
1 TATATAC
12372432 TATATAC
1 TATATAC
*
12372439 TACATA-
1 TATATAC
*
12372445 TATAAAC
1 TATATAC
*
12372452 TATAGT-T
1 TATA-TAC
*
12372459 TATAT-T
1 TATATAC
12372465 TATATAC
1 TATATAC
*
12372472 TATATAT
1 TATATAC
12372479 TATATA-
1 TATATAC
*
12372485 TATA-AT
1 TATATAC
12372491 TATATAC
1 TATATAC
*
12372498 TATATAT
1 TATATAC
12372505 TATATA-
1 TATATAC
*
12372511 TATA-AT
1 TATATAC
12372517 TATATAC
1 TATATAC
*
12372524 TATATAT
1 TATATAC
12372531 TATATA-
1 TATATAC
12372537 TATATAAAC
1 TATAT--AC
12372546 TATATATAC
1 --TATATAC
*
12372555 TATATAG
1 TATATAC
12372562 TATA
1 TATA
12372566 ATTTACATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
5 2 0.02
6 32 0.29
7 67 0.61
8 1 0.01
9 2 0.02
11 5 0.05
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (7 bp):
TATATAC
Found at i:12372614 original size:18 final size:18
Alignment explanation
Indices: 12372593--12372704 Score: 65
Period size: 18 Copynumber: 6.2 Consensus size: 18
12372583 ATATAAAAAC
12372593 TATATAAACTATAGTTTA
1 TATATAAACTATAGTTTA
* *
12372611 TATACT-AACTAGATTTTA
1 TATA-TAAACTATAGTTTA
*
12372629 CATATAAACTATAGTTGATA
1 TATATAAACTATAGTT--TA
*
12372649 TTTACCTATGAACTATAGTTTA
1 --TA--TATAAACTATAGTTTA
* *
12372671 CATATGAAC--TA---TA
1 TATATAAACTATAGTTTA
12372684 TATATAAACTATAGTTTA
1 TATATAAACTATAGTTTA
12372702 TAT
1 TAT
12372705 TTATATACTA
Statistics
Matches: 71, Mismatches: 10, Indels: 26
0.66 0.09 0.24
Matches are distributed among these distances:
13 9 0.13
15 2 0.03
16 2 0.03
17 1 0.01
18 37 0.52
19 1 0.01
20 3 0.04
22 3 0.04
24 13 0.18
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TATATAAACTATAGTTTA
Found at i:12372703 original size:20 final size:20
Alignment explanation
Indices: 12372680--12372762 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
12372670 ACATATGAAC
12372680 TATATATATAAACTATAGTT
1 TATATATATAAACTATAGTT
12372700 TATATTTATATACTACGTACTATAGTT
1 TATA--TATATA--A---ACTATAGTT
* *
12372727 TATATTTATATACTATA-TAT
1 TATATATATAAACTATAGT-T
12372747 TATATATATAAACTAT
1 TATATATATAAACTAT
12372763 TTATACTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
19 1 0.02
20 25 0.49
22 6 0.12
24 1 0.02
25 5 0.10
27 13 0.25
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (20 bp):
TATATATATAAACTATAGTT
Found at i:12372750 original size:27 final size:27
Alignment explanation
Indices: 12372680--12372750 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
12372670 ACATATGAAC
*
12372680 TATATA-TATAAACTATAGTTTATATT
1 TATATACTATATACTATAGTTTATATT
**
12372706 TATATACTACGTACTATAGTTTATATT
1 TATATACTATATACTATAGTTTATATT
*
12372733 TATATACTATATATTATA
1 TATATACTATATACTATA
12372751 TATATAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 6 0.16
27 32 0.84
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (27 bp):
TATATACTATATACTATAGTTTATATT
Found at i:12372839 original size:27 final size:27
Alignment explanation
Indices: 12372809--12372880 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
12372799 ATAAAAACCA
* *
12372809 TATAAACTATATACTATAGTTGATATT
1 TATAAACTATATACTATAATTGATACT
* * *
12372836 TATATACTATATAATATAATTTATACT
1 TATAAACTATATACTATAATTGATACT
*
12372863 TATATAA-TTTATACTATA
1 TATA-AACTATATACTATA
12372881 TAAATTCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (27 bp):
TATAAACTATATACTATAATTGATACT
Found at i:12372847 original size:47 final size:47
Alignment explanation
Indices: 12372717--12372849 Score: 108
Period size: 56 Copynumber: 2.6 Consensus size: 47
12372707 ATATACTACG
* * * *
12372717 TACTATAGTTTATATTTATATACTATATATTATATATATAAACTATTTA
1 TACTATAGTTGATATTTATATACTATATA-AAAACATATAAACTA-TTA
*
12372766 TACTATA-TAGTATAATTTCCATATGAACTATATATAAAAACCATATAAACTA-TA
1 TACTATAGTTG-AT-ATTT--ATAT--AC--TATATAAAAA-CATATAAACTATTA
12372820 TACTATAGTTGATATTTATATACTATATAA
1 TACTATAGTTGATATTTATATACTATATAA
12372850 TATAATTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
47 7 0.10
48 1 0.01
49 11 0.16
50 4 0.06
51 4 0.06
52 4 0.06
53 4 0.06
54 13 0.19
55 4 0.06
56 16 0.24
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (47 bp):
TACTATAGTTGATATTTATATACTATATAAAAACATATAAACTATTA
Found at i:12372869 original size:15 final size:14
Alignment explanation
Indices: 12372849--12372883 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
12372839 ATACTATATA
12372849 ATATAATTTATACTT
1 ATATAATTTATAC-T
12372864 ATATAATTTATACT
1 ATATAATTTATACT
12372878 ATATAA
1 ATATAA
12372884 ATTCAAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATTTATACT
Found at i:12373007 original size:19 final size:20
Alignment explanation
Indices: 12372965--12373009 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12372955 ATTTACTACA
*
12372965 TATATAGTTTATATGTATAC
1 TATATAGTTCATATGTATAC
12372985 TATATAGTTACATATG-A-AC
1 TATATAGTT-CATATGTATAC
12373004 TATATA
1 TATATA
12373010 TAAAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 10 0.43
21 5 0.22
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (20 bp):
TATATAGTTCATATGTATAC
Found at i:12373019 original size:13 final size:13
Alignment explanation
Indices: 12373001--12373034 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12372991 GTTACATATG
12373001 AACTATATATAAA
1 AACTATATATAAA
*
12373014 AACTATATATATA
1 AACTATATATAAA
*
12373027 AAGTATAT
1 AACTATAT
12373035 GGTATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (13 bp):
AACTATATATAAA
Found at i:12373042 original size:18 final size:18
Alignment explanation
Indices: 12373019--12373214 Score: 160
Period size: 18 Copynumber: 11.3 Consensus size: 18
12373009 ATAAAAACTA
* *
12373019 TATATATAAAGTATATGG
1 TATATATAAACTATATAG
* * *
12373037 TATATACAAACTTTTTA-
1 TATATATAAACTATATAG
**
12373054 T-TATAT-AGTTAT-TAG
1 TATATATAAACTATATAG
12373069 TATATATAAACTATATAG
1 TATATATAAACTATATAG
*
12373087 TATATATAAACTATACA-
1 TATATATAAACTATATAG
**
12373104 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
12373120 TATATATAAACTATATAG
1 TATATATAAACTATATAG
*
12373138 TATATATAAACTATATGG
1 TATATATAAACTATATAG
* *
12373156 TATATATAAACTATACAT
1 TATATATAAACTATATAG
**
12373174 TATATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
*
12373191 TATATATAAACTATATAT
1 TATATATAAACTATATAG
12373209 TATATA
1 TATATA
12373215 GTTCATTACG
Statistics
Matches: 138, Mismatches: 28, Indels: 24
0.73 0.15 0.13
Matches are distributed among these distances:
14 2 0.01
15 7 0.05
16 17 0.12
17 25 0.18
18 87 0.63
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (18 bp):
TATATATAAACTATATAG
Found at i:12373091 original size:32 final size:31
Alignment explanation
Indices: 12373006--12373092 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 31
12372996 ATATGAACTA
* *
12373006 TATATAAAAACTATATATATAAAGTATATGG
1 TATATAAAAACTATATATATATAGTATATAG
* * *
12373037 TATATACAAACTTTTTATTATATAGT-TATTAG
1 TATATAAAAACTATATA-TATATAGTATA-TAG
*
12373069 TATATATAAACTATATAGTATATA
1 TATATAAAAACTATATA-TATATA
12373093 TAAACTATAC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
31 16 0.36
32 29 0.64
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (31 bp):
TATATAAAAACTATATATATATAGTATATAG
Found at i:12373126 original size:33 final size:33
Alignment explanation
Indices: 12373084--12373276 Score: 246
Period size: 33 Copynumber: 5.7 Consensus size: 33
12373074 ATAAACTATA
*
12373084 TAGTATATATAAACTATACATTATATAGTTCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
**
12373117 TAGTATATATAAACTATATAGTATATATA-AACTAT
1 TAGTATATATAAACTATATA-T-TATATAGTTC-AT
* *
12373152 ATGGTATATATAAACTATACATTATATATAGTTCAT
1 -TAGTATATATAAACTATATA-T-TATATAGTTCAT
12373188 TAGTATATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
*
12373221 TACGT-TATATAAACGATATATTATATAGTTCAT
1 TA-GTATATATAAACTATATATTATATAGTTCAT
*
12373254 TAGTATATATAACCTATATATTA
1 TAGTATATATAAACTATATATTA
12373277 ATTTATTAAT
Statistics
Matches: 140, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
32 2 0.01
33 78 0.56
34 5 0.04
35 26 0.19
36 28 0.20
37 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (33 bp):
TAGTATATATAAACTATATATTATATAGTTCAT
Found at i:12373846 original size:112 final size:113
Alignment explanation
Indices: 12373629--12373848 Score: 243
Period size: 112 Copynumber: 2.0 Consensus size: 113
12373619 AAAACCCTCC
*
12373629 TTTGATCTTTAAAAACACCAAAACCCAAACCATTTCGTGTTTTTTCCGATCAAACACCCAAAAAT
1 TTTGATCTTTAAAAACACCAAAACCCAAACCATTTCGTATTTTTTCCGATCAAACACCCAAAAAT
** ** *
12373694 TCATCTCGTGTTCATCTGTGTTCAACCCAATTCTTCTACAAACCATTA
66 TCATCTCGTGTTCATCTACGTTCAACCCAAACCCTCTACAAACCATTA
* * *
12373742 TTTGATC-TTACAAAA-ACCAAAACCTAAACCCA-TTCTTATTTTTTTCGATCAAACACCCAAAA
1 TTTGATCTTTA-AAAACACCAAAACCCAAA-CCATTTCGTATTTTTTCCGATCAAACACCCAAAA
* * * **
12373804 GTTCTTC-CATTGTTCATCTACGTTCTTCCCCAAACCCT-TACAAAC
64 ATTCATCTC-GTGTTCATCTACGTTC-AACCCAAACCCTCTACAAAC
12373849 ACCCAAAACA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
111 1 0.01
112 67 0.75
113 21 0.24
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.33
Consensus pattern (113 bp):
TTTGATCTTTAAAAACACCAAAACCCAAACCATTTCGTATTTTTTCCGATCAAACACCCAAAAAT
TCATCTCGTGTTCATCTACGTTCAACCCAAACCCTCTACAAACCATTA
Found at i:12374064 original size:6 final size:6
Alignment explanation
Indices: 12374035--12374115 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
12374025 ACCTTAATTC
* * * * *
12374035 AAACCT -AACCA AAACACT -AACCT AAACCT AAACCC ACACCC GAACCT
1 AAACCT AAACCT AAAC-CT AAACCT AAACCT AAACCT AAACCT AAACCT
* * *
12374082 AAACCC AGACCC AAACCT AAATCC- AAACCT AAAC
1 AAACCT AAACCT AAACCT AAA-CCT AAACCT AAAC
12374116 TTGAACTCAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
5 8 0.14
6 47 0.81
7 3 0.05
ACGTcount: A:0.48, C:0.40, G:0.02, T:0.10
Consensus pattern (6 bp):
AAACCT
Found at i:12374068 original size:12 final size:12
Alignment explanation
Indices: 12374034--12374155 Score: 70
Period size: 12 Copynumber: 10.2 Consensus size: 12
12374024 AACCTTAATT
12374034 CAAACCT-AACC
1 CAAACCTAAACC
*
12374045 AAAACACT-AACC
1 CAAAC-CTAAACC
*
12374057 TAAACCTAAACC
1 CAAACCTAAACC
* **
12374069 CACACCCGAACC
1 CAAACCTAAACC
* * *
12374081 TAAACCCAGACC
1 CAAACCTAAACC
*
12374093 CAAACCTAAATC
1 CAAACCTAAACC
*
12374105 CAAACCTAAACT
1 CAAACCTAAACC
**
12374117 TGAA-CTCAAACC
1 CAAACCT-AAACC
* *
12374129 CTAACTTAAACC
1 CAAACCTAAACC
*
12374141 CAAACCCAAACC
1 CAAACCTAAACC
12374153 CAA
1 CAA
12374156 TCTAAACTTG
Statistics
Matches: 82, Mismatches: 25, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
11 8 0.10
12 73 0.89
13 1 0.01
ACGTcount: A:0.47, C:0.39, G:0.02, T:0.11
Consensus pattern (12 bp):
CAAACCTAAACC
Found at i:12374080 original size:18 final size:18
Alignment explanation
Indices: 12374058--12374152 Score: 82
Period size: 18 Copynumber: 5.3 Consensus size: 18
12374048 ACACTAACCT
12374058 AAACCTAAACCCACACCC
1 AAACCTAAACCCACACCC
* *
12374076 GAACCTAAACCCAGACCC
1 AAACCTAAACCCACACCC
* * *
12374094 AAACCTAAATCCAAACCT
1 AAACCTAAACCCACACCC
* * * *
12374112 AAACTTGAACTCAAACCC
1 AAACCTAAACCCACACCC
* * *
12374130 TAACTTAAACCCAAACCC
1 AAACCTAAACCCACACCC
12374148 AAACC
1 AAACC
12374153 CAATCTAAAC
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.45, C:0.40, G:0.03, T:0.12
Consensus pattern (18 bp):
AAACCTAAACCCACACCC
Found at i:12374147 original size:6 final size:6
Alignment explanation
Indices: 12374053--12374155 Score: 62
Period size: 6 Copynumber: 17.2 Consensus size: 6
12374043 CCAAAACACT
* * * * * * *
12374053 AACCTA AACCTA AACCCA CACCCG AACCTA AACCCA GACCCA AACCTA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * *** * * **
12374101 AATCCA AACCTA AACTTG AACTCA AACCCT AACTTA AACCCA AACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
12374149 AACCCA A
1 AACCCA A
12374156 TCTAAACTTG
Statistics
Matches: 72, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.46, C:0.40, G:0.03, T:0.12
Consensus pattern (6 bp):
AACCCA
Found at i:12374165 original size:47 final size:48
Alignment explanation
Indices: 12374090--12374198 Score: 148
Period size: 47 Copynumber: 2.3 Consensus size: 48
12374080 CTAAACCCAG
*
12374090 ACCCAAACCTAAATCCAAACCTAAACTTGAACTCAAACCCTAACTTAA
1 ACCCAAACCCAAATCCAAACCTAAACTTGAACTCAAACCCTAACTTAA
* * * * *
12374138 ACCCAAACCCAAA-CCCAATCTAAACTTGAATTTAAACCCTAATTTAA
1 ACCCAAACCCAAATCCAAACCTAAACTTGAACTCAAACCCTAACTTAA
*
12374185 ACCCAAATCCAAAT
1 ACCCAAACCCAAAT
12374199 TATTCGAAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
47 41 0.77
48 12 0.23
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (48 bp):
ACCCAAACCCAAATCCAAACCTAAACTTGAACTCAAACCCTAACTTAA
Found at i:12374307 original size:6 final size:7
Alignment explanation
Indices: 12374280--12374304 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12374270 CTCATTCCCT
12374280 TTTTTAA
1 TTTTTAA
12374287 TTTTTAA
1 TTTTTAA
12374294 TTTTTAA
1 TTTTTAA
12374301 TTTT
1 TTTT
12374305 AATATTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:12376214 original size:42 final size:41
Alignment explanation
Indices: 12376136--12376214 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
12376126 GTAGAAACGC
* * * *
12376136 CTTACATCAAGTGGCATTAGAGCTTTAGTGGAAGAAGTAAA
1 CTTACATCAAGCGGAATCAGAGCTTCAGTGGAAGAAGTAAA
*
12376177 CTTACATCAAGCGGTAATCAGATCTTCAGTGGAAGAAG
1 CTTACATCAAGCGG-AATCAGAGCTTCAGTGGAAGAAG
12376215 CAACGTGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (41 bp):
CTTACATCAAGCGGAATCAGAGCTTCAGTGGAAGAAGTAAA
Found at i:12377170 original size:3 final size:3
Alignment explanation
Indices: 12377164--12377224 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
12377154 TTTATTATCG
* *
12377164 TTA TTA TTA TT- TTA TTTA TTA CTA TTA TTA TT- TTA TAA TTA -TA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12377207 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
12377225 AATATATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12377234 original size:28 final size:25
Alignment explanation
Indices: 12377165--12377226 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
12377155 TTATTATCGT
12377165 TATTATTATTTT---ATT-TATTAC
1 TATTATTATTTTAAAATTATATTAC
* *
12377186 TATTATTATTTTATAATTATATTAT
1 TATTATTATTTTAAAATTATATTAC
12377211 TATTATTATTATTAAA
1 TATTATTATT-TTAAA
12377227 TATATATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 12 0.35
24 3 0.09
25 15 0.44
26 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TATTATTATTTTAAAATTATATTAC
Found at i:12378097 original size:27 final size:27
Alignment explanation
Indices: 12378067--12378126 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
12378057 TTATAATTCT
*
12378067 TTTTAAAT-TTTTTATATATACTTATTA
1 TTTTAAATATTTATATATATA-TTATTA
* *
12378094 TTTTCATATATTTATATATATATTATTT
1 TTTT-AAATATTTATATATATATTATTA
12378122 TTTTA
1 TTTTA
12378127 TGTTTTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.18
28 12 0.43
29 11 0.39
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTAAATATTTATATATATATTATTA
Found at i:12379680 original size:29 final size:29
Alignment explanation
Indices: 12379626--12379681 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
12379616 ACAAAAGGGA
*
12379626 GCGAATTATGAAACACAAAGCTGAAAGTC
1 GCGAATTATGAAACACAAAGCAGAAAGTC
* *
12379655 GCGAGATTATGAATCA-AATGCAGAAAG
1 GCGA-ATTATGAAACACAAAGCAGAAAG
12379682 AAAGAGATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (29 bp):
GCGAATTATGAAACACAAAGCAGAAAGTC
Found at i:12380267 original size:12 final size:12
Alignment explanation
Indices: 12380250--12380283 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
12380240 CTGACTTCTT
12380250 TGAAGAAAGAAA
1 TGAAGAAAGAAA
12380262 TGAAGAAAGAAA
1 TGAAGAAAGAAA
12380274 TGAAGAAAGA
1 TGAAGAAAGA
12380284 GGCAGTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (12 bp):
TGAAGAAAGAAA
Found at i:12380561 original size:15 final size:15
Alignment explanation
Indices: 12380543--12380574 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12380533 GATCAATACC
12380543 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
12380558 TTTTGCATACATTCA
1 TTTTGCATACATGCA
12380573 TT
1 TT
12380575 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:12387106 original size:19 final size:18
Alignment explanation
Indices: 12387066--12387108 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
12387056 ATGCTTGAAG
12387066 AAAAAAAATGAAAAAGAA
1 AAAAAAAATGAAAAAGAA
*
12387084 AAAATAAAATGAAAATGATA
1 AAAA-AAAATGAAAAAGA-A
12387104 AAAAA
1 AAAAA
12387109 TATATGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (18 bp):
AAAAAAAATGAAAAAGAA
Found at i:12389631 original size:112 final size:113
Alignment explanation
Indices: 12389428--12389992 Score: 610
Period size: 113 Copynumber: 4.9 Consensus size: 113
12389418 GTAAAGATTC
* * * * *
12389428 GAATCCATCATTCAATGGATCAACTGTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTAAAG
1 GAATTCATCATTCGATGGATCAAATTTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAG
*
12389493 AAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
*
12389541 GAATTCATCATTCGATGGATCAAATTTTCC-GTAAG-AGTTCATAATGAGAAGAACTAATCTGAA
1 GAATTCATCATTCGATGGATCAAATTTTCCAG-AAGAAGTTCATAATGAGAAGAACTCATCTGAA
*
12389604 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
* * * ** * *
12389653 AAATTCATCACTT-GATGGATTAGCA-TCGCCAGGTA-AAGTTGATAATGAGAAGAACTCATCTG
1 GAATTCATCA-TTCGATGGATCA-AATTTTCCA-GAAGAAGTTCATAATGAGAAGAACTCATCTG
* * * * *
12389715 AAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTCTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
* * *
12389766 GAATTCATCACTCGATGGATCAAATTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATTTGAAG
1 GAATTCATCATTCGATGGATCAAATTTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
12389831 -AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACC-TTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
* *** * *
12389877 G-ATTCTGTCACAGAAGGAGATAGATCAGCATCAATATTTCCAGAAG-TGTTCATAATGAGAAGA
1 GAATTC-AT--C---ATTCGATGGAT---CA--AAT-TTTCCAGAAGAAGTTCATAATGAGAAGA
* * *
12389940 ACTCATTTGAAGAATG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
54 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTT
12389993 AATTTGATTC
Statistics
Matches: 382, Mismatches: 47, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
110 4 0.01
111 7 0.02
112 132 0.35
113 152 0.40
114 1 0.00
116 7 0.02
119 2 0.01
121 65 0.17
122 12 0.03
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
GAATTCATCATTCGATGGATCAAATTTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
Found at i:12389758 original size:113 final size:113
Alignment explanation
Indices: 12389463--12389992 Score: 555
Period size: 112 Copynumber: 4.6 Consensus size: 113
12389453 GTTCCAGAAG
*
12389463 AAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAA-AAGAAGTTCATAATGAGAAGAACTTGT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAAGAAGAAGTTCATAATGAGAAGAACTTGT
12389527 TTAACCTTTTGCTTGAATTCATCA-TTCGATGGATCAAATTTTCC--GTA
65 TTAACCTTTTGCTTGAATTCATCACTT-GATGGATCAAATTTTCCAGGTA
* *
12389574 AGAGTTCATAATGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 A-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGT
** * * **
12389639 TTAACCTTTTGCTCAAATTCATCACTTGATGGATTAGCA-TCGCCAGGTA
65 TTAACCTTTTGCTTGAATTCATCACTTGATGGATCA-AATTTTCCAGGTA
* * *
12389688 AAGTTGATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
12389753 CAACCTTTTTCTTGAATTCATCACTCGATGGATCAAATTTTCCAGAG-G
66 TAACCTTTTGCTTGAATTCATCACTTGATGGATCAAATTTTCCAG-GTA
* *
12389801 AAGTTCATAATGAGAAGAACTCATTTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * ** *
12389865 AAACC-TTTGTTTG-ATTCTGTCACAGAAGGAGATAGATCAGCATCAATATTTCCA-G-A
66 TAACCTTTTGCTTGAATTC-ATCAC-----TTGATGGAT---CA--AAT-TTTCCAGGTA
* *
12389921 AGTGTTCATAATGAGAAGAACTCATTTGAAGAATG--AGAAGAAGTTCATAATGAGAAGAACTTG
1 A-AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAAGAAGAAGTTCATAATGAGAAGAACTTG
*
12389984 TTCAACCTT
64 TTTAACCTT
12389993 AATTTGATTC
Statistics
Matches: 356, Mismatches: 39, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
110 4 0.01
111 14 0.04
112 125 0.35
113 124 0.35
114 5 0.01
116 6 0.02
119 2 0.01
120 2 0.01
121 65 0.18
122 8 0.02
123 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
TAACCTTTTGCTTGAATTCATCACTTGATGGATCAAATTTTCCAGGTA
Found at i:12389860 original size:225 final size:225
Alignment explanation
Indices: 12389463--12389872 Score: 673
Period size: 225 Copynumber: 1.8 Consensus size: 225
12389453 GTTCCAGAAG
*
12389463 AAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAAAAGAAATTCATAATGAGAAGAACTTGTT
* *
12389528 TAACCTTTTGCTTGAATTCATCATTCGATGGATCAAATTTTCCGTAAGAGTTCATAATGAGAAGA
66 CAACCTTTTGCTTGAATTCATCACTCGATGGATCAAATTTTCCGTAAGAGTTCATAATGAGAAGA
*
12389593 ACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTCAAATT
131 ACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACCTTTTGCTCAAATT
12389658 CATCACTTGATGGATTAGCATCGCCAGGTA
196 CATCACTTGATGGATTAGCATCGCCAGGTA
* * *
12389688 AAGTTGATAATGAGAAGAACTCATCTGAAGAA-GAAAGAAGAAATTCATAATGAGAAGAATTTGT
1 AAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAA-AAGAAATTCATAATGAGAAGAACTTGT
* *
12389752 TCAACCTTTTTCTTGAATTCATCACTCGATGGATCAAATTTTCCAG-AGGAAGTTCATAATGAGA
65 TCAACCTTTTGCTTGAATTCATCACTCGATGGATCAAATTTTCC-GTAAG-AGTTCATAATGAGA
* *
12389816 AGAACTCATTTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACCTTT
128 AGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACCTTT
12389873 GTTTGATTCT
Statistics
Matches: 171, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
224 4 0.02
225 139 0.81
226 28 0.16
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (225 bp):
AAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAAAAGAAATTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTGAATTCATCACTCGATGGATCAAATTTTCCGTAAGAGTTCATAATGAGAAGA
ACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACCTTTTGCTCAAATT
CATCACTTGATGGATTAGCATCGCCAGGTA
Found at i:12390360 original size:3 final size:3
Alignment explanation
Indices: 12390354--12390414 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
12390344 TTTATTATCG
* *
12390354 TTA TTA TTA TT- TTA TTTA TTA CTA TTA TTA TT- TTA TAA TTA -TA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12390397 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
12390415 AATATATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12390424 original size:28 final size:25
Alignment explanation
Indices: 12390354--12390444 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 25
12390344 TTTATTATCG
12390354 TTATTATTATTTT---ATT-TATTA
1 TTATTATTATTTTAAAATTATATTA
* *
12390375 CTATTATTATTTTATAATTATATTA
1 TTATTATTATTTTAAAATTATATTA
12390400 TTATTATTATTATTAAATATATATATATA
1 TTATTATTATT-TTAAA-AT-TATAT-TA
12390429 TTTATTTATTTATTTT
1 -TTA-TTA-TTATTTT
12390445 TATCCTATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
21 12 0.21
24 3 0.05
25 15 0.27
26 4 0.07
27 2 0.04
28 5 0.09
29 2 0.04
30 3 0.05
31 5 0.09
32 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTATTATTTTAAAATTATATTA
Found at i:12390454 original size:23 final size:23
Alignment explanation
Indices: 12390427--12390470 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12390417 TATATATATA
** *
12390427 TATTTATTTATTTATTTTTATCC
1 TATTTATAAATTTAATTTTATCC
12390450 TATTTATAAATTTAATTTTAT
1 TATTTATAAATTTAATTTTAT
12390471 AAATGACGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTATAAATTTAATTTTATCC
Found at i:12393100 original size:11 final size:13
Alignment explanation
Indices: 12393068--12393097 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12393058 TGGCCAAAGA
12393068 TGAAAAGGTATAT
1 TGAAAAGGTATAT
12393081 TGAAAAGGTATA-
1 TGAAAAGGTATAT
12393093 TGAAA
1 TGAAA
12393098 GGTGTCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATAT
Found at i:12398166 original size:23 final size:23
Alignment explanation
Indices: 12398140--12398184 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12398130 GGATGATTTC
*
12398140 TGAATTGATGCAATGATGCTTGA
1 TGAATTGATACAATGATGCTTGA
* *
12398163 TGAATTGGTACATTGATGCTTG
1 TGAATTGATACAATGATGCTTG
12398185 TCGGTTGCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (23 bp):
TGAATTGATACAATGATGCTTGA
Found at i:12401392 original size:2 final size:2
Alignment explanation
Indices: 12401295--12401375 Score: 119
Period size: 2 Copynumber: 40.5 Consensus size: 2
12401285 TTGAAACAAC
12401295 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
12401337 TA TA TA TA TA AA AA TA TA T- TA TA TA TA AA CTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
12401376 TATGTATAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.01
2 71 0.97
3 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12401475 original size:42 final size:41
Alignment explanation
Indices: 12401353--12401476 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 41
12401343 TATAAAAATA
*
12401353 TATTATATATAAACTATATATA-TTATGTATAAACTATATAGTT
1 TATTA-ATATAAA-T-TATATAGTTATATATAAACTATATAGTT
* * *
12401396 TGTTAATATAAACTATATAGTGTATATAAAAACTATATAGTT
1 TATTAATATAAATTATATAGT-TATATATAAACTATATAGTT
*
12401438 TATTAATATAAATTATATAGTTAGTATATAAATTATATA
1 TATTAATATAAATTATATAGTTA-TATATAAACTATATA
12401477 TGAATTATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
40 6 0.09
41 3 0.04
42 57 0.81
43 4 0.06
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (41 bp):
TATTAATATAAATTATATAGTTATATATAAACTATATAGTT
Found at i:12401476 original size:11 final size:11
Alignment explanation
Indices: 12401462--12401558 Score: 53
Period size: 11 Copynumber: 9.4 Consensus size: 11
12401452 ATATAGTTAG
12401462 TATATAAATTA
1 TATATAAATTA
*
12401473 TATATGAATTA
1 TATATAAATTA
*
12401484 TATTTAAA-TA
1 TATATAAATTA
* *
12401494 TATACAAGTTA
1 TATATAAATTA
* *
12401505 TATTTATA-TA
1 TATATAAATTA
** *
12401515 T-TATGTATAA
1 TATATAAATTA
12401525 T-TATAAATTA
1 TATATAAATTA
*
12401535 TATAT--ACTA
1 TATATAAATTA
*
12401544 TGTATAAATTA
1 TATATAAATTA
12401555 TATA
1 TATA
12401559 GTTTATATAG
Statistics
Matches: 61, Mismatches: 20, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
9 11 0.18
10 19 0.31
11 31 0.51
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (11 bp):
TATATAAATTA
Found at i:12401477 original size:22 final size:20
Alignment explanation
Indices: 12401299--12401567 Score: 149
Period size: 20 Copynumber: 13.4 Consensus size: 20
12401289 AACAACTATA
*
12401299 TATATATATATATATATA-T
1 TATATATAAATATATATAGT
*
12401318 ATATATATATATATATATA-T
1 -TATATATAAATATATATAGT
12401338 ATATATATAAA-A-ATATA-T
1 -TATATATAAATATATATAGT
12401356 TATATATAAACTATATATA-T
1 TATATATAAA-TATATATAGT
* *
12401376 TATGTATAAACTATATAGTTTGT
1 TATATATAAA-TATATA--TAGT
*
12401399 TA-ATATAAA-CTATATAGT
1 TATATATAAATATATATAGT
12401417 GTATATA-AAA-ACTATATAGTT
1 -TATATATAAATA-TATATAG-T
12401438 TATTAATATAAAT-TATATAGT
1 TA-T-ATATAAATATATATAGT
*
12401459 TAGTATATAAATTATATATGAAT
1 TA-TATATAAA-TATATAT-AGT
* *
12401482 TATATTTAAATATATACAAGT
1 TATATATAAATATATA-TAGT
* *
12401503 TATATTTATATAT-TAT-G-
1 TATATATAAATATATATAGT
*
12401520 TATAATTATAAATTATATATA-C
1 TAT-A-TATAAA-TATATATAGT
*
12401542 TATGTATAAAT-TATATAGT
1 TATATATAAATATATATAGT
12401561 T-TATATA
1 TATATATA
12401568 GTCTAAATAT
Statistics
Matches: 205, Mismatches: 19, Indels: 52
0.74 0.07 0.19
Matches are distributed among these distances:
17 13 0.06
18 22 0.11
19 13 0.06
20 85 0.41
21 30 0.15
22 32 0.16
23 10 0.05
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATATAAATATATATAGT
Found at i:12401497 original size:21 final size:22
Alignment explanation
Indices: 12401456--12401519 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
12401446 TAAATTATAT
*
12401456 AGTTAGTATATAAATTATATATGA
1 AGTTA-TATTTAAA-TATATATGA
*
12401480 A-TTATATTTAAATATATA-CA
1 AGTTATATTTAAATATATATGA
*
12401500 AGTTATATTTATATAT-TATG
1 AGTTATATTTAAATATATATG
12401520 TATAATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 4 0.12
21 19 0.56
22 7 0.21
23 3 0.09
24 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (22 bp):
AGTTATATTTAAATATATATGA
Found at i:12401523 original size:17 final size:17
Alignment explanation
Indices: 12401503--12401558 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
12401493 ATATACAAGT
* * *
12401503 TATATTTATATATTATG
1 TATAATTATAAATTATA
12401520 TATAATTATAAATTATA
1 TATAATTATAAATTATA
12401537 TATACTATGTATAAATTATA
1 TATA--AT-TATAAATTATA
12401557 TA
1 TA
12401559 GTTTATATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 18 0.55
19 2 0.06
20 13 0.39
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
TATAATTATAAATTATA
Found at i:12401656 original size:13 final size:13
Alignment explanation
Indices: 12401638--12401662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12401628 CCTTAAATCT
12401638 TAAACCCTAAACA
1 TAAACCCTAAACA
12401651 TAAACCCTAAAC
1 TAAACCCTAAAC
12401663 CCTAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAACCCTAAACA
Found at i:12401817 original size:24 final size:24
Alignment explanation
Indices: 12401788--12401853 Score: 114
Period size: 24 Copynumber: 2.7 Consensus size: 24
12401778 TAGTTAATAT
*
12401788 ATGTAACCTATAATATATGTATAC
1 ATGTAAACTATAATATATGTATAC
12401812 ATGTAAACTATAATATATGTATAC
1 ATGTAAACTATAATATATGTATAC
12401836 ATGTAAACTATATATATA
1 ATGTAAACTATA-ATATA
12401854 ACTTTTAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 35 0.88
25 5 0.12
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (24 bp):
ATGTAAACTATAATATATGTATAC
Found at i:12401907 original size:15 final size:16
Alignment explanation
Indices: 12401887--12401956 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 16
12401877 ACTATGTATA
12401887 ATATATATAAAT-TTT
1 ATATATATAAATATTT
*
12401902 ATATATATAACCTATTT
1 ATATATATAA-ATATTT
* *
12401919 ATATATATAAA-AATC
1 ATATATATAAATATTT
*
12401934 ATATAAAGTAAATTATTT
1 ATATATA-TAAA-TATTT
12401952 ATATA
1 ATATA
12401957 GTTTATAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 18 0.42
16 5 0.12
17 13 0.30
18 7 0.16
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (16 bp):
ATATATATAAATATTT
Found at i:12402192 original size:53 final size:56
Alignment explanation
Indices: 12402131--12402264 Score: 166
Period size: 53 Copynumber: 2.4 Consensus size: 56
12402121 TGTATACATG
* *
12402131 TAAACTATATATGTAACTTATAGTACATGTATGTA-A-AAACTATGTATA-TTATA
1 TAAACTATATATGTAACCTATAGTACATGTATATATACAAACTATGTATAGTTATA
* * * *
12402184 TAAACTATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTTATA
1 TAAACTATATATGTAACCTATAGTACATGTATATATACAAACTATGTATA-GTTATA
**
12402241 TAAACTATATATGTAGTCTATAGT
1 TAAACTATATATGTAACCTATAGT
12402265 TTGTAAACAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 31 0.46
54 1 0.01
55 10 0.15
57 26 0.38
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (56 bp):
TAAACTATATATGTAACCTATAGTACATGTATATATACAAACTATGTATAGTTATA
Found at i:12402198 original size:20 final size:19
Alignment explanation
Indices: 12402167--12402252 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 19
12402157 ATGTATGTAA
*
12402167 AAACTATGTATAT-TATAT
1 AAACTATATATATATATAT
**
12402185 AAACTATATATATA-ACCT
1 AAACTATATATATATATAT
* * * *
12402203 ATAGTATATGTATATATAC
1 AAACTATATATATATATAT
* * *
12402222 AATCTATTTATATGTTATAT
1 AAACTATATATAT-ATATAT
12402242 AAACTATATAT
1 AAACTATATAT
12402253 GTAGTCTATA
Statistics
Matches: 47, Mismatches: 18, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
18 25 0.53
19 9 0.19
20 13 0.28
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (19 bp):
AAACTATATATATATATAT
Found at i:12402228 original size:24 final size:22
Alignment explanation
Indices: 12402191--12402249 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
12402181 ATATAAACTA
*
12402191 TATATATAACCTATAGTATATG
1 TATATATAAACTATAGTATATG
*
12402213 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAGTATATG
12402236 T-TATATAAACTATA
1 TATATATAAACTATA
12402250 TATGTAGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAGTATATG
Found at i:12402341 original size:21 final size:21
Alignment explanation
Indices: 12402295--12402342 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12402285 TAGTGTACTA
* *
12402295 TATAGTTTATACTTTATAACC
1 TATAGTATATAATTTATAACC
*
12402316 CATAGTATATAATTTATCAA-C
1 TATAGTATATAATTTAT-AACC
12402337 TATAGT
1 TATAGT
12402343 TTATTTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (21 bp):
TATAGTATATAATTTATAACC
Found at i:12402429 original size:14 final size:14
Alignment explanation
Indices: 12402412--12402472 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
12402402 TAATATAATA
*
12402412 TATAGTTTATAAAC
1 TATAATTTATAAAC
* *
12402426 TATAATGTATTAA-
1 TATAATTTATAAAC
*
12402439 TATTAATTATATTAAC
1 TA-TAATT-TATAAAC
*
12402455 TATAGTTTATAAAC
1 TATAATTTATAAAC
12402469 TATA
1 TATA
12402473 CTATATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 2 0.05
14 24 0.63
15 10 0.26
16 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (14 bp):
TATAATTTATAAAC
Found at i:12402445 original size:65 final size:64
Alignment explanation
Indices: 12402365--12402572 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
12402355 ATTATATAGT
* *
12402365 TTATATTAATGTTAATTATCTTAACTAT-GATTTATATTAATATAATATATAGTTTATAAACTAT
1 TTATATTAATATTAATTAT-TTAACTATAG-TTTATATTAATATAATATATAATTTATAAACTAT
12402429 A
64 A
* * *
12402430 ATGTATTAATATTAATTATATTAACTATAGTTTATA--AACTATACTATATAATTTAT-AACATA
1 TTATATTAATATTAATTAT-TTAACTATAGTTTATATTAA-TATAATATATAATTTATAAAC-TA
12402492 TA
63 TA
* *
12402494 GTTTATATTAATATTAATT-TTATAGACTATATTTTATATTAATATTAAT-TATAAATTATAAAC
1 --TTATATTAATATTAATTATT-TA-ACTATAGTTTATATTAATA-TAATATATAATTTATAAAC
*
12402557 TAGA
61 TATA
12402561 TTATATTAATAT
1 TTATATTAATAT
12402573 AAGTTAATAT
Statistics
Matches: 120, Mismatches: 12, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
63 5 0.04
64 20 0.17
65 45 0.38
66 28 0.23
67 14 0.12
68 8 0.07
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (64 bp):
TTATATTAATATTAATTATTTAACTATAGTTTATATTAATATAATATATAATTTATAAACTATA
Done.