Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold88
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: 1260485
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 6 of 8
Found at i:743021 original size:7 final size:8
Alignment explanation
Indices: 743004--743029 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
742994 GAATAAAACC
743004 TTTATTTT
1 TTTATTTT
743012 TTTATTTT
1 TTTATTTT
743020 TTTATTTT
1 TTTATTTT
743028 TT
1 TT
743030 GGATAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:745165 original size:34 final size:34
Alignment explanation
Indices: 745108--745326 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
745098 TGGCTGTAGA
*
745108 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
745141 ATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
745175 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
745209 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
745243 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
745277 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
745311 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
745327 TGGTTTTTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 16 0.10
34 143 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:745283 original size:102 final size:101
Alignment explanation
Indices: 745108--745326 Score: 357
Period size: 102 Copynumber: 2.2 Consensus size: 101
745098 TGGCTGTAGA
** * * *
745108 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
745173 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
745209 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
745274 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
745311 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
745327 TGGTTTTTAC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
101 16 0.15
102 93 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:749794 original size:34 final size:34
Alignment explanation
Indices: 749737--749955 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
749727 AAGTGGGAGA
*
749737 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
749770 ATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
749804 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
749838 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
749872 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
749906 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
749940 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
749956 TGGTTTTTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 16 0.10
34 143 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:749877 original size:102 final size:101
Alignment explanation
Indices: 749737--749955 Score: 357
Period size: 102 Copynumber: 2.2 Consensus size: 101
749727 AAGTGGGAGA
** * * *
749737 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
749802 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
749838 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
749903 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
749940 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
749956 TGGTTTTTAC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
101 16 0.15
102 93 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:757722 original size:50 final size:50
Alignment explanation
Indices: 757647--757757 Score: 195
Period size: 50 Copynumber: 2.2 Consensus size: 50
757637 CAAGTGGGAG
**
757647 AATTGTTGACTATTCTTCACCAACCTTTGACAATTGAGAGAGGCGACCGT
1 AATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAGGCGACCGT
*
757697 AATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAGGTGACCGT
1 AATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAGGCGACCGT
757747 AATTGTTGACT
1 AATTGTTGACT
757758 TTAAGCAACT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (50 bp):
AATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAGGCGACCGT
Found at i:764969 original size:20 final size:20
Alignment explanation
Indices: 764931--764974 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
764921 ATATTTAATT
*
764931 AATAAAGAATTTTAATATTA
1 AATAAAGAATTGTAATATTA
* * *
764951 AATAAATAATTGTAGTATTT
1 AATAAAGAATTGTAATATTA
764971 AATA
1 AATA
764975 TAGTGAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
AATAAAGAATTGTAATATTA
Found at i:765108 original size:16 final size:16
Alignment explanation
Indices: 765087--765117 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
765077 GTTAAAAATA
765087 AAAAAAAAGAAAGAAC
1 AAAAAAAAGAAAGAAC
765103 AAAAAAAAGAAAGAA
1 AAAAAAAAGAAAGAA
765118 ATAAAGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAGAAC
Found at i:765762 original size:2 final size:2
Alignment explanation
Indices: 765755--765779 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
765745 TGAATAGATC
765755 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
765780 TTCCAGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:778217 original size:27 final size:28
Alignment explanation
Indices: 778177--778244 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
778167 TATTATTTTT
**
778177 ATTAAATTCATAAAAAAATAT-ATATTA
1 ATTAAATTTTTAAAAAAATATCATATTA
*
778204 ATTAAATTTTT--AAAAATATCATTTTA
1 ATTAAATTTTTAAAAAAATATCATATTA
*
778230 ATTAATTTTATTAAA
1 ATTAAATTT-TTAAA
778245 TAATAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 8 0.24
26 13 0.39
27 11 0.33
29 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTAAATTTTTAAAAAAATATCATATTA
Found at i:778230 original size:26 final size:26
Alignment explanation
Indices: 778190--778249 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
778180 AAATTCATAA
778190 AAAAATATATATTAATTAAATTT-TT
1 AAAAATATATATTAATTAAATTTATT
* *
778215 AAAAATATCATTTTAATTAATTTTATT
1 AAAAATAT-ATATTAATTAAATTTATT
778242 AAATAATA
1 AAA-AATA
778250 AATAACATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 8 0.27
26 13 0.43
27 5 0.17
28 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
AAAAATATATATTAATTAAATTTATT
Found at i:778284 original size:22 final size:22
Alignment explanation
Indices: 778237--778287 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
778227 TTAATTAATT
*
778237 TTATTAAATAATAAATAACATAA
1 TTATT-AATAATAAATAAAATAA
*
778260 TTATTAATAAT-AATAATAATCA
1 TTATTAATAATAAATAA-AATAA
778282 TTATTA
1 TTATTA
778288 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 15 0.60
23 5 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATTAATAATAAATAAAATAA
Found at i:778287 original size:25 final size:25
Alignment explanation
Indices: 778243--778294 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
778233 AATTTTATTA
778243 AATAATAAATAACATAATTATTAAT
1 AATAATAAATAACATAATTATTAAT
* *
778268 AATAAT-AATAATCATTATTATTTAT
1 AATAATAAATAA-CATAATTATTAAT
778293 AA
1 AA
778295 AATTATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAATAAATAACATAATTATTAAT
Found at i:781105 original size:19 final size:19
Alignment explanation
Indices: 781063--781105 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
781053 CTTACAATAT
* * *
781063 ATAAATTCATAAAGATTAA
1 ATAAATTAATAAAAATCAA
*
781082 TTAAATTAATAAAAATCAA
1 ATAAATTAATAAAAATCAA
781101 ATAAA
1 ATAAA
781106 ATTTAATTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAATTAATAAAAATCAA
Found at i:781466 original size:16 final size:17
Alignment explanation
Indices: 781445--781499 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
781435 ATATCATAAA
781445 TATATTTA-AAATATTT
1 TATATTTATAAATATTT
781461 TATATTTATATAA-ATTT
1 TATATTTATA-AATATTT
* *
781478 TA-ATATATAAATAATT
1 TATATTTATAAATATTT
781494 TATATT
1 TATATT
781500 ATATTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 2 0.06
16 19 0.59
17 9 0.28
18 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATATTTATAAATATTT
Found at i:781502 original size:18 final size:17
Alignment explanation
Indices: 781445--781518 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
781435 ATATCATAAA
781445 TATATT-TA-AAATATTT
1 TATATTATATAAATA-TT
781461 TATATTTATATAAAT-TT
1 TATA-TTATATAAATATT
781478 TA-A-TATATAAATAATT
1 TATATTATATAAAT-ATT
*
781494 TATATTATAT-TATATT
1 TATATTATATAAATATT
781510 TAATATTAT
1 T-ATATTAT
781519 TGAGAAAGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
14 9 0.18
16 13 0.27
17 16 0.33
18 7 0.14
19 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATATTATATAAATATT
Found at i:781764 original size:21 final size:20
Alignment explanation
Indices: 781717--781765 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
781707 ATAATTGTAT
*
781717 ATATAATTAATATTTTAATA
1 ATATAATTAATAATTTAATA
*
781737 A-ATTAATTATTAAATTTAATA
1 ATA-TAATTAAT-AATTTAATA
781758 ATATAATT
1 ATATAATT
781766 TTACTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 8 0.33
21 14 0.58
22 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATAATTAATAATTTAATA
Found at i:784021 original size:3 final size:3
Alignment explanation
Indices: 784015--784046 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
784005 TTATCCAAAA
*
784015 ATT ATT ATT CTT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
784047 GGGTAATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:790974 original size:18 final size:19
Alignment explanation
Indices: 790948--790990 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
790938 AAATTAAATT
790948 ATTTATTTAAAATTT-AAAA
1 ATTT-TTTAAAATTTGAAAA
**
790967 ATTTTTTAATGTTTGAAAA
1 ATTTTTTAAAATTTGAAAA
790986 ATTTT
1 ATTTT
790991 GAGTAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTTTTTAAAATTTGAAAA
Found at i:791170 original size:44 final size:44
Alignment explanation
Indices: 791120--791204 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
791110 TTTATATGAA
*
791120 ATATTTTAATTTTATATTCTTTATATGTTAAATAATTTTTAGAT
1 ATATTTTAATTTTATATTCTTTATATATTAAATAATTTTTAGAT
*
791164 ATATTTTAATTTTATATTTTTTATATATTAAATAATTTTTA
1 ATATTTTAATTTTATATTCTTTATATATTAAATAATTTTTA
791205 ACATATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (44 bp):
ATATTTTAATTTTATATTCTTTATATATTAAATAATTTTTAGAT
Found at i:791188 original size:22 final size:22
Alignment explanation
Indices: 791120--791194 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
791110 TTTATATGAA
*
791120 ATATTTTAATTTTATATTCTTT
1 ATATTTTAATTTTATATTTTTT
* *
791142 ATATGTTAA--ATA-ATTTTTAGAT
1 ATATTTTAATTTTATATTTTT---T
791164 ATATTTTAATTTTATATTTTTT
1 ATATTTTAATTTTATATTTTTT
*
791186 ATATATTAA
1 ATATTTTAA
791195 ATAATTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
19 5 0.12
20 2 0.05
22 26 0.63
24 2 0.05
25 6 0.15
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (22 bp):
ATATTTTAATTTTATATTTTTT
Found at i:793241 original size:22 final size:22
Alignment explanation
Indices: 793209--793276 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
793199 TTGATATTTA
793209 TTAATTAATAAATTTATTTAAAT
1 TTAATT-ATAAATTTATTTAAAT
* *
793232 TTAATTATAAA-ATATATAAAT
1 TTAATTATAAATTTATTTAAAT
793253 ATTAATGTA-AAATTT-TTTAAAT
1 -TTAAT-TATAAATTTATTTAAAT
793275 TT
1 TT
793277 TTTTATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 10 0.26
22 19 0.50
23 9 0.24
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (22 bp):
TTAATTATAAATTTATTTAAAT
Found at i:794630 original size:10 final size:11
Alignment explanation
Indices: 794584--794666 Score: 75
Period size: 11 Copynumber: 7.6 Consensus size: 11
794574 AATTATACGT
794584 TATAAATATAA
1 TATAAATATAA
* *
794595 TATAAAAAAAA
1 TATAAATATAA
794606 TA-AAAT-TCAA
1 TATAAATAT-AA
794616 TATAAAATATAA
1 TAT-AAATATAA
*
794628 TA-AAATTTAA
1 TATAAATATAA
*
794638 TATAAAAATAA
1 TATAAATATAA
794649 TATAAAT-TGAA
1 TATAAATAT-AA
794660 TATAAAT
1 TATAAAT
794667 TATTAATCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
10 17 0.29
11 32 0.55
12 8 0.14
13 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
TATAAATATAA
Found at i:794632 original size:22 final size:21
Alignment explanation
Indices: 794593--794665 Score: 101
Period size: 22 Copynumber: 3.4 Consensus size: 21
794583 TTATAAATAT
*
794593 AATATAAAAAAAATAAAATTC
1 AATATAAAAATAATAAAATTC
*
794614 AATATAAAATATAATAAAATTT
1 AATATAAAA-ATAATAAAATTC
*
794636 AATATAAAAATAATATAAATTG
1 AATATAAAAATAATA-AAATTC
794658 AATATAAA
1 AATATAAA
794666 TTATTAATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
21 15 0.32
22 32 0.68
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (21 bp):
AATATAAAAATAATAAAATTC
Found at i:800246 original size:22 final size:24
Alignment explanation
Indices: 800200--800256 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
800190 TAAACATGAT
800200 TATATAAATATAATAAAAAAATAA
1 TATATAAATATAATAAAAAAATAA
* * *
800224 T-TA-AAATATAATATAATATTAA
1 TATATAAATATAATAAAAAAATAA
800246 TATATAAATAT
1 TATATAAATAT
800257 TTAAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 17 0.61
23 4 0.14
24 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATATAAATATAATAAAAAAATAA
Found at i:800296 original size:32 final size:32
Alignment explanation
Indices: 800199--800304 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 32
800189 TTAAACATGA
* * *
800199 TTATATAA-ATATAATAAAAAAATAATTAAAAT
1 TTATATAATAT-TAATATATAAATATTTAAAAT
*
800231 ATAATATAATATTAATATATAAATATTTAAAAAT
1 -TTATATAATATTAATATATAAATATTT-AAAAT
* * *
800265 TTATATAATA-TGATTTATTAATATGTTAAAAT
1 TTATATAATATTAATATATAAATAT-TTAAAAT
800297 TTATATAA
1 TTATATAA
800305 ATATATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
32 24 0.39
33 31 0.50
34 7 0.11
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (32 bp):
TTATATAATATTAATATATAAATATTTAAAAT
Found at i:801236 original size:11 final size:11
Alignment explanation
Indices: 801222--801270 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
801212 ATTTTTATAT
801222 TATTAAAAAAA
1 TATTAAAAAAA
* *
801233 TATTAATATAAT
1 TATTAA-AAAAA
801245 TATTAAATATAAA
1 TATTAAA-A-AAA
801258 TATTAAAAAAA
1 TATTAAAAAAA
801269 TA
1 TA
801271 AAAAATCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 12 0.39
12 10 0.32
13 9 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TATTAAAAAAA
Found at i:801255 original size:13 final size:13
Alignment explanation
Indices: 801222--801264 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
801212 ATTTTTATAT
801222 TATTAAA-A-AAA
1 TATTAAATATAAA
*
801233 TATT-AATATAAT
1 TATTAAATATAAA
801245 TATTAAATATAAA
1 TATTAAATATAAA
801258 TATTAAA
1 TATTAAA
801265 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.07
11 5 0.19
12 6 0.22
13 14 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTAAATATAAA
Found at i:803020 original size:2 final size:2
Alignment explanation
Indices: 803015--803056 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
803005 ATATATATAT
803015 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
803057 TTCCATAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:804595 original size:17 final size:16
Alignment explanation
Indices: 804575--804609 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
804565 AATTTAAAAT
*
804575 ATAATATTTAATATTCA
1 ATAAAATTTAA-ATTCA
804592 ATAAAATTTAAATTCA
1 ATAAAATTTAAATTCA
804608 AT
1 AT
804610 TCTTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAAATTTAAATTCA
Found at i:805033 original size:18 final size:19
Alignment explanation
Indices: 805010--805051 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
805000 TTAATGATCT
805010 TAATAGT-AATTTCCTTAA
1 TAATAGTAAATTTCCTTAA
805028 TAATAGTCAAATTTCCTTAA
1 TAATAGT-AAATTTCCTTAA
805048 TAAT
1 TAAT
805052 GATCTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (19 bp):
TAATAGTAAATTTCCTTAA
Found at i:805042 original size:20 final size:22
Alignment explanation
Indices: 805017--805072 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
805007 TCTTAATAGT
805017 AATTTCCTTAATAATAG-TC-A
1 AATTTCCTTAATAATAGATCTA
805037 AATTTCCTTAATAAT-GATCTA
1 AATTTCCTTAATAATAGATCTA
*
805058 AA-TTCATTAATAATA
1 AATTTCCTTAATAATA
805073 ATCATCTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 1 0.03
20 28 0.88
21 3 0.09
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (22 bp):
AATTTCCTTAATAATAGATCTA
Found at i:805335 original size:2 final size:2
Alignment explanation
Indices: 805328--805363 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
805318 ACGACAGGCA
805328 AT AT AT AT AT 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 AT AT AT AT AT
805364 CTAAATGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:807599 original size:14 final size:14
Alignment explanation
Indices: 807580--807609 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
807570 TTTTCGATGT
807580 TTTTAATAATTGTA
1 TTTTAATAATTGTA
*
807594 TTTTAATATTTGTA
1 TTTTAATAATTGTA
807608 TT
1 TT
807610 CAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTAATAATTGTA
Found at i:809152 original size:14 final size:14
Alignment explanation
Indices: 809135--809165 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
809125 TAAAAATAAA
809135 AAAATTTAAATATT
1 AAAATTTAAATATT
*
809149 AAAATTTAAATTTT
1 AAAATTTAAATATT
809163 AAA
1 AAA
809166 TTATTGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:809271 original size:19 final size:20
Alignment explanation
Indices: 809233--809273 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
809223 AGTAATTATA
809233 TAAATTAATTAAATATTTTT
1 TAAATTAATTAAATATTTTT
809253 TAAATT-ATTAACATATTTTT
1 TAAATTAATTAA-ATATTTTT
809273 T
1 T
809274 TATTTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAATTAATTAAATATTTTT
Found at i:809756 original size:16 final size:18
Alignment explanation
Indices: 809737--809774 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
809727 ATCAAATTAA
809737 ATTTTAAT-TAAGT-TAT
1 ATTTTAATGTAAGTATAT
809753 ATTTTAATGTAAGTATAT
1 ATTTTAATGTAAGTATAT
809771 ATTT
1 ATTT
809775 AATATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 5 0.25
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
ATTTTAATGTAAGTATAT
Found at i:812542 original size:25 final size:27
Alignment explanation
Indices: 812503--812552 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
812493 ACTTTAATTA
*
812503 ATTTATATGATTATTTTTAA-AAATAC
1 ATTTATATAATTATTTTTAATAAATAC
812529 ATTT-TATAATTATTTTTAATAAAT
1 ATTTATATAATTATTTTTAATAAAT
812553 TGTCATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTTATATAATTATTTTTAATAAATAC
Found at i:815096 original size:20 final size:21
Alignment explanation
Indices: 815049--815105 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
815039 CGATAATTTA
815049 ATAAACTATATAAAA-AATAAT
1 ATAAA-TATATAAAATAATAAT
*
815070 ATAAATATATAAAATAA-ATT
1 ATAAATATATAAAATAATAAT
*
815090 ATTAATATATTAAAAT
1 ATAAATATA-TAAAAT
815106 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATATATAAAATAATAAT
Found at i:815245 original size:21 final size:21
Alignment explanation
Indices: 815221--815267 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
815211 AAAAAAAAGA
815221 GGAAAAAGAAAGTGGCGTGCT
1 GGAAAAAGAAAGTGGCGTGCT
815242 GGAAAAAGAAAGTGGCGTGCT
1 GGAAAAAGAAAGTGGCGTGCT
*
815263 TGAAA
1 GGAAA
815268 GACTTGCCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.36, T:0.15
Consensus pattern (21 bp):
GGAAAAAGAAAGTGGCGTGCT
Found at i:822671 original size:2 final size:2
Alignment explanation
Indices: 822664--822698 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
822654 TTCTTAGTTT
822664 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
822699 TCTTTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:825073 original size:14 final size:15
Alignment explanation
Indices: 825048--825076 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
825038 ATAATTATAA
825048 AATATAAAAAATATT
1 AATATAAAAAATATT
825063 AATAT-AAAAATATT
1 AATATAAAAAATATT
825077 TTTTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATATAAAAAATATT
Found at i:825650 original size:61 final size:61
Alignment explanation
Indices: 825550--825671 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
825540 CATTGAGAAC
*
825550 CAGTCCAATGATTGGCTAAGTCGTAATCGAAATGAAGACCTGCTCAAATCATCCCCGCGCT
1 CAGTCCAATGATTGGCTAAGTCGTAATCGAAATGAAGACCTGCTCAAATCATCCCCCCGCT
* * *
825611 CAGTCCAATGATTTGCTAAGTCGTGATCGAAATGCAGACCTGCTCAAATCATCCCCCCGCT
1 CAGTCCAATGATTGGCTAAGTCGTAATCGAAATGAAGACCTGCTCAAATCATCCCCCCGCT
825672 AGCTATAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (61 bp):
CAGTCCAATGATTGGCTAAGTCGTAATCGAAATGAAGACCTGCTCAAATCATCCCCCCGCT
Found at i:827677 original size:14 final size:15
Alignment explanation
Indices: 827623--827689 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 15
827613 ATTCTAGATC
827623 AATTATAATAAATAAT
1 AATTATAA-AAATAAT
* *
827639 -ATTTTAAAATATTCAT
1 AATTATAAAA-A-TAAT
*
827655 AA-TAAAAAAATAA-
1 AATTATAAAAATAAT
827668 AATTAT-AAAATAAT
1 AATTATAAAAATAAT
827682 AATTATAA
1 AATTATAA
827690 TATTACATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
13 9 0.23
14 12 0.31
15 9 0.23
16 8 0.21
17 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTATAAAAATAAT
Found at i:827992 original size:15 final size:16
Alignment explanation
Indices: 827974--828006 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
827964 TTTAAATTAT
827974 AATT-TTTTATTAAAA
1 AATTATTTTATTAAAA
827989 AATTATTTTATTAAAA
1 AATTATTTTATTAAAA
828005 AA
1 AA
828007 AATTGCATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTATTTTATTAAAA
Found at i:828682 original size:10 final size:10
Alignment explanation
Indices: 828667--828722 Score: 87
Period size: 10 Copynumber: 5.7 Consensus size: 10
828657 TTATTTTATT
828667 TTTATATTAA
1 TTTATATTAA
828677 TTTATATTAA
1 TTTATATTAA
*
828687 -TTATATCAA
1 TTTATATTAA
828696 TTTATATTAA
1 TTTATATTAA
*
828706 TTTATATCAA
1 TTTATATTAA
828716 TTTATAT
1 TTTATAT
828723 CGATATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
9 8 0.19
10 34 0.81
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTATATTAA
Found at i:828692 original size:19 final size:20
Alignment explanation
Indices: 828667--828722 Score: 96
Period size: 19 Copynumber: 2.9 Consensus size: 20
828657 TTATTTTATT
*
828667 TTTATATTAATTTATATTAA
1 TTTATATCAATTTATATTAA
828687 -TTATATCAATTTATATTAA
1 TTTATATCAATTTATATTAA
828706 TTTATATCAATTTATAT
1 TTTATATCAATTTATAT
828723 CGATATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATATCAATTTATATTAA
Found at i:828723 original size:30 final size:29
Alignment explanation
Indices: 828667--828742 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 29
828657 TTATTTTATT
*
828667 TTTATATTAATTTATATTAATTATATCAA
1 TTTATATTAATTTATATCAATTATATCAA
*
828696 TTTATATTAATTTATATCAATTTATATCGA
1 TTTATATTAATTTATATCAA-TTATATCAA
* * *
828726 TATAAATTAACTTATAT
1 TTTATATTAATTTATAT
828743 TATTGATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 19 0.46
30 22 0.54
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (29 bp):
TTTATATTAATTTATATCAATTATATCAA
Found at i:828961 original size:15 final size:14
Alignment explanation
Indices: 828943--828999 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
828933 ATATTTATTT
828943 ATTTGATATTTAAAA
1 ATTT-ATATTTAAAA
* *
828958 ATTTTAAATATTAAAT
1 A-TTTATAT-TTAAAA
*
828974 ATTTATAATTTTAAA
1 ATTTAT-ATTTAAAA
828989 ATTTATATTTA
1 ATTTATATTTA
829000 TATATAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 4 0.12
15 18 0.55
16 11 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
ATTTATATTTAAAA
Found at i:828969 original size:24 final size:23
Alignment explanation
Indices: 828942--828999 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
828932 TATATTTATT
828942 TATTTGATATTTAAAAATTTTAAA
1 TATTT-ATATTTAAAAATTTTAAA
* *
828966 TATTAAATATTT-ATAATTTTAAA
1 TATT-TATATTTAAAAATTTTAAA
828989 -ATTTATATTTA
1 TATTTATATTTA
829000 TATATAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.21
22 3 0.10
23 10 0.34
24 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTATATTTAAAAATTTTAAA
Found at i:829109 original size:24 final size:24
Alignment explanation
Indices: 829075--829122 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
829065 AAGAAACTTG
*
829075 AAAATATATTAAAATTATATATAAA
1 AAAATATATTAAAAATATA-ATAAA
829100 AAAATA-ATTAAAAATATAATAAA
1 AAAATATATTAAAAATATAATAAA
829123 TCTTAAACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATATATTAAAAATATAATAAA
Found at i:829243 original size:14 final size:13
Alignment explanation
Indices: 829210--829258 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
829200 AATATTGATT
*
829210 ATTTTAAATATAA
1 ATTTTAAATTTAA
*
829223 ATATTAAAGTTTAA
1 ATTTTAAA-TTTAA
829237 ATTTTAAATATTAA
1 ATTTTAAAT-TTAA
*
829251 TTTTTAAA
1 ATTTTAAA
829259 AATAATGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTTTAAATTTAA
Found at i:829256 original size:21 final size:20
Alignment explanation
Indices: 829210--829263 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
829200 AATATTGATT
829210 ATTTTAAATATAAATATTAA
1 ATTTTAAATATAAATATTAA
* *
829230 AGTTTAAATTTTAAATATTAA
1 ATTTTAAA-TATAAATATTAA
* *
829251 TTTTTAAAAATAA
1 ATTTTAAATATAA
829264 TGATTTGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTAAATATAAATATTAA
Found at i:832189 original size:8 final size:8
Alignment explanation
Indices: 832176--832236 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
832166 CATGATACAT
832176 ATATATAC
1 ATATATAC
*
832184 ATATATATAT
1 --ATATATAC
832194 ATATATAC
1 ATATATAC
832202 ATATATAC
1 ATATATAC
832210 --ATATAC
1 ATATATAC
832216 ATATATAC
1 ATATATAC
832224 --ATATAC
1 ATATATAC
832230 ATATATA
1 ATATATA
832237 TTTATATATC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 12 0.27
8 26 0.58
10 7 0.16
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:832193 original size:6 final size:6
Alignment explanation
Indices: 832174--832245 Score: 81
Period size: 6 Copynumber: 12.0 Consensus size: 6
832164 ACCATGATAC
* * * *
832174 ATATAT ATACAT ATATAT ATATAT ATACAT ATATAC ATATAC ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * *
832222 ACATAT ACATAT ATATTT ATATAT
1 ATATAT ATATAT ATATAT ATATAT
832246 CATACGGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:832193 original size:14 final size:14
Alignment explanation
Indices: 832170--832242 Score: 101
Period size: 14 Copynumber: 5.2 Consensus size: 14
832160 ATCAACCATG
*
832170 ATACATATATATAC
1 ATACATATATATAT
*
832184 ATATATATATATAT
1 ATACATATATATAT
*
832198 ATACATATATACAT
1 ATACATATATATAT
*
832212 ATACATATATACAT
1 ATACATATATATAT
*
832226 ATACATATATATTT
1 ATACATATATATAT
832240 ATA
1 ATA
832243 TATCATACGG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 53 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACATATATATAT
Found at i:833282 original size:10 final size:11
Alignment explanation
Indices: 833260--833290 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
833250 TATATTTTTA
833260 AAAATTATATT
1 AAAATTATATT
833271 AAAATT-TATT
1 AAAATTATATT
833281 AAAATTATAT
1 AAAATTATAT
833291 AACGATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AAAATTATATT
Found at i:833337 original size:31 final size:30
Alignment explanation
Indices: 833261--833337 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 30
833251 ATATTTTTAA
* *
833261 AAATTATATTAAAATTTATTAAAATTATAT
1 AAATAATATTAAAATTTATTAAAACTATAT
** * * * *
833291 AACGATTATTGAAATTCTATTAATACTGTAT
1 AAATAATATTAAAATT-TATTAAAACTATAT
833322 AAATAATATTAAAATT
1 AAATAATATTAAAATT
833338 ATATACAAAA
Statistics
Matches: 34, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATAATATTAAAATTTATTAAAACTATAT
Found at i:833765 original size:16 final size:18
Alignment explanation
Indices: 833744--833777 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
833734 ATAAATTTAT
833744 TATAAAA-ATA-AAAATA
1 TATAAAATATATAAAATA
833760 TATAAAATATATAAAATA
1 TATAAAATATATAAAATA
833778 AATTACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TATAAAATATATAAAATA
Found at i:833767 original size:57 final size:59
Alignment explanation
Indices: 833704--833835 Score: 141
Period size: 57 Copynumber: 2.3 Consensus size: 59
833694 AAATATAATT
*
833704 TAAAAATAATTATAATAT-AATAAGTAA-AACATAAATTTATTATAAA-A-ATAAAAATA
1 TAAAAATAATTATAATATAAATAACTAATAACATAAATTTA-TATAAATATATAAAAATA
* * ** * *
833760 TATAAAAT-A-TATAAAATAAATTACTAATAATTTAAATTTATATAAATATATAATAATT
1 TA-AAAATAATTATAATATAAATAACTAATAACATAAATTTATATAAATATATAAAAATA
833818 TAAAAATAATTATAATAT
1 TAAAAATAATTATAATAT
833836 TAAAAATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
55 7 0.11
56 16 0.26
57 21 0.34
58 10 0.16
59 7 0.11
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.37
Consensus pattern (59 bp):
TAAAAATAATTATAATATAAATAACTAATAACATAAATTTATATAAATATATAAAAATA
Found at i:833768 original size:9 final size:9
Alignment explanation
Indices: 833744--833777 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
833734 ATAAATTTAT
833744 TATAAAA-A
1 TATAAAATA
833752 TA-AAAATA
1 TATAAAATA
833760 TATAAAATA
1 TATAAAATA
833769 TATAAAATA
1 TATAAAATA
833778 AATTACTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.17
8 5 0.21
9 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
TATAAAATA
Found at i:833846 original size:20 final size:20
Alignment explanation
Indices: 833808--833846 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
833798 TATATAAATA
*
833808 TATAATAATTTAAAAATAAT
1 TATAATAATTAAAAAATAAT
833828 TATAAT-ATTAAAAATATAA
1 TATAATAATTAAAAA-ATAA
833847 ATATGATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAATAATTAAAAAATAAT
Found at i:834810 original size:17 final size:17
Alignment explanation
Indices: 834788--834822 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
834778 GATAGTAAAT
*
834788 TTTAAATAAATTTTTAA
1 TTTAAATAAATTATTAA
*
834805 TTTAAATTAATTATTAA
1 TTTAAATAAATTATTAA
834822 T
1 T
834823 AAATAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAATAAATTATTAA
Found at i:834969 original size:9 final size:8
Alignment explanation
Indices: 834942--834966 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
834932 AATAAAAATA
834942 TAATATTT
1 TAATATTT
834950 TAATATTT
1 TAATATTT
834958 TAATATTT
1 TAATATTT
834966 T
1 T
834967 TAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TAATATTT
Found at i:834997 original size:10 final size:10
Alignment explanation
Indices: 834976--835014 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
834966 TTAAATAATA
*
834976 AAATAAATTT
1 AAATAAAATT
*
834986 AAGTAAAATT
1 AAATAAAATT
834996 AAATTAAAATT
1 AAA-TAAAATT
835007 AAATAAAA
1 AAATAAAA
835015 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
AAATAAAATT
Found at i:835003 original size:11 final size:12
Alignment explanation
Indices: 834989--835021 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
834979 TAAATTTAAG
834989 TAAAATTAAAT-
1 TAAAATTAAATA
835000 TAAAATTAAATA
1 TAAAATTAAATA
*
835012 AAAAATTAAA
1 TAAAATTAAA
835022 AATATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:835003 original size:21 final size:21
Alignment explanation
Indices: 834974--835014 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
834964 TTTTAAATAA
* *
834974 TAAAATAAATTTAAGTAAAAT
1 TAAAATAAAATTAAATAAAAT
*
834995 TAAATTAAAATTAAATAAAA
1 TAAAATAAAATTAAATAAAA
835015 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAAATAAAATTAAATAAAAT
Found at i:835251 original size:18 final size:18
Alignment explanation
Indices: 835228--835267 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
835218 ATATATTTTA
*
835228 TTTATTAATTAATTATAT
1 TTTATTAATTAAATATAT
**
835246 TTTATTTGTTAAATATAT
1 TTTATTAATTAAATATAT
835264 TTTA
1 TTTA
835268 AAAAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTAATTAAATATAT
Found at i:835727 original size:16 final size:16
Alignment explanation
Indices: 835686--835908 Score: 148
Period size: 16 Copynumber: 14.4 Consensus size: 16
835676 TAATTAATTT
835686 ATTTAAATTT-AAA-A
1 ATTTAAATTTAAAATA
*
835700 ATTAATAATTTAAAATA
1 ATTTA-AATTTAAAATA
* *
835717 ATATAAATTTAGAATA
1 ATTTAAATTTAAAATA
*
835733 A-ATATAATTTAAAATA
1 ATTTA-AATTTAAAATA
*
835749 A-TTAAATTTAATA-A
1 ATTTAAATTTAAAATA
* *
835763 ATTTTAATATTAAATTA
1 ATTTAAAT-TTAAAATA
835780 A-TT-AATTT-AAAT-
1 ATTTAAATTTAAAATA
* **
835792 ATTT-AATTTTATTTA
1 ATTTAAATTTAAAATA
835807 ATTTAAAATTT-AAATA
1 ATTT-AAATTTAAAATA
*
835823 ATTTAAATTTAAAATG
1 ATTTAAATTTAAAATA
** * *
835839 ATTTAAAAATGAGATA
1 ATTTAAATTTAAAATA
835855 ATTTAAATTTAAAAT-
1 ATTTAAATTTAAAATA
* *
835870 ATATTAAAATTAATATA
1 AT-TTAAATTTAAAATA
835887 ATTTAAA-TTAAAATTA
1 ATTTAAATTTAAAA-TA
835903 ATTTAA
1 ATTTAA
835909 TTAATTTAAT
Statistics
Matches: 165, Mismatches: 28, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
12 1 0.01
13 10 0.06
14 10 0.06
15 41 0.25
16 90 0.55
17 13 0.08
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTAAATTTAAAATA
Found at i:835776 original size:13 final size:12
Alignment explanation
Indices: 835760--835819 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 12
835750 TTAAATTTAA
835760 TAAATTTTAATAT
1 TAAATTTTAAT-T
835773 TAAATTAATTAATT
1 TAAATT--TTAATT
835787 TAAATATTTAATT
1 TAAAT-TTTAATT
*
835800 T-TA-TTTAATT
1 TAAATTTTAATT
*
835810 TAAAATTTAA
1 TAAATTTTAA
835820 ATAATTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
10 8 0.20
11 1 0.03
12 6 0.15
13 13 0.32
14 6 0.15
15 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAAATTTTAATT
Found at i:835786 original size:21 final size:21
Alignment explanation
Indices: 835720--835799 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 21
835710 TAAAATAATA
*
835720 TAAAT-TTAGAATAAATATAATT
1 TAAATATTA-AATTAATA-AATT
835742 TAAAATAATTAAATTTAATAAATT
1 T-AAAT-ATTAAA-TTAATAAATT
* *
835766 TTAATATTAAATTAATTAATT
1 TAAATATTAAATTAATAAATT
*
835787 TAAATATTTAATT
1 TAAATATTAAATT
835800 TTATTTAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 20 0.41
22 7 0.14
23 7 0.14
24 7 0.14
25 8 0.16
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (21 bp):
TAAATATTAAATTAATAAATT
Found at i:835837 original size:22 final size:22
Alignment explanation
Indices: 835686--835837 Score: 77
Period size: 22 Copynumber: 6.7 Consensus size: 22
835676 TAATTAATTT
*
835686 ATTTAAATTTAAAAATT-AATA
1 ATTTAAATTTAAAATTTAAATA
*
835707 ATTTAAAATAATATAAATTTAGAATA
1 ATTT-AAAT-TTA-AAATTTA-AATA
*
835733 A-ATATAATTTAAAATAATTAAAT-
1 ATTTA-AATTTAAAAT--TTAAATA
*
835756 -TTAATAAATTT-TAATATTAAATTA
1 ATT--TAAATTTAAAAT-TTAAA-TA
* *
835780 A-TT-AATTTAAATATTTAATTTT
1 ATTTAAATTTAAA-ATTTAA-ATA
835802 ATTT-AATTTAAAATTTAAATA
1 ATTTAAATTTAAAATTTAAATA
835823 ATTTAAATTTAAAAT
1 ATTTAAATTTAAAAT
835838 GATTTAAAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 37
0.68 0.07 0.25
Matches are distributed among these distances:
21 14 0.14
22 34 0.34
23 22 0.22
24 17 0.17
25 9 0.09
26 5 0.05
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
ATTTAAATTTAAAATTTAAATA
Found at i:835843 original size:32 final size:30
Alignment explanation
Indices: 835685--835900 Score: 149
Period size: 31 Copynumber: 7.0 Consensus size: 30
835675 TTAATTAATT
*
835685 TATTTAAATTTAAA-AATTAATAATTTAAAA
1 TATTTAAATTTAAATAATTTA-AATTTAAAA
* *
835715 TAATATAAATTTAGAATAA-ATATAATTTAAAA
1 T-ATTTAAATTTA-AATAATTTA-AATTTAAAA
* * *
835747 TAATTAAATTT-AATAAATTTTAATATTAAAT
1 TATTTAAATTTAAAT-AATTTAAAT-TTAAAA
* * *
835778 TAATT-AATTTAAAT-ATTTAATTTTATTTAA
1 TATTTAAATTTAAATAATTTAAATTTA--AAA
*
835808 T-TTAAAATTTAAATAATTTAAATTTAAAA
1 TATTTAAATTTAAATAATTTAAATTTAAAA
* * *
835837 TGATTTAAAAATGAGATAATTTAAATTTAAAA
1 T-ATTT-AAATTTAAATAATTTAAATTTAAAA
*
835869 TATATTAAAATTAATATAATTTAAA-TTAAAA
1 TAT-TTAAATTTAA-ATAATTTAAATTTAAAA
835900 T
1 T
835901 TAATTTAATT
Statistics
Matches: 148, Mismatches: 22, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
28 3 0.02
29 13 0.09
30 22 0.15
31 59 0.40
32 49 0.33
33 2 0.01
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
TATTTAAATTTAAATAATTTAAATTTAAAA
Found at i:836734 original size:81 final size:80
Alignment explanation
Indices: 836540--837040 Score: 372
Period size: 81 Copynumber: 6.2 Consensus size: 80
836530 CAGTGAGGGA
* * * * **
836540 TTTGGAAGACAAGTATGCTACGGCTTATTTTCAC-AAGCTTTCTGATTCTGAAAACCACCTTCAT
1 TTTGGAAGACAAATATGCTACGGCTTACTTCCACAAAAC-TTCTGATTCTG-AAACCA---TGGT
* * * * *
836604 GGAGCCAACGAAGTGAAGAA
61 GAAGGCGACGAAGTCAAGAG
* * * * ** * * *
836624 TTTGGAAGATAAGTATTCTACGGCTTACTTTCACAGGACTTCTGATGCTTATAACCATGGTGAAA
1 TTTGGAAGACAAATATGCTACGGCTTACTTCCACAAAACTTCTGATTCTGA-AACCATGGTGAAG
836689 GCGACGAAGTCAAGAG
65 GCGACGAAGTCAAGAG
* * ** *
836705 TTTGGAAGACAAATATGCTACAGCATACTTCCACAAAACTTCTGATTCTGAAAGCCATGACGTAG
1 TTTGGAAGACAAATATGCTACGGCTTACTTCCACAAAACTTCTGATTCTGAAA-CCATGGTGAAG
*
836770 GCGACGAAGTCAAAAG
65 GCGACGAAGTCAAGAG
* * * * * *
836786 TTTAGAAGACAAATACTCCCTA--GTTTTCTTCCCCAAAAATTCTGA-----AAACCATGTTGAT
1 TTTGGAAGACAAATA-T-GCTACGGCTTACTTCCACAAAACTTCTGATTCTGAAACCATG--G-T
** * ** *
836844 GGTGGCAACGTGGTGAAGAG
61 GAAGGCGACGAAGTCAAGAG
* * * *
836864 TTTGGAAGACAAATATTCTACGGCTTACTTTCACAAAACTTCTGATCCTGAAAACCATGGTGAAA
1 TTTGGAAGACAAATATGCTACGGCTTACTTCCACAAAACTTCTGATTCTG-AAACCATGGTGAAG
836929 GCGACGAAGTCAAGAG
65 GCGACGAAGTCAAGAG
** *
836945 TTTGGAAGACAAATATGCTACGG-TATACTTCCACAAAACTTCTGATTCTGAAAACCATGACGTA
1 TTTGGAAGACAAATATGCTACGGCT-TACTTCCACAAAACTTCTGATTCTG-AAACCATGGTGAA
* *
837009 GGCGACGATGTCAAAAG
64 GGCGACGAAGTCAAGAG
*
837026 TTTAGAAGACAAATA
1 TTTGGAAGACAAATA
837041 CTCCCTAGTT
Statistics
Matches: 329, Mismatches: 71, Indels: 37
0.75 0.16 0.08
Matches are distributed among these distances:
75 5 0.02
76 6 0.02
77 1 0.00
78 45 0.14
80 3 0.01
81 209 0.64
82 2 0.01
83 4 0.01
84 53 0.16
85 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (80 bp):
TTTGGAAGACAAATATGCTACGGCTTACTTCCACAAAACTTCTGATTCTGAAACCATGGTGAAGG
CGACGAAGTCAAGAG
Found at i:836989 original size:159 final size:159
Alignment explanation
Indices: 836700--836989 Score: 395
Period size: 159 Copynumber: 1.8 Consensus size: 159
836690 CGACGAAGTC
* *
836700 AAGAGTTTGGAAGACAAATATGCTACAGCATACTTCCACAAAACTTCTGATTCTGAAAGCCATGA
1 AAGAGTTTGGAAGACAAATATGCTACAGCATACTTCCACAAAACTTCTGATCCTGAAAACCATGA
* * * * *
836765 CGTAGGCGACGAAGTCAAAAGTTTAGAAGACAAATACTCCCTAGTTTTCTTCCCCAAAAATTCTG
66 CGAAAGCGACGAAGTCAAAAGTTTAGAAGACAAATACTCCCTAGTATACTTCCACAAAAATTCTG
836830 AAAACCATGTTGATGGTGGCAACGTGGTG
131 AAAACCATGTTGATGGTGGCAACGTGGTG
* * * * *
836859 AAGAGTTTGGAAGACAAATATTCTACGGCTTACTTTCACAAAACTTCTGATCCTGAAAACCATGG
1 AAGAGTTTGGAAGACAAATATGCTACAGCATACTTCCACAAAACTTCTGATCCTGAAAACCATGA
* * * * *
836924 TGAAAGCGACGAAGTCAAGAGTTTGGAAGACAAATA-T-GCTACGGTATACTTCCACAAAACTTC
66 CGAAAGCGACGAAGTCAAAAGTTTAGAAGACAAATACTCCCTA--GTATACTTCCACAAAAATTC
836987 TGA
129 TGA
836990 TTCTGAAAAC
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
157 3 0.03
158 1 0.01
159 108 0.96
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (159 bp):
AAGAGTTTGGAAGACAAATATGCTACAGCATACTTCCACAAAACTTCTGATCCTGAAAACCATGA
CGAAAGCGACGAAGTCAAAAGTTTAGAAGACAAATACTCCCTAGTATACTTCCACAAAAATTCTG
AAAACCATGTTGATGGTGGCAACGTGGTG
Found at i:837007 original size:240 final size:240
Alignment explanation
Indices: 836584--837156 Score: 957
Period size: 240 Copynumber: 2.4 Consensus size: 240
836574 AAGCTTTCTG
* * * * ** * * *
836584 ATTCTGAAAACCACCTTCATGGAGCCAACGAAGTGAAGAATTTGGAAGATAAGTATTCTACGGCT
1 ATTCTGAAAACCACGTTGATGGTGGCAACGTGGTGAAGAGTTTGGAAGACAAATATTCTACGGCT
** * * *
836649 TACTTTCACAGGACTTCTGATGCTTATAACCATGGTGAAAGCGACGAAGTCAAGAGTTTGGAAGA
66 TACTTTCACAAAACTTCTGATCCTGAAAACCATGGTGAAAGCGACGAAGTCAAGAGTTTGGAAGA
*
836714 CAAATATGCTACAGCATACTTCCACAAAACTTCTGATTCTGAAAGCCATGACGTAGGCGACGAAG
131 CAAATATGCTACAGCATACTTCCACAAAACTTCTGATTCTGAAAACCATGACGTAGGCGACGAAG
836779 TCAAAAGTTTAGAAGACAAATACTCCCTAGTTTTCTTCCCCAAAA
196 TCAAAAGTTTAGAAGACAAATACTCCCTAGTTTTCTTCCCCAAAA
*
836824 ATTCTGAAAACCATGTTGATGGTGGCAACGTGGTGAAGAGTTTGGAAGACAAATATTCTACGGCT
1 ATTCTGAAAACCACGTTGATGGTGGCAACGTGGTGAAGAGTTTGGAAGACAAATATTCTACGGCT
836889 TACTTTCACAAAACTTCTGATCCTGAAAACCATGGTGAAAGCGACGAAGTCAAGAGTTTGGAAGA
66 TACTTTCACAAAACTTCTGATCCTGAAAACCATGGTGAAAGCGACGAAGTCAAGAGTTTGGAAGA
* * *
836954 CAAATATGCTACGGTATACTTCCACAAAACTTCTGATTCTGAAAACCATGACGTAGGCGACGATG
131 CAAATATGCTACAGCATACTTCCACAAAACTTCTGATTCTGAAAACCATGACGTAGGCGACGAAG
837019 TCAAAAGTTTAGAAGACAAATACTCCCTAGTTTTCTTCCCCAAAA
196 TCAAAAGTTTAGAAGACAAATACTCCCTAGTTTTCTTCCCCAAAA
* *
837064 ATTCTGAAAACCACGTTGATGGTGGCAACATGGTGAAGAGTTTGGAAGACAAATATTCTACGGCC
1 ATTCTGAAAACCACGTTGATGGTGGCAACGTGGTGAAGAGTTTGGAAGACAAATATTCTACGGCT
837129 TACTTTCACAAAACTTCTGATCCTGAAA
66 TACTTTCACAAAACTTCTGATCCTGAAA
837157 TGAGATCTCC
Statistics
Matches: 311, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
240 311 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (240 bp):
ATTCTGAAAACCACGTTGATGGTGGCAACGTGGTGAAGAGTTTGGAAGACAAATATTCTACGGCT
TACTTTCACAAAACTTCTGATCCTGAAAACCATGGTGAAAGCGACGAAGTCAAGAGTTTGGAAGA
CAAATATGCTACAGCATACTTCCACAAAACTTCTGATTCTGAAAACCATGACGTAGGCGACGAAG
TCAAAAGTTTAGAAGACAAATACTCCCTAGTTTTCTTCCCCAAAA
Found at i:838875 original size:23 final size:22
Alignment explanation
Indices: 838849--838899 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
838839 ATTGTATCAT
838849 ATAAAATATGATAT-TTATTATTA
1 ATAAAATATGATATATT-TTA-TA
* *
838872 ATAAATTATGTTATATTTTATA
1 ATAAAATATGATATATTTTATA
838894 ATAAAA
1 ATAAAA
838900 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.29
23 15 0.62
24 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
ATAAAATATGATATATTTTATA
Found at i:840919 original size:16 final size:14
Alignment explanation
Indices: 840906--840956 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
840896 TTTTTTAATA
840906 TAATTAAATTTTAAT
1 TAATTAAATTTT-AT
*
840921 T--TTAAATATTAT
1 TAATTAAATTTTAT
840933 TAATTATAATTTTATT
1 TAATTA-AATTTTA-T
840949 TAATTAAA
1 TAATTAAA
840957 AAATTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 3 0.10
13 8 0.27
14 3 0.10
15 9 0.30
16 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTAAATTTTAT
Found at i:840923 original size:22 final size:22
Alignment explanation
Indices: 840898--840956 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
840888 TTATATAATT
*
840898 TTTTAATATAATTAAATTTTAA
1 TTTTAATATAATTAAATTATAA
*
840920 TTTTAAATATTATT-AATTATAA
1 TTTT-AATATAATTAAATTATAA
*
840942 TTTT-ATTTAATTAAA
1 TTTTAATATAATTAAA
840957 AAATTTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 6 0.19
21 2 0.06
22 15 0.48
23 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAATATAATTAAATTATAA
Found at i:840928 original size:23 final size:22
Alignment explanation
Indices: 840891--840946 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
840881 TTATATTTTA
*
840891 TATAATTTTTTAATATAATTAAAT
1 TATAA-TTTTAAATATAATT-AAT
* *
840915 TTTAATTTTAAATATTATTAAT
1 TATAATTTTAAATATAATTAAT
840937 TATAATTTTA
1 TATAATTTTA
840947 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 12 0.43
23 12 0.43
24 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATAATTTTAAATATAATTAAT
Found at i:841928 original size:21 final size:23
Alignment explanation
Indices: 841886--841928 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
841876 TCTCAATATT
* *
841886 TATAATTTTTTTTATTTTTATAC
1 TATAATTTTTTTCATTTATATAC
841909 TATAA-TTTTTTCA-TTATATA
1 TATAATTTTTTTCATTTATATA
841929 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (23 bp):
TATAATTTTTTTCATTTATATAC
Found at i:842202 original size:21 final size:22
Alignment explanation
Indices: 842166--842209 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
842156 TATTTTTATT
*
842166 TAATTTTAATTATAAAAATATA
1 TAATATTAATTATAAAAATATA
842188 TAATATTAA-TATAAAAATATA
1 TAATATTAATTATAAAAATATA
842209 T
1 T
842210 TTTAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATATTAATTATAAAAATATA
Found at i:842217 original size:29 final size:28
Alignment explanation
Indices: 842185--842273 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 28
842175 TTATAAAAAT
*
842185 ATATAATATTAATATAAAAATATATTTTA
1 ATATAAT-TTAATATAAAAAAATATTTTA
* *
842214 ATATATTTTAAATAATAAAATAAATATTTAA
1 ATATAATTT-AAT-ATAAAA-AAATATTTTA
*
842245 ATCTAATTTAA-ATAAATAAAATATTTTA
1 ATATAATTTAATATAAA-AAAATATTTTA
842273 A
1 A
842274 ATTAAATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
28 17 0.34
29 10 0.20
30 8 0.16
31 15 0.30
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATAATTTAATATAAAAAAATATTTTA
Found at i:842241 original size:31 final size:32
Alignment explanation
Indices: 842198--842286 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 32
842188 TAATATTAAT
* * *
842198 ATAAAA-ATATATTTTAATATATTTTAAAT-A
1 ATAAAATAAATATTTAAATATAATTTAAATAA
*
842228 ATAAAATAAATATTTAAATCTAATTTAAATAA
1 ATAAAATAAATATTTAAATATAATTTAAATAA
842260 ATAAAAT--AT-TTTAAAT-TAAATTTAAAT
1 ATAAAATAAATATTTAAATAT-AATTTAAAT
842287 TAATTTATAG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 1 0.02
29 16 0.31
30 8 0.15
31 19 0.37
32 8 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
ATAAAATAAATATTTAAATATAATTTAAATAA
Found at i:842285 original size:11 final size:10
Alignment explanation
Indices: 842239--842293 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 10
842229 TAAAATAAAT
842239 ATTTAAATCTA
1 ATTTAAAT-TA
842250 ATTTAAA-TA
1 ATTTAAATTA
* *
842259 A-ATAAAATA
1 ATTTAAATTA
*
842268 TTTTAAATTAA
1 ATTTAAATT-A
842279 ATTTAAATTA
1 ATTTAAATTA
842289 ATTTA
1 ATTTA
842294 TAGATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
8 4 0.11
9 5 0.14
10 11 0.31
11 16 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTTAAATTA
Found at i:843530 original size:30 final size:30
Alignment explanation
Indices: 843456--843522 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
843446 TACTACATTC
* *
843456 AAATAAATCTTTAACTTTTAATTTATATTT
1 AAATAAATCTTTAATTTTTAATTTATACTT
*
843486 AAATAAATCTTTAATTTTTACTTTATACTT
1 AAATAAATCTTTAATTTTTAATTTATACTT
843516 AAATAAA
1 AAATAAA
843523 CCCTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.49
Consensus pattern (30 bp):
AAATAAATCTTTAATTTTTAATTTATACTT
Found at i:846248 original size:28 final size:28
Alignment explanation
Indices: 846213--846270 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
846203 ACTTAACTGA
*
846213 TATCTATAAAAATTAATTAAGTATGATT
1 TATCTATAAAAATTAATTAAATATGATT
* *
846241 TATCTATAAAAATTGATTAAATATTATT
1 TATCTATAAAAATTAATTAAATATGATT
846269 TA
1 TA
846271 GTTAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (28 bp):
TATCTATAAAAATTAATTAAATATGATT
Found at i:853599 original size:12 final size:12
Alignment explanation
Indices: 853582--853609 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
853572 TCATGCATCC
853582 TTGTGGTTTTAT
1 TTGTGGTTTTAT
853594 TTGTGGTTTTAT
1 TTGTGGTTTTAT
853606 TTGT
1 TTGT
853610 AGTAGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.25, T:0.68
Consensus pattern (12 bp):
TTGTGGTTTTAT
Found at i:857122 original size:90 final size:90
Alignment explanation
Indices: 856991--857415 Score: 744
Period size: 90 Copynumber: 4.7 Consensus size: 90
856981 TTCACAAAAC
856991 TGCTGATGCTGAAAACCAGTTTGGCGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
1 TGCTGATGCTGAAAACCAGTTTGGCGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
857056 TTATCGCCTTTCACAAAACTTTTGA
66 TTATCGCCTTTCACAAAACTTTTGA
*
857081 TGCTGATGCTGAAAACCAGTTTGTC-GAGAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCT
1 TGCTGATGCTGAAAACCAGTTTGGCGGA-AGCGACAGAGTGAAGAACTTGGAAGACAAATATTCT
*
857145 AATATCGCCTTTCACAAAACTTTTGA
65 ATTATCGCCTTTCACAAAACTTTTGA
*
857171 TGCTGATGCTGAAAACCAGTTTGGTGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
1 TGCTGATGCTGAAAACCAGTTTGGCGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
* *
857236 GTCTCGCCTTTCACAAAACTTTTGA
66 TTATCGCCTTTCACAAAACTTTTGA
*
857261 TGCTGATGCTGAAAGCCAGTTTGGCGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
1 TGCTGATGCTGAAAACCAGTTTGGCGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
857326 TTATCGCCTTTCACAAAACTTTTGA
66 TTATCGCCTTTCACAAAACTTTTGA
* * * *
857351 TGCTGACGCTGAAAACCACTTTGGCGGAAGCGACGGAGTGAAGAAATTGGAAGACAAATATTCTA
1 TGCTGATGCTGAAAACCAGTTTGGCGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
857416 CGGCTTACTT
Statistics
Matches: 318, Mismatches: 15, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
89 2 0.01
90 314 0.99
91 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (90 bp):
TGCTGATGCTGAAAACCAGTTTGGCGGAAGCGACAGAGTGAAGAACTTGGAAGACAAATATTCTA
TTATCGCCTTTCACAAAACTTTTGA
Found at i:861894 original size:18 final size:18
Alignment explanation
Indices: 861871--861918 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
861861 CGAGATAAAA
861871 ATTAAATTATATATTCAT
1 ATTAAATTATATATTCAT
* **
861889 ATTAAATTA-ATTTTTTT
1 ATTAAATTATATATTCAT
861906 ATTAAATT-TATAT
1 ATTAAATTATATAT
861919 AACAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAAATTATATATTCAT
Found at i:861981 original size:24 final size:26
Alignment explanation
Indices: 861953--862017 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 26
861943 ATTTATGAAT
861953 CATAAAAATTTAATA-ATATAATTTA
1 CATAAAAATTTAATATATATAATTTA
*
861978 -AT-AAAATTAAATATATATAATTTA
1 CATAAAAATTTAATATATATAATTTA
862002 CATAAAAA-TTAATATA
1 CATAAAAATTTAATATA
862018 AAACTTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 10 0.29
24 12 0.34
25 9 0.26
26 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
CATAAAAATTTAATATATATAATTTA
Found at i:862783 original size:13 final size:12
Alignment explanation
Indices: 862752--862801 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
862742 ATCTCCATCC
862752 AATTT-TTATTT
1 AATTTATTATTT
*
862763 ATTGTTATTATATT
1 AAT-TTATTAT-TT
862777 AATTTATT-TTT
1 AATTTATTATTT
862788 -ATTTATTATTT
1 AATTTATTATTT
862799 AAT
1 AAT
862802 AAATATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 7 0.22
11 7 0.22
12 5 0.16
13 9 0.28
14 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
AATTTATTATTT
Found at i:862783 original size:23 final size:22
Alignment explanation
Indices: 862756--862832 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
862746 CCATCCAATT
862756 TTTATTTATT-GTTATTATATTAA
1 TTTATTT-TTAGTTATTAT-TTAA
*
862779 TTTATTTTTATTTATTATTTAA
1 TTTATTTTTAGTTATTATTTAA
** *
862801 TAAATATTTTAGTAATT-TTTAA
1 TTTAT-TTTTAGTTATTATTTAA
862823 -TTATTGTTTA
1 TTTATT-TTTA
862833 ATATAAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 6 0.14
22 14 0.32
23 23 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTATTTTTAGTTATTATTTAA
Found at i:862794 original size:10 final size:10
Alignment explanation
Indices: 862753--862799 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
862743 TCTCCATCCA
862753 ATTTTTATTT
1 ATTTTTATTT
*
862763 ATTGTTA-TT
1 ATTTTTATTT
* *
862772 ATATTAATTT
1 ATTTTTATTT
862782 ATTTTTATTT
1 ATTTTTATTT
862792 ATTATTTA
1 ATT-TTTA
862800 ATAAATATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
9 6 0.21
10 19 0.66
11 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:862811 original size:29 final size:29
Alignment explanation
Indices: 862753--862838 Score: 66
Period size: 33 Copynumber: 2.8 Consensus size: 29
862743 TCTCCATCCA
* *
862753 ATTTTTATTTATTGTTATTATATTAATTT
1 ATTTTTATTTATTGTTAATATAATAATTT
* *
862782 ATTTTTATTTATTATTTAATA-AATATTTTAGT
1 ATTTTTATTTATT-GTTAATATAATA-ATT--T
*
862814 AATTTTTAATTATTGTTTAATATAA
1 -ATTTTTATTTATTG-TTAATATAA
862839 ATATGGATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 16 0.36
30 7 0.16
32 1 0.02
33 18 0.41
34 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (29 bp):
ATTTTTATTTATTGTTAATATAATAATTT
Found at i:862905 original size:28 final size:27
Alignment explanation
Indices: 862874--862985 Score: 91
Period size: 28 Copynumber: 3.8 Consensus size: 27
862864 TTTTATTATT
862874 TAATTTGTATTAATTTTTAATTTAAATA
1 TAATTT-TATTAATTTTTAATTTAAATA
*
862902 TAATTTTAATT-ATTATTTAATATAAATA
1 TAATTTT-ATTAATT-TTTAATTTAAATA
*
862930 TAATTTTATTTATATTTTATTATTTAATATAAATA
1 TAATTTTA--T-TA----ATT-TTTAATTTAAATA
*
862965 TAATTTTAATAATTTTTAATT
1 TAATTTTATTAATTTTTAATT
862986 ATTTATTATG
Statistics
Matches: 71, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
27 11 0.15
28 31 0.44
29 1 0.01
30 1 0.01
32 2 0.03
35 25 0.35
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
TAATTTTATTAATTTTTAATTTAAATA
Found at i:862950 original size:35 final size:34
Alignment explanation
Indices: 862911--862990 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 34
862901 ATAATTTTAA
* *
862911 TTATTATTTAATATAAATATAATTTTATTTATATT
1 TTATTATTTAATATAAATATAATTTTAATAAT-TT
862946 TTATTATTTAATATAAATATAATTTTAATAATTT
1 TTATTATTTAATATAAATATAATTTTAATAATTT
862980 TTAATTATTTA
1 TT-ATTATTTA
862991 TTATGTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 4 0.10
35 38 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TTATTATTTAATATAAATATAATTTTAATAATTT
Found at i:862954 original size:88 final size:89
Alignment explanation
Indices: 862817--862985 Score: 209
Period size: 88 Copynumber: 1.9 Consensus size: 89
862807 TTTTAGTAAT
* * * * * *
862817 TTTTAATTATTGTTTAATATAAATATGGATATTCTTTTTATTGTATATTT-TAT-TATTTAATTT
1 TTTTAATTATTATTTAATATAAATATGAATATTATTTATATTGTATATTTATATAAATATAATTT
*
862880 GTATTAATTTTTAATTTAAATATAA
66 -TAATAATTTTTAATTTAAATATAA
* *
862905 TTTTAATTATTATTTAATATAAATAT-AATTTTATTTATATTTTATTATTTAATATAAATATAAT
1 TTTTAATTATTATTTAATATAAATATGAATATTATTTATATTGTA-TATTT-ATATAAATATAAT
862969 TTTAATAATTTTTAATT
64 TTTAATAATTTTTAATT
862986 ATTTATTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
87 13 0.19
88 30 0.44
90 17 0.25
91 8 0.12
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (89 bp):
TTTTAATTATTATTTAATATAAATATGAATATTATTTATATTGTATATTTATATAAATATAATTT
TAATAATTTTTAATTTAAATATAA
Found at i:863020 original size:63 final size:63
Alignment explanation
Indices: 862890--863020 Score: 140
Period size: 63 Copynumber: 2.1 Consensus size: 63
862880 GTATTAATTT
* * * ** * *
862890 TTAATTTAAATATAATTTTAATTATTATTTAATATAAATATAATTTTATTTATATTTTATTAT
1 TTAATATAAATATAATTTTAATAATTATTTAATATAAATATAATTATATGCATATTTTATAAA
** *
862953 TTAATATAAATATAATTTTAATAATT-TTTAAT-TATTTATTATGTATATGCATATTTTAATAAA
1 TTAATATAAATATAATTTTAATAATTATTTAATATAAATATAAT-TATATGCATATTTT-ATAAA
863016 TTAAT
1 TTAAT
863021 TTTAATAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
61 7 0.12
62 17 0.30
63 32 0.57
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (63 bp):
TTAATATAAATATAATTTTAATAATTATTTAATATAAATATAATTATATGCATATTTTATAAA
Found at i:863036 original size:13 final size:14
Alignment explanation
Indices: 863005--863039 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
862995 GTATATGCAT
863005 ATTTTAATAAATTA
1 ATTTTAATAAATTA
863019 ATTTTAAT-AATTA
1 ATTTTAATAAATTA
*
863032 TTTTTAAT
1 ATTTTAAT
863040 TTTTATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTAATAAATTA
Found at i:864270 original size:2 final size:2
Alignment explanation
Indices: 864263--864290 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
864253 AAATTGTTGT
864263 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
864291 CACTAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:866227 original size:11 final size:11
Alignment explanation
Indices: 866211--866251 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
866201 TAAGAATTTT
866211 ATTATATTATA
1 ATTATATTATA
866222 ATTATATT-TA
1 ATTATATTATA
866232 ATTA-ATTTATA
1 ATTATA-TTATA
*
866243 TTTATATTA
1 ATTATATTA
866252 ATTTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 16 0.62
12 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATATTATA
Found at i:866288 original size:15 final size:16
Alignment explanation
Indices: 866268--866297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
866258 ATATGTTAAT
866268 AATTT-AAATTATATA
1 AATTTAAAATTATATA
866283 AATTTAAAATTATAT
1 AATTTAAAATTATAT
866298 TTTATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTAAAATTATATA
Found at i:868268 original size:22 final size:22
Alignment explanation
Indices: 868234--868276 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
868224 TAAATATTTA
*
868234 TAAAAAAACAAATA-TAATTAT
1 TAAAAAAAAAAATATTAATTAT
868255 TAAAAATAAAAAATATTAATTA
1 TAAAAA-AAAAAATATTAATTA
868277 GTGTTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAAAAAAAATATTAATTAT
Found at i:868839 original size:33 final size:34
Alignment explanation
Indices: 868782--868846 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
868772 GATACGTTAA
*
868782 TAATTCATGTTATATAAATTTTAATA-TATTTAT
1 TAATTCATGTTATATAAATATTAATATTATTTAT
* **
868815 TAATTTATGTTATATTTATATTAATATTATTT
1 TAATTCATGTTATATAAATATTAATATTATTT
868847 TTATATCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (34 bp):
TAATTCATGTTATATAAATATTAATATTATTTAT
Found at i:868849 original size:17 final size:17
Alignment explanation
Indices: 868802--868886 Score: 54
Period size: 17 Copynumber: 5.1 Consensus size: 17
868792 TATATAAATT
868802 TTAATA-TATTTATTA-A
1 TTAATATTATTT-TTATA
* * *
868818 TTTATGTTATATTTATA
1 TTAATATTATTTTTATA
868835 TTAATATTATTTTTATA
1 TTAATATTATTTTTATA
*
868852 -TCATATT-TTATATTATA
1 TTAATATTATT-T-TTATA
*
868869 TTTAA-ATTTTTTTTATA
1 -TTAATATTATTTTTATA
868886 T
1 T
868887 CACATAATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
15 2 0.04
16 15 0.28
17 29 0.54
18 4 0.07
19 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (17 bp):
TTAATATTATTTTTATA
Found at i:870728 original size:34 final size:34
Alignment explanation
Indices: 870661--870876 Score: 292
Period size: 34 Copynumber: 6.4 Consensus size: 34
870651 CATGAATTTC
* * *
870661 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
870694 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
870728 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
870761 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
870795 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
870829 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
870863 TGTTGATTAAATGG
1 TGTTGATTAAATGG
870877 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 40 0.25
34 122 0.75
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:870842 original size:68 final size:67
Alignment explanation
Indices: 870661--870878 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
870651 CATGAATTTC
* * * * *
870661 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
870726 AT
66 AT
* * * *
870728 TGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
870793 AT
66 AT
* * *
870795 TGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGC
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGC
870860 CAT
65 CAT
870863 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
870879 GTTTTTACCA
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (67 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
AT
Found at i:875357 original size:34 final size:34
Alignment explanation
Indices: 875288--875505 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
875278 AAGTGGGAGA
* * *
875288 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
875321 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
875355 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
875388 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
875422 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
875456 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
875490 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
875506 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.26
34 122 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:875471 original size:68 final size:67
Alignment explanation
Indices: 875288--875507 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
875278 AAGTGGGAGA
* * * * *
875288 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
875353 CC
66 CC
* * * *
875355 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
875420 CC
66 CC
* * *
875422 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
875487 GCC
65 GCC
875490 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
875508 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (67 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
CC
Found at i:876487 original size:2 final size:2
Alignment explanation
Indices: 876480--876517 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
876470 ATTCGGATGG
876480 AT AT AT AT AT AT 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 AT AT AT AT AT AT
876518 TTGTTTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:878360 original size:2 final size:2
Alignment explanation
Indices: 878355--878385 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
878345 ATATAATTAT
878355 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
878386 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:881120 original size:14 final size:14
Alignment explanation
Indices: 881101--881131 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
881091 GGTTTTACTG
*
881101 TCATATTACCATGA
1 TCATATTACCAGGA
881115 TCATATTACCAGGA
1 TCATATTACCAGGA
881129 TCA
1 TCA
881132 ATAAGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (14 bp):
TCATATTACCAGGA
Found at i:881679 original size:5 final size:5
Alignment explanation
Indices: 881669--881696 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
881659 GCTCTCTTAA
881669 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
881697 CTTTTCATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:881772 original size:11 final size:11
Alignment explanation
Indices: 881756--881782 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
881746 TAATTTATTT
881756 TATTATTTAAA
1 TATTATTTAAA
881767 TATTATTTAAA
1 TATTATTTAAA
881778 TATTA
1 TATTA
881783 AAAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTATTTAAA
Found at i:881774 original size:19 final size:18
Alignment explanation
Indices: 881737--881801 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
881727 TTTATTTAAA
*
881737 TTAAT-TTAATAATTTATT
1 TTAATATTAA-AAATTATT
* *
881755 TTATTATTTAAATATTATT
1 TTAATA-TTAAAAATTATT
*
881774 TAAATATTAAAAATTATT
1 TTAATATTAAAAATTATT
*
881792 TTTATATTAA
1 TTAATATTAA
881802 TATTTATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 23 0.62
19 10 0.27
20 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATATTAAAAATTATT
Found at i:881817 original size:21 final size:21
Alignment explanation
Indices: 881791--881832 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
881781 TAAAAATTAT
881791 TTTTAT-ATTAATATTTATATA
1 TTTTATAATTAA-ATTTATATA
881812 TTTTATAATTAAATTTATATA
1 TTTTATAATTAAATTTATATA
881833 AAAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATAATTAAATTTATATA
Found at i:885358 original size:58 final size:58
Alignment explanation
Indices: 885268--885383 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
885258 ATCATTTTAG
885268 CAAGACTCTGTTTTTATGTAAAGACTATTAGTAAGGCGAAAATGAAGTCATCTGAAAT
1 CAAGACTCTGTTTTTATGTAAAGACTATTAGTAAGGCGAAAATGAAGTCATCTGAAAT
885326 CAAGACTCTGTTTTTATGTAAAGACTATTAGTAAGGCGAAAATGAAGTCATCTGAAAT
1 CAAGACTCTGTTTTTATGTAAAGACTATTAGTAAGGCGAAAATGAAGTCATCTGAAAT
885384 TTACCCTTCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (58 bp):
CAAGACTCTGTTTTTATGTAAAGACTATTAGTAAGGCGAAAATGAAGTCATCTGAAAT
Found at i:885483 original size:28 final size:29
Alignment explanation
Indices: 885435--885501 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
885425 ACCACAGGAA
*
885435 AAAATAATTAAATAATAT-AAATA-ATAT
1 AAAATAAATAAATAATATAAAATATATAT
* * *
885462 ATAAATAAATAAATATTTTAAAATTTATAT
1 A-AAATAAATAAATAATATAAAATATATAT
885492 AAAATAAATA
1 AAAATAAATA
885502 GCATTTCGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 14 0.42
29 13 0.39
30 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAATAAATAAATAATATAAAATATATAT
Found at i:890779 original size:2 final size:2
Alignment explanation
Indices: 890772--890799 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
890762 ATTTTTATTT
890772 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
890800 ATCAAGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.