Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold314
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: 443445
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 3
Found at i:175364 original size:2 final size:2
Alignment explanation
Indices: 175357--175389 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
175347 TCAAATTTCT
175357 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
175390 TCTTCTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:175850 original size:21 final size:21
Alignment explanation
Indices: 175824--175865 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
175814 TATAATTATT
* *
175824 TTTAATTTTATTATTATAATA
1 TTTAATTTTATAATTACAATA
175845 TTTAATTTTATAATTACAATA
1 TTTAATTTTATAATTACAATA
175866 AGTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAATTTTATAATTACAATA
Found at i:179453 original size:19 final size:19
Alignment explanation
Indices: 179401--179453 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
179391 ATGATAAAAA
*
179401 TTAAAATAAATAATAAAATT
1 TTAAAATATA-AATAAAATT
179421 TTATTAAA-AT-AATAAAATT
1 TTA--AAATATAAATAAAATT
179440 TTAAAATATAAATA
1 TTAAAATATAAATA
179454 TAATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
17 3 0.11
18 2 0.07
19 16 0.57
20 3 0.11
21 1 0.04
22 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAATATAAATAAAATT
Found at i:179470 original size:19 final size:19
Alignment explanation
Indices: 179407--179470 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
179397 AAAATTAAAA
179407 TAAATAATAAAATTTTATT
1 TAAATAATAAAATTTTATT
* *
179426 AAAATAATAAAATTTTAAAATA
1 TAAATAATAAAATTTT---ATT
179448 TAAAT-ATAATAATTTTATT
1 TAAATAATAA-AATTTTATT
179467 TAAA
1 TAAA
179471 AATTAATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 21 0.57
21 4 0.11
22 12 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATAATAAAATTTTATT
Found at i:180289 original size:29 final size:29
Alignment explanation
Indices: 180253--180325 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
180243 TTATTTTTAC
180253 AAAAACTAAAATACTAAATTTAAAAATAT
1 AAAAACTAAAATACTAAATTTAAAAATAT
* * *
180282 AAAAACTAAACTACGAAATTTAATAATAT
1 AAAAACTAAAATACTAAATTTAAAAATAT
**
180311 AAAATTTAAAATACT
1 AAAAACTAAAATACT
180326 TTCTTCATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (29 bp):
AAAAACTAAAATACTAAATTTAAAAATAT
Found at i:180554 original size:29 final size:28
Alignment explanation
Indices: 180521--180577 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
180511 ACAAATGTCA
*
180521 TCCTTTGTATTTGTCAAATATGGTAGGTT
1 TCCTTTGTATTTATCAAATATGGT-GGTT
180550 TCCTTTGTATTTATCAAATATGGTGGTT
1 TCCTTTGTATTTATCAAATATGGTGGTT
180578 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.49
Consensus pattern (28 bp):
TCCTTTGTATTTATCAAATATGGTGGTT
Found at i:185183 original size:23 final size:24
Alignment explanation
Indices: 185153--185197 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
185143 GTGGTTATTT
185153 TTGTTTGT-AAAATTGATGGCTTG
1 TTGTTTGTCAAAATTGATGGCTTG
*
185176 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTCAAAATTGATGGCT
185198 AATTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (24 bp):
TTGTTTGTCAAAATTGATGGCTTG
Found at i:185695 original size:11 final size:13
Alignment explanation
Indices: 185671--185703 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
185661 ACGAAACACG
185671 AGTTTTTTATTTT
1 AGTTTTTTATTTT
185684 A-TTTTTTA-TTT
1 AGTTTTTTATTTT
185695 AGTTTTTTA
1 AGTTTTTTA
185704 GTTAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 14 0.74
13 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (13 bp):
AGTTTTTTATTTT
Found at i:185717 original size:25 final size:24
Alignment explanation
Indices: 185671--185717 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
185661 ACGAAACACG
* * *
185671 AGTTTTTTATTTTATTTTTTATTT
1 AGTTTTTTAGTTAATTTATTATTT
185695 AGTTTTTTAGTTAATATTATTAT
1 AGTTTTTTAGTTAAT-TTATTAT
185718 ATTATAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (24 bp):
AGTTTTTTAGTTAATTTATTATTT
Found at i:188927 original size:34 final size:34
Alignment explanation
Indices: 188863--189045 Score: 251
Period size: 34 Copynumber: 5.4 Consensus size: 34
188853 GTAATAAGCA
* *
188863 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
188896 TGTTGACTAAATGGAAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
188930 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
188964 TATTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
188998 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
189032 TGTTGATTAAATGG
1 TGTTGATTAAATGG
189046 TGGTTTTTAC
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
33 11 0.08
34 119 0.92
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:189408 original size:19 final size:19
Alignment explanation
Indices: 189352--189414 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
189342 TGGTTGTCGA
**
189352 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
*
189371 TGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
189390 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
189409 GTTACT
1 GGTACT
189415 GTACACGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:193546 original size:34 final size:34
Alignment explanation
Indices: 193480--193664 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
193470 AAGTGGGAGA
* *
193480 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
193513 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
193547 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
193581 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
193615 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
193649 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
193665 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:194690 original size:23 final size:19
Alignment explanation
Indices: 194655--194706 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
194645 TATTTATTTT
194655 TATATAATAAAAATTACATAA
1 TATATAATAAAAATTA-AT-A
194676 TATATAAATATAAAATTAATA
1 TATAT-AATA-AAAATTAATA
*
194697 TATATTATAA
1 TATATAATAA
194707 CATTAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 11 0.39
22 6 0.21
23 7 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATAATAAAAATTAATA
Found at i:194705 original size:24 final size:24
Alignment explanation
Indices: 194654--194714 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
194644 GTATTTATTT
194654 TTATATAATA-AAAATTACATAATA
1 TTATA-AATATAAAATTACATAATA
194678 -TATAAATATAAAATTA-ATATATA
1 TTATAAATATAAAATTACATA-ATA
194701 TTATAACAT-TAAAA
1 TTATAA-ATATAAAA
194715 AATAATCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 7 0.21
23 14 0.42
24 10 0.30
25 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (24 bp):
TTATAAATATAAAATTACATAATA
Found at i:195778 original size:16 final size:15
Alignment explanation
Indices: 195759--195788 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
195749 TTTCTATTCG
195759 AGTTATTTTGAATTTA
1 AGTTATTTT-AATTTA
195775 AGTTATTTTAATTT
1 AGTTATTTTAATTT
195789 TGAGTCAATT
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:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
AGTTATTTTAATTTA
Found at i:196022 original size:16 final size:16
Alignment explanation
Indices: 195982--196040 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
195972 GTCTATTCAG
*
195982 ATTTAAATCATTTTAA
1 ATTTAAATTATTTTAA
195998 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTAA
*
196014 ATTTAAATT-TATT-A
1 ATTTAAATTATTTTAA
196028 ATTGTAAATTATT
1 ATT-TAAATTATT
196041 AATTTTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 4 0.11
15 9 0.24
16 25 0.66
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:196039 original size:14 final size:14
Alignment explanation
Indices: 195997--196045 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
195987 AATCATTTTA
*
195997 AATTTAAATTATTTT
1 AATTTAAATT-TATT
196012 AAATTTAAATTTATT
1 -AATTTAAATTTATT
196027 AATTGTAAA-TTATT
1 AATT-TAAATTTATT
196041 AATTT
1 AATTT
196046 TTTTCAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 1 0.03
14 13 0.42
15 7 0.23
16 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
AATTTAAATTTATT
Found at i:196196 original size:14 final size:14
Alignment explanation
Indices: 196164--196212 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
196154 TGAATTTTTT
196164 TATTTTTGTAAATA
1 TATTTTTGTAAATA
*
196178 AATTTTTGTGAAA-A
1 TATTTTTGT-AAATA
**
196192 TATTTTTCAAAATA
1 TATTTTTGTAAATA
196206 TATTTTT
1 TATTTTT
196213 TTCGAATTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 3 0.10
14 23 0.79
15 3 0.10
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTTTTGTAAATA
Found at i:196396 original size:27 final size:27
Alignment explanation
Indices: 196325--196402 Score: 70
Period size: 31 Copynumber: 2.8 Consensus size: 27
196315 AATTAATTAA
*
196325 ATTTAA-TAAATTTAATAAATAATAAT
1 ATTTAATTAAATTTAATAAAAAATAAT
* *
196351 GTATTAATTATTATTTTTAATAAAAAATAAT
1 AT-TTAATTA--A-ATTTAATAAAAAATAAT
*
196382 ATTTAATTAACTTTAA-AAAAA
1 ATTTAATTAAATTTAATAAAAA
196403 TTTACATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
26 6 0.14
27 9 0.21
28 3 0.07
30 8 0.19
31 16 0.38
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
ATTTAATTAAATTTAATAAAAAATAAT
Found at i:196547 original size:36 final size:35
Alignment explanation
Indices: 196507--196591 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 35
196497 TTTAAAAAAA
*
196507 TTATATTAACAAATTAAAA-TATTAATTATTA-TATT
1 TTATA-TAA-AAATAAAAAGTATTAATTATTATTATT
*
196542 TT-TATAAAAATAAAAAGTATTTATTATTATTATT
1 TTATATAAAAATAAAAAGTATTAATTATTATTATT
196576 TT-TA-ATAAAATAAAAA
1 TTATATA-AAAATAAAAA
196592 ATAATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 8 0.18
33 15 0.33
34 20 0.44
35 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (35 bp):
TTATATAAAAATAAAAAGTATTAATTATTATTATT
Found at i:196611 original size:34 final size:33
Alignment explanation
Indices: 196522--196611 Score: 103
Period size: 34 Copynumber: 2.7 Consensus size: 33
196512 TTAACAAATT
*
196522 AAAATATTAATTATTATATTTTTATAAAAATAA
1 AAAATATTTATTATTATATTTTTATAAAAATAA
*
196555 AAAGTATTTATTATTATTATTTTTA-ATAAAATAA
1 AAAATATTTATTATTA-TATTTTTATA-AAAATAA
*
196589 AAAATAATTT-TTAATTAAATTTT
1 AAAAT-ATTTATT-ATTATATTTT
196612 AAAAATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
33 15 0.31
34 26 0.53
35 8 0.16
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
AAAATATTTATTATTATATTTTTATAAAAATAA
Found at i:196660 original size:103 final size:101
Alignment explanation
Indices: 196369--196672 Score: 319
Period size: 111 Copynumber: 2.9 Consensus size: 101
196359 TATTATTTTT
* * *
196369 AATAAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAATATTAATTATT
1 AATAAAAAATAATATTTAATTAAATTT-AAAAAATTTACATTAACAAATTAAAATAATAA-TA-T
** *
196434 TTAAAAA-ATAATTTTTTTATTATTATTATTATTTAATAA
63 TTAAAAATA-AAAATATTTATTATTATTATTATTTAATAA
* * * *
196473 AATTAAAAATAATATTTAATTAAGTTTAAAAAAATTATATTAACAAATTAAAATATTAATTATTA
1 AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATT-AAA-A-TAA-TA--A
196538 TATTTTTATAAAAATAAAAAGTATTTATTATTATTATT-TTTAATAA
60 TA---TT-TAAAAATAAAAA-TATTTATTATTATTATTATTTAATAA
* *
196584 AATAAAAAATAATTTTTAATTAAATTTTAAAAATTTACATTAACAAATTAAAA-AATAATATTTA
1 AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATAATAATATTTA
196648 AAGAATTAAAAA-ATTTATTATTATT
66 AA-AA-TAAAAATATTTATTATTATT
196673 CAAATAAAAA
Statistics
Matches: 172, Mismatches: 15, Indels: 30
0.79 0.07 0.14
Matches are distributed among these distances:
100 17 0.10
101 4 0.02
102 6 0.03
103 19 0.11
104 31 0.18
105 1 0.01
106 4 0.02
107 4 0.02
108 2 0.01
109 2 0.01
110 6 0.03
111 59 0.34
112 17 0.10
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (101 bp):
AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATAATAATATTTA
AAAATAAAAATATTTATTATTATTATTATTTAATAA
Found at i:196666 original size:21 final size:21
Alignment explanation
Indices: 196612--196688 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
196602 ATTAAATTTT
*
196612 AAAAATTTACATTAACAAATTA
1 AAAAATTTA-TTTAACAAATTA
*
196634 AAAAATAATATTTAA-AGAATTA
1 AAAAAT-TTATTTAACA-AATTA
*
196656 AAAAATTTATTATTATTCAAA-TA
1 AAAAATTTA-T-TTA-ACAAATTA
196679 AAAAATTTAT
1 AAAAATTTAT
196689 ATTTAATTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
21 3 0.07
22 23 0.51
23 16 0.36
24 2 0.04
25 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (21 bp):
AAAAATTTATTTAACAAATTA
Found at i:197115 original size:18 final size:19
Alignment explanation
Indices: 197072--197118 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
197062 AAAACATAAT
*
197072 ATTAATATTTTAATTGTTA
1 ATTAATATTTTAAATGTTA
*
197091 ATATAATTTTTTAAAT-TTA
1 AT-TAATATTTTAAATGTTA
197110 ATTAATATT
1 ATTAATATT
197119 ATTTTAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTAATATTTTAAATGTTA
Found at i:197133 original size:115 final size:113
Alignment explanation
Indices: 196924--197245 Score: 322
Period size: 115 Copynumber: 2.8 Consensus size: 113
196914 ATTATAATAA
* * * *
196924 TTTTAATTTAAACTTTTATTTA--AAAAATATAATAATTAATATTTTAATTTATAATATAATTTT
1 TTTTATTTTAAATTTTTATTTTTAAAAAACATAAT-ATTAATATTTTAATTT-TAATATAATTTT
* * *
196987 T-AACTTAATTAAATATTATTTTTTATT-TATTAAAAGTTATAATAAAATCT
64 TAAAATTAATTAAATATTA-TTTTTATTATATTAAAAATAATAATAAAA-CT
*
197037 TTTTATTTTAAATTTTTATTTTTATAAAACATAATATTAATATTTTAATTGTTAATATAATTTTT
1 TTTTATTTTAAATTTTTATTTTTAAAAAACATAATATTAATATTTTAATT-TTAATATAA-TTTT
* * *
197102 TAAATTTAATT-AATATTATTTTAATTATATTAAAAATAATAATATAACT
64 TAAAATTAATTAAATATTATTTTTATTATATTAAAAATAATAATAAAACT
*
197151 TTTTATTTTTTATTTACATTTTT-TATTTTAAAAAAC-T-A-ATTAATA-TTTATTTATTAATAT
1 TTTTA--TTTTA---A-ATTTTTAT-TTTTAAAAAACATAATATTAATATTTTAATT-TTAATAT
*
197211 AAAATTTTAAAATTAATTAAATATTATTTTTATTA
58 -AATTTTTAAAATTAATTAAATATTATTTTTATTA
197246 AAAATAATAA
Statistics
Matches: 178, Mismatches: 16, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
113 19 0.11
114 37 0.21
115 39 0.22
116 39 0.22
117 24 0.13
118 1 0.01
119 3 0.02
120 16 0.09
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.55
Consensus pattern (113 bp):
TTTTATTTTAAATTTTTATTTTTAAAAAACATAATATTAATATTTTAATTTTAATATAATTTTTA
AAATTAATTAAATATTATTTTTATTATATTAAAAATAATAATAAAACT
Found at i:197227 original size:116 final size:115
Alignment explanation
Indices: 196955--197283 Score: 328
Period size: 116 Copynumber: 2.9 Consensus size: 115
196945 AAAAAATATA
* *
196955 ATAATTAATATTTTAATTTA-TAATAT--AATTTTTAACTTAATTAAATATTATTTTTTATT-TA
1 ATAATTAATATTTT-ATTTATTAATATAAAATTTTAAAATTAATTAAATATTA-TTTTTATTATA
* * * *
197016 TTAAAAGTTATAATAAAATCTTTTTA--TTTTAAATTTTTATTTTTATAAAAC
64 TTAAAAATAATAATATAA-CTTTTTATTTTTTAAATTTTTATTTTTAAAAAAC
* * ** * *
197067 ATAATATTAATATTTTAATTGTTAATATAATTTTTTAAATTTAATT-AATATTATTTTAATTATA
1 AT-A-ATTAATATTTTATTTATTAATATAAAATTTTAAAATTAATTAAATATTATTTTTATTATA
197131 TTAAAAATAATAATATAACTTTTTATTTTTTATTTACATTTTT-TATTTTAAAAAAC
64 TTAAAAATAATAATATAACTTTTTATTTTTTA---A-ATTTTTAT-TTTTAAAAAAC
197187 -TAATTAATA-TTTATTTATTAATATAAAATTTTAAAATTAATTAAATATTATTTTTATTA-A--
1 ATAATTAATATTTTATTTATTAATATAAAATTTTAAAATTAATTAAATATTATTTTTATTATATT
*
197247 AAATAATAATTAATAT-A-TTATTATTTTTTAAATTTTT
66 AAA-AATAA-TAATATAACTTTTTATTTTTTAAATTTTT
197284 TTAATTTAAT
Statistics
Matches: 183, Mismatches: 18, Indels: 34
0.78 0.08 0.14
Matches are distributed among these distances:
110 6 0.03
111 1 0.01
112 2 0.01
113 4 0.02
114 46 0.25
115 30 0.16
116 52 0.28
117 22 0.12
118 1 0.01
119 3 0.02
120 16 0.09
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.55
Consensus pattern (115 bp):
ATAATTAATATTTTATTTATTAATATAAAATTTTAAAATTAATTAAATATTATTTTTATTATATT
AAAAATAATAATATAACTTTTTATTTTTTAAATTTTTATTTTTAAAAAAC
Found at i:197937 original size:12 final size:11
Alignment explanation
Indices: 197898--197942 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
197888 TTCACGCACT
197898 AATAAT-AAT-
1 AATAATAAATA
197907 AATAATAATATA
1 AATAATAA-ATA
197919 AATAATAAATA
1 AATAATAAATA
197930 AATGAATAAATA
1 AAT-AATAAATA
197942 A
1 A
197943 GCCCCAAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.19
10 1 0.03
11 8 0.25
12 17 0.53
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
AATAATAAATA
Found at i:198908 original size:2 final size:2
Alignment explanation
Indices: 198901--198934 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
198891 AAACCTGTAG
198901 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
198935 GTGTTTCTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:200186 original size:16 final size:17
Alignment explanation
Indices: 200159--200191 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
200149 TATTTATTAA
200159 TTTATGATTAAAAATTT
1 TTTATGATTAAAAATTT
*
200176 TTTAT-ATTAAATATTT
1 TTTATGATTAAAAATTT
200192 ATAATTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTATGATTAAAAATTT
Found at i:219165 original size:13 final size:13
Alignment explanation
Indices: 219147--219172 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
219137 CAATTTTTTG
219147 TGTATCGATACAT
1 TGTATCGATACAT
219160 TGTATCGATACAT
1 TGTATCGATACAT
219173 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:219911 original size:21 final size:21
Alignment explanation
Indices: 219870--219913 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
219860 CTCTCCTTTA
* *
219870 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
219891 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
219912 TC
1 TC
219914 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:221739 original size:13 final size:13
Alignment explanation
Indices: 221721--221746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
221711 ATAATCACCC
221721 TGTATCGATACAA
1 TGTATCGATACAA
221734 TGTATCGATACAA
1 TGTATCGATACAA
221747 AGAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:223825 original size:15 final size:15
Alignment explanation
Indices: 223805--223835 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
223795 ATTTCGTTTG
*
223805 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
223820 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
223835 G
1 G
223836 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:227905 original size:13 final size:13
Alignment explanation
Indices: 227887--227912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
227877 CAATTTTTTG
227887 TGTATCGATACAT
1 TGTATCGATACAT
227900 TGTATCGATACAT
1 TGTATCGATACAT
227913 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:234091 original size:19 final size:19
Alignment explanation
Indices: 234064--234160 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 19
234054 TAGCTTACAT
234064 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
234083 TGTACCGAT---ACA--T-
1 TGTATCGATACAACACTTA
234096 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
234115 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
234128 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
234148 TGTATCGATACAA
1 TGTATCGATACAA
234161 ATCGTTGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 25
0.70 0.02 0.28
Matches are distributed among these distances:
13 17 0.27
14 2 0.03
16 12 0.19
18 1 0.02
19 18 0.29
20 13 0.21
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:234100 original size:32 final size:32
Alignment explanation
Indices: 234059--234159 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
234049 GGTAGTAGCT
*
234059 TACATTGTATCGATACAACACTTATGTACCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
234091 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
234123 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
234156 TACA
1 TACA
234160 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:234104 original size:13 final size:13
Alignment explanation
Indices: 234083--234139 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
234073 ACAACACTTA
*
234083 TGTACCGATACAT
1 TGTATCGATACAT
234096 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
234114 ATGTATCGATACAT
1 -TGTATCGATACAT
234128 TGTATCGATACA
1 TGTATCGATACA
234140 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:236230 original size:52 final size:52
Alignment explanation
Indices: 236136--236240 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
236126 CTTGTCAAAA
* * *
236136 TTTGTCATCTATAAGTCTAATGTCGTTGGCCTTGGATCAGCACATTGGCACC
1 TTTGTCATCTATAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * * * *
236188 TTTGTCATTTTTAAGTCCAATGTTGCTGGTCTTGAATTAGCACATTGGTACC
1 TTTGTCATCTATAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
236240 T
1 T
236241 GTATTATCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (52 bp):
TTTGTCATCTATAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:236253 original size:52 final size:52
Alignment explanation
Indices: 236140--236253 Score: 120
Period size: 52 Copynumber: 2.2 Consensus size: 52
236130 TCAAAATTTG
* * * * * *
236140 TCATCTATAAGTCTAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTG
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTA
* * * * *
236192 TCATTTTTAAGTCCAATGTTGCTGGTCTTGAATTAGCACATTGGTACCTGTA
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTA
*
236244 TTATCTTTAA
1 TCATCTTTAA
236254 AATCTAGCTC
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (52 bp):
TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTA
Found at i:236745 original size:32 final size:32
Alignment explanation
Indices: 236658--236891 Score: 267
Period size: 32 Copynumber: 7.4 Consensus size: 32
236648 TAAAGCCCAT
* *
236658 AAGTCGGTGGC-ACCCCTTTCAAAGCCCACAC
1 AAGTTGGTGGCAACCCTTTTCAAAGCCCACAC
* * *
236689 AAATTGGTGAC-ACCCTTTTCAAAGCTCACAC
1 AAGTTGGTGGCAACCCTTTTCAAAGCCCACAC
* *
236720 AAGTTGGTGGCAACCCTTTTGAAAGCCTACAC
1 AAGTTGGTGGCAACCCTTTTCAAAGCCCACAC
* * *
236752 AAGCTGATGGCAACCCCTTTCAAAGCCCACAC
1 AAGTTGGTGGCAACCCTTTTCAAAGCCCACAC
* * **
236784 AAGTTAGTGGCAACCTTTTTCAAAATCCACAC
1 AAGTTGGTGGCAACCCTTTTCAAAGCCCACAC
* * *
236816 AAGTCGGTGGCAACCTTTTTCAAAACCCACAC
1 AAGTTGGTGGCAACCCTTTTCAAAGCCCACAC
* *
236848 AAGTCGGTGGCAACTC-TTTCAAAAGCCCACAC
1 AAGTTGGTGGCAACCCTTTTC-AAAGCCCACAC
236880 AAGTTGGTGGCA
1 AAGTTGGTGGCA
236892 TCTCTTTCTT
Statistics
Matches: 172, Mismatches: 29, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
31 39 0.23
32 133 0.77
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (32 bp):
AAGTTGGTGGCAACCCTTTTCAAAGCCCACAC
Found at i:236985 original size:57 final size:57
Alignment explanation
Indices: 236891--237056 Score: 224
Period size: 57 Copynumber: 2.9 Consensus size: 57
236881 AGTTGGTGGC
* * * *
236891 ATCTCTTTCTTAAGCCTAATGTCATTGGCCTTAAATCAATACATTGGCACTTGTCAA
1 ATCTCTTTCTCAAGCCTAATGTCGTTGGCCTTGAATCAAAACATTGGCACTTGTCAA
* * * **
236948 ATCTCTTTCTCAAGCCCAATGTTGTTGGCTTTGAATCAAAACATTAACACTTGTCAA
1 ATCTCTTTCTCAAGCCTAATGTCGTTGGCCTTGAATCAAAACATTGGCACTTGTCAA
* *
237005 ATTTTCTTTCTCAAGCCTAATGTCGTTGGCCTTGAATCAACACATTGGCACT
1 A-TCTCTTTCTCAAGCCTAATGTCGTTGGCCTTGAATCAAAACATTGGCACT
237057 CTTCTCATCT
Statistics
Matches: 92, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 49 0.53
58 43 0.47
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (57 bp):
ATCTCTTTCTCAAGCCTAATGTCGTTGGCCTTGAATCAAAACATTGGCACTTGTCAA
Found at i:237084 original size:52 final size:51
Alignment explanation
Indices: 237021--237521 Score: 435
Period size: 52 Copynumber: 9.7 Consensus size: 51
237011 TTTCTCAAGC
* *
237021 CTAATGTCGTTGGCCTTGAATCAACACATTGGCACTCTTCTCATCTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCAC-CTTCTCATCTTTAAGT
* * * * *
237073 CCAATATCGTTGGCCTTGAATCAACATATTGGCACCCATCTCATTTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCA-CCTTCTCATCTTTAAGT
* ** ** * * *
237125 CCAATGCCCCTGGTCTTGAATCAACACATTGGCACTCTTTTCATCTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCAC-CTTCTCATCTTTAAGT
* * *
237177 TTAATATCGTTGGCCTTGAATCAGCATATTGGTACCTTTCTCATCTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCACC-TTCTCATCTTTAAGT
* * * *
237229 CTAATGTCGTTGGCCTTGAATTAGCACATTGGCACTCTTATTATCTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCAC-CTTCTCATCTTTAAGT
* * * *
237281 CTGATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTCTTATCTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCACC-TTCTCATCTTTAAGT
* * ** ** * * * *
237333 GTAATTTCACTATCCTTGAATTAGCACATTAGCACTCCTGTCATCTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCAC-CTTCTCATCTTTAAGT
* * * * * * *
237385 CCAATATCGTTAGCCTTGAATTAGTATATTGGCACCGTATCATCTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAGT
* * * * * *
237436 CTAGTGTCGCTGGCTTTGAATCAGCACATTGGCACCTTTATCATTTTTAAGT
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCACC-TTCTCATCTTTAAGT
* * * * * *
237488 CTAGTGTCATAGGCCTTGAGTCTGCACATTGGCA
1 CTAATATCGTTGGCCTTGAATCAGCACATTGGCA
237522 TATTGCACAA
Statistics
Matches: 362, Mismatches: 80, Indels: 14
0.79 0.18 0.03
Matches are distributed among these distances:
51 44 0.12
52 315 0.87
53 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (51 bp):
CTAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAGT
Found at i:237157 original size:104 final size:104
Alignment explanation
Indices: 237021--237488 Score: 521
Period size: 104 Copynumber: 4.5 Consensus size: 104
237011 TTTCTCAAGC
* * * *
237021 CTAATGTCGTTGGCCTTGAATCAACACATTGGCACTCTTCTCATCTTTAAGTCCAATATCGTTGG
1 CTAATGTCGCTGGTCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGTTGG
* * *
237086 CCTTGAATCAACATATTGGCACCCATCTCATTTTTAAGT
66 CCTTGAATCAGCATATTGGCACCCTTCTCATCTTTAAGT
* * * * * **
237125 CCAATGCCCCTGGTCTTGAATCAACACATTGGCACTCTTTTCATCTTTAAGTTTAATATCGTTGG
1 CTAATGTCGCTGGTCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGTTGG
* *
237190 CCTTGAATCAGCATATTGGTACCTTTCTCATCTTTAAGT
66 CCTTGAATCAGCATATTGGCACCCTTCTCATCTTTAAGT
* * * * **
237229 CTAATGTCGTTGGCCTTGAATTAGCACATTGGCACTCTTATTATCTTTAAGTCTGATATCGTTGG
1 CTAATGTCGCTGGTCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGTTGG
* * *
237294 CCTTGAATCAGCATATTGGCGCCTTTCTTATCTTTAAGT
66 CCTTGAATCAGCATATTGGCACCCTTCTCATCTTTAAGT
* * * * * * * * *
237333 GTAATTTCACT-ATCCTTGAATTAGCACATTAGCACTCCTGTCATCTTTAAGTCCAATATCGTTA
1 CTAATGTCGCTGGT-CTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGTTG
* * * *
237397 GCCTTGAATTAGTATATTGGCA-CCGTATCATCTTTAAGT
65 GCCTTGAATCAGCATATTGGCACCCTTCTCATCTTTAAGT
* *
237436 CTAGTGTCGCTGG-CTTTGAATCAGCACATTGGCAC-CTTTATCATTTTTAAGTC
1 CTAATGTCGCTGGTC-TTGAATCAGCACATTGGCACTC-TTATCATCTTTAAGTC
237489 TAGTGTCATA
Statistics
Matches: 303, Mismatches: 57, Indels: 9
0.82 0.15 0.02
Matches are distributed among these distances:
102 2 0.01
103 51 0.17
104 250 0.83
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (104 bp):
CTAATGTCGCTGGTCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGTTGG
CCTTGAATCAGCATATTGGCACCCTTCTCATCTTTAAGT
Found at i:237299 original size:156 final size:154
Alignment explanation
Indices: 237022--237521 Score: 509
Period size: 156 Copynumber: 3.2 Consensus size: 154
237012 TTCTCAAGCC
* *
237022 TAATGTCGTTGGCCTTGAATCAACACATTGGCACTCTTCTCATCTTTAAGTCCAATATCGTTGGC
1 TAATATCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCTTTAAGTCCAATATCGTTGGC
* * * * * * * * *
237087 CTTGAATCAACATATTGGCACCCATCTCATTTTTAAGTCCAATGCCCCTGGTCTTGAATCAACAC
66 CTTGAATTAGCATATTGGCA-CCATATCATCTTTAAGT-CTATGTCGCTGGCCTTGAATCAGCAC
*
237152 ATTGGCACTCTTT-TCATCTTTAAGTT
129 ATTGGCAC-CTTTATCATCTTTAAGTG
* * * *
237178 TAATATCGTTGGCCTTGAATCAGCATATTGGTAC-CTTTCTCATCTTTAAGTCTAATGTCGTTGG
1 TAATATCGTTGGCCTTGAATCAGCACATTGGCACTC-TTCTCATCTTTAAGTCCAATATCGTTGG
* * * * *
237242 CCTTGAATTAGCACATTGGCACTCTTATTATCTTTAAGTCTGATATCGTTGGCCTTGAATCAGCA
65 CCTTGAATTAGCATATTGGCAC-CATATCATCTTTAAGTCT-ATGTCGCTGGCCTTGAATCAGCA
* * * *
237307 TATTGGCGCCTTTCTTATCTTTAAGTG
128 CATTGGCACCTTTATCATCTTTAAGTG
* ** ** * * * * *
237334 TAATTTCACTATCCTTGAATTAGCACATTAGCACTCCTGTCATCTTTAAGTCCAATATCGTTAGC
1 TAATATCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCTTTAAGTCCAATATCGTTGGC
* * *
237399 CTTGAATTAGTATATTGGCACCGTATCATCTTTAAGTCTAGTGTCGCTGGCTTTGAATCAGCACA
66 CTTGAATTAGCATATTGGCACCATATCATCTTTAAGTCTA-TGTCGCTGGCCTTGAATCAGCACA
* *
237464 TTGGCACCTTTATCATTTTTAAGTC
130 TTGGCACCTTTATCATCTTTAAGTG
* * * * * *
237489 TAGTGTCATAGGCCTTGAGTCTGCACATTGGCA
1 TAATATCGTTGGCCTTGAATCAGCACATTGGCA
237522 TATTGCACAA
Statistics
Matches: 277, Mismatches: 61, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
154 1 0.00
155 86 0.31
156 189 0.68
157 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (154 bp):
TAATATCGTTGGCCTTGAATCAGCACATTGGCACTCTTCTCATCTTTAAGTCCAATATCGTTGGC
CTTGAATTAGCATATTGGCACCATATCATCTTTAAGTCTATGTCGCTGGCCTTGAATCAGCACAT
TGGCACCTTTATCATCTTTAAGTG
Found at i:239696 original size:146 final size:147
Alignment explanation
Indices: 239472--239764 Score: 561
Period size: 146 Copynumber: 2.0 Consensus size: 147
239462 ACATTAGTTG
*
239472 TTGTTAGAACATGTTCATATCATTTTCCTTGTCATGATTTTAATGTCATTCATCTAGCTAATTTG
1 TTGTTAGAACATGTTCATATCATTTTCCTTGTCATGATTTTAATGTCATTCATCTAGCTAATCTG
239537 TTCATGCAATTTTCTTGTCATCTCCTTATGTGTTTGCTGCATTTTCATTGTCGAAATATATGTTT
66 TTCATGCAATTTTCTTGTCATCTCCTTATGTGTTTGCTGCATTTTCATTGTCGAAATATATGTTT
239602 AAAAGCTGTCAAAAATA
131 AAAAGCTGTCAAAAATA
239619 TTGTTAGAACATGTTCATATCATTTT-CTTGTCATGATTTTAATGTCATTCATCTAGCTAATCTG
1 TTGTTAGAACATGTTCATATCATTTTCCTTGTCATGATTTTAATGTCATTCATCTAGCTAATCTG
*
239683 TTCATGCATTTTTCTTGTCATCTCCTTATGTGTTTGCTGCATTTTCATTGTCGAAATATATGTTT
66 TTCATGCAATTTTCTTGTCATCTCCTTATGTGTTTGCTGCATTTTCATTGTCGAAATATATGTTT
239748 AAAAGCTGTCAAAAATA
131 AAAAGCTGTCAAAAATA
239765 GTTTTTTTAA
Statistics
Matches: 144, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
146 118 0.82
147 26 0.18
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.46
Consensus pattern (147 bp):
TTGTTAGAACATGTTCATATCATTTTCCTTGTCATGATTTTAATGTCATTCATCTAGCTAATCTG
TTCATGCAATTTTCTTGTCATCTCCTTATGTGTTTGCTGCATTTTCATTGTCGAAATATATGTTT
AAAAGCTGTCAAAAATA
Found at i:240923 original size:29 final size:27
Alignment explanation
Indices: 240891--240951 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
240881 ATTTACATTA
*
240891 ATTTTCTTCATCGAGGATACTTTAACCCT
1 ATTTTCTTCA--GAGGATACTCTAACCCT
* *
240920 ATTTTTTTGAGAGGATACTCTAACCCT
1 ATTTTCTTCAGAGGATACTCTAACCCT
240947 ATTTT
1 ATTTT
240952 TAAACTTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 21 0.72
29 8 0.28
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (27 bp):
ATTTTCTTCAGAGGATACTCTAACCCT
Found at i:241099 original size:97 final size:97
Alignment explanation
Indices: 240927--241106 Score: 236
Period size: 97 Copynumber: 1.9 Consensus size: 97
240917 CCTATTTTTT
* * * * *
240927 TGAGAGGATACTCTAACCCTATTTTTAAACTTATCAAGAATTAAATATTATTTTTGCTTAGAGTG
1 TGAGAAGATACTCCAACCCTATTTTTAAACTTATCAAGAATTAAATATTATTTTTGCCTAAAGTA
* *
240992 TCATTATCAGGGATACTCCAACCTCATTCTTC
66 TCATCATCAGGGACACTCCAACCTCATTCTTC
* * * *
241024 TGAGAAGATACTCCAACCCTATTTTTAAACTTGTCACA-ATTTAAATCTTATTTTTGCCTAAATT
1 TGAGAAGATACTCCAACCCTATTTTTAAACTTATCA-AGAATTAAATATTATTTTTGCCTAAAGT
*
241088 ATCATCGTCAGGGACACTC
65 ATCATCATCAGGGACACTC
241107 TAACTCTATT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
97 69 0.99
98 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (97 bp):
TGAGAAGATACTCCAACCCTATTTTTAAACTTATCAAGAATTAAATATTATTTTTGCCTAAAGTA
TCATCATCAGGGACACTCCAACCTCATTCTTC
Found at i:243525 original size:153 final size:151
Alignment explanation
Indices: 243283--243637 Score: 362
Period size: 153 Copynumber: 2.3 Consensus size: 151
243273 ATTTTCGATA
* * * * * * *
243283 TGAAAATATCCCGATAACCCTAAAAGACTTGAAAATGATTATGGAAGGATGAACTTATCCTGAAT
1 TGAAAGTATCCTGATAACCCTAAAGGACTTGAAAAGGA-TATGAAAGGATAAACCTATCCTGAAT
* * *
243348 GCATGCCTTTGGCATAAAAACATCCCAATGACTACATCAGACTTGATTTTAAAAAAATTACT-AA
65 GCAT-CCTTTAGCATAAAAACATCCCAATGACTACATAAGACTTAATTTTAAAAAAATTA-TGAA
*
243412 AATATCCCTAGGTATACTTTCGACT-
128 AATA-CCCTAGGTATACTTTC-AATG
* * *
243437 TGAAAGTAT-TTCGGTAACCTTAAAGGACTTGAAAAGGATATGAAAGGATAAACCTATCCT-ACA
1 TGAAAGTATCCT-GATAACCCTAAAGGACTTGAAAAGGATATGAAAGGATAAACCTATCCTGA-A
*** ** * *
243500 TGTACAT-CTTTAGCATAAAAACATCCTGGTGACTATGTAAGACTTAATTTTAGATAAATTATGA
64 TG--CATCCTTTAGCATAAAAACATCCCAATGACTACATAAGACTTAATTTTAAAAAAATTATGA
*
243564 AAATACCTTAGGTATACTTTCAATG
127 AAATACCCTAGGTATACTTTCAATG
* * *
243589 TGAAAGTATCCTGATAACCCTAAAGAACATG-AAAGGATATGAAATGATA
1 TGAAAGTATCCTGATAACCCTAAAGGACTTGAAAAGGATATGAAAGGATA
243638 TTTTTATCCC
Statistics
Matches: 166, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
151 19 0.11
152 41 0.25
153 73 0.44
154 30 0.18
155 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (151 bp):
TGAAAGTATCCTGATAACCCTAAAGGACTTGAAAAGGATATGAAAGGATAAACCTATCCTGAATG
CATCCTTTAGCATAAAAACATCCCAATGACTACATAAGACTTAATTTTAAAAAAATTATGAAAAT
ACCCTAGGTATACTTTCAATG
Found at i:245568 original size:124 final size:124
Alignment explanation
Indices: 245433--245690 Score: 473
Period size: 124 Copynumber: 2.1 Consensus size: 124
245423 TGCAAAATCG
245433 CAAAATTTATGAGAAAACTTTTACTAGCGAAAATTGTTATGCAAAAAAAAATGCAAAACATCATA
1 CAAAATTTATGAGAAAACTTTTACTAGCGAAAATTGTTATGCAAAAAAAAATGCAAAACATCATA
245498 AAATATAATGATTTTTCAAAATTTGATTTAATATGAATTTTAAAA-ATTTTGATGAATTT
66 AAATATAATGATTTTTCAAAATTTGATTTAATATGAATTTTAAAATA-TTTGATGAATTT
*
245557 CAAAATTTATGAGAAAACTTTTACTAGCGAAAATTGTTATGCAAAAAAATATGCAAAACATCATA
1 CAAAATTTATGAGAAAACTTTTACTAGCGAAAATTGTTATGCAAAAAAAAATGCAAAACATCATA
245622 AAATATAATGATTTTTCAAAATTTGATTTAATATGAATTTTAAAATATTTGATGAATTT
66 AAATATAATGATTTTTCAAAATTTGATTTAATATGAATTTTAAAATATTTGATGAATTT
* *
245681 TAAAAATTAT
1 CAAAATTTAT
245691 AAACTTAGAA
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
124 129 0.99
125 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (124 bp):
CAAAATTTATGAGAAAACTTTTACTAGCGAAAATTGTTATGCAAAAAAAAATGCAAAACATCATA
AAATATAATGATTTTTCAAAATTTGATTTAATATGAATTTTAAAATATTTGATGAATTT
Found at i:247709 original size:97 final size:96
Alignment explanation
Indices: 247608--247792 Score: 239
Period size: 97 Copynumber: 1.9 Consensus size: 96
247598 TATCCCTGAC
* * *
247608 GATGACAATTTAGACGAAAATAATATTTAAAGCTTGACTA-GTTAAAAAATAGGGTTGAAGTATC
1 GATGACAATTTAGACAAAAATAAGATTTAAAGCTTGAC-AGGTTAAAAAACAGGGTTG-AGTATC
247672 CCCTC-GAAGAAATGGGATTAGAGTACGTTCGAT
64 CCCTCGGAAG-AATGGGATTAGAGTACGTTCGAT
* ** * *
247705 GATGATAATTTAGGTAAAAATAAGATTTAAAGCTTGACAGGTTTAAAAACATGGTTGAGTATCCC
1 GATGACAATTTAGACAAAAATAAGATTTAAAGCTTGACAGGTTAAAAAACAGGGTTGAGTATCCC
* *
247770 CTCGGAAGAATGGGGTTGGAGTA
66 CTCGGAAGAATGGGATTAGAGTA
247793 TCCCCAATAA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
96 25 0.33
97 51 0.67
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (96 bp):
GATGACAATTTAGACAAAAATAAGATTTAAAGCTTGACAGGTTAAAAAACAGGGTTGAGTATCCC
CTCGGAAGAATGGGATTAGAGTACGTTCGAT
Found at i:250181 original size:31 final size:31
Alignment explanation
Indices: 250139--250330 Score: 357
Period size: 31 Copynumber: 6.2 Consensus size: 31
250129 GATATAATGA
* *
250139 AGAATGTATCGATACATTTGGGTCAAAACCT
1 AGAATGCATCGATACATTTGGGTCAAAACCC
*
250170 AGAATGCATCGATACATTTGAGTCAAAACCC
1 AGAATGCATCGATACATTTGGGTCAAAACCC
250201 AGAATGCATCGATACATTTGGGTCAAAACCC
1 AGAATGCATCGATACATTTGGGTCAAAACCC
250232 AGAATGCATCGATACATTTGGGTCAAAACCC
1 AGAATGCATCGATACATTTGGGTCAAAACCC
250263 AGAATGCATCGATACATTTGGGTCAAAACCC
1 AGAATGCATCGATACATTTGGGTCAAAACCC
250294 AGAATGCATCGATACATTTGGGTCAAAACCC
1 AGAATGCATCGATACATTTGGGTCAAAACCC
250325 AGAATG
1 AGAATG
250331 TATCAAGACA
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (31 bp):
AGAATGCATCGATACATTTGGGTCAAAACCC
Found at i:254722 original size:41 final size:39
Alignment explanation
Indices: 254676--254871 Score: 162
Period size: 41 Copynumber: 4.9 Consensus size: 39
254666 GAATCAACAA
* *
254676 AGGAAAAAAGTTGATCAAGACAAAACCATACGAGTTAATG
1 AGGAAAAAAGTTGA-CGAGACAAAACCATACGAGTCAATG
* * * ** * *
254716 AGGGAAAGAGTTTACCGAGATGAAACTATACAAGTCAACT-
1 AGGAAAAAAGTTGA-CGAGACAAAACCATACGAGTCAA-TG
** * *
254756 AGGAAAAAATGTTGACTGAGATGAAACCATATGAGTCAGTG
1 AGGAAAAAA-GTTGAC-GAGACAAAACCATACGAGTCAATG
*
254797 AGGAAAAAAAGTTGACCGAGACAAAACCATACAAGTCAATG
1 AGG-AAAAAAGTTGA-CGAGACAAAACCATACGAGTCAATG
* *
254838 AGG-AAAAAGTTGACTAGGACAAAACTATACGAGT
1 AGGAAAAAAGTTGACGA-GACAAAACCATACGAGT
254872 TAACAAAGGG
Statistics
Matches: 124, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 25 0.20
40 37 0.30
41 53 0.43
42 7 0.06
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.18
Consensus pattern (39 bp):
AGGAAAAAAGTTGACGAGACAAAACCATACGAGTCAATG
Found at i:254842 original size:82 final size:79
Alignment explanation
Indices: 254698--254852 Score: 186
Period size: 82 Copynumber: 1.9 Consensus size: 79
254688 GATCAAGACA
* * * * ** *
254698 AAACCATACGAGTTAATGAGGGAAAGAGTTTACCGAGATGAAACTATACAAGTCAACTAGGAAAA
1 AAACCATACGAGTCAATGAGGAAAAAAGTTGACCGAGACAAAACCATACAAGTCAACTAGG-AAA
254763 AATGTTGACTGAGATG
65 AA-GTTGACTGAGATG
* *
254779 AAACCATATGAGTCAGTGAGGAAAAAAAGTTGACCGAGACAAAACCATACAAGTCAA-TGAGGAA
1 AAACCATACGAGTCAATGAGG-AAAAAAGTTGACCGAGACAAAACCATACAAGTCAACT-AGGAA
254843 AAAGTTGACT
64 AAAGTTGACT
254853 AGGACAAAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 7 0.11
81 24 0.38
82 32 0.51
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.19
Consensus pattern (79 bp):
AAACCATACGAGTCAATGAGGAAAAAAGTTGACCGAGACAAAACCATACAAGTCAACTAGGAAAA
AGTTGACTGAGATG
Found at i:255006 original size:105 final size:104
Alignment explanation
Indices: 254894--255391 Score: 339
Period size: 105 Copynumber: 4.7 Consensus size: 104
254884 ACCATAGTTG
*
254894 AACCTAAGTCAAAAATGGTCGACTAAGGTTAAACCATTACAATCAACAAAATAGAGGTA-TTAAC
1 AACCTAAGTCAAAAA-GGTCGACTAAGGCTAAACCATTACAATCAACAAAATAGAGG-AGTTAAC
*
254958 TAGGGCTAAACTAGTAAAGTCAACAAAAGTGACTAGGACAA
64 TAGGGCTAAACTAGTAAAGTCAACAAAAGTGACTAGGATAA
* * * * * * ** *
254999 AACCTAAGTTGAAAAAGGTTGACCAGGGCTAAACCATTATAGTCAACAAGTTAGAGAAGTTAACT
1 AACCTAAG-TCAAAAAGGTCGACTAAGGCTAAACCATTACAATCAACAAAATAGAGGAGTTAACT
* * * * *
255064 AGGG---AACCATTATAGTCAACTAAAGGTGACTAAGATAA
65 AGGGCTAAACTAGTAAAGTCAAC-AAAAGTGACTAGGATAA
* * * *
255102 AACCTAAGTCGAAAAAGG-CTGACTAAGGCAAAACCATTACAAT-AAAAAAACTAGAAGA-TTGA
1 AACCTAAGTC-AAAAAGGTC-GACTAAGGCTAAACCATTACAATCAACAAAA-TAGAGGAGTTAA
* * * * * *
255164 CTAGGGCTAAACTAGTATAA-TTAATAAAAAATGATTAGGGTGA
63 CTAGGGCTAAACTAGTA-AAGTCAA-CAAAAGTGACTAGGATAA
* * * ** * * * * *
255207 GACCTTAGTTAAAAAGGGTTAACAAAGGCTAAACCATTACAATCGACAAATTAGAGGAGTTGACA
1 AACCTAAGTCAAAAA-GGTCGACTAAGGCTAAACCATTACAATCAACAAAATAGAGGAGTTAACT
* * *
255272 AGGGCTAAACTAGTATAGTCAACAAGTTAGAGGTGACTAGGGTGA
65 AGGGCTAAACTAGTAAAGTCAACAA---A-A-GTGACTAGGATAA
* * * * * * * * *
255317 AACC-ATAGTCGAAAAAGGTTGACCAGGGCTAAACCATTATAGTCAACAAATTAGAGGGGTTGAT
1 AACCTA-AGTC-AAAAAGGTCGACTAAGGCTAAACCATTACAATCAACAAAATAGAGGAGTTAAC
*
255381 TAAGGCTAAAC
64 TAGGGCTAAAC
255392 CAATACAATC
Statistics
Matches: 300, Mismatches: 70, Indels: 41
0.73 0.17 0.10
Matches are distributed among these distances:
102 27 0.09
103 52 0.17
104 6 0.02
105 108 0.36
106 34 0.11
108 1 0.00
109 1 0.00
110 66 0.22
111 5 0.02
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.21
Consensus pattern (104 bp):
AACCTAAGTCAAAAAGGTCGACTAAGGCTAAACCATTACAATCAACAAAATAGAGGAGTTAACTA
GGGCTAAACTAGTAAAGTCAACAAAAGTGACTAGGATAA
Found at i:255409 original size:110 final size:110
Alignment explanation
Indices: 255233--255487 Score: 282
Period size: 110 Copynumber: 2.3 Consensus size: 110
255223 GGTTAACAAA
* * * * * *
255233 GGCTAAACCATTACAATCGACAAATTAGAGGAGTTGACAAGGGCTAAACTAGTATAGTCAACAAG
1 GGCTAAACCATTACAATCAACAAATTAGAGGGGTTGACAAGGGCTAAACCAATACAATCAACAAG
* ** *
255298 TTAGAGGTGA-CTAGGGTGAAACCAT-AGTCGAAAAAGGTTGACCAG
66 TTAGAGGTGATCAAGGCAG-AACCATAAG-CGAAAAAGGCTGACCAG
* * * *
255343 GGCTAAACCATTATAGTCAACAAATTAGAGGGGTTGATTAA-GGCTAAACCAATACAATCAATAA
1 GGCTAAACCATTACAATCAACAAATTAGAGGGGTTGA-CAAGGGCTAAACCAATACAATCAACAA
* **
255407 GTTAGAGTTGATCAAGGCAGAACTTTAAGCGAAAAAGGCTGACCAG
65 GTTAGAGGTGATCAAGGCAGAACCATAAGCGAAAAAGGCTGACCAG
* * *
255453 GTCTAAATCATTACAATAAACAAATTAGAGGGGTT
1 GGCTAAACCATTACAATCAACAAATTAGAGGGGTT
255488 ATTTTGAAAG
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
110 111 0.93
111 9 0.08
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (110 bp):
GGCTAAACCATTACAATCAACAAATTAGAGGGGTTGACAAGGGCTAAACCAATACAATCAACAAG
TTAGAGGTGATCAAGGCAGAACCATAAGCGAAAAAGGCTGACCAG
Found at i:256931 original size:79 final size:78
Alignment explanation
Indices: 256848--257387 Score: 436
Period size: 79 Copynumber: 6.9 Consensus size: 78
256838 ATGAGGTGGG
* * *
256848 GTATCCCCTCGGAAATAACATGGTTCGAGTATCCCTGATGGTGGAAAATTAGTGTTTTAGAAATA
1 GTATCCCCTCGAAAATAACAGGGTT-GAGTATCCCTGATGGTGGAAAATTAGTATTTTAGAAATA
* *
256913 AAACTGGAGTTAGA
65 AAACCGGGGTTAGA
* * * ** * * * *
256927 GTATCCCTTCGAAAATAACAGGGCTGCAGTATCCCCGATAAT-AAAAAATCGATGTTTTAGAAAT
1 GTATCCCCTCGAAAATAACAGGGTTG-AGTATCCCTGATGGTGGAAAATTAG-TATTTTAGAAAT
256991 AAAACCGGGGTTAGA
64 AAAACCGGGGTTAGA
* * *
257006 GTATCCCCTCAAAAATAAC-GAGGTTAGAGTATCCTCT-ATGGTGGAAAA-TCGATATTTTAAAA
1 GTATCCCCTCGAAAATAACAG-GGTT-GAGTATCC-CTGATGGTGGAAAATTAG-TATTTTAGAA
* *
257068 ATAAAACCGTGGTTGGA
62 ATAAAACCGGGGTTAGA
* * * * ** *
257085 GTATCCCTTCAAAAATAA-TGGGTTAAGGTATCCCCAATGGTGAAAAATTAGTATTTTAGAAATA
1 GTATCCCCTCGAAAATAACAGGGTTGA-GTATCCCTGATGGTGGAAAATTAGTATTTTAGAAATA
257149 AAACCGGGGTTAGA
65 AAACCGGGGTTAGA
* * * *
257163 GTATCCCTTCAAAAATAACGGGGTTGGAGTAT-CCTCGATGGTGGAAAATCAGTATTTTAGAAAT
1 GTATCCCCTCGAAAATAACAGGGTT-GAGTATCCCT-GATGGTGGAAAATTAGTATTTTAGAAAT
* * *
257227 AAGACTGGGGTTGGA
64 AAAACCGGGGTTAGA
* * *
257242 GTATCTCCTCGAAAATAACAGGGTTAGAGTAT-CCTCAATGGTGAAAAATT-G-ATGTTTAAGAA
1 GTATCCCCTCGAAAATAACAGGGTT-GAGTATCCCT-GATGGTGGAAAATTAGTAT-TTT-AGAA
* ** * *
257304 ATAAAATCAAGATTGGA
62 ATAAAACCGGGGTTAGA
* * * * **
257321 GCATCCACTCGGAAATAACGGGGTTGGAGTAT-CCTCGATGGT-GAAAAACAGTATTTTAGAAAT
1 GTATCCCCTCGAAAATAACAGGGTT-GAGTATCCCT-GATGGTGGAAAATTAGTATTTTAGAAAT
257384 AAAA
64 AAAA
257388 ACATAAATGA
Statistics
Matches: 380, Mismatches: 64, Indels: 35
0.79 0.13 0.07
Matches are distributed among these distances:
77 4 0.01
78 90 0.24
79 277 0.73
80 9 0.02
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (78 bp):
GTATCCCCTCGAAAATAACAGGGTTGAGTATCCCTGATGGTGGAAAATTAGTATTTTAGAAATAA
AACCGGGGTTAGA
Found at i:257182 original size:157 final size:155
Alignment explanation
Indices: 256860--257387 Score: 559
Period size: 157 Copynumber: 3.4 Consensus size: 155
256850 ATCCCCTCGG
** * * * * *
256860 AAATAACATGGTTCGAGTATCC-CTGATGGTGGAAAATTAGTGTTTTAGAAATAAAACTGGAGTT
1 AAATAACGGGGTTGGAGTATCCTC-GATGGTGGAAAATCAGTATTTTAGAAATAAAACCGGGGTT
* * * * ** * *
256924 AGAGTATC-CCTTCGAAAATAACAGGGCT-GCAGTATCCCCGATAATAAAAAATCGATGTTTTAG
65 GGAGTATCTCC-TCAAAAATAACAGGGTTAG-AGTATCCCCAATGGTGAAAAATTGA--TTTTAG
256987 AAATAAAACCGGGGTTAGAGTATCCCCTCAA
126 AAATAAAACCGGGGTTAGAGTAT-CCCTCAA
* * * * *
257018 AAATAACGAGGTTAGAGTATCCTCTATGGTGGAAAATC-GATATTTTAAAAATAAAACCGTGGTT
1 AAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAG-TATTTTAGAAATAAAACCGGGGTT
*
257082 GGAGTATC-CCTTCAAAAATAA-TGGGTTA-AGGTATCCCCAATGGTGAAAAATTAGTATTTTAG
65 GGAGTATCTCC-TCAAAAATAACAGGGTTAGA-GTATCCCCAATGGTGAAAAATT-G-ATTTTAG
257144 AAATAAAACCGGGGTTAGAGTATCCCTTCAA
126 AAATAAAACCGGGGTTAGAGTATCCC-TCAA
* *
257175 AAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATAAGACTGGGGTTG
1 AAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATAAAACCGGGGTTG
* *
257240 GAGTATCTCCTCGAAAATAACAGGGTTAGAGTATCCTCAATGGTGAAAAATTGATGTTTAAGAAA
66 GAGTATCTCCTCAAAAATAACAGGGTTAGAGTATCCCCAATGGTGAAAAATTGAT-TTT-AGAAA
* ** * * * **
257305 TAAAATCAAGATTGGAGCATCCACTCGG
129 TAAAACCGGGGTTAGAGTATCC-CTCAA
*
257333 AAATAACGGGGTTGGAGTATCCTCGATGGT-GAAAAACAGTATTTTAGAAATAAAA
1 AAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATAAAA
257388 ACATAAATGA
Statistics
Matches: 317, Mismatches: 39, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
156 6 0.02
157 154 0.49
158 153 0.48
159 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (155 bp):
AAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATAAAACCGGGGTTG
GAGTATCTCCTCAAAAATAACAGGGTTAGAGTATCCCCAATGGTGAAAAATTGATTTTAGAAATA
AAACCGGGGTTAGAGTATCCCTCAA
Found at i:257246 original size:236 final size:237
Alignment explanation
Indices: 256860--257387 Score: 611
Period size: 236 Copynumber: 2.2 Consensus size: 237
256850 ATCCCCTCGG
** * * * * *
256860 AAATAACATGGTTCGAGTATCCCTGATGGTGGAAAATTAGTGTTTTAGAAATAAAACTGGAGTTA
1 AAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATTAGTATTTTAGAAATAAAACCGGAGTTA
* *
256925 GAGTATCCCTTCGAAAATAACAGGGCTGCAGTATCCCCGATAATAAAAAATCGATGTTTTAGAAA
66 GAGTATCCCTTCAAAAATAACAGGGCTGCAGTATCCCCGATAATAAAAAATCGATATTTTAGAAA
* *
256990 TAAAACCGGGGTTAGAGTATCCCCTCAAAAATAAC-GAGGTTAGAGTATCCTCTATGGTGGAAAA
131 TAAAACCGGGGTTAGAGTATCCCCTCAAAAATAACAG-GGTTAGAGTATCCTCAATGGTGAAAAA
* ** * *
257054 TCGATATTTTAA-AAATAAAACCGTGGTTGGAGTATCC-CTTCAA
195 TCGAT-GTTTAAGAAATAAAACCAAGATTGGAGCATCCAC-TCAA
* * *
257097 AAATAA-TGGGTTA-AGGTATCCCCAATGGTGAAAAATTAGTATTTTAGAAATAAAACCGGGGTT
1 AAATAACGGGGTTAGA-GTATCCCCGATGGTGAAAAATTAGTATTTTAGAAATAAAACCGGAGTT
* * * * ** **
257160 AGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATC-AGTATTTTAGA
65 AGAGTATCCCTTCAAAAATAACAGGGCTGCAGTATCCCCGATAATAAAAAATCGA-TATTTTAGA
* * * * *
257224 AATAAGACTGGGGTTGGAGTATCTCCTCGAAAATAACAGGGTTAGAGTATCCTCAATGGTGAAAA
129 AATAAAACCGGGGTTAGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCTCAATGGTGAAAA
* * **
257289 ATTGATGTTTAAGAAATAAAATCAAGATTGGAGCATCCACTCGG
194 ATCGATGTTTAAGAAATAAAACCAAGATTGGAGCATCCACTCAA
* * *
257333 AAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAA-CAGTATTTTAGAAATAAAA
1 AAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATTAGTATTTTAGAAATAAAA
257388 ACATAAATGA
Statistics
Matches: 244, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
235 7 0.03
236 205 0.84
237 31 0.13
238 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (237 bp):
AAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATTAGTATTTTAGAAATAAAACCGGAGTTA
GAGTATCCCTTCAAAAATAACAGGGCTGCAGTATCCCCGATAATAAAAAATCGATATTTTAGAAA
TAAAACCGGGGTTAGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCTCAATGGTGAAAAAT
CGATGTTTAAGAAATAAAACCAAGATTGGAGCATCCACTCAA
Found at i:257350 original size:158 final size:157
Alignment explanation
Indices: 256848--257387 Score: 619
Period size: 158 Copynumber: 3.4 Consensus size: 157
256838 ATGAGGTGGG
** ** * * *
256848 GTATCCCCTCGGAAATAACATGGTTCGAGTATCC-CTGATGGTGGAAAATTAGTGTTTTAGAAAT
1 GTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTC-GATGGTGGAAAATCAGTATTTTAGAAAT
* * * * ** *
256912 AAAACTGGAGTTAGAGTATCCCTTCGAAAATAACAGGGCT-GCAGTATCCCCGATAATAAAAAAT
65 AAAACTGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTAG-AGTATCCCCAATGGTGAAAAAT
*
256976 CGATGTTTTAGAAATAAAACCGGGGTTAGA
129 TGATG-TTTAGAAATAAAACCGGGGTTAGA
* * * *
257006 GTATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCTATGGTGGAAAATC-GATATTTTAAAAAT
1 GTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAG-TATTTTAGAAAT
* * * *
257070 AAAACCGTGGTTGGAGTATCCCTTCAAAAATAA-TGGGTTA-AGGTATCCCCAATGGTGAAAAAT
65 AAAACTGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTAGA-GTATCCCCAATGGTGAAAAAT
257133 TAGTAT-TTTAGAAATAAAACCGGGGTTAGA
129 T-G-ATGTTTAGAAATAAAACCGGGGTTAGA
*
257163 GTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATA
1 GTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATA
* *
257228 AGACTGGGGTTGGAGTATCTCC-TCGAAAATAACAGGGTTAGAGTATCCTCAATGGTGAAAAATT
66 AAACTGGGGTTGGAGTATC-CCTTCGAAAATAACAGGGTTAGAGTATCCCCAATGGTGAAAAATT
* ** * *
257292 GATGTTTAAGAAATAAAATCAAGATTGGA
130 GATGTTT-AGAAATAAAACCGGGGTTAGA
* * ** *
257321 GCATCCACTCGGAAATAACGGGGTTGGAGTATCCTCGATGGT-GAAAAACAGTATTTTAGAAATA
1 GTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATA
257385 AAA
66 AAA
257388 ACATAAATGA
Statistics
Matches: 326, Mismatches: 44, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
156 3 0.01
157 156 0.48
158 163 0.50
159 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (157 bp):
GTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATA
AAACTGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTAGAGTATCCCCAATGGTGAAAAATTG
ATGTTTAGAAATAAAACCGGGGTTAGA
Found at i:262547 original size:13 final size:13
Alignment explanation
Indices: 262529--262555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
262519 TACAGCAAGT
262529 ATGTATCGATACA
1 ATGTATCGATACA
262542 ATGTATCGATACA
1 ATGTATCGATACA
262555 A
1 A
262556 AAAAAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:268141 original size:34 final size:34
Alignment explanation
Indices: 267982--268152 Score: 157
Period size: 34 Copynumber: 5.1 Consensus size: 34
267972 TTCAGTGGCA
* *
267982 TTTCTTTTCAAAGTCCACAACTCTGTGGCAACCTT
1 TTTCTATT-AAAGTCCACAAATCTGTGGCAACCTT
* * * *
268017 TTTCTATTAATGTCCACAATTCTATGGCAACCAT
1 TTTCTATTAAAGTCCACAAATCTGTGGCAACCTT
* **
268051 TTTCTGTTAAAGTCCACAAATCCATGGC-ACC-T
1 TTTCTATTAAAGTCCACAAATCTGTGGCAACCTT
** * * *
268083 TCCCTTTTTAAGTACACAAATCTGTGGCAACCTT
1 TTTCTATTAAAGTCCACAAATCTGTGGCAACCTT
* * * *
268117 TTTCTATTAAAGTTCACAACTCTGTGACACCCTT
1 TTTCTATTAAAGTCCACAAATCTGTGGCAACCTT
268151 TT
1 TT
268153 AAGTCCACAA
Statistics
Matches: 110, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
32 22 0.20
33 6 0.05
34 75 0.68
35 7 0.06
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (34 bp):
TTTCTATTAAAGTCCACAAATCTGTGGCAACCTT
Found at i:268162 original size:27 final size:27
Alignment explanation
Indices: 268126--268299 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
268116 TTTTCTATTA
* * *
268126 AAGTTCACAACTCTGTGACACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
268153 AAGTCCACAACTCCATGACATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
268180 AAGTCCTGCAACTCTGTGGCACCCTTTT
1 AAGTCC-ACAACTCCGTGGCACCCTTTT
** *
268208 AAGTCTGCAACTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
268235 AAGTCCATAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
268262 AAGTCCATAACTACGTGGCACCCTTTTT
1 AAGTCCACAACTCCGTGGCACCC-TTTT
*
268290 AAGCCCACAA
1 AAGTCCACAA
268300 GTCAATGGCA
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
27 93 0.74
28 33 0.26
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:268292 original size:55 final size:54
Alignment explanation
Indices: 268133--268288 Score: 206
Period size: 55 Copynumber: 2.9 Consensus size: 54
268123 TTAAAGTTCA
* * *
268133 CAACTCTGTGACACCCTTTTAAGTCCACAACTCCATGACATCCTTTTAAGTCCT
1 CAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCT
**
268187 GCAACTCTGTGGCACCCTTTTAAGTCTGCAACTCCATGGCACCCTTTTAAGTCCAT
1 -CAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCC-T
* * * *
268243 -AACTCCGTGGCACCCTTTTAAGTCCATAACTACGTGGCACCCTTTT
1 CAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
268289 TAAGCCCACA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 40 0.45
55 48 0.54
56 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.31
Consensus pattern (54 bp):
CAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCT
Found at i:268308 original size:82 final size:81
Alignment explanation
Indices: 268144--268312 Score: 207
Period size: 82 Copynumber: 2.1 Consensus size: 81
268134 AACTCTGTGA
*
268144 CACCCTTTTAAGTCCACAACTCCATGACATCCTTTTAAGTCCTGCAACTCTGTGGCACCCTTTTA
1 CACCCTTTTAAGTCCACAACTCCATGACACCCTTTTAAGTCCT-CAACTCTGTGGCACCCTTTTA
* ** *
268209 AGTCTGCAACTCCATGG
65 AGCCCACAACTCAATGG
* * *
268226 CACCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCAT-AACTAC-GTGGCACCCTTTT
1 CACCCTTTTAAGTCCACAACTCCATGACACCCTTTTAAGTCC-TCAACT-CTGTGGCACCC-TTT
*
268289 TAAGCCCACAAGTCAATGG
63 TAAGCCCACAACTCAATGG
268308 CACCC
1 CACCC
268313 CTCTTTAAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
81 13 0.17
82 61 0.81
83 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (81 bp):
CACCCTTTTAAGTCCACAACTCCATGACACCCTTTTAAGTCCTCAACTCTGTGGCACCCTTTTAA
GCCCACAACTCAATGG
Found at i:268431 original size:32 final size:32
Alignment explanation
Indices: 268386--268759 Score: 364
Period size: 32 Copynumber: 11.7 Consensus size: 32
268376 TTTTTTCCAG
*
268386 AAGCCCACACAAGCTGGTGGTAACCTCTTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTCTTCTA
* * *
268418 AAGTCCACACAAGCTGGTAGCAACCTTTTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTCTTCTA
* *
268450 AAGCCCATACAAG-TCGGTGGCAACCTTTTCTA
1 AAGCCCACACAAGCT-GGTGGCAACCTCTTCTA
* * *
268482 AAGTCCACACAAGTTGGTCGCAACCTCTTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTCTTCTA
* * * * *
268514 AAACCTAAACTAG-TCGGTGGCAACCTTTTCTA
1 AAGCCCACACAAGCT-GGTGGCAACCTCTTCTA
* * * *
268546 AAGTCCGCACAAGTTGGTGGCAACC-CCTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTCTTCTA
*
268577 AAGCCCACACAAGCTGGTGGCAACCTTTTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTCTTCTA
* *
268609 AAGCCCACACAAG-TCGGTGGC-ACCCCCTCTA
1 AAGCCCACACAAGCT-GGTGGCAACCTCTTCTA
* *
268640 AAGCCCACACAAGCTGGTGGCAACATTTTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTCTTCTA
* * *
268672 AAGCCCAAACAAGTTGGTGGC-ACCCCTTCCTA
1 AAGCCCACACAAGCTGGTGGCAACCTCTT-CTA
* * *
268704 AAGCTCACACAAGCTGATGGTAACCTCTTCTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTC-T-TCTA
* * *
268738 AAACCCACATAAGTTGGTGGCA
1 AAGCCCACACAAGCTGGTGGCA
268760 TCTCTTTCTA
Statistics
Matches: 275, Mismatches: 55, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
31 59 0.21
32 189 0.69
33 6 0.02
34 20 0.07
35 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (32 bp):
AAGCCCACACAAGCTGGTGGCAACCTCTTCTA
Found at i:268469 original size:64 final size:64
Alignment explanation
Indices: 268386--268759 Score: 434
Period size: 64 Copynumber: 5.8 Consensus size: 64
268376 TTTTTTCCAG
* * * * **
268386 AAGCCCACACAAGCTGGTGGTAACCTCTTCTAAAGTCCACACAAGCTGGTAGCAACCTTTTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTTTTCTAAAGTCCACACAAGTTGGTGGCAACCCCTTCTA
* * *
268450 AAGCCCATACAAG-TCGGTGGCAACCTTTTCTAAAGTCCACACAAGTTGGTCGCAACCTCTTCTA
1 AAGCCCACACAAGCT-GGTGGCAACCTTTTCTAAAGTCCACACAAGTTGGTGGCAACCCCTTCTA
* * * * *
268514 AAACCTAAACTAG-TCGGTGGCAACCTTTTCTAAAGTCCGCACAAGTTGGTGGCAACCCC-TCTA
1 AAGCCCACACAAGCT-GGTGGCAACCTTTTCTAAAGTCCACACAAGTTGGTGGCAACCCCTTCTA
* * *
268577 AAGCCCACACAAGCTGGTGGCAACCTTTTCTAAAGCCCACACAAGTCGGTGGC-ACCCCCTCTA
1 AAGCCCACACAAGCTGGTGGCAACCTTTTCTAAAGTCCACACAAGTTGGTGGCAACCCCTTCTA
* * *
268640 AAGCCCACACAAGCTGGTGGCAACATTTTCTAAAGCCCAAACAAGTTGGTGGC-ACCCCTTCCTA
1 AAGCCCACACAAGCTGGTGGCAACCTTTTCTAAAGTCCACACAAGTTGGTGGCAACCCCTT-CTA
* * * ** *
268704 AAGCTCACACAAGCTGATGGTAACCTCTTCTCTAAAACCCACATAAGTTGGTGGCA
1 AAGCCCACACAAGCTGGTGGCAACCT-TT-TCTAAAGTCCACACAAGTTGGTGGCA
268760 TCTCTTTCTA
Statistics
Matches: 272, Mismatches: 31, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
62 5 0.02
63 109 0.40
64 134 0.49
65 2 0.01
66 22 0.08
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (64 bp):
AAGCCCACACAAGCTGGTGGCAACCTTTTCTAAAGTCCACACAAGTTGGTGGCAACCCCTTCTA
Found at i:268844 original size:52 final size:52
Alignment explanation
Indices: 268768--268981 Score: 167
Period size: 52 Copynumber: 3.9 Consensus size: 52
268758 CATCTCTTTC
* * * *
268768 TAAGTCTAATGTCGCTGGCCTTAAATCAGCATATTGGCAGTTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACTTTTGTCATCTT
* * ** * *
268820 TAAGTCCAATATCGTTGGCTTTAAATCAATGTATCGGCACCGTTATTATTCTTCTCATCTT
1 TAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCA-C-------TT-TTGTCATCTT
* * ** * * *
268881 TAAGTCTAATGTCATTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACTTTTGTCATCTT
* * *
268933 TAAGTCCAATATCGCTGACCTTGAATCAACATATTGGCACTTTTATCAT
1 TAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACTTTTGTCAT
268982 TCTTCTCATC
Statistics
Matches: 124, Mismatches: 29, Indels: 18
0.73 0.17 0.11
Matches are distributed among these distances:
52 81 0.65
53 1 0.01
60 3 0.02
61 39 0.31
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (52 bp):
TAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACTTTTGTCATCTT
Found at i:268908 original size:113 final size:113
Alignment explanation
Indices: 268768--269006 Score: 325
Period size: 113 Copynumber: 2.1 Consensus size: 113
268758 CATCTCTTTC
* **
268768 TAAGTCTAATGTCGCTGGCCTTAAATCAGCATATTGGCAGTTTTGTCATCTTTAAGTCCAATATC
1 TAAGTCTAATGTCACTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATATC
* * * ** * *
268833 GTTGGCTTTAAATCAATGTATCGGCACCGTTATTATTCTTCTCATCTT
66 GCTGACCTTAAATCAACATATCGGCACCGTTATCATTCTTCTCATCCT
* *
268881 TAAGTCTAATGTCATTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATATC
1 TAAGTCTAATGTCACTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATATC
* * **
268946 GCTGACCTTGAATCAACATATTGGCACTTTTATCATTCTTCTCATCCT
66 GCTGACCTTAAATCAACATATCGGCACCGTTATCATTCTTCTCATCCT
*
268994 TAAGTCCAATGTC
1 TAAGTCTAATGTC
269007 GTTAACCTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (113 bp):
TAAGTCTAATGTCACTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATATC
GCTGACCTTAAATCAACATATCGGCACCGTTATCATTCTTCTCATCCT
Found at i:273063 original size:16 final size:16
Alignment explanation
Indices: 273042--273080 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
273032 ATTTATAATC
* *
273042 ATGTATGTATGTGCAT
1 ATGTATGTATGCGAAT
273058 ATGTATGTATGCGAAT
1 ATGTATGTATGCGAAT
273074 ATGTATG
1 ATGTATG
273081 CATGGTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (16 bp):
ATGTATGTATGCGAAT
Found at i:274847 original size:17 final size:17
Alignment explanation
Indices: 274825--274859 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
274815 AGATATAATT
274825 TCCTCTAATGCATGAAG
1 TCCTCTAATGCATGAAG
274842 TCCTCTAATGCATGAAG
1 TCCTCTAATGCATGAAG
274859 T
1 T
274860 TTTTTCAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (17 bp):
TCCTCTAATGCATGAAG
Found at i:275527 original size:79 final size:79
Alignment explanation
Indices: 275370--275842 Score: 481
Period size: 79 Copynumber: 6.0 Consensus size: 79
275360 TTCCCTAATG
* * * * * * * *
275370 GAAAATTTAATATTTTGGAGATAAAAAT-GGAGTTGGAGTATACCCT-A-AAAAAATGAGGTTGG
1 GAAAAATTGATATTTTAGAAATAAAATTAGG-GTTGGAGTATCCCCTCAGAAATAATGGGGTTGG
275432 AGTATCCCCGATGGT
65 AGTATCCCCGATGGT
*** * * * ** *
275447 GAAAAATTGATATTTTAGAAATAAAACCGGGGTTGAAGCATCTCCTTGGAAATAATGGGGTCGGA
1 GAAAAATTGATATTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGA
*
275512 GTATCTCCGATGGT
66 GTATCCCCGATGGT
** **
275526 GAAAAATCAATATTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGA
1 GAAAAATTGATATTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGA
*
275591 GTATCCTCGATGGT
66 GTATCCCCGATGGT
* * * * *
275605 GAAAAATTGATATTTTGGTAATAAAAATAGGGTTAGAGTTTCCCCTCAGAAATAA-GGAGGTTGG
1 GAAAAATTGATATTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTCAGAAATAATGG-GGTTGG
275669 AGTATCCCCGATGGT
65 AGTATCCCCGATGGT
* * * * * * ** *
275684 GAAAAATCGATATTTTAAAAATAAAATTAGGGTTGGAGT-T-CTCTAAAAAATAATAGCATTAGA
1 GAAAAATTGATATTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGA
*
275747 GTATCCTCGATGGT
66 GTATCCCCGATGGT
* * ** * *
275761 GAAAAATTGATATTTTAGAAATAAAATCAGGGTTGGAGTATCCCTTTGGAAATAATGGGATTAGA
1 GAAAAATTGATATTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGA
*
275826 GTGTCCCCGATGGT
66 GTATCCCCGATGGT
275840 GAA
1 GAA
275843 GAAAAAATAT
Statistics
Matches: 324, Mismatches: 65, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
77 96 0.30
78 6 0.02
79 222 0.69
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (79 bp):
GAAAAATTGATATTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGA
GTATCCCCGATGGT
Found at i:277728 original size:24 final size:24
Alignment explanation
Indices: 277683--277728 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
277673 AGGTTTTTTG
* *
277683 ATGGTGGTTTTGGGAGCTATGGGA
1 ATGGTGGTTTTGGAAGCAATGGGA
277707 ATGG-GGTTTTGGAAAGCAATGG
1 ATGGTGGTTTTGG-AAGCAATGG
277729 AATAGTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.22, C:0.04, G:0.43, T:0.30
Consensus pattern (24 bp):
ATGGTGGTTTTGGAAGCAATGGGA
Found at i:279301 original size:59 final size:59
Alignment explanation
Indices: 278908--279652 Score: 726
Period size: 61 Copynumber: 12.3 Consensus size: 59
278898 GCTATCCTAT
* * * **
278908 TCTTTGAAGACTAGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAATAAAAAAAAAGTGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT----T-AAAGGAAAGTGTCCTGC
* * * ** * * *
278972 TCTTTAAAGACTAAAAGGTGCCACCAACTTGTGTGGACTGTGGAAAGAAAACGCGTCATGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCT-TTTAAAGGAAA-GTGTCCTGC
* * * *
279033 TCTTTGAGGCCTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGGAAAGGTGTCCTAC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAA-GGAAA-GTGTCCTGC
* * * * *
279094 TCTTTAAGGACTAAAAGATGCTACCAACTTGTGTGGGCTTTGAAAAGAAAAG-GCATCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-TAAAGGAAAGTG--TCCTGC
* * * * ** *
279155 TCTTTGAGGACTAAAAGATGCCACCAATTTATGTGGGCTTTAAAAGGAAAAAGCATCTTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG--AAAGTGTCCTGC
* *
279216 TCTTTGAGGACTAAAAGGTGCCACCAACTTCTGTGGGCTTTTAAAGGAAAGTGTGCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGAAAGTGTCCTGC
* * * * *
279275 TCTTTGAGGACTAGAAGGTGCTACCAACTTATGTGGGCTTTAAAATGAAAAG-GCATCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAA-GGAAAGTG--TCCTGC
* *** *
279336 TCTTTGAGGACTGAAAGGTGATGCCAACTTGTGTGAGCTTTTAAAGGAAAGTGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGAAAGTGTCCTGC
* * *
279395 TTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGG-TTTTAAAAGGAAAAGGCGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTT-AAAGG-AAA-GTGTCCTGC
* * * * * *
279456 TCTTTAAGGACTGAAAGGTGACACTAACTTGTGCGGGATTTTAAAGGAAAGTGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGAAAGTGTCCTGC
* * **
279515 TCTTTGAGGACTAGAAGATGCCACCAACTTGTGT-GGC-TTTAAGAGGAAAAAACGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAA-AGG--AAAGTGTCCTGC
* * *
279575 TCTTTGAGGACTAAAAGGTGCCACCAATTTGTGTGGACTTTTAAAGAAAAGTGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGAAAGTGTCCTGC
*
279634 TCTTTGAGGACTGAAAGGT
1 TCTTTGAGGACTAAAAGGT
279653 TAAAAGGTTT
Statistics
Matches: 568, Mismatches: 91, Indels: 49
0.80 0.13 0.07
Matches are distributed among these distances:
57 5 0.01
58 9 0.02
59 155 0.27
60 74 0.13
61 272 0.48
62 17 0.03
64 35 0.06
65 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (59 bp):
TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGAAAGTGTCCTGC
Found at i:279325 original size:120 final size:120
Alignment explanation
Indices: 278908--279645 Score: 868
Period size: 120 Copynumber: 6.1 Consensus size: 120
278898 GCTATCCTAT
* * ** *
278908 TCTTTGAAGACTAGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAATAAAAAAAAAGTGTCCTGCT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT--AA-AAGGAAAAAGCGTCCTGCT
* * ** * *
278973 CTTTAAAGACTAAAAGGTGCCACCAACTTGTGTGGACTGTGGAAAGAAAACGCGTCATGC
63 CTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCT-TTTAAAGAAAA-GTGTCCTGC
* * * * * * *
279033 TCTTTGAGGCCTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGGAAAGGTGTCCTACTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
* * *
279098 TAAGGACTAAAAGATGCTACCAACTTGTGTGGGCTTTGAAAAGAAAAG-GCATCCTGC
66 TAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-TAAAGAAAAGTG--TCCTGC
* * * * * *
279155 TCTTTGAGGACTAAAAGATGCCACCAATTTATGTGGGCTTTAAAAGGAAAAAGCATCTTGCTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
* * * *
279220 TGAGGACTAAAAGGTGCCACCAACTTCTGTGGGCTTTTAAAGGAAAGTGTGCTGC
66 TAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAGTGTCCTGC
* * * * *
279275 TCTTTGAGGACTAGAAGGTGCTACCAACTTATGTGGGCTTTAAAATGAAAAGGCATCCTGCTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
* * *** * *
279340 TGAGGACTGAAAGGTGATGCCAACTTGTGTGAGCTTTTAAAGGAAAGTGTCCTGC
66 TAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAGTGTCCTGC
* * *
279395 TTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGCGTCCTGCTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
* * * * * *
279460 TAAGGACTGAAAGGTGACACTAACTTGTGCGGGATTTTAAAGGAAAGTGTCCTGC
66 TAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAGTGTCCTGC
* * *
279515 TCTTTGAGGACTAGAAGATGCCACCAACTTGTGT-GGCTTTAAGAGGAAAAAACGTCCTGCTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
* * *
279579 TGAGGACTAAAAGGTGCCACCAATTTGTGTGGACTTTTAAAGAAAAGTGTCCTGC
66 TAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAGTGTCCTGC
279634 TCTTTGAGGACT
1 TCTTTGAGGACT
279646 GAAAGGTTAA
Statistics
Matches: 532, Mismatches: 77, Indels: 14
0.85 0.12 0.02
Matches are distributed among these distances:
119 84 0.16
120 251 0.47
121 10 0.02
122 149 0.28
123 2 0.00
125 36 0.07
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (120 bp):
TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTT
TAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAGTGTCCTGC
Found at i:288835 original size:23 final size:24
Alignment explanation
Indices: 288803--288847 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
288793 CTTTAGTGTT
288803 TTGCTATTTTGG-TGCTGTTTTGA
1 TTGCTATTTTGGTTGCTGTTTTGA
*
288826 TTGCTGTTTTGGTTGCTGTTTT
1 TTGCTATTTTGGTTGCTGTTTT
288848 TTCTTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.04, C:0.09, G:0.27, T:0.60
Consensus pattern (24 bp):
TTGCTATTTTGGTTGCTGTTTTGA
Found at i:288858 original size:25 final size:24
Alignment explanation
Indices: 288803--288865 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
288793 CTTTAGTGTT
*
288803 TTGCTATTTTGG-TGCTGTTTTGA
1 TTGCTGTTTTGGTTGCTGTTTTGA
**
288826 TTGCTGTTTTGGTTGCTGTTTTTTC
1 TTGCTGTTTTGGTTGCTG-TTTTGA
*
288851 TTGTTGTTTTGGTTG
1 TTGCTGTTTTGGTTG
288866 TCGTTGCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 11 0.32
24 5 0.15
25 18 0.53
ACGTcount: A:0.03, C:0.08, G:0.27, T:0.62
Consensus pattern (24 bp):
TTGCTGTTTTGGTTGCTGTTTTGA
Found at i:288866 original size:12 final size:12
Alignment explanation
Indices: 288803--288847 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
288793 CTTTAGTGTT
*
288803 TTGCTATTTTGG
1 TTGCTGTTTTGG
*
288815 -TGCTGTTTTGA
1 TTGCTGTTTTGG
288826 TTGCTGTTTTGG
1 TTGCTGTTTTGG
288838 TTGCTGTTTT
1 TTGCTGTTTT
288848 TTCTTGTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.04, C:0.09, G:0.27, T:0.60
Consensus pattern (12 bp):
TTGCTGTTTTGG
Found at i:290444 original size:20 final size:19
Alignment explanation
Indices: 290421--290493 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
290411 CACATCCAGA
*
290421 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
*
290441 TGTATCAATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
290460 TGTATCGATACATGCACAAT
1 TGTATCGATACATGTTC-AT
290480 TGTATCGATACATG
1 TGTATCGATACATG
290494 AAAATGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.35
20 29 0.63
21 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:290561 original size:13 final size:13
Alignment explanation
Indices: 290543--290568 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
290533 CATGGCACAT
290543 TGTATCGATACAA
1 TGTATCGATACAA
290556 TGTATCGATACAA
1 TGTATCGATACAA
290569 GATAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:290561 original size:33 final size:33
Alignment explanation
Indices: 290523--290587 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
290513 TACCACTGTT
* * *
290523 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACAAGACAAATTGTATCGATACAA
*
290556 TGTATCGATACAAGATAAATTGTATCGATACA
1 TGTATCGATACAAGACAAATTGTATCGATACA
290588 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAAGACAAATTGTATCGATACAA
Found at i:290653 original size:20 final size:20
Alignment explanation
Indices: 290628--290680 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
290618 TTCAAATGCA
290628 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
290648 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
**
290668 TGTGCCGATACAT
1 TGTATCGATACAT
290681 AGCAATGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:295805 original size:13 final size:13
Alignment explanation
Indices: 295787--295813 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
295777 TGCCAGTTTC
295787 ATGTATCGATACA
1 ATGTATCGATACA
295800 ATGTATCGATACA
1 ATGTATCGATACA
295813 A
1 A
295814 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:296411 original size:27 final size:26
Alignment explanation
Indices: 296381--296508 Score: 63
Period size: 28 Copynumber: 4.9 Consensus size: 26
296371 ATTTAGGAAA
296381 TAATTAATTAAAAGAATTTCTCCCCC
1 TAATTAATTAAAAGAATTTCTCCCCC
** * *
296407 TTAATCGATTAGAGAGATTTTCTCCCCC
1 -TAATTAATTA-AAAGAATTTCTCCCCC
*
296435 TAGA-T--TTAAAACAATATT-TCTCCCC
1 TA-ATTAATTAAAAGAAT-TTCTC-CCCC
*
296460 ---TTAATTAAAAGAATTTCTTCCCCT
1 TAATTAATTAAAAGAATTTC-TCCCCC
** *
296484 TAATTGGTTAAATAGATTTTCTCCC
1 TAATTAATTAAA-AGAATTTCTCCC
296509 TCTAGATTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
22 1 0.01
23 2 0.03
24 18 0.24
25 11 0.15
27 21 0.28
28 22 0.29
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (26 bp):
TAATTAATTAAAAGAATTTCTCCCCC
Found at i:296469 original size:76 final size:77
Alignment explanation
Indices: 296384--296546 Score: 247
Period size: 76 Copynumber: 2.1 Consensus size: 77
296374 TAGGAAATAA
*
296384 TTAATTAAAAGAATTTCTCCCCCTTAATCGATTAGAGAGATTTTCTCCCCCTAGATTTAAAACAA
1 TTAATTAAAAGAATTTCTCCCCCTTAATCGATTAAAGAGATTTTCTCCCCCTAGATTTAAAACAA
296449 TATTTCT-CCCC
66 TATTTCTCCCCC
* * * * * *
296460 TTAATTAAAAGAATTTCTTCCCCTTAATTGGTTAAATAGATTTTCTCCCTCTAGATTTAAAATAA
1 TTAATTAAAAGAATTTCTCCCCCTTAATCGATTAAAGAGATTTTCTCCCCCTAGATTTAAAACAA
296525 TATTTCTCCCCC
66 TATTTCTCCCCC
*
296537 TTAATCAAAA
1 TTAATTAAAA
296547 CAAAATTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
76 65 0.83
77 13 0.17
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (77 bp):
TTAATTAAAAGAATTTCTCCCCCTTAATCGATTAAAGAGATTTTCTCCCCCTAGATTTAAAACAA
TATTTCTCCCCC
Found at i:301211 original size:33 final size:33
Alignment explanation
Indices: 301174--301238 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
301164 TACCATGGTT
* *
301174 TGTATCGATACATGGCACATTGTATCAATACAA
1 TGTATCGATACATGACAAATTGTATCAATACAA
* *
301207 TGTATCGATACATGATAAATTGTATCGATACA
1 TGTATCGATACATGACAAATTGTATCAATACA
301239 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTGTATCAATACAA
Found at i:302494 original size:189 final size:189
Alignment explanation
Indices: 302171--302547 Score: 630
Period size: 189 Copynumber: 2.0 Consensus size: 189
302161 TTGATGGAAG
*
302171 TGGATTTCTATTATAATGGCTACTATATCGAATCTCGGATAATCCAAAATTCCAAGAAAAAGACC
1 TGGATTTCTATTATAATGGCTACTATATCGAATCTCGGATAATCCAAAATTCAAAGAAAAAGACC
* * * *
302236 TAGATGAAATTAGGTGTCTATAGATATCCCTCTTTGTTCGTTGCTGAGAATCAAGAACAGGATAA
66 TAGATGAAATTAGGTGTCTACAGATATCCCTCTTTGTTCGTTGCTGAAAATCAAGAACAGCACAA
* *
302301 AGACCAAATAGACATAATTTCGTCCGGGTCGTAAAATGAAAGTCACAAGGTCTAAGAAA
131 AGACCAAATAGACACAATTTCGTCCGGGTCGTAAAATGAAAGTCACAAAGTCTAAGAAA
302360 TGGATTTCTATTATAATGGCTACTATATCGAATCTCGGATAATCCAAAATTCAAAGAAAAAGACC
1 TGGATTTCTATTATAATGGCTACTATATCGAATCTCGGATAATCCAAAATTCAAAGAAAAAGACC
* * *
302425 TAGATGAAATTAGGTGTCTACAGCTATCCCTCTTTG-TCTGTTGCTGAAAATCAGGAATAGCACA
66 TAGATGAAATTAGGTGTCTACAGATATCCCTCTTTGTTC-GTTGCTGAAAATCAAGAACAGCACA
* *
302489 AAGACCAAATAGATACAATTTCGTTCGGGTCGTAAAATGAAAGTCACAAAGTCTAAGAA
130 AAGACCAAATAGACACAATTTCGTCCGGGTCGTAAAATGAAAGTCACAAAGTCTAAGAA
302548 GATGAAACAA
Statistics
Matches: 175, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
188 2 0.01
189 173 0.99
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (189 bp):
TGGATTTCTATTATAATGGCTACTATATCGAATCTCGGATAATCCAAAATTCAAAGAAAAAGACC
TAGATGAAATTAGGTGTCTACAGATATCCCTCTTTGTTCGTTGCTGAAAATCAAGAACAGCACAA
AGACCAAATAGACACAATTTCGTCCGGGTCGTAAAATGAAAGTCACAAAGTCTAAGAAA
Found at i:302894 original size:42 final size:41
Alignment explanation
Indices: 302762--303911 Score: 393
Period size: 42 Copynumber: 27.3 Consensus size: 41
302752 AAGTCTTTAG
* * * * **
302762 GGTCAAAGCCGACAGGTAGACTAAAGGTAAAGAAA-TCTTTAA
1 GGTCAAA-CCGACAGGCAGACTTAAGAT-GAGAAAGTCTCCAA
* * * * * *
302804 GGTCAAAGCCGACAAGCAAATTTAAG-GGTAGAGAAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGACTTAAGATG-AGA-AAGTCTCCAA
* **
302847 GGTCAAACCTAACAGGCAGACTTAAGATGAGGCAGTCTCCAA
1 GGTCAAACC-GACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * *
302889 GGTCAAAGCCAAAAGGCATACTGAAGATAAGAAAGTCTCC-A
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * *
302930 GGATCAAAGCCGATAGGCAGACTTGAGACGAGACAGTCTCTAA
1 GG-TCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * *
302973 GGTTAAAACCGATAGGCATAC-TAAAAGTAAGAAAGTCTCCAA
1 GG-TCAAACCGACAGGCAGACTTAAGA-TGAGAAAGTCTCCAA
* * * * * *
303015 GG-CTAAAGACGATAGGCAGACTTGAGATGAGATAGTCTCTAG
1 GGTC-AAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * *
303057 GGTCAAAGCCAACAAGCA-AATTGAAG-GGAAGAAAGTCTTCAA
1 GGTCAAA-CCGACAGGCAGACTT-AAGATG-AGAAAGTCTCCAA
* * * * * *
303099 CGTCAAAGCCGACAAGCAAACTAAAGCTAAGAAAGTCTCCAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * * ** * * *
303141 GATCAAAGCTGATAGGCAAACTTGAGATGAGCCAGTTTTCAG
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * *
303183 GGTCAAAGCTGACAGGTAGACTAAAGGTAAGAAAGTCTCCAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * ** *
303225 GGTCAAAGTCGATAGGCAAACTTCAGATGAGGCAGTCTCTAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* *
303267 GGTCAAAGCCGACAGGTAGACTTAAGATAAGAAAGTCTCCAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
** * * * * *
303309 GGTCAAAGTTGACAGGCAGACTTAAGGGTAAGGAAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGACTTAA-GATGAGAAAGTCTCCAA
* **
303352 GGTCAAAGCCGACTGGCAGA-TCTAAGATGAGGCAGTCTCCAA
1 GGTCAAA-CCGACAGGCAGACT-TAAGATGAGAAAGTCTCCAA
** * * * * *
303394 GGTCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCT-CTA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * ** *
303435 GGATCAAAGTCGACAGGTAGACTTAAGATGAGGTAGTCTACAA
1 GG-TCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * * * * *
303478 GGTCAAACCCAACAAGTAGACTGAAGGTAAGAAAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * **
303520 GGTTAAAGCCGACAGGCAGACTTAATGGTAAAAAAGTCTAAAA
1 GGTCAAA-CCGACAGGCAGACTTAA-GATGAGAAAGTCTCCAA
* * *
303563 GGTCAAAGTCGACAGGCAGACTTGAGATGATGCAA-TCTCCAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGA-GAAAGTCTCCAA
* ** * * * * *
303605 TGTCAAAGCCGGTAGGTAGAC-TATAGGT-AAATAAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGACTTA-AGATGAGA-AAGTCTCCAA
* * * * * * **
303647 GGTTAAAGTCAATAGGCGGATTTGAA-ATGAGGTAGTCTCCAA
1 GGTCAAA-CCGACAGGCAGACTT-AAGATGAGAAAGTCTCCAA
** * * * * *
303689 GGTCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCTCTAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * * *
303731 GGTCAAAACCGACAGGCAAACTGAAGGTAAGAAAGTCTCTAG
1 GGTC-AAACCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * ** *
303773 GGTCAAAGCTGACAGGTAGACTTGAGATAAGGTAGTCTCCAT
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * *
303815 GGTCAAAGCCGACAGGCAGACTAAAGGTAAAAAAGTCTCTAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
* * * * *
303857 GGTCAAAGCCAATAGGCAGACTTAAGATAAGGCAAG-CTCTAA
1 GGTCAAA-CCGACAGGCAGACTTAAGATGA-GAAAGTCTCCAA
303899 GGTCAAAGCCGAC
1 GGTCAAA-CCGAC
303912 TATCATACTG
Statistics
Matches: 823, Mismatches: 251, Indels: 68
0.72 0.22 0.06
Matches are distributed among these distances:
41 29 0.04
42 667 0.81
43 125 0.15
44 2 0.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (41 bp):
GGTCAAACCGACAGGCAGACTTAAGATGAGAAAGTCTCCAA
Found at i:302948 original size:84 final size:83
Alignment explanation
Indices: 302762--303932 Score: 615
Period size: 84 Copynumber: 13.9 Consensus size: 83
302752 AAGTCTTTAG
* * * ** * * * *
302762 GGTCAAAGCCGACAGGTAGACTAAAGGTAAAGAAA-TCTTTAAGGTCAAAGCCGACAAGCAAATT
1 GGTCAAAGCCGACAGGCAGACTTAAGAT-AAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACT
* * *
302826 TAAGGGT-AGAGAAGTCTCTA
65 GAA-GATAAGA-AAGTCTCCA
* * ** * * *
302846 GGGTCAAA-CCTAACAGGCAGACTTAAGATGAGGCAGTCTCCAAGGTCAAAGCCAAAAGGCATAC
1 -GGTCAAAGCC-GACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGAC
302910 TGAAGATAAGAAAGTCTCCA
64 TGAAGATAAGAAAGTCTCCA
* * ** * * * * *
302930 GGATCAAAGCCGATAGGCAGACTTGAGACGAGACAGTCTCTAAGGTTAAAACCGATAGGCATACT
1 GG-TCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACT
*
302995 -AAAAGTAAGAAAGTCTCCAA
65 GAAGA-TAAGAAAGTCTCC-A
* * * * * * * * * * * *
303015 GG-CTAAAGACGATAGGCAGACTTGAGATGAGATAGTCTCTAGGGTCAAAGCCAACAAGCAAATT
1 GGTC-AAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACT
** *
303079 GAAGGGAAGAAAGTCTTCAA
65 GAAGATAAGAAAGTC-TCCA
* * * * * * * *
303099 CGTCAAAGCCGACAAGCAAACTAAAGCTAAGAAAGTCTCCAAGATCAAAGCTGATAGGCAAACTT
1 GGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGAC-T
* ** * *
303164 G-AGATGAGCCAGTTTTCA
65 GAAGATAAGAAAGTCTCCA
* * * * * *
303182 GGGTCAAAGCTGACAGGTAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGTCGATAGGCAAACT
1 -GGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACT
** * ** *
303247 TCAGATGAGGCAGTCTCTAA
65 GAAGATAAGAAAGTCTC-CA
* ** * *
303267 GGTCAAAGCCGACAGGTAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGTTGACAGGCAGACTT
1 GGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTG
* * *
303332 AAGGGTAAGGAAGTCTCTA
66 AA-GATAAGAAAGTCTCCA
* * ** **
303351 GGGTCAAAGCCGACTGGCAGA-TCTAAGATGAGGCAGTCTCCAAGGTCAAAGTTGATAGGCAGAC
1 -GGTCAAAGCCGACAGGCAGACT-TAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGAC
* *
303415 TGAAGGTAAGAAAGTCTCTA
64 TGAAGATAAGAAAGTCTCCA
* * * ** * * * * * *
303435 GGATCAAAGTCGACAGGTAGACTTAAGATGAGGTAGTCTACAAGGTCAAACCCAACAAGTAGACT
1 GG-TCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACT
* *
303500 GAAGGTAAGAAAGTCTCTA
65 GAAGATAAGAAAGTCTCCA
* * * ** * *
303519 GGGTTAAAGCCGACAGGCAGACTTAATGGTAAAAAAGTCTAAAAGGTCAAAGTCGACAGGCAGAC
1 -GGTCAAAGCCGACAGGCAGACTTAA-GATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGAC
* *
303584 TTG-AGATGATGCAA-TCTCCAA
64 -TGAAGAT-AAGAAAGTCTCC-A
* ** * * * * * * * *
303605 TGTCAAAGCCGGTAGGTAGAC-TATAGGTAA-ATAAGTCTCTAGGGTTAAAGTCAATAGGCGGAT
1 GGTCAAAGCCGACAGGCAGACTTA-AGATAAGA-AAGTCTCCAAGGTCAAAGCCGATAGGCAGA-
* * **
303668 TTGAA-ATGAGGTAGTCTCCAA
63 CTGAAGATAAGAAAGTCTCC-A
** * * * * * * *
303689 GGTCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAACCGACAGGCAAACTG
1 GGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTG
* *
303754 AAGGTAAGAAAGTCTCTA
66 AAGATAAGAAAGTCTCCA
* * * ** * *
303772 GGGTCAAAGCTGACAGGTAGACTTGAGATAAGGTAGTCTCCATGGTCAAAGCCGACAGGCAGACT
1 -GGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACT
* * * *
303837 AAAGGTAAAAAAGTCTCTAA
65 GAAGATAAGAAAGTCTC-CA
* * * * * *
303857 GGTCAAAGCCAATAGGCAGACTTAAGATAAGGCAAG-CTCTAAGGTCAAAGCCGACTA-TCATAC
1 GGTCAAAGCCGACAGGCAGACTTAAGATAA-GAAAGTCTCCAAGGTCAAAGCCGA-TAGGCAGAC
*
303920 TGAAGGTAAGAAA
64 TGAAGATAAGAAA
303933 ATTCAAAGGG
Statistics
Matches: 851, Mismatches: 198, Indels: 75
0.76 0.18 0.07
Matches are distributed among these distances:
83 19 0.02
84 633 0.74
85 192 0.23
86 7 0.01
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (83 bp):
GGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTG
AAGATAAGAAAGTCTCCA
Found at i:303550 original size:127 final size:124
Alignment explanation
Indices: 302751--303911 Score: 498
Period size: 126 Copynumber: 9.2 Consensus size: 124
302741 AAAAGGCGAA
* * * * ** *
302751 AAAGTCTTTAGGGTCAAAGCCGACAGGTAGACTAAAGGTAAAGAAA-TCTTTAAGGTCAAAGCCG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGT-AAGAAAGTCTACAAGGTCAAAGTCG
* * * * * * * * *
302815 ACAAGCAAATTTAAG-GGTAGAGAAGTCTCTAGGGTCAAA-CCTAACAGGCAGACTTAAGATGAG
65 ACAGGCAGACTTAAGATG-AG-GAAGTCTC-AAGGTCAAAGCC-GACAGGTAGAC-TAAGGTAAG
** * * * * * * * *
302878 GCAGTCTCCAAGGTCAAAGCCAAAAGGCATACTGAAGATAAGAAAGTCT-CCAGGATCAAAGCCG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTAAGAAAGTCTACAAGG-TCAAAGTCG
* * * * * * * * *
302942 ATAGGCAGACTTGAGACGA-GACAGTCTCTAAGGTTAAAACCGATAGGCATACTAAAAGTAAG
65 ACAGGCAGACTTAAGATGAGGA-AGTCTC-AAGGTCAAAGCCGACAGGTAGACT-AAGGTAAG
* * * * * * * * *
303004 AAAGTCTCCAAGG-CTAAAGACGATAGGCAGACTTGAGATGAGATAGTCT-CTAGGGTCAAAGCC
1 AAAGTCTCTAAGGTC-AAAGCCGACAGGCAGACTTAAGGTAAGAAAGTCTAC-AAGGTCAAAGTC
* * * * * * * * * *
303067 AACAAGCA-AATTGAAG-GGAAGAAAGTCTTCAACGTCAAAGCCGACAAGCAAACTAAAGCTAAG
64 GACAGGCAGACTT-AAGATG-AGGAAGTC-TCAAGGTCAAAGCCGACAGGTAGACT-AAGGTAAG
* * * * * * * * ** * * *
303130 AAAGTCTCCAAGATCAAAGCTGATAGGCAAACTTGAGATGAGCCAGTTTTCAGGGTCAAAG-CTG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTAAGAAAGTCTACAAGGTCAAAGTC-G
* * * * * * * * * * * *
303194 ACAGGTAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGTCGATAGGCAAACTTCAGATGAG
65 ACAGGCAGACTTAAGATGAGGAAGTCT-CAAGGTCAAAGCCGACAGGTAGAC-TAAGGTAAG
** * * * *
303256 GCAGTCTCTAAGGTCAAAGCCGACAGGTAGACTTAAGATAAGAAAGTCTCCAAGGTCAAAGTTGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTAAGAAAGTCTACAAGGTCAAAGTCGA
* * * * * * *
303321 CAGGCAGACTTAAGGGTAAGGAAGTCTCTAGGGTCAAAGCCGACTGGCAGATCTAAGATGAG
66 CAGGCAGACTTAA-GATGAGGAAGTCTC-AAGGTCAAAGCCGACAGGTAGA-CTAAGGTAAG
** * ** * * *
303383 GCAGTCTCCAAGGTCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCT-CTAGGATCAAAGTCG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTAAGAAAGTCTACAAGG-TCAAAGTCG
* * * * *
303447 ACAGGTAGACTTAAGATGAGGTAGTCTACAAGGTCAAACCCAACAAGTAGACTGAAGGTAAG
65 ACAGGCAGACTTAAGATGAGGAAGTCT-CAAGGTCAAAGCCGACAGGTAGACT-AAGGTAAG
* * * *
303509 AAAGTCTCTAGGGTTAAAGCCGACAGGCAGACTTAATGGTAAAAAAGTCTAAAAGGTCAAAGTCG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAA-GGTAAGAAAGTCTACAAGGTCAAAGTCG
* * * **
303574 ACAGGCAGACTTGAGATGATGCAA-TCTCCAATGTCAAAGCCGGTAGGTAGACTATAGGTAA-
65 ACAGGCAGACTTAAGATGA-GGAAGTCT-CAAGGTCAAAGCCGACAGGTAGACTA-AGGTAAG
* * * * * * * * * ** * *
303635 ATAAGTCTCTAGGGTTAAAGTCAATAGGCGGATTTGAA-ATGAGGTAGTCTCCAAGGTCAAAGTT
1 A-AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTT-AAGGTAAGAAAGTCTACAAGGTCAAAGTC
* * * * * * * *
303699 GATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAACCGACAGGCAAACTGAAGGTAAG
64 GACAGGCAGACTTAAGATGAGGAAGTCTC-AAGGTCAAAGCCGACAGGTAGACT-AAGGTAAG
* * * * * ** * * *
303762 AAAGTCTCTAGGGTCAAAGCTGACAGGTAGACTTGAGATAAGGTAGTCTCCATGGTCAAAGCCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTAAGAAAGTCTACAAGGTCAAAGTCGA
* * * ** * * * *
303827 CAGGCAGACTAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCAATAGGCAGACTTAAGATAAGG
66 CAGGCAGACTTAAGATGAGGAAGTCTC-AAGGTCAAAGCCGACAGGTAGAC-TAAGGTAA-G
*
303889 CAAG-CTCTAAGGTCAAAGCCGAC
1 AAAGTCTCTAAGGTCAAAGCCGAC
303912 TATCATACTG
Statistics
Matches: 802, Mismatches: 193, Indels: 79
0.75 0.18 0.07
Matches are distributed among these distances:
125 17 0.02
126 511 0.64
127 265 0.33
128 9 0.01
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (124 bp):
AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTAAGAAAGTCTACAAGGTCAAAGTCGA
CAGGCAGACTTAAGATGAGGAAGTCTCAAGGTCAAAGCCGACAGGTAGACTAAGGTAAG
Found at i:304137 original size:43 final size:43
Alignment explanation
Indices: 304035--304190 Score: 167
Period size: 43 Copynumber: 3.6 Consensus size: 43
304025 TTAGAATAAT
* *
304035 TTGACTAAGGTGGTAACCATACGTCAAA-CAGAAAGA-AAAAGGA
1 TTGACTAGGGTGGTAACCATACGTCAAATCAGAATGAGAAAA--A
* *
304078 TTTGACCAGGGTGGTAACC-TGACATCAAATCAGAATGAGAAAAA
1 -TTGACTAGGGTGGTAACCAT-ACGTCAAATCAGAATGAGAAAAA
*
304122 TTGACTAGGGTGGTAACCATACGTCAAATTAGAATGAGAAAAA
1 TTGACTAGGGTGGTAACCATACGTCAAATCAGAATGAGAAAAA
* * *
304165 TCTGA-AATGATGGTAACCATACGTCA
1 T-TGACTAGGGTGGTAACCATACGTCA
304191 GGCTGAAATG
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
43 58 0.60
44 28 0.29
45 7 0.07
46 4 0.04
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (43 bp):
TTGACTAGGGTGGTAACCATACGTCAAATCAGAATGAGAAAAA
Found at i:304318 original size:42 final size:42
Alignment explanation
Indices: 304254--304352 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
304244 GATAAAGGTT
* *
304254 GTTTCCCAAGGCTAAATTGATGGGCAAGTAAAAAGTGAAAAG
1 GTTTCCCAAGGCTGAATCGATGGGCAAGTAAAAAGTGAAAAG
304296 GTTTCCCAAGGCTGAATCGATGGGCAAGTAAAAAGTGAAAAG
1 GTTTCCCAAGGCTGAATCGATGGGCAAGTAAAAAGTGAAAAG
*
304338 GTTTCCCAAGTCTGA
1 GTTTCCCAAGGCTGA
304353 GCAGATGGCC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.22
Consensus pattern (42 bp):
GTTTCCCAAGGCTGAATCGATGGGCAAGTAAAAAGTGAAAAG
Found at i:304371 original size:42 final size:42
Alignment explanation
Indices: 304254--304377 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
304244 GATAAAGGTT
* ** * **
304254 GTTTCCCAAGGCTAAATTGATGGGCAAGTAAAAAGTGAAAAG
1 GTTTCCCAAGGCTGAAGCGATGGCCAAACAAAAAGTGAAAAG
* * **
304296 GTTTCCCAAGGCTGAATCGATGGGCAAGTAAAAAGTGAAAAG
1 GTTTCCCAAGGCTGAAGCGATGGCCAAACAAAAAGTGAAAAG
*
304338 GTTTCCCAAGTCTG-AGCAGATGGCCAAACAAAAAGATGAA
1 GTTTCCCAAGGCTGAAGC-GATGGCCAAACAAAAAG-TGAA
304378 GAAGTTTAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.03
42 67 0.92
43 4 0.05
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (42 bp):
GTTTCCCAAGGCTGAAGCGATGGCCAAACAAAAAGTGAAAAG
Found at i:305678 original size:21 final size:21
Alignment explanation
Indices: 305652--305708 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
305642 CAATTTTTTC
305652 TTTTTATTTTCTTTTTAAC-TT
1 TTTTTATTTTCTTTTT-ACGTT
*
305673 TTTTTAATTAT-TTTTTACGTT
1 TTTTT-ATTTTCTTTTTACGTT
*
305694 TATTT-TTTTCTTTTT
1 TTTTTATTTTCTTTTT
305709 TCTCTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.10
20 7 0.23
21 16 0.53
22 4 0.13
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTATTTTCTTTTTACGTT
Found at i:310265 original size:20 final size:20
Alignment explanation
Indices: 310240--310287 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
310230 TGGAGGTGCT
**
310240 AAACATGCTGTAAATGCATG
1 AAACATGCTCAAAATGCATG
310260 AAACATAGCTCAAAATGCATG
1 AAACAT-GCTCAAAATGCATG
*
310281 AATCATG
1 AAACATG
310288 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (20 bp):
AAACATGCTCAAAATGCATG
Found at i:311221 original size:52 final size:52
Alignment explanation
Indices: 311136--311264 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
311126 CGAAATATGA
* *
311136 AAATTTGCCTGCATGTATCGATACGTTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
311188 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATTGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
311240 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
311265 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:311377 original size:13 final size:13
Alignment explanation
Indices: 311359--311383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
311349 ACAAAACTTA
311359 TGTATCGATACAT
1 TGTATCGATACAT
311372 TGTATCGATACA
1 TGTATCGATACA
311384 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:311382 original size:32 final size:32
Alignment explanation
Indices: 311338--311402 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
311328 AGTAGCTTAA
*
311338 ATTGTATTGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
311370 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
311402 A
1 A
311403 ACACTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:311413 original size:20 final size:19
Alignment explanation
Indices: 311340--311423 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
311330 TAGCTTAAAT
* *
311340 TGTATTGATACAAAACTTA
1 TGTATCGATACAACACTTA
311359 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
311372 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
311391 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
311411 TGTATCGATACAA
1 TGTATCGATACAA
311424 ATTGTTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 5 0.09
18 1 0.02
19 24 0.43
20 16 0.29
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:312237 original size:43 final size:43
Alignment explanation
Indices: 312172--312901 Score: 780
Period size: 43 Copynumber: 16.0 Consensus size: 43
312162 TAAAGATGAA
* *
312172 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
312215 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
312258 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
312307 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
312350 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCTAACTATATTGGATTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
312399 AAAGGTGCTAATGTGCTGATTCAAGGCCAACTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
312442 AAAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
312485 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
312534 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
312577 AAAGATGAAGGTG-CAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
312625 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
312668 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTT
* *
312717 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
312760 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
312809 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
312852 AAAGAAGAAGGTGCCAAAATGCTGATTCAAGGCTAGCTATATTGGGCTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
312901 A
1 A
312902 GAAAGGTTGC
Statistics
Matches: 591, Mismatches: 51, Indels: 89
0.81 0.07 0.12
Matches are distributed among these distances:
42 6 0.01
43 304 0.51
44 5 0.01
45 3 0.01
47 4 0.01
48 37 0.06
49 232 0.39
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:312302 original size:92 final size:87
Alignment explanation
Indices: 312172--312901 Score: 822
Period size: 92 Copynumber: 8.0 Consensus size: 87
312162 TAAAGATGAA
* * * *
312172 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT-AAAGGTGCCAATGTGCTGATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTGATT
312236 CAAGGCCAGCTACATTGGACTT
66 CAAGGCCAGCTACATTGGACTT
* * * *
312258 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAGGTGCTAATGTG
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATG
312322 CTGATTCAAGGCCAGCTACATTGGACTT
60 CTGATTCAAGGCCAGCTACATTGGACTT
* * * * * * *
312350 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCTAACTATATTGGA-TTTAAAGGTGCTAATGTG
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATG
*
312414 CTGATTCAAGGCCAACTACATTGGACTT
60 CTGATTCAAGGCCAGCTACATTGGACTT
*
312442 AAAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AA-AAGGTGCCAATATGC
*
312507 TGATTCAAGGCCAGCTATATTGGACTT
61 TGATTCAAGGCCAGCTACATTGGACTT
312534 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG-CAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-A--AAGGTGCCAATATGC
*
312598 TGATTCAAGGCCAGCTATATTGGACTT
61 TGATTCAAGGCCAGCTACATTGGACTT
*
312625 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-A--AAGGTGCCAATATGC
*
312690 TGATTCAAGGCCAG-TGATATTGGACTT
61 TGATTCAAGGCCAGCT-ACATTGGACTT
*
312717 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-A--AAGGTGCCAATATGC
* *
312782 TGATTCAAGGCCAGCGATATTGGACTT
61 TGATTCAAGGCCAGCTACATTGGACTT
* *
312809 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGAAGAAGGTGCCAAAATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AA-AAGGTGCCAATATGC
* * *
312874 TGATTCAAGGCTAGCTATATTGGGCTT
61 TGATTCAAGGCCAGCTACATTGGACTT
312901 A
1 A
312902 GAAAGGTTGC
Statistics
Matches: 595, Mismatches: 28, Indels: 31
0.91 0.04 0.05
Matches are distributed among these distances:
86 34 0.06
87 2 0.00
88 1 0.00
90 2 0.00
91 99 0.17
92 454 0.76
93 1 0.00
94 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (87 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTGATT
CAAGGCCAGCTACATTGGACTT
Found at i:312311 original size:22 final size:21
Alignment explanation
Indices: 312286--312353 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
312276 ATGCTGATTC
312286 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
* *
312308 AAGG--TGCTAATGTGCTGA-TTC
1 AAGGCCAGCTAAT-TG--GACTTA
312329 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
312351 AAG
1 AAG
312354 ATGAAGGTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.23
22 11 0.31
23 6 0.17
24 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGCCAGCTAATTGGACTTA
Found at i:312416 original size:135 final size:134
Alignment explanation
Indices: 312172--312855 Score: 843
Period size: 135 Copynumber: 5.0 Consensus size: 134
312162 TAAAGATGAA
* * * *
312172 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT----A-AAGGTGCCAATGTGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAATATGCT
* * *
312232 GATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
66 GATTCAAGGCCAGCTATATTGGA-TT----TA-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTA
*
312297 TATTGGACTT
125 CATTGGACTT
*
312307 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-GAAGGTGCCAATATGC
* * * *
312372 TGATTCAAGGCTAACTATATTGGATTTAAAGGTGCTAATGTGCTGATTCAAGGCCAACTACATTG
65 TGATTCAAGGCCAGCTATATTGGATTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
312437 GACTT
130 GACTT
*
312442 AAAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-AGAAGGTGCCAATATGC
*
312507 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
65 TGATTCAAGGCCAGCTATATTGGATTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
312572 GACTT
130 GACTT
* *
312577 AAAGATGAAGGTG-CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-AAGGTGCCAA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAA
* * * * *
312636 TGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
60 TATGCTGATTCAAGGCCAGCTATATTGGA-TT-----TAAAGGTGCCAATGTGCTGATTCAAGGC
*
312701 CAG-TGATATTGGACTT
119 CAGCT-ACATTGGACTT
*
312717 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-GAAGGTGCCAATATGC
* * *
312782 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTG
65 TGATTCAAGGCCAGCTATATTGGATTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
312847 GACTT
130 GACTT
312852 AAAG
1 AAAG
312856 AAGAAGGTGC
Statistics
Matches: 480, Mismatches: 41, Indels: 56
0.83 0.07 0.10
Matches are distributed among these distances:
134 42 0.09
135 280 0.58
136 4 0.01
139 4 0.01
140 74 0.15
141 76 0.16
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (134 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAATATGCT
GATTCAAGGCCAGCTATATTGGATTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
ACTT
Found at i:312742 original size:21 final size:21
Alignment explanation
Indices: 312675--312742 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
312665 CTTAAAGATG
*
312675 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* ** *
312696 AA-G-GCCAGTGATATTGGACTTA
1 AAGGTGCCAATG-TGCT-GA-TTC
312718 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
312739 AAGG
1 AAGG
312743 CCAGTTACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 10 0.30
22 6 0.18
23 3 0.09
24 6 0.18
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:312980 original size:32 final size:32
Alignment explanation
Indices: 312894--313193 Score: 365
Period size: 32 Copynumber: 9.3 Consensus size: 32
312884 CTAGCTATAT
*
312894 TGGGC-TTAGA-AAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
312924 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
312957 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
312989 TGGGCTTTATAG-GGGATTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTG
*
313021 TGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
* *
313054 TGGGCTTT-GAAAAGGGTTGCCACTGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
* * * *
313086 TGGGCTTTGGAAAAAGGTTGCCACTGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
*
313119 TGGGCTTTAGTGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
313151 TGGGCTTTAGAGAAGGGATTGCCCCCAACTTGTG
1 TGGGCTTTAGAG-AGGG-TTGCCACCGACTTGTG
*
313185 TAGGCTTTA
1 TGGGCTTTA
313194 AAAAAAAAGG
Statistics
Matches: 238, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
30 5 0.02
31 8 0.03
32 111 0.47
33 90 0.38
34 24 0.10
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:312982 original size:65 final size:64
Alignment explanation
Indices: 312894--313193 Score: 383
Period size: 65 Copynumber: 4.6 Consensus size: 64
312884 CTAGCTATAT
*
312894 TGGGC-TTAGA-AAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCAACTTGTG
* *
312957 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTATAG-GGGATTGCCACCAACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGG-TTGCCACCAACTTGTG
* **
313021 TGGGCTTTAGAGAAAGGTTGCCACCGACTTGTGTGGGCTTT-GAAAAGGGTTGCCACTGACTTGT
1 TGGGCTTTAGAG-AAGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACCAACTTGT
313085 G
64 G
* * * * *
313086 TGGGCTTTGGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTAGTGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTG
* * *
313151 TGGGCTTTAGAGAAGGGATTGCCCCCAACTTGTGTAGGCTTTA
1 TGGGCTTTAGAGAA-GG-TTGCCACCGACTTGTGTGGGCTTTA
313194 AAAAAAAAGG
Statistics
Matches: 207, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
63 7 0.03
64 36 0.17
65 138 0.67
66 26 0.13
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (64 bp):
TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTG
Found at i:313074 original size:97 final size:96
Alignment explanation
Indices: 312894--313197 Score: 389
Period size: 97 Copynumber: 3.1 Consensus size: 96
312884 CTAGCTATAT
* * *
312894 TGGGC-TTAGAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGT
1 TGGGCTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTGT
*
312958 GGGCTTT-AGAGAGGGTTGCCACCGACTTGTG
66 GGGCTTTGA-AAAGGGTTGCCACCGACTTGTG
* ** *
312989 TGGGCTTTATAGGGGATTGCCACCAACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAAAAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTG
*
313054 TGGGCTTTGAAAAGGGTTGCCACTGACTTGTG
65 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTG
* * *
313086 TGGGCTTTGGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTAGTG-AGGGTTGCCACCGACTTGT
1 TGGGCTTT--AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGT
* * *
313150 GTGGGCTTTAGAGAAGGGATTGCCCCCAACTTGTG
64 GTGGGCTTT-GAAAAGGG-TTGCCACCGACTTGTG
*
313185 TAGGCTTTAAAAA
1 TGGGCTTTAAAAA
313198 AAAAGGTACC
Statistics
Matches: 182, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
95 5 0.03
96 6 0.03
97 114 0.63
98 33 0.18
99 24 0.13
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (96 bp):
TGGGCTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTGT
GGGCTTTGAAAAGGGTTGCCACCGACTTGTG
Found at i:313234 original size:34 final size:33
Alignment explanation
Indices: 313187--313583 Score: 418
Period size: 34 Copynumber: 12.0 Consensus size: 33
313177 AACTTGTGTA
* *
313187 GGCTTTAAAA-AAAAAGGTACCACGGAGTTGTG
1 GGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
* * * *
313219 GACTTAGAAGGAAAAAGAATGCCACGGAGTTGTG
1 GGCTTAAAAAGAAAAAG-GTGCCACGGAGTTGTG
* * **
313253 GACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTG
1 GGCTTAAAAAGAAAAAG-GTGCCACGGAGTTGTG
313287 GGCTT-AAAAG-----GGTGCCAC-GAGGTTGTG
1 GGCTTAAAAAGAAAAAGGTGCCACGGA-GTTGTG
* * * *
313314 GACTTAGAAGGAAAAAGGCTACCACGGAGTTGTG
1 GGCTTAAAAAGAAAAAGG-TGCCACGGAGTTGTG
313348 GGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
1 GGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTG
*
313382 GGCTTTAAAAAGAAAAA-GTGCCACGGAGTGGTG
1 GGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTG
*
313415 GGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTG
1 GGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTG
*
313449 GGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTG
1 GGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTG
* *
313483 GGCTTTAAAAGAAAAA-GTGCCACGGAGTGGTG
1 GGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
* * **
313515 GGCTTTGAAAAGAAAAAAGTGCCACTAAGTTGTG
1 GGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTG
*
313549 GGCTTTAAAAAGAAAAAGGTGCCACGGAGTGGTG
1 GGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTG
313583 G
1 G
313584 ACTTTGAGAC
Statistics
Matches: 313, Mismatches: 37, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.00
27 17 0.05
28 4 0.01
32 24 0.08
33 67 0.21
34 185 0.59
35 15 0.05
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (33 bp):
GGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
Found at i:313268 original size:68 final size:68
Alignment explanation
Indices: 313189--313588 Score: 445
Period size: 67 Copynumber: 6.1 Consensus size: 68
313179 CTTGTGTAGG
* * * * *
313189 CTTT-AAAA-AAAAAGGTACCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAATGCCACGGAGTTG
1 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTG
313251 TGGA
65 TGGA
* **
313255 C-TTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGC-TT-AAAAG-----GGTGCCAC-GAGGTT
1 CTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA-GTT
313311 GTGGA
64 GTGGA
* * *
313316 C-TTAGAAGGAAAAAGGCTACCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTG
1 CTTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTG
*
313380 TGGG
65 TGGA
* *
313384 CTTTAAAAAGAAAAA-GTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGT
1 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
*
313448 GGG
66 GGA
* *
313451 CTTTAAAAAGAAAAATGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAA-GTGCCACGGAGTGGT
1 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
*
313514 GGG
66 GGA
* * ** *
313517 CTTTGAAAAGAAAAAAGTGCCACTAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTGGT
1 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
313582 GGA
66 GGA
313585 CTTT
1 CTTT
313589 GAGACAAAAT
Statistics
Matches: 292, Mismatches: 25, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
60 3 0.01
61 43 0.15
62 3 0.01
63 5 0.02
65 2 0.01
66 55 0.19
67 92 0.32
68 76 0.26
69 13 0.04
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.20
Consensus pattern (68 bp):
CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
GGA
Found at i:313324 original size:27 final size:27
Alignment explanation
Indices: 313265--313324 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
313255 CTTAAAAGGA
* *
313265 AAAAGAGTGCCACAAAGTTGTGGGCTT
1 AAAAGGGTGCCACAAAGTTGTGGACTT
* *
313292 AAAAGGGTGCCACGAGGTTGTGGACTT
1 AAAAGGGTGCCACAAAGTTGTGGACTT
*
313319 AGAAGG
1 AAAAGG
313325 AAAAAGGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAAAGTTGTGGACTT
Found at i:313574 original size:100 final size:99
Alignment explanation
Indices: 313187--313626 Score: 472
Period size: 100 Copynumber: 4.5 Consensus size: 99
313177 AACTTGTGTA
* * * *
313187 GGCTTTAAAA-AAAAAGGTACCACGGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACGGAGTTG
1 GGCTTTAAAAGAAAAA-GTGCCACGGAGTGGTGGACTTAGAAAGAAAAA-AGTGCCACGGAGTTG
* * **
313251 TGGAC-TTAAAAGGAAAAAGAGTGCCACAAAGTTGTG
64 TGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTG
* * * * *
313287 GGC-TTAAAAG----GGTGCCAC-GAGGTTGTGGACTTAGAAGGAAAAAGGCTACCACGGAGTTG
1 GGCTTTAAAAGAAAAAGTGCCACGGA-GTGGTGGACTTAGAAAGAAAAAAG-TGCCACGGAGTTG
313346 TGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
64 TGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
* * *
313382 GGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTG
1 GGCTTT-AAAAGAAAAAGTGCCACGGAGTGGTGGACTTAG-AAAGAAAAAAGTGCCACGGAGTTG
*
313447 TGGGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTG
64 TGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
* * **
313483 GGCTTTAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAAGTGCCACTAAGTTGT
1 GGCTTTAAAAGAAAAAGTGCCACGGAGTGGTGGACTTAG-AAAGAAAAAAGTGCCACGGAGTTGT
*
313548 GGGCTTTAAAAAGAAAAAGGTGCCACGGAGTGGTG
65 GGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
* * * * *
313583 GACTTT--GAGACAAAA-TGCCACCGAGTCGTGGACTT-TAAAGAAAA
1 GGCTTTAAAAGA-AAAAGTGCCACGGAGTGGTGGACTTAGAAAGAAAA
313627 GGATGCCACT
Statistics
Matches: 300, Mismatches: 27, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
94 2 0.01
95 61 0.20
96 23 0.08
97 5 0.02
98 20 0.07
99 10 0.03
100 97 0.32
101 70 0.23
102 12 0.04
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (99 bp):
GGCTTTAAAAGAAAAAGTGCCACGGAGTGGTGGACTTAGAAAGAAAAAAGTGCCACGGAGTTGTG
GGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
Found at i:313634 original size:62 final size:63
Alignment explanation
Indices: 313335--313743 Score: 331
Period size: 67 Copynumber: 6.3 Consensus size: 63
313325 AAAAAGGCTA
* * * * * *
313335 CCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 CCACTGAGTCGTGGGCTTT-AAAAG-AAAAGGTGCCACGGAGTCGTGGACTTT--GAAGAAAAAA
313400 TG
62 TG
* * * * *
313402 CCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAT
1 CCACTGAGTCGTGGGCTTT-AAAAG-AAAAGGTGCCACGGAGTCGTGGACTTT--GAAGAAAAA-
*
313467 GTG
61 ATG
* * * * *
313470 CCACGGAGTTGTGGGCTTTAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAAGT
1 CCACTGAGTCGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTG--AAGAAAAAA-T
313535 G
63 G
* * * *
313536 CCACTAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTGGTGGACTTTG-AGACAAAATG
1 CCACTGAGTCGTGGGCTTT-AAAAG-AAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAAATG
* * * * * *
313600 CCACCGAGTCGTGGACTTT-AAAGAAAAGGATGCCACTGAGTCATGGACTTTAAAGAAAAGGATG
1 CCACTGAGTCGTGGGCTTTAAAAGAAAAGG-TGCCACGGAGTCGTGGACTTTGAAGAAAA-AATG
* * * * * * **
313664 CCACTAAGTCGTGGACTTTGAGACAAAA--CGCCACTAAGTCGTGGACTTTGAAGAAAAAATG
1 CCACTGAGTCGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAAATG
313725 CCACTGAGTCGTGGGCTTT
1 CCACTGAGTCGTGGGCTTT
313744 GAGAAGAGAT
Statistics
Matches: 299, Mismatches: 33, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
61 26 0.09
62 47 0.16
63 5 0.02
64 37 0.12
65 13 0.04
66 52 0.17
67 72 0.24
68 47 0.16
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (63 bp):
CCACTGAGTCGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAAATG
Found at i:313686 original size:94 final size:93
Alignment explanation
Indices: 313523--313774 Score: 276
Period size: 94 Copynumber: 2.7 Consensus size: 93
313513 TGGGCTTTGA
* ** * * *
313523 AAAGAAAAAAGTGCCACTAAGTTGTGGGCTTTAAAAAGAAAAAGG-TGCCACGGAGTGGTGGACT
1 AAAGAAAAAA-TGCCACTGAGTCATGGACTTT--AAAG-AAAAGGATGCCACTGAGTCGTGGACT
* *
313587 TTGAGACAAAATGCCACCGAGTCGTGGACTTT
62 TTGAGACAAAACGCCACCAAGTCGTGGACTTT
* *
313619 AAAGAAAAGGATGCCACTGAGTCATGGACTTTAAAGAAAAGGATGCCACTAAGTCGTGGACTTTG
1 AAAGAAAA-AATGCCACTGAGTCATGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTG
*
313684 AGACAAAACGCCACTAAGTCGTGGACTTT
65 AGACAAAACGCCACCAAGTCGTGGACTTT
* * * * * *
313713 GAAGAAAAAATGCCACTGAGTCGTGGGCTTT-GAGAAGA-GATTGCCATTGAGTCGTGGACTTT
1 AAAGAAAAAATGCCACTGAGTCATGGACTTTAAAGAAAAGGA-TGCCACTGAGTCGTGGACTTT
313775 AAGAAGGTAT
Statistics
Matches: 134, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
91 2 0.01
92 24 0.18
93 26 0.19
94 56 0.42
96 25 0.19
97 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (93 bp):
AAAGAAAAAATGCCACTGAGTCATGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGA
GACAAAACGCCACCAAGTCGTGGACTTT
Found at i:313728 original size:31 final size:31
Alignment explanation
Indices: 313391--313779 Score: 246
Period size: 34 Copynumber: 12.2 Consensus size: 31
313381 GGGCTTTAAA
* * * *
313391 AAGAAAAAGTGCCACGGAGTGGTGGGCTTTG
1 AAGAAAAAATGCCACTGAGTCGTGGACTTTG
* * * * *
313422 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 --AAGAAAAA-ATGCCACTGAGTCGTGGACTTT--G
* * * * *
313458 AAGAAAAATGTGCCACGGAGTTGTGGGCTTTAA
1 AAGAAAAA-ATGCCACTGAGTCGTGGACTTT-G
* * * *
313491 AAGAAAAAGTGCCACGGAGTGGTGGGCTTTG
1 AAGAAAAAATGCCACTGAGTCGTGGACTTTG
* * * *
313522 AAAAGAAAAAAGTGCCACTAAGTTGTGGGCTTTAAA
1 --AAGAAAAAA-TGCCACTGAGTCGTGGACTTT--G
* * *
313558 AAGAAAAAGGTGCCACGGAGTGGTGGACTTTG
1 AAGAAAAA-ATGCCACTGAGTCGTGGACTTTG
* * *
313590 -AGACAAAATGCCACCGAGTCGTGGACTTTA
1 AAGAAAAAATGCCACTGAGTCGTGGACTTTG
* * *
313620 AAGAAAAGGATGCCACTGAGTCATGGACTTTA
1 AAGAAAA-AATGCCACTGAGTCGTGGACTTTG
* *
313652 AAGAAAAGGATGCCACTAAGTCGTGGACTTTG
1 AAGAAAA-AATGCCACTGAGTCGTGGACTTTG
* * *
313684 -AGACAAAACGCCACTAAGTCGTGGACTTTG
1 AAGAAAAAATGCCACTGAGTCGTGGACTTTG
*
313714 AAGAAAAAATGCCACTGAGTCGTGGGCTTTG
1 AAGAAAAAATGCCACTGAGTCGTGGACTTTG
* * *
313745 -AGAAGAGATTGCCATTGAGTCGTGGACTTT-
1 AAGAA-AAAATGCCACTGAGTCGTGGACTTTG
313775 AAGAA
1 AAGAA
313780 GGTATTTGAA
Statistics
Matches: 303, Mismatches: 39, Indels: 30
0.81 0.10 0.08
Matches are distributed among these distances:
30 45 0.15
31 67 0.22
32 71 0.23
33 26 0.09
34 94 0.31
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (31 bp):
AAGAAAAAATGCCACTGAGTCGTGGACTTTG
Found at i:313766 original size:62 final size:60
Alignment explanation
Indices: 313563--313779 Score: 222
Period size: 62 Copynumber: 3.5 Consensus size: 60
313553 TTAAAAAGAA
* * * * * *
313563 AAAGGTGCCACGGAGTGGTGGACTTTG-AGACAAAATGCCACCGAGTCGTGGACTTTAAAG
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTT-GAG
* * * *
313623 AAAAGGATGCCACTGAGTCATGGACTTTAAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAG
1 -AAA-GATGCCACTGAGTCGTGGACTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAG
* * * *
313686 ACAAAACGCCACTAAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGGCTTTGAG
1 A-AAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAG
*
313747 AAGAGATTGCCATTGAGTCGTGGACTTT-AAGAA
1 AA-AGA-TGCCACTGAGTCGTGGACTTTGAAGAA
313780 GGTATTTGAA
Statistics
Matches: 128, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
60 1 0.01
61 34 0.27
62 64 0.50
63 9 0.07
64 20 0.16
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (60 bp):
AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAG
Found at i:313780 original size:31 final size:30
Alignment explanation
Indices: 313468--313776 Score: 174
Period size: 32 Copynumber: 9.8 Consensus size: 30
313458 AAGAAAAATG
* * * *
313468 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 TGCCACTGAGTCGTGGACTTT-AAAGAAAGA
* * * *
313499 GTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTT--AAAG-AAAGA
* * * *
313533 GTGCCACTAAGTTGTGGGCTTTAAAAAGAAAAAGG
1 -TGCCACTGAGTCGTGGACTTT--AAAG--AAAGA
* * * *
313568 TGCCACGGAGTGGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGA-AAGA
*
313598 TGCCACCGAGTCGTGGACTTTAAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTAAAG-AAA-GA
*
313630 TGCCACTGAGTCATGGACTTTAAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTAAAG-AAA-GA
* * *
313662 TGCCACTAAGTCGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGA-AAGA
* * * *
313692 CGCCACTAAGTCGTGGACTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAAAG-AAAGA
* *
313723 TGCCACTGAGTCGTGGGCTTT-GAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAAGAA-AGA
*
313753 TTGCCATTGAGTCGTGGACTTTAA
1 -TGCCACTGAGTCGTGGACTTTAA
313777 GAAGGTATTT
Statistics
Matches: 230, Mismatches: 34, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
29 3 0.01
30 47 0.20
31 53 0.23
32 72 0.31
33 5 0.02
34 46 0.20
35 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAGA
Found at i:315077 original size:28 final size:27
Alignment explanation
Indices: 315037--315099 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
315027 CCTTTGCACC
* * *
315037 TTTTTTCTGTGTTTTTTTTACTTCTTT
1 TTTTTTTTTTGTTTTTTTGACTTCTTT
315064 TTTGTTTTTTTGTTTTTTTGACTTCTTT
1 TTT-TTTTTTTGTTTTTTTGACTTCTTT
315092 TTTTTTTT
1 TTTTTTTT
315100 ACTTTTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.81
Consensus pattern (27 bp):
TTTTTTTTTTGTTTTTTTGACTTCTTT
Found at i:315092 original size:18 final size:16
Alignment explanation
Indices: 315048--315103 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
315038 TTTTTCTGTG
315048 TTTTTTTTACTTC-TT
1 TTTTTTTTACTTCTTT
* *
315063 TTTTGTTT--TT-TTG
1 TTTTTTTTACTTCTTT
*
315076 TTTTTTTGACTTCTTT
1 TTTTTTTTACTTCTTT
315092 TTTTTTTTACTT
1 TTTTTTTTACTT
315104 TTGTTTGTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
13 9 0.29
15 9 0.29
16 13 0.42
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTTTTACTTCTTT
Found at i:319663 original size:13 final size:13
Alignment explanation
Indices: 319645--319671 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
319635 CATAAGGTGT
319645 TGTATCGATACAA
1 TGTATCGATACAA
319658 TGTATCGATACAA
1 TGTATCGATACAA
319671 T
1 T
319672 TTAAGCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:319730 original size:13 final size:13
Alignment explanation
Indices: 319712--319736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
319702 ATTACTCGAA
319712 TGTATCGATACAT
1 TGTATCGATACAT
319725 TGTATCGATACA
1 TGTATCGATACA
319737 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:319789 original size:52 final size:50
Alignment explanation
Indices: 319725--319869 Score: 200
Period size: 52 Copynumber: 2.8 Consensus size: 50
319715 ATCGATACAT
*
319725 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
319777 TGTATCGATACACTATAAAATGTATCAATACATGCAAGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
319829 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
319870 CTTTTCATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Done.