Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005390.1 Hibiscus syriacus cultivar Beakdansim tig00012356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 273217
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:167 original size:14 final size:15
Alignment explanation
Indices: 148--177 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
138 CATAATCGGA
148 TTTAGGGTTT-AGGT
1 TTTAGGGTTTAAGGT
162 TTTAGGGTTTAAGGT
1 TTTAGGGTTTAAGGT
177 T
1 T
178 CATTACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTAAGGT
Found at i:461 original size:13 final size:14
Alignment explanation
Indices: 443--471 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
433 TTTATTCATC
443 AATAATGT-ATTTT
1 AATAATGTAATTTT
456 AATAATGTAATTTT
1 AATAATGTAATTTT
470 AA
1 AA
472 AAAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:6231 original size:19 final size:18
Alignment explanation
Indices: 6171--6258 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 18
6161 TTTATGTTAG
6171 TATTTTT-TTAAATAGTTA
1 TATTTTTATTAAATA-TTA
6189 T-TATTTT-TT--ATATTAA
1 TAT-TTTTATTAAATATT-A
*
6205 TATATTTATGTAAATATTA
1 TATTTTTAT-TAAATATTA
*
6224 TATTTTTATTAAA-ATAA
1 TATTTTTATTAAATATTA
* *
6241 TATTTATA-TAATTATTA
1 TATTTTTATTAAATATTA
6258 T
1 T
6259 TTATTTAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 2 0.04
16 11 0.20
17 17 0.30
18 12 0.21
19 9 0.16
20 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTTTTATTAAATATTA
Found at i:6264 original size:36 final size:33
Alignment explanation
Indices: 6177--6265 Score: 85
Period size: 34 Copynumber: 2.7 Consensus size: 33
6167 TTAGTATTTT
* *
6177 TTTAAATAGTTATTATTT-TTTATATTAATATA
1 TTTATATAATTATTATTTATTTATATTAATATA
* * *
6209 TTTATGTAAATATTATATT-TTTAT-TAAAATAATA
1 TTTATATAATTATTAT-TTATTTATAT-TAAT-ATA
6243 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTATTTA
6266 GAATTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 13 0.28
33 12 0.26
34 21 0.46
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TTTATATAATTATTATTTATTTATATTAATATA
Found at i:8060 original size:21 final size:21
Alignment explanation
Indices: 8034--8127 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
8024 TATGCCATCT
* *
8034 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
8055 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
8076 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
8097 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
8118 CCGCAGGGTT
1 CCGCAGGGTT
8128 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:8698 original size:33 final size:34
Alignment explanation
Indices: 8639--8735 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 34
8629 AAATGTTTTT
* *
8639 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* * *
8673 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* *
8706 AAAATATAAATTATAGTATTCAAAATTTAA
1 AAAATAAAAATTATATTATTCAAAATTTAA
8736 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCAAAATTTAAAATA
Found at i:8742 original size:34 final size:32
Alignment explanation
Indices: 8637--8742 Score: 122
Period size: 34 Copynumber: 3.2 Consensus size: 32
8627 ATAAATGTTT
*
8637 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTC-AAATTT-AAA
* *
8671 TAAAAATAAAAATAATATTATTCAAATTTAAA
1 TTAAAATAAAAATTATATTATTCAAATTTAAA
* *
8703 TTTAAAATATAAATTATAGTATTCAAAATTTAACA
1 -TTAAAATAAAAATTATATTATTC-AAATTTAA-A
8738 TTAAA
1 TTAAA
8743 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (32 bp):
TTAAAATAAAAATTATATTATTCAAATTTAAA
Found at i:9444 original size:128 final size:128
Alignment explanation
Indices: 9135--10908 Score: 3163
Period size: 128 Copynumber: 13.9 Consensus size: 128
9125 TTACCTGATT
*
9135 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
9200 TGATGAAATAATGGAAGGCGC-CCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
9262 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*** *
9327 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
*
9390 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATATGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
9455 TAACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
9518 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
9581 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
9644 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
9709 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
9772 TACTGATATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
9837 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
9900 TACTGATATATCTAGTGTCCCCGAGGGACATGA-TGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
9964 TAACGAAATAATGGAAGGCGC-CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
10026 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
10091 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
10154 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
10219 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
10282 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
10347 TGATGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
10409 TACTGATATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
10474 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
10537 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
10602 TAACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
10665 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
10730 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
10792 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
10857 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
10909 ACTCCGATTA
Statistics
Matches: 1580, Mismatches: 54, Indels: 25
0.95 0.03 0.02
Matches are distributed among these distances:
125 1 0.00
126 189 0.12
127 440 0.28
128 947 0.60
129 3 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:10093 original size:510 final size:511
Alignment explanation
Indices: 9135--10899 Score: 3213
Period size: 510 Copynumber: 3.5 Consensus size: 511
9125 TTACCTGATT
* *
9135 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
9200 TGATGAAATAATGGAAGGCGC-CCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
9264 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
9329 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACT
196 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACT
*
9394 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTAAC
261 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
9459 GAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG-
326 GAAATAATGGAAGGCG-CCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGA
9523 -ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGA
390 TATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGA
9587 AATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
455 AATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
9644 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
*
9709 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
*
9774 CTGATATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
*
9839 ACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACT
196 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACT
9904 GATATATCTAGTGTCCCCGAGGGACATGA-TGACATAATAGGGCAATGATAACATATTCTCTAAC
261 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
9968 GAAATAATGGAAGGCGCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
326 GAAATAATGGAAGGCGCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
*
10033 ATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
391 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
10098 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
456 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
10154 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
10219 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
10284 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
* *** *
10349 ATGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTAC
196 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTAC
* *
10412 TGATATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
260 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAA
* *** *
10477 CGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACT
325 CGAAATAATGGAAGGCGC-CCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTACT
*
10541 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
388 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
*
10606 GAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
453 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
10665 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
10730 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
*
10794 CTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
10859 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAT
196 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAT
10900 ATGAATAGTA
Statistics
Matches: 1222, Mismatches: 26, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
508 48 0.04
509 201 0.16
510 706 0.58
511 266 0.22
512 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (511 bp):
TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACT
GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
GAAATAATGGAAGGCGCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:10539 original size:383 final size:383
Alignment explanation
Indices: 9135--10899 Score: 3157
Period size: 383 Copynumber: 4.6 Consensus size: 383
9125 TTACCTGATT
*
9135 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
9200 TGATGAAATAATGGAAGGCGC-CCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCC-GGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
9264 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
130 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
**
9329 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTAC
195 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGAGAAATAATAGGTAC
*
9393 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTAA
259 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAA
9458 CGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
324 CGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
9518 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
9581 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
9646 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
130 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
* * *
9711 ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
195 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGGTACT
* *
9776 GATATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
260 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
** *** *
9841 GAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
325 GAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
9900 TACTGATATATCTAGTGTCCCCGAGGGACATGA-TGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
9964 TAACGAAATAATGGAAGGCGCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
*
10029 TGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
10094 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGGTACTG
* *
10159 ATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
261 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACG
*
10224 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
326 AAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
10282 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
10347 TGATGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
*
10412 TGATATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* **
10477 CGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACT
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGAGAAATAATAGGTACT
10541 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
260 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
10606 GAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
325 GAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
10665 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
10730 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
*
10795 TGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
10860 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAT
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAT
10900 ATGAATAGTA
Statistics
Matches: 1328, Mismatches: 45, Indels: 18
0.95 0.03 0.01
Matches are distributed among these distances:
381 79 0.06
382 597 0.45
383 625 0.47
384 27 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (383 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGGTACTG
ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACG
AAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:21771 original size:13 final size:13
Alignment explanation
Indices: 21753--21781 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21743 TGCAGCACAT
21753 TATTTTGATCATG
1 TATTTTGATCATG
21766 TATTTTGATCATG
1 TATTTTGATCATG
21779 TAT
1 TAT
21782 GCTACCACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (13 bp):
TATTTTGATCATG
Found at i:33369 original size:88 final size:88
Alignment explanation
Indices: 33220--33487 Score: 464
Period size: 88 Copynumber: 3.0 Consensus size: 88
33210 TAGTGTCCCA
** *
33220 AAACTCGGAATAGAAAACCTGCAAATTGTTACATACTGATTTTGATTAGATTGCCTACAAATAAA
1 AAACTCGGAATAGAAAACCTGCAAATTGTTACATTTTGATTGTGATTAGATTGCCTACAAATAAA
33285 CTAAACTGAATAGAAAATCCGAG
66 CTAAACTGAATAGAAAATCCGAG
* *
33308 AAACTCGGTATAGAAAACCTGCAAATTGTTGCATTTTGATTGTGATTAGATTGCCTACAAATAAA
1 AAACTCGGAATAGAAAACCTGCAAATTGTTACATTTTGATTGTGATTAGATTGCCTACAAATAAA
33373 CTAAACTGAATAGAAAATCCGAG
66 CTAAACTGAATAGAAAATCCGAG
* *
33396 AAACTTGGAATAGAAAACTTGCAAATTGTTACATTTTGATTGTGATTAGATTGCCTACAAATAAA
1 AAACTCGGAATAGAAAACCTGCAAATTGTTACATTTTGATTGTGATTAGATTGCCTACAAATAAA
*
33461 CTATACTGAATAGAAAATCCGAG
66 CTAAACTGAATAGAAAATCCGAG
33484 AAAC
1 AAAC
33488 CACTTTGGAC
Statistics
Matches: 170, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 170 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (88 bp):
AAACTCGGAATAGAAAACCTGCAAATTGTTACATTTTGATTGTGATTAGATTGCCTACAAATAAA
CTAAACTGAATAGAAAATCCGAG
Found at i:36019 original size:18 final size:18
Alignment explanation
Indices: 35998--36032 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35988 TTAGGGATGA
35998 TTGATTTCTCAGGGAAGG
1 TTGATTTCTCAGGGAAGG
*
36016 TTGATTTCTCGGGGAAG
1 TTGATTTCTCAGGGAAG
36033 ATTAAGGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.11, G:0.34, T:0.34
Consensus pattern (18 bp):
TTGATTTCTCAGGGAAGG
Found at i:80724 original size:17 final size:17
Alignment explanation
Indices: 80702--80734 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
80692 CGAGTTTTAC
80702 GAACCAGATATCAAGTA
1 GAACCAGATATCAAGTA
*
80719 GAACCATATATCAAGT
1 GAACCAGATATCAAGT
80735 GGTTCGTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
GAACCAGATATCAAGTA
Found at i:89399 original size:40 final size:40
Alignment explanation
Indices: 89350--89446 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
89340 CCAAATGAAT
*
89350 AAACAAACAAGCTGAAGCCACCCTCTTTTTCCCAAGAAAC
1 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAAGAAAC
*
89390 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAGGAAAC
1 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAAGAAAC
*
89430 AAACAAACAAACAGAAG
1 AAACAAACAAACTGAAG
89447 AAACCTTCGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.45, C:0.30, G:0.10, T:0.14
Consensus pattern (40 bp):
AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAAGAAAC
Found at i:91829 original size:30 final size:30
Alignment explanation
Indices: 91793--91852 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
91783 GATATATTAG
*
91793 TGACAGAATCGGAAGTATTTGTAGTTTGAT
1 TGACAGAATCGGAAGTATTTATAGTTTGAT
91823 TGACAGAATCGGAAGTATTTATAGTTTGAT
1 TGACAGAATCGGAAGTATTTATAGTTTGAT
91853 GACCAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (30 bp):
TGACAGAATCGGAAGTATTTATAGTTTGAT
Found at i:92567 original size:10 final size:10
Alignment explanation
Indices: 92552--92642 Score: 65
Period size: 10 Copynumber: 8.1 Consensus size: 10
92542 CATCTAAATG
92552 ATAAACGAAC
1 ATAAACGAAC
92562 ATAAACGAAC
1 ATAAACGAAC
*
92572 GTAAACGAACAAAC
1 ATAAACG----AAC
*
92586 ATAAACGAAA
1 ATAAACGAAC
*
92596 ATAACAAATGAAC
1 AT---AAACGAAC
92609 ATAAACGAACAC
1 ATAAACG-A-AC
92621 AATAAACGAAC
1 -ATAAACGAAC
92632 ATAAACGAAC
1 ATAAACGAAC
92642 A
1 A
92643 ACACAAACAC
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
10 35 0.54
11 3 0.05
12 3 0.05
13 15 0.23
14 9 0.14
ACGTcount: A:0.62, C:0.19, G:0.10, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:92613 original size:23 final size:23
Alignment explanation
Indices: 92554--92650 Score: 90
Period size: 23 Copynumber: 4.2 Consensus size: 23
92544 TCTAAATGAT
*
92554 AAACGAACATAAACGAACGTA-AAC
1 AAACGAACATAAACGAA--AACAAC
* * *
92578 GAACAAACATAAACGAAAATAAC
1 AAACGAACATAAACGAAAACAAC
* * *
92601 AAATGAACATAAACGAACACAAT
1 AAACGAACATAAACGAAAACAAC
92624 AAACGAACATAAACGAACAAC-AC
1 AAACGAACATAAACGAA-AACAAC
92647 AAAC
1 AAAC
92651 ACAAAAAACA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
22 1 0.02
23 41 0.69
24 17 0.29
ACGTcount: A:0.62, C:0.21, G:0.09, T:0.08
Consensus pattern (23 bp):
AAACGAACATAAACGAAAACAAC
Found at i:95111 original size:3 final size:3
Alignment explanation
Indices: 95088--95138 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
95078 GGCCTGCAAA
*
95088 AAT AAT AA- AAT AAA AATT AAT AAT AAT AAT AAT AAAT AAAT AAT -AT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT -AAT AAT AAT
95134 AAT AA
1 AAT AA
95139 AATGTTTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 4 0.10
3 29 0.69
4 9 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:95125 original size:16 final size:16
Alignment explanation
Indices: 95091--95139 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
95081 CTGCAAAAAT
* *
95091 AATAA-AATAAAAATT
1 AATAATAATAATAATA
95106 AATAATAATAATAATA
1 AATAATAATAATAATA
95122 AATAAATAAT-ATAATA
1 AAT-AATAATAATAATA
95138 AA
1 AA
95140 ATGTTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 5 0.17
16 19 0.63
17 6 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:107790 original size:21 final size:21
Alignment explanation
Indices: 107764--107803 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
107754 CCGTTACACA
107764 GGGGGGAATCGGTACCCTCTG
1 GGGGGGAATCGGTACCCTCTG
* *
107785 GGGGGGAATTGGTTCCCTC
1 GGGGGGAATCGGTACCCTC
107804 CGAGCATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCTCTG
Found at i:114297 original size:22 final size:21
Alignment explanation
Indices: 114255--114294 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
114245 GAGTTTATTT
*
114255 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
114276 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
114295 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:116051 original size:399 final size:399
Alignment explanation
Indices: 115313--116113 Score: 1485
Period size: 399 Copynumber: 2.0 Consensus size: 399
115303 TCTCATGTCA
* * *
115313 CTTGCTTGAATGAAGTACATTATTCTATTCTTCCAATAGGCATAGTTAGCCCCATTGAAGAAAGG
1 CTTGCTTGAATGAAATACATCATTATATTCTTCCAATAGGCATAGTTAGCCCCATTGAAGAAAGG
*
115378 AGGCTTGTTGACGGGCATCGAATCGAGACTGGAGTCGAAGTTTGAAGCGAAGGCCATTGATGACT
66 AGGCTTGTTGACGGGCATCGAATCGAGACCGGAGTCGAAGTTTGAAGCGAAGGCCATTGATGACT
* *
115443 TTGATTATCGATATAACTCTTCCTGAATCGACTCAAGAGGCGATTAAACCTTCAAATGAGTTAGG
131 TTGATTATCGATAGAACTCTTCCCGAATCGACTCAAGAGGCGATTAAACCTTCAAATGAGTTAGG
115508 CTCTGATACCAATTGTTGAGTTAATCGATTGACGGAATCGGCCAAGAGGGGGTGAATTGGCAATA
196 CTCTGATACCAATTGTTGAGTTAATCGATTGACGGAATCGGCCAAGAGGGGGTGAATTGGCAATA
*
115573 AATATTTTGGTGGAAGCTTTTGCAGAAAATTGAAAATAATTGCACAACGATTTAGAGTGGTTCGA
261 AAAATTTTGGTGGAAGCTTTTGCAGAAAATTGAAAATAATTGCACAACGATTTAGAGTGGTTCGA
115638 CTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCA
326 CTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCA
115703 CTAATTTAT
391 CTAATTTAT
*
115712 CTTGCTTGAATGAAATACATCATTATATTCTTCCAATAGGCATAGTTAGCCCTATTGAAGAAAGG
1 CTTGCTTGAATGAAATACATCATTATATTCTTCCAATAGGCATAGTTAGCCCCATTGAAGAAAGG
* *
115777 AGGCTTGTTGACGGGCATCGAATCGAGACCGGAGTCGAAGTTTGAAGCGGATGCCATTGATGACT
66 AGGCTTGTTGACGGGCATCGAATCGAGACCGGAGTCGAAGTTTGAAGCGAAGGCCATTGATGACT
115842 TTGATTATCGATAGAACTCTTCCCGAATCGACTCAAGAGGCGATTAAACCTTCAAATGAGTTAGG
131 TTGATTATCGATAGAACTCTTCCCGAATCGACTCAAGAGGCGATTAAACCTTCAAATGAGTTAGG
115907 CTCTGATACCAATTGTTGAGTTAATCGATTGACGGAATCGGCCAAGAGGGGGTGAATTGGCAATA
196 CTCTGATACCAATTGTTGAGTTAATCGATTGACGGAATCGGCCAAGAGGGGGTGAATTGGCAATA
* *
115972 AAAATTTTGGTGGAAGCTTTTGTAGAAAATTGAAAATAATTGCACAGCGATTTAGAGTGGTTCGA
261 AAAATTTTGGTGGAAGCTTTTGCAGAAAATTGAAAATAATTGCACAACGATTTAGAGTGGTTCGA
116037 CTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCA
326 CTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCA
*
116102 CTAATTTGT
391 CTAATTTAT
116111 CTT
1 CTT
116114 TCTTTTGAGG
Statistics
Matches: 389, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
399 389 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (399 bp):
CTTGCTTGAATGAAATACATCATTATATTCTTCCAATAGGCATAGTTAGCCCCATTGAAGAAAGG
AGGCTTGTTGACGGGCATCGAATCGAGACCGGAGTCGAAGTTTGAAGCGAAGGCCATTGATGACT
TTGATTATCGATAGAACTCTTCCCGAATCGACTCAAGAGGCGATTAAACCTTCAAATGAGTTAGG
CTCTGATACCAATTGTTGAGTTAATCGATTGACGGAATCGGCCAAGAGGGGGTGAATTGGCAATA
AAAATTTTGGTGGAAGCTTTTGCAGAAAATTGAAAATAATTGCACAACGATTTAGAGTGGTTCGA
CTTTCTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCA
CTAATTTAT
Found at i:126766 original size:42 final size:42
Alignment explanation
Indices: 126720--127049 Score: 513
Period size: 42 Copynumber: 7.9 Consensus size: 42
126710 AGTTGATGTG
* *
126720 CGCGTTGCGATTTATTCCAAGTTCGTTGCGACAGTCGAAGTT
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
* **
126762 CGCGTTGCGATTTATTCCAAATTTATTGCGATAGTCCAAGTT
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
*
126804 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTT
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
* * *
126846 CGCATTGCGATTTATTCCAAATTCGTTACGATAGTCCAAGTT
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
* *
126888 CGCGTTGCGATTTATTCCAAATTCGTTGTGATAGTCCAAGTT
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
126930 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
*
126972 CGCGTTGCGATTTATTCCAAGTTCGTTGCG--A-TCGAAGTT
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
**
127011 CAAGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAA
1 CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAA
127050 AATCGCAACA
Statistics
Matches: 263, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
39 35 0.13
40 1 0.00
41 1 0.00
42 226 0.86
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (42 bp):
CGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
Found at i:127939 original size:21 final size:19
Alignment explanation
Indices: 127907--128059 Score: 117
Period size: 21 Copynumber: 7.3 Consensus size: 19
127897 CGTTGCGATT
*
127907 TTGGACTATCGCAACGAAC
1 TTGGAATATCGCAACGAAC
127926 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* *
127949 TTCGACTATCGCAACGAAC
1 TTGGAATATCGCAACGAAC
127968 TTGGAATAAATCGCAACGTGAAC
1 TTGGAAT--ATCGCAAC--GAAC
* *
127991 TTGGACTATCGCAACGCGAAT
1 TTGGAATATCGCAA--CGAAC
128012 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* *
128035 TTGGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
128054 TTGGAA
1 TTGGAA
128060 AATCTCATTA
Statistics
Matches: 110, Mismatches: 12, Indels: 24
0.75 0.08 0.16
Matches are distributed among these distances:
19 25 0.23
21 45 0.41
23 40 0.36
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (19 bp):
TTGGAATATCGCAACGAAC
Found at i:127969 original size:42 final size:42
Alignment explanation
Indices: 127907--128059 Score: 252
Period size: 42 Copynumber: 3.6 Consensus size: 42
127897 CGTTGCGATT
127907 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
127949 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGTGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
127991 TTGGACTATCGCAACGCGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAAC
*
128035 TTGGACTATCGCAACGAATTTGGAA
1 TTGGACTATCGCAACGAACTTGGAA
128060 AATCTCATTA
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
42 64 0.62
44 40 0.38
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:127994 original size:23 final size:23
Alignment explanation
Indices: 127914--128039 Score: 151
Period size: 21 Copynumber: 5.8 Consensus size: 23
127904 ATTTTGGACT
127914 ATCGCAA--CGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
* *
127935 ATCGCAACGCGAACTTCGACT--
1 ATCGCAACGCGAACTTGGAATAA
127956 ATCGCAA--CGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
* *
127977 ATCGCAACGTGAACTTGGACT--
1 ATCGCAACGCGAACTTGGAATAA
*
127998 ATCGCAACGCGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
128021 ATCGCAACGCGAACTTGGA
1 ATCGCAACGCGAACTTGGA
128040 CTATCGCAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
19 10 0.11
21 39 0.45
23 38 0.44
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (23 bp):
ATCGCAACGCGAACTTGGAATAA
Found at i:128096 original size:21 final size:21
Alignment explanation
Indices: 128070--128114 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
128060 AATCTCATTA
128070 CGATAGTCGATGTTCGCGTTG
1 CGATAGTCGATGTTCGCGTTG
128091 CGATAGTCGATGTTCGCGTTG
1 CGATAGTCGATGTTCGCGTTG
128112 CGA
1 CGA
128115 ATCTGGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.33, T:0.31
Consensus pattern (21 bp):
CGATAGTCGATGTTCGCGTTG
Found at i:137670 original size:5 final size:5
Alignment explanation
Indices: 137654--137684 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
137644 CTTCATCTTT
137654 TAAAA CTAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA -TAAAA TAAAA TAAAA TAAAA TAAAA
137685 CATTTAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:142250 original size:20 final size:19
Alignment explanation
Indices: 142207--142255 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
142197 CAGGATTATT
*
142207 ACTAGAAACGATAGGAATA
1 ACTAGAAATGATAGGAATA
142226 ACTAGAAATGATAGGAAATA
1 ACTAGAAATGATAGG-AATA
*
142246 TCTAGAAATG
1 ACTAGAAATG
142256 GTTAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.20
Consensus pattern (19 bp):
ACTAGAAATGATAGGAATA
Found at i:144102 original size:21 final size:22
Alignment explanation
Indices: 144072--144113 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
144062 AAATATTAAA
*
144072 AAATATTAA-TATTTTAAATAT
1 AAATAATAATTATTTTAAATAT
*
144093 AAATAATAATTTTTTTAAATA
1 AAATAATAATTATTTTAAATA
144114 ACTTTTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAATTATTTTAAATAT
Found at i:146257 original size:2 final size:2
Alignment explanation
Indices: 146252--146290 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
146242 CCTCCCCCCC
*
146252 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
146291 TTTTTAAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:153472 original size:44 final size:44
Alignment explanation
Indices: 153404--153493 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
153394 TTAAAATTTT
**
153404 ATAATTTCATCTCTTTAATGTACATCTTGACCCATATATGTTGC
1 ATAATTTCATCTCTTTAACATACATCTTGACCCATATATGTTGC
*
153448 ATAATTTTATCTCTTTAACATACATCTTGACCCATATATGTTGC
1 ATAATTTCATCTCTTTAACATACATCTTGACCCATATATGTTGC
153492 AT
1 AT
153494 GATGTAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (44 bp):
ATAATTTCATCTCTTTAACATACATCTTGACCCATATATGTTGC
Found at i:156187 original size:21 final size:20
Alignment explanation
Indices: 156141--156187 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
156131 CTAGGCCGTC
*
156141 ACTTCTCTTTTGTTTATTTT
1 ACTTTTCTTTTGTTTATTTT
*
156161 ATTTTTCTTTTCGTTTAATTTT
1 ACTTTTCTTTT-GTTT-ATTTT
156183 -CTTTT
1 ACTTTT
156188 GATTTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
21 8 0.36
22 5 0.23
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.72
Consensus pattern (20 bp):
ACTTTTCTTTTGTTTATTTT
Found at i:157788 original size:3 final size:3
Alignment explanation
Indices: 157780--157806 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
157770 TTTAAATGAG
157780 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
157807 TCCGGCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:160602 original size:2 final size:2
Alignment explanation
Indices: 160595--160619 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
160585 AATTTAATAC
160595 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
160620 TATCTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:161505 original size:59 final size:59
Alignment explanation
Indices: 161382--161507 Score: 148
Period size: 59 Copynumber: 2.1 Consensus size: 59
161372 TGTAGTCATG
* * * *
161382 GATCATTTTATAACTTTTAATAGTCGGGAATCAACAAAACAATACCCTATAATTATATA
1 GATCATTTTATAACTTTTAATAGTCGAGAATCAACAAAAAAATACCCTATAAGTAGATA
* * * *
161441 TATCATTTTATAACTTTTAATAGTCAGAGAGTCAACAAAAAAAATACCTTAT-AGTCGA-A
1 GATCATTTTATAACTTTTAATAGTC-GAGAATCAAC-AAAAAAATACCCTATAAGTAGATA
161500 GATCATTT
1 GATCATTT
161508 ATGCAATTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 32 0.57
60 11 0.20
61 13 0.23
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (59 bp):
GATCATTTTATAACTTTTAATAGTCGAGAATCAACAAAAAAATACCCTATAAGTAGATA
Found at i:178461 original size:78 final size:77
Alignment explanation
Indices: 178377--178533 Score: 221
Period size: 77 Copynumber: 2.0 Consensus size: 77
178367 TAGAAAAAAT
* **
178377 AATATTTTAGGT-A-GCACTAAATATTAATATTTCTGATAAAAAAATAGTATTTTAGGTAATATT
1 AATATTTTAGGTAACGC-CT-AATATTAATATTTCTGAT-AAAAAATAATATTTTAAATAATATT
178440 TTA-TCAAAAATATTA
63 TTACT-AAAAATATTA
*
178455 AATATTTTATGTAACGCCTAATATTAATATTTCTGATAAAAAATAATATTTTAAATAATATTTTA
1 AATATTTTAGGTAACGCCTAATATTAATATTTCTGATAAAAAATAATATTTTAAATAATATTTTA
178520 CTAAAAATATTA
66 CTAAAAATATTA
178532 AA
1 AA
178534 AAATATTAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
77 37 0.51
78 30 0.42
79 3 0.04
80 2 0.03
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (77 bp):
AATATTTTAGGTAACGCCTAATATTAATATTTCTGATAAAAAATAATATTTTAAATAATATTTTA
CTAAAAATATTA
Found at i:178512 original size:12 final size:12
Alignment explanation
Indices: 178495--178519 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
178485 TTCTGATAAA
178495 AAATAATATTTT
1 AAATAATATTTT
178507 AAATAATATTTT
1 AAATAATATTTT
178519 A
1 A
178520 CTAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:179889 original size:20 final size:20
Alignment explanation
Indices: 179858--179913 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
179848 ATCGCATTGC
179858 AATTTCGCAACGCGAAAGTCA
1 AATTT-GCAACGCGAAAGTCA
*
179879 AATTTGCAACGTGAAAGTCA
1 AATTTGCAACGCGAAAGTCA
* *
179899 AATTCGCAACTCGAA
1 AATTTGCAACGCGAA
179914 TTTGTAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
AATTTGCAACGCGAAAGTCA
Found at i:179935 original size:19 final size:19
Alignment explanation
Indices: 179876--179966 Score: 112
Period size: 19 Copynumber: 4.7 Consensus size: 19
179866 AACGCGAAAG
* **
179876 TCAAATTTGCAACGTGAAAG
1 TCAAATTCGCAAC-TGAATT
179896 TCAAATTCGCAACTCGAATT
1 TCAAATTCGCAACT-GAATT
*
179916 TGTAAA-TCGCAACTGAATT
1 T-CAAATTCGCAACTGAATT
179935 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
179954 TCAAATTCGCAAC
1 TCAAATTCGCAAC
179967 ATGTTTTAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
18 3 0.05
19 33 0.52
20 24 0.38
21 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:180733 original size:12 final size:12
Alignment explanation
Indices: 180716--180743 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
180706 TTTCTAATAC
180716 CAAACACAATCT
1 CAAACACAATCT
180728 CAAACACAATCT
1 CAAACACAATCT
180740 CAAA
1 CAAA
180744 ACCCACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (12 bp):
CAAACACAATCT
Found at i:180896 original size:24 final size:24
Alignment explanation
Indices: 180869--180922 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
180859 GTATTCGAAA
180869 TTTGATCTTGGTCAATACTCAGAC
1 TTTGATCTTGGTCAATACTCAGAC
* *
180893 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCAGAC
180917 TTTGAT
1 TTTGAT
180923 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCAGAC
Found at i:183216 original size:18 final size:18
Alignment explanation
Indices: 183182--183217 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
183172 AAGCAAAAGG
**
183182 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
183200 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
183218 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:183561 original size:20 final size:20
Alignment explanation
Indices: 183536--183657 Score: 199
Period size: 20 Copynumber: 6.1 Consensus size: 20
183526 CGTGAAATAA
*
183536 GCGTTGCGAATTTGACTTTC
1 GCGTTGCAAATTTGACTTTC
183556 GCGTTGCAAATTTGACTTTC
1 GCGTTGCAAATTTGACTTTC
183576 GCGTTGCAAATTTGACTTTC
1 GCGTTGCAAATTTGACTTTC
*
183596 GCGTTGCAAATTTGACTTCC
1 GCGTTGCAAATTTGACTTTC
*
183616 GCGTTACAAATTTGACTTTC
1 GCGTTGCAAATTTGACTTTC
* *
183636 GCGTTGCGAATTTGACTATC
1 GCGTTGCAAATTTGACTTTC
183656 GC
1 GC
183658 AACGCTTATT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 95 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
GCGTTGCAAATTTGACTTTC
Found at i:183779 original size:25 final size:25
Alignment explanation
Indices: 183745--183796 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
183735 AACAAATCAA
*
183745 TTAAACATTGTTGTGGGTACATTAT
1 TTAAACATTGTTATGGGTACATTAT
183770 TTAAACATTGTTATGGGTACATTAT
1 TTAAACATTGTTATGGGTACATTAT
183795 TT
1 TT
183797 GGAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (25 bp):
TTAAACATTGTTATGGGTACATTAT
Found at i:184205 original size:18 final size:18
Alignment explanation
Indices: 184184--184220 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
184174 GTAATTGGAG
184184 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
184202 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
184220 T
1 T
184221 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:184227 original size:24 final size:24
Alignment explanation
Indices: 184176--184228 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
184166 TTTCATATGT
* * *
184176 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
184200 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
184224 AATTT
1 AATTT
184229 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:184567 original size:39 final size:39
Alignment explanation
Indices: 184520--184606 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
184510 TCCGATGCTC
*
184520 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
* *
184559 ATCCAAATCCAAATCTCATATGGTGCCAAGCAAAAAGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
184598 ATCAAAATC
1 ATCAAAATC
184607 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
Found at i:184883 original size:20 final size:20
Alignment explanation
Indices: 184813--184886 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
184803 AAACCGAAAA
* *
184813 TCGCGTTGTGAATTTGACTT
1 TCGCGTTGCGAATTTAACTT
*
184833 TCACGTTGCGAATTTAAC-T
1 TCGCGTTGCGAATTTAACTT
****
184852 TCGCAACACGAATTTAACTT
1 TCGCGTTGCGAATTTAACTT
184872 TCGCGTTGCGAATTT
1 TCGCGTTGCGAATTT
184887 GTACCTTCAA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
19 14 0.34
20 27 0.66
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAACTT
Found at i:185021 original size:33 final size:33
Alignment explanation
Indices: 184957--185048 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 33
184947 CAAATCAACT
*
184957 TTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTA
1 TTTACAAATCAATT--A-AA-C-AAAAAATAAATCTTA
*
184995 TTTACAAATCAATTAATCAAAAAATAAATCTTA
1 TTTACAAATCAATTAAACAAAAAATAAATCTTA
* **
185028 TTTCCTCATCAATTAAACAAA
1 TTTACAAATCAATTAAACAAA
185049 TCAACTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
33 31 0.65
34 1 0.02
35 1 0.02
36 1 0.02
38 14 0.29
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (33 bp):
TTTACAAATCAATTAAACAAAAAATAAATCTTA
Found at i:186530 original size:21 final size:21
Alignment explanation
Indices: 186481--186530 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
186471 TTCTTCGATA
* *
186481 ATGAGAGGGGCCTCTTGAACG
1 ATGATAGGCGCCTCTTGAACG
*
186502 AT-AGTAGGCGCCTCTTGAATG
1 ATGA-TAGGCGCCTCTTGAACG
186523 ATGATAGG
1 ATGATAGG
186531 TGCATCGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (21 bp):
ATGATAGGCGCCTCTTGAACG
Found at i:188998 original size:22 final size:22
Alignment explanation
Indices: 188970--189016 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
188960 GATGGAGATA
188970 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
188992 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
189014 GAC
1 GAC
189017 AGATGTCGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:191118 original size:14 final size:14
Alignment explanation
Indices: 191099--191146 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
191089 TTAAATTTTA
*
191099 CATAAATGAAAACT
1 CATAAATCAAAACT
* *
191113 CATAAAACACAACT
1 CATAAATCAAAACT
191127 -ATAAACTCAAAACT
1 CATAAA-TCAAAACT
191141 CATAAA
1 CATAAA
191147 ACCCTAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 5 0.19
14 17 0.63
15 5 0.19
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (14 bp):
CATAAATCAAAACT
Found at i:202654 original size:42 final size:42
Alignment explanation
Indices: 202595--202719 Score: 232
Period size: 42 Copynumber: 3.0 Consensus size: 42
202585 ATGTTGTTGT
202595 TAGGGAAACTAATGCAATAGTGTAAGATGATGTGCAAGTAAC
1 TAGGGAAACTAATGCAATAGTGTAAGATGATGTGCAAGTAAC
* *
202637 TAGGGAAACTAATGCAATAGTGTAAGATGATGTGCAAATAAT
1 TAGGGAAACTAATGCAATAGTGTAAGATGATGTGCAAGTAAC
202679 TAGGGAAACTAATGCAATAGTGTAAGATGATGTGCAAGTAA
1 TAGGGAAACTAATGCAATAGTGTAAGATGATGTGCAAGTAA
202720 TGCATCTTTG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.25
Consensus pattern (42 bp):
TAGGGAAACTAATGCAATAGTGTAAGATGATGTGCAAGTAAC
Found at i:203348 original size:2 final size:2
Alignment explanation
Indices: 203341--203369 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
203331 CAAATTCCAG
203341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
203370 GTTTTCCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:206188 original size:2 final size:2
Alignment explanation
Indices: 206181--206218 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
206171 TTACTATTTG
*
206181 AT AT AT AT AT A- AT TT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
206219 TTTAAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:206200 original size:16 final size:16
Alignment explanation
Indices: 206176--206207 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
206166 AAAAGTTACT
*
206176 ATTTGATATATATATA
1 ATTTAATATATATATA
206192 ATTTAATATATATATA
1 ATTTAATATATATATA
206208 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTAATATATATATA
Found at i:206787 original size:2 final size:2
Alignment explanation
Indices: 206780--206808 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
206770 ATTTTATCTC
206780 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
206809 GTTACCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:207975 original size:13 final size:13
Alignment explanation
Indices: 207959--207985 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
207949 GTTCTCAAAC
207959 TGAACAAGATGTA
1 TGAACAAGATGTA
207972 TGAACAAGATGTA
1 TGAACAAGATGTA
207985 T
1 T
207986 TTACACAAAG
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:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TGAACAAGATGTA
Found at i:209853 original size:16 final size:17
Alignment explanation
Indices: 209832--209872 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
209822 TGTAACTTAA
209832 AAATTATTTATTAAA-T
1 AAATTATTTATTAAATT
* *
209848 AAATTAATTCTTAAATT
1 AAATTATTTATTAAATT
209865 AAATTATT
1 AAATTATT
209873 AATAATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTATTTATTAAATT
Found at i:211292 original size:271 final size:271
Alignment explanation
Indices: 210809--211354 Score: 1074
Period size: 271 Copynumber: 2.0 Consensus size: 271
210799 TATTGAGAAT
*
210809 CTTTTACTCTTTTAGGATTCATTAACGAACCCTTCGTCTCTTCGAGACTGGAACGCTTCGACTCG
1 CTTTTACTCTTTAAGGATTCATTAACGAACCCTTCGTCTCTTCGAGACTGGAACGCTTCGACTCG
210874 TCCGTGCAACGGCGATCGAGGAAACTGGATCGGCGTGCTGTGCATCGATAACAGAATATGGGGTT
66 TCCGTGCAACGGCGATCGAGGAAACTGGATCGGCGTGCTGTGCATCGATAACAGAATATGGGGTT
210939 TACATCTTGAGAACATGGGGCTGGTAGGGTTGGTGAACATCGGGATTCTTGATGCGATGCCGACG
131 TACATCTTGAGAACATGGGGCTGGTAGGGTTGGTGAACATCGGGATTCTTGATGCGATGCCGACG
211004 CTGCGGATTGTAAGCCTGATGAACAATAATTTAGAAGGTAAAATTCCTGAAATAATGAAACTAAG
196 CTGCGGATTGTAAGCCTGATGAACAATAATTTAGAAGGTAAAATTCCTGAAATAATGAAACTAAG
211069 TGAGTTGAAGG
261 TGAGTTGAAGG
211080 CTTTTACTCTTTAAGGATTCATTAACGAACCCTTCGTCTCTTCGAGACTGGAACGCTTCGACTCG
1 CTTTTACTCTTTAAGGATTCATTAACGAACCCTTCGTCTCTTCGAGACTGGAACGCTTCGACTCG
211145 TCCGTGCAACGGCGATCGAGGAAACTGGATCGGCGTGCTGTGCATCGATAACAGAATATGGGGTT
66 TCCGTGCAACGGCGATCGAGGAAACTGGATCGGCGTGCTGTGCATCGATAACAGAATATGGGGTT
*
211210 TGCATCTTGAGAACATGGGGCTGGTAGGGTTGGTGAACATCGGGATTCTTGATGCGATGCCGACG
131 TACATCTTGAGAACATGGGGCTGGTAGGGTTGGTGAACATCGGGATTCTTGATGCGATGCCGACG
211275 CTGCGGATTGTAAGCCTGATGAACAATAATTTAGAAGGTAAAATTCCTGAAATAATGAAACTAAG
196 CTGCGGATTGTAAGCCTGATGAACAATAATTTAGAAGGTAAAATTCCTGAAATAATGAAACTAAG
211340 TGAGTTGAAGG
261 TGAGTTGAAGG
211351 CTTT
1 CTTT
211355 GTATTTGTCG
Statistics
Matches: 273, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
271 273 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (271 bp):
CTTTTACTCTTTAAGGATTCATTAACGAACCCTTCGTCTCTTCGAGACTGGAACGCTTCGACTCG
TCCGTGCAACGGCGATCGAGGAAACTGGATCGGCGTGCTGTGCATCGATAACAGAATATGGGGTT
TACATCTTGAGAACATGGGGCTGGTAGGGTTGGTGAACATCGGGATTCTTGATGCGATGCCGACG
CTGCGGATTGTAAGCCTGATGAACAATAATTTAGAAGGTAAAATTCCTGAAATAATGAAACTAAG
TGAGTTGAAGG
Found at i:211686 original size:2 final size:2
Alignment explanation
Indices: 211679--211709 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
211669 AAATAAAGTC
211679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
211710 CATTTTAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:215413 original size:2 final size:2
Alignment explanation
Indices: 215406--215439 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
215396 CAATATACTC
215406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
215440 TCTTATCTTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:215467 original size:31 final size:31
Alignment explanation
Indices: 215432--215532 Score: 78
Period size: 31 Copynumber: 3.1 Consensus size: 31
215422 ATATATATAT
215432 ATATATATTCTTATCTTCAATCACTTAATTA
1 ATATATATTCTTATCTTCAATCACTTAATTA
* * * * * * *
215463 ATATATGTCTAAAAGTTATATTTAAACATTTAA-AA
1 ATATATAT-T----CTTATCTTCAATCACTTAATTA
215498 TATATATATTCTTATCTTCAATCACTTAATTA
1 -ATATATATTCTTATCTTCAATCACTTAATTA
215530 ATA
1 ATA
215533 ATCTAACATC
Statistics
Matches: 49, Mismatches: 14, Indels: 14
0.64 0.18 0.18
Matches are distributed among these distances:
31 24 0.49
32 2 0.04
35 2 0.04
36 21 0.43
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.46
Consensus pattern (31 bp):
ATATATATTCTTATCTTCAATCACTTAATTA
Found at i:222484 original size:257 final size:248
Alignment explanation
Indices: 222033--222605 Score: 777
Period size: 257 Copynumber: 2.3 Consensus size: 248
222023 CTTATTCGTA
*
222033 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGATC--G--AGTTTCTAATTCATATATTC
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCAGTTTCTAATTCATATATTC
*
222094 GGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGG
66 GGGTC-GGT--GGTGAAACTTTATTTTGGTCGGATCGGTTTTTTTAAGTGTGATATTCGGGTC-G
* *
222159 GTCAAGTTCGGGTTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTACCTTATATAT
127 G--AAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATAT
* *
222224 TTAGAAATAATTACAATAATACCCCTCTCTATATATATATTTTCAATTAAGTCACTGTTTT
190 TTAGAAATAATTACAATAATA-CCCTCTATATATA-ATATTTTCAATTAAGTCAATGTTTT
222285 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCAGATTTCTAATTCATATATT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCAG-TTTCTAATTCATATATT
222350 CGGGTC-GT-GTGAAACTTTATTTTGTTCTGGTCGGATCGGGTTTTTTTAAGTGTGATATTCGGG
65 CGGGTCGGTGGTGAAACTTTA---T-TT-TGGTCGGATC-GGTTTTTTTAAGTGTGATATTCGGG
222413 TC-G-AGTTCGGGTTTAGGGTGAAAAA-ACCGGACCGACCCGAAAAAAATATATAATTTTACCTT
124 TCGGAAGTTCGGGTTTAGGGTGAAAAATA-C---CCGACCCG-AAAAAATATATAATTTTACCTT
* *
222475 ATATATTTAGGAATAATTACAATAATACCCTCTATATATAATTTTTTCAATTAAGTCAATGTTTT
184 ATATATTTAGAAATAATTACAATAATACCCTCTATATATAATATTTTCAATTAAGTCAATGTTTT
* * * *
222540 TATTGAATAAAAATAATTTTTTTATTATTTTGTGTCGTGTCGGGTCGGGTTTCTAATTCATATAT
1 TATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTCGGGTCGGGTC-AGTTTCTAATTCATATAT
222605 T
64 T
222606 GAATAAAAAT
Statistics
Matches: 291, Mismatches: 12, Indels: 32
0.87 0.04 0.10
Matches are distributed among these distances:
252 51 0.18
253 23 0.08
254 1 0.00
255 40 0.14
256 69 0.24
257 80 0.27
258 27 0.09
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (248 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCAGTTTCTAATTCATATATTC
GGGTCGGTGGTGAAACTTTATTTTGGTCGGATCGGTTTTTTTAAGTGTGATATTCGGGTCGGAAG
TTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGAA
ATAATTACAATAATACCCTCTATATATAATATTTTCAATTAAGTCAATGTTTT
Found at i:223029 original size:18 final size:18
Alignment explanation
Indices: 223002--223038 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
222992 TGGATTCCAA
* *
223002 TTCTTGACAAATTTTAAT
1 TTCTTCACAAATTTCAAT
223020 TTCTTCACAAATTTCAAT
1 TTCTTCACAAATTTCAAT
223038 T
1 T
223039 CTCTCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (18 bp):
TTCTTCACAAATTTCAAT
Found at i:223363 original size:2 final size:2
Alignment explanation
Indices: 223356--223415 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
223346 GGCAGGTGCT
223356 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
223398 TC TC TC T- TC TC TT TC TC T
1 TC TC TC TC TC TC TC TC TC T
223416 GTGTGTGTGC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:230526 original size:27 final size:27
Alignment explanation
Indices: 230478--230532 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
230468 AAAATTCCAC
* *
230478 TTTCTTGAACTCTAATATACCCCAAGT
1 TTTCTTGAACTCTAACACACCCCAAGT
*
230505 TTTCTTGAACTCTAACACACCCCTAGT
1 TTTCTTGAACTCTAACACACCCCAAGT
230532 T
1 T
230533 GATGGTGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.36
Consensus pattern (27 bp):
TTTCTTGAACTCTAACACACCCCAAGT
Found at i:232272 original size:242 final size:243
Alignment explanation
Indices: 231801--232275 Score: 549
Period size: 242 Copynumber: 2.0 Consensus size: 243
231791 AAAAGATTTG
* * *
231801 AAACATTGCTAGCAGGAACTAAGGTTGTACCTACATTCTTCCAACTCCATGAGAGTGTACTCCCT
1 AAACATCGCTAGCAGGAACTAAGGTTGTACCTACATTATTCCAACTCCATGAGAGTGTACCCCCT
* * * * *
231866 GATCATATTTATTGAAGCAACTCTCCTATTTAAAGAATCCTCTAAGAAAAAAAGTAAAAAACGAT
66 GATCATATATATTGAAGCAACTCTCCGATGTAAAGAATCCTATAAGAAAAAAAGCAAAAAACGAT
* * * *
231931 TTAAAACAAGAATATATGCAATTAAAATAAAATCCACTGAGAGGAGTGAACAGCAGTTCCCAACT
131 TTAAAACAAGAATATATACAATTAAAATAAAATCCACTGAGAGAAGTGAACAACAATTCCCAACT
* * *
231996 ATCCAAAATACTGATAAGGATTATCACTTGGGATAAAAAAAATTAAAA
196 ATCCAAAATACTAATAAAGATTATCACATGGGATAAAAAAAATTAAAA
* * * ** *
232044 AAACATCGCTAGCCGGAACTAAGGTTGTGCCTGCATTATTCCAACTTGATGAGAGTGTTCCCCCT
1 AAACATCGCTAGCAGGAACTAAGGTTGTACCTACATTATTCCAACTCCATGAGAGTGTACCCCCT
* * * * * * * * * * *
232109 GTTCATATATGTTGTAGGAACTCTCCGATGTAAAGTATCCTATGAG-ATAGAGGCAAACAATGAT
66 GATCATATATATTGAAGCAACTCTCCGATGTAAAGAATCCTATAAGAAAAAAAGCAAAAAACGAT
* * ** * **
232173 TTAAAACATA-ACTATATACAATTTAAATAAAATGTACTGAGAGAAGTGAGCAACAATTCCTTAC
131 TTAAAACA-AGAATATATACAATTAAAATAAAATCCACTGAGAGAAGTGAACAACAATTCCCAAC
** *
232237 TATCCAACGTACTAATAAAGATTGTCACATGGGATAAAA
195 TATCCAAAATACTAATAAAGATTATCACATGGGATAAAA
232276 GTTTTAAAAC
Statistics
Matches: 189, Mismatches: 42, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
242 96 0.51
243 93 0.49
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (243 bp):
AAACATCGCTAGCAGGAACTAAGGTTGTACCTACATTATTCCAACTCCATGAGAGTGTACCCCCT
GATCATATATATTGAAGCAACTCTCCGATGTAAAGAATCCTATAAGAAAAAAAGCAAAAAACGAT
TTAAAACAAGAATATATACAATTAAAATAAAATCCACTGAGAGAAGTGAACAACAATTCCCAACT
ATCCAAAATACTAATAAAGATTATCACATGGGATAAAAAAAATTAAAA
Found at i:234700 original size:32 final size:33
Alignment explanation
Indices: 234686--234796 Score: 165
Period size: 32 Copynumber: 3.5 Consensus size: 33
234676 AATGATTTAT
*
234686 AGGAGTGAGCAAAAAAAAT-AAAATGTATTGAG
1 AGGAGTGAGCAACAAAAATAAAAATGTATTGAG
234718 AGGAGTGAGCAACAAAAAT-AAAATGTATTGAG
1 AGGAGTGAGCAACAAAAATAAAAATGTATTGAG
* * *
234750 AGGAGTGAGCAACAAAAAT-AAAACGGACTGAG
1 AGGAGTGAGCAACAAAAATAAAAATGTATTGAG
234782 AGGAGTGAGCAACAA
1 AGGAGTGAGCAACAA
234797 TTCCCTTCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 75 1.00
ACGTcount: A:0.50, C:0.08, G:0.27, T:0.14
Consensus pattern (33 bp):
AGGAGTGAGCAACAAAAATAAAAATGTATTGAG
Found at i:239175 original size:212 final size:211
Alignment explanation
Indices: 238797--239441 Score: 593
Period size: 212 Copynumber: 2.9 Consensus size: 211
238787 CGCTCCTATG
* **
238797 TAAAGAACCCTGTGAGAAAAAAGTAAACAATAATTTAAAACAAAAATATATGTAATTTAAATAAA
1 TAAAGAACCCTATGAGAAAAAAGTAAACAATAATTTAAAACAAAAATATATACAATTTAAATAAA
* * * * *
238862 ATGTAATGAGTAGTGAGCAGCAGTTCCTCGCTATTCAAAGTACCGATAAAGATTGTCACTTGGGA
66 ATGTAAAGAGGAGTGAGCAGCAATTCCTCGCTATCCAAAGCACCGATAAAGATTGTCACTTGGGA
* *
238927 TAAAAGTCCTAAAACATCTCTAGCAGGAACTAAGGTTGTGTC-T-TCATTCTTCCAACTCGATGA
131 TAAAAGTCCTAAAACATCACCAGCAGGAACTAAGGTTGTG-CATGT-ATTCTTCCAACTCGATGA
238990 GAGTGAAACTCTCATATT
194 GAGTGAAACTCTCATATT
* * * * *
239008 TAAATAACCCTATGAGAAAAAAGTAAAGAATGATTTAAAACAAGAATATTTACAATTTAAA-AAA
1 TAAAGAACCCTATGAGAAAAAAGTAAACAATAATTTAAAACAAAAATATATACAATTTAAATAAA
* * *
239072 ATGTACTAAGAGGAGTGAGCAGCAATTCCAT-GCTATCCAAAGCACGGATAAAGCTTGTTACTTG
66 ATGTA--AAGAGGAGTGAGCAGCAATTCC-TCGCTATCCAAAGCACCGATAAAGATTGTCACTTG
** *
239136 GGATAAAAGTTTTAAAACATCACCAGTAGGAACTAAGGTTGTGCATGTATTCTTCCAACTCGATG
128 GGATAAAAGTCCTAAAACATCACCAGCAGGAACTAAGGTTGTGCATGTATTCTTCCAACTCGATG
*
239201 AGAGTGTTCTCGATCATAACTGTTGTAGCA-ACTCT
193 AGA--G---T-G---A-AAC---TCT--CATA-T-T
* * * *
239236 CCTATTTGAAGAACCCTATGAGAAAAAAAGTGAACAATGATTTAAAACAAGAATATATGCAATTT
1 --TA----AAGAACCCTATGAG-AAAAAAGTAAACAATAATTTAAAACAAAAATATATACAATTT
* * * * * * * *
239301 AAATAAAATTTACTGAGAGGAATGAGCAGCAGTTCC-CTGCTATTCAACGTACGGATAAAGATTG
59 AAATAAAATGTA--AAGAGGAGTGAGCAGCAATTCCTC-GCTATCCAAAGCACCGATAAAGATTG
** * * * *
239365 TCACTTGGGATAAAA-TTTTTAAACATCGCTAGCAGGAACTAAGGTTGTGCTTGTATTCTTCCAA
121 TCACTTGGGATAAAAGTCCTAAAACATCACCAGCAGGAACTAAGGTTGTGCATGTATTCTTCCAA
239429 CTCGATGAGAGTG
186 CTCGATGAGAGTG
239442 TTCTCCCTGG
Statistics
Matches: 361, Mismatches: 41, Indels: 46
0.81 0.09 0.10
Matches are distributed among these distances:
210 8 0.02
211 54 0.15
212 106 0.29
213 2 0.01
214 1 0.00
217 1 0.00
218 1 0.00
221 1 0.00
222 3 0.01
225 2 0.01
226 1 0.00
227 3 0.01
228 1 0.00
229 1 0.00
230 3 0.01
233 1 0.00
234 13 0.04
235 95 0.26
236 64 0.18
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (211 bp):
TAAAGAACCCTATGAGAAAAAAGTAAACAATAATTTAAAACAAAAATATATACAATTTAAATAAA
ATGTAAAGAGGAGTGAGCAGCAATTCCTCGCTATCCAAAGCACCGATAAAGATTGTCACTTGGGA
TAAAAGTCCTAAAACATCACCAGCAGGAACTAAGGTTGTGCATGTATTCTTCCAACTCGATGAGA
GTGAAACTCTCATATT
Found at i:239571 original size:237 final size:236
Alignment explanation
Indices: 238996--239686 Score: 967
Period size: 238 Copynumber: 2.9 Consensus size: 236
238986 ATGAGAGTGA
* * * * * *
238996 AACTCTCATATTTAAATAACCCTATGAGAAAAAAGTAAAGAATGATTTAAAACAAGAATATT-TA
1 AACTCTCATATTTGAAGAACCCTATGAGAAAAAAATGAACAATGATTTAAAACAAGAAT-TTATG
* * * *
239060 CAATTTAAA-AAAATGTACTAAGAGGAGTGAGCAGCAATTCCATGCTATCCAAAGCACGGATAAA
65 CAATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAA
* * * * *
239124 GCTTGTTACTTGGGATAAAAGTTTTAAAACATCACCAGTAGGAACTAAGGTTGTGCATGTATTCT
130 GATTGTCACTTGGGATAAAA-TTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCT
* *
239189 TCCAACTCGATGAGAGTGTTCT--CGATCATAACTGTTGTAGC
194 TCCAACTCGATGAGAGTGTTCTCCCGATCATAACTGTTGCAAC
* *
239230 AACTCTCCTATTTGAAGAACCCTATGAGAAAAAAAGTGAACAATGATTTAAAACAAGAATATATG
1 AACTCTCATATTTGAAGAACCCTATGAGAAAAAAA-TGAACAATGATTTAAAACAAGAATTTATG
* * * *
239295 CAATTTAAATAAAATTTACTGAGAGGAATGAGCAGCAGTTCCCTGCTATTCAACGTACGGATAAA
65 CAATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAA
* *
239360 GATTGTCACTTGGGATAAAATTTTTAAACATCGCTAGCAGGAACTAAGGTTGTGCTTGTATTCTT
130 GATTGTCACTTGGGATAAAATTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCTT
* * *
239425 CCAACTCGATGAGAGTGTTCTCCCTGGTCATATCTGTTGCAAT
195 CCAACTCGATGAGAGTGTTCTCCC-GATCATAACTGTTGCAAC
*
239468 AACTCTCATATTTGAAGAACCCTATGAGAAAAAAATGAATAATGATTTAAAACAAGAATTTATGC
1 AACTCTCATATTTGAAGAACCCTATGAGAAAAAAATGAACAATGATTTAAAACAAGAATTTATGC
* * * *
239533 AATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCTCTGTTATCCAAAATATGGATAAAG
66 AATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAAG
* **
239598 ATTGTCACTTGGGATAAAAATTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCCTACATTCTT
131 ATTGTCACTTGGGAT-AAAATTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCTT
* *
239663 CTAACTTGATGAGAGTGTTCTCCC
195 CCAACTCGATGAGAGTGTTCTCCC
239687 ATTTAAAGAA
Statistics
Matches: 405, Mismatches: 45, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
234 32 0.08
235 93 0.23
236 65 0.16
237 101 0.25
238 114 0.28
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (236 bp):
AACTCTCATATTTGAAGAACCCTATGAGAAAAAAATGAACAATGATTTAAAACAAGAATTTATGC
AATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAAG
ATTGTCACTTGGGATAAAATTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCTTC
CAACTCGATGAGAGTGTTCTCCCGATCATAACTGTTGCAAC
Found at i:240446 original size:239 final size:235
Alignment explanation
Indices: 239687--240460 Score: 898
Period size: 239 Copynumber: 3.3 Consensus size: 235
239677 GTGTTCTCCC
* * * **
239687 ATTTAAAGAACCCTATGAGAAAAATTTTAATAATGATTTAAAACAAGCATATAAACAATTTAAAT
1 ATTTAAAGAACCCTATGAGAAAAA-GTAAATAATGATTTAAAACAAGAATATATGCAATTTAAAT
* * * * * **
239752 AAAAAGTATTGAGAAGAGTAAGCAGCAGTTCCCTGTTATCCAAACTACAAATAAAGATT-TCACT
65 AAAATGTAATGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGATTGTCACT
* *
239816 TAGGG-------TTTAAAATATCGCTAGCAAGAACTAAGGTTGTGCATGTATTCTTCCAAATCGA
130 T-GGGATAAAATTTTAAAACATCGCTAGCAAGAACTAAGGTTGTGCATGTATTCTTCCAACTCGA
* * *
239874 TGAGAGTGTTCTCCCTGTTCATATCTACTGCAGCGACTATCCT
194 T-AGAGTGTTCTCCCTGATCATATCTACTGCAGCGACTCTCAT
* * *
239917 ATTTAAAGAATCCTATGA-AAAAAGTAAATAATGATTTAAACCAAGAATATATGAAATTTAAATA
1 ATTTAAAGAACCCTATGAGAAAAAGTAAATAATGATTTAAAACAAGAATATATGCAATTTAAATA
* * * * * *
239981 AAATAT-ACGAGATGAGTGAGCAGCAGTT-CCTACCATCCAAAGTACTGATAAAGAATGTCACTT
66 AAATGTAATGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGATTGTCACTT
* **
240044 CGGATAAAAGTTTTAAAACATTC-CTAGCGGGAACTAA-GTTGTGCATGTATTCTTCCAACTCGA
131 GGGATAAAA-TTTTAAAACA-TCGCTAGCAAGAACTAAGGTTGTGCATGTATTCTTCCAACTCGA
* *
240107 TGAGAGTGTTCTCCCT-ATTCATATCTGCTGCAGCGACTCTCTT
194 T-AGAGTGTTCTCCCTGA-TCATATCTACTGCAGCGACTCTCAT
* * * *
240150 ATTTAAAGAAACCTATG-GAAAAAAATAAACAATGATTTAAAACAATAATATATGCAATTTAAAT
1 ATTTAAAGAACCCTATGAG-AAAAAGTAAATAATGATTTAAAACAAGAATATATGCAATTTAAAT
* * ** *
240214 AAATTGTAATGAGAGGAGTGATAAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGATTGTCAGT
65 AAAATGTAATGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGATTGTCACT
240279 TGGGATAAAAATTTTAAAACATCGCTAGCAAGAACTAAGGTTGTGTGTGGCA-GTATTCTTCCAA
130 TGGGAT-AAAATTTTAAAACATCGCTAGCAAGAACTAA-G--GT-TGT-GCATGTATTCTTCCAA
* * *
240343 CTCGAT-GAGTGTTCTCCCTGATCATATTTATTGCAGCAACTCTCAT
189 CTCGATAGAGTGTTCTCCCTGATCATATCTACTGCAGCGACTCTCAT
* *
240389 ATTTAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAATA
1 ATTTAAAGAACCCTATGAGAAAAAGTAAATAATGATTTAAAACAAGAATATATGCAATTTAAATA
240454 AAATGTA
66 AAATGTA
240461 CTTAGAGTCA
Statistics
Matches: 459, Mismatches: 60, Indels: 41
0.82 0.11 0.07
Matches are distributed among these distances:
226 23 0.05
227 24 0.05
228 38 0.08
229 5 0.01
230 17 0.04
233 79 0.17
234 65 0.14
235 22 0.05
236 57 0.12
237 4 0.01
239 97 0.21
240 4 0.01
241 21 0.05
242 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (235 bp):
ATTTAAAGAACCCTATGAGAAAAAGTAAATAATGATTTAAAACAAGAATATATGCAATTTAAATA
AAATGTAATGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGATTGTCACTT
GGGATAAAATTTTAAAACATCGCTAGCAAGAACTAAGGTTGTGCATGTATTCTTCCAACTCGATA
GAGTGTTCTCCCTGATCATATCTACTGCAGCGACTCTCAT
Found at i:240556 original size:86 final size:86
Alignment explanation
Indices: 240388--240550 Score: 287
Period size: 83 Copynumber: 1.9 Consensus size: 86
240378 GCAACTCTCA
240388 TATTTAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
1 TATTTAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
*
240453 AAAATGTACTTAGAGTCATCC
66 AAAATGTACTGAGAGTCATCC
*
240474 TATTTAATGAACCCTATGAGAAAAAGT-AAAAATGATTTAAAACAAG-A-ATATGTAATTTAAAT
1 TATTTAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
240536 AAAATGTACTGAGAG
66 AAAATGTACTGAGAG
240551 GAGTCAGCCG
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
83 28 0.37
84 1 0.01
85 19 0.25
86 27 0.36
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.29
Consensus pattern (86 bp):
TATTTAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
AAAATGTACTGAGAGTCATCC
Found at i:245813 original size:46 final size:46
Alignment explanation
Indices: 245746--245836 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
245736 TACGACAAAT
*
245746 TATTTACTTAATCAGACATTGTTGACAAAAGTTTCTATCTTATGAG
1 TATTTACTTAATCAGACATTGTTGACAAAAGTTTATATCTTATGAG
** *
245792 TATTTACTTAATCAGACATTGTTGATGAAATTTTATATCTTATGA
1 TATTTACTTAATCAGACATTGTTGACAAAAGTTTATATCTTATGA
245837 AAGAACATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (46 bp):
TATTTACTTAATCAGACATTGTTGACAAAAGTTTATATCTTATGAG
Found at i:246714 original size:284 final size:274
Alignment explanation
Indices: 246164--246722 Score: 1019
Period size: 284 Copynumber: 2.0 Consensus size: 274
246154 ACTAGCATAA
246164 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
1 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
246229 TCATATGAGCAATGTTTTGCTTGGACTCGTCCGAATTATGACCATCCTGAAAGAAAGTATAACAG
66 TCATATGAGCAATGTTTTGCTTGGACTCGTCCGAATTATGACCATCCTGAAAGAAAGTATAACAG
*
246294 TCAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTGACCACCTCGAGCCACCTACAATACA
131 TCAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTAACCACCTCGAGCCACCTACAATACA
246359 CTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAGAAAAAATACTACCTTAAAG
196 CTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAGAAAAAATACTACCTTAAAG
246424 GGGCAGAAAACTAT
261 GGGCAGAAAACTAT
246438 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
1 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
246503 TCATATGAGCAATGTTTTGCTTGGACTCGTCCGAATTATGACCATCCTGAAAGAAAGTATAACAG
66 TCATATGAGCAATGTTTTGCTTGGACTCGTCCGAATTATGACCATCCTGAAAGAAAGTATAACAG
246568 TCAAAACCATCAAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTAACCACCTCGAGCCAC
131 ---------TC-AATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTAACCACCTCGAGCCAC
246633 CTACAATACACTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAGAAAAAATAC
186 CTACAATACACTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAGAAAAAATAC
246698 TACCTTAAAGGGGCAGAAAACTAT
251 TACCTTAAAGGGGCAGAAAACTAT
246722 A
1 A
246723 TAAACATACA
Statistics
Matches: 274, Mismatches: 1, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
274 130 0.47
283 2 0.01
284 142 0.52
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (274 bp):
ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
TCATATGAGCAATGTTTTGCTTGGACTCGTCCGAATTATGACCATCCTGAAAGAAAGTATAACAG
TCAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTAACCACCTCGAGCCACCTACAATACA
CTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAGAAAAAATACTACCTTAAAG
GGGCAGAAAACTAT
Found at i:257031 original size:19 final size:20
Alignment explanation
Indices: 256994--257031 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
256984 AAAAATAATA
* *
256994 TTTATGTTTTCATATAAAAT
1 TTTATCTTTTCAGATAAAAT
257014 TTTATCTTTTCAGA-AAAA
1 TTTATCTTTTCAGATAAAA
257032 CTGTTCCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATCTTTTCAGATAAAAT
Found at i:257447 original size:20 final size:20
Alignment explanation
Indices: 257422--257460 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
257412 TTTTAATTAT
257422 ATATTAATAA-AATAATAAAA
1 ATATTAATAATAA-AATAAAA
*
257442 ATATTATTAATAAAATAAA
1 ATATTAATAATAAAATAAA
257461 TTAGAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATTAATAATAAAATAAAA
Found at i:258459 original size:25 final size:27
Alignment explanation
Indices: 258431--258480 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
258421 ATTTTATATA
*
258431 TATTAACTT-A-TTAAATATATTTTAT
1 TATTAACTTAATTTAAAAATATTTTAT
258456 TATTAACTTAATTTAAAAATATTTT
1 TATTAACTTAATTTAAAAATATTTT
258481 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 1 0.05
27 12 0.55
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTAACTTAATTTAAAAATATTTTAT
Found at i:258481 original size:28 final size:26
Alignment explanation
Indices: 258420--258487 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
258410 AAATTCATAG
*
258420 TATTTTATATATATTAACTTATTAAATA
1 TATTTT-TAT-TATTAACTTATTAAAAA
258448 TA-TTTTATTATTAACTTAATTTAAAAA
1 TATTTTTATTATTAACTT-A-TTAAAAA
*
258475 TATTTTTTTTATT
1 TATTTTTATTATT
258488 TTTATGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 9 0.26
26 4 0.11
27 11 0.31
28 11 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (26 bp):
TATTTTTATTATTAACTTATTAAAAA
Found at i:269953 original size:23 final size:24
Alignment explanation
Indices: 269922--269970 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
269912 ACCTTGAATT
269922 TACCGCACAAGAAGTTCATCCACC
1 TACCGCACAAGAAGTTCATCCACC
269946 TACC-CACAAGAAGTTCATCCACC
1 TACCGCACAAGAAGTTCATCCACC
269969 TA
1 TA
269971 AAACATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.35, C:0.37, G:0.10, T:0.18
Consensus pattern (24 bp):
TACCGCACAAGAAGTTCATCCACC
Done.