Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 62
Found at i:9651518 original size:165 final size:165
Alignment explanation
Indices: 9651154--9651559 Score: 544
Period size: 165 Copynumber: 2.5 Consensus size: 165
9651144 GCGGTGTTTC
* * * ** *
9651154 TTAAATAAACGTCGTAATAGAATAGTACTTTAAAGGCATTTTTATACAAATGCCGCAATAGAGTT
1 TTAAA-AAACGACATAACAGAATAGTACTTTAGCGGCATTTTTATACAAATGCCGTAATAGAGTT
* * * * *
9651219 CATCTATAGTGGCGTTTTTTTAATAAACGTCGCGACGGAATAGTACTTTAGCGACGTTTTTATAC
65 CATCTATAGTGGCGTTTTTTTAATAAACGCCACAACAGAATAGTACTTTAGCGACATTTTTATAC
9651284 AAACGCCGCAATAGAGTTCATCTATAGTGGCATTTT
130 AAACGCCGCAATAGAGTTCATCTATAGTGGCATTTT
* * * * *
9651320 TTAATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATATAAATGTCGTAATAGAGTTC
1 TTAAAAAACGACATAACAGAATAGTACTTTAGCGGCATTTTTATACAAATGCCGTAATAGAGTTC
* * *
9651385 ATCTATAGTGTCG-TTTTTTAATAAACGCCATAACATAATAGTACTTTAGCGACATTTTTATACA
66 ATCTATAGTGGCGTTTTTTTAATAAACGCCACAACAGAATAGTACTTTAGCGACATTTTTATACA
* *
9651449 AACGTCGCAATAGAGTTCATCTATAGTGGCGTTTT
131 AACGCCGCAATAGAGTTCATCTATAGTGGCATTTT
* * * * * *
9651484 TTGAAAAAATGACATAAGAGAATATTATTTTAGCGGCGTTTTTATACAAACGCCGTAATAGAGTT
1 TT-AAAAAACGACATAACAGAATAGTACTTTAGCGGCATTTTTATACAAATGCCGTAATAGAGTT
9651549 CATCTATAGTG
65 CATCTATAGTG
9651560 AAAAAATGTT
Statistics
Matches: 211, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
164 79 0.37
165 128 0.61
166 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (165 bp):
TTAAAAAACGACATAACAGAATAGTACTTTAGCGGCATTTTTATACAAATGCCGTAATAGAGTTC
ATCTATAGTGGCGTTTTTTTAATAAACGCCACAACAGAATAGTACTTTAGCGACATTTTTATACA
AACGCCGCAATAGAGTTCATCTATAGTGGCATTTT
Found at i:9652469 original size:2 final size:2
Alignment explanation
Indices: 9652462--9652502 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9652452 TTTTTATGGA
9652462 AT AT AT AT AT 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 AT AT AT AT AT A
9652503 ATTATAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9654985 original size:42 final size:42
Alignment explanation
Indices: 9654895--9654993 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 42
9654885 ATCATGAGCT
9654895 CTTTTGCGGCGTTTGTATAAAAAAGCGTCGCTATAGATATGAG
1 CTTTTGCGGCGTTTGTATAAAAAAGCG-CGCTATAGATATGAG
* *
9654938 CTTTTGCGGCGTTTGT-TCCAAAAATGC-CGCTATAGATCTGA-
1 CTTTTGCGGCGTTTGTAT--AAAAAAGCGCGCTATAGATATGAG
9654979 CTTTTTGCGGCGTTT
1 C-TTTTGCGGCGTTT
9654994 TTTTCTGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
41 1 0.02
42 27 0.53
43 16 0.31
44 7 0.14
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (42 bp):
CTTTTGCGGCGTTTGTATAAAAAAGCGCGCTATAGATATGAG
Found at i:9662618 original size:21 final size:21
Alignment explanation
Indices: 9662573--9662618 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9662563 CCAAAAGGGC
**
9662573 AGTATCGATACTATTATTAGG
1 AGTATCGATACTATTATTAAA
9662594 AGTATCGATACTATTATTAAA
1 AGTATCGATACTATTATTAAA
9662615 AGTA
1 AGTA
9662619 GTATTCATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (21 bp):
AGTATCGATACTATTATTAAA
Found at i:9662622 original size:24 final size:21
Alignment explanation
Indices: 9662573--9662612 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9662563 CCAAAAGGGC
9662573 AGTATCGATACTATTATTAGG
1 AGTATCGATACTATTATTAGG
9662594 AGTATCGATACTATTATTA
1 AGTATCGATACTATTATTA
9662613 AAAGTAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (21 bp):
AGTATCGATACTATTATTAGG
Found at i:9663292 original size:21 final size:21
Alignment explanation
Indices: 9663249--9663292 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9663239 AAAAGGGCAA
**
9663249 TATCGATACTACTATTAGGAG
1 TATCGATACTACTATTAAAAG
9663270 TATCGATACTACTATTAAAAG
1 TATCGATACTACTATTAAAAG
9663291 TA
1 TA
9663293 GTATCGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (21 bp):
TATCGATACTACTATTAAAAG
Found at i:9665592 original size:5 final size:6
Alignment explanation
Indices: 9665580--9665627 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
9665570 AACCAAAACT
*
9665580 AATAAA AATAAAA AATGAA AATAAA AATAAA AAT-AA AAT-AA AATAAA
1 AATAAA AAT-AAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
9665627 A
1 A
9665628 GTGGAAGCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 10 0.26
6 22 0.58
7 6 0.16
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:9665607 original size:12 final size:11
Alignment explanation
Indices: 9665584--9665627 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
9665574 AAAACTAATA
9665584 AAAATAAAAAAT
1 AAAAT-AAAAAT
9665596 GAAAATAAAAAT
1 -AAAATAAAAAT
9665608 AAAA-ATAAAAT
1 AAAATA-AAAAT
9665619 AAAATAAAA
1 AAAATAAAA
9665628 GTGGAAGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 7 0.24
13 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:9666240 original size:15 final size:15
Alignment explanation
Indices: 9666220--9666249 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9666210 TCTTCTTATG
*
9666220 ATAATAATAATAGTA
1 ATAATAATAACAGTA
9666235 ATAATAATAACAGTA
1 ATAATAATAACAGTA
9666250 CACTCCATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAATAACAGTA
Found at i:9671505 original size:3 final size:3
Alignment explanation
Indices: 9671497--9671536 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
9671487 TTTGTTTCAT
*
9671497 TTA TTA TTA TTA TT- TTA TT- TTA ATA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9671537 ATTTATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9671513 original size:14 final size:14
Alignment explanation
Indices: 9671496--9671544 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
9671486 ATTTGTTTCA
9671496 TTTATTATTATTAT
1 TTTATTATTATTAT
*
9671510 TTTATT-TTAATAT
1 TTTATTATTATTAT
9671523 TATTATTA-TATTAT
1 T-TTATTATTATTAT
9671537 ATTTATTA
1 -TTTATTA
9671545 AATAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 7 0.23
14 22 0.73
15 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:9671523 original size:19 final size:19
Alignment explanation
Indices: 9671496--9671534 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9671486 ATTTGTTTCA
* *
9671496 TTTATTATTATTATTTTAT
1 TTTAATATTATTATTATAT
9671515 TTTAATATTATTATTATAT
1 TTTAATATTATTATTATAT
9671534 T
1 T
9671535 ATATTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTAATATTATTATTATAT
Found at i:9671523 original size:22 final size:23
Alignment explanation
Indices: 9671498--9671541 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
9671488 TTGTTTCATT
*
9671498 TATTATTATTATTTTAT-TTTAA
1 TATTATTATTATATTATATTTAA
9671520 TATTATTATTATATTATATTTA
1 TATTATTATTATATTATATTTA
9671542 TTAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATTATTATATTATATTTAA
Found at i:9671525 original size:11 final size:11
Alignment explanation
Indices: 9671498--9671544 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
9671488 TTGTTTCATT
9671498 TATTATTATTA
1 TATTATTATTA
*
9671509 TTTTATT-TTAA
1 TATTATTATT-A
9671520 TATTATTATTA
1 TATTATTATTA
9671531 TATTA-TATT-
1 TATTATTATTA
9671540 TATTA
1 TATTA
9671545 AATAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.16
10 6 0.19
11 19 0.59
12 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTATTATTA
Found at i:9673512 original size:31 final size:29
Alignment explanation
Indices: 9673477--9673534 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
9673467 TCTTACTTTT
*
9673477 ATAAATTATATCTATTTTTAATTATTTTTAG
1 ATAAA-TAT-TCTATATTTAATTATTTTTAG
* *
9673508 ATAAATATTTTATATTTATTTATTTTT
1 ATAAATATTCTATATTTAATTATTTTT
9673535 TAATATTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 3 0.12
31 5 0.21
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
ATAAATATTCTATATTTAATTATTTTTAG
Found at i:9673613 original size:17 final size:18
Alignment explanation
Indices: 9673581--9673618 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9673571 AGTTGTTTTG
9673581 ATATTTCTAAATAAATAA
1 ATATTTCTAAATAAATAA
* *
9673599 ATATTT-TATATAAATTA
1 ATATTTCTAAATAAATAA
9673616 ATA
1 ATA
9673619 GATTTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTTCTAAATAAATAA
Found at i:9674174 original size:20 final size:21
Alignment explanation
Indices: 9674140--9674189 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
9674130 TATATATATT
9674140 TATTATTTTCATAAT-ATTTA
1 TATTATTTTCATAATGATTTA
*
9674160 TATTATTTT-ATTAATGTTTTA
1 TATTATTTTCA-TAATGATTTA
*
9674181 TTTTATTTT
1 TATTATTTT
9674190 TCAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTATTTTCATAATGATTTA
Found at i:9675634 original size:43 final size:44
Alignment explanation
Indices: 9675562--9675646 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 44
9675552 TGGCTTTAGA
* *
9675562 GAAGTTAGGAGGGAAAGTTATCCCATATATGT-AAAGTTTTGCT
1 GAAGTTAGGACGGAAAGATATCCCATATATGTAAAAGTTTTGCT
* * *
9675605 GAAGTTAGGACTGAAAGATGTCCCCTATATGTAAAAGTTTTG
1 GAAGTTAGGACGGAAAGATATCCCATATATGTAAAAGTTTTG
9675647 TTTGATGCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 27 0.75
44 9 0.25
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGATATCCCATATATGTAAAAGTTTTGCT
Found at i:9683285 original size:22 final size:22
Alignment explanation
Indices: 9683206--9683269 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
9683196 TACATTTACA
* * *
9683206 CTCTCTAAAGATGATATATTTT
1 CTCTCCAAAGATGATAGATTTC
* *
9683228 TTCTCCTAAGATGATAGATTTC
1 CTCTCCAAAGATGATAGATTTC
9683250 CTCTCCAAAGATGATAGATT
1 CTCTCCAAAGATGATAGATT
9683270 CTCTTTTCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (22 bp):
CTCTCCAAAGATGATAGATTTC
Found at i:9683917 original size:117 final size:113
Alignment explanation
Indices: 9683672--9684087 Score: 564
Period size: 113 Copynumber: 3.7 Consensus size: 113
9683662 CATTTCCAAA
* * * *
9683672 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
** * * * * *
9683737 TCAACCTTTTGCTCGAATTCATCACTCGGTGGATCAGCAGTGCCAGGT
66 TCAACCTTTTGCTTTAATTCATCACTCGATGGATTAGCATTACCAGAT
*
9683785 AGAGTTTATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTTT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAA----T
* * *
9683850 TTGTTCAACCTTTTGCTTTAATTCATCACTCAATGGATTATCATTACCAGTT
62 TTGTTCAACCTTTTGCTTTAATTCATCACTCGATGGATTAGCATTACCAGAT
*
9683902 AGAGTTCATAATGAGAAGAACTTATCTAAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
* * * *
9683967 TCAACCTTTCGCTTTAATTCATCACTCGATGGATTAGCTTTTCCAGAG
66 TCAACCTTTTGCTTTAATTCATCACTCGATGGATTAGCATTACCAGAT
* * * **
9684015 AAAGTTTATAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
9684079 TCAACCTTT
66 TCAACCTTT
9684088 GTATGACTCT
Statistics
Matches: 270, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
112 37 0.14
113 132 0.49
117 101 0.37
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (113 bp):
AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
TCAACCTTTTGCTTTAATTCATCACTCGATGGATTAGCATTACCAGAT
Found at i:9684604 original size:11 final size:11
Alignment explanation
Indices: 9684577--9684620 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
9684567 TTGTTTCATT
9684577 TATTATTATT-A
1 TATTATT-TTAA
*
9684588 TTTTATTTTAA
1 TATTATTTTAA
9684599 TATTATTTTAA
1 TATTATTTTAA
9684610 TATTATATTTA
1 TATTAT-TTTA
9684621 TTAAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 2 0.07
11 23 0.79
12 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTATTTTAA
Found at i:9684617 original size:16 final size:16
Alignment explanation
Indices: 9684577--9684644 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
9684567 TTGTTTCATT
9684577 TATTATTATTATTTT-A
1 TATTA-TATTATTTTAA
*
9684593 TTTTAATATTATTTTAA
1 TATT-ATATTATTTTAA
*
9684610 TATTATATT-TATTAAA
1 TATTATATTAT-TTTAA
9684626 TAATTA-ATTAATTTTAA
1 T-ATTATATT-ATTTTAA
9684643 TA
1 TA
9684645 CATTGTAGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 1 0.02
16 26 0.62
17 14 0.33
18 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATATTATTTTAA
Found at i:9684700 original size:14 final size:14
Alignment explanation
Indices: 9684676--9684722 Score: 85
Period size: 14 Copynumber: 3.3 Consensus size: 14
9684666 GGCCCGATTA
9684676 CAAACTAGACTGGCC
1 CAAA-TAGACTGGCC
9684691 CAAATAGACTGGCC
1 CAAATAGACTGGCC
9684705 CAAATAGACTGGCC
1 CAAATAGACTGGCC
9684719 CAAA
1 CAAA
9684723 CTTAATAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 28 0.88
15 4 0.12
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.13
Consensus pattern (14 bp):
CAAATAGACTGGCC
Found at i:9686627 original size:31 final size:29
Alignment explanation
Indices: 9686592--9686649 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
9686582 TCTTACTTTT
*
9686592 ATAAATTATATCTATTTTTAATTATTTTTAG
1 ATAAA-TAT-TCTATATTTAATTATTTTTAG
* *
9686623 ATAAATATTTTATATTTATTTATTTTT
1 ATAAATATTCTATATTTAATTATTTTT
9686650 TAATATTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 3 0.12
31 5 0.21
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
ATAAATATTCTATATTTAATTATTTTTAG
Found at i:9686730 original size:17 final size:18
Alignment explanation
Indices: 9686698--9686735 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9686688 CTCTTTTCTG
9686698 ATATTTCTAAATAAATAA
1 ATATTTCTAAATAAATAA
* *
9686716 ATATTT-TATATAAATTA
1 ATATTTCTAAATAAATAA
9686733 ATA
1 ATA
9686736 GATTTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTTCTAAATAAATAA
Found at i:9687649 original size:78 final size:78
Alignment explanation
Indices: 9687520--9687675 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
9687510 TGTTTCTAGT
9687520 GATTGTGTTAATTGTCTAAACACCTGTCAACAAGAAACAAATTTTGCTATTGATCTTAAAGCTCT
1 GATTGTGTTAATTGTCTAAACACCTGTCAACAAGAAACAAATTTTGCTATTGATCTTAAAGCTCT
9687585 ACTAATGCAGCGA
66 ACTAATGCAGCGA
*
9687598 GATTGTGTTAATTGTCTAAACACCTGTCAACAAGAAACAGATTTTGCTATTGATCTTAAAGCTCT
1 GATTGTGTTAATTGTCTAAACACCTGTCAACAAGAAACAAATTTTGCTATTGATCTTAAAGCTCT
9687663 ACTAATGCAGCGA
66 ACTAATGCAGCGA
9687676 AGCATCTAGT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (78 bp):
GATTGTGTTAATTGTCTAAACACCTGTCAACAAGAAACAAATTTTGCTATTGATCTTAAAGCTCT
ACTAATGCAGCGA
Found at i:9692184 original size:2 final size:2
Alignment explanation
Indices: 9692177--9692234 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
9692167 ATCCATTTTA
9692177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9692219 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
9692235 TTAAATTGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9694957 original size:137 final size:137
Alignment explanation
Indices: 9694706--9694958 Score: 398
Period size: 137 Copynumber: 1.8 Consensus size: 137
9694696 TGTGTGTATG
* * *
9694706 TATACATACATATGCATATATTCATACATACATATTTTTTACATGAGCCCTTGAGTCAGTTGTGA
1 TATACACACATATACATATATTCATACATACATATTTTTTACATGAGCCCTTGAGTCAGTTATGA
* *
9694771 TGTCTTTGTTGGAAAGCTTTGGTTTTATGCAGGTGAAATATACTACATTGTGTGTACGTATACAT
66 TGTCTTTGTTGGAAAGCTGTGGTTTTATGCAGGTGAAACATACTACATTGTGTGTACGTATACAT
9694836 ACATACT
131 ACATACT
* * * *
9694843 TATACACACTTATACATATATTCATACATACATGTTTTTTACGTGAGCCCTTGAGTCGGTTATGA
1 TATACACACATATACATATATTCATACATACATATTTTTTACATGAGCCCTTGAGTCAGTTATGA
* * *
9694908 TGTCTTTGTTGGAAAGGTGTGGTTTTATGCAGGTGAGACATACTGCATTGT
66 TGTCTTTGTTGGAAAGCTGTGGTTTTATGCAGGTGAAACATACTACATTGT
9694959 TAATTTCTTA
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
137 104 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (137 bp):
TATACACACATATACATATATTCATACATACATATTTTTTACATGAGCCCTTGAGTCAGTTATGA
TGTCTTTGTTGGAAAGCTGTGGTTTTATGCAGGTGAAACATACTACATTGTGTGTACGTATACAT
ACATACT
Found at i:9695620 original size:17 final size:18
Alignment explanation
Indices: 9695584--9695621 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9695574 TTATGAGGTG
9695584 AAAAATGAAATTATTGTA
1 AAAAATGAAATTATTGTA
*
9695602 AAAAATGTAATTATT-TA
1 AAAAATGAAATTATTGTA
9695619 AAA
1 AAA
9695622 TAATATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (18 bp):
AAAAATGAAATTATTGTA
Found at i:9699162 original size:9 final size:9
Alignment explanation
Indices: 9699148--9699173 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9699138 ACTAAAATGT
9699148 AAAATTTGG
1 AAAATTTGG
9699157 AAAATTTGG
1 AAAATTTGG
9699166 AAAATTTG
1 AAAATTTG
9699174 TGCTCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (9 bp):
AAAATTTGG
Found at i:9699845 original size:21 final size:21
Alignment explanation
Indices: 9699819--9699861 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9699809 TTTCTGGGCT
*
9699819 AGGGGAATCGATACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
9699840 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
9699861 A
1 A
9699862 ACGAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:9699935 original size:23 final size:22
Alignment explanation
Indices: 9699891--9699935 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9699881 AATGTCATGG
*
9699891 GGGAACTGATACCCCCACAGGA
1 GGGAACTGATACCCCCAAAGGA
* *
9699913 GGGAACTGTTTCCCCCTAAAGGA
1 GGGAACTGATACCCCC-AAAGGA
9699936 AAATTGTAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (22 bp):
GGGAACTGATACCCCCAAAGGA
Found at i:9700379 original size:2 final size:2
Alignment explanation
Indices: 9700372--9700416 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9700362 AAGATCTTTG
9700372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9700414 AT A
1 AT A
9700417 AATGAAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9701592 original size:23 final size:23
Alignment explanation
Indices: 9701536--9701594 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
9701526 ATCTTATATA
*
9701536 GCACTTCGGTACAATTCTACGCG
1 GCACTTCGGTGCAATTCTACGCG
* *
9701559 GCACTACGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGCG
9701582 GCACTTCGGTGCA
1 GCACTTCGGTGCA
9701595 TTTATATGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGCG
Found at i:9701653 original size:16 final size:17
Alignment explanation
Indices: 9701632--9701665 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9701622 GTGCACAACC
9701632 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
9701648 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
9701665 T
1 T
9701666 GTACATGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:9704968 original size:21 final size:21
Alignment explanation
Indices: 9704942--9704984 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9704932 TTTCTGGGCT
* *
9704942 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
9704963 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
9704984 A
1 A
9704985 ACGAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:9705502 original size:2 final size:2
Alignment explanation
Indices: 9705495--9705541 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9705485 AAGATCTTTG
9705495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9705537 AT AT A
1 AT AT A
9705542 AATGAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9706751 original size:23 final size:23
Alignment explanation
Indices: 9706695--9706753 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
9706685 ATCTTATATA
*
9706695 GCACTTCGGTACAATTCTACGCG
1 GCACTTCGGTGCAATTCTACGCG
* * *
9706718 GCACTACGGTGCAATTCTATGTG
1 GCACTTCGGTGCAATTCTACGCG
9706741 GCACTTCGGTGCA
1 GCACTTCGGTGCA
9706754 TTTATATGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGCG
Found at i:9706761 original size:23 final size:23
Alignment explanation
Indices: 9706717--9706761 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9706707 AATTCTACGC
*
9706717 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTATATGT
* *
9706740 GGCACTTCGGTGCATTTATATG
1 GGCACTACGGTGCAATTATATG
9706762 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATATGT
Found at i:9706812 original size:16 final size:17
Alignment explanation
Indices: 9706791--9706824 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9706781 GTGCACAACC
9706791 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
9706807 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
9706824 T
1 T
9706825 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:9719559 original size:15 final size:15
Alignment explanation
Indices: 9719539--9719571 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
9719529 AAAAATGAGG
9719539 AAAAATATAA-AAAAT
1 AAAAATA-AATAAAAT
9719554 AAAAATAAATAAAAT
1 AAAAATAAATAAAAT
9719569 AAA
1 AAA
9719572 TAAAAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:9719563 original size:19 final size:19
Alignment explanation
Indices: 9719541--9719578 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
9719531 AAATGAGGAA
9719541 AAATATAAA-AAATAAAAAT
1 AAATA-AAATAAATAAAAAT
9719560 AAATAAAATAAATAAAAAT
1 AAATAAAATAAATAAAAAT
9719579 GGGTTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAATAAATAAAAAT
Found at i:9725250 original size:2 final size:2
Alignment explanation
Indices: 9725243--9725283 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9725233 AAGCATGTTA
9725243 AT AT AT AT AT 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 AT AT AT AT AT A
9725284 AAGAAATTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9729068 original size:32 final size:32
Alignment explanation
Indices: 9729021--9729141 Score: 147
Period size: 32 Copynumber: 3.8 Consensus size: 32
9729011 GAGTCGAGGG
* * *
9729021 TTACCTATGTTCTTCGGGACATATGGATAGTA
1 TTACATATGTCCTTCGGGACATATGGACAGTA
9729053 TTACATATGTCCTTCGGGACATATGGACAGTA
1 TTACATATGTCCTTCGGGACATATGGACAGTA
* *
9729085 TTACCTATGTCCTTCGAGACATATGGACA-T-
1 TTACATATGTCCTTCGGGACATATGGACAGTA
* * * *
9729115 GTACATATGTTCTTTGGAACATATGGA
1 TTACATATGTCCTTCGGGACATATGGA
9729142 TAGGTCCTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
30 21 0.27
31 1 0.01
32 56 0.72
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (32 bp):
TTACATATGTCCTTCGGGACATATGGACAGTA
Found at i:9730656 original size:31 final size:33
Alignment explanation
Indices: 9730615--9730679 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
9730605 AACCTAATTT
* * *
9730615 AAAAATTAAAATAACAA-ATAATA-AAAAATAA
1 AAAAAGTAAAAAAACAACATAAAATAAAAATAA
9730646 AAAAAGTAAAAAAACAACATAAAATAAAAATAA
1 AAAAAGTAAAAAAACAACATAAAATAAAAATAA
9730679 A
1 A
9730680 CATAAACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 15 0.52
32 5 0.17
33 9 0.31
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (33 bp):
AAAAAGTAAAAAAACAACATAAAATAAAAATAA
Found at i:9730684 original size:12 final size:11
Alignment explanation
Indices: 9730614--9730691 Score: 54
Period size: 12 Copynumber: 6.9 Consensus size: 11
9730604 AAACCTAATT
9730614 TAAAAATTAAAA
1 TAAAAA-TAAAA
*
9730626 TAACAAATAATA
1 TAA-AAATAAAA
9730638 -AAAAAT-AAA
1 TAAAAATAAAA
*
9730647 -AAAAGTAAAA
1 TAAAAATAAAA
*
9730657 AAACAACATAAAA
1 TAA-AA-ATAAAA
9730670 TAAAAATAAACA
1 TAAAAATAAA-A
*
9730682 TAAACATAAA
1 TAAAAATAAA
9730692 TACAAGTATC
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.13
10 7 0.13
11 9 0.17
12 21 0.39
13 10 0.19
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.17
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:9732223 original size:24 final size:25
Alignment explanation
Indices: 9732206--9732252 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9732196 TTTTGGTTTT
9732206 GGTT-TTATTTGGGTTTTTGAGTTG
1 GGTTCTTATTTGGGTTTTTGAGTTG
*
9732230 GGTTCTTATTTGGTTTTTTGAGT
1 GGTTCTTATTTGGGTTTTTGAGT
9732253 CTAAGGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.09, C:0.02, G:0.30, T:0.60
Consensus pattern (25 bp):
GGTTCTTATTTGGGTTTTTGAGTTG
Found at i:9732949 original size:20 final size:20
Alignment explanation
Indices: 9732924--9732963 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9732914 AAAACATCTT
*
9732924 GCCCGAAGGTCTTATGGATG
1 GCCCGAAGGTCTTATAGATG
9732944 GCCCGAAGGTCTTATAGATG
1 GCCCGAAGGTCTTATAGATG
9732964 TACCAAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (20 bp):
GCCCGAAGGTCTTATAGATG
Found at i:9732972 original size:20 final size:20
Alignment explanation
Indices: 9732929--9732978 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
9732919 ATCTTGCCCG
* * *
9732929 AAGGTCTTATGGATGGCCCG
1 AAGGTCTTATAGATGGACCA
*
9732949 AAGGTCTTATAGATGTACCA
1 AAGGTCTTATAGATGGACCA
*
9732969 AAGGACTTAT
1 AAGGTCTTAT
9732979 CATCTTGCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
AAGGTCTTATAGATGGACCA
Found at i:9732999 original size:41 final size:41
Alignment explanation
Indices: 9732954--9733045 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
9732944 GCCCGAAGGT
* *
9732954 CTTATAGATGTA-CCAAAGGACTT-ATCATCTTGCTCGAAAGA
1 CTTATAGATG-AGCC-AAGGACTTAAGCATCATGCTCGAAAGA
* * *
9732995 CTTATAAATGAGCCAAGGATTTAAGCATCATGCTTGAAAGA
1 CTTATAGATGAGCCAAGGACTTAAGCATCATGCTCGAAAGA
*
9733036 CTTAAAGATG
1 CTTATAGATG
9733046 GCCCAAAGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
40 8 0.19
41 34 0.81
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (41 bp):
CTTATAGATGAGCCAAGGACTTAAGCATCATGCTCGAAAGA
Found at i:9733171 original size:59 final size:59
Alignment explanation
Indices: 9733062--9733217 Score: 217
Period size: 59 Copynumber: 2.7 Consensus size: 59
9733052 AGAAATTTTT
* * * * *
9733062 CTGATTTGAAATGTTGTGAATCGAGCAATAGGAAATGTTAACCCTTTGGTGGGGCGTTA
1 CTGATTCGAAGTGTTGTGAATCGAGCAAGAGGAAATGTTAACCCTCTGGTGAGGCGTTA
* *
9733121 CTGATTCGAAGTGTTGTGAATCGAGCAAGA-TAAATGTTAACCCCTCTGGTGAGGCGTTG
1 CTGATTCGAAGTGTTGTGAATCGAGCAAGAGGAAATGTTAA-CCCTCTGGTGAGGCGTTA
*
9733180 TTGATTCGAAGTGTTGTGAATCGAGCAA-AGGAAATGTT
1 CTGATTCGAAGTGTTGTGAATCGAGCAAGAGGAAATGTT
9733218 GAAAACATCC
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
58 10 0.12
59 76 0.88
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (59 bp):
CTGATTCGAAGTGTTGTGAATCGAGCAAGAGGAAATGTTAACCCTCTGGTGAGGCGTTA
Found at i:9733352 original size:42 final size:41
Alignment explanation
Indices: 9733239--9733352 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 41
9733229 GCCCGAAGGT
* *
9733239 CTTATGGATGGC-CTGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCTC-GAAGGACTTATCATCATGCTCGAAAGA
* * * *
9733280 CTTATAAATGAGCT-GAAGGATTTAAGCATCATGCTTGAAAGA
1 CTTATAGATG-GCTCGAAGGACTT-ATCATCATGCTCGAAAGA
9733322 CTTACT-GATGGCTCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCTCGAAGGACTTA-TCATCA
9733353 AGAAACCCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
41 20 0.34
42 37 0.64
43 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (41 bp):
CTTATAGATGGCTCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:9733484 original size:58 final size:57
Alignment explanation
Indices: 9733347--9733667 Score: 249
Period size: 58 Copynumber: 5.6 Consensus size: 57
9733337 AAGGACTTAC
* * * * * * * ** *
9733347 TCATCAAGAAACCCTTGAAAATCAAGCTCAGTTTCTTAAAAACTTTCGTTTAAAATTA
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTAAAAA-ATTCATTGGAAATAA
* * * * *
9733405 TCATTATGAAACCTCTAAAAATCAAGCTTAGCTTCTTAAAAATATTCATTGGGAATAA
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTAAAAA-ATTCATTGGAAATAA
* * * * * ** *
9733463 TCGTCAAGAAATCCCTGAAAATCAGGCGTATCTTCTTTTAAAATTCATTGGAAATCA
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTAAAAAATTCATTGGAAATAA
* * * * *
9733520 CCATCAAGAAACCCCTAAAAATTAGGCTTATCTTCTTTTAAAAATTCATTAGAAATAA
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTC-TTAAAAAATTCATTGGAAATAA
* * * * *
9733578 TCATCAAG-AACCCCTTGAAAACCAAGCTTAGTTTC-TAAAAAACTT-ATTTG-AA-AA
1 TCATCAAGAAACCCC-TAAAAATCAGGCTTAGCTTCTTAAAAAA-TTCATTGGAAATAA
*
9733632 -CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTT
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTT
9733668 TTAAAATCAT
Statistics
Matches: 208, Mismatches: 50, Indels: 14
0.76 0.18 0.05
Matches are distributed among these distances:
53 22 0.11
54 9 0.04
55 2 0.01
56 10 0.05
57 50 0.24
58 115 0.55
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (57 bp):
TCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTAAAAAATTCATTGGAAATAA
Found at i:9733747 original size:111 final size:111
Alignment explanation
Indices: 9733347--9733673 Score: 304
Period size: 115 Copynumber: 2.9 Consensus size: 111
9733337 AAGGACTTAC
* * * * * *
9733347 TCATCAAGAAACCCTTGAAAATCAAGCTCAGTTTCTTAAAAACTT-TCGTTTAAAATTATCATTA
1 TCATCAAGAACCCCTTGAAAACCAAGCTTAGTTTCTAAAAAACTTAT--TTGAAAA-CATCA--A
* * * * * *
9733411 TGAAACCTCTAAAAATCAAGCTTAGCTTC-TTAAAAATATTCATTGGGAATAA
61 -GAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAAA-ATTCATTAGAAATAA
* * * * * ** *
9733463 TCGTCAAGAAATCCC-TGAAAATCAGGCGTA-TCTTCTTTTAAAA-TTCATTGGAAATCACCATC
1 TCATCAAG-AACCCCTTGAAAACCAAGCTTAGT-TTC-TAAAAAACTT-ATTTGAAA--A-CATC
*
9733525 AAGAAACCCCTAAAAATTAGGCTTATCTTCTTTTAAAAATTCATTAGAAATAA
59 AAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAAAATTCATTAGAAATAA
9733578 TCATCAAGAACCCCTTGAAAACCAAGCTTAGTTTCTAAAAAACTTATTTGAAAACATCAAGAAAC
1 TCATCAAGAACCCCTTGAAAACCAAGCTTAGTTTCTAAAAAACTTATTTGAAAACATCAAGAAAC
9733643 CCCTAAAAATTAGGCTTAGCTTCTTTTAAAA
66 CCCTAAAAATTAGGCTTAGCTTCTTTTAAAA
9733674 TCATTTGAAA
Statistics
Matches: 174, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
111 41 0.24
112 1 0.01
114 17 0.10
115 62 0.36
116 36 0.21
117 11 0.06
118 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (111 bp):
TCATCAAGAACCCCTTGAAAACCAAGCTTAGTTTCTAAAAAACTTATTTGAAAACATCAAGAAAC
CCCTAAAAATTAGGCTTAGCTTCTTTTAAAAATTCATTAGAAATAA
Found at i:9743793 original size:200 final size:202
Alignment explanation
Indices: 9743434--9743836 Score: 751
Period size: 200 Copynumber: 2.0 Consensus size: 202
9743424 GTTTGTTGTT
9743434 ATTCCAAGGAACCACTGTGTTTTCACAAATTCCATAGAGACTGGATAAAGGGATTTAAATTGCGG
1 ATTCCAAGGAACCACTGTGTTTTCACAAATTCCATAGAGACTGGATAAAGGGATTTAAATTGCGG
9743499 CTGCGGTCGCATTGCATTTATCGCGAATACGGACATAATGGATGCTATTGTGGTGTTATTGCGGT
66 CTGCGGTCGCATTGCATTTATCGCGAATACGGACATAATGGATGCTATTGTGGTGTTATTGCGGT
9743564 TGTTAATTTTTCTAAAGGGTTGATTTTTTTAAAATGAGCTGAA-TT-AAAAAAAATTAGCAGGAA
131 TGTTAATTTTTCTAAAGGGTTGATTTTTTTAAAATGAGCTGAATTTAAAAAAAAATTAGCAGGAA
9743627 TAGCCTC
196 TAGCCTC
9743634 ATTCCAAGGAACCACTGTGTTTTCACAAATTCCATAGAGACTGGATAAAGGGATTTAAATTGCGG
1 ATTCCAAGGAACCACTGTGTTTTCACAAATTCCATAGAGACTGGATAAAGGGATTTAAATTGCGG
9743699 CTGCGGTCGCATTGCATTTATCGCGAATACGGACATAATGGATGCTATTGT-G-GTTATTGCGGT
66 CTGCGGTCGCATTGCATTTATCGCGAATACGGACATAATGGATGCTATTGTGGTGTTATTGCGGT
9743762 TGTTAATTTTTCTAAAGGAGTTGATTTTTTTTAAAATGAGCTGAATTTAAAAAAAAAATTAGCAG
131 TGTTAATTTTTCTAAAGG-GTTGA-TTTTTTTAAAATGAGCTGAATTT-AAAAAAAAATTAGCAG
9743827 GAATAGCCTC
193 GAATAGCCTC
9743837 CAGCTATTAC
Statistics
Matches: 198, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
198 29 0.15
199 6 0.03
200 136 0.69
201 2 0.01
203 25 0.13
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (202 bp):
ATTCCAAGGAACCACTGTGTTTTCACAAATTCCATAGAGACTGGATAAAGGGATTTAAATTGCGG
CTGCGGTCGCATTGCATTTATCGCGAATACGGACATAATGGATGCTATTGTGGTGTTATTGCGGT
TGTTAATTTTTCTAAAGGGTTGATTTTTTTAAAATGAGCTGAATTTAAAAAAAAATTAGCAGGAA
TAGCCTC
Found at i:9747822 original size:16 final size:17
Alignment explanation
Indices: 9747801--9747843 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
9747791 TTTCTAATCT
9747801 AATAAAATTAAT-ATTC
1 AATAAAATTAATCATTC
*
9747817 AAT-AAATGAATCATTC
1 AATAAAATTAATCATTC
9747833 AATAAAATTAA
1 AATAAAATTAA
9747844 ATTAATGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 10 0.43
17 6 0.26
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAAATTAATCATTC
Found at i:9750960 original size:37 final size:37
Alignment explanation
Indices: 9750910--9750985 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
9750900 ATTTTTAAGT
*
9750910 GTTTGTATGAAACAAGTTTTCAACCTTTTCATAACTC
1 GTTTGTATGAAACAAGTTTTCAACATTTTCATAACTC
9750947 GTTTGTATGAAACAAGTTTTCAACATTTTCATAACTC
1 GTTTGTATGAAACAAGTTTTCAACATTTTCATAACTC
9750984 GT
1 GT
9750986 ATGGTGTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (37 bp):
GTTTGTATGAAACAAGTTTTCAACATTTTCATAACTC
Found at i:9753165 original size:63 final size:66
Alignment explanation
Indices: 9753011--9753234 Score: 176
Period size: 63 Copynumber: 3.4 Consensus size: 66
9753001 TCAAACTAAA
*
9753011 TATCTTTCAATATTCAAATTTAAATAGATAATGATATCTTTTAATTTGAAATATTCAAAAGATAT
1 TATCTTT-AATATTCAAATTTAAAT--ATAATGATATATTTTAATTTGAAATATTCAAAAGATAT
9753076 AAGC
63 AAGC
* * * * *
9753080 T-CCTTTTACTATGCAAACTTAAATA-AAT-AT-TATTTTAGTTTGAAATATTCAAAAGGATATA
1 TATC-TTTAATATTCAAATTTAAATATAATGATATATTTTAATTTGAAATATTCAAAA-GATATA
*
9753141 A-T
64 AGC
** * * *
9753143 TATCTTTAATATTCAAATTTAAATAGGTAACAAATATCTTTTAATTTGACATATT-TAAAGA-AT
1 TATCTTTAATATTCAAATTTAAATA--TAA-TGATATATTTTAATTTGAAATATTCAAAAGATAT
*
9753206 AA-T
63 AAGC
*
9753209 TATTCTATTAATATTCAAATTAAAAT
1 TA-TCT-TTAATATTCAAATTTAAAT
9753235 TATCTTTTAA
Statistics
Matches: 127, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
63 41 0.32
64 10 0.08
65 3 0.02
66 10 0.08
67 5 0.04
68 38 0.30
69 20 0.16
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (66 bp):
TATCTTTAATATTCAAATTTAAATATAATGATATATTTTAATTTGAAATATTCAAAAGATATAAG
C
Found at i:9766246 original size:22 final size:22
Alignment explanation
Indices: 9766181--9766260 Score: 94
Period size: 23 Copynumber: 3.7 Consensus size: 22
9766171 AGAACCCCAG
*
9766181 GGGGGTATCGGTTCCCC-T--A
1 GGGGGAATCGGTTCCCCTTCAA
*
9766200 GGGGGAATTGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTC-AA
9766223 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
* *
9766245 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
9766261 TCTACCCTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.29
20 1 0.02
22 16 0.31
23 20 0.38
ACGTcount: A:0.16, C:0.25, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:9772374 original size:22 final size:21
Alignment explanation
Indices: 9772344--9772424 Score: 74
Period size: 23 Copynumber: 3.7 Consensus size: 21
9772334 GTTTTCAACA
*
9772344 GGAATCGATACCCCCTTGAAGG
1 GGAACCGATACCCCCTTGAA-G
*
9772366 GGAACCGATTCCCCCTTTGAATG
1 GGAACCGATACCCCC-TTGAA-G
* *
9772389 GGAACAGATTCCCTCCTTG-AG
1 GGAACCGATACCC-CCTTGAAG
*
9772410 GGAATCGATACCCCC
1 GGAACCGATACCCCC
9772425 CACGTGTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 2 0.04
21 11 0.22
22 14 0.28
23 21 0.42
24 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (21 bp):
GGAACCGATACCCCCTTGAAG
Found at i:9782270 original size:100 final size:100
Alignment explanation
Indices: 9782105--9782396 Score: 485
Period size: 100 Copynumber: 2.9 Consensus size: 100
9782095 AAATGAATAT
*
9782105 CATTTTAAGAATTAATGTTATTTGGCTGCTATTTCAATAAATAAATATTAAATAAGTATTATTTT
1 CATTTTAAGAATTAATGTTATTTGGATGCTATTTCAATAAATAAATATTAAATAAGTATTATTTT
*
9782170 AATATTTTTGCCAATTTCACCGTTGATATGAATGC
66 AATAATTTTGCCAATTTCACCGTTGATATGAATGC
* * *
9782205 CATTTTAAGAACTAATGTTATTTGGATGCTATTTTATTAAATAAATATTAAATAAGTATTATTTT
1 CATTTTAAGAATTAATGTTATTTGGATGCTATTTCAATAAATAAATATTAAATAAGTATTATTTT
* * *
9782270 AATAATTTTACCAATTTCACTGTTGATATGAATGT
66 AATAATTTTGCCAATTTCACCGTTGATATGAATGC
* * *
9782305 CACTTTAAGAATTAATATTATTTGGGTGCTATTTCAATAAATAAATATTAAATAAGTATTATTTT
1 CATTTTAAGAATTAATGTTATTTGGATGCTATTTCAATAAATAAATATTAAATAAGTATTATTTT
9782370 AATAATTTTGCCAATTTCACCGTTGAT
66 AATAATTTTGCCAATTTCACCGTTGAT
9782397 TGTTTTAGTT
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 176 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (100 bp):
CATTTTAAGAATTAATGTTATTTGGATGCTATTTCAATAAATAAATATTAAATAAGTATTATTTT
AATAATTTTGCCAATTTCACCGTTGATATGAATGC
Found at i:9782939 original size:19 final size:21
Alignment explanation
Indices: 9782915--9782974 Score: 88
Period size: 19 Copynumber: 2.9 Consensus size: 21
9782905 AAGTTATTAG
9782915 AAAGTAAAAATAC-AAATAA-
1 AAAGTAAAAATACGAAATAAT
9782934 AAAGTAAAAATACGAAATAAT
1 AAAGTAAAAATACGAAATAAT
*
9782955 AAAGTAATAAATAAGAAATA
1 AAAGTAA-AAATACGAAATA
9782975 TTGAAGATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 13 0.35
20 6 0.16
21 7 0.19
22 11 0.30
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAGTAAAAATACGAAATAAT
Found at i:9784966 original size:45 final size:43
Alignment explanation
Indices: 9784889--9785020 Score: 167
Period size: 45 Copynumber: 3.0 Consensus size: 43
9784879 CAATTAAGCA
* *
9784889 CCTTTTTTCTTATTAGAGCCAGATAGGTACCTCTAGTAATTTTTT
1 CCTTTTTT-TTACTAGAGCCAGATA-GCACCTCTAGTAATTTTTT
* *
9784934 CTCTTTTTTTTACTAAAGCCGGATATGCACCTCTAGTAA-TTTTT
1 C-CTTTTTTTTACTAGAGCCAGATA-GCACCTCTAGTAATTTTTT
* *
9784978 CCCTTTTTTTACTAGAGCCAGATAGCATCTCTAGTAATTTTTT
1 CCTTTTTTTTACTAGAGCCAGATAGCACCTCTAGTAATTTTTT
9785021 TATAGGAGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
42 12 0.16
43 25 0.33
44 6 0.08
45 26 0.34
46 7 0.09
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (43 bp):
CCTTTTTTTTACTAGAGCCAGATAGCACCTCTAGTAATTTTTT
Found at i:9785020 original size:43 final size:45
Alignment explanation
Indices: 9784892--9785020 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 45
9784882 TTAAGCACCT
* * *
9784892 TTTTTCTTATTAGAGCCAGATAGGTACCTCTAGTAATTTTTTCTCT
1 TTTTT-TTACTAGAGCCAGATAGGCACCTCTAGTAATTTTTTCTCC
* * *
9784938 TTTTTTTACTAAAGCCGGATATGCACCTCTAGTAA-TTTTTC-CC
1 TTTTTTTACTAGAGCCAGATAGGCACCTCTAGTAATTTTTTCTCC
*
9784981 TTTTTTTACTAGAGCCAGATA-GCATCTCTAGTAATTTTTT
1 TTTTTTTACTAGAGCCAGATAGGCACCTCTAGTAATTTTTT
9785021 TATAGGAGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 12 0.16
43 25 0.34
44 6 0.08
45 25 0.34
46 5 0.07
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (45 bp):
TTTTTTTACTAGAGCCAGATAGGCACCTCTAGTAATTTTTTCTCC
Found at i:9791774 original size:39 final size:41
Alignment explanation
Indices: 9791701--9791815 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 41
9791691 GGCTTAAACT
* *
9791701 ATAAAAGTAAAAAGTATGATTGAAAAAAATTAGAGACCTCAATC
1 ATAAAGGTAAAAAG--TGATT-AAAAAAATTAGAGACATCAATC
* *
9791745 ATAAAGGTAAAAAGTGATT-AAAAAA-TAGAGGCATCAATT
1 ATAAAGGTAAAAAGTGATTAAAAAAATTAGAGACATCAATC
* *
9791784 TTAAAGGTAAAAAGTGAGATTGAAAAAATTAG
1 ATAAAGGTAAAAAGT--GATTAAAAAAATTAG
9791816 GGGCCTAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
39 25 0.40
40 6 0.10
41 4 0.06
42 11 0.18
43 3 0.05
44 13 0.21
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.23
Consensus pattern (41 bp):
ATAAAGGTAAAAAGTGATTAAAAAAATTAGAGACATCAATC
Found at i:9791838 original size:43 final size:42
Alignment explanation
Indices: 9791683--9791855 Score: 147
Period size: 43 Copynumber: 4.1 Consensus size: 42
9791673 AAAAATTATT
* * * *
9791683 AAATTAGGGGCTTAAACTATAAAAGTAAAAAGTATGATTGAAAA
1 AAATTAGAGGCCTAAATTATAAAGGTAAAAAGTA-GATTG-AAA
* * *
9791727 AAATTAGAGACCTCAATCATAAAGGTAAAAAGT-GATT-AAA
1 AAATTAGAGGCCTAAATTATAAAGGTAAAAAGTAGATTGAAA
* * *
9791767 AAA-TAGAGGCATCAATTTTAAAGGTAAAAAGTGAGATTGAAA
1 AAATTAGAGGCCTAAATTATAAAGGTAAAAAGT-AGATTGAAA
* * * *
9791809 AAATTAGGGGCCTAAATTAT-ATGAGTAAAAAATGGGATTGAAA
1 AAATTAGAGGCCTAAATTATAAAG-GTAAAAAGT-AGATTGAAA
9791852 AAAT
1 AAAT
9791856 GAGATTGAAA
Statistics
Matches: 106, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 25 0.24
40 6 0.06
41 4 0.04
42 12 0.11
43 33 0.31
44 26 0.25
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.24
Consensus pattern (42 bp):
AAATTAGAGGCCTAAATTATAAAGGTAAAAAGTAGATTGAAA
Found at i:9791867 original size:15 final size:14
Alignment explanation
Indices: 9791835--9791868 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9791825 TTATATGAGT
*
9791835 AAAAAATGGGATTG
1 AAAAAATGAGATTG
9791849 AAAAAATGAGATTG
1 AAAAAATGAGATTG
9791863 AAAAAA
1 AAAAAA
9791869 GCAGGAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (14 bp):
AAAAAATGAGATTG
Found at i:9791997 original size:44 final size:44
Alignment explanation
Indices: 9791949--9792068 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
9791939 AATGGGATTG
* *
9791949 AAAAAATTAAAGGCCTCCATTATAAAGAT-AAAAAGTAAGATTA
1 AAAAAATTAAAGGCCTCAATTATAAAGATAAAAAAGTAAAATTA
** * *
9791992 CAAAAAATTAGGGGCCTCAATTATAAGGATAAAAAATTAAAATTA
1 -AAAAAATTAAAGGCCTCAATTATAAAGATAAAAAAGTAAAATTA
** *
9792037 AAGAAAATTAAAGGGTTAAATTATAAA-ATAAA
1 AA-AAAATTAAAGGCCTCAATTATAAAGATAAA
9792069 CAATATTATA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
44 32 0.52
45 30 0.48
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.24
Consensus pattern (44 bp):
AAAAAATTAAAGGCCTCAATTATAAAGATAAAAAAGTAAAATTA
Found at i:9792046 original size:45 final size:44
Alignment explanation
Indices: 9791949--9792068 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 44
9791939 AATGGGATTG
* *
9791949 AAAAAATTAAAGGCCTCCATTATAAAGATAAAAAGTAAGATTAC
1 AAAAAATTAAAGGCCTCAATTATAAAGATAAAAAGTAAAATTAC
** * *
9791993 AAAAAATTAGGGGCCTCAATTATAAGGATAAAAAATTAAAATTA-
1 AAAAAATTAAAGGCCTCAATTATAAAGAT-AAAAAGTAAAATTAC
** *
9792037 AAGAAAATTAAAGGGTTAAATTATAAA-ATAAA
1 AA-AAAATTAAAGGCCTCAATTATAAAGATAAA
9792069 CAATATTATA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
43 3 0.05
44 29 0.47
45 30 0.48
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.24
Consensus pattern (44 bp):
AAAAAATTAAAGGCCTCAATTATAAAGATAAAAAGTAAAATTAC
Found at i:9800579 original size:26 final size:25
Alignment explanation
Indices: 9800548--9800621 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 25
9800538 CCTCTTAAAT
9800548 TTTTAACTTTTTCTTTTCTCTTTC-
1 TTTTAACTTTTTCTTTTCTCTTTCA
*
9800572 -TTT-A-TTAATT-TTTTCTCTTTCA
1 TTTTAACTT-TTTCTTTTCTCTTTCA
*
9800594 TTTTAACTTTTACTTTTTCTCTTTCA
1 TTTTAACTTTTTC-TTTTCTCTTTCA
9800620 TT
1 TT
9800622 CATTCATCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
21 13 0.32
22 3 0.08
23 6 0.15
24 2 0.05
25 2 0.05
26 14 0.35
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTAACTTTTTCTTTTCTCTTTCA
Found at i:9800599 original size:20 final size:22
Alignment explanation
Indices: 9800561--9800604 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9800551 TAACTTTTTC
*
9800561 TTTTCTCTTTCTTTATTAA-TT
1 TTTTCTCTTTCATTATTAACTT
9800582 TTTTCTCTTTCATT-TTAACTT
1 TTTTCTCTTTCATTATTAACTT
9800603 TT
1 TT
9800605 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTCTCTTTCATTATTAACTT
Found at i:9800638 original size:47 final size:46
Alignment explanation
Indices: 9800548--9800638 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 46
9800538 CCTCTTAAAT
* * * *
9800548 TTTTAACTTTTTCTTTTCTCTTTCTTTATTAATTTTTTCTCTTTCA
1 TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
*
9800594 TTTTAACTTTTACTTTTTCTCTTTCATTCATTCATCTTCT-TCTTT
1 TTTTAACTTTTAC-TTTTCTCTTTC-TTCATTAATCTTCTCTCTTT
9800639 TGTTATTCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 12 0.32
47 16 0.42
48 10 0.26
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (46 bp):
TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
Found at i:9805816 original size:29 final size:30
Alignment explanation
Indices: 9805774--9805841 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
9805764 ATTATTTGTT
9805774 GCAACAACCCAATAGTA-TTTACGAAGAAA
1 GCAACAACCCAATAGTATTTTACGAAGAAA
*
9805803 GCAATAACCCAATAGTATTTTACGAAGAAA
1 GCAACAACCCAATAGTATTTTACGAAGAAA
9805833 GCAACAACC
1 GCAACAACC
9805842 TAATTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.18
Consensus pattern (30 bp):
GCAACAACCCAATAGTATTTTACGAAGAAA
Found at i:9807520 original size:21 final size:21
Alignment explanation
Indices: 9807496--9807541 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
9807486 TGCACTGTAG
9807496 GGATACACTGCAGGGGTGCAT
1 GGATACACTGCAGGGGTGCAT
*
9807517 GGATCCACTGCAGGGGTGCAT
1 GGATACACTGCAGGGGTGCAT
9807538 GGAT
1 GGAT
9807542 GCATGGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.39, T:0.20
Consensus pattern (21 bp):
GGATACACTGCAGGGGTGCAT
Found at i:9807655 original size:29 final size:30
Alignment explanation
Indices: 9807634--9807691 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
9807624 AAACTTTGAA
9807634 TAAATTCAATT-AAGTCCAAAAACATTTCG
1 TAAATTCAATTCAAGTCCAAAAACATTTCG
* *
9807663 TAACTTCAATTCAATTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
9807692 TGCCTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 10 0.40
31 5 0.20
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTCAAGTCCAAAAACATTTCG
Found at i:9809179 original size:60 final size:59
Alignment explanation
Indices: 9809100--9809253 Score: 168
Period size: 60 Copynumber: 2.6 Consensus size: 59
9809090 ATCATCATTT
* *
9809100 TAAATTAGCCCCTATACTTTTAAATATTTCAATTTCAT-CCTCAAACTATGAATCTTGTTC
1 TAAATTAG-TCCTAAACTTTTAAATATTTCAATTTCATCCCT-AAACTATGAATCTTGTTC
* * * * *
9809160 TAAATTAGTCCTTAAACTTTTGAACA-TTCTAATTCCATCCCTAAACTATGACTCTTTTTC
1 TAAATTAGTCC-TAAACTTTTAAATATTTC-AATTTCATCCCTAAACTATGAATCTTGTTC
* * *
9809220 TAAATTGGTCCCAAACTTTTAAATATTCCAATTT
1 TAAATTAGTCCTAAACTTTTAAATATTTCAATTT
9809254 GTTGAGTTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
59 20 0.26
60 54 0.70
61 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (59 bp):
TAAATTAGTCCTAAACTTTTAAATATTTCAATTTCATCCCTAAACTATGAATCTTGTTC
Found at i:9810173 original size:65 final size:64
Alignment explanation
Indices: 9809975--9810175 Score: 194
Period size: 65 Copynumber: 3.1 Consensus size: 64
9809965 TGCACTAAGA
** *
9809975 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-AATAGCATGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATTCCATG-GTGCATCGATGCATGGTTG
* * * * * * * *
9810039 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCTA-AGTGCATTGATGTATAGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-ATAATTCCATGGTGCATCGATGCATGGT-
9810103 T-
63 TG
* * *
9810104 GTGCATCGATGCATGAAATGCATTCGATG-CTCAATTCATTCCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TAATTCCATGGTGCATCGATGCATGG-TT
9810168 G
64 G
9810169 GTGCATC
1 GTGCATC
9810176 AGTTCATCAC
Statistics
Matches: 109, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 7 0.06
64 42 0.39
65 54 0.50
66 2 0.02
67 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATTCCATGGTGCATCGATGCATGGTTG
Found at i:9812309 original size:19 final size:20
Alignment explanation
Indices: 9812279--9812316 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9812269 AATTCAAATT
9812279 TTCAATTTTTTTTCGAAAAA
1 TTCAATTTTTTTTCGAAAAA
9812299 TTCAATTTTTTTT-GAAAA
1 TTCAATTTTTTTTCGAAAA
9812317 TTTGTGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (20 bp):
TTCAATTTTTTTTCGAAAAA
Found at i:9812731 original size:23 final size:22
Alignment explanation
Indices: 9812701--9812804 Score: 93
Period size: 23 Copynumber: 4.6 Consensus size: 22
9812691 GCATGGCAGT
9812701 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
9812723 CGTGCATCGATTCACATTCAAGG
1 -GTGCATCGATGCACATTCAAGG
* * * * *
9812746 CATGCATCGGTGCACCTT-TATG
1 -GTGCATCGATGCACATTCAAGG
* *
9812768 GTGTATCGTTGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
9812791 GATGCATCGATGCA
1 G-TGCATCGATGCA
9812805 TTGTTAAGTG
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
21 13 0.21
22 2 0.03
23 38 0.60
24 10 0.16
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:9816664 original size:22 final size:21
Alignment explanation
Indices: 9816622--9816661 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9816612 AGCTTTTTTT
*
9816622 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
9816643 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9816662 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:9818180 original size:34 final size:32
Alignment explanation
Indices: 9818127--9818196 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
9818117 CCTTACAAAC
* *
9818127 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
9818159 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
9818193 TCCC
1 TCCC
9818197 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:9818508 original size:21 final size:21
Alignment explanation
Indices: 9818482--9818522 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9818472 CCGTATAGGG
9818482 GGTATCAGTACCCATTCATAT
1 GGTATCAGTACCCATTCATAT
* *
9818503 GGTATCGGTACCCCTTCATA
1 GGTATCAGTACCCATTCATA
9818523 AAATTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (21 bp):
GGTATCAGTACCCATTCATAT
Found at i:9818777 original size:29 final size:30
Alignment explanation
Indices: 9818745--9818808 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
9818735 GAAACCTTCT
*
9818745 AAAACTTTGAATAAATTCAA-TTAAGTCCA
1 AAAACTTTGAATAAATTCAATTTAAATCCA
***
9818774 AAAACTTTTTGTAAATTCAATTTAAATCCA
1 AAAACTTTGAATAAATTCAATTTAAATCCA
9818804 AAAAC
1 AAAAC
9818809 CATTTTGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (30 bp):
AAAACTTTGAATAAATTCAATTTAAATCCA
Found at i:9821988 original size:21 final size:21
Alignment explanation
Indices: 9821962--9822002 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9821952 CCGTACAGGG
9821962 GGTATCGGTACCCATTCATAT
1 GGTATCGGTACCCATTCATAT
*
9821983 GGTATCGGTACCCCTTCATA
1 GGTATCGGTACCCATTCATA
9822003 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGTATCGGTACCCATTCATAT
Found at i:9822095 original size:17 final size:17
Alignment explanation
Indices: 9822032--9822099 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
9822022 GTTGCAGCCA
* *
9822032 GGGGGTATGGATACCCCT
1 GGGGGTATCGATA-CCAT
9822050 GGGGGGTATCGATACC--
1 -GGGGGTATCGATACCAT
*
9822066 GGGAGTATCGATACCAT
1 GGGGGTATCGATACCAT
*
9822083 GGGGGTATAGATACCAT
1 GGGGGTATCGATACCAT
9822100 CCGAGCAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
15 14 0.33
17 15 0.35
18 2 0.05
19 12 0.28
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (17 bp):
GGGGGTATCGATACCAT
Found at i:9822284 original size:30 final size:30
Alignment explanation
Indices: 9822237--9822296 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9822227 AAACTTTGAA
9822237 TAAATTCAATTAAGTCCAAAAACC-TTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
9822266 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
9822297 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 13 0.45
31 5 0.17
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:9825200 original size:18 final size:18
Alignment explanation
Indices: 9825174--9825208 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9825164 TTGAAAGGAC
*
9825174 TAAAGTAAATGATAAGAT
1 TAAAGTAAATAATAAGAT
*
9825192 TAAATTAAATAATAAGA
1 TAAAGTAAATAATAAGA
9825209 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
TAAAGTAAATAATAAGAT
Found at i:9826517 original size:24 final size:24
Alignment explanation
Indices: 9826435--9826529 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
9826425 ATTTTTTATT
* * *
9826435 TGAATTCTGTTTTGACATCTGATC
1 TGAATTATGTTCTGATATCTGATC
* * *
9826459 TGAAATATGTTCTGAT-TCCTAACC
1 TGAATTATGTTCTGATAT-CTGATC
* *
9826483 TGGATTCTGTTCTGATATCTGATC
1 TGAATTATGTTCTGATATCTGATC
* *
9826507 TGAATTATGTTTTGATTTCTGAT
1 TGAATTATGTTCTGATATCTGAT
9826530 ATCTCCGTTT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 52 0.96
25 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (24 bp):
TGAATTATGTTCTGATATCTGATC
Found at i:9827432 original size:65 final size:65
Alignment explanation
Indices: 9827299--9827458 Score: 238
Period size: 65 Copynumber: 2.5 Consensus size: 65
9827289 TGCACTAAGA
*
9827299 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGTATCGATGCATGGTTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGTATCGATGCATAGTTG
*
9827363 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGTATCGATGCATAGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGTATCGATGCATAGT
9827426 AT-
64 -TG
*
9827428 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
9827459 CAATTTATTC
Statistics
Matches: 89, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
64 29 0.33
65 56 0.63
66 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGTATCGATGCATAGTTG
Found at i:9827497 original size:65 final size:63
Alignment explanation
Indices: 9827299--9827499 Score: 221
Period size: 65 Copynumber: 3.1 Consensus size: 63
9827289 TGCACTAAGA
* *
9827299 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGTATCGATGCATGGTTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTC-AATTAACCTGAGTGTATCGATGCATGGTTG
* * *
9827363 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACTCTGAGTGTATCGATGCATAGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAT-TAAC-CTGAGTGTATCGATGCATGGT-
9827427 T-
62 TG
* * *
9827428 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TTA-ACC-TGAGTGTATCGATGCATGG-T
9827491 TG
62 TG
9827493 GTGCATC
1 GTGCATC
9827500 ACTCTGAAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
63 4 0.03
64 48 0.41
65 64 0.55
66 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATTAACCTGAGTGTATCGATGCATGGTTG
Found at i:9828069 original size:60 final size:60
Alignment explanation
Indices: 9827888--9828078 Score: 162
Period size: 60 Copynumber: 3.2 Consensus size: 60
9827878 TATATATATG
* * * *
9827888 TAGTTTG-GGATAAAATT-AGAATGTTCAAAAGCTTTG-GGAACCAATTTATAATGA-AGGTCA
1 TAGTTTGAGGATGAAATTGA-AATATTCAAAAG-TTTGAGG-ACCAATTTAAAATCATA-GTCA
* * **
9827948 TAGTTTGGGGATGAAATTGAAATATTCAAAAGTTTGAGGACTAATTTAGGATCATAGTCA
1 TAGTTTGAGGATGAAATTGAAATATTCAAAAGTTTGAGGACCAATTTAAAATCATAGTCA
* * *
9828008 TAGTTTAAGGATGAAATTGAATTATTTAAAA-TTAT-AGAGACCAATTTAAAAT-ATAGATCA
1 TAGTTTGAGGATGAAATTGAAATATTCAAAAGTT-TGAG-GACCAATTTAAAATCATAG-TCA
*
9828068 TACTTTGAGGA
1 TAGTTTGAGGA
9828079 CATATATTGC
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
59 8 0.07
60 77 0.71
61 23 0.21
62 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.34
Consensus pattern (60 bp):
TAGTTTGAGGATGAAATTGAAATATTCAAAAGTTTGAGGACCAATTTAAAATCATAGTCA
Found at i:9837204 original size:22 final size:23
Alignment explanation
Indices: 9837158--9837205 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9837148 ACAACCAAAA
*
9837158 TTTGAAAGTTTTTATTTTCTTTT
1 TTTGAAAGTTTTTATTTTCTGTT
9837181 TTTG-AAGTATTTTATTTT-TGTT
1 TTTGAAAGT-TTTTATTTTCTGTT
9837203 TTT
1 TTT
9837206 ATTGATGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (23 bp):
TTTGAAAGTTTTTATTTTCTGTT
Found at i:9838861 original size:70 final size:71
Alignment explanation
Indices: 9838786--9838921 Score: 229
Period size: 70 Copynumber: 1.9 Consensus size: 71
9838776 AGAAGAATTC
*
9838786 TTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCA-TTTTAATTATTTGAATATTCCATAATTAATT
1 TTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCATTTTTAATTATTCGAATATTCCATAATTAATT
9838850 ATTTTT
66 ATTTTT
* * *
9838856 TTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTTAATTATTCGAATATTTCATAATTGATT
1 TTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCATTTTTAATTATTCGAATATTCCATAATTAATT
9838921 A
66 A
9838922 AAATTAATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
70 32 0.52
71 29 0.48
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (71 bp):
TTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCATTTTTAATTATTCGAATATTCCATAATTAATT
ATTTTT
Found at i:9842007 original size:60 final size:60
Alignment explanation
Indices: 9841943--9842081 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 60
9841933 TGAATGCTTA
** *
9841943 AATTTCATCTCTAAACTATGA-CTATCATTC-TAAATT-AGTTCTTAAAC-TTTTGTACATTTC
1 AATTTCATCTC-AAACTATGATCT-TCA-TCATAAATTGA-TTCCCAAACTTTTTGAACATTTC
*
9842003 AATTTCATCCCCAAACTATGATCTTCATCATAAATTGATTCCCAAACTTTTTGAACATTTC
1 AATTTCAT-CTCAAACTATGATCTTCATCATAAATTGATTCCCAAACTTTTTGAACATTTC
* *
9842064 AATTTTATTTCAAACTAT
1 AATTTCATCTCAAACTAT
9842082 ATGTATATGC
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
59 2 0.03
60 41 0.61
61 24 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (60 bp):
AATTTCATCTCAAACTATGATCTTCATCATAAATTGATTCCCAAACTTTTTGAACATTTC
Found at i:9844447 original size:20 final size:20
Alignment explanation
Indices: 9844402--9844459 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
9844392 GCATGGGTAG
9844402 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
9844426 TGTATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
9844446 TGCATCGATGCACT
1 TGCATCGATGCACT
9844460 TCAAGGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 17 0.53
22 1 0.03
23 2 0.06
24 12 0.38
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:9845434 original size:30 final size:30
Alignment explanation
Indices: 9845373--9845468 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
9845363 TTTCGAGACA
* * * *
9845373 TATGGACAGTTTACCCAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTGTGACC
*
9845404 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTGTGACC
* * *
9845434 TCTGGATAGTTACCG-GGGTCTTTGTGACC
1 TATGGACAGTTACCGAGGATCTTTGTGACC
*
9845463 TCTGGA
1 TATGGA
9845469 TAGGTCCTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.32
30 29 0.52
31 9 0.16
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTGTGACC
Found at i:9845464 original size:29 final size:30
Alignment explanation
Indices: 9845400--9845471 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
9845390 GGTTCTTCGG
* *
9845400 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
9845430 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
9845459 GACCTCTGGATAG
1 GACCTCTGGATAG
9845472 GTCCTTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:9846327 original size:17 final size:16
Alignment explanation
Indices: 9846297--9846337 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
9846287 AGTTCTCATG
9846297 TTTA-TTTATTTTTAA
1 TTTATTTTATTTTTAA
9846312 TTTATTTTATTTTTTAA
1 TTTATTTTA-TTTTTAA
9846329 TTTGATTTT
1 TTT-ATTTT
9846338 CTTGATTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 10 0.43
18 5 0.22
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTTTTAA
Found at i:9846582 original size:17 final size:16
Alignment explanation
Indices: 9846549--9846581 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9846539 TACTTCTCAA
9846549 ATTTATTTCTATATAT
1 ATTTATTTCTATATAT
*
9846565 ATTTATTT-TGTATAT
1 ATTTATTTCTATATAT
9846580 AT
1 AT
9846582 AAATTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
ATTTATTTCTATATAT
Found at i:9849064 original size:23 final size:23
Alignment explanation
Indices: 9849033--9849115 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
9849023 GTCGAGGGTT
* *
9849033 CTATATGGTCCTTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
9849056 CTATGTGGTCATTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
* *
9849079 ATATGTGGTCATTCAGGAC-AAA
1 CTATGTGGTCATTCGGGACAAAA
9849101 -TATGTGG-CACTTCGG
1 CTATGTGGTCA-TTCGG
9849116 TGCAAATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 2 0.04
21 11 0.20
22 3 0.06
23 38 0.70
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:9851380 original size:36 final size:36
Alignment explanation
Indices: 9851332--9851414 Score: 148
Period size: 36 Copynumber: 2.3 Consensus size: 36
9851322 ATCGAATTAA
9851332 ACGGGGACGGGGAAAAACCGTTTATGCTAAATGGGG
1 ACGGGGACGGGGAAAAACCGTTTATGCTAAATGGGG
* *
9851368 ACGGGGATGGGGAAAAACCGTTTATGTTAAATGGGG
1 ACGGGGACGGGGAAAAACCGTTTATGCTAAATGGGG
9851404 ACGGGGACGGG
1 ACGGGGACGGG
9851415 TTTAGTAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.29, C:0.12, G:0.42, T:0.17
Consensus pattern (36 bp):
ACGGGGACGGGGAAAAACCGTTTATGCTAAATGGGG
Found at i:9852775 original size:20 final size:22
Alignment explanation
Indices: 9852730--9852787 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
9852720 GCATGGGTAG
9852730 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
9852754 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
9852774 TGCATCGATGCACT
1 TGCATCGATGCACT
9852788 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:9854335 original size:23 final size:23
Alignment explanation
Indices: 9854268--9854335 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
9854258 CATTTTATAT
* * *
9854268 GGCACTTCAGTGCAATCCTACGT
1 GGCACTTCGGTGCAATTCTACGC
* * *
9854291 GGCACTACGGTGTATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
9854314 GGCACTTCGGTGCAATTATACG
1 GGCACTTCGGTGCAATTCTACG
9854336 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:9856320 original size:29 final size:29
Alignment explanation
Indices: 9856287--9856383 Score: 176
Period size: 29 Copynumber: 3.3 Consensus size: 29
9856277 GAAAATACAA
*
9856287 GTATAAGAAATGATAAAGAATGAAGATCT
1 GTATAAGAAATGATAAAGAATGAAGTTCT
*
9856316 GTATAAGAAATGATAAAGAATGAAGTTTT
1 GTATAAGAAATGATAAAGAATGAAGTTCT
9856345 GTATAAGAAATGATAAAGAATGAAGTTCT
1 GTATAAGAAATGATAAAGAATGAAGTTCT
9856374 GTATAAGAAA
1 GTATAAGAAA
9856384 AATGGGTTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.51, C:0.02, G:0.21, T:0.27
Consensus pattern (29 bp):
GTATAAGAAATGATAAAGAATGAAGTTCT
Found at i:9856863 original size:38 final size:38
Alignment explanation
Indices: 9856812--9856888 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
9856802 GTGACATGAT
9856812 ATGAGTGTATAAAGGAAAAAAGGTAATTGAAAAGCTAA
1 ATGAGTGTATAAAGGAAAAAAGGTAATTGAAAAGCTAA
9856850 ATGAGTGTATAAAGGAAAAAAGGTAATTGAAAAGCTAA
1 ATGAGTGTATAAAGGAAAAAAGGTAATTGAAAAGCTAA
9856888 A
1 A
9856889 GGATTGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.53, C:0.03, G:0.23, T:0.21
Consensus pattern (38 bp):
ATGAGTGTATAAAGGAAAAAAGGTAATTGAAAAGCTAA
Found at i:9857915 original size:20 final size:22
Alignment explanation
Indices: 9857870--9857927 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
9857860 GCATGGGTAG
9857870 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
9857894 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
9857914 TGCATCGATGCACT
1 TGCATCGATGCACT
9857928 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:9871866 original size:60 final size:60
Alignment explanation
Indices: 9871792--9871904 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
9871782 TTGCAACATA
* * * * *
9871792 CATCCTCAAACTATGATTCTTATTTTAAATTAGTCCCTAAACTTTTAAACATTTTAATAT
1 CATCCTCAAACTATGACTCCTAGTCTAAATTAGTCCCCAAACTTTTAAACATTTTAATAT
* * *
9871852 CATCCTTAAACTATGACTCCTAGTCTAAATTGGTCCCCAAGCTTTTAAACATT
1 CATCCTCAAACTATGACTCCTAGTCTAAATTAGTCCCCAAACTTTTAAACATT
9871905 CCAGTAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (60 bp):
CATCCTCAAACTATGACTCCTAGTCTAAATTAGTCCCCAAACTTTTAAACATTTTAATAT
Found at i:9874571 original size:22 final size:22
Alignment explanation
Indices: 9874524--9874571 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
9874514 ATATTCACCT
* * *
9874524 ATAATAAAAAATATATGTGTAG
1 ATAATAAAAAAAATATGTATAA
9874546 ATAATAAAAATAAATAT-TATAA
1 ATAATAAAAA-AAATATGTATAA
9874568 ATAA
1 ATAA
9874572 ACATATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
ATAATAAAAAAAATATGTATAA
Found at i:9876466 original size:31 final size:31
Alignment explanation
Indices: 9876431--9876503 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 31
9876421 AAAATATAAT
*
9876431 ATTTGGTCACTTTCATATTTATGTAATTAAG
1 ATTTGGTCACTTTCATATTTATGTAATTAAC
** * * * *
9876462 ATTTGACCACTTTCGTTTTTATTTCATTAAC
1 ATTTGGTCACTTTCATATTTATGTAATTAAC
*
9876493 ATGTGGTCACT
1 ATTTGGTCACT
9876504 GAAGGTTAAC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTTGGTCACTTTCATATTTATGTAATTAAC
Found at i:9891188 original size:17 final size:17
Alignment explanation
Indices: 9891163--9891196 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9891153 AATAAAGTAC
*
9891163 TATTGAATTTTAAAATT
1 TATTCAATTTTAAAATT
9891180 TATTCAATTTTAAAATT
1 TATTCAATTTTAAAATT
9891197 ACATATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTCAATTTTAAAATT
Found at i:9892955 original size:18 final size:17
Alignment explanation
Indices: 9892929--9892965 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
9892919 CTCGAAAAGA
*
9892929 AAGACGAGACAAAGAAG
1 AAGACGAGAAAAAGAAG
9892946 AAGACAGAGAAAAAGAAG
1 AAGAC-GAGAAAAAGAAG
9892964 AA
1 AA
9892966 CGTTGGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGACGAGAAAAAGAAG
Found at i:9892961 original size:15 final size:16
Alignment explanation
Indices: 9892923--9892964 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
9892913 GAAGACCTCG
9892923 AAAAGAAAGACGAGACA
1 AAAAG-AAGACGAGACA
*
9892940 AAGAAGAAGAC-AGAGA
1 AA-AAGAAGACGAGACA
9892956 AAAAGAAGA
1 AAAAGAAGA
9892965 ACGTTGGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 7 0.30
18 3 0.13
ACGTcount: A:0.67, C:0.07, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAAGAAGACGAGACA
Found at i:9897165 original size:22 final size:23
Alignment explanation
Indices: 9897082--9897164 Score: 98
Period size: 22 Copynumber: 3.7 Consensus size: 23
9897072 AGAACCACCA
* *
9897082 GGGGGTATCGATTCCCCTAC-AG
1 GGGGGAATCGATTCCCCTTCAAG
*
9897104 GGGGGAATCGGTTCCCCTTCAA-
1 GGGGGAATCGATTCCCCTTCAAG
* *
9897126 AGGGGAATCGGTTCCCCTTCAAG
1 GGGGGAATCGATTCCCCTTCAAG
*
9897149 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
9897165 TCTGCACTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 38 0.73
23 14 0.27
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGATTCCCCTTCAAG
Found at i:9908712 original size:20 final size:20
Alignment explanation
Indices: 9908683--9908738 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
9908673 TTCCTTGAAT
*
9908683 GTGTATCGATACACTCTACA
1 GTGTACCGATACACTCTACA
*
9908703 GTGTACCGATACACTCTGCA
1 GTGTACCGATACACTCTACA
*
9908723 GTGTACCGATGCACTC
1 GTGTACCGATACACTC
9908739 GTCAGGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (20 bp):
GTGTACCGATACACTCTACA
Found at i:9909833 original size:15 final size:15
Alignment explanation
Indices: 9909813--9909843 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9909803 AATATTTTTG
*
9909813 GTTTAGATAACGAGA
1 GTTTAGACAACGAGA
9909828 GTTTAGACAACGAGA
1 GTTTAGACAACGAGA
9909843 G
1 G
9909844 AGAGATTATG
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:0.39, C:0.10, G:0.29, T:0.23
Consensus pattern (15 bp):
GTTTAGACAACGAGA
Found at i:9919427 original size:22 final size:22
Alignment explanation
Indices: 9919399--9919475 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
9919389 GTAGGACCAC
9919399 TATGTCCCGAAGGACCACTGTA
1 TATGTCCCGAAGGACCACTGTA
*
9919421 TATGTCCCGTAGGACCACTGTA
1 TATGTCCCGAAGGACCACTGTA
*
9919443 TATGTCCCGTAGGACCAC----
1 TATGTCCCGAAGGACCACTGTA
9919461 TATGTCCCGAAGGAC
1 TATGTCCCGAAGGAC
9919476 TACTCCTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 14 0.26
22 39 0.74
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (22 bp):
TATGTCCCGAAGGACCACTGTA
Found at i:9919465 original size:40 final size:37
Alignment explanation
Indices: 9919384--9919475 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 37
9919374 TTCAGTATTC
9919384 GTCCCGTAGGACCACTATGTCCCGAAGGACCACTGTATAT
1 GTCCCGTAGGACCACTATGTCCCGAAGGACCAC--T-TAT
*
9919424 GTCCCGTAGGACCACTGTATATGTCCCGTAGGACCAC-TAT
1 GTCCCGTAGGACCAC----TATGTCCCGAAGGACCACTTAT
*
9919464 GTCCCGAAGGAC
1 GTCCCGTAGGAC
9919476 TACTCCTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
40 29 0.63
44 17 0.37
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (37 bp):
GTCCCGTAGGACCACTATGTCCCGAAGGACCACTTAT
Found at i:9921103 original size:64 final size:63
Alignment explanation
Indices: 9920967--9921123 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
9920957 TAATGAAGGT
* * * * *
9920967 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
9921031 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
9921093 G
63 G
* *
9921094 AGTGTATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
9921124 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:9927752 original size:35 final size:35
Alignment explanation
Indices: 9927706--9927781 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
9927696 AAAACAGTAC
* *
9927706 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
9927741 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
9927776 TCAATT
1 TCAATT
9927782 CAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:9929253 original size:16 final size:17
Alignment explanation
Indices: 9929222--9929259 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
9929212 ACTAATTGAG
9929222 ATGCAACTATTTTTTTA
1 ATGCAACTATTTTTTTA
9929239 ATGCAACTA-TTTTTTA
1 ATGCAACTATTTTTTTA
9929255 ATGCA
1 ATGCA
9929260 CCCAGATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (17 bp):
ATGCAACTATTTTTTTA
Done.