Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 78
Found at i:8955588 original size:129 final size:129
Alignment explanation
Indices: 8955358--8955614 Score: 496
Period size: 129 Copynumber: 2.0 Consensus size: 129
8955348 ATGACAACGA
8955358 GTTGTCATTGACATAGAGATGTCAGAATTAATACATGATTATATTGTTAGAGAACAATGTATTAG
1 GTTGTCATTGACATAGAGATGTCAGAATTAATACATGATTATATTGTTAGAGAACAATGTATTAG
*
8955423 ATTGACCCACCATGAGCATATGTCTTGGATTATTATGTGACAGTCATAACATTGCTCATGGTGG
66 ATTGACCCACCATGAGCATATGTCTTGGATTATTATGTGACAATCATAACATTGCTCATGGTGG
*
8955487 GTTGTCATTGACATAGAGATGTCAGAATTAATACATGATTATATTGTTAGAGAACAATGTATTGG
1 GTTGTCATTGACATAGAGATGTCAGAATTAATACATGATTATATTGTTAGAGAACAATGTATTAG
8955552 ATTGACCCACCATGAGCATATGTCTTGGATTATTATGTGACAATCATAACATTGCTCATGGTG
66 ATTGACCCACCATGAGCATATGTCTTGGATTATTATGTGACAATCATAACATTGCTCATGGTG
8955615 ATGACTATAT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (129 bp):
GTTGTCATTGACATAGAGATGTCAGAATTAATACATGATTATATTGTTAGAGAACAATGTATTAG
ATTGACCCACCATGAGCATATGTCTTGGATTATTATGTGACAATCATAACATTGCTCATGGTGG
Found at i:8956353 original size:90 final size:89
Alignment explanation
Indices: 8956242--8956418 Score: 282
Period size: 90 Copynumber: 2.0 Consensus size: 89
8956232 TAATCCCGAA
* * * *
8956242 TATTTAATTTCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAC
8956307 TAAGGTAACTTGGATATAAAAGGAT
65 TAAGGTAACTTGGATATAAAAGGAT
*
8956332 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGACT
1 TATTAAATTCCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAACCCTAATATGACT
* *
8956397 AGGGTAACTTGGCTATAAAAGG
66 AAGGTAACTTGGATATAAAAGG
8956419 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 31 0.39
90 49 0.61
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAACCCTAATATGACT
AAGGTAACTTGGATATAAAAGGAT
Found at i:8957061 original size:31 final size:31
Alignment explanation
Indices: 8957018--8957076 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
8957008 TTTTCACTCA
8957018 ATGTAGCCCTCTAACTTAGAAAACAACTCCG
1 ATGTAGCCCTCTAACTTAGAAAACAACTCCG
*
8957049 ATGTGGCCCTCTAACTTAGAAAACAACT
1 ATGTAGCCCTCTAACTTAGAAAACAACT
8957077 TCAATGTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (31 bp):
ATGTAGCCCTCTAACTTAGAAAACAACTCCG
Found at i:8957176 original size:21 final size:20
Alignment explanation
Indices: 8957126--8957194 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
8957116 ATTACGGTGC
* *
8957126 TGATGTGGCAATTCACGATAT
1 TGATGTGGCAA-TCACAATGT
**
8957147 TGACATGGCGAATCACAATGT
1 TGATGTGGC-AATCACAATGT
*
8957168 TGATGTGGCAGTTCACAATAGT
1 TGATGTGGCA-ATCACAAT-GT
8957190 TGATG
1 TGATG
8957195 ACGTGGTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.74
22 9 0.24
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (20 bp):
TGATGTGGCAATCACAATGT
Found at i:8957611 original size:25 final size:25
Alignment explanation
Indices: 8957583--8957634 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
8957573 GAAAATACAT
*
8957583 TAAGTTTCGACTAATTCAAATTTTG
1 TAAGTTTCGACTAATCCAAATTTTG
*
8957608 TAAGTTTCGACTAATCCAGATTTTG
1 TAAGTTTCGACTAATCCAAATTTTG
8957633 TA
1 TA
8957635 TCCAAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (25 bp):
TAAGTTTCGACTAATCCAAATTTTG
Found at i:8957680 original size:20 final size:21
Alignment explanation
Indices: 8957638--8957681 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
8957628 TTTTGTATCC
8957638 AAATTTGAATATTTATATTTA
1 AAATTTGAATATTTATATTTA
8957659 AAATTTGAAATATTT-T-TTTA
1 AAATTTG-AATATTTATATTTA
8957679 AAA
1 AAA
8957682 GTAAATAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
AAATTTGAATATTTATATTTA
Found at i:8962486 original size:20 final size:18
Alignment explanation
Indices: 8962461--8962504 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
8962451 ATTCCTCAAT
8962461 AAAATACAATCATTGAGAAA
1 AAAATACAA-C-TTGAGAAA
* *
8962481 AAAATAGAACTTTAGAAA
1 AAAATACAACTTGAGAAA
8962499 AAAATA
1 AAAATA
8962505 ACTAGGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 13 0.59
19 1 0.05
20 8 0.36
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAATACAACTTGAGAAA
Found at i:8964980 original size:21 final size:22
Alignment explanation
Indices: 8964943--8964983 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
8964933 TTAAATATTA
8964943 TAAAGGTAGTATCGATACTCAT
1 TAAAGGTAGTATCGATACTCAT
8964965 TAAAGG-AGTA-CTGATACTC
1 TAAAGGTAGTATC-GATACTC
8964984 CCTATCATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 11 0.61
22 6 0.33
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (22 bp):
TAAAGGTAGTATCGATACTCAT
Found at i:8967215 original size:14 final size:14
Alignment explanation
Indices: 8967188--8967231 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
8967178 TGACTCTAGA
8967188 ATCTTTCTTCATCCT
1 ATCTTTC-TCATCCT
*
8967203 TTCTTTCTCATCCT
1 ATCTTTCTCATCCT
8967217 ATCTTTCTCATCCT
1 ATCTTTCTCATCCT
8967231 A
1 A
8967232 AAATGACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (14 bp):
ATCTTTCTCATCCT
Found at i:8967626 original size:13 final size:12
Alignment explanation
Indices: 8967605--8967643 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8967595 AGTTAAATTT
8967605 GAAGGTTTAAGAG
1 GAAGGTTTAAG-G
* *
8967618 GAAGTTTTAATG
1 GAAGGTTTAAGG
8967630 GAAGGTTTAAGG
1 GAAGGTTTAAGG
8967642 GA
1 GA
8967644 GTTTTGGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (12 bp):
GAAGGTTTAAGG
Found at i:8968666 original size:24 final size:24
Alignment explanation
Indices: 8968629--8968674 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8968619 TCTTCGAGAC
* *
8968629 ATTTCTATGTGGCACTTCGGTGCA
1 ATTTCTACGCGGCACTTCGGTGCA
8968653 ATTTCTACGCGGCACTTCGGTG
1 ATTTCTACGCGGCACTTCGGTG
8968675 AAATCTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (24 bp):
ATTTCTACGCGGCACTTCGGTGCA
Found at i:8968685 original size:24 final size:24
Alignment explanation
Indices: 8968639--8968685 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8968629 ATTTCTATGT
* * *
8968639 GGCACTTCGGTGCAATTTCTACGC
1 GGCACTTCGGTGAAATCTATACGC
8968663 GGCACTTCGGTGAAATCTATACG
1 GGCACTTCGGTGAAATCTATACG
8968686 AGCTGTACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (24 bp):
GGCACTTCGGTGAAATCTATACGC
Found at i:8974665 original size:23 final size:23
Alignment explanation
Indices: 8974631--8974740 Score: 130
Period size: 23 Copynumber: 4.8 Consensus size: 23
8974621 GAGTCGAGTG
*
8974631 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* *
8974654 TTCTACATGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
* *
8974677 TTCTATGCGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* * *
8974700 TACTACGTGGTCATTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
* *
8974723 TTCTATGTGGTACTTCGG
1 TTCTACGTGGTCCTTCGG
8974741 TGCAATTTCT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:8974698 original size:46 final size:46
Alignment explanation
Indices: 8974631--8974740 Score: 166
Period size: 46 Copynumber: 2.4 Consensus size: 46
8974621 GAGTCGAGTG
* * *
8974631 TTCTACGCGGTCCTTCGGGACAATTCTACATGGTCCTTCGGGACAT
1 TTCTATGCGGTCCTTCGGGACAATACTACATGGTCATTCGGGACAT
*
8974677 TTCTATGCGGTCCTTCGGGACAATACTACGTGGTCATTCGGGACAT
1 TTCTATGCGGTCCTTCGGGACAATACTACATGGTCATTCGGGACAT
* *
8974723 TTCTATGTGGTACTTCGG
1 TTCTATGCGGTCCTTCGG
8974741 TGCAATTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (46 bp):
TTCTATGCGGTCCTTCGGGACAATACTACATGGTCATTCGGGACAT
Found at i:8977515 original size:29 final size:29
Alignment explanation
Indices: 8977478--8977580 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
8977468 ATCAACCATT
* * *
8977478 TTACGAAAATAGCATCATTTTCAAAATAA
1 TTACCAAAATATCACCATTTTCAAAATAA
8977507 TTACCAAAATATCACCATTTTCAAAATAA
1 TTACCAAAATATCACCATTTTCAAAATAA
*
8977536 TTACCAAAATATCACCATTTTTAAAATAA
1 TTACCAAAATATCACCATTTTCAAAATAA
* *
8977565 TAACTAAAATATCACC
1 TTACCAAAATATCACC
8977581 CGGTCAACGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (29 bp):
TTACCAAAATATCACCATTTTCAAAATAA
Found at i:8978336 original size:24 final size:24
Alignment explanation
Indices: 8978308--8978364 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
8978298 AATTAAATCA
8978308 TCAAATTTCAATTAAATATTATTT
1 TCAAATTTCAATTAAATATTATTT
*
8978332 TCAAATTTCAGTTAAATATTATTT
1 TCAAATTTCAATTAAATATTATTT
8978356 TCAAATTTC
1 TCAAATTTC
8978365 CAGGTTGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.49
Consensus pattern (24 bp):
TCAAATTTCAATTAAATATTATTT
Found at i:8984601 original size:29 final size:29
Alignment explanation
Indices: 8984564--8984719 Score: 119
Period size: 29 Copynumber: 5.6 Consensus size: 29
8984554 ATCAACCATT
* *
8984564 TTACGAAAATAGCATCATTTTCAAAATAA
1 TTACTAAAATAGCACCATTTTCAAAATAA
* **
8984593 TTACCAAAATATTACCATTTTCAAAATAA
1 TTACTAAAATAGCACCATTTTCAAAATAA
* * *
8984622 TTACTAAAATATCA-C-TTTTTAAACAAAA
1 TTACTAAAATAGCACCATTTTCAAA-ATAA
* * * *
8984650 TTA-TGAAATTATC-GC--TTT-AAAAAAA
1 TTACT-AAAATAGCACCATTTTCAAAATAA
*
8984675 TTACGAAAATAGCACCATTTTCAAAATAA
1 TTACTAAAATAGCACCATTTTCAAAATAA
*
8984704 TTACTAAAATATCACC
1 TTACTAAAATAGCACC
8984720 CGGTCAACGG
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
25 13 0.13
26 4 0.04
27 11 0.11
28 18 0.17
29 57 0.55
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (29 bp):
TTACTAAAATAGCACCATTTTCAAAATAA
Found at i:8984777 original size:18 final size:18
Alignment explanation
Indices: 8984721--8984777 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
8984711 AATATCACCC
8984721 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
8984739 AGTCAACGGGTCGGGTAG
1 GGTCAACGGGTCGGGTCG
8984757 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
8984775 GGT
1 GGT
8984778 TGGAACCGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.14, C:0.19, G:0.49, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:8995517 original size:18 final size:18
Alignment explanation
Indices: 8995484--8995518 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8995474 CCGCGAAGAA
**
8995484 ATGTCCCGAATTACCACT
1 ATGTCCCGAAGGACCACT
8995502 ATGTCCCGAAGGACCAC
1 ATGTCCCGAAGGACCAC
8995519 ATATCACATA
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:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:8995856 original size:14 final size:14
Alignment explanation
Indices: 8995837--8995877 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
8995827 TAATGGGAAT
8995837 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
8995851 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
*
8995865 GAATCCCTGCAAA
1 TAATCCCTGCAAA
8995878 GTACCACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:8996427 original size:17 final size:18
Alignment explanation
Indices: 8996402--8996444 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
8996392 CACTTCTATT
*
8996402 ATTTCATTTATATAC-TA
1 ATTTAATTTATATACTTA
*
8996419 ATTTAATTTATTTACTTA
1 ATTTAATTTATATACTTA
*
8996437 ATTCAATT
1 ATTTAATT
8996445 GCATGTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTAATTTATATACTTA
Found at i:8997487 original size:45 final size:45
Alignment explanation
Indices: 8997423--8997522 Score: 200
Period size: 45 Copynumber: 2.2 Consensus size: 45
8997413 ACACTGCCTA
8997423 GGTATCGATATCCAAATTACATTCGAAAACTTTTCATTTCAAGGG
1 GGTATCGATATCCAAATTACATTCGAAAACTTTTCATTTCAAGGG
8997468 GGTATCGATATCCAAATTACATTCGAAAACTTTTCATTTCAAGGG
1 GGTATCGATATCCAAATTACATTCGAAAACTTTTCATTTCAAGGG
8997513 GGTATCGATA
1 GGTATCGATA
8997523 CTATCCTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (45 bp):
GGTATCGATATCCAAATTACATTCGAAAACTTTTCATTTCAAGGG
Found at i:9001443 original size:21 final size:21
Alignment explanation
Indices: 9001417--9001465 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
9001407 CAATGTACAT
*
9001417 CGATGCGCATTCATTGTGCAC
1 CGATGCACATTCATTGTGCAC
9001438 CGATGCACATTCATTGTGCAC
1 CGATGCACATTCATTGTGCAC
9001459 CGATGCA
1 CGATGCA
9001466 TCGATGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (21 bp):
CGATGCACATTCATTGTGCAC
Found at i:9001569 original size:64 final size:63
Alignment explanation
Indices: 9001496--9001635 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
9001486 TTATTTAAGG
* *
9001496 TGCATCGATGCACATGCAGTGCATCGACACAT-TAATTTAAAAATA-AAACATCGAATAGGATTT
1 TGCATCGATGCACAAGCAGTGCATCGACACATCCAA-TT--AAATACAAACATCGAATAGGATTT
9001559 A
63 A
* * ** *
9001560 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCACAAGCAGTGCATCGACACAT-CCAATTAAATACAAACATCGAATAGGATTTA
9001624 TGCATCGATGCA
1 TGCATCGATGCA
9001636 TGGTGTAGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
63 5 0.08
64 58 0.88
65 2 0.03
66 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCACAAGCAGTGCATCGACACATCCAATTAAATACAAACATCGAATAGGATTTA
Found at i:9001636 original size:64 final size:64
Alignment explanation
Indices: 9001536--9001656 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
9001526 ATTAATTTAA
9001536 AAATAAAACATCGAATAGGATTTATGCATCGATGCATAAG-G-AGTGCATCGATGCATCCCCATT
1 AAATAAAACATCGAATAGGATTTATGCATCGATGCAT-AGTGTAGTGCATCGATGCATCCCCATT
*
9001599 AAATACAAACATCGAATAGGATTTATGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 AAATA-AAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCAT
9001657 ACCTCTATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
63 6 0.11
64 33 0.61
65 15 0.28
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (64 bp):
AAATAAAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCATCCCCATT
Found at i:9002296 original size:103 final size:103
Alignment explanation
Indices: 9002117--9002334 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
9002107 GTAGAGGGTC
* * *
9002117 TATGTTGTCTTTCGGGACATATATGTATTCTTTGGAACATATGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCCTTGGAACATATGTGAGGTCTGGTGAGACACATAC
9002182 TTAATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTAATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
9002220 TATGTGGTCCTTCGGGACATATATGTATTCCTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCCTTGGAACATATGTGAGGTCTGGTGAGACACATAC
*
9002285 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTAATCCTTGGCATATGTATATGATTCTTAAGGAATGA
9002323 TATGTGGTCCTT
1 TATGTGGTCCTT
9002335 ATAGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCCTTGGAACATATGTGAGGTCTGGTGAGACACATAC
TTAATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:9002408 original size:23 final size:23
Alignment explanation
Indices: 9002359--9002413 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
9002349 ATGGTACTAC
*
9002359 GGTGCAATTCTACGCGAAACTCC
1 GGTGCAATTCTACGCGAAACTCA
* ** *
9002382 GGTGCAATTCTACGTGGCACTTA
1 GGTGCAATTCTACGCGAAACTCA
9002405 GGTGCAATT
1 GGTGCAATT
9002414 ATATGAGCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (23 bp):
GGTGCAATTCTACGCGAAACTCA
Found at i:9008549 original size:45 final size:44
Alignment explanation
Indices: 9008499--9008602 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 44
9008489 TGCACATGCA
*
9008499 ATGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTT
1 ATGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTT
* * * *
9008544 ATGCATCGATGCATCCCCATTAAATACAAATATCGAATAGGATTT
1 ATGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTT
9008589 ATGCATCGATGCAT
1 ATGCATCGATGCAT
9008603 GGTGTAGTGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 45 0.87
46 6 0.12
47 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (44 bp):
ATGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTT
Found at i:9009262 original size:103 final size:103
Alignment explanation
Indices: 9009083--9009308 Score: 391
Period size: 103 Copynumber: 2.2 Consensus size: 103
9009073 GTAGAGGGTC
*
9009083 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTAAGGCACACAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTAAGACACACAC
9009148 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * *
9009186 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTAAGACACACAC
*
9009251 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATTA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
9009289 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
9009309 TATTATATGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
103 116 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTAAGACACACAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:9009350 original size:23 final size:23
Alignment explanation
Indices: 9009317--9009379 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
9009307 ATTATTATAT
*
9009317 GGCACTACGGTGCAATTCTGCGC
1 GGCACTACGGTGCAATTCTACGC
* *
9009340 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
9009363 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
9009380 ATATGAGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:9010837 original size:2 final size:2
Alignment explanation
Indices: 9010830--9010863 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
9010820 ACCTATAGTC
9010830 AT AT AT AT AT AT AT AT AT AT CAT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
9010864 ATAACTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9010868 original size:47 final size:47
Alignment explanation
Indices: 9010796--9010885 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 47
9010786 CTTATCCTGG
9010796 TATAGATCATATATCATTCATATAACCTATAGTCATAT-ATATATATA
1 TATAGATCATATATCATTCATATAACCTATAG-CATATCATATATATA
* *
9010843 TATATATCATATAT-ATAT-ATAATAACTTATAGCATATCATATA
1 TATAGATCATATATCAT-TCAT-ATAACCTATAGCATATCATATA
9010886 GCGTATGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
46 9 0.24
47 29 0.76
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (47 bp):
TATAGATCATATATCATTCATATAACCTATAGCATATCATATATATA
Found at i:9010952 original size:2 final size:2
Alignment explanation
Indices: 9010945--9010979 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
9010935 TACTTATAAG
*
9010945 TA TA TA TA TA TA TA TA TA TA TCA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
9010980 ATAACTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9010952 original size:116 final size:116
Alignment explanation
Indices: 9010830--9011067 Score: 458
Period size: 116 Copynumber: 2.1 Consensus size: 116
9010820 ACCTATAGTC
9010830 ATATATATATATATATATATCATATATATATATAATAACTTATAGCATATCATATAGCGTATGCT
1 ATATATATATATATATATATCATATATATATATAATAACTTATAGCATATCATATAGCGTATGCT
*
9010895 TCATTCTCTTATATTCACCTAGATCACATAACCTATTTTATACTTATAAGT
66 TCATTCTCTTATATTCACCTAGATCACATAACCTATTTCATACTTATAAGT
*
9010946 ATATATATATATATATATATCATATATGTATATAATAACTTATAGCATATCATATAGCGTATGCT
1 ATATATATATATATATATATCATATATATATATAATAACTTATAGCATATCATATAGCGTATGCT
9011011 TCATTCTCTTATATTCACCTAGATCACATAACCTATTTCATACTTATAAGT
66 TCATTCTCTTATATTCACCTAGATCACATAACCTATTTCATACTTATAAGT
9011062 ATATAT
1 ATATAT
9011068 CACTTCTATT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 120 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (116 bp):
ATATATATATATATATATATCATATATATATATAATAACTTATAGCATATCATATAGCGTATGCT
TCATTCTCTTATATTCACCTAGATCACATAACCTATTTCATACTTATAAGT
Found at i:9016065 original size:21 final size:21
Alignment explanation
Indices: 9016039--9016094 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
9016029 TTCTGGGCAA
* *
9016039 TGTGCATCGATGCGCATTCAT
1 TGTGCACCGATGCACATTCAT
9016060 TGTGCACCGATGCACATTCAT
1 TGTGCACCGATGCACATTCAT
9016081 TGTGCACCGATGCA
1 TGTGCACCGATGCA
9016095 TCGATGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (21 bp):
TGTGCACCGATGCACATTCAT
Found at i:9016210 original size:64 final size:63
Alignment explanation
Indices: 9016125--9016285 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
9016115 TTGTTTAAGG
* * * *
9016125 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTA
* * *
9016189 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTA
*
9016253 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
9016286 ACCTCTATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.73
65 21 0.25
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:9016971 original size:103 final size:103
Alignment explanation
Indices: 9016746--9016960 Score: 403
Period size: 103 Copynumber: 2.1 Consensus size: 103
9016736 GTAGAGGGTC
9016746 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATATGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATATGTGAGGTCTGGTGAGACACATAC
*
9016811 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
* *
9016849 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATATGTGAGGTCTGGTGAGACACATAC
9016914 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
9016952 TATGTGGTC
1 TATGTGGTC
9016961 TTTATGGACA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATATGTGAGGTCTGGTGAGACACATAC
TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:9023936 original size:103 final size:103
Alignment explanation
Indices: 9023715--9023928 Score: 401
Period size: 103 Copynumber: 2.1 Consensus size: 103
9023705 AGGGTCTATT
* *
9023715 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGGCATACACTTGA
1 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACACACTTGA
9023780 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATG
66 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATG
*
9023818 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACACACTTGA
9023883 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATG
66 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATG
9023921 TGGTCCTT
1 TGGTCCTT
9023929 ATGGACATTA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (103 bp):
TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACACACTTGA
TCCTTGGCATATGTATATGATTCTTAAGGAATGATATG
Found at i:9023978 original size:23 final size:23
Alignment explanation
Indices: 9023945--9024007 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
9023935 ATTATTATAT
9023945 GGCACTACGGTGCAATTCTACAC
1 GGCACTACGGTGCAATTCTACAC
* **
9023968 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACAC
9023991 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
9024008 ATATGAGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACAC
Found at i:9025468 original size:2 final size:2
Alignment explanation
Indices: 9025461--9025526 Score: 114
Period size: 2 Copynumber: 32.5 Consensus size: 2
9025451 ACCTATAGTC
9025461 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
*
9025503 AT AT AT AT AT CAT AT AT GT AT AT A
1 AT AT AT AT AT -AT AT AT AT AT AT A
9025527 ATAACTTATA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 59 0.97
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9025650 original size:17 final size:18
Alignment explanation
Indices: 9025625--9025667 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9025615 CACTTCTATT
*
9025625 ATTTCATTTATATAC-TA
1 ATTTAATTTATATACTTA
*
9025642 ATTTAATTTATTTACTTA
1 ATTTAATTTATATACTTA
*
9025660 ATTCAATT
1 ATTTAATT
9025668 GCATATAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTAATTTATATACTTA
Found at i:9032753 original size:29 final size:29
Alignment explanation
Indices: 9032718--9032799 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
9032708 AAACTAAATT
*
9032718 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
9032747 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
9032776 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
9032800 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:9034105 original size:15 final size:15
Alignment explanation
Indices: 9034082--9034111 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9034072 ACGAGGCTGG
9034082 AATTACAACAATAAC
1 AATTACAACAATAAC
*
9034097 AATTCCAACAATAAC
1 AATTACAACAATAAC
9034112 TATGAGAAAG
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:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTACAACAATAAC
Found at i:9037518 original size:29 final size:29
Alignment explanation
Indices: 9037483--9037564 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
9037473 AAACTAAATT
*
9037483 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
9037512 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
9037541 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
9037565 GTTAGGTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:9044034 original size:95 final size:95
Alignment explanation
Indices: 9043897--9044089 Score: 280
Period size: 95 Copynumber: 2.0 Consensus size: 95
9043887 GGGTCCCCAA
* ** * *
9043897 AGTGTAGAGGCGATGTACAACCCCAACCCCTGATAGACAGGAACCTAAATATTGCTGTCGATACA
1 AGTGTAGACGCGATGTACAACCCCAACCCCCCATAGACAGGAACCTAAATATTGATGCCGATACA
*
9043962 CCGGAAA-AAGCTATCACGCAACTCTTGGAG
66 CCGGAAAGAA-CCATCACGCAACTCTTGGAG
* * *
9043992 AGTGTAGACGCGATGTACCACCCCAACCCCCCATAGATAGGAACCTAACTATTGATGCCGATACA
1 AGTGTAGACGCGATGTACAACCCCAACCCCCCATAGACAGGAACCTAAATATTGATGCCGATACA
*
9044057 CCGGAAAGAACCCTCACGCAACTCTTGGAG
66 CCGGAAAGAACCATCACGCAACTCTTGGAG
9044087 AGT
1 AGT
9044090 AGTGAAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 85 0.98
96 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (95 bp):
AGTGTAGACGCGATGTACAACCCCAACCCCCCATAGACAGGAACCTAAATATTGATGCCGATACA
CCGGAAAGAACCATCACGCAACTCTTGGAG
Found at i:9044214 original size:2 final size:2
Alignment explanation
Indices: 9044207--9044257 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
9044197 TAATATTCTA
9044207 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
9044249 AT AT AT AT A
1 AT AT AT AT A
9044258 ATAAAATTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9045596 original size:15 final size:15
Alignment explanation
Indices: 9045576--9045611 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
9045566 CACGATGGGA
9045576 CCTGCTGGGAGAGTC
1 CCTGCTGGGAGAGTC
9045591 CCTGCTGGGAGAGTC
1 CCTGCTGGGAGAGTC
9045606 CCTGCT
1 CCTGCT
9045612 TCGGTGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.31, G:0.36, T:0.22
Consensus pattern (15 bp):
CCTGCTGGGAGAGTC
Found at i:9052746 original size:30 final size:30
Alignment explanation
Indices: 9052710--9052769 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9052700 CAACCACCTT
*
9052710 TTGTTTACTCTCTATGCTCAATCTTGATGG
1 TTGTTTACTCTCTATGCTCAAACTTGATGG
9052740 TTGTTTACTCTCTATGCTCAAACTTGATGG
1 TTGTTTACTCTCTATGCTCAAACTTGATGG
9052770 CTCTTCATCC
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:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (30 bp):
TTGTTTACTCTCTATGCTCAAACTTGATGG
Found at i:9054045 original size:25 final size:24
Alignment explanation
Indices: 9054011--9054079 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 24
9054001 TACAAGCTTT
9054011 CTTTCTTGCAATTAAAGTTAGTAGG
1 CTTTCTTGCAA-TAAAGTTAGTAGG
9054036 CTTTCTTGCAACTAAAGTTAGTAGG
1 CTTTCTTGCAA-TAAAGTTAGTAGG
9054061 CTTTCTTGCACATAAAGTT
1 CTTTCTTGCA-ATAAAGTT
9054080 TTTAATTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (24 bp):
CTTTCTTGCAATAAAGTTAGTAGG
Found at i:9071826 original size:25 final size:27
Alignment explanation
Indices: 9071772--9071826 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
9071762 ATAAATATAA
*
9071772 TAATAATAATATATAAAAAGTTTGATT
1 TAATAATAATATATAAAAAGTTTGAGT
9071799 TAATAA-AATAT-TAATAAA-TTTGAGT
1 TAATAATAATATATAA-AAAGTTTGAGT
9071824 TAA
1 TAA
9071827 CCTTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 12 0.46
26 8 0.31
27 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (27 bp):
TAATAATAATATATAAAAAGTTTGAGT
Found at i:9081327 original size:20 final size:20
Alignment explanation
Indices: 9081298--9081349 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
9081288 ATATGGTTGA
* *
9081298 TTTGTTTAAATTCTTATTGT
1 TTTGTCTAAATTCTTATTAT
9081318 TTTGTCTAAATTCTTATTAT
1 TTTGTCTAAATTCTTATTAT
9081338 TTTGTCTAAATT
1 TTTGTCTAAATT
9081350 ATTTAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTGTCTAAATTCTTATTAT
Found at i:9084434 original size:23 final size:23
Alignment explanation
Indices: 9084397--9084448 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
9084387 GTCGAGGGTT
* *
9084397 CTATGTGGTCTTTCGGGACAAAA
1 CTATGTAGTCCTTCGGGACAAAA
9084420 CTATGTAGTCCTTCGGGACAAAA
1 CTATGTAGTCCTTCGGGACAAAA
9084443 CTATGT
1 CTATGT
9084449 GGTCATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (23 bp):
CTATGTAGTCCTTCGGGACAAAA
Found at i:9084461 original size:23 final size:22
Alignment explanation
Indices: 9084397--9084471 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
9084387 GTCGAGGGTT
9084397 CTATGTGGTCTTTCGGGACAAAA
1 CTATGTGGTCTTT-GGGACAAAA
* *
9084420 CTATGTAGTCCTTCGGGACAAAA
1 CTATGTGGT-CTTTGGGACAAAA
*
9084443 CTATGTGGTCATTTAGGAC-AAA
1 CTATGTGGTC-TTTGGGACAAAA
9084465 -TATGTGG
1 CTATGTGG
9084472 CACTTCGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 7 0.16
22 4 0.09
23 31 0.69
24 3 0.07
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (22 bp):
CTATGTGGTCTTTGGGACAAAA
Found at i:9085840 original size:30 final size:29
Alignment explanation
Indices: 9085805--9085864 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
9085795 ATAGTATATT
9085805 ATATGTGACATG-ATATACATGCTTACATGA
1 ATATGTGACATGTAT-TACATG-TTACATGA
* *
9085835 ATATGTGATATGTATTACATGTTATATGA
1 ATATGTGACATGTATTACATGTTACATGA
9085864 A
1 A
9085865 ATGACATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 17 0.63
31 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (29 bp):
ATATGTGACATGTATTACATGTTACATGA
Found at i:9085919 original size:22 final size:23
Alignment explanation
Indices: 9085894--9085936 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9085884 ATACATGTGG
*
9085894 TATGTGA-CAGAAGAAAAATGTA
1 TATGTGATCACAAGAAAAATGTA
*
9085916 TATGTGATCACAAGAGAAATG
1 TATGTGATCACAAGAAAAATG
9085937 ACATGAGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (23 bp):
TATGTGATCACAAGAAAAATGTA
Found at i:9086065 original size:22 final size:22
Alignment explanation
Indices: 9086037--9086097 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
9086027 GGGTCTACGC
*
9086037 GGTCCTTCGGGACATATACAGA
1 GGTCCTTCGGGACAAATACAGA
*
9086059 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACAGA
* *
9086081 GGTCATTCGGGAAAAAT
1 GGTCCTTCGGGACAAAT
9086098 TTCACATGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACAGA
Found at i:9086314 original size:19 final size:21
Alignment explanation
Indices: 9086268--9086314 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
9086258 CATGGAATCA
9086268 TATATGACATGATTGAATAAG
1 TATATGACATGATTGAATAAG
* * *
9086289 TAGATGATATG-TT-AATATG
1 TATATGACATGATTGAATAAG
9086308 TATATGA
1 TATATGA
9086315 AATGCATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (21 bp):
TATATGACATGATTGAATAAG
Found at i:9088793 original size:11 final size:11
Alignment explanation
Indices: 9088766--9088803 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9088756 TATAAACTAA
9088766 AATATTTTA-AT
1 AATA-TTTAGAT
*
9088777 ATTATTTAGAT
1 AATATTTAGAT
9088788 AATATTTAGAT
1 AATATTTAGAT
9088799 AATAT
1 AATAT
9088804 CAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (11 bp):
AATATTTAGAT
Found at i:9088903 original size:19 final size:19
Alignment explanation
Indices: 9088876--9088918 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
9088866 ATTTAAATAC
9088876 TAAAATATTTAGATAAATT
1 TAAAATATTTAGATAAATT
*
9088895 TAAATTATTTAGATAAATT
1 TAAAATATTTAGATAAATT
9088914 TAAAA
1 TAAAA
9088919 GTCAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAAATATTTAGATAAATT
Found at i:9088936 original size:18 final size:19
Alignment explanation
Indices: 9088913--9088950 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
9088903 TTAGATAAAT
*
9088913 TTAAAAGTCAAAA-AATAA
1 TTAAAACTCAAAATAATAA
*
9088931 TTAAAACTTAAAATAATAA
1 TTAAAACTCAAAATAATAA
9088950 T
1 T
9088951 AAATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (19 bp):
TTAAAACTCAAAATAATAA
Found at i:9089752 original size:27 final size:27
Alignment explanation
Indices: 9089694--9089753 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
9089684 TCAGATTAAG
*
9089694 AATTAATTTAATACATATTAAAATTAT
1 AATTAATTTAATAAATATTAAAATTAT
* *
9089721 TATTAATTTATATAAATATTAAATTTA-
1 AATTAATTTA-ATAAATATTAAAATTAT
9089748 AATTAA
1 AATTAA
9089754 ATAATTTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
AATTAATTTAATAAATATTAAAATTAT
Found at i:9089994 original size:25 final size:25
Alignment explanation
Indices: 9089927--9089994 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
9089917 AAATAATTAT
9089927 AAAATATAATTGTATATTTAAATTTTA
1 AAAATATAATTG-ATA-TTAAATTTTA
* **
9089954 ATAAT-TCAATAAATATTAAATTTTA
1 AAAATAT-AATTGATATTAAATTTTA
9089979 AAAATATAATTGATAT
1 AAAATATAATTGATAT
9089995 AATTGTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
25 21 0.64
26 5 0.15
27 7 0.21
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (25 bp):
AAAATATAATTGATATTAAATTTTA
Found at i:9090270 original size:10 final size:10
Alignment explanation
Indices: 9090255--9090281 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9090245 TAAAAATTTA
9090255 AAAATTAAAC
1 AAAATTAAAC
9090265 AAAATTAAAC
1 AAAATTAAAC
9090275 AAAATTA
1 AAAATTA
9090282 GTTAACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAATTAAAC
Found at i:9091350 original size:19 final size:19
Alignment explanation
Indices: 9091317--9091363 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9091307 TAATTAGGCG
9091317 AAATTATAAATAAATAAAT
1 AAATTATAAATAAATAAAT
9091336 AAATT-TAAATAAAATAAA-
1 AAATTATAAAT-AAATAAAT
9091354 ATAATTATAA
1 A-AATTATAA
9091364 TAATATAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.24
19 16 0.64
20 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTATAAATAAATAAAT
Found at i:9092397 original size:21 final size:21
Alignment explanation
Indices: 9092373--9092561 Score: 152
Period size: 21 Copynumber: 9.1 Consensus size: 21
9092363 GCAAATTCGC
*
9092373 GTTGCATTTCGCGTTGCGATA
1 GTTGCAATTCGCGTTGCGATA
* *
9092394 GTTGAAAATCGCGTTGCGAT-
1 GTTGCAATTCGCGTTGCGATA
* * * *
9092414 TTTCCATTTCGTGTTGCGAT-
1 GTTGCAATTCGCGTTGCGATA
* * *
9092434 TTTCCATTTCGCGTTGCGATA
1 GTTGCAATTCGCGTTGCGATA
* *
9092455 GTTGAAAATCGCGTTGCGATA
1 GTTGCAATTCGCGTTGCGATA
* *
9092476 GTTGAAAATCGCGTTGCGAT-
1 GTTGCAATTCGCGTTGCGATA
* * *
9092496 TTTCCATTTCGCGTTGCGATA
1 GTTGCAATTCGCGTTGCGATA
*
9092517 GTTGAAATTCGCGTTGCGATA
1 GTTGCAATTCGCGTTGCGATA
* *
9092538 GTCTACAGTT-GTCGTTGCGATA
1 GT-TGCAATTCG-CGTTGCGATA
9092560 GT
1 GT
9092562 CTACAGTTGT
Statistics
Matches: 137, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
20 48 0.35
21 73 0.53
22 16 0.12
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (21 bp):
GTTGCAATTCGCGTTGCGATA
Found at i:9092422 original size:41 final size:41
Alignment explanation
Indices: 9092377--9092536 Score: 196
Period size: 41 Copynumber: 3.9 Consensus size: 41
9092367 ATTCGCGTTG
9092377 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * ** ** * *
9092418 CATTTCGTGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTC
* **
9092459 AAAATCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
9092500 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
9092537 AGTCTACAGT
Statistics
Matches: 94, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
40 15 0.16
41 64 0.68
42 15 0.16
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:9092431 original size:20 final size:20
Alignment explanation
Indices: 9092402--9092515 Score: 111
Period size: 20 Copynumber: 5.6 Consensus size: 20
9092392 TAGTTGAAAA
9092402 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
9092422 TCGTGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
9092442 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
* ** **
9092463 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
9092484 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
9092504 TCGCGTTGCGAT
1 TCGCGTTGCGAT
9092516 AGTTGAAATT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
20 45 0.56
21 36 0.44
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:9092476 original size:82 final size:83
Alignment explanation
Indices: 9092381--9092539 Score: 266
Period size: 82 Copynumber: 1.9 Consensus size: 83
9092371 GCGTTGCATT
* * * *
9092381 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGTGTTGCGAT-TTTCCATTTCG
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAATTCG
9092445 CGTTGCGATAGTTGAAAA
66 CGTTGCGATAGTTGAAAA
*
9092463 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAATTCG
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAATTCG
9092528 CGTTGCGATAGT
66 CGTTGCGATAGT
9092540 CTACAGTTGT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
82 52 0.73
83 19 0.27
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.36
Consensus pattern (83 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAATTCG
CGTTGCGATAGTTGAAAA
Found at i:9092523 original size:62 final size:62
Alignment explanation
Indices: 9092377--9092539 Score: 256
Period size: 62 Copynumber: 2.6 Consensus size: 62
9092367 ATTCGCGTTG
* * ** *
9092377 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCGTGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTC
*
9092438 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTC
*
9092500 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGT
9092540 CTACAGTTGT
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 37 0.39
62 57 0.61
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (62 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTC
Found at i:9092556 original size:22 final size:22
Alignment explanation
Indices: 9092528--9092580 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
9092518 TTGAAATTCG
9092528 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
9092550 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
9092572 CGTTGCGAT
1 CGTTGCGAT
9092581 TTTCCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:9092697 original size:12 final size:11
Alignment explanation
Indices: 9092680--9092715 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
9092670 GACACGTATT
9092680 ACCACGACCACG
1 ACCACGACC-CG
9092692 ACCACGACCCG
1 ACCACGACCCG
9092703 ACC-CGACCCG
1 ACCACGACCCG
9092713 ACC
1 ACC
9092716 CGAGACGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.28, C:0.56, G:0.17, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:9092706 original size:5 final size:5
Alignment explanation
Indices: 9092684--9092718 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
9092674 CGTATTACCA
9092684 CGACC ACGACC ACGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
9092719 GACGAGACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.26, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:9093226 original size:6 final size:6
Alignment explanation
Indices: 9093215--9093269 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
9093205 TCGTCTCGTC
9093215 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
9093263 TCGTGG T
1 TCGTGG T
9093270 AATACGTGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:9093397 original size:21 final size:21
Alignment explanation
Indices: 9093371--9093507 Score: 98
Period size: 21 Copynumber: 6.3 Consensus size: 21
9093361 TTGTAGACTG
9093371 TCGCAACGCGATTTTCAACTA
1 TCGCAACGCGATTTTCAACTA
* *
9093392 TCGCAACGCGAATTTGCGATAGTGGAGA
1 TCGCAACGCG-ATTTTC-A-ACT----A
***
9093420 TCGCGTTGCGA-TTTCAACTA
1 TCGCAACGCGATTTTCAACTA
9093440 TCGCAACGCGATTTTCAACTA
1 TCGCAACGCGATTTTCAACTA
** ** *
9093461 TCGCAACGCGAAATGGAA-AA
1 TCGCAACGCGATTTTCAACTA
*
9093481 ACGCAACGCGATTTTCAACTA
1 TCGCAACGCGATTTTCAACTA
9093502 TCGCAA
1 TCGCAA
9093508 TACGAAATGC
Statistics
Matches: 85, Mismatches: 22, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
20 23 0.27
21 39 0.46
22 5 0.06
23 1 0.01
24 4 0.05
25 1 0.01
26 3 0.04
27 1 0.01
28 8 0.09
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (21 bp):
TCGCAACGCGATTTTCAACTA
Found at i:9094093 original size:18 final size:18
Alignment explanation
Indices: 9094053--9094093 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9094043 TATTTCTTTC
*
9094053 CTTCTTCTTCCTTTCTTT
1 CTTCTTCTTCCTTTCGTT
*
9094071 TTTCTTCTTCCTTTCGTT
1 CTTCTTCTTCCTTTCGTT
9094089 CTTCT
1 CTTCT
9094094 CCTCTTCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (18 bp):
CTTCTTCTTCCTTTCGTT
Found at i:9096167 original size:55 final size:56
Alignment explanation
Indices: 9096094--9096201 Score: 200
Period size: 55 Copynumber: 1.9 Consensus size: 56
9096084 TTATATGTAA
9096094 TATAAAAATAAAATAGTTCAACTTCCC-AAAAACTCTAATTAAAATATATTATTAG
1 TATAAAAATAAAATAGTTCAACTTCCCAAAAAACTCTAATTAAAATATATTATTAG
9096149 TATAAAAATAAAATAGTTCAACTTCCCAAAAAAACTCTAATTAAAATATATTA
1 TATAAAAATAAAATAGTTCAACTTCCC-AAAAAACTCTAATTAAAATATATTA
9096202 AAATTTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 27 0.53
57 24 0.47
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (56 bp):
TATAAAAATAAAATAGTTCAACTTCCCAAAAAACTCTAATTAAAATATATTATTAG
Found at i:9096259 original size:128 final size:126
Alignment explanation
Indices: 9096002--9096250 Score: 423
Period size: 128 Copynumber: 2.0 Consensus size: 126
9095992 AGGGCCCAAA
9096002 AATTAAAATATATTATTAGTATAAAAATAAAATAGTTCAACTTCCCAAAAAAACTCTAATTAAAA
1 AATTAAAATATATTATTAGTATAAAAATAAAATAGTTCAACTTCCCAAAAAAACTCTAATTAAAA
*
9096067 TTTTATATTACATATTTTTATATGTAATATAAAAATAAAATAGTTCAACTTCCCAAAAACTCT
66 --TTATATTACAAATTTTTATATGTAATATAAAAATAAAATAGTTCAACTTCCCAAAAACTCT
9096130 AATTAAAATATATTATTAGTATAAAAATAAAATAGTTCAACTTCCCAAAAAAACTCTAATTAAAA
1 AATTAAAATATATTATTAGTATAAAAATAAAATAGTTCAACTTCCCAAAAAAACTCTAATTAAAA
*
9096195 -TATATTA-AAATTTTATATTAT-TAGTATAAAAATAAAATAGTTCAACTTCCCAAAAA
66 TTATATTACAAATTTT-TA-TATGTAATATAAAAATAAAATAGTTCAACTTCCCAAAAA
9096251 AAACTCTAAA
Statistics
Matches: 117, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
124 6 0.05
125 43 0.37
126 3 0.03
128 65 0.56
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (126 bp):
AATTAAAATATATTATTAGTATAAAAATAAAATAGTTCAACTTCCCAAAAAAACTCTAATTAAAA
TTATATTACAAATTTTTATATGTAATATAAAAATAAAATAGTTCAACTTCCCAAAAACTCT
Found at i:9096903 original size:2 final size:2
Alignment explanation
Indices: 9096896--9096947 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
9096886 TCTCCTCAAT
9096896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9096938 TA TA TA TA TA
1 TA TA TA TA TA
9096948 AGGTTTTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9097445 original size:2 final size:2
Alignment explanation
Indices: 9097438--9097469 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9097428 TTGAAATCTA
9097438 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
9097470 TTAATTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9098630 original size:61 final size:60
Alignment explanation
Indices: 9098516--9098639 Score: 142
Period size: 61 Copynumber: 2.0 Consensus size: 60
9098506 TCAAACTAAA
* * * * * *
9098516 ACTTTCATTGTAAATTAATCTTTAAACTTTTGAATATTTTAAATTTCATCCTAAAACTATG
1 ACTTTCATTCTAAATTAATCCTTAAACTTATGAACATTCTAAATTTCATCCT-AAACTAGG
* * *
9098577 ACTTTTATTCTAAATTAATCCTTAAGCTTATGAGCATTCT-AATTTCATCCCTAAACTAGG
1 ACTTTCATTCTAAATTAATCCTTAAACTTATGAACATTCTAAATTTCAT-CCTAAACTAGG
9098637 ACT
1 ACT
9098640 CTCTTTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
60 18 0.34
61 35 0.66
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (60 bp):
ACTTTCATTCTAAATTAATCCTTAAACTTATGAACATTCTAAATTTCATCCTAAACTAGG
Found at i:9098920 original size:60 final size:60
Alignment explanation
Indices: 9098808--9098980 Score: 147
Period size: 60 Copynumber: 2.9 Consensus size: 60
9098798 GTATATACTT
* * *
9098808 ATAGTATGGGGTGAATTTGGAATATTCAAAATGTTTAGGGACCAATTAAAAATGA-AGGTC
1 ATAGTTTGGGGTGAAATTGAAATATTCAAAATGTTTAGGGACCAATTAAAAATGATA-GTC
* * * *
9098868 ATAGTTTGGGGATGAAATTGAAATGTTCAAAA-GTTT-GTTGACTAATTTAAAATGATAGTC
1 ATAGTTTGGGG-TGAAATTGAAATATTCAAAATGTTTAG-GGACCAATTAAAAATGATAGTC
* ** * * * * *
9098928 ATAGTTTAAGAATAAAATTGTAATATT-TAAATGTTTAAGGACCAATTTAAAAT
1 ATAGTTT-GGGGTGAAATTGAAATATTCAAAATGTTTAGGGACCAATTAAAAAT
9098981 AAAGATCATA
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
59 4 0.04
60 67 0.74
61 19 0.21
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (60 bp):
ATAGTTTGGGGTGAAATTGAAATATTCAAAATGTTTAGGGACCAATTAAAAATGATAGTC
Found at i:9100357 original size:42 final size:42
Alignment explanation
Indices: 9100298--9100383 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
9100288 ACCCCGACAT
9100298 AATGAAGAAAGCTCAAGAAGAGGTAAGAACAGTAGTGGGTAG
1 AATGAAGAAAGCTCAAGAAGAGGTAAGAACAGTAGTGGGTAG
*
9100340 AATGAAGAAAGCTCAAGAAGAGGTAAGAACAGTGGTGGGTAG
1 AATGAAGAAAGCTCAAGAAGAGGTAAGAACAGTAGTGGGTAG
9100382 AA
1 AA
9100384 AACCAAGTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.34, T:0.14
Consensus pattern (42 bp):
AATGAAGAAAGCTCAAGAAGAGGTAAGAACAGTAGTGGGTAG
Found at i:9101893 original size:31 final size:31
Alignment explanation
Indices: 9101857--9101920 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
9101847 AATAAATATC
9101857 TTGTTAATCATAATTATATTAGACATTCATG
1 TTGTTAATCATAATTATATTAGACATTCATG
9101888 TTGTTAATCATAATTATATTAGACATTCATG
1 TTGTTAATCATAATTATATTAGACATTCATG
9101919 TT
1 TT
9101921 TAAATCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (31 bp):
TTGTTAATCATAATTATATTAGACATTCATG
Found at i:9107230 original size:22 final size:22
Alignment explanation
Indices: 9107214--9107292 Score: 92
Period size: 22 Copynumber: 3.6 Consensus size: 22
9107204 TTATTTCCTT
*
9107214 TTATTTTAATCATTATTTATT-
1 TTATTTTAATTATTATTTATTA
*
9107235 TTATTATT-ATTATTATTTTTTA
1 TTATT-TTAATTATTATTTATTA
*
9107257 TTGTTTTAATTATTATTTCATTA
1 TTATTTTAATTATTATTT-ATTA
9107280 TTATTTT-ATTATT
1 TTATTTTAATTATT
9107293 TATAAAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
21 18 0.37
22 22 0.45
23 9 0.18
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTTTAATTATTATTTATTA
Found at i:9107243 original size:3 final size:3
Alignment explanation
Indices: 9107225--9107292 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
9107215 TATTTTAATC
*
9107225 ATT ATTT ATT -TT ATT ATT ATT ATT ATT -TT -TT ATT GTT -TT AATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
*
9107268 ATT ATT -TC ATT ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
9107293 TATAAAAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
2 11 0.20
3 39 0.71
4 5 0.09
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:9107244 original size:11 final size:11
Alignment explanation
Indices: 9107214--9107292 Score: 83
Period size: 11 Copynumber: 7.2 Consensus size: 11
9107204 TTATTTCCTT
*
9107214 TTATTTTAATCA
1 TTATTTT-ATTA
9107226 TTA-TTTATT-
1 TTATTTTATTA
9107235 TTATTATTATTA
1 TTATT-TTATTA
9107247 TTATTTT-TTA
1 TTATTTTATTA
*
9107257 TTGTTTTAATTA
1 TTATTTT-ATTA
*
9107269 TTATTTCATTA
1 TTATTTTATTA
9107280 TTATTTTATTA
1 TTATTTTATTA
9107291 TT
1 TT
9107293 TATAAAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
9 3 0.05
10 12 0.21
11 26 0.46
12 16 0.28
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.70
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:9107257 original size:19 final size:19
Alignment explanation
Indices: 9107233--9107295 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
9107223 TCATTATTTA
9107233 TTTTATTATTATTATTATT
1 TTTTATTATTATTATTATT
*
9107252 TTTTATTGTT-TTAATTATT
1 TTTTATTATTATT-ATTATT
*
9107271 ATTTCATTATTATT-TTATT
1 -TTTTATTATTATTATTATT
*
9107290 ATTTAT
1 TTTTAT
9107296 AAAAATAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.17
19 20 0.56
20 8 0.22
21 2 0.06
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATTATTATTATTATT
Found at i:9107315 original size:2 final size:2
Alignment explanation
Indices: 9107308--9107346 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9107298 AAATAAATAA
* *
9107308 AT AT AT AT AT AT AT AT AT AT AA AT AA AT A- 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
9107347 TTTTTATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9107613 original size:19 final size:18
Alignment explanation
Indices: 9107589--9107624 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9107579 ATATTTCTAA
9107589 ATAAATAAATATTTTATAT
1 ATAAATAAAT-TTTTATAT
*
9107608 ATAAATATATTTTTATA
1 ATAAATAAATTTTTATA
9107625 ACTTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAATAAATTTTTATAT
Found at i:9112998 original size:19 final size:18
Alignment explanation
Indices: 9112974--9113019 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9112964 TATTATACTT
9112974 GAAAAAAAAACAACAAAAA
1 GAAAAAAAAACAA-AAAAA
* *
9112993 GAAAAAAGAAAGAAAAAAG
1 GAAAAAA-AAACAAAAAAA
9113012 GAAAAAAA
1 GAAAAAAA
9113020 GGGGGAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAACAAAAAAA
Found at i:9115522 original size:114 final size:115
Alignment explanation
Indices: 9115315--9115538 Score: 353
Period size: 114 Copynumber: 2.0 Consensus size: 115
9115305 TGCCATGTGA
* * *
9115315 TCATAGTTAGAAATAAGAAGACTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 TCATAGTTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
* *
9115380 ATTTGGTATGAACCCCAAAACCAATCATT-GAATTTGAAAGATGAAGTTGC
66 ATTCGGTAGGAACCCCAAAACCAATCATTGGAA-TTGAAAGATGAAGTTGC
*
9115430 TCATAG-TAGAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
1 TCATAGTTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
* *
9115494 GTTCGGTAGGAACCCCATAACCAATCATTGGAATTGAAAGATGAA
66 ATTCGGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
9115539 CTGCATGATC
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 91 0.91
115 9 0.09
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (115 bp):
TCATAGTTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
ATTCGGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAAGTTGC
Found at i:9116633 original size:76 final size:76
Alignment explanation
Indices: 9116494--9116636 Score: 198
Period size: 76 Copynumber: 1.9 Consensus size: 76
9116484 ATAAATGTTG
* * * *
9116494 GGGCATGCTGAAAACCCTTGTCAATCAGAATCAGGAATGTTGATGTATCCTGGACGTTTATATCA
1 GGGCATGCTGAAAACCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCA
9116559 GCAAAATGCTA
66 GCAAAATGCTA
* * **
9116570 GGGCATGCTGAAAGCCCCTT-TCAATCAGAATGAAGAATGTTGATGTATTTTGAACGCTCATATC
1 GGGCATGCTGAAA-ACCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATC
9116634 AGC
65 AGC
9116637 CAATATTGGG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 53 0.91
77 5 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (76 bp):
GGGCATGCTGAAAACCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCA
GCAAAATGCTA
Found at i:9118962 original size:76 final size:76
Alignment explanation
Indices: 9118836--9119370 Score: 926
Period size: 76 Copynumber: 7.0 Consensus size: 76
9118826 CTATTTCCCA
*
9118836 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
9118901 ACCCTCAAGGT
66 ACCCTCAGGGT
*
9118912 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
9118977 ACCCTCAGGGT
66 ACCCTCAGGGT
* *
9118988 CATCTGTAAGTCCTGCAGTGCATGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGACGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
9119053 ACCCTCAGGGT
66 ACCCTCAGGGT
* *
9119064 CATCTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTCTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
9119129 AGCCTCAGGGT
66 ACCCTCAGGGT
* *
9119140 CATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
9119205 ACCCTCAGGGT
66 ACCCTCAGGGT
* * * *
9119216 CATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAATCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
9119281 ACCCCCAGGGT
66 ACCCTCAGGGT
*
9119292 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
9119357 ACCCTCAGGGT
66 ACCCTCAGGGT
9119368 CAT
1 CAT
9119371 TCATAAGACC
Statistics
Matches: 442, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 442 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCCTCAGGGT
Found at i:9119548 original size:3 final size:3
Alignment explanation
Indices: 9119530--9119593 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
9119520 TTTCATTAAA
* ** *
9119530 ATT ATT TTT AATT ATT ATT ATT ATT AAA ATT ATT TTT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
9119576 ATT AAT ATAT ATAT ATT A
1 ATT ATT AT-T AT-T ATT A
9119594 CAAGCCCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
3 40 0.82
4 9 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:9120975 original size:15 final size:16
Alignment explanation
Indices: 9120919--9120975 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
9120909 TATTTTAATC
9120919 ATTATTTATTTTATTATT
1 ATTATTTA--TTATTATT
* *
9120937 ATTATTTTTTATTGTT
1 ATTATTTATTATTATT
*
9120953 -TTAATTATTATT-TT
1 ATTATTTATTATTATT
9120967 ATTATTTAT
1 ATTATTTAT
9120976 AAATATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 2 0.06
15 17 0.52
16 7 0.21
18 7 0.21
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
ATTATTTATTATTATT
Found at i:9120985 original size:2 final size:2
Alignment explanation
Indices: 9120973--9121021 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
9120963 TTTTATTATT
* *
9120973 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9121014 -A TA TA TA T
1 TA TA TA TA T
9121022 TTTTTTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:9121291 original size:19 final size:18
Alignment explanation
Indices: 9121267--9121302 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9121257 ATATTTCTAA
9121267 ATAAATAAATATTTTATAT
1 ATAAATAAAT-TTTTATAT
*
9121286 ATAAATATATTTTTATA
1 ATAAATAAATTTTTATA
9121303 ACTTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAATAAATTTTTATAT
Found at i:9122349 original size:2 final size:2
Alignment explanation
Indices: 9122342--9122433 Score: 75
Period size: 2 Copynumber: 47.0 Consensus size: 2
9122332 ATCCATCCCA
* * *
9122342 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT GAC AT GT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* * *
9122384 CA- AT A- AT A- AA AA AG 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
*
9122424 AT GT AT AT AT
1 AT AT AT AT AT
9122434 GACATGTTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
1 4 0.05
2 69 0.92
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:9122425 original size:60 final size:60
Alignment explanation
Indices: 9122342--9122457 Score: 232
Period size: 60 Copynumber: 1.9 Consensus size: 60
9122332 ATCCATCCCA
9122342 ATATATATATATATATATATATATGTATATATGACATGTTATCAATAATAAAAAAGATAT
1 ATATATATATATATATATATATATGTATATATGACATGTTATCAATAATAAAAAAGATAT
9122402 ATATATATATATATATATATATATGTATATATGACATGTTATCAATAATAAAAAAG
1 ATATATATATATATATATATATATGTATATATGACATGTTATCAATAATAAAAAAG
9122458 GTAAATTTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (60 bp):
ATATATATATATATATATATATATGTATATATGACATGTTATCAATAATAAAAAAGATAT
Found at i:9127711 original size:19 final size:19
Alignment explanation
Indices: 9127681--9127721 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9127671 ACTCAAAAAC
9127681 TAACTCGATAATTC-AAAT
1 TAACTCGATAATTCGAAAT
9127699 TAACTCAGATAATTCGAAAT
1 TAACTC-GATAATTCGAAAT
9127719 TAA
1 TAA
9127722 AAAAAATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (19 bp):
TAACTCGATAATTCGAAAT
Found at i:9128873 original size:17 final size:17
Alignment explanation
Indices: 9128853--9128890 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
9128843 TTAATAATAC
9128853 ATCATTTTAAAAGATAA
1 ATCATTTTAAAAGATAA
9128870 ATCATTTTAAAAGATAA
1 ATCATTTTAAAAGATAA
9128887 ATCA
1 ATCA
9128891 GTCTACGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (17 bp):
ATCATTTTAAAAGATAA
Found at i:9129860 original size:18 final size:17
Alignment explanation
Indices: 9129832--9129884 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
9129822 CACAACAAAT
9129832 AAATATAAAAAAAATAA
1 AAATATAAAAAAAATAA
*
9129849 AAATAGTAAAAAACAATAT
1 AAATA-TAAAAAA-AATAA
9129868 AAA-AT-AAAAAAATAA
1 AAATATAAAAAAAATAA
9129883 AA
1 AA
9129885 TAAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 6 0.19
18 8 0.25
19 7 0.22
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (17 bp):
AAATATAAAAAAAATAA
Found at i:9129883 original size:25 final size:26
Alignment explanation
Indices: 9129842--9129892 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9129832 AAATATAAAA
*
9129842 AAAATAAAAATAGTAAAA-AACAATAT
1 AAAATAAAAATAATAAAATAA-AATAT
9129868 AAAATAAAAA-AATAAAATAAAATAT
1 AAAATAAAAATAATAAAATAAAATAT
9129893 TACAAAGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (26 bp):
AAAATAAAAATAATAAAATAAAATAT
Found at i:9129887 original size:18 final size:18
Alignment explanation
Indices: 9129828--9129891 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
9129818 TTGACACAAC
9129828 AAATAAATATAAAAAAAATA
1 AAATAAA-AT-AAAAAAATA
* * *
9129848 AAA-ATAGT-AAAAAACA
1 AAATAAAATAAAAAAATA
*
9129864 ATATAAAATAAAAAAATA
1 AAATAAAATAAAAAAATA
9129882 AAATAAAATA
1 AAATAAAATA
9129892 TTACAAAGAC
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 9 0.26
17 3 0.09
18 17 0.50
19 2 0.06
20 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATAAAATAAAAAAATA
Found at i:9129889 original size:30 final size:30
Alignment explanation
Indices: 9129833--9129889 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9129823 ACAACAAATA
*
9129833 AATATAAAAAAAATAAAAATAGTAAAAAAC
1 AATATAAAAAAAATAAAAATAATAAAAAAC
9129863 AATATAAAATAAAA-AAATAA-AATAAAA
1 AATATAAAA-AAAATAAA-AATAATAAAA
9129890 TATTACAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (30 bp):
AATATAAAAAAAATAAAAATAATAAAAAAC
Found at i:9131900 original size:29 final size:29
Alignment explanation
Indices: 9131865--9132053 Score: 240
Period size: 29 Copynumber: 6.6 Consensus size: 29
9131855 CACATTCAAA
*
9131865 AATTCCCAAAATGTCACATTTTTCAAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
*
9131894 AATTCCCAGAATGTCACATTTTT-TAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
* *
9131922 AATTCCCAGAATATCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
* *
9131951 ATTTCCCCGAATGTCACATTTTTCAAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
* * *
9131980 ATTTCCCAAAATGTCAC-CTTTTCAAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
*
9132008 ATTTCCCAGAATGTCATCATTTTT-AAAAT
1 AATTCCCAGAATGTCA-CATTTTTCAAAAT
* *
9132037 AATTCTCAAAATGTCAC
1 AATTCCCAGAATGTCAC
9132054 CGGGTCGTGT
Statistics
Matches: 140, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
28 51 0.36
29 85 0.61
30 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (29 bp):
AATTCCCAGAATGTCACATTTTTCAAAAT
Found at i:9131944 original size:57 final size:57
Alignment explanation
Indices: 9131865--9132054 Score: 283
Period size: 57 Copynumber: 3.3 Consensus size: 57
9131855 CACATTCAAA
* * *
9131865 AATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAGAATGTCACATTTTTTAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAATATTTCCCAGAATGTCACATTTTTAAAAT
* * *
9131922 AATTCCCAGAATATCACCTTTTTCAAAATATTTCCCCGAATGTCACATTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAATATTTCCCAGAATGTCACATTTTT-AAAAT
*
9131980 ATTTCCCAAAATGTCACC-TTTTCAAAATATTTCCCAGAATGTCATCATTTTTAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAATATTTCCCAGAATGTCA-CATTTTTAAAAT
*
9132037 AATTCTCAAAATGTCACC
1 AATTCCCAAAATGTCACC
9132055 GGGTCGTGTC
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
57 93 0.78
58 26 0.22
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (57 bp):
AATTCCCAAAATGTCACCTTTTTCAAAATATTTCCCAGAATGTCACATTTTTAAAAT
Found at i:9132050 original size:86 final size:86
Alignment explanation
Indices: 9131865--9132053 Score: 254
Period size: 86 Copynumber: 2.2 Consensus size: 86
9131855 CACATTCAAA
* **
9131865 AATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAGAATGTCACATTTTTTAAATAATTCCCA
1 AATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAAAATGTCACATTTTCAAAATAATTCCCA
*
9131930 GAATATCACCTTTTTCAAAAT
66 GAATATCACATTTTTCAAAAT
* ** * * *
9131951 ATTTCCCCGAATGTCACATTTTTCAAAATATTTCCCAAAATGTCACCTTTTCAAAATATTTCCCA
1 AATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAAAATGTCACATTTTCAAAATAATTCCCA
*
9132016 GAATGTCATCATTTTT-AAAAT
66 GAATATCA-CATTTTTCAAAAT
*
9132037 AATTCTCAAAATGTCAC
1 AATTCCCAAAATGTCAC
9132054 CGGGTCGTGT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 81 0.93
87 6 0.07
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (86 bp):
AATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAAAATGTCACATTTTCAAAATAATTCCCA
GAATATCACATTTTTCAAAAT
Found at i:9132094 original size:16 final size:17
Alignment explanation
Indices: 9132054--9132095 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
9132044 AAAATGTCAC
9132054 CGGGTCGTGTCAACGGGT
1 CGGGTCG-GTCAACGGGT
*
9132072 CGAGTCGGTCAAC-GGT
1 CGGGTCGGTCAACGGGT
9132088 CGGGTCGG
1 CGGGTCGG
9132096 GTCAGATCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
17 6 0.27
18 6 0.27
ACGTcount: A:0.12, C:0.24, G:0.45, T:0.19
Consensus pattern (17 bp):
CGGGTCGGTCAACGGGT
Found at i:9132098 original size:17 final size:18
Alignment explanation
Indices: 9132054--9132099 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
9132044 AAAATGTCAC
*
9132054 CGGGTCGTGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
9132072 CGAGTC-GGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
9132088 CGGGTCGGGTCA
1 CGGGTCGGGTCA
9132100 GATCGGTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.33
17 11 0.46
18 5 0.21
ACGTcount: A:0.13, C:0.24, G:0.43, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:9134658 original size:139 final size:137
Alignment explanation
Indices: 9134485--9134969 Score: 608
Period size: 139 Copynumber: 3.5 Consensus size: 137
9134475 GGAAACAAGA
* *
9134485 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATTGGATGAGTTGTTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTA
*
9134550 TGAACTCTCAATTGAAAAGGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCAAATGTGAC
66 TGAACTCTCAATTGAAAA-GTTGATCCCTCGAGTGAGGTGTTGCTGATT-AACTCCAAATGTGAT
9134615 GAATCGAGC
129 GAATCGAGC
* *
9134624 TAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-TCTTCATCGGATGAGTTCTTCTCATT
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-ATCGGATGAGTTCTTCTCATT
* * *
9134688 ATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTTAACTCCATATGTGA
65 ATGAACTCTCAATT-GAAAAGTTGATCCCTCGAGTGAGGTGTTGCTGA-TTAACTCCAAATGTGA
9134753 TGAATCGAGC
128 TGAATCGAGC
* * *
9134763 TAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTA
* * ** ** *
9134828 TGAACTCTCCATTTGAAATA-TTGATCCCTCAAGTGAGGCATCACTGA-T---TCGAAATGTTG-
66 TGAACTCT-CAATTGAAA-AGTTGATCCCTCGAGTGAGGTGTTGCTGATTAACTCCAAATG-TGA
9134887 TGAATCGAG-
128 TGAATCGAGC
** * *
9134896 TGATAGGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATTGGATGAGTTCTTCTCA
1 T-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TATCGGATGAGTTCTTCTCA
*
9134961 TTATAAACT
63 TTATGAACT
9134970 TTCCTTTGGA
Statistics
Matches: 305, Mismatches: 31, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
133 1 0.00
134 16 0.05
135 38 0.12
136 25 0.08
137 1 0.00
138 3 0.01
139 210 0.69
140 11 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (137 bp):
TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTA
TGAACTCTCAATTGAAAAGTTGATCCCTCGAGTGAGGTGTTGCTGATTAACTCCAAATGTGATGA
ATCGAGC
Found at i:9136700 original size:21 final size:19
Alignment explanation
Indices: 9136672--9136717 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
9136662 TCATTGAATC
9136672 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
9136692 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
9136711 ACTTAGT
1 A-TTAGT
9136718 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:9144608 original size:23 final size:23
Alignment explanation
Indices: 9144576--9144623 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
9144566 CCAAACGACA
* *
9144576 CCGTATGAGGGTATCAAGTCAAG
1 CCGTACGAGGGCATCAAGTCAAG
* *
9144599 CCGTACGAGGGCGTCAGGTCAAG
1 CCGTACGAGGGCATCAAGTCAAG
9144622 CC
1 CC
9144624 AAACCACCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.17
Consensus pattern (23 bp):
CCGTACGAGGGCATCAAGTCAAG
Found at i:9147093 original size:21 final size:19
Alignment explanation
Indices: 9147065--9147110 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
9147055 TAATTGAATC
9147065 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
9147085 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
9147104 ACTTAGT
1 A-TTAGT
9147111 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:9147869 original size:55 final size:54
Alignment explanation
Indices: 9147753--9147871 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 54
9147743 ATTTACAGTT
*
9147753 ATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAAATTCATTTAAAAAC
1 ATCAAGAAACCCCTAAAATCAGGCTTAGCTTCTTTCAAAAATTCATTTAAAAAC
* * *
9147807 ATTAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTT-GAAAGTTCATTTAGAAATA-
1 ATCAAGAAACCCCT-AAAATCAGGCTTAGCTTCTTTCAAAAATTCATTTA-AAA-AC
9147862 ATCAAGAAAC
1 ATCAAGAAAC
9147872 TTTCAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
54 24 0.42
55 32 0.56
56 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (54 bp):
ATCAAGAAACCCCTAAAATCAGGCTTAGCTTCTTTCAAAAATTCATTTAAAAAC
Found at i:9147880 original size:55 final size:56
Alignment explanation
Indices: 9147753--9147927 Score: 159
Period size: 55 Copynumber: 3.2 Consensus size: 56
9147743 ATTTACAGTT
* *
9147753 ATCAAGAAAC-CCCT-AAAATTAGGCTTAGCTTCTTTCAAAAATTCATTTA-AAA-A
1 ATCAAGAAACTTCCTAAAAATCAGGCTTAGCTTCTTT-AAAAATTCATTTAGAAATA
* * * *
9147806 CATTAAGAAAC-CCCTAAAAATCAGGCTTAGCTTCTTTGAAAGTTCATTTAGAAATA
1 -ATCAAGAAACTTCCTAAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTAGAAATA
* * * * *
9147862 ATCAAGAAACTTTC-AAAAATC-GGACTTAGTTTATTTAAAAACTCATTT-GAAATC
1 ATCAAGAAACTTCCTAAAAATCAGG-CTTAGCTTCTTTAAAAATTCATTTAGAAATA
*
9147916 ATCAGGAAACTT
1 ATCAAGAAACTT
9147928 ATGAAAATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
54 42 0.41
55 58 0.57
56 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (56 bp):
ATCAAGAAACTTCCTAAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTAGAAATA
Found at i:9149957 original size:28 final size:27
Alignment explanation
Indices: 9149924--9149998 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
9149914 TTCTTCTTTC
9149924 TTCTTTTTTATTTTTCTCTTTTTCTTCT
1 TTCTTTTTTATTTTTCT-TTTTTCTTCT
* * *
9149952 TTCTTTCTTCTTTTTCTTTTTTTTTCT
1 TTCTTTTTTATTTTTCTTTTTTCTTCT
*
9149979 TT-TTTTTCT-TTTTGCTTTTT
1 TTCTTTTT-TATTTTTCTTTTT
9149999 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 14 0.34
27 12 0.29
28 15 0.37
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (27 bp):
TTCTTTTTTATTTTTCTTTTTTCTTCT
Found at i:9149963 original size:35 final size:36
Alignment explanation
Indices: 9149917--9149989 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
9149907 GTCTATTTTC
9149917 TTCTTTCTTCTTTTT-TATTTTTCTCTTTTTCTTCT
1 TTCTTTCTTCTTTTTCTATTTTTCTCTTTTTCTTCT
* * *
9149952 TTCTTTCTTCTTTTTCTTTTTTTTTCTTTTTTTTCT
1 TTCTTTCTTCTTTTTCTATTTTTCTCTTTTTCTTCT
9149988 TT
1 TT
9149990 TTGCTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 15 0.44
36 19 0.56
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (36 bp):
TTCTTTCTTCTTTTTCTATTTTTCTCTTTTTCTTCT
Found at i:9149990 original size:7 final size:7
Alignment explanation
Indices: 9149912--9149998 Score: 74
Period size: 7 Copynumber: 12.7 Consensus size: 7
9149902 GATCTGTCTA
9149912 TTTTCTTC
1 TTTT-TTC
*
9149920 TTTCTTC
1 TTTTTTC
9149927 TTTTTT-
1 TTTTTTC
*
9149933 ATTTTTC
1 TTTTTTC
9149940 TCTTTTTC
1 T-TTTTTC
*
9149948 TTCTTTC
1 TTTTTTC
*
9149955 TTTCTTC
1 TTTTTTC
9149962 -TTTTTC
1 TTTTTTC
9149968 TTTTTT-
1 TTTTTTC
*
9149974 TTTCTT-
1 TTTTTTC
9149980 TTTTTTC
1 TTTTTTC
*
9149987 TTTTTGC
1 TTTTTTC
9149994 TTTTT
1 TTTTT
9149999 GTGTGTGTGT
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
6 20 0.31
7 34 0.53
8 10 0.16
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:9149996 original size:16 final size:16
Alignment explanation
Indices: 9149917--9149998 Score: 73
Period size: 16 Copynumber: 5.1 Consensus size: 16
9149907 GTCTATTTTC
9149917 TTCTTTCTTCTTT-TTT
1 TTCTTTCTT-TTTCTTT
* *
9149933 ATT-TTTCTCTTT-TTC
1 -TTCTTTCTTTTTCTTT
9149948 TTCTTTCTTTCTTCTTT
1 TTCTTTCTTT-TTCTTT
*
9149965 TTCTTTTTTTTTCTTT
1 TTCTTTCTTTTTCTTT
9149981 TT-TTTCTTTTTGCTTT
1 TTCTTTCTTTTT-CTTT
9149997 TT
1 TT
9149999 GTGTGTGTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 2 0.04
15 19 0.35
16 21 0.38
17 13 0.24
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (16 bp):
TTCTTTCTTTTTCTTT
Done.