Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 49
Found at i:9949041 original size:7 final size:7
Alignment explanation
Indices: 9949031--9949087 Score: 100
Period size: 7 Copynumber: 8.4 Consensus size: 7
9949021 GACCCGACCC
9949031 GACCGTT
1 GACCGTT
9949038 GACCGTT
1 GACCGTT
9949045 GACCGTT
1 GACCGTT
9949052 GACCG-T
1 GACCGTT
9949058 GACCGTT
1 GACCGTT
9949065 GACCG-T
1 GACCGTT
9949071 GACCGTT
1 GACCGTT
9949078 GACCGTT
1 GACCGTT
9949085 GAC
1 GAC
9949088 TTTCTTTGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.25
7 36 0.75
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:9949062 original size:13 final size:13
Alignment explanation
Indices: 9949031--9949083 Score: 97
Period size: 13 Copynumber: 4.0 Consensus size: 13
9949021 GACCCGACCC
9949031 GACCGTTGACCGTT
1 GACCGTTGACCG-T
9949045 GACCGTTGACCGT
1 GACCGTTGACCGT
9949058 GACCGTTGACCGT
1 GACCGTTGACCGT
9949071 GACCGTTGACCGT
1 GACCGTTGACCGT
9949084 TGACTTTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
13 27 0.69
14 12 0.31
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:9949062 original size:20 final size:21
Alignment explanation
Indices: 9949031--9949087 Score: 100
Period size: 20 Copynumber: 2.8 Consensus size: 21
9949021 GACCCGACCC
9949031 GACCGTTGACCGTTGACCGTT
1 GACCGTTGACCGTTGACCGTT
9949052 GACCG-TGACCGTTGACCG-T
1 GACCGTTGACCGTTGACCGTT
9949071 GACCGTTGACCGTTGAC
1 GACCGTTGACCGTTGAC
9949088 TTTCTTTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.17
20 24 0.69
21 5 0.14
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (21 bp):
GACCGTTGACCGTTGACCGTT
Found at i:9954564 original size:18 final size:18
Alignment explanation
Indices: 9954537--9954579 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
9954527 AATCTAAAGC
9954537 ATAA-TAATGATTATAAAA
1 ATAATTAATGATT-TAAAA
9954555 AT-ATTAATGATTTAAAA
1 ATAATTAATGATTTAAAA
9954572 ATAATTAA
1 ATAATTAA
9954580 ATAATCGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
ATAATTAATGATTTAAAA
Found at i:9959026 original size:105 final size:105
Alignment explanation
Indices: 9958844--9959057 Score: 340
Period size: 105 Copynumber: 2.0 Consensus size: 105
9958834 TCTGAACAAT
* * * *
9958844 ATAAGCACACACAATGCTATCACATCAGAATCATACTATGCACACAAAGTGCAATCACATATGAC
1 ATAAGCACACACAATGCTATCACATCAGAATCATAATATGCACACAAAGTGAAATAACATATGAA
*
9958909 AAATATATTAGTGTACCCACCGGTAACACCACAGTATATC
66 AAATATAATAGTGTACCCACCGGTAACACCACAGTATATC
* * *
9958949 ATAAGCACACACAATGCTATCACATC-GAAATCATAATATGCGCACAAAGTGAAATAATATCTGA
1 ATAAGCACACACAATGCTATCACATCAG-AATCATAATATGCACACAAAGTGAAATAACATATGA
9959013 AAAATATAATAGTGTACCCACCGGTAACACCACAGTATATC
65 AAAATATAATAGTGTACCCACCGGTAACACCACAGTATATC
9959054 ATAA
1 ATAA
9959058 TCACTCCACC
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
104 1 0.01
105 99 0.99
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.22
Consensus pattern (105 bp):
ATAAGCACACACAATGCTATCACATCAGAATCATAATATGCACACAAAGTGAAATAACATATGAA
AAATATAATAGTGTACCCACCGGTAACACCACAGTATATC
Found at i:9961319 original size:29 final size:31
Alignment explanation
Indices: 9961249--9961320 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 31
9961239 TAAAATAATC
*
9961249 TTAATGATATAATTAAAATAAGAATAAAAAT
1 TTAATAATATAATTAAAATAAGAATAAAAAT
* *
9961280 TTAATATTATAATTAAAAT-A-ATTAAAAAT
1 TTAATAATATAATTAAAATAAGAATAAAAAT
*
9961309 TTTATAATATAA
1 TTAATAATATAA
9961321 ATAACGTAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 18 0.50
30 1 0.03
31 17 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
TTAATAATATAATTAAAATAAGAATAAAAAT
Found at i:9963887 original size:29 final size:29
Alignment explanation
Indices: 9963851--9963926 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
9963841 AACTAAATTG
*
9963851 ATGTAAGCAATGACATCATTACTTAAATC
1 ATGTAAGCAATGACATCATTAATTAAATC
* *
9963880 ATGTAAGCAATGACATCTTTAATTAAATG
1 ATGTAAGCAATGACATCATTAATTAAATC
**
9963909 ATGTAAATAATGACATCA
1 ATGTAAGCAATGACATCA
9963927 ATTTAGTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (29 bp):
ATGTAAGCAATGACATCATTAATTAAATC
Found at i:9968566 original size:28 final size:28
Alignment explanation
Indices: 9968525--9968634 Score: 175
Period size: 28 Copynumber: 3.9 Consensus size: 28
9968515 CTCACCTAAC
9968525 TAAATTGATGTAAGCAATGACATCATACT
1 TAAA-TGATGTAAGCAATGACATCATACT
9968554 TAAATGATGTAAGCAATGACATCATACT
1 TAAATGATGTAAGCAATGACATCATACT
* *
9968582 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATC-ATACT
*
9968611 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
9968635 ATTTAGTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
28 47 0.62
29 29 0.38
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (28 bp):
TAAATGATGTAAGCAATGACATCATACT
Found at i:9968622 original size:57 final size:57
Alignment explanation
Indices: 9968525--9968634 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
9968515 CTCACCTAAC
*
9968525 TAAATTGATGTAAGCAATGACATCATACTTAAATGATGTAAGCAATGACATCATACT
1 TAAATTGATGTAAGCAATGACATCATAATTAAATGATGTAAGCAATGACATCATACT
* *
9968582 TAAA-TGATGTAAGCAATGACATCTTTAATTAAATGATGTAAGTAATGACATCA
1 TAAATTGATGTAAGCAATGACATC-ATAATTAAATGATGTAAGCAATGACATCA
9968635 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 19 0.39
57 30 0.61
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (57 bp):
TAAATTGATGTAAGCAATGACATCATAATTAAATGATGTAAGCAATGACATCATACT
Found at i:9969054 original size:17 final size:16
Alignment explanation
Indices: 9969034--9969072 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
9969024 ACAATTGAGA
*
9969034 TTAATAATATTATTTAT
1 TTAATAATATAATTT-T
*
9969051 TTAATGATATAATTTT
1 TTAATAATATAATTTT
9969067 TTAATA
1 TTAATA
9969073 TTCTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTAATAATATAATTTT
Found at i:9972535 original size:28 final size:28
Alignment explanation
Indices: 9972504--9972558 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9972494 AATGGTGTAC
9972504 AATTGTCGAATTG-AGCACAGAGGTGCTT
1 AATTGTCG-ATTGCAGCACAGAGGTGCTT
*
9972532 AATTGTCGATTGCAGCACTGAGGTGCT
1 AATTGTCGATTGCAGCACAGAGGTGCT
9972559 CAATCGTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
AATTGTCGATTGCAGCACAGAGGTGCTT
Found at i:9972609 original size:28 final size:28
Alignment explanation
Indices: 9972576--9972640 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
9972566 TCGTCAAAGA
* *
9972576 ACAGAGGTGTCAGACTCTAGATTGATGC
1 ACAGAGGTGCCAGACTCTAGATTGAAGC
* * * *
9972604 ATAGAGGTGCCAGATTTTATATTGAAGC
1 ACAGAGGTGCCAGACTCTAGATTGAAGC
9972632 ACAGAGGTG
1 ACAGAGGTG
9972641 ATATACCATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (28 bp):
ACAGAGGTGCCAGACTCTAGATTGAAGC
Found at i:9972726 original size:54 final size:54
Alignment explanation
Indices: 9972668--9972868 Score: 213
Period size: 54 Copynumber: 3.7 Consensus size: 54
9972658 TTAGAGATGT
* * * *
9972668 CAGATCCTAGATTGAAGGACAAAGGTGTTCAATCATTACAAAGCACAGAGGTGC
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTACAAAGCACAGAGGTGC
* * ** * *
9972722 CAGATTCTAGACTGAAGCACAACGGTGCTCAGTCATTTTTAACTGCACAGAGGTGT
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCA-TTACAA-AGCACAGAGGTGC
* * * * * * * *
9972778 CAGTTTGTCGATTGAAGCACAAATGTGTTCAATCACTACAAAGCATAGAGGTGC
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTACAAAGCACAGAGGTGC
*
9972832 CAGATTCTAGACTGAAACACAAAGGTGCTCAATCATT
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATT
9972869 TTTAATTGGA
Statistics
Matches: 113, Mismatches: 32, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
54 68 0.60
55 7 0.06
56 38 0.34
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (54 bp):
CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTACAAAGCACAGAGGTGC
Found at i:9972794 original size:56 final size:55
Alignment explanation
Indices: 9972668--9972942 Score: 198
Period size: 54 Copynumber: 5.0 Consensus size: 55
9972658 TTAGAGATGT
* * * * ** *
9972668 CAGATCCTAGATTGAAGGACAAAGGTGTTCAATCA-TTACAAAGCACAGAGGTGC
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTTTTAATGCACAGAGGTGC
* * *
9972722 CAGATTCTAGACTGAAGCACAACGGTGCTCAGTCATTTTTAACTGCACAGAGGTGT
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTTTTAA-TGCACAGAGGTGC
* * * * * * * ** * *
9972778 CAGTTTGTCGATTGAAGCACAAATGTGTTCAATCA-CTACAAAGCATAGAGGTGC
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTTTTAATGCACAGAGGTGC
* * * *
9972832 CAGATTCTAGACTGAAACACAAAGGTGCTCAATCATTTTTAATTGGACAGATGTGT
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTTTTAA-TGCACAGAGGTGC
* * * * * * *
9972888 TAGTTTGTCGATTGAAGCACAAAGG-GCTCAATCGTTAATTCAA-GCACAGAGGTGC
1 CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATT--TTTAATGCACAGAGGTGC
9972943 TATGAATTCA
Statistics
Matches: 165, Mismatches: 50, Indels: 11
0.73 0.22 0.05
Matches are distributed among these distances:
54 67 0.41
55 29 0.18
56 65 0.39
57 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (55 bp):
CAGATTCTAGACTGAAGCACAAAGGTGCTCAATCATTTTTAATGCACAGAGGTGC
Found at i:9972800 original size:110 final size:110
Alignment explanation
Indices: 9972677--9972942 Score: 374
Period size: 110 Copynumber: 2.4 Consensus size: 110
9972667 TCAGATCCTA
* *
9972677 GATTGAAGGACAAAGGTGTTCAATCATTACAAAGCACAGAGGTGCCAGATTCTAGACTGAAGCAC
1 GATTGAAGCACAAAGGTGTTCAATCATTACAAAGCACAGAGGTGCCAGATTCTAGACTGAAACAC
* *
9972742 AACGGTGCTCAGTCATTTTTAACTGCACAGAGGTGTCAGTTTGTC
66 AAAGGTGCTCAATCATTTTTAACTGCACAGAGGTGTCAGTTTGTC
* * *
9972787 GATTGAAGCACAAATGTGTTCAATCACTACAAAGCATAGAGGTGCCAGATTCTAGACTGAAACAC
1 GATTGAAGCACAAAGGTGTTCAATCATTACAAAGCACAGAGGTGCCAGATTCTAGACTGAAACAC
* * * *
9972852 AAAGGTGCTCAATCATTTTTAATTGGACAGATGTGTTAGTTTGTC
66 AAAGGTGCTCAATCATTTTTAACTGCACAGAGGTGTCAGTTTGTC
* *
9972897 GATTGAAGCACAAAGG-GCTCAATCGTTA-ATTCAAGCACAGAGGTGC
1 GATTGAAGCACAAAGGTGTTCAATCATTACA---AAGCACAGAGGTGC
9972943 TATGAATTCA
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
108 1 0.01
109 9 0.07
110 114 0.83
111 13 0.09
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (110 bp):
GATTGAAGCACAAAGGTGTTCAATCATTACAAAGCACAGAGGTGCCAGATTCTAGACTGAAACAC
AAAGGTGCTCAATCATTTTTAACTGCACAGAGGTGTCAGTTTGTC
Found at i:9981273 original size:17 final size:17
Alignment explanation
Indices: 9981251--9981286 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9981241 GGGGTTGCAA
* *
9981251 CCTAGCATTTGTTATAC
1 CCTAGCATCTGTTACAC
9981268 CCTAGCATCTGTTACAC
1 CCTAGCATCTGTTACAC
9981285 CC
1 CC
9981287 GCGGGATCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (17 bp):
CCTAGCATCTGTTACAC
Found at i:9983075 original size:32 final size:32
Alignment explanation
Indices: 9983034--9983098 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9983024 GAGAATTAAA
9983034 TATATTTAATTAAATTAAAAATAGGACTACAT
1 TATATTTAATTAAATTAAAAATAGGACTACAT
9983066 TATATTTAATTAAATTAAAAATAGGACTACAT
1 TATATTTAATTAAATTAAAAATAGGACTACAT
9983098 T
1 T
9983099 GATAGAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (32 bp):
TATATTTAATTAAATTAAAAATAGGACTACAT
Found at i:9984214 original size:46 final size:47
Alignment explanation
Indices: 9984164--9984278 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 47
9984154 TTTTTATAAT
* * * *
9984164 TTAAAAATATTCATCTATCCTTATAAAATACATGTGTTTTTTATG-G
1 TTAAAAATATTCACCTAACCTTATAAAATACATGTATTCTTTATGAG
* * * *
9984210 TTAAAAACATTTACCTAACCTTATAAAATATATGTATTCTTTATGAT
1 TTAAAAATATTCACCTAACCTTATAAAATACATGTATTCTTTATGAG
9984257 TTAAAAATATTCACCTAACCTT
1 TTAAAAATATTCACCTAACCTT
9984279 TTAGGTATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 38 0.66
47 20 0.34
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (47 bp):
TTAAAAATATTCACCTAACCTTATAAAATACATGTATTCTTTATGAG
Found at i:9987009 original size:21 final size:21
Alignment explanation
Indices: 9986983--9987040 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
9986973 TCCGAGTTAT
* *
9986983 CCGCGACGGCCGCAATAGCGT
1 CCGCGACAGCCGCAATAGCGC
* * *
9987004 CTGCGACAGCTGCAATAGTGC
1 CCGCGACAGCCGCAATAGCGC
9987025 CCGCGACAGCCGCAAT
1 CCGCGACAGCCGCAAT
9987041 CACAGTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.36, G:0.29, T:0.12
Consensus pattern (21 bp):
CCGCGACAGCCGCAATAGCGC
Found at i:9990543 original size:33 final size:34
Alignment explanation
Indices: 9990479--9990548 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
9990469 AATGGTTGAT
* *
9990479 TTTATTTTGTAATGGTAGAATTATGAAATGAAAA
1 TTTATTTTGCAATGATAGAATTATGAAATGAAAA
* **
9990513 TTTATTTTGCATTGATA-AATTATGGGATGAAAA
1 TTTATTTTGCAATGATAGAATTATGAAATGAAAA
9990546 TTT
1 TTT
9990549 TCTTTTTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.44
Consensus pattern (34 bp):
TTTATTTTGCAATGATAGAATTATGAAATGAAAA
Found at i:9993617 original size:21 final size:21
Alignment explanation
Indices: 9993593--9993646 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
9993583 TTTCTCATAA
9993593 CATATCACAAATTTACAATTG
1 CATATCACAAATTTACAATTG
9993614 CATATCACAAATTTACAATTG
1 CATATCACAAATTTACAATTG
9993635 CATATCACAAAT
1 CATATCACAAAT
9993647 GTTTATCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (21 bp):
CATATCACAAATTTACAATTG
Found at i:9998616 original size:7 final size:7
Alignment explanation
Indices: 9998599--9998629 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9998589 TACGTTATCA
9998599 AAAAAAT
1 AAAAAAT
9998606 -AAAAAT
1 AAAAAAT
9998612 AAAAAAT
1 AAAAAAT
9998619 AAAAAAT
1 AAAAAAT
9998626 AAAA
1 AAAA
9998630 TAAAATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:9998617 original size:13 final size:12
Alignment explanation
Indices: 9998598--9998634 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
9998588 CTACGTTATC
9998598 AAAAAAATAAAA
1 AAAAAAATAAAA
9998610 ATAAAAAATAAAA
1 A-AAAAAATAAAA
*
9998623 AATAAAATAAAA
1 AAAAAAATAAAA
9998635 TGATAGTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:9998842 original size:16 final size:16
Alignment explanation
Indices: 9998821--9998851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9998811 AGAAGTATTC
*
9998821 TATTTATATTAAAAAT
1 TATTTATAATAAAAAT
9998837 TATTTATAATAAAAA
1 TATTTATAATAAAAA
9998852 AACTTATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTTATAATAAAAAT
Found at i:10004112 original size:21 final size:22
Alignment explanation
Indices: 10004088--10004136 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
10004078 TTATGGGTAT
10004088 AAATTTATAAAAT-TAAATTA-A
1 AAATTTA-AAAATGTAAATTACA
*
10004109 AAATTTAAAAGTGTAAATTACA
1 AAATTTAAAAATGTAAATTACA
10004131 AAATTT
1 AAATTT
10004137 CAAGATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 14 0.56
22 7 0.28
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
AAATTTAAAAATGTAAATTACA
Found at i:10005748 original size:4 final size:4
Alignment explanation
Indices: 10005732--10005767 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
10005722 TTCCTCTCTT
*
10005732 TATG TATG CATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
10005768 ACCATATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:10008419 original size:47 final size:47
Alignment explanation
Indices: 10008291--10008420 Score: 179
Period size: 47 Copynumber: 2.8 Consensus size: 47
10008281 TCAAATATGC
* * * * *
10008291 GTATTCTTTATGATTTGAAAATGTTCACCTATCCATGTAAAATATAT
1 GTATTCTTTATGATTTAAAAATATTCACCTAACCTTATAAAATATAT
* * *
10008338 GTATCCTTTATTATTTAAAAATATTTACCTAACCTTATAAAATATAT
1 GTATTCTTTATGATTTAAAAATATTCACCTAACCTTATAAAATATAT
*
10008385 GTATTATTTATGATTTAAAAATATTCACCTAACCTT
1 GTATTCTTTATGATTTAAAAATATTCACCTAACCTT
10008421 TTAGGTATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (47 bp):
GTATTCTTTATGATTTAAAAATATTCACCTAACCTTATAAAATATAT
Found at i:10011411 original size:27 final size:27
Alignment explanation
Indices: 10011350--10011417 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
10011340 TCGTGCTTAT
* ** *
10011350 TCAAGCATTGCCACGGCATGATTACTG
1 TCAAGCATTGCCACAGCATGAGCACTA
*
10011377 TCAAGCATTGCCACAGCATGGGCACTA
1 TCAAGCATTGCCACAGCATGAGCACTA
*
10011404 TCATGCATTGCCAC
1 TCAAGCATTGCCAC
10011418 GACGTGTTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (27 bp):
TCAAGCATTGCCACAGCATGAGCACTA
Found at i:10014312 original size:25 final size:25
Alignment explanation
Indices: 10014283--10014404 Score: 208
Period size: 25 Copynumber: 4.9 Consensus size: 25
10014273 ACTTAAATAT
10014283 CTAAATTACCCTAAATCATTAATTC
1 CTAAATTACCCTAAATCATTAATTC
*
10014308 CTAAATTACTCTAAATCATTAATTC
1 CTAAATTACCCTAAATCATTAATTC
*
10014333 CTAAATTACTCTAAATCATTAATTC
1 CTAAATTACCCTAAATCATTAATTC
* *
10014358 CAAAATTACCCTAAGTCATTAATTC
1 CTAAATTACCCTAAATCATTAATTC
10014383 CTAAATTACCCTAAATCATTAA
1 CTAAATTACCCTAAATCATTAA
10014405 GAGAAAATAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 91 1.00
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (25 bp):
CTAAATTACCCTAAATCATTAATTC
Found at i:10014599 original size:21 final size:21
Alignment explanation
Indices: 10014570--10014622 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10014560 ATTCTGACTA
10014570 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
10014591 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
10014612 TCGCAATGCGA
1 TCGCATTGCGA
10014623 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:10014887 original size:22 final size:22
Alignment explanation
Indices: 10014862--10014921 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 22
10014852 GGCGACATCC
10014862 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
10014884 GTCCCCA----CGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
10014902 GTCTCCATCTCCGGCGAAAT
1 GTCCCCATCTCCGACGAAAT
10014922 AATTCACGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
18 16 0.53
22 14 0.47
ACGTcount: A:0.25, C:0.38, G:0.17, T:0.20
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:10015342 original size:20 final size:20
Alignment explanation
Indices: 10015294--10015343 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
10015284 CGATTCTTGC
** *
10015294 GTTGCGATAGTCATTTTTGT
1 GTTGCGATTTTCATTTTCGT
10015314 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
10015334 GTTGCGATTT
1 GTTGCGATTT
10015344 AAAGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.52
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:10015351 original size:20 final size:20
Alignment explanation
Indices: 10015312--10015351 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10015302 AGTCATTTTT
** *
10015312 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGATTTAAAGTTTC
10015332 GTGTTGCGATTTAAAGTTTC
1 GTGTTGCGATTTAAAGTTTC
10015352 AGAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGATTTAAAGTTTC
Found at i:10017235 original size:20 final size:20
Alignment explanation
Indices: 10017210--10017313 Score: 121
Period size: 20 Copynumber: 5.5 Consensus size: 20
10017200 AGAATAGTTT
*
10017210 ACTATCGCAATGCGAACATG
1 ACTATCGCAATGCGAAAATG
*
10017230 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
10017250 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
10017266 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
10017284 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
10017304 ACTATCGCAA
1 ACTATCGCAA
10017314 CGAAAGAATT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.10
16 4 0.06
17 4 0.06
18 4 0.06
20 53 0.74
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:10017299 original size:54 final size:54
Alignment explanation
Indices: 10017213--10017334 Score: 190
Period size: 54 Copynumber: 2.3 Consensus size: 54
10017203 ATAGTTTACT
* *
10017213 ATCGCAATGCGAACATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
* **
10017267 ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
*
10017321 ATTGCAATGCGAAA
1 ATCGCAATGCGAAA
10017335 TGAAAATCGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
Found at i:10017403 original size:20 final size:20
Alignment explanation
Indices: 10017358--10017406 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
10017348 GCGATTCTCT
10017358 CGTTGCGATAGTCAAATTAG
1 CGTTGCGATAGTCAAATTAG
* ** *
10017378 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTAG
10017398 CGTTGCGAT
1 CGTTGCGAT
10017407 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTAG
Found at i:10017437 original size:33 final size:33
Alignment explanation
Indices: 10017393--10017456 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
10017383 CGATAGTCAT
* * * *
10017393 TTTCGCGTTGCGATTTTGTTGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
10017426 TTTCGCATTGCGATTCTCTCGTTGCGATTTT
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTT
10017457 AAGTTTCAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.09, C:0.19, G:0.22, T:0.50
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
Found at i:10017977 original size:18 final size:20
Alignment explanation
Indices: 10017939--10017980 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
10017929 CTCACCTGTC
10017939 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-CTCCCCT
10017960 ATCGTTCAAGA-G-TCCCCT
1 ATCGTTCAAGAGGCTCCCCT
10017978 ATC
1 ATC
10017981 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
20 1 0.05
21 11 0.52
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGTTCAAGAGGCTCCCCT
Found at i:10019424 original size:14 final size:14
Alignment explanation
Indices: 10019405--10019440 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10019395 ATTGTTTAAT
10019405 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
10019419 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
10019433 TGATTTGT
1 TGATTTGT
10019441 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:10019623 original size:20 final size:20
Alignment explanation
Indices: 10019598--10019691 Score: 154
Period size: 20 Copynumber: 4.7 Consensus size: 20
10019588 GCGATTCTCT
10019598 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
10019618 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
10019638 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
10019658 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
10019678 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
10019692 AATGAATGTC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 67 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:10022141 original size:24 final size:24
Alignment explanation
Indices: 10022107--10022160 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
10022097 CTGAAAAATC
10022107 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
10022131 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
10022155 ATCAAA
1 ATCAAA
10022161 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:10022174 original size:24 final size:24
Alignment explanation
Indices: 10022107--10022174 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
10022097 CTGAAAAATC
* * *
10022107 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
10022131 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
10022155 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
10022175 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:10023048 original size:40 final size:40
Alignment explanation
Indices: 10023001--10023230 Score: 173
Period size: 40 Copynumber: 5.7 Consensus size: 40
10022991 GAAATTCAGT
*
10023001 ATTGCGATAGTCAGAATCTCGTTGCGATTTACAG-ATTCGC
1 ATTGCGATAGTCAGAATCGCGTTGCGATTTAC-GTATTCGC
* * * *
10023041 ATTGCGAT--TTACGTATTCGCATTGTGATTTACGTATTCGC
1 ATTGCGATAGTCA-G-AATCGCGTTGCGATTTACGTATTCGC
* * *
10023081 ATTGCGATAGTCAGATTCGCATTGCGATTTACGTAATCGC
1 ATTGCGATAGTCAGAATCGCGTTGCGATTTACGTATTCGC
**
10023121 ATTGCGATTTTCCA-AATTCGCGTTGCGATTTACGTATTCGC
1 ATTGCGATAGT-CAGAA-TCGCGTTGCGATTTACGTATTCGC
* * *** ** * *
10023162 ATTGCGAATTAG-GAAAATCGCAACGCGAATTTGGGAAATCGC
1 ATTGCG-A-TAGTCAGAATCGCGTTGCG-ATTTACGTATTCGC
*
10023204 AATGCGATAGTCAGAATCGCGTTGCGA
1 ATTGCGATAGTCAGAATCGCGTTGCGA
10023231 ATCTGGAAAC
Statistics
Matches: 149, Mismatches: 29, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 74 0.50
41 50 0.34
42 20 0.13
43 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (40 bp):
ATTGCGATAGTCAGAATCGCGTTGCGATTTACGTATTCGC
Found at i:10023146 original size:21 final size:21
Alignment explanation
Indices: 10023022--10023168 Score: 110
Period size: 20 Copynumber: 7.3 Consensus size: 21
10023012 CAGAATCTCG
*
10023022 TTGCGATTTA-CAGATTCGCA
1 TTGCGATTTACCAAATTCGCA
**
10023042 TTGCGATTTA-CGTATTCGCA
1 TTGCGATTTACCAAATTCGCA
* **
10023062 TTGTGATTTA-CGTATTCGCA
1 TTGCGATTTACCAAATTCGCA
* *
10023082 TTGCGA--TAGTCAGATTCGCA
1 TTGCGATTTA-CCAAATTCGCA
**
10023102 TTGCGATTTACGTAA-TCGCA
1 TTGCGATTTACCAAATTCGCA
* *
10023122 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTACCAAATTCGCA
**
10023143 TTGCGATTTA-CGTATTCGCA
1 TTGCGATTTACCAAATTCGCA
10023163 TTGCGA
1 TTGCGA
10023169 ATTAGGAAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
18 2 0.02
20 86 0.83
21 14 0.13
22 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (21 bp):
TTGCGATTTACCAAATTCGCA
Found at i:10023189 original size:21 final size:21
Alignment explanation
Indices: 10023165--10023210 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10023155 TATTCGCATT
10023165 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
10023186 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
10023207 GCGA
1 GCGA
10023211 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:10024145 original size:31 final size:31
Alignment explanation
Indices: 10024110--10024170 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
10024100 AGCACTAAGG
*
10024110 CACCTAAAATAATAACGTTTGTAACGTTAGA
1 CACCTAAAATAATAACGTTTATAACGTTAGA
* * *
10024141 CACCTAAAGTAGTAACGTTTATAACTTTAG
1 CACCTAAAATAATAACGTTTATAACGTTAG
10024171 GCTCATTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (31 bp):
CACCTAAAATAATAACGTTTATAACGTTAGA
Found at i:10026626 original size:24 final size:24
Alignment explanation
Indices: 10026580--10026626 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10026570 AATATTATCG
**
10026580 TATAAATTTTAATTAATTTAAATT
1 TATAAATTTTAATTAATAAAAATT
10026604 TATAAATTTTAAATTAA-AAAAAT
1 TATAAATTTT-AATTAATAAAAAT
10026627 AAAACAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAAATTTTAATTAATAAAAATT
Found at i:10026668 original size:17 final size:19
Alignment explanation
Indices: 10026632--10026674 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
10026622 AAAATAAAAC
*
10026632 AATTTAATATTTTATTTTA
1 AATTTAATATTTTATATTA
*
10026651 AGTTTAAT-TTTT-TATTA
1 AATTTAATATTTTATATTA
10026668 AATTTAA
1 AATTTAA
10026675 ATTAAATACC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTAATATTTTATATTA
Found at i:10026795 original size:15 final size:15
Alignment explanation
Indices: 10026775--10026805 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10026765 TATTATTTTT
*
10026775 ATTTAAAATTTATTA
1 ATTTAAAATTAATTA
10026790 ATTTAAAATTAATTA
1 ATTTAAAATTAATTA
10026805 A
1 A
10026806 AATTTATACG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAAAATTAATTA
Found at i:10027709 original size:45 final size:45
Alignment explanation
Indices: 10027660--10027747 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
10027650 GAACATCGAA
* *
10027660 TGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTCAG
10027705 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTC
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTC
10027748 TGGCTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTCAG
Found at i:10029558 original size:2 final size:2
Alignment explanation
Indices: 10029551--10029589 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
10029541 CAGGGTTGGA
10029551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
10029590 CTTCATTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10031082 original size:40 final size:40
Alignment explanation
Indices: 10031027--10031114 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
10031017 AGAGCAGCTT
*
10031027 CCGTGGAAGACCTTCGACAATCAGAATTATGAATTGCCCA
1 CCGTGGGAGACCTTCGACAATCAGAATTATGAATTGCCCA
*
10031067 CCGTGGGAGACCTTCGGCAATCAGAATTATGAATTGCCCA
1 CCGTGGGAGACCTTCGACAATCAGAATTATGAATTGCCCA
10031107 CCGTGGGA
1 CCGTGGGA
10031115 CTCAATCCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGTGGGAGACCTTCGACAATCAGAATTATGAATTGCCCA
Found at i:10031667 original size:21 final size:21
Alignment explanation
Indices: 10031643--10031682 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10031633 TAGATGAAGA
10031643 GCAAA-GAAAGATAAAAGAGGG
1 GCAAAGGAAAG-TAAAAGAGGG
*
10031664 GCAAAGGCAAGTAAAAGAG
1 GCAAAGGAAAGTAAAAGAG
10031683 AAATCGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.55, C:0.07, G:0.33, T:0.05
Consensus pattern (21 bp):
GCAAAGGAAAGTAAAAGAGGG
Found at i:10033018 original size:163 final size:161
Alignment explanation
Indices: 10032827--10033140 Score: 443
Period size: 163 Copynumber: 1.9 Consensus size: 161
10032817 AAGTCCATTG
* * * *
10032827 TTTTACCAAATTTGAACCACATGCTCCTAAATCATCGT-AGAATACATATGTACTTTCAATTTCT
1 TTTTACCAAATTTGAACCACATGCTCCTAAACCATCATAAAAATACATATGTACTTTCAATTCCT
* ** * *
10032891 CATTTTGATAATAAA-TTTCTTATTTTTTTAATTTAGTCCTTCAATTTTTCATAATCTCCTCATT
66 CATTTTGATAATAAATTTTC-TA-TTTTTCAATTTAACCCCTCAA-TTTTCATAATCTCATCATT
10032955 TCTTCAATTCATCCTTTATATTAAGTCTGTTTTTT
128 TC-TCAATTCATCCTTTATATTAAGTCTGTTTTTT
*
10032990 TTTTACCAAATTTGAACCACATGCTCCTAAACCATCATAAAAATACATCTGTACTTTCAATTCCT
1 TTTTACCAAATTTGAACCACATGCTCCTAAACCATCATAAAAATACATATGTACTTTCAATTCCT
* * *
10033055 CATTTTGATAATAACTTTTCTATTTTTCAATTTAACCCCTCAATTTTCATAATTTCATTATTTCT
66 CATTTTGATAATAAATTTTCTATTTTTCAATTTAACCCCTCAATTTTCATAATCTCATCATTTCT
* *
10033120 CGATTCATCCTTTATTTTAAG
131 CAATTCATCCTTTATATTAAG
10033141 CCCCTTTTTT
Statistics
Matches: 134, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
161 20 0.15
162 18 0.13
163 53 0.40
164 39 0.29
165 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (161 bp):
TTTTACCAAATTTGAACCACATGCTCCTAAACCATCATAAAAATACATATGTACTTTCAATTCCT
CATTTTGATAATAAATTTTCTATTTTTCAATTTAACCCCTCAATTTTCATAATCTCATCATTTCT
CAATTCATCCTTTATATTAAGTCTGTTTTTT
Found at i:10033405 original size:21 final size:20
Alignment explanation
Indices: 10033381--10033430 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10033371 TTCTTTAAAA
10033381 TATAATATTATGATTATATTT
1 TATAATATTAT-ATTATATTT
* *
10033402 TATAATTTTATATTGTATTT
1 TATAATATTATATTATATTT
*
10033422 GAT-ATATTA
1 TATAATATTA
10033431 AATAACATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 5 0.20
20 10 0.40
21 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
TATAATATTATATTATATTT
Found at i:10035979 original size:27 final size:26
Alignment explanation
Indices: 10035949--10036006 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
10035939 TTATTCCATG
*
10035949 ACTTAGAGATATTTTAGGTCATTTTAC
1 ACTTAGAGACATTTTA-GTCATTTTAC
* *
10035976 ACTTTAGGGGCATTTTAGTCATTTTAC
1 AC-TTAGAGACATTTTAGTCATTTTAC
10036003 ACTT
1 ACTT
10036007 CAGGGGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 14 0.52
28 11 0.41
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (26 bp):
ACTTAGAGACATTTTAGTCATTTTAC
Found at i:10036011 original size:27 final size:28
Alignment explanation
Indices: 10035959--10036017 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
10035949 ACTTAGAGAT
* *
10035959 ATTTTAGGTCATTTTACACTTTAGGGGC
1 ATTTTAGGTCATTTTACACTTCAGGGGA
10035987 ATTTTA-GTCATTTTACACTTCAGGGGA
1 ATTTTAGGTCATTTTACACTTCAGGGGA
10036014 ATTT
1 ATTT
10036018 CTATAATTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (28 bp):
ATTTTAGGTCATTTTACACTTCAGGGGA
Found at i:10037550 original size:41 final size:41
Alignment explanation
Indices: 10037505--10037583 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
10037495 TTATAAAAAA
*
10037505 ATATTTATAAAAGTAAATTAGTTACATAAGTCAAATCTAAT
1 ATATTTATAAAAGTAAATTAATTACATAAGTCAAATCTAAT
10037546 ATATTTATAAAAGTAAATTAATTACATAAGTCAAATCT
1 ATATTTATAAAAGTAAATTAATTACATAAGTCAAATCT
10037584 TTCTCTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (41 bp):
ATATTTATAAAAGTAAATTAATTACATAAGTCAAATCTAAT
Found at i:10038237 original size:36 final size:36
Alignment explanation
Indices: 10038190--10038269 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
10038180 TCCATATATC
*
10038190 ATATTATATATCCTACT-AAAATTTATGTATAATTTTA
1 ATATT-TATATCCTA-TAAAAATTTATGTATAATTGTA
* *
10038227 TTATTTATATCTTATAAAAATTTATGTATAATTGTA
1 ATATTTATATCCTATAAAAATTTATGTATAATTGTA
10038263 ATATTTA
1 ATATTTA
10038270 ACTCGTATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.03
36 33 0.87
37 4 0.11
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (36 bp):
ATATTTATATCCTATAAAAATTTATGTATAATTGTA
Found at i:10042083 original size:30 final size:30
Alignment explanation
Indices: 10042045--10042108 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
10042035 TATTTTGTAA
* *
10042045 TAAA-ATTATTTTGT-ATTTATTTAACTTTT
1 TAAATATTATTTTGTAATTAATATAA-TTTT
*
10042074 TAAATATTATTTTTTAATTAATATAATTTT
1 TAAATATTATTTTGTAATTAATATAATTTT
10042104 TAAAT
1 TAAAT
10042109 TATATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 4 0.13
30 18 0.60
31 8 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
TAAATATTATTTTGTAATTAATATAATTTT
Found at i:10042102 original size:17 final size:17
Alignment explanation
Indices: 10042076--10042117 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10042066 TAACTTTTTA
* *
10042076 AATATTATTTTTTAATT
1 AATATAATTTTTAAATT
10042093 AATATAATTTTTAAATT
1 AATATAATTTTTAAATT
10042110 -ATATAATT
1 AATATAATT
10042118 AATAAACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATATAATTTTTAAATT
Found at i:10042105 original size:16 final size:16
Alignment explanation
Indices: 10042070--10042117 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
10042060 TTTATTTAAC
10042070 TTTTTAAA-TAT-T-A
1 TTTTTAAATTATATAA
*
10042083 TTTTTTAATTAATATAA
1 TTTTTAAATT-ATATAA
10042100 TTTTTAAATTATATAA
1 TTTTTAAATTATATAA
10042116 TT
1 TT
10042118 AATAAACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 7 0.24
14 1 0.03
15 2 0.07
16 9 0.31
17 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTAAATTATATAA
Found at i:10049693 original size:62 final size:63
Alignment explanation
Indices: 10049614--10049736 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 63
10049604 AAATTTTAAA
* * * *
10049614 ATGATTATTACATTTTATCAAAATATTACGAAATTATCA-TAAATTTATCAAA-TCATTATAAG
1 ATGATCATTAAATTTTATCAAAATATTACAAAATTATCATTAAATATATCAAACTC-TTATAAG
* * *
10049676 ATGATCATTAAATTTTATCATATTGTTACAAAATTATCATTAAATATATCAAACTCTTATA
1 ATGATCATTAAATTTTATCAAAATATTACAAAATTATCATTAAATATATCAAACTCTTATA
10049737 GTTTATTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 33 0.63
63 17 0.33
64 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (63 bp):
ATGATCATTAAATTTTATCAAAATATTACAAAATTATCATTAAATATATCAAACTCTTATAAG
Found at i:10049715 original size:32 final size:32
Alignment explanation
Indices: 10049611--10049728 Score: 107
Period size: 32 Copynumber: 3.8 Consensus size: 32
10049601 TATAAATTTT
* * *
10049611 AAAATGATTATTACATTTTATCAAAATATTAC
1 AAAATGATCATTAAATTTTATCAAATTATTAC
* * * *
10049643 GAAATTATCA-TAAA-TTTATCAAATCATTAT
1 AAAATGATCATTAAATTTTATCAAATTATTAC
* * *
10049673 AAGATGATCATTAAATTTTATCATATTGTTAC
1 AAAATGATCATTAAATTTTATCAAATTATTAC
* *
10049705 AAAATTATCATTAAA-TATATCAAA
1 AAAATGATCATTAAATTTTATCAAA
10049729 CTCTTATAGT
Statistics
Matches: 66, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
30 20 0.30
31 14 0.21
32 32 0.48
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (32 bp):
AAAATGATCATTAAATTTTATCAAATTATTAC
Found at i:10055693 original size:11 final size:11
Alignment explanation
Indices: 10055677--10055716 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
10055667 GGGTGTTATA
10055677 TAAGCTTAACG
1 TAAGCTTAACG
10055688 TAAGCTTATA--
1 TAAGCTTA-ACG
10055698 TAAGCTTAACG
1 TAAGCTTAACG
10055709 TAAGCTTA
1 TAAGCTTA
10055717 TATAAGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 16 0.62
12 1 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (11 bp):
TAAGCTTAACG
Found at i:10055698 original size:21 final size:21
Alignment explanation
Indices: 10055672--10055726 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
10055662 TAATTGGGTG
10055672 TTATATAAGCTTAACGTAAGC
1 TTATATAAGCTTAACGTAAGC
10055693 TTATATAAGCTTAACGTAAGC
1 TTATATAAGCTTAACGTAAGC
10055714 TTATATAAGCTTA
1 TTATATAAGCTTA
10055727 CAACATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
TTATATAAGCTTAACGTAAGC
Found at i:10055703 original size:10 final size:10
Alignment explanation
Indices: 10055672--10055726 Score: 60
Period size: 10 Copynumber: 5.3 Consensus size: 10
10055662 TAATTGGGTG
10055672 TTATATAAGC
1 TTATATAAGC
10055682 TTA-ACGTAAGC
1 TTATA--TAAGC
10055693 TTATATAAGC
1 TTATATAAGC
10055703 TTA-ACGTAAGC
1 TTATA--TAAGC
10055714 TTATATAAGC
1 TTATATAAGC
10055724 TTA
1 TTA
10055727 CAACATTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.05
10 19 0.49
11 16 0.41
12 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (10 bp):
TTATATAAGC
Found at i:10056941 original size:32 final size:32
Alignment explanation
Indices: 10056869--10056961 Score: 127
Period size: 31 Copynumber: 2.9 Consensus size: 32
10056859 GAGTTGAGGG
* *
10056869 TTACCTATGTCTTTCGAGACATATGGACA-GT
1 TTACCTATGTCTTTTGAGACATATGGACAGGA
*
10056900 TTACCTATGTCTTTTGAGACATATAGACAGGA
1 TTACCTATGTCTTTTGAGACATATGGACAGGA
*
10056932 TTACCTATGTTCTTCTG-GACATATGGACAG
1 TTACCTATG-TCTTTTGAGACATATGGACAG
10056962 TTATCGATGT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
31 27 0.49
32 22 0.40
33 6 0.11
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTTGAGACATATGGACAGGA
Found at i:10056974 original size:30 final size:31
Alignment explanation
Indices: 10056869--10056988 Score: 115
Period size: 31 Copynumber: 3.9 Consensus size: 31
10056859 GAGTTGAGGG
*
10056869 TTACCTATG-TCTT-TCGAGACATATGGACAGT
1 TTACCTATGTTCTTCT-G-GACATATGGACAGA
* *
10056900 TTACCTATG-TCTTTTGAGACATATAGACAGGA
1 TTACCTATGTTCTTCTG-GACATATGGACA-GA
10056932 TTACCTATGTTCTTCTGGACATATGGACAG-
1 TTACCTATGTTCTTCTGGACATATGGACAGA
* *
10056962 TTATCGATGTTC-TCTGGAACATATGGA
1 TTACCTATGTTCTTCTGG-ACATATGGA
10056989 TAGGTCCTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.06
30 19 0.24
31 27 0.34
32 22 0.28
33 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (31 bp):
TTACCTATGTTCTTCTGGACATATGGACAGA
Found at i:10058485 original size:15 final size:15
Alignment explanation
Indices: 10058454--10058493 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10058444 CCCCTTTTTC
* *
10058454 ATTTTTGAAA-TTGA
1 ATTTTTCAAACTTAA
10058468 ATTTTTCAAACTTAA
1 ATTTTTCAAACTTAA
10058483 ATTTTTCAAAC
1 ATTTTTCAAAC
10058494 CCATACTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (15 bp):
ATTTTTCAAACTTAA
Found at i:10060058 original size:105 final size:106
Alignment explanation
Indices: 10059900--10060099 Score: 361
Period size: 105 Copynumber: 1.9 Consensus size: 106
10059890 TCATCATCGT
10059900 ATTCATCCACCTCTTCACTTGAGTCTTGATTGCTCTCATTGGTGGATTTAAAGGCAATGCCTACC
1 ATTCATCCACCTCTTCACTTGAGTCTTGATTGCTCTCATTGGTGGATTTAAAGGCAATGCCTACC
10059965 TCATTATTTTCTTATTTTTC-TTCTCTCATCTTTTCACCATCA
66 TCATT-TTTTCTTATTTTTCTTTCT-TCATCTTTTCACCATCA
10060007 ATTCATCCACCTCTTCAC-TGAGTCTTGATTGCT-TCATTGGTGGATTTAAAGGCAATGCCTACC
1 ATTCATCCACCTCTTCACTTGAGTCTTGATTGCTCTCATTGGTGGATTTAAAGGCAATGCCTACC
10060070 TCATTTTTTCTTATTTTTCTTTCTTCATCT
66 TCATTTTTTCTTATTTTTCTTTCTTCATCT
10060100 CTTCTTCTTC
Statistics
Matches: 92, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
104 20 0.22
105 39 0.42
106 15 0.16
107 18 0.20
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (106 bp):
ATTCATCCACCTCTTCACTTGAGTCTTGATTGCTCTCATTGGTGGATTTAAAGGCAATGCCTACC
TCATTTTTTCTTATTTTTCTTTCTTCATCTTTTCACCATCA
Found at i:10061160 original size:16 final size:16
Alignment explanation
Indices: 10061139--10061187 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
10061129 TTTCCCCTTT
10061139 AGATTTGTCTAATCTC
1 AGATTTGTCTAATCTC
10061155 AGATTTGTCTAATCTC
1 AGATTTGTCTAATCTC
10061171 AGATTTGTCTAATCTC
1 AGATTTGTCTAATCTC
10061187 A
1 A
10061188 AATACTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (16 bp):
AGATTTGTCTAATCTC
Found at i:10065775 original size:34 final size:32
Alignment explanation
Indices: 10065722--10065791 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
10065712 CCTTACAAAC
*
10065722 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
10065754 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
10065788 TCCC
1 TCCC
10065792 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:10066100 original size:21 final size:21
Alignment explanation
Indices: 10066074--10066115 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10066064 CCAGAATGGT
*
10066074 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
10066095 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
10066116 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:10066239 original size:29 final size:31
Alignment explanation
Indices: 10066207--10066266 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
10066197 AAATTTTGAA
*
10066207 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
10066236 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
10066267 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:10066727 original size:59 final size:59
Alignment explanation
Indices: 10066630--10066749 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
10066620 GGAGGGTTGG
* * *
10066630 TAGAGTCATATTATCGAGTTTGCCTTTTCATTGCGACTATAAGGGTTCGATAAGACACT
1 TAGAGTCATATTATCAAGTTTGCCGTTTCATTGCGACTAGAAGGGTTCGATAAGACACT
* * *
10066689 TAGAGTCATATTATCAAGTTTGCCGTTTCATTGTGACTAGGAGGGTTCGATAGGACACT
1 TAGAGTCATATTATCAAGTTTGCCGTTTCATTGCGACTAGAAGGGTTCGATAAGACACT
10066748 TA
1 TA
10066750 TCCATCTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (59 bp):
TAGAGTCATATTATCAAGTTTGCCGTTTCATTGCGACTAGAAGGGTTCGATAAGACACT
Found at i:10073521 original size:14 final size:13
Alignment explanation
Indices: 10073494--10073544 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 13
10073484 TTCATTGAAA
10073494 AACCGAAAAACCG
1 AACCGAAAAACCG
10073507 AACCGAAAAACCCG
1 AACCGAAAAA-CCG
10073521 AACCGTTAAAAAAACCG
1 AACCG----AAAAACCG
10073538 AACCGAA
1 AACCGAA
10073545 CCGATAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.36
14 8 0.24
17 8 0.24
18 5 0.15
ACGTcount: A:0.53, C:0.29, G:0.14, T:0.04
Consensus pattern (13 bp):
AACCGAAAAACCG
Found at i:10073538 original size:17 final size:14
Alignment explanation
Indices: 10073494--10073544 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
10073484 TTCATTGAAA
10073494 AACCG-AAAAACCG
1 AACCGAAAAAACCG
*
10073507 AACCGAAAAACCCG
1 AACCGAAAAAACCG
10073521 AACCGTTAAAAAAACCG
1 AACCG---AAAAAACCG
10073538 AACCGAA
1 AACCGAA
10073545 CCGATAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 5 0.16
14 14 0.44
17 13 0.41
ACGTcount: A:0.53, C:0.29, G:0.14, T:0.04
Consensus pattern (14 bp):
AACCGAAAAAACCG
Found at i:10079415 original size:34 final size:35
Alignment explanation
Indices: 10079347--10079423 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 35
10079337 TTTAGTTTTT
10079347 GGGATTTTGGTTTGAAAAAGGCTCGATTTTGATTTG
1 GGGATTTTGGTTTGAAAAAGGCTC-ATTTTGATTTG
10079383 GGGATTTTGGTTTGAAAAAGGCT-ATTTTGATTTG
1 GGGATTTTGGTTTGAAAAAGGCTCATTTTGATTTG
10079417 GGGATTT
1 GGGATTT
10079424 CCAATGTCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 18 0.44
36 23 0.56
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.43
Consensus pattern (35 bp):
GGGATTTTGGTTTGAAAAAGGCTCATTTTGATTTG
Found at i:10100506 original size:23 final size:23
Alignment explanation
Indices: 10100476--10100526 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
10100466 CTGGTAGTTA
*
10100476 GCATTTCCTTGTTACAATGAGAT
1 GCATTTCCCTGTTACAATGAGAT
10100499 GCATTTCCCTGTTACAATGAGAT
1 GCATTTCCCTGTTACAATGAGAT
10100522 G-ATTT
1 GCATTT
10100527 TGACATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (23 bp):
GCATTTCCCTGTTACAATGAGAT
Found at i:10120087 original size:18 final size:19
Alignment explanation
Indices: 10120064--10120105 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
10120054 TAATATAAGA
*
10120064 AAAATTCTC-CTTTTCACC
1 AAAATTCACACTTTTCACC
10120082 AAAATTCACATCTTTTCACC
1 AAAATTCACA-CTTTTCACC
10120102 AAAA
1 AAAA
10120106 ACAACATGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTCACACTTTTCACC
Found at i:10128429 original size:16 final size:16
Alignment explanation
Indices: 10128410--10128443 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10128400 CAATATACGA
10128410 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
10128426 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
10128442 AT
1 AT
10128444 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:10128517 original size:16 final size:18
Alignment explanation
Indices: 10128485--10128518 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
10128475 TATTAATGTA
10128485 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
10128503 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
10128519 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:10128757 original size:21 final size:21
Alignment explanation
Indices: 10128731--10128772 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10128721 TTTTTTATTG
10128731 TAAAAAAATATAATATTTTCC
1 TAAAAAAATATAATATTTTCC
10128752 TAAAAAAATATAATATTTTCC
1 TAAAAAAATATAATATTTTCC
10128773 CATCATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAAATATAATATTTTCC
Found at i:10129214 original size:130 final size:130
Alignment explanation
Indices: 10129011--10129258 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
10129001 AATTTTCTTC
*
10129011 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTAAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTAAGAT
*
10129076 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
10129141 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTAAGAT
*
10129206 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGTACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
10129259 TATATAAATA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTAAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:10129717 original size:36 final size:36
Alignment explanation
Indices: 10129655--10129731 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
10129645 AATTGAATTT
* *
10129655 AATTG-AATTATTTTAGAATTTAGGGTTTAGAATGA
1 AATTGAAATTACTTTAGAAATTAGGGTTTAGAATGA
* *
10129690 AATTGAAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAAATTACTTTAGAAATTAGGGTTTAGAATGA
10129726 AATTGA
1 AATTGA
10129732 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.39
Consensus pattern (36 bp):
AATTGAAATTACTTTAGAAATTAGGGTTTAGAATGA
Found at i:10135362 original size:83 final size:82
Alignment explanation
Indices: 10135263--10135460 Score: 211
Period size: 82 Copynumber: 2.4 Consensus size: 82
10135253 TGTAATAGAA
* *
10135263 TGGTAATTTAGCGGCGTTTATAGCTA-AAACGCCACAATAGAT-TTGTTTATAGTGGCTTTTTTT
1 TGGTAATTTAGCGGCGTTTATA--TACAAACGCCACAATAG-TGTTGTTTATAGTGGCGTTTGTT
10135326 CAACAAACGCCGCAACATAG
63 CAACAAACGCCGCAACATAG
* * * * *
10135346 TGGTAATTTTGCGGCGTTTTTATACAAACGCCGCGATTGTGTTGTTTATAGTGGCGTTTGTTCAA
1 TGGTAATTTAGCGGCGTTTATATACAAACGCCACAATAGTGTTGTTTATAGTGGCGTTTGTTCAA
* * * * *
10135411 CAAATGACGCTATAGAG
66 CAAACGCCGCAACATAG
** *
10135428 AAGTAATTTAGCGGCGTTTATGAAACAAACGCC
1 TGGTAATTTAGCGGCGTTTAT-ATACAAACGCC
10135461 GTAATAGAGC
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
81 3 0.03
82 62 0.65
83 30 0.32
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (82 bp):
TGGTAATTTAGCGGCGTTTATATACAAACGCCACAATAGTGTTGTTTATAGTGGCGTTTGTTCAA
CAAACGCCGCAACATAG
Found at i:10135414 original size:41 final size:42
Alignment explanation
Indices: 10135305--10135414 Score: 95
Period size: 41 Copynumber: 2.6 Consensus size: 42
10135295 CACAATAGAT
*
10135305 TTGTTTATAGTGGCTTTTTTTCAACAAACGCCGCAACATAGTGG
1 TTGTTTATAGTGGC-GTTTTTCAACAAACGCCGC-ACATAGTGG
** * * *
10135349 TAATTT-T-GCGGCGTTTTT-ATACAAACGCCGC-GATTGT-G
1 TTGTTTATAGTGGCGTTTTTCA-ACAAACGCCGCACATAGTGG
10135387 TTGTTTATAGTGGCGTTTGTTCAACAAA
1 TTGTTTATAGTGGCGTTT-TTCAACAAA
10135415 TGACGCTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
38 5 0.10
39 5 0.10
40 9 0.17
41 23 0.44
42 5 0.10
43 1 0.02
44 4 0.08
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (42 bp):
TTGTTTATAGTGGCGTTTTTCAACAAACGCCGCACATAGTGG
Found at i:10135445 original size:42 final size:42
Alignment explanation
Indices: 10135398--10135500 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
10135388 TGTTTATAGT
*
10135398 GGCGTTTGTTCAACAAATGACGCT-ATAGAGAAGTAATTTAGC
1 GGCGTTTGTTCAACAAACGACG-TAATAGAGAAGTAATTTAGC
* ** * * *
10135440 GGCGTTTATGAAACAAACGCCGTAATAGAGCAGTTATTTAGC
1 GGCGTTTGTTCAACAAACGACGTAATAGAGAAGTAATTTAGC
10135482 GGCGTTTGTCTC-ACAAACG
1 GGCGTTTGT-TCAACAAACG
10135501 GAGCAATATG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (42 bp):
GGCGTTTGTTCAACAAACGACGTAATAGAGAAGTAATTTAGC
Found at i:10135993 original size:22 final size:22
Alignment explanation
Indices: 10135946--10135987 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10135936 TGTTTTGTTT
10135946 CTTTCGAATAGAAAAATAATTA
1 CTTTCGAATAGAAAAATAATTA
* *
10135968 CTTTCTAATAGGAAAATAAT
1 CTTTCGAATAGAAAAATAAT
10135988 AGCTTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (22 bp):
CTTTCGAATAGAAAAATAATTA
Found at i:10137215 original size:42 final size:43
Alignment explanation
Indices: 10137163--10137259 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
10137153 TGAAAGTTTG
* **
10137163 GTGGTGTTTTTTA-AAAAAATGTTGCAATAGGGTTACTTTATA
1 GTGGCGTTTTTTACAAAAAATGTCACAATAGGGTTACTTTATA
* * *
10137205 GTGGCG-TTTTTACTAAAAATGTCATAATAGGGTTAGTTTATA
1 GTGGCGTTTTTTACAAAAAATGTCACAATAGGGTTACTTTATA
*
10137247 GCGGCAGTTTTTT
1 GTGGC-GTTTTTT
10137260 TATTAAACGT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
41 6 0.13
42 33 0.73
43 1 0.02
44 5 0.11
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (43 bp):
GTGGCGTTTTTTACAAAAAATGTCACAATAGGGTTACTTTATA
Found at i:10137378 original size:41 final size:42
Alignment explanation
Indices: 10137328--10137441 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 42
10137318 AGTATTGTAC
* *
10137328 TTTAGTGGCGTTTGT-GACCAAACGTCGCAATATCCATGTATA
1 TTTAGTGGCGTTTGTAGA-AAAACGCCGCAATATCCATGTATA
* *
10137370 TTTA-TGGCGTTTGTAGAAAAACGCCGTAATATCCATGT-TC
1 TTTAGTGGCGTTTGTAGAAAAACGCCGCAATATCCATGTATA
* * * * *
10137410 TTTAGCGGTGTTTATATAAAAACGTCGCAATA
1 TTTAGTGGCGTTTGTAGAAAAACGCCGCAATA
10137442 GTTTTATCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.08
41 49 0.82
42 6 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (42 bp):
TTTAGTGGCGTTTGTAGAAAAACGCCGCAATATCCATGTATA
Found at i:10137475 original size:42 final size:43
Alignment explanation
Indices: 10137420--10137549 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 43
10137410 TTTAGCGGTG
* *
10137420 TTTATATAA-AAACGTCGCAATAGTTTTATCATTTAGTGGCGT
1 TTTATATAATAAACGTCGCAATAGTTTTGTCCTTTAGTGGCGT
* * *
10137462 TTTAT-TAATAAACGCCGCAGTAGTATTGTCCTTTAG-GGACGT
1 TTTATATAATAAACGTCGCAATAGTTTTGTCCTTTAGTGG-CGT
* * *
10137504 TTT-TGTAATAAACGTCGCATATA-TTTGGTCCCTTAGTGGCGT
1 TTTATATAATAAACGTCGCA-ATAGTTTTGTCCTTTAGTGGCGT
10137546 TTTA
1 TTTA
10137550 ATGTAAACAC
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
41 6 0.08
42 62 0.86
43 4 0.06
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (43 bp):
TTTATATAATAAACGTCGCAATAGTTTTGTCCTTTAGTGGCGT
Found at i:10138790 original size:22 final size:22
Alignment explanation
Indices: 10138765--10138807 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10138755 ATGTATGTAT
*
10138765 ATGTAAATTAAGCTTATGATAA
1 ATGTAAATTAAGCTTAGGATAA
10138787 ATGTAAATTAAGCTTAGGATA
1 ATGTAAATTAAGCTTAGGATA
10138808 TATAATTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (22 bp):
ATGTAAATTAAGCTTAGGATAA
Found at i:10139417 original size:14 final size:14
Alignment explanation
Indices: 10139373--10139405 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
10139363 CACTTTTTCC
10139373 TTTATCTTTCTTCG
1 TTTATCTTTCTTCG
10139387 TTTATCTTTCTTCG
1 TTTATCTTTCTTCG
10139401 TTTAT
1 TTTAT
10139406 TTTTTCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.18, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTATCTTTCTTCG
Found at i:10142544 original size:64 final size:66
Alignment explanation
Indices: 10142389--10142544 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 66
10142379 AAATTGAACT
* *
10142389 TCGAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGCACTGTAGATTTTATGAAAAC
1 TCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCTAGATTTTATGAAAAC
10142453 A
66 A
* * * * *
10142454 TCAAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-T-AAAA
1 TCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCTAGAT-TTTATGAAAA
10142516 CA
65 CA
* *
10142518 TCGAATGCACTTGATGCACCGATGCAC
1 TCGAATGCATTTGATGCATCGATGCAC
10142545 TGAGAGTCCA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 30 0.38
65 44 0.56
66 5 0.06
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (66 bp):
TCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCTAGATTTTATGAAAAC
A
Found at i:10148378 original size:24 final size:22
Alignment explanation
Indices: 10148351--10148431 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 22
10148341 ACACTTAACA
10148351 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CC-TTGAAT
* *
10148375 GTGCATCGATTCAT-CTTG-CT
1 GTGCATCGATGCATCCTTGAAT
* *
10148395 GATGCACCAATGCATGCCTTGAAT
1 G-TGCATCGATGCAT-CCTTGAAT
10148419 GTGCATCGATGCA
1 GTGCATCGATGCA
10148432 CAGGGTCATG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
20 2 0.04
21 13 0.29
22 1 0.02
23 14 0.31
24 15 0.33
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:10151289 original size:64 final size:66
Alignment explanation
Indices: 10151132--10151291 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 66
10151122 AATTAAATTG
* * *
10151132 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGCATTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGA
10151196 A
66 A
* * * * *
10151197 AACATCGAATGCATTTGATGCATTGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-T-
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATG
10151259 AA
65 AA
*
10151261 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
10151292 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 31 0.37
65 47 0.57
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGA
A
Found at i:10157179 original size:26 final size:26
Alignment explanation
Indices: 10157141--10157199 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
10157131 TGTCATTTTT
*
10157141 ATATATATTTTTTTATTTTTTAAATAAA
1 ATAT-TATTTTTATATTTTTTAAA-AAA
*
10157169 ATATTATTTTTATATTTTTTTAAAAA
1 ATATTATTTTTATATTTTTTAAAAAA
10157195 ATATT
1 ATATT
10157200 TTGAATGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.28
27 17 0.59
28 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
ATATTATTTTTATATTTTTTAAAAAA
Found at i:10165345 original size:21 final size:21
Alignment explanation
Indices: 10165321--10165363 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10165311 TCTTATCAAA
10165321 TGTTAGTAACTCTTTTTAAGC
1 TGTTAGTAACTCTTTTTAAGC
10165342 TGTTAGTAACTCTTTTTAAGC
1 TGTTAGTAACTCTTTTTAAGC
10165363 T
1 T
10165364 ACACTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (21 bp):
TGTTAGTAACTCTTTTTAAGC
Found at i:10167429 original size:21 final size:21
Alignment explanation
Indices: 10167403--10167442 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10167393 ATCGTTTTAA
10167403 TGATAAAA-GGAAGTGTTATAG
1 TGATAAAAGGGAA-TGTTATAG
10167424 TGATAAAAGGGAATGTTAT
1 TGATAAAAGGGAATGTTAT
10167443 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (21 bp):
TGATAAAAGGGAATGTTATAG
Found at i:10176312 original size:10 final size:10
Alignment explanation
Indices: 10176297--10176325 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
10176287 ACCGTTCGAT
10176297 TTTTTTTTTA
1 TTTTTTTTTA
10176307 TTTTTTTTTA
1 TTTTTTTTTA
10176317 TTTTTTTTT
1 TTTTTTTTT
10176326 TGAATTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:10176387 original size:3 final size:3
Alignment explanation
Indices: 10176379--10176414 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
10176369 ATTTCACATA
*
10176379 ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10176415 CAATTATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:10178219 original size:114 final size:114
Alignment explanation
Indices: 10178089--10178316 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
10178079 CCATCTGAAT
10178089 TAATAAAAAAAGAATGAGGCTGTTGGATTGTGAAAGTATACCAGAATGATGCAGCATGGGCCACG
1 TAATAAAAAAAGAATGAGGCTGTTGGATTGTGAAAGTATACCAGAATGATGCAGCATGGGCCACG
10178154 CTGGTTTGTGTGTCCGGCAATAATAATATAAATAAAACAGTGATTTGTA
66 CTGGTTTGTGTGTCCGGCAATAATAATATAAATAAAACAGTGATTTGTA
10178203 TAATAAAAAAAGAATGAGGCTGTTGGATTGTGAAAGTATACCAGAATGATGCAGCATGGGCCACG
1 TAATAAAAAAAGAATGAGGCTGTTGGATTGTGAAAGTATACCAGAATGATGCAGCATGGGCCACG
10178268 CTGGTTTGTGTGTCCGGCAATAATAATATAAATAAAACAGTGATTTGTA
66 CTGGTTTGTGTGTCCGGCAATAATAATATAAATAAAACAGTGATTTGTA
10178317 AGGCAATTCA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (114 bp):
TAATAAAAAAAGAATGAGGCTGTTGGATTGTGAAAGTATACCAGAATGATGCAGCATGGGCCACG
CTGGTTTGTGTGTCCGGCAATAATAATATAAATAAAACAGTGATTTGTA
Found at i:10181543 original size:19 final size:19
Alignment explanation
Indices: 10181454--10181544 Score: 60
Period size: 19 Copynumber: 4.6 Consensus size: 19
10181444 TTTTTTACAC
*
10181454 TATATAT-TA-TTATTATC
1 TATATATATATTTATTATT
* *
10181471 TATACATATATTTTTTATT
1 TATATATATATTTATTATT
* *
10181490 TATTTATATTCATTTGGTTATTT
1 TATATATA-T-ATTT-ATTA-TT
*
10181513 TTTAATACTATATTTATTATT
1 TAT-ATA-TATATTTATTATT
10181534 TATATATATAT
1 TATATATATAT
10181545 ATATATACTT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
17 6 0.11
18 2 0.04
19 17 0.30
20 4 0.07
21 8 0.14
22 6 0.11
23 8 0.14
24 3 0.05
25 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATATATATTTATTATT
Found at i:10181720 original size:8 final size:8
Alignment explanation
Indices: 10181709--10181735 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
10181699 TTATATTTGG
10181709 TTTATATA
1 TTTATATA
10181717 TTTATATA
1 TTTATATA
10181725 TTTATATA
1 TTTATATA
10181733 TTT
1 TTT
10181736 TTGGTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATATA
Found at i:10181772 original size:18 final size:19
Alignment explanation
Indices: 10181749--10181799 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 19
10181739 GTTTTTGGTT
10181749 TTTTTATATTATATTA-TA
1 TTTTTATATTATATTATTA
10181767 TTTTTATATTATTATTATTA
1 TTTTTATATTA-TATTATTA
*
10181787 TTGTTATGATTAT
1 TTTTTAT-ATTAT
10181800 TATTTTTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 11 0.38
19 5 0.17
20 9 0.31
21 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTATATTATATTATTA
Found at i:10181781 original size:3 final size:3
Alignment explanation
Indices: 10181755--10181803 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
10181745 GGTTTTTTTA
* * *
10181755 TAT TA- TAT TA- TAT TTT TA- TAT TAT TAT TAT TAT TGT TAT GAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10181800 TAT T
1 TAT T
10181804 TTTCTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10181856 original size:12 final size:13
Alignment explanation
Indices: 10181835--10181889 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
10181825 TATATATATA
10181835 TATTTCATTTATT
1 TATTTCATTTATT
10181848 TATTT-ATTTATT
1 TATTTCATTTATT
* *
10181860 TTTATTC-TTCATT
1 TAT-TTCATTTATT
10181873 T-TTTCATTTATT
1 TATTTCATTTATT
*
10181885 CATTT
1 TATTT
10181890 TTTCCCTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 3 0.09
12 15 0.44
13 16 0.47
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:10182977 original size:19 final size:20
Alignment explanation
Indices: 10182941--10182978 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10182931 ACCTTACTAA
*
10182941 CTCTTTTCATTTTTTTTCCT
1 CTCTTTTCATTTTATTTCCT
10182961 CTCTTTT-ATTTTATTTCC
1 CTCTTTTCATTTTATTTCC
10182979 ATCATCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (20 bp):
CTCTTTTCATTTTATTTCCT
Found at i:10186349 original size:16 final size:15
Alignment explanation
Indices: 10186316--10186373 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 15
10186306 AGATCCAATC
10186316 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
10186331 AAGAAGCAAAAAA-ACA
1 AAGAA-CAAAAAAGA-A
*
10186347 AAGAA-AAAAGAGAAA
1 AAGAACAAAAAAG-AA
10186362 CAAGAACAAAAA
1 -AAGAACAAAAA
10186374 TCAAAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 7 0.20
16 19 0.54
17 4 0.11
ACGTcount: A:0.78, C:0.09, G:0.14, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:10186369 original size:23 final size:26
Alignment explanation
Indices: 10186315--10186373 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 26
10186305 AAGATCCAAT
10186315 CAAGAACAAAAAAGAAAAGAAGCAAA
1 CAAGAACAAAAAAGAAAAGAAGCAAA
*
10186341 -AA-AACAAAGAA-AAAAG-AG-AAA
1 CAAGAACAAAAAAGAAAAGAAGCAAA
10186362 CAAGAACAAAAA
1 CAAGAACAAAAA
10186374 TCAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 3 0.10
22 4 0.14
23 12 0.41
24 8 0.28
25 2 0.07
ACGTcount: A:0.76, C:0.10, G:0.14, T:0.00
Consensus pattern (26 bp):
CAAGAACAAAAAAGAAAAGAAGCAAA
Found at i:10187258 original size:22 final size:22
Alignment explanation
Indices: 10187160--10187254 Score: 147
Period size: 22 Copynumber: 4.3 Consensus size: 22
10187150 GCTACCCCAT
10187160 CAAACCGT-TGAGCATCAAATGC
1 CAAACC-TATGAGCATCAAATGC
10187182 CAAACCTATGAGCATCAAATGC
1 CAAACCTATGAGCATCAAATGC
10187204 CAAACCTATGAGCATCAAATGC
1 CAAACCTATGAGCATCAAATGC
* **
10187226 CAAACCTTTGAATATCAAATGC
1 CAAACCTATGAGCATCAAATGC
10187248 CAAACCT
1 CAAACCT
10187255 TTGACCAAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
21 1 0.01
22 68 0.99
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (22 bp):
CAAACCTATGAGCATCAAATGC
Found at i:10188252 original size:106 final size:106
Alignment explanation
Indices: 10188062--10189755 Score: 2526
Period size: 106 Copynumber: 16.0 Consensus size: 106
10188052 ATATCGTGCC
* * * * * *
10188062 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
10188127 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
10188168 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
10188233 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
10188274 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTTTCAACAAACGACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10188339 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
10188380 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10188445 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
10188486 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTTTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
10188551 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
10188592 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
10188657 AATTTCAGAGCCAATTTCAACTTTAAAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
10188698 ACTTCAGACAACGCAAGTTCAACTTCATGCCGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10188763 AATTTCAGTGCCAATTTCAACTTCACAGC-ATAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGA-AGGATATTGG
* *
10188804 ACT-CATGACAACGCAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCC
1 ACTCCA-GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
10188868 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
10188910 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10188975 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
10189016 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10189081 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
10189122 ACTCAAGACAACGTAAGTTCAACTTCACGACGTAGGGACCGCTGGTTGTCAATAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10189187 AATTTCAGAGCCAAATTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
10189228 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
10189293 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
10189334 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * *
10189399 AATTTTAGAGTCAATTTCAACTTCGCAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
10189440 ACTCAAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * * *
10189505 AATTTCATAGCCAATTTCAACTTCTCAACGAAGTATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
10189546 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAT-AA-AA-TT-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
*
10189606 C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * ** * * *
10189646 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
** * *
10189711 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
10189752 ACTC
1 ACTC
10189756 AGAACAATGC
Statistics
Matches: 1444, Mismatches: 131, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
100 76 0.05
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 7 0.00
106 1344 0.93
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:10190539 original size:37 final size:37
Alignment explanation
Indices: 10190484--10190590 Score: 142
Period size: 37 Copynumber: 2.9 Consensus size: 37
10190474 CACCTTTTCG
10190484 TTCTACTAGGATTCAAACTCCTAAAAATAAGATAGAA
1 TTCTACTAGGATTCAAACTCCTAAAAATAAGATAGAA
* * * *
10190521 TTTTGCTAGGATTCAAACTCCTAAAAATAGGATAGAG
1 TTCTACTAGGATTCAAACTCCTAAAAATAAGATAGAA
** * *
10190558 TTCTACTATAATTTAAACTCCTAAAGATAAGAT
1 TTCTACTAGGATTCAAACTCCTAAAAATAAGAT
10190591 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
TTCTACTAGGATTCAAACTCCTAAAAATAAGATAGAA
Found at i:10191140 original size:22 final size:21
Alignment explanation
Indices: 10191052--10191140 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 21
10191042 TCAATTGATT
*
10191052 TTTTTTACACTATATATTATTA
1 TTTTTTATACTATAT-TTATTA
* * *
10191074 TTATCTATACATATATTTTTTA
1 TTTTTTATAC-TATATTTATTA
* *
10191096 TTTATTTATATTA-ATTTGGTTA
1 TTT-TTTATACTATATTT-ATTA
10191118 TTTTTTAATACTATATTTATTA
1 TTTTTT-ATACTATATTTATTA
10191140 T
1 T
10191141 ATATATATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
21 7 0.13
22 31 0.60
23 14 0.27
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTTATACTATATTTATTA
Found at i:10191374 original size:33 final size:31
Alignment explanation
Indices: 10191293--10191381 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 31
10191283 TATAAGCCAA
*
10191293 TTATCATTATATGTATACTTTTATATTTGGTTT
1 TTAT-ATTATAT-TATATTTTTATATTTGGTTT
* * *
10191326 ATATATT-TATT-TATTTTTGTTTTTGGTTTTT
1 TTATATTATATTATATTTTTATATTTGG--TTT
10191357 TTATATTATATTATATTTTTATATT
1 TTATATTATATTATATTTTTATATT
10191382 ATTATTATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
29 12 0.27
30 1 0.02
31 12 0.27
32 7 0.16
33 13 0.29
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (31 bp):
TTATATTATATTATATTTTTATATTTGGTTT
Found at i:10191377 original size:18 final size:19
Alignment explanation
Indices: 10191354--10191389 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10191344 GTTTTTGGTT
10191354 TTTTTATATTA-TATTATA
1 TTTTTATATTATTATTATA
10191372 TTTTTATATTATTATTAT
1 TTTTTATATTATTATTAT
10191390 TGTTATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTATATTATTATTATA
Found at i:10191430 original size:2 final size:2
Alignment explanation
Indices: 10191423--10191447 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10191413 TTTACTCATT
10191423 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10191448 TTCATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10191477 original size:16 final size:16
Alignment explanation
Indices: 10191456--10191497 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10191446 ATTTCATTTA
*
10191456 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
*
10191472 TTTATTTTTTTTTACT
1 TTTATTTATTTTTACT
10191488 TATT-TTTATT
1 T-TTATTTATT
10191498 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Done.