Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 88 of 204
Found at i:27418124 original size:17 final size:17
Alignment explanation
Indices: 27418102--27418134 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27418092 CAATTTATTT
27418102 TTACATATAACATCATG
1 TTACATATAACATCATG
*
27418119 TTACATATAAGATCAT
1 TTACATATAACATCAT
27418135 CCATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (17 bp):
TTACATATAACATCATG
Found at i:27419844 original size:19 final size:17
Alignment explanation
Indices: 27419820--27419867 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
27419810 TAGGCCTCGT
27419820 TGGGCCGAAATGGGCTGTG
1 TGGGCC-AAATGGGCT-TG
* *
27419839 TGGGCCTAGTGGGCTTG
1 TGGGCCAAATGGGCTTG
*
27419856 TGGGCCATATGG
1 TGGGCCAAATGG
27419868 ATAAAATGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 11 0.46
18 7 0.29
19 6 0.25
ACGTcount: A:0.12, C:0.17, G:0.46, T:0.25
Consensus pattern (17 bp):
TGGGCCAAATGGGCTTG
Found at i:27420244 original size:27 final size:27
Alignment explanation
Indices: 27420214--27420498 Score: 207
Period size: 27 Copynumber: 10.6 Consensus size: 27
27420204 CTAATATTTA
* * *
27420214 TAAAATGACCATAATGCCCCTGTAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
* * * *
27420241 TAAAATGATCGTAATACCCTTGTAGGG
1 TAAAATGACCGTAATACCCCTATAAGG
* * * *
27420268 TAAAATGATCGAAAAACCTCC-ATAGGG
1 TAAAATGACCGTAATACC-CCTATAAGG
* * * *
27420295 TAAAATGATCGTAATGCCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTATAAGG
* **
27420322 TAAAATGATCGTAATGGCCCTATAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
*
27420349 GAAAATGACCGTAATACCCCTAT-AGG
1 TAAAATGACCGTAATACCCCTATAAGG
* * * *
27420375 ATAAAATGACC-AAAAAACCCTCATAGGG
1 -TAAAATGACCGTAATACCCCT-ATAAGG
* * *
27420403 TAAAATGATCGTAATGCCCCTGTAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
* * *
27420430 TAAAATGACCATAATACCCCCATAGGG
1 TAAAATGACCGTAATACCCCTATAAGG
* ** * *
27420457 TTAAATGACCAAAATACCCGTGTAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
*
27420484 TAAAATGATCGTAAT
1 TAAAATGACCGTAAT
27420499 GCCTCTAGAG
Statistics
Matches: 204, Mismatches: 48, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
26 12 0.06
27 183 0.90
28 9 0.04
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTATAAGG
Found at i:27420300 original size:54 final size:53
Alignment explanation
Indices: 27420239--27420494 Score: 255
Period size: 54 Copynumber: 4.8 Consensus size: 53
27420229 GCCCCTGTAA
*
27420239 GGTAAAATGATCGTAATACCCTTGTAGGGTAAAATGATCGAAAAACCTCCATAG
1 GGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCGAAAAACC-CCATAG
* *** *
27420293 GGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGGCCCTATAAG
1 GGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCG-AAAAACCCCAT-AG
* * * * *
27420348 GG-AAAATGACCGTAATACCCCTATAGGATAAAATGACCAAAAAACCCTCATAG
1 GGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCGAAAAACCC-CATAG
* * * *
27420401 GGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGA-CCATAATACCCCCATAG
1 GGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCGA-AA-AACCCCATAG
* * ** * *
27420455 GGTTAAATGACCAAAATACCCGTGTAAGGTAAAATGATCG
1 GGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCG
27420495 TAATGCCTCT
Statistics
Matches: 165, Mismatches: 30, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
53 11 0.07
54 141 0.85
55 13 0.08
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (53 bp):
GGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCGAAAAACCCCATAG
Found at i:27420500 original size:81 final size:81
Alignment explanation
Indices: 27420214--27420501 Score: 328
Period size: 81 Copynumber: 3.6 Consensus size: 81
27420204 CTAATATTTA
* * * * * *
27420214 TAAAATGACCATAATGCCCCTGTAAGGTAAAATGATCGTAATACCCTTGTAGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCCTGTAAGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGA-CC
* *
27420279 A-AAAACCTCCATAGGG
65 ATAATACCCCCATAGGG
* ** * * * * * *
27420295 TAAAATGATCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGGCCCTATAAGGGAAAATGACCG
1 TAAAATGACCAAAATACCCCTGTAAGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGACCA
* *
27420360 TAATACCCCTATAGGA
66 TAATACCCCCATAGGG
* * *
27420376 TAAAATGACCAAAA-AACCCTCATAGGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGACC
1 TAAAATGACCAAAATACCCCT-GTAAGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGACC
27420440 ATAATACCCCCATAGGG
65 ATAATACCCCCATAGGG
* *
27420457 TTAAATGACCAAAATACCCGTGTAAGGTAAAATGATCGTAATGCC
1 TAAAATGACCAAAATACCCCTGTAAGGTAAAATGATCGTAATGCC
27420502 TCTAGAGGGT
Statistics
Matches: 172, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 5 0.03
81 163 0.95
82 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (81 bp):
TAAAATGACCAAAATACCCCTGTAAGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGACCA
TAATACCCCCATAGGG
Found at i:27420567 original size:24 final size:24
Alignment explanation
Indices: 27420535--27420645 Score: 100
Period size: 24 Copynumber: 4.6 Consensus size: 24
27420525 GCCCCTCGAG
*
27420535 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCCGTGA
* *
27420559 TGTAGATGACTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCCGTGA
* * *
27420583 TTTAAATGACTGATTTGTCTGTTA
1 TGTAAATGACTGATTTGTCCGTGA
*
27420607 TTGGT--ATGACTGATTTGTCTGTGA
1 -T-GTAAATGACTGATTTGTCCGTGA
* **
27420631 TTTGTATGACTGATT
1 TGTAAATGACTGATT
27420646 CTGAGCATGG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 70 0.95
25 1 0.01
26 1 0.01
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCCGTGA
Found at i:27420591 original size:48 final size:48
Alignment explanation
Indices: 27420537--27420645 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 48
27420527 CCCTCGAGTG
*
27420537 TAAATGATTGATTTGTCCGTGATGTAG-ATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCCGTGAT-TAGTATGACTGATTTGTCTGTGATT
* * *
27420585 TAAATGACTGATTTGTCTGTTATTGGTATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCCGTGATTAGTATGACTGATTTGTCTGTGATT
**
27420633 TGTATGACTGATT
1 TAAATGACTGATT
27420646 CTGAGCATGG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 2 0.04
48 52 0.96
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (48 bp):
TAAATGACTGATTTGTCCGTGATTAGTATGACTGATTTGTCTGTGATT
Found at i:27420757 original size:27 final size:27
Alignment explanation
Indices: 27420709--27420773 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
27420699 ATGGAGGAAG
27420709 TACTG-TACTGGTGGCTCTGCCACA-A
1 TACTGTTACTGGTGGCTCTGCCACATA
*
27420734 TCACTGTTACTGGTGGGT-TGGCCACATA
1 T-ACTGTTACTGGTGGCTCT-GCCACATA
*
27420762 TACTATTACTGG
1 TACTGTTACTGG
27420774 CAACTTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 26 0.76
28 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTCTGCCACATA
Found at i:27420793 original size:26 final size:26
Alignment explanation
Indices: 27420761--27420814 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
27420751 TTGGCCACAT
*
27420761 ATACTATTACTGGCAACTTTGTTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
* *
27420787 ATACTATTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
27420813 AT
1 AT
27420815 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTGCTGCG
Found at i:27420826 original size:26 final size:26
Alignment explanation
Indices: 27420771--27420826 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
27420761 ATACTATTAC
* * *
27420771 TGGCAACTTTGTTGCGATACTATTGC
1 TGGCAACTTTGCTGCGATACTACTGA
* *
27420797 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAACTTTGCTGCGATACTACTGA
27420823 TGGC
1 TGGC
27420827 TTTGTGCCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (26 bp):
TGGCAACTTTGCTGCGATACTACTGA
Found at i:27422505 original size:22 final size:21
Alignment explanation
Indices: 27422475--27422539 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
27422465 ATTACTGTAC
*
27422475 TTATGGCTTGTAGCTATTCTGT
1 TTATAGCTT-TAGCTATTCTGT
*
27422497 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTT-TAGCTATTCTGT
* *
27422519 TTACAGCTCTTAGCCATTCTG
1 TTATAGCT-TTAGCTATTCTG
27422540 GTTACTGGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (21 bp):
TTATAGCTTTAGCTATTCTGT
Found at i:27423009 original size:20 final size:20
Alignment explanation
Indices: 27422986--27423039 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
27422976 AGTTTTTCCC
*
27422986 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
27423006 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
27423026 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
27423040 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:27423021 original size:30 final size:30
Alignment explanation
Indices: 27422986--27423059 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
27422976 AGTTTTTCCC
27422986 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
27423016 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
27423046 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
27423060 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:27423049 original size:20 final size:20
Alignment explanation
Indices: 27422986--27423050 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
27422976 AGTTTTTCCC
* * * *
27422986 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
27423006 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
27423025 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
27423046 AGCTC
1 AGCTC
27423051 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:27428831 original size:40 final size:40
Alignment explanation
Indices: 27428765--27428945 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
27428755 AATTATTGAA
* * *
27428765 TGATTGCACTTACATGCACCTGTTTGTACTTCGATACCTC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGATACCTC
* * * * *
27428805 TAATTGCACTTATGTGCCCCTATTTGTACTGCGGTACCCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGATACCTC
*
27428845 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTA-CTCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGATACCT-C
* * * *
27428885 TGATTGCACTTATGTGCCCCTGTTTGCACTTTGATAACC-C
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGAT-ACCTC
* *
27428925 TGGTTGCACTTCCGTGCCCCT
1 TGATTGCACTTACGTGCCCCT
27428946 GGTTATACTT
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 115 0.97
41 1 0.01
42 1 0.01
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTATTTGTACTTCGATACCTC
Found at i:27428898 original size:80 final size:80
Alignment explanation
Indices: 27428765--27428967 Score: 246
Period size: 80 Copynumber: 2.5 Consensus size: 80
27428755 AATTATTGAA
* * *
27428765 TGATTGCACTTACATGCACCTGTTTGTACTTCGATACCTCTAATTGCACTTATGTGCCCCTATTT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCTCTAATTGCACTTATGTGCCCCTATTT
* * *
27428830 GTACTGCGGTACCCC
66 GCACTGCGATAACCC
* * *
27428845 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTA-CTCCTGATTGCACTTATGTGCCCCTGTT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCT-CTAATTGCACTTATGTGCCCCTATT
**
27428909 TGCACTTTGATAACCC
65 TGCACTGCGATAACCC
* * * * *
27428925 TGGTTGCACTTCCGTGCCCCTGGTTATACTTCGGTAACTCTAA
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCTCTAA
27428968 ATCAAATATT
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 100 0.96
81 2 0.02
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (80 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCTCTAATTGCACTTATGTGCCCCTATTT
GCACTGCGATAACCC
Found at i:27428949 original size:20 final size:20
Alignment explanation
Indices: 27428765--27428946 Score: 79
Period size: 20 Copynumber: 9.1 Consensus size: 20
27428755 AATTATTGAA
* *
27428765 TGATTGCACTTACATGCACC
1 TGATTGCACTTACGTGCCCC
* * * *
27428785 TGTTTGTACTT-CGATACCTC
1 TGATTGCACTTACG-TGCCCC
* *
27428805 TAATTGCACTTATGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * *
27428825 T-ATTTGTAC-TGCGGTACCCC
1 TGA-TTGCACTTAC-GTGCCCC
27428845 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * *
27428865 T-ATTTGTACTT-CGGTACTCC
1 TGA-TTGCACTTAC-GTGCCCC
*
27428885 TGATTGCACTTATGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * **
27428905 TGTTTGCACTT-TGATAACCC
1 TGATTGCACTTACG-TGCCCC
* *
27428925 TGGTTGCACTTCCGTGCCCC
1 TGATTGCACTTACGTGCCCC
27428945 TG
1 TG
27428947 GTTATACTTC
Statistics
Matches: 117, Mismatches: 33, Indels: 24
0.67 0.19 0.14
Matches are distributed among these distances:
19 7 0.06
20 104 0.89
21 6 0.05
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCC
Found at i:27430830 original size:12 final size:12
Alignment explanation
Indices: 27430813--27430859 Score: 85
Period size: 12 Copynumber: 3.8 Consensus size: 12
27430803 TAGTTTCTTC
27430813 AAAAAAAATTCAA
1 AAAAAAAATTC-A
27430826 AAAAAAAATTCA
1 AAAAAAAATTCA
27430838 AAAAAAAATTCA
1 AAAAAAAATTCA
27430850 AAAAAAAATT
1 AAAAAAAATT
27430860 GGTTTCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 23 0.68
13 11 0.32
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:27430831 original size:13 final size:13
Alignment explanation
Indices: 27430813--27430857 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
27430803 TAGTTTCTTC
27430813 AAAAAAAATTCAA
1 AAAAAAAATTCAA
27430826 AAAAAAAATTC-A
1 AAAAAAAATTCAA
27430838 AAAAAAAATTCAA
1 AAAAAAAATTCAA
27430851 AAAAAAA
1 AAAAAAA
27430858 TTGGTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:27432880 original size:10 final size:10
Alignment explanation
Indices: 27432865--27432926 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
27432855 TTTGAACCAT
*
27432865 TACCAATTCG
1 TACCAATTCA
*
27432875 TACCAAATACCA
1 TACC-AAT-TCA
*
27432887 TACCATTTCA
1 TACCAATTCA
27432897 TACCAATTCCA
1 TACCAATT-CA
* *
27432908 TACCATTTCG
1 TACCAATTCA
27432918 TACCAATTC
1 TACCAATTC
27432927 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:27432910 original size:21 final size:21
Alignment explanation
Indices: 27432865--27432927 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
27432855 TTTGAACCAT
* *
27432865 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
27432887 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
27432908 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
27432928 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:27433575 original size:23 final size:24
Alignment explanation
Indices: 27433523--27433575 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
27433513 GAGTTATTTT
27433523 TTCAG-TTGAACATCTATGCATAA
1 TTCAGATTGAACATCTATGCATAA
*
27433546 TTC-GATTGAACAT-TCATGCAT-G
1 TTCAGATTGAACATCT-ATGCATAA
27433568 TTCAGATT
1 TTCAGATT
27433576 CAATGGAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (24 bp):
TTCAGATTGAACATCTATGCATAA
Found at i:27439273 original size:20 final size:20
Alignment explanation
Indices: 27439244--27439281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27439234 CTCTAGTTTC
27439244 CACACACCCGTGTCAAAAGG
1 CACACACCCGTGTCAAAAGG
* *
27439264 CACACGCCCGTGTGAAAA
1 CACACACCCGTGTCAAAA
27439282 CCACTGCACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.21, T:0.11
Consensus pattern (20 bp):
CACACACCCGTGTCAAAAGG
Found at i:27441234 original size:21 final size:21
Alignment explanation
Indices: 27441190--27441252 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
27441180 TTTGAACCAT
* * *
27441190 TACCAATTCGTACCAAATACCA
1 TACCATTTCATACC-AATTCCA
*
27441212 TACCATTTCATATCAATTCCA
1 TACCATTTCATACCAATTCCA
*
27441233 TACCATTTCGTACCAATTCC
1 TACCATTTCATACCAATTCC
27441253 CAAATACCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 24 0.69
22 11 0.31
ACGTcount: A:0.33, C:0.32, G:0.03, T:0.32
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:27447944 original size:7 final size:9
Alignment explanation
Indices: 27447916--27447946 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27447906 ATTAATGTTA
27447916 ATATAACAT
1 ATATAACAT
27447925 ATATAACAT
1 ATATAACAT
*
27447934 ATATAAAAT
1 ATATAACAT
27447943 ATAT
1 ATAT
27447947 TCATCTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (9 bp):
ATATAACAT
Found at i:27448431 original size:22 final size:22
Alignment explanation
Indices: 27448405--27448451 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
27448395 GAAGGTGGTG
*
27448405 GTTGTGTAAGCGTCAGCTTTTT
1 GTTGTGTAAGCATCAGCTTTTT
27448427 GTTGTGTAAGCATCAGCTTTTT
1 GTTGTGTAAGCATCAGCTTTTT
27448449 GTT
1 GTT
27448452 TCCAAGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.47
Consensus pattern (22 bp):
GTTGTGTAAGCATCAGCTTTTT
Found at i:27452362 original size:17 final size:17
Alignment explanation
Indices: 27452310--27452362 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
27452300 ACAACCTAGC
*
27452310 CACATGGCCGTGTGAGG
1 CACACGGCCGTGTGAGG
* *
27452327 CACACGACC---TG-GC
1 CACACGGCCGTGTGAGG
27452340 CACACGGCCGTGTGAGG
1 CACACGGCCGTGTGAGG
27452357 CACACG
1 CACACG
27452363 AAGGTATTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 9 0.33
14 2 0.07
16 2 0.07
17 14 0.52
ACGTcount: A:0.21, C:0.34, G:0.34, T:0.11
Consensus pattern (17 bp):
CACACGGCCGTGTGAGG
Found at i:27452362 original size:30 final size:30
Alignment explanation
Indices: 27452287--27452363 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
27452277 TGTGTCTCAT
* *
27452287 CCGTGTGAGGCACACAACCTAGCCACATGG
1 CCGTGTGAGGCACACGACCTAGCCACACGG
*
27452317 CCGTGTGAGGCACACGACCTGGCCACACGG
1 CCGTGTGAGGCACACGACCTAGCCACACGG
27452347 CCGTGTGAGGCACACGA
1 CCGTGTGAGGCACACGA
27452364 AGGTATTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.23, C:0.34, G:0.31, T:0.12
Consensus pattern (30 bp):
CCGTGTGAGGCACACGACCTAGCCACACGG
Found at i:27458089 original size:23 final size:23
Alignment explanation
Indices: 27458057--27458102 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
27458047 ATAAAATGTT
27458057 TGTTTGAAATTTAAGTTTGATTA
1 TGTTTGAAATTTAAGTTTGATTA
*
27458080 TGTTTTAAATTTAAGTTTGATTA
1 TGTTTGAAATTTAAGTTTGATTA
27458103 CTTTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.54
Consensus pattern (23 bp):
TGTTTGAAATTTAAGTTTGATTA
Found at i:27463443 original size:27 final size:27
Alignment explanation
Indices: 27463412--27463819 Score: 357
Period size: 27 Copynumber: 15.2 Consensus size: 27
27463402 GAGAGGTTAA
**
27463412 AAAATGACTGAATTACCCTTGAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
*
27463439 AAAATGACTGACTTACCCCCGAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
*
27463466 AAAATGA-TAGAATTA-CCCCGTAGGGT
1 AAAATGACT-GAATTACCCCCGAAGGGT
**
27463492 -AAATGACTGAATTAGTCCCGAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
*
27463518 AAAATGATTGAATTACCCCCGAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
* * *
27463545 AAAATGACTGAATTACCACCAAAAGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
* * * * * *
27463572 AGACTGACCGAATTACACCCAAAAGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
* * *
27463599 -AAATGA-TCAAATTACCCCTGAATGGT
1 AAAATGACT-GAATTACCCCCGAAGGGT
* ** *
27463625 AAATTGACTGAATTACCCCTAAAGGTT
1 AAAATGACTGAATTACCCCCGAAGGGT
* * *
27463652 AAAATGA-TCAAATTACCCTCGAATGGT
1 AAAATGACT-GAATTACCCCCGAAGGGT
* * *
27463679 AAAATGATTGAATTACCCTCAAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
* *
27463706 AACATGA-TCGAATTACCCCCAAAGGGT
1 AAAATGACT-GAATTACCCCCGAAGGGT
*
27463733 AAAATGA-TCGAATTACCCCCTAAAGGGT
1 AAAATGACT-GAATTACCCCC-GAAGGGT
* *
27463761 AAAATAACTGAATTA-CCCCGAAACGGT
1 AAAATGACTGAATTACCCCCG-AAGGGT
* **
27463788 AAAATGACCGAATTACCCCTAAAGGGT
1 AAAATGACTGAATTACCCCCGAAGGGT
27463815 AAAAT
1 AAAAT
27463820 TACCAAAATC
Statistics
Matches: 314, Mismatches: 53, Indels: 28
0.79 0.13 0.07
Matches are distributed among these distances:
25 12 0.04
26 40 0.13
27 237 0.75
28 24 0.08
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (27 bp):
AAAATGACTGAATTACCCCCGAAGGGT
Found at i:27463680 original size:134 final size:132
Alignment explanation
Indices: 27463412--27463819 Score: 421
Period size: 134 Copynumber: 3.0 Consensus size: 132
27463402 GAGAGGTTAA
** * * * * * * *
27463412 AAAATGACTGAATTACCCTTGAAGGGTAAAATGACTGACTTACCCCCGAAGGGTAAAATGAT-AG
1 AAAATGACTGAATTACCCTCAAAAGGTAACATGACCGAATTACACCCAAAAGGTAAAATGATCA-
* * * *
27463476 AATTACCCC-GTAGGGTAAATGACTGAATTAGTCCCGAAGGGTAAAATGATTGAATTACCCCCGA
65 AATTACCCCTGAAGGGTAAATGACTGAATTA--CCCCAAAGGTAAAATGATCGAATTACCCCCGA
27463540 AGGGT
128 AGGGT
27463545 AAAATGACTGAATTACCAC-CAAAAGGTAGAC-TGACCGAATTACACCCAAAAGGT-AAATGATC
1 AAAATGACTGAATTACC-CTCAAAAGGTA-ACATGACCGAATTACACCCAAAAGGTAAAATGATC
* * *
27463607 AAATTACCCCTGAATGGTAAATTGACTGAATTACCCCTAAAGGTTAAAATGATCAAATTACCCTC
64 AAATTACCCCTGAAGGGTAAA-TGACTGAATTACCCC-AAAGG-TAAAATGATCGAATTACCCCC
*
27463672 GAATGGT
126 GAAGGGT
* * * * * *
27463679 AAAATGATTGAATTACCCTCAAAGGGTAACATGATCGAATTACCCCCAAAGGGTAAAATGATCGA
1 AAAATGACTGAATTACCCTCAAAAGGTAACATGACCGAATTACACCCAAAAGGTAAAATGATCAA
* * * **
27463744 ATTACCCCCTAAAGGGTAAAATAACTGAATTACCCCGAAACGGTAAAATGACCGAATTACCCCTA
66 ATTA-CCCCTGAAGGGT-AAATGACTGAATTACCCC-AAA-GGTAAAATGATCGAATTACCCCCG
27463809 AAGGGT
127 AAGGGT
27463815 AAAAT
1 AAAAT
27463820 TACCAAAATC
Statistics
Matches: 229, Mismatches: 33, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
132 19 0.08
133 57 0.25
134 81 0.35
135 13 0.06
136 54 0.24
137 5 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (132 bp):
AAAATGACTGAATTACCCTCAAAAGGTAACATGACCGAATTACACCCAAAAGGTAAAATGATCAA
ATTACCCCTGAAGGGTAAATGACTGAATTACCCCAAAGGTAAAATGATCGAATTACCCCCGAAGG
GT
Found at i:27463924 original size:24 final size:23
Alignment explanation
Indices: 27463893--27463997 Score: 129
Period size: 24 Copynumber: 4.4 Consensus size: 23
27463883 CCCCTCGAGG
* *
27463893 TTAAATGATTGATTTGTCTGTGA
1 TTAAATGACTGATTTGTCTATGA
*
27463916 TGTAAATGACTGATTTGTTTATGA
1 T-TAAATGACTGATTTGTCTATGA
27463940 TGTAAATGACTGATTTGTCTATGA
1 T-TAAATGACTGATTTGTCTATGA
* *
27463964 CTTAAATGACTGATTTGACTGTGA
1 -TTAAATGACTGATTTGTCTATGA
27463988 TTCAAATGAC
1 TT-AAATGAC
27463998 CATTTTGCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 69 0.95
25 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (23 bp):
TTAAATGACTGATTTGTCTATGA
Found at i:27464021 original size:72 final size:72
Alignment explanation
Indices: 27463893--27464026 Score: 164
Period size: 72 Copynumber: 1.9 Consensus size: 72
27463883 CCCCTCGAGG
* * * *
27463893 TTAAATGATTGATTTGTCTGTGATGTAAATGACTGATTTGTTTATGATGTAAATGACTGATTTGT
1 TTAAATGACTGATTTGACTGTGATGTAAATGACTCATTTGCTTATGATGTAAATGACTGATTTGT
27463958 CTATGAC
66 CTATGAC
* * **
27463965 TTAAATGACTGATTTGACTGTGAT-TCAAATGAC-CATTTTGCTTGTGATTTGTATGACTGATT
1 TTAAATGACTGATTTGACTGTGATGT-AAATGACTCA-TTTGCTTATGATGTAAATGACTGATT
27464027 CTGAGCATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 50 0.96
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (72 bp):
TTAAATGACTGATTTGACTGTGATGTAAATGACTCATTTGCTTATGATGTAAATGACTGATTTGT
CTATGAC
Found at i:27464270 original size:32 final size:32
Alignment explanation
Indices: 27464213--27464355 Score: 205
Period size: 32 Copynumber: 4.5 Consensus size: 32
27464203 GATCAGTTTG
* *
27464213 TGCCAATCATATCACCATTATTGATGGCTTTC
1 TGCCAATCATATTACCGTTATTGATGGCTTTC
* * *
27464245 TGCCGATCATATTACCGTTACTGATGGCTTTG
1 TGCCAATCATATTACCGTTATTGATGGCTTTC
27464277 TGCCAATCATATTACCGTTATTGATGGCTTTC
1 TGCCAATCATATTACCGTTATTGATGGCTTTC
** * *
27464309 TGCTGATCATATTACCATTATTGATGGCTTTG
1 TGCCAATCATATTACCGTTATTGATGGCTTTC
27464341 TGCCAATCATATTAC
1 TGCCAATCATATTAC
27464356 TGTACTTATG
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 97 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (32 bp):
TGCCAATCATATTACCGTTATTGATGGCTTTC
Found at i:27464300 original size:64 final size:64
Alignment explanation
Indices: 27464209--27464355 Score: 249
Period size: 64 Copynumber: 2.3 Consensus size: 64
27464199 TACTGATCAG
* *
27464209 TTTGTGCCAATCATATCACCATTATTGATGGCTTTCTGCCGATCATATTACCGTTACTGATGGC
1 TTTGTGCCAATCATATTACCATTATTGATGGCTTTCTGCCGATCATATTACCATTACTGATGGC
* * *
27464273 TTTGTGCCAATCATATTACCGTTATTGATGGCTTTCTGCTGATCATATTACCATTATTGATGGC
1 TTTGTGCCAATCATATTACCATTATTGATGGCTTTCTGCCGATCATATTACCATTACTGATGGC
27464337 TTTGTGCCAATCATATTAC
1 TTTGTGCCAATCATATTAC
27464356 TGTACTTATG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (64 bp):
TTTGTGCCAATCATATTACCATTATTGATGGCTTTCTGCCGATCATATTACCATTACTGATGGC
Found at i:27466843 original size:27 final size:27
Alignment explanation
Indices: 27466803--27467103 Score: 306
Period size: 27 Copynumber: 11.2 Consensus size: 27
27466793 GAGAGGTGAA
* * *
27466803 AAAATGGTCAAATTACCGCTGAAGGGT
1 AAAATGATCGAATTACCCCTGAAGGGT
* * *
27466830 AAAATGATCGAATTACCCCCGAAAGTT
1 AAAATGATCGAATTACCCCTGAAGGGT
27466857 AAAATGATCGAATTA-CCCTCGAAGGGT
1 AAAATGATCGAATTACCCCT-GAAGGGT
* *
27466884 AAAATGATCGAATTACCCCCGAAAGGT
1 AAAATGATCGAATTACCCCTGAAGGGT
* *
27466911 AAAATGATTGAATTACCCCCGAAGGGT
1 AAAATGATCGAATTACCCCTGAAGGGT
* **
27466938 -AAATGA-CTTAATTACCCCCAAAGGGT
1 AAAATGATC-GAATTACCCCTGAAGGGT
* * *
27466964 AAAATGA-CAAAATTACCCTTGATGGGT
1 AAAATGATC-GAATTACCCCTGAAGGGT
* * *
27466991 AAAATGACCGAAGTACCCTTGAAGGGT
1 AAAATGATCGAATTACCCCTGAAGGGT
* *
27467018 AAAATGACCGAATTACCCCCGAAGGGT
1 AAAATGATCGAATTACCCCTGAAGGGT
* * *
27467045 AAAATGACCGAATTACCCTTAAAGGGT
1 AAAATGATCGAATTACCCCTGAAGGGT
*
27467072 AAAATGA-CTAAATTACCCCTGAAGGGT
1 AAAATGATC-GAATTACCCCTGAAGGGT
27467099 AAAAT
1 AAAAT
27467104 AACCAAAATA
Statistics
Matches: 234, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 26 0.11
27 204 0.87
28 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (27 bp):
AAAATGATCGAATTACCCCTGAAGGGT
Found at i:27467059 original size:81 final size:81
Alignment explanation
Indices: 27466813--27467103 Score: 343
Period size: 81 Copynumber: 3.6 Consensus size: 81
27466803 AAAATGGTCA
* * * * *
27466813 AATTACCGC-TGAAGGGTAAAATGATCGAATTACCCCCGAAAGTTAAAATGATCGAATTACCCTC
1 AATTACC-CTTGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCC
*
27466877 GAAGGGTAAAATGATCG
65 GAAGGGTAAAATGACCG
** * ** ** *
27466894 AATTACCCCCGAAAGGTAAAATGATTGAATTACCCCCGAAGGGT-AAATGACTTAATTACCCCCA
1 AATTACCCTTGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCCG
**
27466958 AAGGGTAAAATGACAA
66 AAGGGTAAAATGACCG
* * **
27466974 AATTACCCTTGATGGGTAAAATGACCGAAGTACCCTTGAAGGGTAAAATGACCGAATTACCCCCG
1 AATTACCCTTGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCCG
27467039 AAGGGTAAAATGACCG
66 AAGGGTAAAATGACCG
* ** *
27467055 AATTACCCTTAAAGGGTAAAATGACTAAATTACCCCTGAAGGGTAAAAT
1 AATTACCCTTGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAAT
27467104 AACCAAAATA
Statistics
Matches: 175, Mismatches: 33, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
80 64 0.37
81 111 0.63
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (81 bp):
AATTACCCTTGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCCG
AAGGGTAAAATGACCG
Found at i:27467155 original size:81 final size:81
Alignment explanation
Indices: 27466870--27467161 Score: 234
Period size: 81 Copynumber: 3.6 Consensus size: 81
27466860 ATGATCGAAT
* * * * * * *
27466870 TACCCTCGAAGGGTAAAATGATCGAATTACCCCCGAAAG-GTAAAATGATTGAATTACCCCCGAA
1 TACCCCCGAAGGGTAAAATGACCGAATTA-CCCCTAAAGCGTAAAATGACTAAAGTACCCCTGAA
* ** *
27466934 GGGT-AAATGACTTAAT
65 GGGTAAAATAACCAAAA
* ** * * * * ** *
27466950 TACCCCCAAAGGGTAAAATGACAAAATTACCCTTGATGGGTAAAATGACCGAAGTACCCTTGAAG
1 TACCCCCGAAGGGTAAAATGACCGAATTACCCCTAAAGCGTAAAATGACTAAAGTACCCCTGAAG
* * *
27467015 GGTAAAATGACCGAAT
66 GGTAAAATAACCAAAA
* * *
27467031 TACCCCCGAAGGGTAAAATGACCGAATTACCCTTAAAGGGTAAAATGACTAAATTACCCCTGAAG
1 TACCCCCGAAGGGTAAAATGACCGAATTACCCCTAAAGCGTAAAATGACTAAAGTACCCCTGAAG
27467096 GGTAAAATAACCAAAA
66 GGTAAAATAACCAAAA
* * * * *
27467112 TACCTCTGTAA-TGTAAAATGACCGTAA-TGCCCCTAGAGCGT-AAATGACTA
1 TACCCCCG-AAGGGTAAAATGACCG-AATTACCCCTAAAGCGTAAAATGACTA
27467162 TTTTTCCCCT
Statistics
Matches: 173, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
79 5 0.03
80 57 0.33
81 107 0.62
82 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (81 bp):
TACCCCCGAAGGGTAAAATGACCGAATTACCCCTAAAGCGTAAAATGACTAAAGTACCCCTGAAG
GGTAAAATAACCAAAA
Found at i:27467208 original size:24 final size:24
Alignment explanation
Indices: 27467178--27467225 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
27467168 CCCTCGAGGT
* *
27467178 TAAATGATTGATTTGTCTGTGATG
1 TAAATGACTGATTTGTCTATGATG
27467202 TAAATGACTGATTTGTCTATGATG
1 TAAATGACTGATTTGTCTATGATG
27467226 GCTTTGTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTATGATG
Found at i:27467307 original size:32 final size:32
Alignment explanation
Indices: 27467271--27467428 Score: 208
Period size: 32 Copynumber: 4.9 Consensus size: 32
27467261 TGAAGTACCC
*
27467271 CTGATGGCTTTGTACCGATCATATCACTGTTA
1 CTGATGGCTTTGTACCGATCATATTACTGTTA
* *
27467303 CTGATGACTTTGTGCCGATCATATTACTGTTA
1 CTGATGGCTTTGTACCGATCATATTACTGTTA
** * *
27467335 CTGATGGCTTTGTACTAATTATATTATTGTTA
1 CTGATGGCTTTGTACCGATCATATTACTGTTA
* *
27467367 CTGATGTCTTTGTACCGATCATATTACCGTTA
1 CTGATGGCTTTGTACCGATCATATTACTGTTA
* * *
27467399 CTGATGGTTTTGTGCCAATCATATTACTGT
1 CTGATGGCTTTGTACCGATCATATTACTGT
27467429 ACTTATGACT
Statistics
Matches: 106, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 106 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (32 bp):
CTGATGGCTTTGTACCGATCATATTACTGTTA
Found at i:27467345 original size:64 final size:64
Alignment explanation
Indices: 27467271--27467439 Score: 232
Period size: 64 Copynumber: 2.7 Consensus size: 64
27467261 TGAAGTACCC
* * * *
27467271 CTGATGGCTTTGTACCGATCATATCACTGTTACTGATGACTTTGTGCCGATCATATTACTGTTA
1 CTGATGGCTTTGTACCAATCATATTACTGTTACTGATGACTTTGTACCGATCATATTACCGTTA
* * * *
27467335 CTGATGGCTTTGTACTAATTATATTATTGTTACTGATGTCTTTGTACCGATCATATTACCGTTA
1 CTGATGGCTTTGTACCAATCATATTACTGTTACTGATGACTTTGTACCGATCATATTACCGTTA
* * *
27467399 CTGATGGTTTTGTGCCAATCATATTACTG-TACTTATGACTT
1 CTGATGGCTTTGTACCAATCATATTACTGTTACTGATGACTT
27467440 GTAGCCATTC
Statistics
Matches: 90, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
63 10 0.11
64 80 0.89
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (64 bp):
CTGATGGCTTTGTACCAATCATATTACTGTTACTGATGACTTTGTACCGATCATATTACCGTTA
Found at i:27467523 original size:37 final size:37
Alignment explanation
Indices: 27467470--27467542 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
27467460 TTAGAGCTAT
* *
27467470 CCTGTTTACGGGTCTTAGCCATTTTGATTACTGGCAG
1 CCTGTTTACAGCTCTTAGCCATTTTGATTACTGGCAG
*
27467507 CCTGTTTACAGCTCTTATCCATTTTGATTACTGGCA
1 CCTGTTTACAGCTCTTAGCCATTTTGATTACTGGCA
27467543 ACTTTGCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (37 bp):
CCTGTTTACAGCTCTTAGCCATTTTGATTACTGGCAG
Found at i:27477140 original size:28 final size:28
Alignment explanation
Indices: 27477100--27477190 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
27477090 CAGTGGTAGT
27477100 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
27477128 ACAGTGTGGGCCTTAGCCCAATACAGA-A
1 ACAGTGTGGGCCTTAGCCCAATACA-ATA
* * *
27477156 TCAGTGTGGGCCTTATCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
*
27477184 ATAGTGT
1 ACAGTGT
27477191 AGTACAATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 55 0.98
29 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:27477638 original size:27 final size:27
Alignment explanation
Indices: 27477608--27478058 Score: 409
Period size: 27 Copynumber: 16.9 Consensus size: 27
27477598 TATAACAGTT
* *
27477608 ATTTTACCTTATGGGGGCATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* ** *
27477635 ATTTTACGCTATAAGGGTA-TTCCAGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
* * * ** * *
27477662 ATTTTACCTTATGAGGATCCTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCGATC
** *
27477689 A-TTTACCCTATAAGGGTATTTCGATT
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
27477715 ATTTTACCTTATGGGGGTATTT-AATAC
1 ATTTTACCCTATGGGGGTATTTCGAT-C
27477742 ATTTTACCCTAT-GGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
*
27477768 ATTTTACCCTATGGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
**
27477795 ATTTTACCCTATAAGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* * *
27477822 ATTTTACCTTATGGGGGTATTTCGTTT
1 ATTTTACCCTATGGGGGTATTTCGATC
*
27477849 ATTTTACCCTAT-GGGGTATTT-TAGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
*
27477875 ATTTTACCCTATGGGGGTA-TTCTGGTC
1 ATTTTACCCTATGGGGGTATTTC-GATC
* * * *
27477902 ATTTAACCTTATGGGGGTATTTTGTTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
27477929 A-TTTACCCTATAGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* ** *
27477955 ATTTTACCTTATAAGGGTATTT-GGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
*
27477981 ATTTTACCCT-TGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* * * *
27478007 ATTTTACCTTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
**
27478034 ATTTTACCCTATAAGGGTATTTCGA
1 ATTTTACCCTATGGGGGTATTTCGA
27478059 CCTCTCAGAA
Statistics
Matches: 347, Mismatches: 63, Indels: 28
0.79 0.14 0.06
Matches are distributed among these distances:
25 9 0.03
26 119 0.34
27 214 0.62
28 5 0.01
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGATC
Found at i:27477733 original size:80 final size:78
Alignment explanation
Indices: 27477605--27478055 Score: 428
Period size: 80 Copynumber: 5.7 Consensus size: 78
27477595 GGGTATAACA
* * * * *
27477605 GTTATTTTACCTTATGGGGGCATTTCGATCATTTTACGCTATAAGGGTATTCCAGTCATTTTACC
1 GTTATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGGGTATT-TAGTCATTTTACC
*
27477670 TTATGAGGATCCTTCG
65 TTATGGGGAT--TTCG
* * * ** *
27477686 GTTA-TTTACCCTATAAGGGTATTTCGATTATTTTACCTTATGGGGGTATTTAATACATTTTACC
1 GTTATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTAGT-CATTTTACC
*
27477750 CTATGGGGTATTTCG
65 TTATGGGG-ATTTCG
* * * * *
27477765 ATCATTTTACCCTATGGGGGTATTTTGATCATTTTACCCTATAAGGGTATTTCGATCATTTTACC
1 GTTATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTAG-TCATTTTACC
27477830 TTATGGGGGTATTTCG
65 TTAT-GGGG-ATTTCG
* * ** * *
27477846 TTTATTTTACCCTAT-GGGGTATTT-TAGTCATTTTACCCTATGGGGGTATTCTGGTCATTTAAC
1 GTTATTTTACCCTATAGGGGTATTTCGA-TCATTTTACCCTATAAGGGTATT-TAGTCATTTTAC
*
27477909 CTTATGGGGGTATTT-T
64 CTTAT-GGGG-ATTTCG
* * *
27477925 GTTCA-TTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATAAGGGTATTTGGTCATTTTACC
1 GTT-ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTAGTCATTTTA-C
*
27477989 CTT-GGGGGTATTTCG
64 CTTATGGGG-ATTTCG
* * * *
27478004 GTCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAAGGGTATTT
1 GTTATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGGGTATTT
27478056 CGACCTCTCA
Statistics
Matches: 311, Mismatches: 46, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
78 10 0.03
79 77 0.25
80 191 0.61
81 33 0.11
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (78 bp):
GTTATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTAGTCATTTTACCT
TATGGGGATTTCG
Found at i:27477759 original size:53 final size:53
Alignment explanation
Indices: 27477608--27478055 Score: 417
Period size: 53 Copynumber: 8.4 Consensus size: 53
27477598 TATAACAGTT
* * * * * *
27477608 ATTTTACCTTATGGGGGCATTTCGATCATTTTACGCTATAAGGGTA-TTCCAGTC
1 ATTTTACCCTATGGGGGTATTT-GGTCATTTTACCCTATAGGGGTATTTCGA-TC
* * * * * * * *
27477662 ATTTTACCTTATGAGGATCCTTCGGTTA-TTTACCCTATAAGGGTATTTCGATT
1 ATTTTACCCTATGGGGGT-ATTTGGTCATTTTACCCTATAGGGGTATTTCGATC
* **
27477715 ATTTTACCTTATGGGGGTATTTAATACATTTTACCCTAT-GGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTGGT-CATTTTACCCTATAGGGGTATTTCGATC
* *
27477768 ATTTTACCCTATGGGGGTATTTTGATCATTTTACCCTATAAGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTA-TTTGGTCATTTTACCCTATAGGGGTATTTCGATC
* * * *
27477822 ATTTTACCTTATGGGGGTATTTCGTTTATTTTACCCTAT-GGGGTATTT-TAGTC
1 ATTTTACCCTATGGGGGTATTT-GGTCATTTTACCCTATAGGGGTATTTCGA-TC
* * * * *
27477875 ATTTTACCCTATGGGGGTATTCTGGTCATTTAACCTTATGGGGGTATTTTGTTC
1 ATTTTACCCTATGGGGGTATT-TGGTCATTTTACCCTATAGGGGTATTTCGATC
* * * *
27477929 A-TTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATAAGGGTATTT-GGTC
1 ATTTTACCCTATGGGGGTATTT-GGTCATTTTACCCTATAGGGGTATTTCGATC
* * *
27477981 ATTTTACCCT-TGGGGGTATTTCGGTCATTTTACCTTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTT-GGTCATTTTACCCTATAGGGGTATTTCGATC
**
27478034 ATTTTACCCTATAAGGGTATTT
1 ATTTTACCCTATGGGGGTATTT
27478056 CGACCTCTCA
Statistics
Matches: 336, Mismatches: 43, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
52 45 0.13
53 185 0.55
54 104 0.31
55 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTATGGGGGTATTTGGTCATTTTACCCTATAGGGGTATTTCGATC
Found at i:27480492 original size:11 final size:11
Alignment explanation
Indices: 27480476--27480500 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27480466 AAAATTTTGG
27480476 AAAAGAATTGA
1 AAAAGAATTGA
27480487 AAAAGAATTGA
1 AAAAGAATTGA
27480498 AAA
1 AAA
27480501 GAAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (11 bp):
AAAAGAATTGA
Found at i:27481393 original size:16 final size:17
Alignment explanation
Indices: 27481362--27481394 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27481352 TCAAGGTCTC
*
27481362 CCTACAGTTTTCAGTTT
1 CCTACAGTTCTCAGTTT
27481379 CCTACAG-TCTCAGTTT
1 CCTACAGTTCTCAGTTT
27481395 ACTCTAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.42
Consensus pattern (17 bp):
CCTACAGTTCTCAGTTT
Found at i:27483906 original size:497 final size:497
Alignment explanation
Indices: 27482972--27483969 Score: 1764
Period size: 497 Copynumber: 2.0 Consensus size: 497
27482962 TATTCTGACT
27482972 GAGACTGCAATGTGTAAGAGGTTTGAAGAAGGCTTAAATGATGATATAAAGCTTTTAGTCAGAAT
1 GAGACTGCAATGTGTAAGAGGTTTGAAGAAGGCTTAAATGATGATATAAAGCTTTTAGTCAGAAT
*
27483037 CATTGAGTTGAAAGAGTTTGTTGTACTAGTTGATCGGGCACATAAAGCTGAAGAGCTGAGCAAAG
66 CATTGAGTTGAAAGAGTTTGTTGTACTAGTTGATCGGGCACATAAAACTGAAGAGCTGAGCAAAG
* * * *
27483102 AAAAAAGACATGCTGAATTTGAAGGTAGAGATTCGAGAAAGAGATTAACAAGAAAGTCGCATTAG
131 AAAAAAGACACGCTGAATTTGAAGCTAGAGATTCGAGAAAGAGATTAACAAGAAAGTCACATCAG
*
27483167 TCAGCATCGAAGAAATTTAAAGAACATCACTATCGTTCTACTACTTCTGCGGGGCATTCTAGTAG
196 TCAGCATCGAAGAAATCTAAAGAACATCACTATCGTTCTACTACTTCTGCGGGGCATTCTAGTAG
*
27483232 AAGCAAGGATACTAGACGCTCCAGTCCTAAACCCTAGGCTACCTCTGTAGCGAGTGTGGGTATTG
261 AAGCAAGGATACCAGACGCTCCAGTCCTAAACCCTAGGCTACCTCTGTAGCGAGTGTGGGTATTG
* *
27483297 TTAGAAACACTAGACCTGAGTGCAAGCATTGTAATAGGCCACATTATGATGAGCGTCGAATGAAA
326 TTAGAAACACCAGACCTGAGTGCAAGCATTGTAATAGGCCACATTATGATGAACGTCGAATGAAA
* * * *
27483362 AATGGAGTGTGTCTCAGGTGTGGTTCCTTAGACCACTCTTTTAGAGGTTGCCTAGATAAATTCGA
391 AATAGAGTGTGTCTCAGGTGTGGTTCCTTAGACCACTATCTTAGAGGTTGCCTAGAGAAATTCGA
*
27483427 GGAAGACAAAGCTCAAACCATGAGGCCGAGCAATACTACTGC
456 GAAAGACAAAGCTCAAACCATGAGGCCGAGCAATACTACTGC
* *
27483469 GAGACTGTAATGTGTAAGAGGTTTGAAGATGGCTTAAATGATGATATAAAGCTTTTAGTCAGAAT
1 GAGACTGCAATGTGTAAGAGGTTTGAAGAAGGCTTAAATGATGATATAAAGCTTTTAGTCAGAAT
27483534 CATTGAGTTGAAAGAGTTTGTTGTACTAGTTGATCGGGCACATAAAACTGAAGAGCTGAGCAAAG
66 CATTGAGTTGAAAGAGTTTGTTGTACTAGTTGATCGGGCACATAAAACTGAAGAGCTGAGCAAAG
*
27483599 AAAAAAGCCACGCTGAATTTGAAGCTAGAGATTCGAGAAAGAGATTAACAAGAAAGTCACATCAG
131 AAAAAAGACACGCTGAATTTGAAGCTAGAGATTCGAGAAAGAGATTAACAAGAAAGTCACATCAG
27483664 TCAGCATCGAAGAAATCTAAAGAACATCACTATCGTTCTACTACTTCTGCGGGGCATTCTAGTAG
196 TCAGCATCGAAGAAATCTAAAGAACATCACTATCGTTCTACTACTTCTGCGGGGCATTCTAGTAG
*
27483729 AAGCAAGGATACCAGACGCTCCAGTCCTAAACCCTAGGCTACCTCTGTAGTGAGTGTGGGTATTG
261 AAGCAAGGATACCAGACGCTCCAGTCCTAAACCCTAGGCTACCTCTGTAGCGAGTGTGGGTATTG
* * *
27483794 TTAGAAACACCAGACCTGAGTGCAAGCTTTGTACTAGGCCACATTATGATTAACGT-GAAATGAA
326 TTAGAAACACCAGACCTGAGTGCAAGCATTGTAATAGGCCACATTATGATGAACGTCG-AATGAA
*
27483858 AAATAGAGTGTGTTTCAGGTGTGGTTCCTTAGACCACTATCTTAGAGGTTGCCTAGAGAAATTCG
390 AAATAGAGTGTGTCTCAGGTGTGGTTCCTTAGACCACTATCTTAGAGGTTGCCTAGAGAAATTCG
* *
27483923 AGAAAGACAAAGCTCAAACCATGAGGCCGAGCAATACTGCTGT
455 AGAAAGACAAAGCTCAAACCATGAGGCCGAGCAATACTACTGC
27483966 GAGA
1 GAGA
27483970 GGTAGACCAC
Statistics
Matches: 476, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
496 1 0.00
497 475 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (497 bp):
GAGACTGCAATGTGTAAGAGGTTTGAAGAAGGCTTAAATGATGATATAAAGCTTTTAGTCAGAAT
CATTGAGTTGAAAGAGTTTGTTGTACTAGTTGATCGGGCACATAAAACTGAAGAGCTGAGCAAAG
AAAAAAGACACGCTGAATTTGAAGCTAGAGATTCGAGAAAGAGATTAACAAGAAAGTCACATCAG
TCAGCATCGAAGAAATCTAAAGAACATCACTATCGTTCTACTACTTCTGCGGGGCATTCTAGTAG
AAGCAAGGATACCAGACGCTCCAGTCCTAAACCCTAGGCTACCTCTGTAGCGAGTGTGGGTATTG
TTAGAAACACCAGACCTGAGTGCAAGCATTGTAATAGGCCACATTATGATGAACGTCGAATGAAA
AATAGAGTGTGTCTCAGGTGTGGTTCCTTAGACCACTATCTTAGAGGTTGCCTAGAGAAATTCGA
GAAAGACAAAGCTCAAACCATGAGGCCGAGCAATACTACTGC
Found at i:27488730 original size:25 final size:25
Alignment explanation
Indices: 27488696--27488754 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
27488686 CTCTTATGAC
* *
27488696 CTTATCGTTACTCAACTCAGAGGAG
1 CTTACCGTTACTCAACTCAGAAGAG
* *
27488721 CTTACCGTTATTCATCTCAGAAGAG
1 CTTACCGTTACTCAACTCAGAAGAG
27488746 CTTACCGTT
1 CTTACCGTT
27488755 TACAACTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (25 bp):
CTTACCGTTACTCAACTCAGAAGAG
Found at i:27499638 original size:13 final size:13
Alignment explanation
Indices: 27499606--27499649 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
27499596 TAGTTTCTCG
* *
27499606 AAAAAAACTCGAA
1 AAAAAAATTCAAA
27499619 AAAAAAATTCAAAA
1 AAAAAAATTC-AAA
27499633 AAAAAAATT-AAA
1 AAAAAAATTCAAA
27499645 AAAAA
1 AAAAA
27499650 CTAGTTTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.29
13 9 0.32
14 11 0.39
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:27499639 original size:14 final size:13
Alignment explanation
Indices: 27499617--27499649 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
27499607 AAAAAACTCG
27499617 AAAAAAAAATTCAA
1 AAAAAAAAATT-AA
27499631 AAAAAAAAATTAA
1 AAAAAAAAATTAA
27499644 AAAAAA
1 AAAAAA
27499650 CTAGTTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTAA
Found at i:27499705 original size:13 final size:13
Alignment explanation
Indices: 27499687--27499724 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
27499677 GGATATCAAG
27499687 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
27499700 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
27499713 TTGTGAAAAAAA
1 TTGTGAAAAAAA
27499725 GAGAGAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:27500676 original size:18 final size:17
Alignment explanation
Indices: 27500655--27500699 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
27500645 GAGTGACGAG
27500655 AGAAAAAGAAACTGAAAA
1 AGAAAAA-AAACTGAAAA
*
27500673 AGAAACAAAAATTGAAAA
1 AGAAA-AAAAACTGAAAA
27500691 AGAAAAAAA
1 AGAAAAAAA
27500700 GATTGGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 19 0.76
19 2 0.08
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (17 bp):
AGAAAAAAAACTGAAAA
Found at i:27500704 original size:18 final size:18
Alignment explanation
Indices: 27500667--27500721 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
27500657 AAAAAGAAAC
27500667 TGAAAAAGAAACAAAA-AT
1 TGAAAAAGAAA-AAAAGAT
27500685 TGAAAAAGAAAAAAAGAT
1 TGAAAAAGAAAAAAAGAT
*
27500703 TGGAGAAAGAAAAGAAAGA
1 T-GAAAAAGAAAA-AAAGA
27500722 GTGCGAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 4 0.12
18 14 0.42
19 10 0.30
20 5 0.15
ACGTcount: A:0.69, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
TGAAAAAGAAAAAAAGAT
Found at i:27510114 original size:15 final size:13
Alignment explanation
Indices: 27510094--27510141 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
27510084 ACTCTCCTCA
27510094 TTCTTTTCTTTCTTT
1 TTCTTTTC--TCTTT
*
27510109 TTCTTTTCACTCTT
1 TTCTTTTCTCT-TT
27510123 TT-TTTTCTCTTT
1 TTCTTTTCTCTTT
27510135 TTCTTTT
1 TTCTTTT
27510142 TCTCACTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
14 4 0.14
15 8 0.28
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTTTTCTCTTT
Found at i:27512236 original size:13 final size:13
Alignment explanation
Indices: 27512218--27512242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27512208 ATTGAATACA
27512218 AAATTTTTTTTTT
1 AAATTTTTTTTTT
27512231 AAATTTTTTTTT
1 AAATTTTTTTTT
27512243 CGATTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
AAATTTTTTTTTT
Found at i:27512249 original size:11 final size:12
Alignment explanation
Indices: 27512222--27512265 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
27512212 AATACAAAAT
**
27512222 TTTTTTTTTAAA
1 TTTTTTTTTCGA
27512234 TTTTTTTTTCGA
1 TTTTTTTTTCGA
27512246 TTTTTTTTTCGA
1 TTTTTTTTTCGA
27512258 TTTTTTTT
1 TTTTTTTT
27512266 ACAATCTCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:27519381 original size:22 final size:22
Alignment explanation
Indices: 27519329--27519392 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
27519319 TATTTGGGAA
* * *
27519329 TTGGTTCGAAATAGTATGGAAT
1 TTGGTACGAAATGGTATGGTAT
27519351 TT-GTACGAAATGGTATGGTAT
1 TTGGTACGAAATGGTATGGTAT
*
27519372 TTGGTACGAATTGGTAATGGT
1 TTGGTACGAAATGGT-ATGGT
27519393 TCAAAGAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 18 0.50
22 13 0.36
23 5 0.14
ACGTcount: A:0.28, C:0.05, G:0.30, T:0.38
Consensus pattern (22 bp):
TTGGTACGAAATGGTATGGTAT
Found at i:27523587 original size:19 final size:20
Alignment explanation
Indices: 27523563--27523607 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
27523553 CTTTTCATTC
*
27523563 TCTTTTTTTGAATTTTC-TT
1 TCTTTTTTTCAATTTTCTTT
*
27523582 TCTTTTTTTCATTTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
27523602 TCTTTT
1 TCTTTT
27523608 GTATTTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (20 bp):
TCTTTTTTTCAATTTTCTTT
Found at i:27525846 original size:17 final size:16
Alignment explanation
Indices: 27525821--27525865 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
27525811 AGACCGTATG
*
27525821 CAATTTTTTTTCTTTT
1 CAATTTTTTTTCCTTT
27525837 CAATTTTTTTTCCTTT
1 CAATTTTTTTTCCTTT
27525853 CAATATTTTTTTC
1 CAAT-TTTTTTTC
27525866 GATTTTGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (16 bp):
CAATTTTTTTTCCTTT
Found at i:27525883 original size:12 final size:13
Alignment explanation
Indices: 27525868--27525896 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27525858 TTTTTTTCGA
27525868 TTTTG-ACTCTTT
1 TTTTGAACTCTTT
27525880 TTTTGAACTCTTT
1 TTTTGAACTCTTT
27525893 TTTT
1 TTTT
27525897 TACGTACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.10, C:0.14, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTGAACTCTTT
Found at i:27526252 original size:22 final size:22
Alignment explanation
Indices: 27526200--27526263 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
27526190 TATTTGGGAA
* * *
27526200 TTGGTTCGAAATAGTATGGAAT
1 TTGGTACGAAATGGTATGGTAT
27526222 TT-GTACGAAATGGTATGGTAT
1 TTGGTACGAAATGGTATGGTAT
*
27526243 TTGGTACGAATTGGTAATGGT
1 TTGGTACGAAATGGT-ATGGT
27526264 TCAAAGAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 18 0.50
22 13 0.36
23 5 0.14
ACGTcount: A:0.28, C:0.05, G:0.30, T:0.38
Consensus pattern (22 bp):
TTGGTACGAAATGGTATGGTAT
Found at i:27528187 original size:42 final size:42
Alignment explanation
Indices: 27528138--27528228 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
27528128 ATGATTAAAA
27528138 TAACTAAAAGAGTTTAAGTCTTATTCCAACAGCTGAATTAGC
1 TAACTAAAAGAGTTTAAGTCTTATTCCAACAGCTGAATTAGC
* *
27528180 TAACTAAAAGAGTTTAAGTCTTATTCCAGCAGTTGAATTAGC
1 TAACTAAAAGAGTTTAAGTCTTATTCCAACAGCTGAATTAGC
*
27528222 TAGCTAA
1 TAACTAA
27528229 GATTGACATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (42 bp):
TAACTAAAAGAGTTTAAGTCTTATTCCAACAGCTGAATTAGC
Found at i:27532739 original size:19 final size:18
Alignment explanation
Indices: 27532717--27532754 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
27532707 ACAATGAAGT
*
27532717 TTCGTTCTTCTTGAGTCAA
1 TTCGTTCTACTTGA-TCAA
27532736 TTCGTTCTACTTGATCAA
1 TTCGTTCTACTTGATCAA
27532754 T
1 T
27532755 GAAGTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.47
Consensus pattern (18 bp):
TTCGTTCTACTTGATCAA
Found at i:27533600 original size:29 final size:29
Alignment explanation
Indices: 27533566--27533638 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
27533556 ATGTATTAGT
* *
27533566 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
*
27533595 TTAGGACATATTTAAAACTCCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
27533624 TTAGGACATATTTAA
1 TTAGGACATATTTAA
27533639 TAATATCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.33
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:27538710 original size:12 final size:12
Alignment explanation
Indices: 27538693--27538738 Score: 74
Period size: 12 Copynumber: 3.7 Consensus size: 12
27538683 ATTAGCTCTC
27538693 TTTTTTTTTCAA
1 TTTTTTTTTCAA
27538705 TTTTTTTTTCACAA
1 TTTTTTTTT--CAA
27538719 TTTTTTTTTCAA
1 TTTTTTTTTCAA
27538731 TTTTTTTT
1 TTTTTTTT
27538739 CACAACTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 20 0.62
14 12 0.38
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:27538712 original size:14 final size:14
Alignment explanation
Indices: 27538693--27538738 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
27538683 ATTAGCTCTC
27538693 TTTTTTTTTCAATT
1 TTTTTTTTTCAATT
**
27538707 TTTTTTTCACAA--
1 TTTTTTTTTCAATT
27538719 TTTTTTTTTCAATT
1 TTTTTTTTTCAATT
27538733 TTTTTT
1 TTTTTT
27538739 CACAACTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 10 0.38
14 16 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTTTCAATT
Found at i:27538729 original size:26 final size:25
Alignment explanation
Indices: 27538693--27538743 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
27538683 ATTAGCTCTC
27538693 TTTTTTTTTCAATTTTTTTTTCACAA
1 TTTTTTTTTCAA-TTTTTTTTCACAA
27538719 TTTTTTTTTCAATTTTTTTTCACAA
1 TTTTTTTTTCAATTTTTTTTCACAA
27538744 CTTGATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTTTTTCAATTTTTTTTCACAA
Found at i:27538798 original size:12 final size:12
Alignment explanation
Indices: 27538781--27538815 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27538771 TGGAAACTAG
27538781 TTTTTTTTCGAA
1 TTTTTTTTCGAA
* *
27538793 TTTTTTTTTGAG
1 TTTTTTTTCGAA
27538805 TTTTTTTTCGA
1 TTTTTTTTCGA
27538816 GAAACTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:27545010 original size:20 final size:19
Alignment explanation
Indices: 27544983--27545042 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
27544973 TCAAGTGCAT
27544983 TCAGCTCAATTTTAGCTCA
1 TCAGCTCAATTTTAGCTCA
* * *
27545002 TCGAGCTCACTCTTAGCTTAA
1 TC-AGCTCAATTTTAGC-TCA
27545023 TCAGCTC-ATTTTAAGCTCA
1 TCAGCTCAATTTT-AGCTCA
27545042 T
1 T
27545043 TTGCGTTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 8 0.25
20 20 0.62
21 4 0.12
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (19 bp):
TCAGCTCAATTTTAGCTCA
Found at i:27558264 original size:21 final size:23
Alignment explanation
Indices: 27558219--27558265 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27558209 TCACCTGCAA
* *
27558219 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
27558242 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
27558263 TAA
1 TAA
27558266 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:27559740 original size:16 final size:16
Alignment explanation
Indices: 27559716--27559746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27559706 TGATTCTGAG
*
27559716 CATGGCATACTGCATA
1 CATGACATACTGCATA
27559732 CATGACATACTGCAT
1 CATGACATACTGCAT
27559747 GGGGTTGGGA
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:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:27567727 original size:13 final size:14
Alignment explanation
Indices: 27567702--27567732 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
27567692 GTAATAGACA
27567702 TTGGACATTAAATT
1 TTGGACATTAAATT
27567716 TTGGAC-TTAAATT
1 TTGGACATTAAATT
27567729 TTGG
1 TTGG
27567733 TAATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGGACATTAAATT
Found at i:27570552 original size:20 final size:20
Alignment explanation
Indices: 27570527--27570565 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27570517 TACTTTCTTC
27570527 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
27570547 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
27570566 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:27570892 original size:50 final size:49
Alignment explanation
Indices: 27570768--27571009 Score: 193
Period size: 50 Copynumber: 4.8 Consensus size: 49
27570758 GATAATAACA
* * * *
27570768 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CG
* * * *
27570817 TGCCAATGCCATATCCAAGATATGGTATTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* * ** *
27570867 TGCCCATGCCATGTCCGAGACATGGTCTTACGA-GGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTCATATC-G
** ** *
27570917 TGCCAATGCCATGTCCCAGACATGGTCTTATTTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC----G
27570973 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
27571010 TCTCATTCCT
Statistics
Matches: 157, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
48 4 0.03
49 35 0.22
50 79 0.50
51 1 0.01
53 2 0.01
56 36 0.23
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:27574804 original size:10 final size:10
Alignment explanation
Indices: 27574789--27574850 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
27574779 TTTGAACCAT
*
27574789 TACCAATTCG
1 TACCAATTCA
*
27574799 TACCAAATACCA
1 TACC-AAT-TCA
*
27574811 TACCATTTCA
1 TACCAATTCA
27574821 TACCAATTCCA
1 TACCAATT-CA
* *
27574832 TACCATTTCG
1 TACCAATTCA
27574842 TACCAATTC
1 TACCAATTC
27574851 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:27574834 original size:21 final size:21
Alignment explanation
Indices: 27574789--27574851 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
27574779 TTTGAACCAT
* *
27574789 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
27574811 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
27574832 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
27574852 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:27581304 original size:27 final size:27
Alignment explanation
Indices: 27581267--27581467 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
27581257 TAAATTGTAC
27581267 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
27581294 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27581321 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27581347 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27581375 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27581403 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27581430 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27581457 AGCACTGAGTG
1 AGCACTAAGTG
27581468 AGCGGACTCA
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27589434 original size:27 final size:27
Alignment explanation
Indices: 27589397--27589597 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
27589387 TAAATTGTAC
27589397 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
27589424 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27589451 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27589477 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27589505 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27589533 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27589560 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27589587 AGCACTGAGTG
1 AGCACTAAGTG
27589598 AGCGGACTCA
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27591178 original size:10 final size:10
Alignment explanation
Indices: 27591163--27591224 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
27591153 TTTGAACCAT
*
27591163 TACCAATTCG
1 TACCAATTCA
*
27591173 TACCAAATACCA
1 TACC-AAT-TCA
*
27591185 TACCATTTCA
1 TACCAATTCA
27591195 TACCAATTCCA
1 TACCAATT-CA
* *
27591206 TACCATTTCG
1 TACCAATTCA
27591216 TACCAATTC
1 TACCAATTC
27591225 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:27591208 original size:21 final size:21
Alignment explanation
Indices: 27591163--27591225 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
27591153 TTTGAACCAT
* *
27591163 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
27591185 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
27591206 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
27591226 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:27598636 original size:20 final size:20
Alignment explanation
Indices: 27598613--27598650 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27598603 TTGAGATGAA
27598613 TTGAACTCGAATGAGCTGAC
1 TTGAACTCGAATGAGCTGAC
* *
27598633 TTGAGCTCGAGTGAGCTG
1 TTGAACTCGAATGAGCTG
27598651 GAAACGAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
TTGAACTCGAATGAGCTGAC
Found at i:27608092 original size:29 final size:27
Alignment explanation
Indices: 27608060--27608125 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
27608050 TCAACATCTT
27608060 TTTCTTTTTCAATTTT-TTTTCAATCTCAA
1 TTTCTTTTTCAATTTTCTTTTC--T-TCAA
* *
27608089 TTTCCTTTTCAATTTTCTTTTCTTCAT
1 TTTCTTTTTCAATTTTCTTTTCTTCAA
27608116 TTTCTTTTTC
1 TTTCTTTTTC
27608126 TCTCACTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 12 0.36
28 1 0.03
29 15 0.45
30 5 0.15
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTCTTTTTCAATTTTCTTTTCTTCAA
Found at i:27608184 original size:18 final size:18
Alignment explanation
Indices: 27608089--27608190 Score: 80
Period size: 18 Copynumber: 5.5 Consensus size: 18
27608079 TCAATCTCAA
*
27608089 TTTCCTTTTCAATTTTCTTT
1 TTTCTTTTTC-ATTTTC-TT
* * *
27608109 TCTTCATTTTCTTTTTCTC
1 T-TTCTTTTTCATTTTCTT
**
27608128 TCACTTTTTCGA-TTTCTT
1 TTTCTTTTTC-ATTTTCTT
* *
27608146 TTTCTTTTGCAATTTCTT
1 TTTCTTTTTCATTTTCTT
27608164 TTTCTTTTTCATTTTCTT
1 TTTCTTTTTCATTTTCTT
*
27608182 TTTGTTTTT
1 TTTCTTTTT
27608191 TTTCAATTTC
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 48 0.74
19 2 0.03
20 6 0.09
21 8 0.12
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCATTTTCTT
Found at i:27608206 original size:6 final size:6
Alignment explanation
Indices: 27608101--27608190 Score: 63
Period size: 6 Copynumber: 14.7 Consensus size: 6
27608091 TCCTTTTCAA
* * ** * *
27608101 TTTTCTT TTCTTCA TTTTCT TTTTCT CTCACT TTTTCG ATTTCT TTTTCT
1 TTTTC-T TT-TTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * * * *
27608151 TTTGCA ATTTCT TTTTCT TTTTCA TTTTCT TTTTGT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
27608191 TTTCAATTTC
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
6 54 0.89
7 4 0.07
8 3 0.05
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (6 bp):
TTTTCT
Found at i:27608208 original size:12 final size:12
Alignment explanation
Indices: 27608060--27608215 Score: 64
Period size: 12 Copynumber: 13.6 Consensus size: 12
27608050 TCAACATCTT
27608060 TTTCTTTTTCAA
1 TTTCTTTTTCAA
27608072 TTT-TTTTTCAA
1 TTTCTTTTTCAA
27608083 --TC----TCAA
1 TTTCTTTTTCAA
*
27608089 TTTCCTTTTCAA
1 TTTCTTTTTCAA
*
27608101 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
**
27608116 TTTCTTTTTCTC
1 TTTCTTTTTCAA
** *
27608128 TCACTTTTTCGA
1 TTTCTTTTTCAA
*
27608140 TTTCTTTTTC-T
1 TTTCTTTTTCAA
** **
27608151 TTTGCAATTTCTT
1 TTT-CTTTTTCAA
*
27608164 TTTCTTTTTCAT
1 TTTCTTTTTCAA
*
27608176 TTTCTTTTT--G
1 TTTCTTTTTCAA
27608186 TTT-TTTTTCAA
1 TTTCTTTTTCAA
27608197 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
27608209 TCTCTTT
1 TTTCTTT
27608216 CTCCTTTTCT
Statistics
Matches: 110, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
6 4 0.04
8 2 0.02
9 6 0.05
10 3 0.03
11 14 0.13
12 60 0.55
13 11 0.10
14 6 0.05
15 4 0.04
ACGTcount: A:0.12, C:0.19, G:0.02, T:0.68
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:27610801 original size:20 final size:20
Alignment explanation
Indices: 27610755--27610793 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27610745 GGGTTGAGGT
27610755 TGAGCTGAATTGAACTCGAA
1 TGAGCTGAATTGAACTCGAA
* *
27610775 TGAGCTGACTTGAGCTCGA
1 TGAGCTGAATTGAACTCGA
27610794 GTGTGCTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAACTCGAA
Found at i:27617544 original size:29 final size:28
Alignment explanation
Indices: 27617497--27617567 Score: 97
Period size: 29 Copynumber: 2.5 Consensus size: 28
27617487 GATCATCAAC
*
27617497 TATGAAAAGGGATTACTTCGGCTATTGAA
1 TATGAAAAGGGA-TACTTCGGCTATCGAA
*
27617526 TATGAAAAGGGATAGCTTCGGCTATCGAT
1 TATGAAAAGGGATA-CTTCGGCTATCGAA
*
27617555 TATAAAAAGGGAT
1 TATGAAAAGGGAT
27617568 GGTGACAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (28 bp):
TATGAAAAGGGATACTTCGGCTATCGAA
Found at i:27629678 original size:34 final size:34
Alignment explanation
Indices: 27629640--27629709 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
27629630 CAACTATGTC
27629640 CAATGGATCCACCATGCAATGTTGCCAATATAAT
1 CAATGGATCCACCATGCAATGTTGCCAATATAAT
27629674 CAATGGATCCACCATGCAATGTTGCCAATATAAT
1 CAATGGATCCACCATGCAATGTTGCCAATATAAT
27629708 CA
1 CA
27629710 TACATACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (34 bp):
CAATGGATCCACCATGCAATGTTGCCAATATAAT
Found at i:27634452 original size:16 final size:16
Alignment explanation
Indices: 27634428--27634465 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27634418 TTTGGTTCGC
* *
27634428 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
27634444 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
27634460 TGTAAT
1 TGTAAT
27634466 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:27634511 original size:45 final size:44
Alignment explanation
Indices: 27634444--27634538 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 44
27634434 GGATTAGAGG
**
27634444 TGTAATGGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAG-AAATC-ATGTGTTTGGTTGAA
* *
27634489 TGTAATGGAATAGAGGCATAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAGAAATCATGTGTTTGGTTGAA
27634533 TGTAAT
1 TGTAAT
27634539 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCATAATAGAAATCATGTGTTTGGTTGAA
Found at i:27634720 original size:18 final size:17
Alignment explanation
Indices: 27634699--27634733 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27634689 TTATTATTAA
*
27634699 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27634717 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27634734 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27634867 original size:15 final size:15
Alignment explanation
Indices: 27634843--27634884 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27634833 TTTAAACATA
*
27634843 ATTATTATTAAATAT
1 ATTATAATTAAATAT
27634858 ATTATAATTAAAT-T
1 ATTATAATTAAATAT
*
27634872 A-TATAATTTAATA
1 ATTATAATTAAATA
27634885 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:27634875 original size:155 final size:157
Alignment explanation
Indices: 27634586--27634900 Score: 544
Period size: 155 Copynumber: 2.0 Consensus size: 157
27634576 TAGAATACCC
*
27634586 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * *
27634651 TTTTCAATAATAAATAATTTAATTATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAAGTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
27634716 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
27634743 TTAGCAGAAATTTGTTTTGGTAAATTA-T-TTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
27634806 ATATCAATAATAAATAAGTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAT
66 ATATCAATAATAAATAAGTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
27634871 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
27634898 TTA
1 TTA
27634901 ATATTCTTAC
Statistics
Matches: 150, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
155 124 0.83
156 1 0.01
157 25 0.17
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAAGTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:27634898 original size:54 final size:54
Alignment explanation
Indices: 27634840--27635025 Score: 153
Period size: 54 Copynumber: 3.2 Consensus size: 54
27634830 ATATTTAAAC
27634840 ATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTA
1 ATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTA
* * * * *
27634894 ATAATTAATATTCTTACATGA-ATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-T-
1 ATAA-T--TATTATTAAAT-ATA-TTA-T--AATTA-AAT-TAT-ATAAT-T-TAATA-AAATTC
*
27634956 TAA
52 TTA
*
27634959 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTA
1 -ATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTA
27635014 ATAATTATTATT
1 ATAATTATTATT
27635026 CTTATATGAA
Statistics
Matches: 101, Mismatches: 13, Indels: 36
0.67 0.09 0.24
Matches are distributed among these distances:
53 3 0.03
54 21 0.21
55 4 0.04
56 4 0.04
57 13 0.13
58 6 0.06
59 5 0.05
61 5 0.05
62 7 0.07
63 13 0.13
64 4 0.04
65 4 0.04
66 9 0.09
67 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (54 bp):
ATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTA
Found at i:27634971 original size:120 final size:121
Alignment explanation
Indices: 27634832--27635129 Score: 469
Period size: 120 Copynumber: 2.5 Consensus size: 121
27634822 AGTTAATCAT
* *
27634832 ATTTAAACATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
27634897 ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
27634954 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
27635017 ATTATTATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
27635073 ATTTGAA-ATAATTAATATTAAATATATT-TAAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTAT-AATTAAAATATATAATTTAATAAAATT
27635130 TAAAATAATT
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
119 4 0.02
120 156 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:27635002 original size:14 final size:15
Alignment explanation
Indices: 27634953--27635004 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27634943 GTAAAATATA
27634953 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27634968 TATTAAATATATTAT
1 AATTAAATATATTAT
27634983 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
27634996 AATTTAATA
1 AATTAAATA
27635005 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:27635140 original size:54 final size:54
Alignment explanation
Indices: 27634832--27635141 Score: 162
Period size: 59 Copynumber: 5.3 Consensus size: 54
27634822 AGTTAATCAT
* *
27634832 ATTTAAACATAATTATTATTAAATATA-TTATAATTAAATTATATAATTTAATAAA
1 ATTTAAA-ATAATTATTATTAAATATATTTA-AATTAAAATATATGATTTAATAAA
* * * *
27634887 ATTCTTAATAATTAA-TATTCTTACATGA-ATTTACTCAAATCATAATATATGATACTGTAAAAT
1 A-T-TTAA-AA-TAATTATTATTAAAT-ATA-TT--T-AAATTAAAATATATGAT--T-T--AAT
27634950 ATAA
52 A-AA
* *
27634954 A-TTAACATAATTATTATTAAATATA-TTATAATTAAAATATATAATTTAATAAA
1 ATTTAAAATAATTATTATTAAATATATTTA-AATTAAAATATATGATTTAATAAA
* * * * * * *
27635007 ATTCTTAATAATTATTATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAAGAA
1 A-T-TTAA-AA-TA--ATTATTAT-TAAATATATTTAAATTAAAATATATGAT--T-T--AATAA
27635072 A
54 A
* *
27635073 ATTTGAAATAATTAATATTAAATATATTTAAATTAAAATATATGATTTAATAAA
1 ATTTAAAATAATTATTATTAAATATATTTAAATTAAAATATATGATTTAATAAA
27635127 ATTTAAAATAATTAT
1 ATTTAAAATAATTAT
27635142 AACTAATAAA
Statistics
Matches: 190, Mismatches: 32, Indels: 67
0.66 0.11 0.23
Matches are distributed among these distances:
53 3 0.02
54 22 0.12
55 1 0.01
56 7 0.04
57 18 0.09
58 8 0.04
59 38 0.20
60 13 0.07
61 33 0.17
62 9 0.05
63 15 0.08
64 9 0.05
65 1 0.01
66 10 0.05
67 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (54 bp):
ATTTAAAATAATTATTATTAAATATATTTAAATTAAAATATATGATTTAATAAA
Found at i:27635177 original size:47 final size:46
Alignment explanation
Indices: 27635113--27635278 Score: 137
Period size: 47 Copynumber: 3.6 Consensus size: 46
27635103 AATTAAAATA
*
27635113 TATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATATTT
1 TATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATATTT
* * *
27635160 TATGAATTTGTATAATTTAAAATAA-TA-AATATTACA-TATAATTT
1 TATGAATTTATATAATTTAAAATAATTATAATAATAAATTAT-ATTT
* * * * * * *
27635204 AAT-AATAATATGTAATTTCATAA-AATTATTAATAATAAATTTTCTTA
1 TATGAAT-TTATATAATTT-AAAATAATTA-TAATAATAAATTATATTT
27635251 TATGAATTTATATAATTTAAAATAATTA
1 TATGAATTTATATAATTTAAAATAATTA
27635279 ATATTAAATA
Statistics
Matches: 91, Mismatches: 18, Indels: 20
0.71 0.14 0.16
Matches are distributed among these distances:
43 6 0.07
44 21 0.23
45 7 0.08
46 5 0.05
47 43 0.47
48 9 0.10
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (46 bp):
TATGAATTTATATAATTTAAAATAATTATAATAATAAATTATATTT
Found at i:27635177 original size:101 final size:98
Alignment explanation
Indices: 27635072--27635322 Score: 268
Period size: 91 Copynumber: 2.6 Consensus size: 98
27635062 TATAAAAGAA
* *
27635072 AATTTGAAATAATTAATATTAAATAT-ATTTAAATTAAAATATATGATTTAATAAAATTTAAAAT
1 AATTTAAAATAATTAATATTAAATATAATTT-AA-TAAAATATAT-ATTTAATAAAATTCAAAA-
* *
27635136 AATTA-TAACTAATAAATTATATTTTATGAATTTGTAT
62 AATTATTAA-TAATAAATTATATTATATGAATTTATAT
* * * *
27635173 AATTTAAAATAATAAATATTACATATAATTTAAT--AATA-ATATGTAAT----TTCATAAAATT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTAATAAAATTCAAAAAATT
* *
27635231 ATTAATAATAAATTTTCTTATATGAATTTATAT
66 ATTAATAATAAATTATATTATATGAATTTATAT
* *
27635264 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTC
1 AATTTAAAATAATTAATATTAAATATAATTTAATAA-AATATAT-ATTTAATAAAATTC
27635323 TTAATAATAA
Statistics
Matches: 124, Mismatches: 15, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
91 61 0.49
92 8 0.06
94 3 0.02
95 2 0.02
96 11 0.09
97 2 0.02
98 4 0.03
100 4 0.03
101 25 0.20
102 4 0.03
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (98 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTAATAAAATTCAAAAAATT
ATTAATAATAAATTATATTATATGAATTTATAT
Found at i:27635231 original size:91 final size:91
Alignment explanation
Indices: 27635136--27635352 Score: 303
Period size: 91 Copynumber: 2.4 Consensus size: 91
27635126 AATTTAAAAT
* * *
27635136 AATTA-TAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATAAATATTACATATA
1 AATTATTAA-TAATAAATTATATTATATGAATTTATATAATTTAAAATAATAAATATTAAATATA
*
27635200 ATTTAATAATAATATGTAATTTCATAA
65 ATTTAATAATAATATATAATTTCATAA
* * *
27635227 AATTATTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTATTAATAATAAATTATATTATATGAATTTATATAATTTAAAATAATAAATATTAAATATAA
*
27635292 TTTAATAATGATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
* *
27635318 AATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 AATTATTAATAAT-AAAT-TATATTATATGAATTTA
27635353 CTAAAATCAA
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
91 91 0.80
92 22 0.19
93 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (91 bp):
AATTATTAATAATAAATTATATTATATGAATTTATATAATTTAAAATAATAAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:27635244 original size:24 final size:26
Alignment explanation
Indices: 27635170--27635245 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
27635160 TATGAATTTG
*
27635170 TATAATTTAA-AATAATAAATATTACA
1 TATAAATTAATAATAATAAAT-TTACA
*
27635196 TATAATTTAATAATAATATGTAATTT-CA
1 TATAAATTAATAATAATA---AATTTACA
*
27635224 TA-AAATTATTAATAATAAATTT
1 TATAAATTAATAATAATAAATTT
27635246 TCTTATATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
24 5 0.11
26 10 0.23
27 20 0.45
28 4 0.09
29 2 0.05
30 3 0.07
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
TATAAATTAATAATAATAAATTTACA
Found at i:27636773 original size:11 final size:11
Alignment explanation
Indices: 27636759--27636785 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27636749 AAAAATCAAT
27636759 ACAAAAGTTTC
1 ACAAAAGTTTC
27636770 ACAAAAGTTTC
1 ACAAAAGTTTC
27636781 ACAAA
1 ACAAA
27636786 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:27642148 original size:41 final size:39
Alignment explanation
Indices: 27642085--27642223 Score: 113
Period size: 39 Copynumber: 3.5 Consensus size: 39
27642075 GTTTGGACAA
* * *
27642085 AAAACGCCACAAAAAATTGAGCATTAGCGGCGCTTTACGT
1 AAAACACCGCAAAAAA-CGAGCATTAGCGGCGCTTTACGT
** *
27642125 AAAATGCCGCCAAAGAAACGAGCATTAGCGGCGCTATT-TGT
1 AAAACACCG-CAAA-AAACGAGCATTAGCGGCGCT-TTACGT
* * *
27642166 AAAACACCGCTAAAAACAAGCATTAGCGGCG-TTTAC-A
1 AAAACACCGCAAAAAACGAGCATTAGCGGCGCTTTACGT
*
27642203 AATAAGCGCCGCAAAAAACGA
1 AA-AA-CACCGCAAAAAACGA
27642224 AAGTCGAACG
Statistics
Matches: 80, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
37 4 0.05
38 3 0.04
39 29 0.36
40 10 0.12
41 29 0.36
42 5 0.06
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (39 bp):
AAAACACCGCAAAAAACGAGCATTAGCGGCGCTTTACGT
Found at i:27642368 original size:41 final size:40
Alignment explanation
Indices: 27642282--27642495 Score: 180
Period size: 41 Copynumber: 5.2 Consensus size: 40
27642272 TTTCAAACCA
** * * * * *
27642282 CGCCGCTAATGCTCCTGTCTTTAGTGGCATTTTTGAATAAT
1 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTCT-AAGAAG
* *
27642323 CGCCGCTAATGCTGC-GGTCTTTAGCAGCGTTTTCTAAGATG
1 CGCCGCTAATGCT-CAGGTCTTTAGCGGCG-TTTCTAAGAAG
* * * *
27642364 CGCCGCTAATGCTCAGGTTTTTAGCGACGCTTTGTAAGAGG
1 CGCCGCTAATGCTCAGGTCTTTAGCGGCG-TTTCTAAGAAG
* * *
27642405 CGCCGCTAATGCT-ACGATCTTCAGCGGCGTTTCTCAGAAAG
1 CGCCGCTAATGCTCA-GGTCTTTAGCGGCGTTTCTAAG-AAG
* * *
27642446 CGCCGGTAATGCTCTGGTCTTTAGCGGCGTTTCTTAAAAAG
1 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTC-TAAGAAG
27642487 CGCCGCTAA
1 CGCCGCTAA
27642496 ATACCTGAGC
Statistics
Matches: 138, Mismatches: 28, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
40 8 0.06
41 123 0.89
42 7 0.05
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (40 bp):
CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTCTAAGAAG
Found at i:27642490 original size:82 final size:81
Alignment explanation
Indices: 27642282--27642495 Score: 216
Period size: 82 Copynumber: 2.6 Consensus size: 81
27642272 TTTCAAACCA
* * * * * * *
27642282 CGCCGCTAATGCTCCT-GTCTTTAGTGGCATTTTTGAATAATCGCCGCTAATGCTGCGGTCTTTA
1 CGCCGCTAATGCT-CTGGTCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTACGATCTTCA
*
27642346 GCAGCGTTTTCTAAGATG
64 GCAGCGTTTTCTAAGAAG
* * * * * *
27642364 CGCCGCTAATGCTCAGGTTTTTAGCGACGCTTTGTAAGAGGCGCCGCTAATGCTACGATCTTCAG
1 CGCCGCTAATGCTCTGGTCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAATGCTACGATCTTCAG
* *
27642429 CGGCG-TTTCTCAGAAAG
65 CAGCGTTTTCTAAG-AAG
*
27642446 CGCCGGTAATGCTCTGGTCTTTAGCGGCGTTTCTTAAAAAGCGCCGCTAA
1 CGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT-TTAAAAAGCGCCGCTAA
27642496 ATACCTGAGC
Statistics
Matches: 106, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
81 11 0.10
82 91 0.86
83 4 0.04
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (81 bp):
CGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTACGATCTTCAGC
AGCGTTTTCTAAGAAG
Found at i:27642511 original size:41 final size:41
Alignment explanation
Indices: 27642427--27642559 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
27642417 TACGATCTTC
* * * * *
27642427 AGCGGCGTTTCTCAGAAAGCGCCGGT-AATGCTCTG-GTCTTT
1 AGCGGCGTTTCTTAAAAAGCGCCGCTAAATAC-CTGAG-CATT
27642468 AGCGGCGTTTCTTAAAAAGCGCCGCTAAATACCTGAGCATT
1 AGCGGCGTTTCTTAAAAAGCGCCGCTAAATACCTGAGCATT
** * * *
27642509 AGCGGCGCATCTTAGAAAA-CGCCACTAAATACCGGAGTATT
1 AGCGGCGTTTCTTA-AAAAGCGCCGCTAAATACCTGAGCATT
27642550 AGCGGCGTTT
1 AGCGGCGTTT
27642560 TGTAGCTAGC
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 68 0.88
42 9 0.12
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
AGCGGCGTTTCTTAAAAAGCGCCGCTAAATACCTGAGCATT
Found at i:27643579 original size:15 final size:15
Alignment explanation
Indices: 27643559--27643588 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27643549 ATATGCCACG
*
27643559 ATATATATATGTTAT
1 ATATATATATATTAT
27643574 ATATATATATATTAT
1 ATATATATATATTAT
27643589 GAAACATATT
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:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATATATATATTAT
Found at i:27646338 original size:15 final size:15
Alignment explanation
Indices: 27646318--27646353 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
27646308 ACCACCAATT
*
27646318 TGTTTTCATTTGTAC
1 TGTTTTCATTTCTAC
27646333 TGTTTTCATTTCTAC
1 TGTTTTCATTTCTAC
27646348 T-TTTTC
1 TGTTTTC
27646354 CTTTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (15 bp):
TGTTTTCATTTCTAC
Found at i:27647012 original size:9 final size:9
Alignment explanation
Indices: 27646998--27647053 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
27646988 TTTAAAATGA
27646998 TACATAACT
1 TACATAACT
27647007 TACATAACT
1 TACATAACT
*
27647016 TA-TTAA--
1 TACATAACT
27647022 TACATAACT
1 TACATAACT
*
27647031 TATATAA--
1 TACATAACT
27647038 TACATAACT
1 TACATAACT
27647047 TACATAA
1 TACATAA
27647054 TACGACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 24 0.63
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:27647013 original size:41 final size:40
Alignment explanation
Indices: 27646953--27647053 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 40
27646943 TTACCCATTT
* **
27646953 ATAATACAT-ACATTACATAACTTATTAATATATATTTTAAA
1 ATAATACATAAC-TTACATAACTTATTAATACATAACTT-AA
* *
27646994 ATGATACATAACTTACATAACTTATTAATACATAACTTAT
1 ATAATACATAACTTACATAACTTATTAATACATAACTTAA
27647034 ATAATACATAACTTACATAA
1 ATAATACATAACTTACATAA
27647054 TACGACATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 20 0.38
41 31 0.58
42 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.38
Consensus pattern (40 bp):
ATAATACATAACTTACATAACTTATTAATACATAACTTAA
Found at i:27647040 original size:16 final size:16
Alignment explanation
Indices: 27647007--27647056 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
27646997 ATACATAACT
27647007 TACATAACTTAT-TAA
1 TACATAACTTATATAA
27647022 TACATAACTTATATAA
1 TACATAACTTATATAA
*
27647038 TACATAACTTACATAA
1 TACATAACTTATATAA
27647054 TAC
1 TAC
27647057 GACATAATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (16 bp):
TACATAACTTATATAA
Found at i:27652368 original size:66 final size:66
Alignment explanation
Indices: 27652262--27652429 Score: 223
Period size: 66 Copynumber: 2.5 Consensus size: 66
27652252 CAAATTACAA
* * * *
27652262 AACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCT
1 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-
27652326 A-C
64 AGC
*
27652328 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAG
1 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAG
27652393 C
66 C
* ** *
27652394 AGCTTAAAGCAGATGTGGCAGCGAGAGAAGCAGAGG
1 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
27652430 CTGCAGCAAG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 86 0.95
67 4 0.04
ACGTcount: A:0.40, C:0.18, G:0.29, T:0.14
Consensus pattern (66 bp):
AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAG
C
Found at i:27652839 original size:43 final size:41
Alignment explanation
Indices: 27652778--27653111 Score: 215
Period size: 43 Copynumber: 7.8 Consensus size: 41
27652768 TTTTTAAAAA
* * *
27652778 CGCCACTAAAGGTAATGGTCTTTAGCGGCGTTTGTGGTAAAAG
1 CGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGT--AAG
* * * *
27652821 CGCCGCTTAAGATCATGGTCTTCAGCGGCGTTT-TGGAGAAAAA
1 CGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGT-G-G-TAAG
* * *
27652864 CACCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTATGCAG-AAG
1 CGCCGCTAAAGATCATGGTCTTTAGCGGCG-TTTGTG--GTAAG
* * * * *
27652907 CGCCGCTATAGATCAGGGTATTTAGTGGCGTTTGTAAGGGAAG
1 CGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGT--GGTAAG
* * *
27652950 CGCCGCTAAAGGTCGTTGTCTTTAGCGGCGTTTGTTTGGTAAG
1 CGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTG--TGGTAAG
* ** * * *
27652993 CGCCGCTAAA-TTCCATGACCTTCAGCGGCATTTGTTTTGTAAG
1 CGCCGCTAAAGAT-CATGGTCTTTAGCGGCGTTTG--TGGTAAG
* **
27653036 CGCCGCTAAAGACCATGACCTTTAGCGGCGTTTGTGTGGTAAG
1 CGCCGCTAAAGATCATGGTCTTTAGCGGCG-TT-TGTGGTAAG
* ** *
27653079 CGCCGCTAAAGACCATGACCTTTAGCGGTGTTT
1 CGCCGCTAAAGATCATGGTCTTTAGCGGCGTTT
27653112 TTTGAAATAA
Statistics
Matches: 237, Mismatches: 39, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.00
42 9 0.04
43 213 0.90
44 8 0.03
45 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (41 bp):
CGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGTAAG
Found at i:27653607 original size:18 final size:18
Alignment explanation
Indices: 27653573--27653606 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27653563 CGGTTTGTCC
*
27653573 ATAAATTTTATTATTTTA
1 ATAAATTTAATTATTTTA
27653591 ATAAATTTAATT-TTTT
1 ATAAATTTAATTATTTT
27653607 TCCTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATAAATTTAATTATTTTA
Found at i:27653744 original size:6 final size:6
Alignment explanation
Indices: 27653733--27653769 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
27653723 ATTAATATAT
*
27653733 TAATTA TAATTA TAATTA TAATTA TTATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA T
27653770 GGTTGGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TAATTA
Found at i:27656106 original size:30 final size:30
Alignment explanation
Indices: 27656071--27656135 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
27656061 CAACTTAACA
27656071 AACAAATGTCTCTAAAATAATAACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
*
27656101 AACAAATGTCTCTACAATAATAACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
27656131 AACAA
1 AACAA
27656136 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGTCTCTAAAATAATAACAAAATT
Found at i:27660658 original size:23 final size:22
Alignment explanation
Indices: 27660615--27660658 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27660605 TTCTAAGTCG
27660615 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
27660638 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27660659 TTAGTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:27660767 original size:45 final size:45
Alignment explanation
Indices: 27660703--27660791 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
27660693 AACAGATACT
* * *
27660703 CCGTGGATTCAGCACATAGCAACCACCTTATTAATGAATGATGTC
1 CCGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
27660748 CCGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CCGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
27660792 TCAGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (45 bp):
CCGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Done.