Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 183 of 202
Found at i:56470653 original size:21 final size:20
Alignment explanation
Indices: 56470627--56470670 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
56470617 TTAACTGGAC
*
56470627 TGATAAGCAGCAAGAAAGTTT
1 TGATAAACAG-AAGAAAGTTT
**
56470648 TGATAAATTGAAGAAAGTTT
1 TGATAAACAGAAGAAAGTTT
56470668 TGA
1 TGA
56470671 CTGAGGCCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (20 bp):
TGATAAACAGAAGAAAGTTT
Found at i:56473824 original size:71 final size:71
Alignment explanation
Indices: 56473708--56473846 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
56473698 TTCGTGGAAA
* *
56473708 TAGAACTTTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATTGGTAAAAGCCG
1 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
56473773 AAAAAC
66 AAAAAC
*
56473779 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCTTTTCTCAACTGCAAATCGGTAAAAGCCG
1 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
56473844 AAA
66 AAA
56473847 GCTAGAAAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (71 bp):
TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
AAAAAC
Found at i:56474023 original size:27 final size:27
Alignment explanation
Indices: 56473976--56474186 Score: 250
Period size: 27 Copynumber: 7.9 Consensus size: 27
56473966 GTAATGGGAC
*
56473976 CGAAATA-CCTTGAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAT
* *
56474002 CGAAATACCCTCAAAGGGTAAAAGTA-
1 CGAAATACCCTCGAAGGGTAAAATTAT
* *
56474028 CTTAAATGCCCTCGAAGGGTAAAATTAT
1 C-GAAATACCCTCGAAGGGTAAAATTAT
* *
56474056 CGAAATTCCCTTGAAGGGTAAAATTA-
1 CGAAATACCCTCGAAGGGTAAAATTAT
* *
56474082 CTGAAATACCTTCGAAAGGTAAAATTAT
1 C-GAAATACCCTCGAAGGGTAAAATTAT
*
56474110 CGAAATACCCTCGAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAT
* * *
56474137 CAAAATACCCTCGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATTAT
*
56474164 CGAAATACCC-CAAAGGGTAAAAT
1 CGAAATACCCTCGAAGGGTAAAAT
56474187 GACTGTTATA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 21 0.13
27 136 0.86
28 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATTAT
Found at i:56474073 original size:54 final size:54
Alignment explanation
Indices: 56473978--56474186 Score: 278
Period size: 54 Copynumber: 3.9 Consensus size: 54
56473968 AATGGGACCG
* * * *
56473978 AAATA-CCTTGAAGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAAGTACTT
1 AAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTA
* * * *
56474031 AAATGCCCTCGAAGGGTAAAATTATCGAAATTCCCTTGAAGGGTAAAATTACTG
1 AAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTA
* * *
56474085 AAATACCTTCGAAAGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCA
1 AAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTA
* * *
56474139 AAATACCCTCGAAGGGTAAAATGACCGAAATACCC-CAAAGGGTAAAAT
1 AAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAAT
56474187 GACTGTTATA
Statistics
Matches: 136, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 16 0.12
54 120 0.88
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (54 bp):
AAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTA
Found at i:56474408 original size:26 final size:26
Alignment explanation
Indices: 56474379--56474454 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
56474369 ATGCCACATA
*
56474379 TACTGTTACTGGTAGCTTTGCTGCGT
1 TACTGTTACTGGAAGCTTTGCTGCGT
*
56474405 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGAAGCTTTGCTGCGT
* * *
56474431 TATTATTACTGGAAGCTTTACTGC
1 TACTGTTACTGGAAGCTTTGCTGC
56474455 AATATTGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCGT
Found at i:56474460 original size:26 final size:26
Alignment explanation
Indices: 56474410--56474460 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
56474400 TGCGTTACTG
* * **
56474410 TTACTGGCAGCTTTGCTGCGTTATTA
1 TTACTGGAAGCTTTACTGCAATATTA
56474436 TTACTGGAAGCTTTACTGCAATATT
1 TTACTGGAAGCTTTACTGCAATATT
56474461 GGTGTGTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (26 bp):
TTACTGGAAGCTTTACTGCAATATTA
Found at i:56474591 original size:28 final size:28
Alignment explanation
Indices: 56474542--56474634 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 28
56474532 ACTGCATTGT
*
56474542 ACTGATTACTGTATTGGGCTAAAGCCCAC
1 ACTG-TTATTGTATTGGGCTAAAGCCCAC
* * * *
56474571 ATTGTTATTGTATTGAGCTAATG-CCAT
1 ACTGTTATTGTATTGGGCTAAAGCCCAC
* * *
56474598 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTATTGTATTGGGCTAAAGCCCAC
56474626 ACTG-TATTG
1 ACTGTTATTG
56474635 ATACTATATA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 25 0.49
28 23 0.45
29 3 0.06
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (28 bp):
ACTGTTATTGTATTGGGCTAAAGCCCAC
Found at i:56474617 original size:27 final size:28
Alignment explanation
Indices: 56474541--56474630 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
56474531 CACTGCATTG
56474541 TACTGATTACTGTATTGGGCTAAAGCCCA
1 TACTG-TTACTGTATTGGGCTAAAGCCCA
* * * * *
56474570 CATTGTTATTGTATTGAGCTAATG-CCA
1 TACTGTTACTGTATTGGGCTAAAGCCCA
* *
56474597 TACTGTTACTGTAATGGGCTAAGGCCCA
1 TACTGTTACTGTATTGGGCTAAAGCCCA
*
56474625 CACTGT
1 TACTGT
56474631 ATTGATACTA
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
27 21 0.44
28 24 0.50
29 3 0.06
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (28 bp):
TACTGTTACTGTATTGGGCTAAAGCCCA
Found at i:56480587 original size:6 final size:6
Alignment explanation
Indices: 56480576--56480600 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
56480566 ATACATGCAG
56480576 TCAGAT TCAGAT TCAGAT TCAGAT T
1 TCAGAT TCAGAT TCAGAT TCAGAT T
56480601 TGGACTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (6 bp):
TCAGAT
Found at i:56492202 original size:24 final size:22
Alignment explanation
Indices: 56492159--56492208 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
56492149 GATCCATGAC
*
56492159 AAATTTATTTCAGATGCAGAAA
1 AAATTTATTTCAGATACAGAAA
* *
56492181 AAATTTCAGTTTCATATACAGAAC
1 AAATTT-A-TTTCAGATACAGAAA
56492205 AAAT
1 AAAT
56492209 CATAGTCAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 1 0.04
24 16 0.70
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (22 bp):
AAATTTATTTCAGATACAGAAA
Found at i:56493616 original size:27 final size:27
Alignment explanation
Indices: 56493585--56493636 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56493575 AATGAAGAAG
* *
56493585 AGAATTAAAGAATAAAATAA-AAAAGGA
1 AGAATGAAAAAATAAAA-AATAAAAGGA
56493612 AGAATGAAAAAATAAAAAATAAAAG
1 AGAATGAAAAAATAAAAAATAAAAG
56493637 ACAGTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (27 bp):
AGAATGAAAAAATAAAAAATAAAAGGA
Found at i:56496288 original size:6 final size:6
Alignment explanation
Indices: 56496277--56496308 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
56496267 TTTTTCTTAA
56496277 TTTATT TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
56496309 CCCAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:56497203 original size:66 final size:66
Alignment explanation
Indices: 56497125--56497257 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
56497115 CAAACCCCAC
56497125 CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
1 CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
56497190 A
66 A
* * * *
56497191 CCCAATCAGATATATATTCAAAATTATCATGCTTACATGCTCATTTACATATATCAAGTAAGTAT
1 CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
56497256 A
66 A
56497257 C
1 C
56497258 ACGGACATGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (66 bp):
CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
A
Found at i:56499842 original size:19 final size:20
Alignment explanation
Indices: 56499818--56499864 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
56499808 ATAATAAATA
* *
56499818 TTTATTTTTTTATAT-TTTT
1 TTTATTTTTTGAAATATTTT
56499837 TTTA-TTTTTGAAATATTTT
1 TTTATTTTTTGAAATATTTT
56499856 TTTATTTTT
1 TTTATTTTT
56499865 AAAATGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 12 0.50
20 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTATTTTTTGAAATATTTT
Found at i:56499869 original size:19 final size:19
Alignment explanation
Indices: 56499833--56499869 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
56499823 TTTTTTATAT
*
56499833 TTTTTTTATTTTTGAAATA
1 TTTTTTTATTTTTAAAATA
56499852 TTTTTTTATTTTTAAAAT
1 TTTTTTTATTTTTAAAAT
56499870 GAATTTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTTTATTTTTAAAATA
Found at i:56509182 original size:5 final size:5
Alignment explanation
Indices: 56509109--56509200 Score: 69
Period size: 5 Copynumber: 17.4 Consensus size: 5
56509099 TTAGTTTTAT
* * * * *
56509109 TTTTC CTTTC TTTTT TTTATC GTTTC TCTTTC GTTCC TTTTCC TTTTTC
1 TTTTC TTTTC TTTTC TTT-TC TTTTC T-TTTC TTTTC TTTT-C -TTTTC
*
56509158 TTTCC TTTTC TTCATT- TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TT--TTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
56509201 CCTTGGATTG
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
4 2 0.03
5 49 0.72
6 11 0.16
7 6 0.09
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTTC
Found at i:56509197 original size:21 final size:21
Alignment explanation
Indices: 56509103--56509197 Score: 68
Period size: 21 Copynumber: 4.4 Consensus size: 21
56509093 TTTATTTTAG
*
56509103 TTTTATTTTTCCTTTCTTTT-
1 TTTTATTTTTCTTTTCTTTTC
* * *
56509123 TTTTATCGTTTCTCTTTCGTTCC
1 TTTTAT-TTTTCT-TTTCTTTTC
* *
56509146 TTTTCCTTTTTCTTTCCTTTTC
1 TTTT-ATTTTTCTTTTCTTTTC
*
56509168 -TTCATTTTTTCTTTTCTTTTC
1 TTTTA-TTTTTCTTTTCTTTTC
*
56509189 TTTTCTTTT
1 TTTTATTTT
56509198 CTTCCTTGGA
Statistics
Matches: 55, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
20 6 0.11
21 25 0.45
22 14 0.25
23 9 0.16
24 1 0.02
ACGTcount: A:0.03, C:0.21, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTATTTTTCTTTTCTTTTC
Found at i:56512925 original size:27 final size:27
Alignment explanation
Indices: 56512886--56513081 Score: 124
Period size: 27 Copynumber: 7.3 Consensus size: 27
56512876 GAGAGGTCAA
* * *
56512886 TAAAATGATCGAATTACCCCCATAGTG
1 TAAAATGACCGAATTACCCCCACAGGG
*
56512913 TAAAATGACCGAATTACACCCACAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
** * ***
56512940 TAAAATGACTAAATTACCCTCACAACA
1 TAAAATGACCGAATTACCCCCACAGGG
* * * *
56512967 TAAAATGATCAAATTACTCCTACAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
* * * *
56512994 TAAAATGATCGAAATACCCCTGA-AGGA
1 TAAAATGACCGAATTACCCC-CACAGGG
* * * * * *
56513021 TAAACTAACCAAAATACTCCCAAAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
** * *
56513048 TAAAATGACTAAAATACCCCCATAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
56513075 TAAAATG
1 TAAAATG
56513082 GTTGTTATAC
Statistics
Matches: 131, Mismatches: 36, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
26 1 0.01
27 129 0.98
28 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAATTACCCCCACAGGG
Found at i:56512955 original size:54 final size:53
Alignment explanation
Indices: 56512897--56513081 Score: 169
Period size: 54 Copynumber: 3.4 Consensus size: 53
56512887 AAAATGATCG
* *
56512897 AATTACCCCCATAGTGTAAAATGACCGAATTACACCCACAGGGTAAAATGACTA
1 AATTACCCCCATAG-GTAAAATGACCAAATTACTCCCACAGGGTAAAATGACTA
** * * *
56512951 AATTACCCTCACA-ACATAAAATGATCAAATTACTCCTACAGGGTAAAATGATCGA
1 AATTACCC-C-CATAGGTAAAATGACCAAATTACTCCCACAGGGTAAAATGA-CTA
* * * * *
56513006 AA-TACCCCTGA-AGGATAAACTAACCAAAATACTCCCAAAGGGTAAAATGACTA
1 AATTACCCC-CATAGG-TAAAATGACCAAATTACTCCCACAGGGTAAAATGACTA
*
56513059 AAATACCCCCATAGGGTAAAATG
1 AATTACCCCCATA-GGTAAAATG
56513082 GTTGTTATAC
Statistics
Matches: 103, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
53 8 0.08
54 85 0.83
55 8 0.08
56 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.20
Consensus pattern (53 bp):
AATTACCCCCATAGGTAAAATGACCAAATTACTCCCACAGGGTAAAATGACTA
Found at i:56513528 original size:28 final size:28
Alignment explanation
Indices: 56513488--56513595 Score: 171
Period size: 28 Copynumber: 3.9 Consensus size: 28
56513478 ACTGTACTGA
*
56513488 TACTGTATTGGGCTAATGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
56513516 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
56513544 TACTATTTTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
56513572 TACTGTATTTGGCTAAAGCCCACA
1 TACTGTATTGGGCTAAGGCCCACA
56513596 CTATACGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:56516514 original size:43 final size:43
Alignment explanation
Indices: 56516445--56516556 Score: 158
Period size: 41 Copynumber: 2.7 Consensus size: 43
56516435 AACCCACCAG
*
56516445 TGATTCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAA
1 TGATACGGTGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
*
56516487 TGATACGGTGGAATCAGCACTTAGCAA-CCCTTTCACATTTAA
1 TGATACGGTGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
* * *
56516529 -GATACGGTGGGATCAACATTTAGCAACC
1 TGATACGGTGGAATCAGCACTTAGCAACC
56516557 ACCAATGAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
41 23 0.37
42 22 0.35
43 18 0.29
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
TGATACGGTGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
Found at i:56516671 original size:102 final size:102
Alignment explanation
Indices: 56516496--56516737 Score: 423
Period size: 102 Copynumber: 2.4 Consensus size: 102
56516486 ATGATACGGT
* * * *
56516496 GGAATCAGCACTTAGCAA-CCCTTTCACATTTAAGATACGGTGGGATCAACATTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
*
56516560 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
66 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGC
56516597 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
56516662 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGC
66 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGC
*
56516699 CGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
56516738 TCCGGCCTAT
Statistics
Matches: 134, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 18 0.13
102 116 0.87
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (102 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCACC
AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGC
Found at i:56518444 original size:15 final size:15
Alignment explanation
Indices: 56518424--56518454 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56518414 GTAAAGTGAT
56518424 AGCTTACATGTCGTG
1 AGCTTACATGTCGTG
56518439 AGCTTACATGTCGTG
1 AGCTTACATGTCGTG
56518454 A
1 A
56518455 CAAATTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (15 bp):
AGCTTACATGTCGTG
Found at i:56520677 original size:8 final size:8
Alignment explanation
Indices: 56520660--56520710 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
56520650 CTTTCGTTCC
56520660 TTTTTC-T
1 TTTTTCTT
56520667 TTTTTCTT
1 TTTTTCTT
56520675 TTTTTCTT
1 TTTTTCTT
*
56520683 CATTTT-TT
1 -TTTTTCTT
*
56520691 CTTTTCTT
1 TTTTTCTT
*
56520699 TTCTTCTT
1 TTTTTCTT
56520707 TTTT
1 TTTT
56520711 CTTCCTTGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
7 10 0.28
8 22 0.61
9 4 0.11
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:56520688 original size:24 final size:23
Alignment explanation
Indices: 56520631--56520714 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 23
56520621 TATTTTTCCT
*
56520631 TTCTTTTTT-TATCGTTTCTCTTTC
1 TTCTTTTTTCT-TCTTTTCT-TTTC
* *
56520655 GTTCCTTTTTCTT-TTTTCTTTTT
1 -TTCTTTTTTCTTCTTTTCTTTTC
56520678 TTCTTCATTTT-TTCTTTTCTTTTC
1 TTCTT--TTTTCTTCTTTTCTTTTC
56520702 TTCTTTTTTCTTC
1 TTCTTTTTTCTTC
56520715 CTTGGATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
22 8 0.16
23 8 0.16
24 23 0.47
25 9 0.18
26 1 0.02
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.75
Consensus pattern (23 bp):
TTCTTTTTTCTTCTTTTCTTTTC
Found at i:56520708 original size:19 final size:18
Alignment explanation
Indices: 56520667--56520713 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
56520657 TCCTTTTTCT
56520667 TTTTTCTTTTTTTCTTCA
1 TTTTTCTTTTTTTCTTCA
*
56520685 TTTTTTCTTTTCTTTTCTTCT
1 -TTTTTC-TTT-TTTTCTTCA
56520706 TTTTTCTT
1 TTTTTCTT
56520714 CCTTGGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 9 0.36
21 8 0.32
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTTCA
Found at i:56525069 original size:16 final size:17
Alignment explanation
Indices: 56525048--56525081 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
56525038 ACAAAATTAT
*
56525048 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
56525064 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
56525081 T
1 T
56525082 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:56526008 original size:42 final size:42
Alignment explanation
Indices: 56525954--56526053 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
56525944 CTATATGAAC
* *
56525954 GGCACTACGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
56525996 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
56526038 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
56526054 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:56533412 original size:11 final size:12
Alignment explanation
Indices: 56533390--56533430 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
56533380 AAAATTAAAA
56533390 AAAATTATTTTTT
1 AAAA-TATTTTTT
56533403 AAAATATTTTTT
1 AAAATATTTTTT
56533415 AAAATA-TTTTT
1 AAAATATTTTTT
56533426 AAAAT
1 AAAAT
56533431 TAAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 10 0.36
12 14 0.50
13 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:56533491 original size:41 final size:42
Alignment explanation
Indices: 56533410--56533605 Score: 299
Period size: 41 Copynumber: 4.7 Consensus size: 42
56533400 TTTAAAATAT
*
56533410 TTTTTAAAATATTTTTAAAATTAAAAAAAATTAAAAAAAAAGTA
1 TTTTAAAAATA-TTTTAAAATTAAAAAAAATT-AAAAAAAAGTA
56533454 TTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTA
1 TTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTA
56533496 TTTTAAAAAATATTTTAAAATT--AAAAAATTAAAAAAAAGTA
1 TTTT-AAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTA
* *
56533537 TTTTAAAAATATTTTAAAATTTAAAAAAATT-TAAAAAAGTA
1 TTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTA
* *
56533578 TGTAAAAAATATTTTAAAATTAAAAAAA
1 TTTTAAAAATATTTTAAAATTAAAAAAA
56533606 TAAATATATT
Statistics
Matches: 144, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
40 17 0.12
41 57 0.40
42 23 0.16
43 37 0.26
44 10 0.07
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (42 bp):
TTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTA
Found at i:56533503 original size:11 final size:12
Alignment explanation
Indices: 56533473--56533596 Score: 59
Period size: 12 Copynumber: 10.5 Consensus size: 12
56533463 TATTTTAAAA
*
56533473 TTAAAAAAAATT
1 TTAAAAAATATT
**
56533485 AAAAAAAAGTATT
1 TTAAAAAA-TATT
56533498 TTAAAAAATATT
1 TTAAAAAATATT
*
56533510 TTAAAATTAAAAAATT
1 TT--AA--AAAATATT
**
56533526 AAAAAAAAGTATT
1 TTAAAAAA-TATT
56533539 TT-AAAAATATT
1 TTAAAAAATATT
56533550 TT---AAA-A-T
1 TTAAAAAATATT
56533557 TTAAAAAA-A-T
1 TTAAAAAATATT
56533567 TTAAAAAAGTA-T
1 TTAAAAAA-TATT
*
56533579 GTAAAAAATATT
1 TTAAAAAATATT
56533591 TTAAAA
1 TTAAAA
56533597 TTAAAAAAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
7 3 0.03
8 1 0.01
9 3 0.03
10 13 0.15
11 8 0.09
12 36 0.41
13 12 0.14
14 4 0.05
16 7 0.08
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:56533597 original size:10 final size:11
Alignment explanation
Indices: 56533529--56533596 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
56533519 AAAAATTAAA
56533529 AAAAAGTATTTT
1 AAAAA-TATTTT
56533541 AAAAATATTTT
1 AAAAATATTTT
56533552 --AAA-A-TTT
1 AAAAATATTTT
* *
56533559 AAAAAAATTTA
1 AAAAATATTTT
* *
56533570 AAAAAGTATGTA
1 AAAAA-TATTTT
56533582 AAAAATATTTT
1 AAAAATATTTT
56533593 AAAA
1 AAAA
56533597 TTAAAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
7 3 0.07
8 1 0.02
9 6 0.13
10 1 0.02
11 21 0.46
12 14 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:56537927 original size:18 final size:18
Alignment explanation
Indices: 56537889--56537924 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56537879 TTATTATCTT
*
56537889 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
56537907 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
56537925 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:56539092 original size:10 final size:10
Alignment explanation
Indices: 56539077--56539105 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
56539067 AATTAGTTTA
56539077 ATGTGAAAAC
1 ATGTGAAAAC
56539087 ATGTGAAAAC
1 ATGTGAAAAC
56539097 ATGTGAAAA
1 ATGTGAAAA
56539106 AATAGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (10 bp):
ATGTGAAAAC
Found at i:56540140 original size:18 final size:19
Alignment explanation
Indices: 56540117--56540168 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
56540107 AGCCCGAATA
*
56540117 TATTATGTT-ATTAAAATT
1 TATTATATTAATTAAAATT
*
56540135 TATTATATTAATTAATATT
1 TATTATATTAATTAAAATT
56540154 TA-TAT-TTATATTAAA
1 TATTATATTA-ATTAAA
56540169 TTACTAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 16 0.55
19 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTATATTAATTAAAATT
Found at i:56540154 original size:19 final size:18
Alignment explanation
Indices: 56540117--56540156 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
56540107 AGCCCGAATA
*
56540117 TATTATGTTATTAAAATT
1 TATTATATTATTAAAATT
*
56540135 TATTATATTAATTAATATT
1 TATTATATT-ATTAAAATT
56540154 TAT
1 TAT
56540157 ATTTATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTATATTATTAAAATT
Found at i:56545077 original size:2 final size:2
Alignment explanation
Indices: 56545065--56545095 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
56545055 CATTCTTCTT
*
56545065 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56545096 TAAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:56547119 original size:23 final size:22
Alignment explanation
Indices: 56547088--56547133 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
56547078 TGTATGATTT
*
56547088 ATGTGAAAAATATATGAAATATA
1 ATGTGAAAAATAAAT-AAATATA
* *
56547111 ATGTTAAAATTAAATAAATATA
1 ATGTGAAAAATAAATAAATATA
56547133 A
1 A
56547134 GGGAGTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATGTGAAAAATAAATAAATATA
Found at i:56551761 original size:17 final size:17
Alignment explanation
Indices: 56551728--56551771 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
56551718 TCAATAACTC
*
56551728 TTATATAATATT-TTTT
1 TTATATAAAATTATTTT
*
56551744 TTAT-GAAAATTATTTT
1 TTATATAAAATTATTTT
56551760 TTATATAAAATT
1 TTATATAAAATT
56551772 TTTAAGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTATATAAAATTATTTT
Found at i:56552113 original size:18 final size:17
Alignment explanation
Indices: 56552084--56552117 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
56552074 AAAAATTCTA
56552084 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
56552101 TTAAATGTATAATTATT
1 TTAAAT-TATAATTATT
56552118 AAAACTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:56552697 original size:36 final size:36
Alignment explanation
Indices: 56552645--56552771 Score: 114
Period size: 36 Copynumber: 3.5 Consensus size: 36
56552635 TTTAGAGTTC
*
56552645 TAATAATTCTATTTTAAAATTAGCATAATTTTTAAT
1 TAATAATTCTAATTTAAAATTAGCATAATTTTTAAT
* * * * *
56552681 TAATAATTGTAATTTAAATTCTA--ATTATTTTGAGTT
1 TAATAATTCTAATTTAAAAT-TAGCATAATTTTTA-AT
* * **
56552717 CTAAAAATTCTATTTTAAAATTAGCATAACATTTAAT
1 -TAATAATTCTAATTTAAAATTAGCATAATTTTTAAT
*
56552754 TAATAATTGTAATTTAAA
1 TAATAATTCTAATTTAAA
56552772 TTCTTATATT
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
35 8 0.12
36 35 0.51
37 19 0.28
38 6 0.09
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (36 bp):
TAATAATTCTAATTTAAAATTAGCATAATTTTTAAT
Found at i:56552726 original size:73 final size:75
Alignment explanation
Indices: 56552630--56552775 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 75
56552620 TCCCTATATT
* **
56552630 TTATGTTTAGAGTTCTAATAATTCTATTTTAAAATTAGCATAATTTTTAATTAATAATTGTAATT
1 TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
56552695 TAAATTCTAA
66 TAAATTCTAA
56552705 TTAT-TTT-GAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
1 TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
56552768 TAAATTCT
66 TAAATTCT
56552776 TATATTGGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 61 0.90
74 3 0.04
75 4 0.06
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (75 bp):
TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
TAAATTCTAA
Found at i:56553222 original size:2 final size:2
Alignment explanation
Indices: 56553217--56553247 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
56553207 AACTTGTACT
56553217 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56553248 AATTATAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56553689 original size:21 final size:21
Alignment explanation
Indices: 56553656--56553695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56553646 TGTCTCTTTA
*
56553656 TTTAAATTTATTAAAATATGT
1 TTTAAATTAATTAAAATATGT
* *
56553677 TTTAAGTTAATTAATATAT
1 TTTAAATTAATTAAAATAT
56553696 TACTTATGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTAAATTAATTAAAATATGT
Found at i:56563897 original size:142 final size:141
Alignment explanation
Indices: 56563641--56563924 Score: 478
Period size: 142 Copynumber: 2.0 Consensus size: 141
56563631 CGTCCTGCCC
*
56563641 GACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCGTAG
1 GACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATAG
*
56563706 GAATCTGAAAGGTCATCCGCAATCATCCAGAATTCATAATGAAATGGACATTAGGGAGAAATCTG
66 GAATCCGAAAGGTCATCCGCAATCATCCAGAATTCATAATGAAATGGACATTAGGGAGAAATCTG
56563771 ACAGTAAGCGTT
131 A-AGTAAGCGTT
* * * *
56563783 GACCTGTCTACGTGGGAGGTGCCTCCGACAACTTTTGAGCTTGTTCCAGACAAAGGGTTGCATAG
1 GACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATAG
* *
56563848 GAATCCGAAAGGTCATCCGCAATCATCCAGAATTCGTAATGAAATGGACATTAGGGAGAAATTTG
66 GAATCCGAAAGGTCATCCGCAATCATCCAGAATTCATAATGAAATGGACATTAGGGAGAAATCTG
*
56563913 AGGTAAGCGTT
131 AAGTAAGCGTT
56563924 G
1 G
56563925 TGGATTATAC
Statistics
Matches: 133, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
141 10 0.08
142 123 0.92
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (141 bp):
GACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATAG
GAATCCGAAAGGTCATCCGCAATCATCCAGAATTCATAATGAAATGGACATTAGGGAGAAATCTG
AAGTAAGCGTT
Found at i:56564105 original size:14 final size:14
Alignment explanation
Indices: 56564086--56564114 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56564076 TAATGTATTT
56564086 AATTTATATTACAA
1 AATTTATATTACAA
56564100 AATTTATATTACAA
1 AATTTATATTACAA
56564114 A
1 A
56564115 GTTTGTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:56564135 original size:62 final size:62
Alignment explanation
Indices: 56564038--56564191 Score: 265
Period size: 62 Copynumber: 2.5 Consensus size: 62
56564028 CAAAGTACCT
56564038 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
*
56564100 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTGTATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
* *
56564162 AATTTATAGTACAAAGCTTT-TTCTAATTTT
1 AATTTATATTACAAAG-TTTGTTCCAATTTT
56564192 AGTGTTTTAA
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
62 85 0.97
63 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
Found at i:56564598 original size:33 final size:31
Alignment explanation
Indices: 56564510--56564604 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 31
56564500 ATGAACTTGA
* *
56564510 GTCGAGAGGAGTGCTGTACTGGGGTGGATAC
1 GTCGAGAAGAGTGCTGTACTGCGGTGGATAC
* * ** *
56564541 GACCAGTAAGAGTGGAGTAATGCGGTGGATAC
1 GTCGAG-AAGAGTGCTGTACTGCGGTGGATAC
*
56564573 GGGTCGAGAAGAGTGTTGTACTGCGGT-GATAC
1 --GTCGAGAAGAGTGCTGTACTGCGGTGGATAC
56564605 TGGATTAAAG
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
31 4 0.08
32 25 0.51
33 16 0.33
34 4 0.08
ACGTcount: A:0.24, C:0.13, G:0.41, T:0.22
Consensus pattern (31 bp):
GTCGAGAAGAGTGCTGTACTGCGGTGGATAC
Found at i:56564780 original size:13 final size:13
Alignment explanation
Indices: 56564762--56564786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56564752 ATTATTAATA
56564762 TTATTTTGCGTGT
1 TTATTTTGCGTGT
56564775 TTATTTTGCGTG
1 TTATTTTGCGTG
56564787 CATTTGATTG
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:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (13 bp):
TTATTTTGCGTGT
Found at i:56565543 original size:17 final size:17
Alignment explanation
Indices: 56565510--56565543 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56565500 TTGTGTTTTG
*
56565510 TGCAAAAAGGGCTAAAT
1 TGCAAAAAGGGCAAAAT
*
56565527 TGCAAAAAGTGCAAAAT
1 TGCAAAAAGGGCAAAAT
56565544 GTGAGGGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGGCAAAAT
Found at i:56565787 original size:21 final size:21
Alignment explanation
Indices: 56565761--56565802 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56565751 AGAATATATA
*
56565761 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTAAATTT
56565782 TATGTTCTATAAGCTAAATTT
1 TATGTTCTATAAGCTAAATTT
56565803 GATTTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTAAATTT
Found at i:56566135 original size:2 final size:2
Alignment explanation
Indices: 56566128--56566158 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
56566118 ATGATATGAA
56566128 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56566159 AGAGGTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56566556 original size:41 final size:41
Alignment explanation
Indices: 56566472--56566574 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
56566462 GGCTATGTGC
* * * *
56566472 CTAGCAGGCTTGATGCCGGTGAAATAATTCAGACTTTTCGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACTATACGT
* * * *
56566513 CTAGCAGGCTTAATGCCGGTGATACATTTCGGACTATAGGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACTATACGT
* *
56566554 CTAGCAGGCTAAAAGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
56566575 TACTGAATCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACTATACGT
Found at i:56573486 original size:21 final size:21
Alignment explanation
Indices: 56573460--56573501 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56573450 AGAATATATA
*
56573460 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTAAATTT
56573481 TATGTTCTATAAGCTAAATTT
1 TATGTTCTATAAGCTAAATTT
56573502 GATTTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTAAATTT
Found at i:56574162 original size:41 final size:41
Alignment explanation
Indices: 56574117--56574208 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
56574107 GGCTATGTGC
* * * *
56574117 CTAGCAGGCTTGATGCCGGTGAAATAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACTATAAGT
* * *
56574158 CTAGCAGGCTTAATGCCGGTGATACATTTCGGACTATAAGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACTATAAGT
56574199 CTAGCAGGCT
1 CTAGCAGGCT
56574209 AAAAGCTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACTATAAGT
Found at i:56575904 original size:14 final size:14
Alignment explanation
Indices: 56575885--56575915 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56575875 TTACATGTTT
*
56575885 GAATAGTATCGTTA
1 GAATAGTATCATTA
56575899 GAATAGTATCATTA
1 GAATAGTATCATTA
56575913 GAA
1 GAA
56575916 AAAAAATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (14 bp):
GAATAGTATCATTA
Found at i:56577164 original size:26 final size:26
Alignment explanation
Indices: 56577110--56577165 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
56577100 AAGTTCATAT
**
56577110 TAAAAAAATAAAAAATAACATGCCAA
1 TAAAAAAATAAAAAATAACATAACAA
56577136 TAAAAAAATATAACAAA-AACATAAC-A
1 TAAAAAAATA-AA-AAATAACATAACAA
56577162 TAAA
1 TAAA
56577166 CGATACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 15 0.58
27 8 0.31
28 3 0.12
ACGTcount: A:0.71, C:0.11, G:0.02, T:0.16
Consensus pattern (26 bp):
TAAAAAAATAAAAAATAACATAACAA
Found at i:56577587 original size:17 final size:16
Alignment explanation
Indices: 56577558--56577605 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
56577548 CCTATAACAC
*
56577558 ACATAACAAATAAATT
1 ACATAAAAAATAAATT
56577574 ACATAAAAAAATAAA--
1 ACAT-AAAAAATAAATT
*
56577589 ACATTAAAAATAAATT
1 ACATAAAAAATAAATT
56577605 A
1 A
56577606 TGAATGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
16 5 0.19
17 9 0.33
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATAAAAAATAAATT
Found at i:56578518 original size:31 final size:31
Alignment explanation
Indices: 56578483--56578564 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
56578473 AAATATGGGT
* **
56578483 AAGTTTTCGTTTTGGTCACTGAACTATTCAA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAA
56578514 AAGTTTTCATTTAAGTCACTGAACTATTCAA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAA
** *
56578545 ATTTTTTAATTTAAGTCACT
1 AAGTTTTCATTTAAGTCACT
56578565 ATTCAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (31 bp):
AAGTTTTCATTTAAGTCACTGAACTATTCAA
Found at i:56583971 original size:23 final size:23
Alignment explanation
Indices: 56583880--56583974 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
56583870 TGTGTATCCT
* * *
56583880 TTCATATTCAAGCCTCTTAACTT
1 TTCATATTCAAGTCTCTTCACTC
* *
56583903 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTC
*
56583926 TTCATATTCAAGTCTTTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
56583949 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
56583972 TTC
1 TTC
56583975 TAACTTTTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.22, C:0.28, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:56589694 original size:29 final size:31
Alignment explanation
Indices: 56589661--56589726 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
56589651 TTTCATAATA
*
56589661 TAATAAATTA-TTAATA-TA-GTTTATTATTT
1 TAATAAATTATTTAATATTACATTTA-TATTT
56589690 TAATAAATTATTTAATATTACATTTATATTT
1 TAATAAATTATTTAATATTACATTTATATTT
56589721 TAATAA
1 TAATAA
56589727 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 10 0.30
30 6 0.18
31 13 0.39
32 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
TAATAAATTATTTAATATTACATTTATATTT
Found at i:56589757 original size:22 final size:23
Alignment explanation
Indices: 56589727--56589769 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
56589717 ATTTTAATAA
56589727 TAAAATTTAAA-AATAATATTTT
1 TAAAATTTAAATAATAATATTTT
* *
56589749 TAAATTTTAAATAATATTATT
1 TAAAATTTAAATAATAATATT
56589770 CATATGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAATTTAAATAATAATATTTT
Found at i:56589814 original size:27 final size:27
Alignment explanation
Indices: 56589715--56589816 Score: 66
Period size: 27 Copynumber: 3.7 Consensus size: 27
56589705 TATTACATTT
* *
56589715 ATATTTTAATAATAAA-ATTTAAAAATA
1 ATATTTTAATAATAAATATTT-ATATTA
** * *
56589742 ATATTTTTAAATTTTAAATA-ATATTATTC
1 ATA-TTTT-AATAATAAATATTTA-TATTA
* *
56589771 ATATGTTATTGAA-AAATATTTATATTA
1 ATATTTTAAT-AATAAATATTTATATTA
56589798 ATATTTTAATAATAAATAT
1 ATATTTTAATAATAAATAT
56589817 ACATATATTA
Statistics
Matches: 54, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
26 2 0.04
27 28 0.52
28 10 0.19
29 13 0.24
30 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATTTTAATAATAAATATTTATATTA
Found at i:56589817 original size:23 final size:23
Alignment explanation
Indices: 56589791--56589844 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
56589781 GAAAAATATT
**
56589791 TATATTAATATTTTAATAATAAA
1 TATATTAATATTACAATAATAAA
* *
56589814 TATA-CATATATTACAATTATAAA
1 TATATTA-ATATTACAATAATAAA
56589837 TATATTAA
1 TATATTAA
56589845 CAATAAATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
22 1 0.04
23 22 0.92
24 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TATATTAATATTACAATAATAAA
Found at i:56589839 original size:17 final size:18
Alignment explanation
Indices: 56589814--56589848 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56589804 TAATAATAAA
*
56589814 TATACATATATT-ACAAT
1 TATAAATATATTAACAAT
56589831 TATAAATATATTAACAAT
1 TATAAATATATTAACAAT
56589849 AAATGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAAATATATTAACAAT
Found at i:56590227 original size:26 final size:24
Alignment explanation
Indices: 56590190--56590244 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
56590180 TACAAGGGCT
*
56590190 TATGACATATTTTATCTTAATATAAAA
1 TATGACATATTTTA-ATT-ATAT-AAA
56590217 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
56590240 TATGA
1 TATGA
56590245 GTACTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
24 4 0.15
25 2 0.07
26 8 0.30
27 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (24 bp):
TATGACATATTTTAATTATATAAA
Found at i:56591916 original size:12 final size:12
Alignment explanation
Indices: 56591899--56591938 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
56591889 TATTTTTTAA
56591899 TTTTAAAATACT
1 TTTTAAAATACT
56591911 TTTTAAAATACT
1 TTTTAAAATACT
*
56591923 TTTTAAAATAAT
1 TTTTAAAATACT
56591935 TTTT
1 TTTT
56591939 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:56591974 original size:26 final size:27
Alignment explanation
Indices: 56591922--56591976 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
56591912 TTTAAAATAC
* *
56591922 TTTTTAAAATAATTTTTTATTTTTTTA
1 TTTTTAAAATAATTTTTTATGTGTTTA
56591949 TTTTTAAAATAATTTTTTA-GTGTTTA
1 TTTTTAAAATAATTTTTTATGTGTTTA
56591975 TT
1 TT
56591977 AAAAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTAAAATAATTTTTTATGTGTTTA
Found at i:56591983 original size:26 final size:27
Alignment explanation
Indices: 56591927--56591984 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
56591917 AATACTTTTT
* * ***
56591927 AAAATAATTTTTTATTTTTTTATTTTT
1 AAAATAATTTTTTATGTGTTTATTAAA
56591954 AAAATAATTTTTTA-GTGTTTATTAAA
1 AAAATAATTTTTTATGTGTTTATTAAA
56591980 AAAAT
1 AAAAT
56591985 TGACCGGGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
AAAATAATTTTTTATGTGTTTATTAAA
Found at i:56592466 original size:18 final size:18
Alignment explanation
Indices: 56592440--56592474 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56592430 CCTGACACAT
*
56592440 TTTTGTCTTGTTTTTATC
1 TTTTATCTTGTTTTTATC
*
56592458 TTTTATCTTTTTTTTAT
1 TTTTATCTTGTTTTTAT
56592475 TTATCTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTATCTTGTTTTTATC
Found at i:56600915 original size:23 final size:23
Alignment explanation
Indices: 56600889--56600983 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
56600879 TGAAAAGTTA
*
56600889 GAAGAGTGAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
56600912 GAAGAGTGAAAAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
* *
56600935 GAATAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * *
56600958 GAAAAGTTAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
56600981 GAA
1 GAA
56600984 AGGATACACA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.44, C:0.04, G:0.29, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:56606442 original size:27 final size:26
Alignment explanation
Indices: 56606403--56606476 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
56606393 AAATTTAAAC
*
56606403 TAATTA-AAGAATAGTTTTATCTAAATA
1 TAATTATAA-AATA-TTTTATATAAATA
* *
56606430 TAATTATAAAATATATTAATATTAATA
1 TAATTATAAAATAT-TTTATATAAATA
56606457 TAAATT-TAAAATATTTTATA
1 T-AATTATAAAATATTTTATA
56606477 ATTTGAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 6 0.15
27 28 0.70
28 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (26 bp):
TAATTATAAAATATTTTATATAAATA
Found at i:56609106 original size:21 final size:21
Alignment explanation
Indices: 56609080--56609123 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
56609070 TTGGGGTGTT
*
56609080 ACAACCGTGTAACCTTTCCAC
1 ACAACCGTGTAACCCTTCCAC
56609101 ACAACCGTGTAACCCTTCCAC
1 ACAACCGTGTAACCCTTCCAC
56609122 AC
1 AC
56609124 GACCTGAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.41, G:0.09, T:0.20
Consensus pattern (21 bp):
ACAACCGTGTAACCCTTCCAC
Found at i:56609893 original size:81 final size:83
Alignment explanation
Indices: 56609704--56609947 Score: 298
Period size: 83 Copynumber: 2.9 Consensus size: 83
56609694 GTGGTGGTTT
* *
56609704 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCGAA-TATGTTATGCACTCACAACAAGTGGTA
1 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGC-AACCATGTTATGCACTCACAACAAGTGGCA
*
56609768 GTTACTGCAAATATGTGGCTA
65 GTAACTGC-AA-ATGTGGCTA
* * * *
56609789 GTCCACAAACCCAGTGGCGGTTTGTTTGATCTGCAACCATG-T-TGCATTCACAACAAGTCGCAG
1 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCAACCATGTTATGCACTCACAACAAGTGGCAG
*
56609852 TGACTGCAAATGTGGCTCA
66 TAACTGCAAATGTGGCT-A
** * * * *
56609871 -TCCACAAACCTGGTGGTAGTTTGTTTAATTTGCAACCATGTTGTGCACTCACAACCAGTGGCAG
1 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCAACCATGTTATGCACTCACAACAAGTGGCAG
56609935 TAACTGCAAATGT
66 TAACTGCAAATGT
56609948 TTTTATCTAA
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
81 42 0.30
82 4 0.03
83 54 0.39
84 3 0.02
85 35 0.25
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (83 bp):
GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCAACCATGTTATGCACTCACAACAAGTGGCAG
TAACTGCAAATGTGGCTA
Found at i:56613298 original size:15 final size:15
Alignment explanation
Indices: 56613265--56613335 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
56613255 TTATTTACTA
* *
56613265 TATTATTACTACTAC
1 TATTATTATTATTAC
*
56613280 TATTATTATTATTAG
1 TATTATTATTATTAC
56613295 TATTA-TATTTATTAC
1 TATTATTA-TTATTAC
*
56613310 TATTACTTACT-TTAC
1 TATTA-TTATTATTAC
56613325 TATTAATTATT
1 TATT-ATTATT
56613336 TACTCATGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.04
15 40 0.87
16 2 0.04
17 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.56
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:56613659 original size:19 final size:17
Alignment explanation
Indices: 56613629--56613663 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
56613619 TCCTTTAGTT
56613629 ATTTTCTTTTATTTTAC
1 ATTTTCTTTTATTTTAC
56613646 ATTTTCATTATTATTTTA
1 ATTTTC-TT-TTATTTTA
56613664 AAAGTACGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTCTTTTATTTTAC
Found at i:56617680 original size:17 final size:18
Alignment explanation
Indices: 56617658--56617692 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56617648 AAAATAGGAA
*
56617658 AAAAAGGAAGA-AAAAAG
1 AAAAAGAAAGAGAAAAAG
56617675 AAAAAGAAAGAGAAAAAG
1 AAAAAGAAAGAGAAAAAG
56617693 GAGAGGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAGAAAAAG
Found at i:56618508 original size:7 final size:7
Alignment explanation
Indices: 56618491--56618540 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
56618481 GAGTCAAAAA
56618491 AAAAGATG
1 AAAA-ATG
56618499 AAAAATG
1 AAAAATG
56618506 -AAAATG
1 AAAAATG
56618512 AAAAATG
1 AAAAATG
56618519 -AAAATG
1 AAAAATG
*
56618525 AAATA-G
1 AAAAATG
56618531 TAAAAATG
1 -AAAAATG
56618539 AA
1 AA
56618541 GAGGCTAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 13 0.36
7 18 0.50
8 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:56618512 original size:13 final size:13
Alignment explanation
Indices: 56618496--56618527 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
56618486 AAAAAAAAAG
56618496 ATGAAAAATGAAA
1 ATGAAAAATGAAA
56618509 ATGAAAAATGAAA
1 ATGAAAAATGAAA
56618522 ATGAAA
1 ATGAAA
56618528 TAGTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:56618519 original size:20 final size:21
Alignment explanation
Indices: 56618491--56618540 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
56618481 GAGTCAAAAA
56618491 AAAAGATGAAAAATGAAA-A-T
1 AAAA-ATGAAAAATGAAATAGT
56618511 GAAAAATG-AAAATGAAATAGT
1 -AAAAATGAAAAATGAAATAGT
56618532 AAAAATGAA
1 AAAAATGAA
56618541 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.35
20 11 0.42
21 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAAATGAAAAATGAAATAGT
Found at i:56618535 original size:13 final size:13
Alignment explanation
Indices: 56618486--56618540 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
56618476 ACTTTGAGTC
56618486 AAAAA-AAAAGATG
1 AAAAATAAAA-ATG
*
56618499 AAAAATGAAAATG
1 AAAAATAAAAATG
*
56618512 AAAAATGAAAATG
1 AAAAATAAAAATG
*
56618525 AAATAGTAAAAATG
1 AAA-AATAAAAATG
56618539 AA
1 AA
56618541 GAGGCTAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
13 24 0.65
14 13 0.35
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAATG
Found at i:56620018 original size:131 final size:131
Alignment explanation
Indices: 56619877--56620858 Score: 919
Period size: 131 Copynumber: 7.5 Consensus size: 131
56619867 CCACCAGTCC
* * *
56619877 TATCTCCCTAAGCAGTAGTGGAGCA-AGTCGAAGATGGTAGTCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGAAGCAGA-TCGAAGACGGCAGTCCTATCTCCCTAAGCAGTAGTGG
** * * *
56619941 AGCAGGTTAAAGATGGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAAT
65 AGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAAT
56620006 CT
130 CT
* ** * **
56620008 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCAGTCCTATCTCCCTAAGCAGTAGTGGA
* * *
56620073 GCAGGTCGAAGATGGTAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGG-TAGAT
66 GCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGA-AT
56620136 CT
130 CT
* * * *
56620138 TATCTCTCTAAGCAGTAGTGGAA-CAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGT-GAAGCAGATCGAAGACGGC-AGTCCTATCTCCCTAAGCAGTAGTG
* * ** ***** * *
56620202 AAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCA-AGTTGAAGATGG-TA
64 GAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGCGA
* *
56620264 GTCC
128 ATCT
* * * * * * ** * *
56620268 TATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGTAGATTTTATCTCCCTAAGCAGTAGCGT
1 TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCAG-TCCTATCTCCCTAAGCAGTAGTGG
* * * ** * * * ** *** * *
56620333 AGCAGATTGAAGACGGT-GAATATTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAG-CCACCAG
65 AGCAGGTCGAAGATGGTAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
*
56620396 TCC
129 TCT
* * * *
56620399 TATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGGTAGTCCTATCTTCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCAGTCCTATCTCCCTAAGCAGTAGTGGA
* * *
56620464 GCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATC
66 GCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATC
56620529 T
131 T
* * ** * ** *
56620530 TATCTTCCTAAGCAATAGTGAAGCAGATTTAAGCCACCAGTCCGATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCAGTCCTATCTCCCTAAGCAGTAGTGGA
* * *
56620595 GCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGTAGTGGTGGAGCAGATCGAAGACGGCGAATC
66 GCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATC
56620660 T
131 T
* * ** * **
56620661 TATCTTCCTAAACAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCAGTCCTATCTCCCTAAGCAGTAGTGGA
* * ** *
56620726 GCAGGTCGAAGAT-G-AG-TCCTATCTCCCTAAGCAGTAGTGGAACAGGTTAAAGATGG-TAGAT
66 GCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGA-AT
56620787 CT
130 CT
* * * * * * *
56620789 TATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGC-AGTCCTATCTCCCTAAGCAGTAGTGG
56620854 AGCAG
65 AGCAG
56620859 ATTTAAGCCN
Statistics
Matches: 700, Mismatches: 136, Indels: 32
0.81 0.16 0.04
Matches are distributed among these distances:
127 1 0.00
128 65 0.09
129 34 0.05
130 191 0.27
131 407 0.58
132 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (131 bp):
TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCAGTCCTATCTCCCTAAGCAGTAGTGGA
GCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATC
T
Found at i:56620096 original size:174 final size:174
Alignment explanation
Indices: 56619786--56620860 Score: 1493
Period size: 174 Copynumber: 6.2 Consensus size: 174
56619776 AAGAAGCCAG
* * *
56619786 AGATCTTATCTCCCTGAG-ATTACAGTGGAGCAGATCGAAGACAGCGAATC---TCTTCCTAAGC
1 AGATCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGC
* *
56619847 AGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGAT
64 AGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT
*
56619912 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGT
129 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
*
56619958 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
56620023 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
56620088 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
56620132 AGATCTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* *
56620197 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTTGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
*
56620262 TAGTCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* * * * * *
56620306 AGATTTTATCTCCCTAAGCAGTAGCGTAGCAGATTGAAGACGGTGAATATTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* *
56620371 TAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
*
56620436 TAGTCCTATCTTCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* * *
56620480 AGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTAAGCAA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
*
56620545 TAGTGAAGCAGATTTAAGCCACCAGTCCGATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
* * * * *
56620610 TAGATCCTATCTCCCTAAGTAGTGGTGGAGCAGATCGAAGACGG-
131 TAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* * * * ** ** * * * *
56620654 CGAATCTTATCTTCCTAAACAGTAGTGAAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCA
1 AG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCA
* * ** ** * **
56620718 GTAGTGGAGCAGGTCGAAG--ATGAGTCCTATCTCCCTAAGCAGTAGTGGAACAGGTTAAAGATG
65 GTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG
* * * * * *
56620781 GTAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGG-
130 GTAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* * *
56620826 CGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGAT
1 AG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
56620861 TTAAGCCNNN
Statistics
Matches: 822, Mismatches: 75, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
171 26 0.03
172 129 0.16
173 2 0.00
174 600 0.73
175 65 0.08
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (174 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
Found at i:56623088 original size:43 final size:43
Alignment explanation
Indices: 56622950--56623321 Score: 240
Period size: 43 Copynumber: 8.7 Consensus size: 43
56622940 AAAATGGTAG
* ****
56622950 ATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-AACCA
* * * * **
56622994 ATCTTATCTTCCTAAGCAGTAGTGAAGTAGATCTAAGCCACCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAACCA
*
56623037 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGAAACCA
* * * *
56623080 ATCCTATCTCCTTAA--AGTTACAGTGGAGCAGAT-TAA-AACCACA
1 ATCTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGAAAC-CA
* * *
56623123 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC---G-CATCA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAACCA
56623163 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACCA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGAAACCA
* * * *
56623207 ATCATATCTCCCTAA--AGTTACAGTGGAGCGGAT-TAA-AACCACA
1 ATCTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGAAAC-CA
* * *
56623250 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC---G-CATCA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAACCA
*
56623290 AGTCTTATCTCCCTAAGCAGTAGCGGAGCAGA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
56623322 CAGAAAAAAC
Statistics
Matches: 259, Mismatches: 41, Indels: 60
0.72 0.11 0.17
Matches are distributed among these distances:
39 3 0.01
40 61 0.24
41 4 0.02
42 9 0.03
43 92 0.36
44 84 0.32
45 2 0.01
46 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAACCA
Found at i:56623176 original size:40 final size:40
Alignment explanation
Indices: 56622951--56623321 Score: 207
Period size: 44 Copynumber: 8.8 Consensus size: 40
56622941 AAATGGTAGA
* * *
56622951 TCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAA-
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCG-A-AC---CAAG
* * * * *
56622995 TCTTATCTTCCTAAGCAGTAGTGAAGTAGATCTAAGCCACCAG
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAA-CCA--AG
*
56623038 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACCAA-
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATC----G-AACCAAG
* * * **
56623081 TCCTATCTCCTTAAAGTTA-CAGTGGAGCAGATTAAAACCACAG
1 TCTTATCTCCCT-AAG-TAGTAGTGGAGCAGA-TCGAACCA-AG
* *
56623124 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAACCAAG
*
56623165 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACCAA-
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATC----G-AACCAAG
* * * **
56623208 TCATATCTCCCTAAAGTTA-CAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCCCT-AAG-TAGTAGTGGAGCAGA-TCGAACCA-AG
* *
56623251 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAACCAAG
* *
56623292 TCTTATCTCCCTAAGCAGTAGCGGAGCAGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
56623322 CAGAAAAAAC
Statistics
Matches: 256, Mismatches: 41, Indels: 64
0.71 0.11 0.18
Matches are distributed among these distances:
39 1 0.00
40 58 0.23
41 14 0.05
42 17 0.07
43 78 0.30
44 81 0.32
45 2 0.01
46 3 0.01
47 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAACCAAG
Found at i:56623184 original size:127 final size:127
Alignment explanation
Indices: 56623036--56623331 Score: 547
Period size: 127 Copynumber: 2.3 Consensus size: 127
56623026 CTAAGCCACC
* *
56623036 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCTTAAAGTTAC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTAAAGTTAC
56623101 AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCA
66 AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCA
56623163 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTAAAGTTAC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTAAAGTTAC
*
56623228 AGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCA
66 AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCA
* *
56623290 AGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAAAAAC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAC
56623332 ACAAACATTG
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 164 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (127 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCATATCTCCCTAAAGTTAC
AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCA
Found at i:56624877 original size:15 final size:14
Alignment explanation
Indices: 56624833--56624892 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
56624823 TTACTACTAC
56624833 TACTATT-ATTA-T
1 TACTATTAATTATT
*
56624845 TAGTATTATATT-TAT
1 TACTATTA-ATTAT-T
*
56624860 TACTATTACTTACTT
1 TACTATTAATTA-TT
56624875 TACTATTAATTATT
1 TACTATTAATTATT
56624889 TACT
1 TACT
56624893 CATGGCGCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.16
14 11 0.29
15 20 0.53
16 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.57
Consensus pattern (14 bp):
TACTATTAATTATT
Found at i:56626815 original size:2 final size:2
Alignment explanation
Indices: 56626802--56626833 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
56626792 AAATGAAATT
56626802 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
56626834 TACAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56627953 original size:18 final size:18
Alignment explanation
Indices: 56627918--56627956 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56627908 TTTTTTAGAG
* * *
56627918 TAAAAGTTTTATACATTT
1 TAAAAGTTGTAGAAATTT
56627936 TAAAAGTTGTAGAAATTT
1 TAAAAGTTGTAGAAATTT
56627954 TAA
1 TAA
56627957 TTACTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (18 bp):
TAAAAGTTGTAGAAATTT
Found at i:56632409 original size:23 final size:23
Alignment explanation
Indices: 56632383--56632426 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
56632373 TGGGTAGGAA
56632383 GTTTTCTGGAAAAT-CTGCATTAT
1 GTTTT-TGGAAAATACTGCATTAT
*
56632406 GTTTTTTGAAAATACTGCATT
1 GTTTTTGGAAAATACTGCATT
56632427 GACATAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (23 bp):
GTTTTTGGAAAATACTGCATTAT
Found at i:56634242 original size:42 final size:42
Alignment explanation
Indices: 56634195--56634292 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
56634185 CAAACAAAAA
* *
56634195 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTC-TAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCATAAG
* *
56634237 CGCCGCTAAAAAACATGATCTTTAGTGGCGTTTTTTCATAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAG
*
56634279 CGTCGCTAAAGAAC
1 CGCCGCTAAAGAAC
56634293 GCTGCTAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 7 0.14
42 42 0.86
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAG
Found at i:56634301 original size:55 final size:55
Alignment explanation
Indices: 56634241--56634344 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
56634231 TCTAAGCGCC
* * *
56634241 GCTAAAAAACATGATCTTTAGTGGC-GTTTTTTCATAAGCGTCGCTAAAGAACGCT
1 GCTAAAAAACATGATCTTTAGCGGCAGTTTTTTC-TAAGCGCCACTAAAGAACGCT
* *
56634296 GCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCACTAAAG
1 GCTAAAAAACATGATCTTTAGCGGCAGTTTTTTCTAAGCGCCACTAAAG
56634345 GACATGATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 36 0.84
56 7 0.16
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (55 bp):
GCTAAAAAACATGATCTTTAGCGGCAGTTTTTTCTAAGCGCCACTAAAGAACGCT
Found at i:56634314 original size:97 final size:96
Alignment explanation
Indices: 56634193--56634388 Score: 293
Period size: 97 Copynumber: 2.0 Consensus size: 96
56634183 TACAAACAAA
* * * *
56634193 AACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAAAACATGATCT
1 AACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCACTAAAAAACATGATCT
* * *
56634258 TTAGTGGCGTTTTTTCATAAGCGTCGCTAAAG
66 TTAGCGGC-ATTTTTCATAAGCGCCGCTAAAG
* **
56634290 AACGCTGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCACTAAAGGACATGATCT
1 AACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCACTAAAAAACATGATCT
56634355 TTAGCGGCATTTTTCATAAGCGCCGCTAAAG
66 TTAGCGGCATTTTTCATAAGCGCCGCTAAAG
56634386 AAC
1 AAC
56634389 ATGATCTTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 24 0.27
97 65 0.73
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (96 bp):
AACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCACTAAAAAACATGATCT
TTAGCGGCATTTTTCATAAGCGCCGCTAAAG
Found at i:56634356 original size:42 final size:42
Alignment explanation
Indices: 56634296--56634400 Score: 169
Period size: 41 Copynumber: 2.5 Consensus size: 42
56634286 AAAGAACGCT
56634296 GCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCC
* *
56634338 ACTAAAGGACATGATCTTTAGCGGCA--TTTTTCATAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCATTTTTTTC-TAAGCGCC
56634379 GCTAAAGAACATGATCTTTAGC
1 GCTAAAGAACATGATCTTTAGC
56634401 CTAAACGCCG
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
40 6 0.10
41 28 0.48
42 24 0.41
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (42 bp):
GCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCC
Found at i:56634422 original size:13 final size:13
Alignment explanation
Indices: 56634404--56634432 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56634394 CTTTAGCCTA
56634404 AACGCCGCTAAAG
1 AACGCCGCTAAAG
56634417 AACGCCGCTAAAG
1 AACGCCGCTAAAG
56634430 AAC
1 AAC
56634433 AAGATCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.31, G:0.21, T:0.07
Consensus pattern (13 bp):
AACGCCGCTAAAG
Found at i:56634593 original size:127 final size:127
Alignment explanation
Indices: 56634282--56634621 Score: 368
Period size: 127 Copynumber: 2.7 Consensus size: 127
56634272 TCATAAGCGT
* * * *
56634282 CGCTAAAGAACGCTGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCACTAAAGGA
1 CGCTAAAGAACGCCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGGA
* ** * *
56634347 CATGATCTTTAGCGGCATTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCCTAAACGC
66 CATGATCTTTAGCGGCGTTTTGAATAAGCGCCGCTAAAGAACATGATCTTTAGACGAAACGC
*
56634409 CGCTAAAGAACGCCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTTCTAAGTGCCGCTAAAGGA
1 CGCTAAAGAACGCCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGGA
* * * * **
56634474 CATGATCTTTAGTGGCGTTTGTGAATATGCGCCGCTAAAGAACATGTTCTTTA-ACGACACTT
66 CATGATCTTTAGCGGCGTTT-TGAATAAGCGCCGCTAAAGAACATGATCTTTAGACGAAACGC
* * * * * *
56634536 TG-TAGAA-AACGTCGCTAGAGATCATA-ATCTTTTGCGGCGTTTTTTT-TACAAACGCCGCTAA
1 CGCTA-AAGAACGCCGCTAAAGAACA-AGATCTTTAGCGGCGTTTTTTTCT--AAGCGCCGCTAA
**
56634597 ATAACAT-ATTCTTTAGCGGCGTTTT
62 AGGACATGA-TCTTTAGCGGCGTTTT
56634622 TGTACAAAAA
Statistics
Matches: 181, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
125 1 0.01
126 37 0.20
127 115 0.64
128 28 0.15
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (127 bp):
CGCTAAAGAACGCCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGGA
CATGATCTTTAGCGGCGTTTTGAATAAGCGCCGCTAAAGAACATGATCTTTAGACGAAACGC
Found at i:56634960 original size:21 final size:21
Alignment explanation
Indices: 56634934--56635004 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
56634924 TTTTGCTCTG
*
56634934 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
56634955 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
56634976 CGCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTAGC
56634997 CTCTGCTT
1 CTCTGCTT
56635005 TAAGTTGTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.03, C:0.42, G:0.20, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:56640384 original size:6 final size:6
Alignment explanation
Indices: 56640363--56640400 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
56640353 AATTTTAGTG
* *
56640363 TTTTTA -TTTCA TTTTTA TTTTTA TTTTTA TTTTAA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
56640401 AATTCCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:56640395 original size:11 final size:11
Alignment explanation
Indices: 56640363--56640396 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
56640353 AATTTTAGTG
*
56640363 TTTTTATTTCA
1 TTTTTATTTTA
56640374 TTTTTATTTTTA
1 TTTTTA-TTTTA
56640386 TTTTTATTTTA
1 TTTTTATTTTA
56640397 ATTTAATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:56641493 original size:23 final size:23
Alignment explanation
Indices: 56641450--56641493 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
56641440 CCTAAATTAT
* *
56641450 ACATATTTTACAATTACATAAGA
1 ACATATTTTAAAATTAAATAAGA
56641473 ACATA-TTTAAAATATAAATAA
1 ACATATTTTAAAAT-TAAATAA
56641494 AAAATTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ACATATTTTAAAATTAAATAAGA
Found at i:56642343 original size:84 final size:84
Alignment explanation
Indices: 56642202--56642369 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
56642192 TGAAAACGCC
* *
56642202 GCTAAAAACACAGACCATTAGCGGCGCAATACAGAAAAAGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCAAGACAGAAAAAGCCACTAAGACCACCGAAGGCCACTA
*
56642267 AACGATGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
* *
56642286 GCTAAAAACACAGACCATTAGCGGCGCTAGACCA-AAAACGCCACTAAGACCACCGAAGGCCACT
1 GCTAAAAACACAGACCATTAGCGGCGCAAGA-CAGAAAAAGCCACTAAGACCACCGAAGGCCACT
*
56642350 AAATGACGCCGTTGTATTTT
65 AAACGACGCCGTTGTATTTT
56642370 ATTTTTTAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 75 0.97
85 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCAAGACAGAAAAAGCCACTAAGACCACCGAAGGCCACTA
AACGACGCCGTTGTATTTT
Found at i:56642499 original size:197 final size:196
Alignment explanation
Indices: 56642081--56642566 Score: 816
Period size: 197 Copynumber: 2.5 Consensus size: 196
56642071 NNNNNNNNNN
56642081 GTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCG
1 GTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCG
* *
56642146 AAGGCCACTAAACAACGCCGTTGTA-TTTATTTTTACGGTCATTTTTTGAAAACGCCGCTAAAAA
66 AAGGCCACTAAACGACGCCGTTGTATTTTATTTTTAAGGTCATTTTTTGAAAACGCCGCTAAAAA
* * *
56642210 CACAGACCATTAGCGGCGCAATACAGAAAAAGCCACTAAGGCCACCGAAGGCCACTAAACGATGC
131 CACAGACCATTAGCGGCGCAAGACAGAAAAAGCCACTAAGGCCACCAAAGGCCACTAAACGACGC
56642275 C
196 C
*
56642276 GTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGACCACCG
1 GTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCG
* * * *
56642341 AAGGCCACTAAATGACGCCGTTGTATTTTATTTTTTAAGG-CATTTTTTTTAAAAGGTCGCTAAA
66 AAGGCCACTAAACGACGCCGTTGTATTTTA-TTTTTAAGGTCA-TTTTTTGAAAACGCCGCTAAA
56642405 AACACAGACCATTAGCGGCGCAAGACA-AAAAATGCCACTAAGGCCACCAAAGGCCACTAAACGA
129 AACACAGACCATTAGCGGCGCAAGACAGAAAAA-GCCACTAAGGCCACCAAAGGCCACTAAACGA
56642469 CGCC
193 CGCC
56642473 GTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCG
1 GTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCG
* *
56642538 AAGGCCACCAAACGACGCCATTGTATTTT
66 AAGGCCACTAAACGACGCCGTTGTATTTT
56642567 GCTAAAAACA
Statistics
Matches: 273, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
195 87 0.32
196 11 0.04
197 175 0.64
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (196 bp):
GTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCG
AAGGCCACTAAACGACGCCGTTGTATTTTATTTTTAAGGTCATTTTTTGAAAACGCCGCTAAAAA
CACAGACCATTAGCGGCGCAAGACAGAAAAAGCCACTAAGGCCACCAAAGGCCACTAAACGACGC
C
Found at i:56642508 original size:84 final size:84
Alignment explanation
Indices: 56642399--56642650 Score: 432
Period size: 84 Copynumber: 3.0 Consensus size: 84
56642389 TTAAAAGGTC
* * * *
56642399 GCTAAAAACACAGACCATTAGCGGCGCAAGACAAAAAATGCCACTAAGGCCACCAAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
56642464 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
*
56642483 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACCA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
56642548 AACGACGCCATTGTATTTT
66 AACGACGCCGTTGTATTTT
*
56642567 GCTAAAAACACAGACCATTAACGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
56642632 AACGATGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
56642651 TTTTGCGGCA
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 158 1.00
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCGTTGTATTTT
Found at i:56645420 original size:32 final size:30
Alignment explanation
Indices: 56645384--56645460 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 30
56645374 AATTATTAGT
56645384 AAGTTAGATTATCTCTCTT-TTATCAAAAAAAA
1 AAGTTAGATTATCTCT-TTCTT-TC-AAAAAAA
56645416 AAGTTAGATTATCTCTTTCTTTCAAAAAAA
1 AAGTTAGATTATCTCTTTCTTTCAAAAAAA
56645446 AAGTTAGATTATCTC
1 AAGTTAGATTATCTC
56645461 ATTTTATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 22 0.50
31 4 0.09
32 18 0.41
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (30 bp):
AAGTTAGATTATCTCTTTCTTTCAAAAAAA
Found at i:56647318 original size:24 final size:23
Alignment explanation
Indices: 56647272--56647341 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
56647262 ATGAGAAACC
* *
56647272 AAAATTTTATTTTATTTTAATTT
1 AAAATTTTATTATATTTTTATTT
56647295 AAAATTTTATTATATTTTTTATTT
1 AAAATTTTATTATA-TTTTTATTT
** *
56647319 ATGATTTT-TAATAATTTTTATTT
1 AAAATTTTATTAT-ATTTTTATTT
56647342 TGATAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 25 0.62
24 15 0.38
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (23 bp):
AAAATTTTATTATATTTTTATTT
Found at i:56647335 original size:17 final size:16
Alignment explanation
Indices: 56647315--56647371 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
56647305 TATATTTTTT
56647315 ATTTATGATTTTTAATA
1 ATTT-TGATTTTTAATA
*
56647332 ATTTTTATTTTGATAAT-
1 ATTTTGATTTT--TAATA
56647349 ATTTTGAATTTTTAATTA
1 ATTTTG-ATTTTTAA-TA
56647367 ATTTT
1 ATTTT
56647372 AAAATTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.27
17 10 0.30
18 14 0.42
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (16 bp):
ATTTTGATTTTTAATA
Found at i:56647382 original size:34 final size:34
Alignment explanation
Indices: 56647314--56647382 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
56647304 TTATATTTTT
* **
56647314 TATTTATGATTTTTAATAATTTTTATTTTGATAA
1 TATTTATGATTTTTAATAATTTTAAAATTGATAA
56647348 TATTT-TGAATTTTTAATTAATTTTAAAATT-ATAA
1 TATTTATG-ATTTTTAA-TAATTTTAAAATTGATAA
56647382 T
1 T
56647383 TCCATTCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 2 0.07
34 18 0.60
35 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (34 bp):
TATTTATGATTTTTAATAATTTTAAAATTGATAA
Found at i:56647812 original size:58 final size:60
Alignment explanation
Indices: 56647656--56647817 Score: 152
Period size: 61 Copynumber: 2.7 Consensus size: 60
56647646 ACTTGGATTT
* * * * *
56647656 AAAA-AAAAGGTTAAAGTCTCAATGTGGGAACATTTGTGAAGTTCAGGGCCTAACTTGGACC
1 AAAAGAAAA-GTTCAAGTCTCAATGTGGGAA-AATTGTCAAGTTCAAGGCCTAACTTAGACC
* * * * * *
56647717 AAAAGAAAAGTTCAGGCCGCAATGTGAGAACAATTGTCAAGTTCAAGGTCTAATTTAGA-C
1 AAAAGAAAAGTTCAAGTCTCAATGTGGGAA-AATTGTCAAGTTCAAGGCCTAACTTAGACC
*
56647777 AGAA-AAAA-TTCAAGTCTCAATGTGGGAAAAGTTGTCAAGTT
1 AAAAGAAAAGTTCAAGTCTCAATGTGGGAAAA-TTGTCAAGTT
56647818 TAAATCCCAA
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
57 2 0.02
58 26 0.31
59 4 0.05
60 4 0.05
61 43 0.52
62 4 0.05
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (60 bp):
AAAAGAAAAGTTCAAGTCTCAATGTGGGAAAATTGTCAAGTTCAAGGCCTAACTTAGACC
Found at i:56650959 original size:3 final size:3
Alignment explanation
Indices: 56650951--56650999 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
56650941 AAGGATAAGG
56650951 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56650999 A
1 A
56651000 AGTCATAGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56651085 original size:30 final size:31
Alignment explanation
Indices: 56651032--56651095 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
56651022 TAAAAAATGA
* ** * *
56651032 AAAAAAATAAAAAAAGGGTTAAATT-GAACT
1 AAAAAAAGAAAAAAAAAGCTAAATTCGAAAT
56651062 AAAAAAAGAAAAAAAAAGCTAAATTCGAAAT
1 AAAAAAAGAAAAAAAAAGCTAAATTCGAAAT
56651093 AAA
1 AAA
56651096 TCTGAAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.69, C:0.05, G:0.11, T:0.16
Consensus pattern (31 bp):
AAAAAAAGAAAAAAAAAGCTAAATTCGAAAT
Found at i:56652639 original size:43 final size:43
Alignment explanation
Indices: 56652578--56652771 Score: 106
Period size: 44 Copynumber: 4.4 Consensus size: 43
56652568 GATCTGAAAT
* *
56652578 CTTCAATCTATTACACTGCTGCCCAGGGAAGTAAAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAAAATTACTGG
* ** * * * * ***
56652621 CTTCAATGTACTCCACTGCAACTTCAAGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCTGC-CCAGGGAAGTAAAAT-TACTGG
* * ** ** * *
56652666 CTTCGATCTGCTCCACTATTGCTTAGGG-AGATAAGA-T-CTGTAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAG-TAAAATTACTG---G
* *
56652710 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAAAATTACTGG
*
56652753 CTTCAATGTACTCCACTGC
1 CTTCAATCTACTCCACTGC
56652772 AACTTCAGGG
Statistics
Matches: 105, Mismatches: 37, Indels: 18
0.66 0.23 0.11
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 35 0.33
44 45 0.43
45 20 0.19
46 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAAAATTACTGG
Found at i:56652907 original size:265 final size:263
Alignment explanation
Indices: 56652497--56653510 Score: 1233
Period size: 265 Copynumber: 3.8 Consensus size: 263
56652487 ACTTTCTATA
* ** * *** *
56652497 TACTCCACTGTAACTTCAGAGAGGTAAAATTTACCATATTTGATCTGCTCCACTACTGCTTGAGG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGC-T-AGG
* *
56652562 -AGACAAGATCTGAAATCTTCAATCTATTACACTGCTGCCCAGGGAAGTAAAATTACTGGCTTCA
64 AAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCA
** * * *
56652626 ATGTACTCCACTGCAACTTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTATTGCTTA
129 ATGTACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGCTTA
* *
56652691 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
194 GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
56652756 CAATG
259 CAATG
** ** * *
56652761 TACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCAATCTTCTTCGCTGTCTA-TGC-A
1 TACTCCACTGCAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGC-TC-C--ACTACTGCTA
* * *
56652824 GGAA-AGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCTA-GG-AGATAGAATTGCTGG
62 GGAAGA-CAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC-AGGGAAG-TAGAATTACTGG
* * * * * **
56652886 CTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCGTCTTCGATCTTCTTCGGTGTC
124 CTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGC-TC---CAC
* * * * *
56652951 TA-TGC--AGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGG-AGATAGAG
185 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAA
*
56653012 TTACTGGCTTCAATA
249 TTACTGGCTTCAATG
* * * *
56653027 TACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGA
1 TACTCCACTGCAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGC-TAGGA
* * *
56653092 AGACAAGATCTGAAATCTTTAAATCTATTCTACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCA
65 AGACAAGATCTGAAATC-TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCA
** * *
56653157 ATGTACTCCACTATAACCACAGGGGGGTAAAAT-TCACCATCTTTGATCTGGC-CCACTACTGCT
129 ATGTACTCCACTGCAACCACAGGGAGGTAAAATCT-ACCATCTTCGATCT-GCTCCACTACTGCT
*
56653220 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGC
192 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
56653285 TTCAATG
257 TTCAATG
* *
56653292 TACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGC-TAGGA
* *
56653357 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAA
65 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * *
56653422 TGTACTTCACTGCAACCACAGGGAGGTAAAATCTACCGTTTTCGATCTGCTTCACTACTGCTTAG
130 TGTACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAG
*
56653487 GGAGGCAAGATCTGAAATCTTCAA
195 GGAGACAAGATCTGAAATCTTCAA
56653511 CCTGCTCCAC
Statistics
Matches: 638, Mismatches: 84, Indels: 56
0.82 0.11 0.07
Matches are distributed among these distances:
262 6 0.01
263 8 0.01
264 164 0.26
265 262 0.41
266 183 0.29
267 6 0.01
268 6 0.01
269 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (263 bp):
TACTCCACTGCAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTAGGAA
GACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAAT
GTACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGG
GAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCA
ATG
Found at i:56653269 original size:44 final size:44
Alignment explanation
Indices: 56653221--56653401 Score: 109
Period size: 44 Copynumber: 4.1 Consensus size: 44
56653211 ACTACTGCTT
* *
56653221 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* * * * **
56653265 AGGGAAGTAGAA-TTACTG---GCTTCAATGTACTCCACTGCAACCAC
1 AGGG-AG-ACAAGAT-CTGAAATCTTCAATCTACTCCACTGCTGCC-C
** * ** ** * * **
56653309 AGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* *
56653353 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
56653397 AGGGA
1 AGGGA
56653402 AGTAGAATTT
Statistics
Matches: 95, Mismatches: 34, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
42 5 0.05
43 21 0.22
44 45 0.47
45 18 0.19
46 6 0.06
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (44 bp):
AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
Found at i:56653533 original size:132 final size:132
Alignment explanation
Indices: 56652497--56653510 Score: 1232
Period size: 132 Copynumber: 7.7 Consensus size: 132
56652487 ACTTTCTATA
* ** * * *
56652497 TACTCCACTGTAACTTCAGAGAGGTAAAATTTACCATATTTGATCTGCTCCACTACTGCTT-GAG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAG-G
* *
56652561 GAGACAAGATCTGAAATCTTCAATCTATTACACTGCTGCCCAGGGAAGTAAAATTACTGGCTTCA
65 GAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCA
56652626 ATG
130 ATG
** * * * *
56652629 TACTCCACTGCAACTTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTATTGCTTAGGG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
* *
56652694 AGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
66 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
56652759 TG
131 TG
** ** ** * *
56652761 TACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCAATCTTCTTCGCTGTCTA-TGC--
1 TACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGC-TC-C--ACTACTGCTT
* * * *
56652823 A-GGAAAGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCTA-GG-AGATAGAATTGCTG
62 AGGGAGA-CAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC-AGGGAAG-TAGAATTACTG
*
56652885 GCTTCAATA
124 GCTTCAATG
* * * * * **
56652894 TACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCGTCTTCGATCTTCTTCGGTGTCTA-TGC--
1 TACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGC-TC---CACTACTGCTT
* * * * *
56652956 AGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGG-AGATAGAGTTACTGGC
62 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGC
*
56653020 TTCAATA
126 TTCAATG
*
56653027 TACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCACTACTGCTT-GG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCT-ACCATCTTTGATCTGCTCCACTACTGCTTAGG
* * *
56653090 GAAGACAAGATCTGAAATCTTTAAATCTATTCTACTGCTGCCTAGGGAAGTAGAATTACTGGCTT
65 G-AGACAAGATCTGAAATC-TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
56653155 CAATG
128 CAATG
** *
56653160 TACTCCACTATAACCACAGGGGGGTAAAAT-TCACCATCTTTGATCTGGC-CCACTACTGCTTAG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCT-ACCATCTTTGATCT-GCTCCACTACTGCTTAG
*
56653223 GGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
64 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
56653288 AATG
129 AATG
*
56653292 TACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
* *
56653357 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAA
66 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
56653422 TG
131 TG
* * *
56653424 TACTTCACTGCAACCACAGGGAGGTAAAATCTACCGT-TTTCGATCTGCTTCACTACTGCTTAGG
1 TACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTT-GATCTGCTCCACTACTGCTTAGG
*
56653488 GAGGCAAGATCTGAAATCTTCAA
65 GAGACAAGATCTGAAATCTTCAA
56653511 CCTGCTCCAC
Statistics
Matches: 790, Mismatches: 68, Indels: 48
0.87 0.08 0.05
Matches are distributed among these distances:
129 3 0.00
130 3 0.00
131 7 0.01
132 433 0.55
133 327 0.41
134 11 0.01
135 3 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
TACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TG
Found at i:56654838 original size:7 final size:7
Alignment explanation
Indices: 56654822--56654862 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
56654812 AGCCTCTCCA
*
56654822 TTTTCTT
1 TTTTCAT
56654829 TTTTCAT
1 TTTTCAT
56654836 TTTTCA-
1 TTTTCAT
56654842 TTTTCAT
1 TTTTCAT
56654849 CTTTTCAT
1 -TTTTCAT
56654857 TTTTCA
1 TTTTCA
56654863 CATCACTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:56654855 original size:21 final size:20
Alignment explanation
Indices: 56654820--56654862 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
56654810 TTAGCCTCTC
*
56654820 CATTTTCTTTTTTCATTTTT
1 CATTTTCTCTTTTCATTTTT
56654840 CATTTTCATCTTTTCATTTTT
1 CATTTTC-TCTTTTCATTTTT
56654861 CA
1 CA
56654863 CATCACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (20 bp):
CATTTTCTCTTTTCATTTTT
Found at i:56654874 original size:21 final size:22
Alignment explanation
Indices: 56654826--56654874 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
56654816 TCTCCATTTT
**
56654826 CTTTTTTCATTTTTCATTTTCA
1 CTTTTTTCATTTTTCATCATCA
*
56654848 -TCTTTTCATTTTTCA-CATCA
1 CTTTTTTCATTTTTCATCATCA
56654868 CTTTTTT
1 CTTTTTT
56654875 TTGGACTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.65
Consensus pattern (22 bp):
CTTTTTTCATTTTTCATCATCA
Found at i:56659290 original size:3 final size:3
Alignment explanation
Indices: 56659282--56659369 Score: 158
Period size: 3 Copynumber: 29.3 Consensus size: 3
56659272 ATATGTAAGG
*
56659282 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
56659330 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
56659370 AGTCATAGTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56659444 original size:28 final size:28
Alignment explanation
Indices: 56659399--56659463 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
56659389 TTTTAAAAAA
* ** *
56659399 TGAAA-AAAAAATAAAAAAGGGTTAAAT
1 TGAAATAAAAAAGAAAAAAAAGCTAAAT
56659426 TGAAATAAAAAAGAAAAAAAAGCTAAAT
1 TGAAATAAAAAAGAAAAAAAAGCTAAAT
56659454 TCGAAATAAA
1 T-GAAATAAA
56659464 TCTGAAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.16
28 19 0.59
29 8 0.25
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.17
Consensus pattern (28 bp):
TGAAATAAAAAAGAAAAAAAAGCTAAAT
Found at i:56662549 original size:21 final size:22
Alignment explanation
Indices: 56662520--56662571 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
56662510 GAAAATATCC
56662520 ATTACTTTTC-ATAAAAATAGAT
1 ATTA-TTTTCAATAAAAATAGAT
* *
56662542 ATTATTTTCAATTAAAATATAT
1 ATTATTTTCAATAAAAATAGAT
56662564 ATTATTTT
1 ATTATTTT
56662572 GAAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTATTTTCAATAAAAATAGAT
Done.