Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 432 of 770
Found at i:133323954 original size:27 final size:27
Alignment explanation
Indices: 133323924--133324052 Score: 136
Period size: 27 Copynumber: 4.8 Consensus size: 27
133323914 TTTAGTTTAC
133323924 TAAAATTACCAAAATACCCTTATTTTG
1 TAAAATTACCAAAATACCCTTATTTTG
* **
133323951 TAAAATTACCGAAATACCAC-TGGTTTG
1 TAAAATTACCAAAATACC-CTTATTTTG
* * * *
133323978 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTTATTTTG
* *
133324005 TAAAATTACCAAAATACCTCTGATTTAG
1 TAAAATTACCAAAATACC-CTTATTTTG
*
133324033 -AAAATTACAAAAATACCCTT
1 TAAAATTACCAAAATACCCTT
133324053 GACTTTCTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.04
27 75 0.88
28 7 0.08
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTATTTTG
Found at i:133323993 original size:54 final size:53
Alignment explanation
Indices: 133323925--133324105 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 53
133323915 TTAGTTTACT
*
133323925 AAAATTACCAAAATACCCTTATTTTGTAAAATTACCGAAATACCACTGGTTTG
1 AAAATTACCAAAATACCCTTAATTTGTAAAATTACCGAAATACCACTGGTTTG
* * * * * *
133323978 TGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTGATTTAG
1 -AAAATTACCAAAATACCCTTAATTTGTAAAATTACCGAAATACCACTGGTTT-G
* * * ** * *
133324033 AAAATTACAAAAATACCCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCTT-AATTTGT-AAAATTACCGAAATACCACTGGTTT-G
**
133324089 AAAATTACTGAAATACC
1 AAAATTACCAAAATACC
133324106 TTTGGTTTGT
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
54 61 0.60
55 6 0.06
56 35 0.34
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTAATTTGTAAAATTACCGAAATACCACTGGTTTG
Found at i:133324101 original size:27 final size:27
Alignment explanation
Indices: 133324062--133324113 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
133324052 TGACTTTCTA
133324062 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
133324089 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
133324114 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:133324194 original size:26 final size:27
Alignment explanation
Indices: 133324130--133324231 Score: 100
Period size: 26 Copynumber: 3.8 Consensus size: 27
133324120 TTACCAAAAC
* * ***
133324130 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCTTGTAGGGTAAAATGACCGTAAT
*
133324157 ACCCCTAT-TAGGGTAAAGTGACCGTAA-
1 A-CCCT-TGTAGGGTAAAATGACCGTAAT
*
133324184 GCCCTTGTAGGGTAAAATGACCGTAAT
1 ACCCTTGTAGGGTAAAATGACCGTAAT
*
133324211 ACCCTTGTATGGTAAAATGAC
1 ACCCTTGTAGGGTAAAATGAC
133324232 GAATATGCCC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.02
26 22 0.36
27 20 0.33
28 17 0.28
29 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
ACCCTTGTAGGGTAAAATGACCGTAAT
Found at i:133324224 original size:27 final size:26
Alignment explanation
Indices: 133324165--133324231 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
133324155 ATACCCCTAT
* *
133324165 TAGGGTAAAGTGACCGTAAGCCCTTG
1 TAGGGTAAAATGACCGTAAACCCTTG
133324191 TAGGGTAAAATGACCGTAATACCCTTG
1 TAGGGTAAAATGACCGTAA-ACCCTTG
*
133324218 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
133324232 GAATATGCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (26 bp):
TAGGGTAAAATGACCGTAAACCCTTG
Found at i:133324242 original size:27 final size:28
Alignment explanation
Indices: 133324165--133324243 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
133324155 ATACCCCTAT
*
133324165 TAGGGTAAAGTGACCGT-A-AGCCCTTG
1 TAGGGTAAAATGACCGTAATAGCCCTTG
133324191 TAGGGTAAAATGACCGTAATA-CCCTTG
1 TAGGGTAAAATGACCGTAATAGCCCTTG
*
133324218 TATGGTAAAATGA-CG-AATATGCCCTT
1 TAGGGTAAAATGACCGTAATA-GCCCTT
133324244 ATGCTCCGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.09
26 18 0.38
27 24 0.51
28 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (28 bp):
TAGGGTAAAATGACCGTAATAGCCCTTG
Found at i:133325421 original size:24 final size:24
Alignment explanation
Indices: 133325389--133325435 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
133325379 TTATAACATG
* * *
133325389 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
133325413 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
133325436 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:133325501 original size:20 final size:20
Alignment explanation
Indices: 133325478--133325515 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
133325468 ATAAACATTG
133325478 TATGGATGATATGCACATGA
1 TATGGATGATATGCACATGA
*
133325498 TATGTATGATATGCACAT
1 TATGGATGATATGCACAT
133325516 AATGTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
TATGGATGATATGCACATGA
Found at i:133325599 original size:23 final size:22
Alignment explanation
Indices: 133325569--133325664 Score: 129
Period size: 23 Copynumber: 4.1 Consensus size: 22
133325559 AGGAAGTGAA
133325569 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCC-AGTTATT
133325592 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATG-CCCAGTTATT
*
133325615 AAAGGGCTTATGCCGCAGTTATAA
1 AAAGGGCTTATGCC-CAGTTAT-T
*
133325639 AAAGGGCTTTTGCCCAAGTTATT
1 AAAGGGCTTATGCCC-AGTTATT
133325662 AAA
1 AAA
133325665 AAAGGCTAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
22 2 0.03
23 42 0.64
24 22 0.33
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (22 bp):
AAAGGGCTTATGCCCAGTTATT
Found at i:133325636 original size:46 final size:47
Alignment explanation
Indices: 133325569--133325664 Score: 142
Period size: 47 Copynumber: 2.1 Consensus size: 47
133325559 AGGAAGTGAA
* *
133325569 AAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTATGCCCAAGTTATT
*
133325615 AAAGGGCTTATGCCGC-AGTTATAAAAAGGGCTTTTGCCCAAGTTATT
1 AAAGGGCTTATGCC-CTAGTTATAAAAAGGGCTTATGCCCAAGTTATT
133325662 AAA
1 AAA
133325665 AAAGGCTAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 20 0.44
47 25 0.56
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTATGCCCAAGTTATT
Found at i:133328738 original size:27 final size:26
Alignment explanation
Indices: 133328708--133328834 Score: 121
Period size: 27 Copynumber: 4.8 Consensus size: 26
133328698 TTTAGTTTAC
*
133328708 TAAAATTACCAAAATACTCCTAGTTTG
1 TAAAATTACCGAAATAC-CCTAGTTTG
133328735 TAAAATTACCGAAATACCACTAGTTTG
1 TAAAATTACCGAAATACC-CTAGTTTG
* * *
133328762 TGAAATTATCGAAATACCCTCAATTTG
1 TAAAATTACCGAAATACCCT-AGTTTG
* * *
133328789 TAAAATTATCGACATACCCCT-GATTG
1 TAAAATTACCGAAATA-CCCTAGTTTG
* **
133328815 AAAAATTACAAAAATACCCT
1 TAAAATTACCGAAATACCCT
133328835 TGACTTTCAA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.05
26 17 0.20
27 59 0.70
28 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
TAAAATTACCGAAATACCCTAGTTTG
Found at i:133328874 original size:29 final size:27
Alignment explanation
Indices: 133328815--133328896 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
133328805 CCCCTGATTG
* * * *
133328815 AAAAATTACAAAAATACCCTTGACTTTC
1 AAAAATTATAGAAATACCATTG-GTTTC
133328843 AAAAAATTATAGAAATACCATTGGTTT-
1 -AAAAATTATAGAAATACCATTGGTTTC
*
133328870 ACAAAATTACT-GAAATACCTTTGGTTT
1 A-AAAATTA-TAGAAATACCATTGGTTT
133328897 GTTGATTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.48
28 4 0.09
29 19 0.41
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAAATTATAGAAATACCATTGGTTTC
Found at i:133328884 original size:27 final size:27
Alignment explanation
Indices: 133328845--133328896 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
133328835 TGACTTTCAA
133328845 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
133328872 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
133328897 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:133330720 original size:40 final size:39
Alignment explanation
Indices: 133330555--133330738 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
133330545 AAATTGAATG
* * *
133330555 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
133330595 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
133330635 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
*
133330674 CCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
133330714 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
133330739 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 27, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:133330721 original size:80 final size:80
Alignment explanation
Indices: 133330595--133330783 Score: 193
Period size: 80 Copynumber: 2.4 Consensus size: 80
133330585 GCTGGAAATT
* * * *
133330595 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
133330660 TTCGTGCGAGTCATCC
66 TTCGTGCGAGTCA-CC
* * * * * *
133330676 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
133330739 CTTGGTGCGGGTTACC
65 ATTCGTGCGAGTCACC
* * *
133330755 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
133330784 ATCGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 84 0.97
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCACC
Found at i:133338753 original size:40 final size:39
Alignment explanation
Indices: 133338666--133338815 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 39
133338656 AATTGAATGA
* * * **
133338666 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAAT-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCATC
* *
133338704 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TAT--CCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CAT-C
133338747 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATC
*
133338785 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
133338816 AAATCGTGAT
Statistics
Matches: 91, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
38 5 0.05
39 30 0.33
40 53 0.58
41 1 0.01
42 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATC
Found at i:133338800 original size:39 final size:38
Alignment explanation
Indices: 133338709--133338815 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 38
133338699 GAAATTATAA
* *
133338709 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT-GCTACAT
133338749 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-C-ATCTAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGCTA-C-AT
133338788 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCA-TTGTGC
133338816 AAATCGTGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
37 1 0.02
38 2 0.03
39 30 0.49
40 28 0.46
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (38 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCGAGTGCTACAT
Found at i:133338830 original size:79 final size:79
Alignment explanation
Indices: 133338709--133338892 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 79
133338699 GAAATTATAA
* * * *
133338709 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
133338774 TGCGAGTCATCTAT
66 TGCGAGTCATCTAT
* * * * * * *
133338788 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
* * * *
133338852 GTGCGGGTTACCATAA
65 GTGCGAGTCATC-TAT
* * *
133338868 CCGGGCTATGTCCCGAAGGCGATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
133338893 ATCGAGTAGC
Statistics
Matches: 84, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
78 1 0.01
79 60 0.71
80 23 0.27
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATCTAT
Found at i:133340336 original size:27 final size:27
Alignment explanation
Indices: 133340296--133340373 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
133340286 TACAGACTAA
* * *
133340296 AATACTCCTATAGGGTAAAGTGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
133340323 AA-AGCCCCTGTAGGGTAAAATGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
*
133340350 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
133340374 GAATATGCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 43 0.96
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:133343172 original size:29 final size:29
Alignment explanation
Indices: 133343139--133343212 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
133343129 GTGACGAGAT
133343139 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
133343168 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
133343197 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
133343213 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:133343228 original size:29 final size:29
Alignment explanation
Indices: 133343196--133343271 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
133343186 CTGGAAATAT
* *
133343196 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
133343225 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
133343254 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
133343272 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:133343239 original size:58 final size:58
Alignment explanation
Indices: 133343139--133343271 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
133343129 GTGACGAGAT
* * * * * *
133343139 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
133343197 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
133343255 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
133343272 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:133351032 original size:29 final size:29
Alignment explanation
Indices: 133350999--133351072 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
133350989 GTGACGAGAT
133350999 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
133351028 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
133351057 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
133351073 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:133351088 original size:29 final size:29
Alignment explanation
Indices: 133351056--133351131 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
133351046 CTGGAAATAT
* *
133351056 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
133351085 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
133351114 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
133351132 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:133351099 original size:58 final size:58
Alignment explanation
Indices: 133350999--133351131 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
133350989 GTGACGAGAT
* * * * * *
133350999 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
133351057 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
133351115 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
133351132 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:133354003 original size:29 final size:29
Alignment explanation
Indices: 133353913--133354072 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
133353903 ACTCGATTTC
* * **
133353913 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
133353942 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
133353970 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
133354000 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
133354029 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
133354058 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
133354073 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:133359614 original size:124 final size:124
Alignment explanation
Indices: 133359392--133359616 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
133359382 GAATTATGTG
* * * ** * * *
133359392 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
133359457 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
133359516 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
133359581 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTGGAAATTATAT
133359617 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 3 0.03
124 84 0.97
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:133359738 original size:40 final size:40
Alignment explanation
Indices: 133359611--133359740 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
133359601 TTGCTGGAAA
* *
133359611 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
133359651 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
133359691 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
133359731 TTATATCCGG
1 TTATATCCGG
133359741 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:133366518 original size:49 final size:49
Alignment explanation
Indices: 133366452--133366581 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 49
133366442 ACATCAAAGT
*
133366452 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * * *
133366501 CGATGCCGTATCCCAGACAGGTCTTACACTGGCTCTCATCTATTGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
*
133366550 CGATGCCATGTCCCAGATAGGTC-TACACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
133366582 ACACAAAAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 9 0.13
49 60 0.87
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:133367402 original size:20 final size:18
Alignment explanation
Indices: 133367365--133367415 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
133367355 CTATAGCAAC
133367365 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
133367382 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
133367402 TTACAACTTTACAA
1 TCACAA-TTTACAA
133367416 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:133371842 original size:28 final size:29
Alignment explanation
Indices: 133371802--133371900 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
133371792 GTAATAAGCC
*
133371802 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
133371830 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
133371858 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
133371887 CGCACACTTAGTGC
1 CGCACACTTAGTGC
133371901 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:133379524 original size:28 final size:29
Alignment explanation
Indices: 133379484--133379582 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
133379474 GTAATAAGCC
*
133379484 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
133379512 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
133379540 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
133379569 CGCACACTTAGTGC
1 CGCACACTTAGTGC
133379583 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:133383985 original size:17 final size:18
Alignment explanation
Indices: 133383956--133383999 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
133383946 AGGCCATTTC
133383956 TGGGCTATGTGGG-CCACA
1 TGGGCT-TGTGGGCCCACA
133383974 TGGGCTTGTGGGCCCACA
1 TGGGCTTGTGGGCCCACA
133383992 TGGGCTTG
1 TGGGCTTG
133384000 CAATATGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.11, C:0.23, G:0.41, T:0.25
Consensus pattern (18 bp):
TGGGCTTGTGGGCCCACA
Found at i:133384216 original size:27 final size:27
Alignment explanation
Indices: 133384112--133384216 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
133384102 CCTTAATCGA
*
133384112 TAAAATGACTATTTTGCCCTTATAAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * *
133384139 TAAAATGACTATTTTACCATTATTG-GA
1 TAAAATGACTATTTTGCCCTTA-TGAGG
*
133384166 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* *
133384193 TAAGATGACTATTTTTCCCTTATG
1 TAAAATGACTATTTTGCCCTTATG
133384217 GGGTTTTGCC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.95
28 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGAGG
Found at i:133384237 original size:43 final size:43
Alignment explanation
Indices: 133384176--133384259 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
133384166 TAAAATGACT
*
133384176 GTTTTGCCCTTATGAGGTAAGATGACTATTTTTCCCTTATGGG
1 GTTTTGCCCTTATGAGGTAAAATGACTATTTTTCCCTTATGGG
* *
133384219 GTTTTGCCCTTATGAGGTAAAATGATTGTTTTTCCCTTATG
1 GTTTTGCCCTTATGAGGTAAAATGACTATTTTTCCCTTATG
133384260 AGGTAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.44
Consensus pattern (43 bp):
GTTTTGCCCTTATGAGGTAAAATGACTATTTTTCCCTTATGGG
Found at i:133384257 original size:27 final size:27
Alignment explanation
Indices: 133384219--133384280 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
133384209 CCCTTATGGG
*
133384219 GTTTTGCCCTTATGAGGTAAAATGATT
1 GTTTTGCCCTTATGAGGTAAAATAATT
*
133384246 GTTTTTCCCTTATGAGGTAAAATAATT
1 GTTTTGCCCTTATGAGGTAAAATAATT
133384273 GTTTTGCC
1 GTTTTGCC
133384281 ATTTTATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (27 bp):
GTTTTGCCCTTATGAGGTAAAATAATT
Found at i:133384622 original size:18 final size:18
Alignment explanation
Indices: 133384599--133384635 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
133384589 GTAGTACTTG
133384599 TATACTGTTTACTGTTAC
1 TATACTGTTTACTGTTAC
133384617 TATACTGTTTACTGTTAC
1 TATACTGTTTACTGTTAC
133384635 T
1 T
133384636 GCACTATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (18 bp):
TATACTGTTTACTGTTAC
Found at i:133384634 original size:6 final size:6
Alignment explanation
Indices: 133384601--133384677 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
133384591 AGTACTTGTA
* * *
133384601 TACTGTT TACTGT TACT-A TACTGTT TACTGT TACTG- CACTAT TACTGT
1 TACTG-T TACTGT TACTGT TACTG-T TACTGT TACTGT TACTGT TACTGT
* * *
133384649 TATTGT TACTG- CACTGTT TACTAT TACTG
1 TACTGT TACTGT TACTG-T TACTGT TACTG
133384678 CAATGGGCCA
Statistics
Matches: 53, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
5 11 0.21
6 29 0.55
7 13 0.25
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:133384655 original size:23 final size:23
Alignment explanation
Indices: 133384601--133384663 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
133384591 AGTACTTGTA
*
133384601 TACTGTTTACTGTTACTATACTGTT
1 TACTG-TTACTG-CACTATACTGTT
133384626 TACTGTTACTGCACTATTACTG-T
1 TACTGTTACTGCACTA-TACTGTT
*
133384649 TATTGTTACTGCACT
1 TACTGTTACTGCACT
133384664 GTTTACTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 19 0.54
24 11 0.31
25 5 0.14
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.48
Consensus pattern (23 bp):
TACTGTTACTGCACTATACTGTT
Found at i:133387935 original size:79 final size:80
Alignment explanation
Indices: 133387852--133387999 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
133387842 TATGGTAACC
* * *
133387852 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
133387915 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
133387931 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
133387996 CCGG
66 CCGG
133388000 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 30 0.53
80 26 0.46
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:133387944 original size:40 final size:40
Alignment explanation
Indices: 133387892--133387999 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
133387882 TATCACGATT
** *
133387892 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
133387932 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
133387972 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
133388000 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:133389453 original size:68 final size:70
Alignment explanation
Indices: 133389381--133389578 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
133389371 ACACCCTGTA
* * * *
133389381 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
133389443 ATAAAT
65 ATAAAT
*
133389449 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
133389514 ATAAAT
65 ATAAAT
*
133389520 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
133389579 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:133389492 original size:41 final size:41
Alignment explanation
Indices: 133389447--133389564 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
133389437 TGAAAGATAA
133389447 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
133389488 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133389518 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133389559 ATGTAG
1 ATGTAG
133389565 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:133389504 original size:71 final size:71
Alignment explanation
Indices: 133389415--133389578 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
133389405 GAGATGTATC
133389415 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133389480 AGGACA
66 AGGACA
133389486 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133389551 AGGACA
66 AGGACA
133389557 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
133389579 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:133397048 original size:41 final size:41
Alignment explanation
Indices: 133397003--133397120 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
133396993 TGAAAGATAA
133397003 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
133397044 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133397074 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133397115 ATGTAG
1 ATGTAG
133397121 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:133397059 original size:71 final size:71
Alignment explanation
Indices: 133396971--133397134 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
133396961 GAGATGTATC
133396971 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133397036 AGGACA
66 AGGACA
133397042 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133397107 AGGACA
66 AGGACA
133397113 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
133397135 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:133405340 original size:14 final size:14
Alignment explanation
Indices: 133405321--133405348 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
133405311 TATATTAGTA
133405321 TTTTCTATTCTATT
1 TTTTCTATTCTATT
133405335 TTTTCTATTCTATT
1 TTTTCTATTCTATT
133405349 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:133405356 original size:6 final size:6
Alignment explanation
Indices: 133405345--133405423 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
133405335 TTTTCTATTC
* *
133405345 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
133405392 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
133405424 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:133405371 original size:11 final size:11
Alignment explanation
Indices: 133405346--133405427 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
133405336 TTTCTATTCT
133405346 ATTAGTATTAG
1 ATTAGTATTAG
133405357 ---AGTATTAG
1 ATTAGTATTAG
**
133405365 ATTAGTATTCT
1 ATTAGTATTAG
*
133405376 ATT-CTATTAG
1 ATTAGTATTAG
133405386 TATTAG-ATTAG
1 -ATTAGTATTAG
133405397 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
133405412 ATTAGTATTAG
1 ATTAGTATTAG
133405423 -TTAGT
1 ATTAGT
133405428 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:133405412 original size:20 final size:21
Alignment explanation
Indices: 133405382--133405427 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
133405372 TTCTATTCTA
133405382 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
133405403 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
133405423 TTAGT
1 TTAGT
133405428 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:133413641 original size:32 final size:32
Alignment explanation
Indices: 133413600--133413661 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
133413590 CATCTATTTT
133413600 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
133413632 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
133413662 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:133417805 original size:22 final size:22
Alignment explanation
Indices: 133417779--133417822 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
133417769 TTATCTCTTT
133417779 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
133417801 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
133417823 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:133420077 original size:21 final size:21
Alignment explanation
Indices: 133420053--133420096 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
133420043 ACGACCTAAT
*
133420053 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
133420074 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
133420095 TA
1 TA
133420097 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:133430019 original size:13 final size:13
Alignment explanation
Indices: 133430001--133430028 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
133429991 AATATAGGGG
133430001 AAAATGTACCATT
1 AAAATGTACCATT
133430014 AAAATGTACCATT
1 AAAATGTACCATT
133430027 AA
1 AA
133430029 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:133437358 original size:32 final size:32
Alignment explanation
Indices: 133437322--133437383 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
133437312 AGCTTTTGGT
133437322 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
133437354 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
133437384 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:133445570 original size:6 final size:6
Alignment explanation
Indices: 133445559--133445637 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
133445549 GGGATCACTA
133445559 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
133445602 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
133445638 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:133445581 original size:20 final size:21
Alignment explanation
Indices: 133445555--133445600 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
133445545 AGCCGGGATC
133445555 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
133445576 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
133445596 ACTAA
1 ACTAA
133445601 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:133445625 original size:11 final size:11
Alignment explanation
Indices: 133445555--133445601 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
133445545 AGCCGGGATC
133445555 ACTAA-CTAAT
1 ACTAATCTAAT
133445565 ACTAATCTAAT
1 ACTAATCTAAT
133445576 -CTAA-CTAAT
1 ACTAATCTAAT
133445585 ACTAATCTAAT
1 ACTAATCTAAT
133445596 ACTAAT
1 ACTAAT
133445602 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:133445651 original size:14 final size:14
Alignment explanation
Indices: 133445634--133445661 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
133445624 CTCTAATACT
133445634 AATAGAATAGAAAA
1 AATAGAATAGAAAA
133445648 AATAGAATAGAAAA
1 AATAGAATAGAAAA
133445662 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:133453989 original size:18 final size:18
Alignment explanation
Indices: 133453910--133454003 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
133453900 CAAGGTCACG
*
133453910 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
133453928 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
133453946 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
133453964 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
133453982 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
133453997 ATCAATA
1 ATCAATA
133454004 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:133453990 original size:9 final size:9
Alignment explanation
Indices: 133453910--133453990 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
133453900 CAAGGTCACG
*
133453910 ATCAATAGC
1 ATCAATATC
* *
133453919 GTCACTATC
1 ATCAATATC
*
133453928 ATCAATAGC
1 ATCAATATC
* * *
133453937 GTCACTAGC
1 ATCAATATC
133453946 ATCAATATC
1 ATCAATATC
* * *
133453955 GTCACTAGC
1 ATCAATATC
133453964 ATCAATATC
1 ATCAATATC
* *
133453973 GTCACTATC
1 ATCAATATC
133453982 ATCAATATC
1 ATCAATATC
133453991 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:133456399 original size:21 final size:21
Alignment explanation
Indices: 133456369--133456457 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
133456359 CTCACAAAGA
* *
133456369 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
133456389 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
133456410 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
133456431 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
133456455 AAA
1 AAA
133456458 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:133456450 original size:24 final size:21
Alignment explanation
Indices: 133456369--133456437 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
133456359 CTCACAAAGA
* * *
133456369 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
133456389 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
133456410 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
133456431 AAAAAGA
1 AAAAAGA
133456438 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:133464114 original size:30 final size:29
Alignment explanation
Indices: 133464020--133464121 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
133464010 TATAGTGAAT
* * *
133464020 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
133464049 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
133464077 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
133464107 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
133464122 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:133467469 original size:16 final size:15
Alignment explanation
Indices: 133467448--133467499 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
133467438 ATAATTTATA
133467448 AAAATTGAACTAAATT
1 AAAATT-AACTAAATT
*
133467464 AAAATT--TTAAATAT
1 AAAATTAACTAAAT-T
133467478 AAAATTACACTAAATT
1 AAAATTA-ACTAAATT
133467494 AAAATT
1 AAAATT
133467500 TATGTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.17
14 7 0.23
16 13 0.43
17 5 0.17
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAATTAACTAAATT
Found at i:133477833 original size:17 final size:19
Alignment explanation
Indices: 133477813--133477854 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
133477803 AATAAAATAT
133477813 AAATAT-AAAT-AATAGAG
1 AAATATCAAATAAATAGAG
133477830 AAATATCACAAATAAATAGAG
1 AAATAT--CAAATAAATAGAG
133477851 AAAT
1 AAAT
133477855 TAAGCACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 4 0.19
21 11 0.52
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (19 bp):
AAATATCAAATAAATAGAG
Found at i:133481798 original size:15 final size:15
Alignment explanation
Indices: 133481778--133481806 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
133481768 AAATGAGTCC
133481778 AATTTATTAAAAAGA
1 AATTTATTAAAAAGA
133481793 AATTTATTAAAAAG
1 AATTTATTAAAAAG
133481807 TTAGAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
AATTTATTAAAAAGA
Found at i:133488694 original size:59 final size:58
Alignment explanation
Indices: 133488584--133488707 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 58
133488574 CTACATTATA
* * *
133488584 AACTATTGATAAATTTTATTTTAATCATTTAATTATAAAAATTATAAAATAATTACTC
1 AACTATTAATAAATTTTATTTTAATAATTTAACTATAAAAATTATAAAATAATTACTC
*
133488642 AACTATTAATAAATTCATT-TTTT-ATAATTTAACTATAAAAAATTATAAAATAATTACTT
1 AACTATTAATAAATT--TTATTTTAATAATTTAACTAT-AAAAATTATAAAATAATTACTC
133488701 AACTATT
1 AACTATT
133488708 TAAACTTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
58 25 0.42
59 32 0.54
60 2 0.03
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (58 bp):
AACTATTAATAAATTTTATTTTAATAATTTAACTATAAAAATTATAAAATAATTACTC
Found at i:133489950 original size:15 final size:15
Alignment explanation
Indices: 133489930--133489958 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
133489920 AAATGAGTCC
133489930 AATTTATTAAAAAGA
1 AATTTATTAAAAAGA
133489945 AATTTATTAAAAAG
1 AATTTATTAAAAAG
133489959 TTAGAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
AATTTATTAAAAAGA
Found at i:133493102 original size:59 final size:58
Alignment explanation
Indices: 133493038--133493162 Score: 180
Period size: 59 Copynumber: 2.1 Consensus size: 58
133493028 CTACATTATA
* * *
133493038 AACTATTGATAAATT-TTATTTTAATCATTTAATTATAAAAAATTATAAAATAATTACTC
1 AACTATTAATAAATTATT-TTTT-ATAATTTAACTATAAAAAATTATAAAATAATTACTC
*
133493097 AACTATTAATAAATTCATTTTTTATAATTTAACTATAAAAAATTATAAAATAATTACTT
1 AACTATTAATAAATT-ATTTTTTATAATTTAACTATAAAAAATTATAAAATAATTACTC
133493156 AACTATT
1 AACTATT
133493163 TAAACTTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 54 0.90
60 4 0.07
61 2 0.03
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (58 bp):
AACTATTAATAAATTATTTTTTATAATTTAACTATAAAAAATTATAAAATAATTACTC
Found at i:133498270 original size:21 final size:21
Alignment explanation
Indices: 133498237--133498286 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
133498227 TCCTGTCCCG
* * *
133498237 GTTCAGTTTTTTTAGTTTCCA
1 GTTCAGCTGTTTTAGTATCCA
* *
133498258 GTTCAGCTGTTTTGGTATCCG
1 GTTCAGCTGTTTTAGTATCCA
133498279 GTTCAGCT
1 GTTCAGCT
133498287 TGGAAAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (21 bp):
GTTCAGCTGTTTTAGTATCCA
Found at i:133498507 original size:18 final size:20
Alignment explanation
Indices: 133498478--133498516 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
133498468 ACGTAAGGTT
133498478 TAAAATATTTT-AAAATAAA
1 TAAAATATTTTAAAAATAAA
133498497 TAAAA-ATTTTAAAAATAAA
1 TAAAATATTTTAAAAATAAA
133498516 T
1 T
133498517 TGCACGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATATTTTAAAAATAAA
Found at i:133498741 original size:17 final size:18
Alignment explanation
Indices: 133498707--133498742 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
133498697 GCTTGGATGC
*
133498707 TTTATTTACTTATTTAAA
1 TTTATTTACTTATATAAA
133498725 TTTATTTA-TTATATAAA
1 TTTATTTACTTATATAAA
133498742 T
1 T
133498743 AGTAAATCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTACTTATATAAA
Found at i:133501157 original size:26 final size:26
Alignment explanation
Indices: 133501121--133501180 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
133501111 GCTAAGGTGG
*
133501121 TGCATATTAGTCAGTCCATGGATCAA
1 TGCATATTAGTCAGCCCATGGATCAA
133501147 TGCATATTAGTCAGCCCATGGATCAA
1 TGCATATTAGTCAGCCCATGGATCAA
133501173 TGCATATT
1 TGCATATT
133501181 CGGTTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (26 bp):
TGCATATTAGTCAGCCCATGGATCAA
Found at i:133501984 original size:116 final size:113
Alignment explanation
Indices: 133501782--133502002 Score: 343
Period size: 116 Copynumber: 1.9 Consensus size: 113
133501772 GCACATTCCA
* * *
133501782 TATAAATTTTGCTTCCTGCATCTGTAAGTGAAATGTGTGTTTATATATTCTTTTTATATATTTGC
1 TATAAATTTTGCTTCATGCATCTGTAAGTGAAATGTGTGTATATATATTCTTTTGATATATTTGC
* *
133501847 ATTCATCCATAAATGAAATTTGCATGTATATATATTTCTTTCTATCTGT
66 ATGCATCCATAAATGAAATTTGCATCTATATATA-TTCTTTCTATCTGT
*
133501896 TATAAATTTTGCTTCATGCATCTGTAAGTGAAAAGTGTTTGTATATATATTCTTTTGATATATTT
1 TATAAATTTTGCTTCATGCATCTGTAAGTG-AAA-TGTGTGTATATATATTCTTTTGATATATTT
* *
133501961 GCATGCATCCGTAAGTGAAATTTGCATCTATATATATTCTTT
64 GCATGCATCCATAAATGAAATTTGCATCTATATATATTCTTT
133502003 TGATATATTC
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 29 0.30
115 9 0.09
116 59 0.61
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.48
Consensus pattern (113 bp):
TATAAATTTTGCTTCATGCATCTGTAAGTGAAATGTGTGTATATATATTCTTTTGATATATTTGC
ATGCATCCATAAATGAAATTTGCATCTATATATATTCTTTCTATCTGT
Found at i:133501993 original size:52 final size:52
Alignment explanation
Indices: 133501910--133502011 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
133501900 AATTTTGCTT
* ** *
133501910 CATGCATCTGTAAGTGAAAAGTGTTTGTATATATATTCTTTTGATATATTTG
1 CATGCATCCGTAAGTGAAAAGTGCATCTATATATATTCTTTTGATATATTTG
**
133501962 CATGCATCCGTAAGTGAAATTTGCATCTATATATATTCTTTTGATATATT
1 CATGCATCCGTAAGTGAAAAGTGCATCTATATATATTCTTTTGATATATT
133502012 CTTTCTATCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (52 bp):
CATGCATCCGTAAGTGAAAAGTGCATCTATATATATTCTTTTGATATATTTG
Found at i:133502037 original size:27 final size:27
Alignment explanation
Indices: 133502005--133502056 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
133501995 TATTCTTTTG
*
133502005 ATATATTCTTTCTATCTGTTTGTGTAT
1 ATATATTCTTTCTATCTGTATGTGTAT
133502032 ATATATTCTTTCTATCTGTATGTGT
1 ATATATTCTTTCTATCTGTATGTGT
133502057 GTGTGTCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (27 bp):
ATATATTCTTTCTATCTGTATGTGTAT
Found at i:133505009 original size:41 final size:42
Alignment explanation
Indices: 133504950--133505078 Score: 145
Period size: 49 Copynumber: 3.0 Consensus size: 42
133504940 CCCCGTCAAT
*
133504950 AAAAAAAAA-AAGAAGAAAAAGTACTGGGTTAATTGCCTT-G
1 AAAAAAAAAGAAAAAGAAAAAGTACTGGGTTAATTGCCTTAG
* *
133504990 AAGAAAAAAGAAAAAGAAAAAGTACTGGGTTTATTGCCTTCAAAAAG
1 AAAAAAAAAGAAAAAGAAAAAGTACTGGGTTAATTGCCTT-----AG
*
133505037 AAAAAGGAAAAGGAAAAGAAAAAGTACTGGGTTAATTGCCTT
1 AAAAA--AAAAGAAAAAGAAAAAGTACTGGGTTAATTGCCTT
133505079 CAAATAAGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
40 8 0.11
41 28 0.38
47 5 0.07
49 33 0.45
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.19
Consensus pattern (42 bp):
AAAAAAAAAGAAAAAGAAAAAGTACTGGGTTAATTGCCTTAG
Found at i:133505062 original size:49 final size:50
Alignment explanation
Indices: 133504995--133505092 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 50
133504985 CCTTGAAGAA
*
133504995 AAAAGAAAAAGAAAAAGTACTGGGTTTATTGCCTTCAAA-AAGAAAAAGG
1 AAAAGAAAAAGAAAAAGTACTGGGTTAATTGCCTTCAAATAAGAAAAAGG
*
133505044 AAAAGGAAAAGAAAAAGTACTGGGTTAATTGCCTTCAAATAAGAAAAAG
1 AAAAGAAAAAGAAAAAGTACTGGGTTAATTGCCTTCAAATAAGAAAAAG
133505093 TACAGGGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 37 0.80
50 9 0.20
ACGTcount: A:0.53, C:0.08, G:0.20, T:0.18
Consensus pattern (50 bp):
AAAAGAAAAAGAAAAAGTACTGGGTTAATTGCCTTCAAATAAGAAAAAGG
Found at i:133505301 original size:15 final size:16
Alignment explanation
Indices: 133505281--133505317 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
133505271 CTGTGGTGCT
133505281 TATCCCATTCGAGGG-
1 TATCCCATTCGAGGGA
133505296 TATCCCATTCGAGGGA
1 TATCCCATTCGAGGGA
133505312 TATCCC
1 TATCCC
133505318 GGTTTTGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (16 bp):
TATCCCATTCGAGGGA
Found at i:133511932 original size:23 final size:23
Alignment explanation
Indices: 133511902--133511948 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
133511892 GTTGAAGTAT
133511902 GCCTTGAAGGCTGTGTCTAAGAA
1 GCCTTGAAGGCTGTGTCTAAGAA
133511925 GCCTTGAAGGCTGTGTCTAAGAA
1 GCCTTGAAGGCTGTGTCTAAGAA
133511948 G
1 G
133511949 ACGAAGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (23 bp):
GCCTTGAAGGCTGTGTCTAAGAA
Found at i:133511973 original size:18 final size:18
Alignment explanation
Indices: 133511952--133512010 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
133511942 TAAGAAGACG
133511952 AAGTATGCCTTGAAGGCT
1 AAGTATGCCTTGAAGGCT
* * * * *
133511970 AAGTGT-CATAGAAGACG
1 AAGTATGCCTTGAAGGCT
*
133511987 AAGCATGCCTTGAAGGCT
1 AAGTATGCCTTGAAGGCT
133512005 AAGTAT
1 AAGTAT
133512011 TTGAGAAGAC
Statistics
Matches: 28, Mismatches: 12, Indels: 2
0.67 0.29 0.05
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (18 bp):
AAGTATGCCTTGAAGGCT
Found at i:133511983 original size:35 final size:36
Alignment explanation
Indices: 133511925--133512085 Score: 178
Period size: 35 Copynumber: 4.7 Consensus size: 36
133511915 TGTCTAAGAA
133511925 GCCTTGAAGGCT--GTGTC-TAAGAAGACGAAGTAT
1 GCCTTGAAGGCTAAGTGTCATAAGAAGACGAAGTAT
*
133511958 GCCTTGAAGGCTAAGTGTCAT-AGAAGACGAAGCAT
1 GCCTTGAAGGCTAAGTGTCATAAGAAGACGAAGTAT
* * * *
133511993 GCCTTGAAGGCTAAGTAT-TTGAGAAGACGAAGTTT
1 GCCTTGAAGGCTAAGTGTCATAAGAAGACGAAGTAT
* ** *
133512028 GCCTTAAAGGCTAAGTG-CCGAAGAAGATGAAGTAT
1 GCCTTGAAGGCTAAGTGTCATAAGAAGACGAAGTAT
133512063 GCCTTGAAGGCT--GTGTC-TAAGAA
1 GCCTTGAAGGCTAAGTGTCATAAGAA
133512086 TAGAAAGTAT
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
33 20 0.19
34 2 0.02
35 85 0.79
36 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (36 bp):
GCCTTGAAGGCTAAGTGTCATAAGAAGACGAAGTAT
Found at i:133512032 original size:70 final size:70
Alignment explanation
Indices: 133511944--133512074 Score: 201
Period size: 70 Copynumber: 1.9 Consensus size: 70
133511934 GCTGTGTCTA
* *
133511944 AGAAGACGAAGTATGCCTTGAAGGCTAAGTGTC-ATAGAAGACGAAGCATGCCTTGAAGGCTAAG
1 AGAAGACGAAGTATGCCTTAAAGGCTAAGTGCCGA-AGAAGACGAAGCATGCCTTGAAGGCTAAG
133512008 TATTTG
65 TATTTG
* * *
133512014 AGAAGACGAAGTTTGCCTTAAAGGCTAAGTGCCGAAGAAGATGAAGTATGCCTTGAAGGCT
1 AGAAGACGAAGTATGCCTTAAAGGCTAAGTGCCGAAGAAGACGAAGCATGCCTTGAAGGCT
133512075 GTGTCTAAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 54 0.98
71 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (70 bp):
AGAAGACGAAGTATGCCTTAAAGGCTAAGTGCCGAAGAAGACGAAGCATGCCTTGAAGGCTAAGT
ATTTG
Found at i:133512117 original size:103 final size:104
Alignment explanation
Indices: 133511943--133512146 Score: 245
Period size: 103 Copynumber: 2.0 Consensus size: 104
133511933 GGCTGTGTCT
*
133511943 AAGAAGACGAAGTATGCCTTGAAGGCTAAGTGTCATAGAAGACGAAGCATGCCTTGAAGGCTAAG
1 AAGAAGACGAAGTATGCCTTGAAGGCT-AGTGTCATAGAAGACGAAGCATGCCTCGAAGGCTAAG
* * *
133512008 TATTTGAGAAG-ACGAAGTTTGCCTTAAAGGCTAAGTGCCG
65 TATTTGAGAAGTA-GAAGTATGCATTAAAAGCTAAGTGCCG
* * * * * *
133512048 AAGAAGATGAAGTATGCCTTGAAGGCT-GTGTC-TAAGAATA-GAAAGTATGTCTCGTAGGTTAA
1 AAGAAGACGAAGTATGCCTTGAAGGCTAGTGTCAT-AGAAGACG-AAGCATGCCTCGAAGGCTAA
*
133512110 GTGTTTGAGAAGTAGAAGTATGCATTAAAAGCTAAGT
64 GTATTTGAGAAGTAGAAGTATGCATTAAAAGCTAAGT
133512147 TCCTGGAAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
102 2 0.02
103 56 0.66
104 1 0.01
105 26 0.31
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (104 bp):
AAGAAGACGAAGTATGCCTTGAAGGCTAGTGTCATAGAAGACGAAGCATGCCTCGAAGGCTAAGT
ATTTGAGAAGTAGAAGTATGCATTAAAAGCTAAGTGCCG
Found at i:133514221 original size:9 final size:9
Alignment explanation
Indices: 133514171--133514242 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 9
133514161 AAGGTCACGA
*
133514171 TCAATAGCG
1 TCAATATCG
* *
133514180 TCACTATCA
1 TCAATATCG
*
133514189 TCAATAGCG
1 TCAATATCG
* * *
133514198 TCACTACCA
1 TCAATATCG
133514207 TCAATATCG
1 TCAATATCG
133514216 TCAATATCG
1 TCAATATCG
* *
133514225 TCACTATCA
1 TCAATATCG
*
133514234 TTAATATCG
1 TCAATATCG
133514243 ATATCATCAA
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (9 bp):
TCAATATCG
Found at i:133514232 original size:18 final size:18
Alignment explanation
Indices: 133514170--133514223 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
133514160 CAAGGTCACG
133514170 ATCAATAGCGTCACTATC
1 ATCAATAGCGTCACTATC
*
133514188 ATCAATAGCGTCACTACC
1 ATCAATAGCGTCACTATC
* *
133514206 ATCAATATCGTCAATATC
1 ATCAATAGCGTCACTATC
133514224 GTCACTATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:133514242 original size:27 final size:27
Alignment explanation
Indices: 133514184--133514242 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
133514174 ATAGCGTCAC
*
133514184 TATCATCAATAGCGTCACTACCATCAA
1 TATCGTCAATAGCGTCACTACCATCAA
* * *
133514211 TATCGTCAATATCGTCACTATCATTAA
1 TATCGTCAATAGCGTCACTACCATCAA
133514238 TATCG
1 TATCG
133514243 ATATCATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.32
Consensus pattern (27 bp):
TATCGTCAATAGCGTCACTACCATCAA
Found at i:133515155 original size:39 final size:39
Alignment explanation
Indices: 133515105--133515184 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
133515095 CCGGCCACCC
* * *
133515105 CCATCGTCGTTCACCAGTTAGGCAGTCACCACCGTTCCA
1 CCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTCCA
* * *
133515144 CCATCATCGTTCTCCAGTCAGGTAGTCACCATCGGTCCA
1 CCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTCCA
133515183 CC
1 CC
133515185 GTCACCACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.20, C:0.39, G:0.17, T:0.24
Consensus pattern (39 bp):
CCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTCCA
Found at i:133517582 original size:16 final size:16
Alignment explanation
Indices: 133517561--133517591 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
133517551 ATTTGGTTTA
133517561 CTGTTTCCCTCTTTTT
1 CTGTTTCCCTCTTTTT
*
133517577 CTGTTTTCCTCTTTT
1 CTGTTTCCCTCTTTT
133517592 GTATATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.29, G:0.06, T:0.65
Consensus pattern (16 bp):
CTGTTTCCCTCTTTTT
Found at i:133521131 original size:40 final size:39
Alignment explanation
Indices: 133521020--133521170 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
133521010 ATATAACCGT
* * *
133521020 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
133521060 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
133521100 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
133521140 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
133521171 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:133521154 original size:80 final size:79
Alignment explanation
Indices: 133521020--133521170 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
133521010 ATATAACCGT
*
133521020 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
133521085 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
133521100 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
133521163 CCGGATAT
64 CCGGATAT
133521171 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:133529003 original size:40 final size:39
Alignment explanation
Indices: 133528958--133529086 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 39
133528948 CGGAACATAA
133528958 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
133528998 CCGGATAGAA-TGTCTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
133529037 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
133529077 CCGGATATAA
1 CCGGATATAA
133529087 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 33 0.45
40 39 0.53
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:133529101 original size:40 final size:40
Alignment explanation
Indices: 133528974--133529122 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
133528964 ATAACCATGT
* * * *
133528974 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGT-CT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
** * *
133529013 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
133529053 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
133529093 GCATAATTGTCTTC-GG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
133529123 CATTCAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
38 13 0.14
39 33 0.36
40 45 0.49
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:133531087 original size:27 final size:27
Alignment explanation
Indices: 133531057--133531164 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
133531047 AGGGCAAAAT
* * * * *
133531057 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTATAGGGGTATTTC
133531084 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
*
133531111 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
*
133531138 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
133531165 AATAATTTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTATAGGGGTATTTC
Found at i:133531116 original size:54 final size:54
Alignment explanation
Indices: 133531058--133531173 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
133531048 GGGCAAAATG
*
133531058 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCA
* * * * *
133531112 GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCA
*
133531166 ATAATTTT
1 GTAATTTT
133531174 GTAAATCGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCA
Found at i:133531169 original size:27 final size:27
Alignment explanation
Indices: 133531086--133531171 Score: 154
Period size: 27 Copynumber: 3.2 Consensus size: 27
133531076 GGTATCTCGG
*
133531086 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTATAGGGGTATTTCAA
*
133531113 TAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTATAGGGGTATTTCAA
133531140 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTATAGGGGTATTTCAA
133531167 TAATT
1 TAATT
133531172 TTGTAAATCG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTATAGGGGTATTTCAA
Found at i:133531185 original size:27 final size:27
Alignment explanation
Indices: 133531156--133531550 Score: 252
Period size: 27 Copynumber: 14.6 Consensus size: 27
133531146 TACCCTATAG
* ** *
133531156 GGGTATTTCAATAATTTTGTAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
133531183 GGGTACTTT-GGTAATGTTTATAAGTCGA
1 GGGTA-TTTCAGTAAT-TTTACAAATCGA
*
133531211 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
133531238 GGGTATTTTAGTAATTTTACAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
*
133531265 GGGTATTTC-GATAATTTCACAAATC-A
1 GGGTATTTCAG-TAATTTTACAAATCGA
** *
133531291 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** ** * *
133531318 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCAGTAATTTTACAAATCGA
* ** * *
133531346 GGTTATTTTGGTAATTTTACAAGTCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
133531373 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
133531399 GGGTTATTT-GGTAATTTTACAAGTCGA
1 GGG-TATTTCAGTAATTTTACAAATCGA
* *
133531426 GGGTATTTCAGTAATTTCACAAAT-TA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * *
133531452 GGGGTATTTTGGTAATTTCACAAA-CTAA
1 -GGGTATTTCAGTAATTTTACAAATC-GA
* ** *
133531480 GGATATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
133531506 GGGGTATTTTAGTAATTTTGCAAATTGA
1 -GGGTATTTCAGTAATTTTACAAATCGA
* *
133531534 GGGCATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
133531551 GGTAAACTAA
Statistics
Matches: 303, Mismatches: 47, Indels: 36
0.78 0.12 0.09
Matches are distributed among these distances:
26 27 0.09
27 248 0.82
28 28 0.09
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:133531281 original size:54 final size:52
Alignment explanation
Indices: 133531156--133531550 Score: 278
Period size: 54 Copynumber: 7.3 Consensus size: 52
133531146 TACCCTATAG
** * * * *
133531156 GGGTATTTCAATAATTTTGTAAATCGGGGGTACTTTGGTAATGTTTA-TAAGTCGA
1 GGGTATTTC-ATAATTTTACAAATC-AGGGTATTTTGGTAAT-TTTACAAACT-GA
* *
133531211 GGGTATTTCAGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAACTGA
1 GGGTATTTCA-TAATTTTACAAA-TCAGGGTATTTTGGTAATTTTACAAACTGA
* *
133531265 GGGTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAAC-CA
1 GGGTATTTC-ATAATTTTACAAATCA-GGGTATTTTGGTAATTTTACAAACTGA
** ** * * * *
133531318 GGGGTATTTTGGTAATTTTGTAAACCAAGGTTATTTTGGTAATTTTAC-AAGTCAA
1 -GGGTA-TTTCATAATTTTACAAATC-AGGGTATTTTGGTAATTTTACAAACT-GA
* *
133531373 GGGTATTTCAGTAATTTCACAAATCAGGGT-TATTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTCA-TAATTTTACAAATCAGGGTAT-TTTGGTAATTTTACAAACT-GA
* * * *
133531426 GGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAA
1 GGGTATTTCA-TAATTTTACAAATCA-GGGTATTTTGGTAATTTTACAAACTGA
* ** * * * *
133531480 GGATATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGCAAATTGA
1 GGGTA-TTTCATAATTTTACAAATCA-GGGTATTTTGGTAATTTTACAAACTGA
* *
133531534 GGGCATTTTAGTAATTT
1 GGGTATTTCA-TAATTT
133531551 GGTAAACTAA
Statistics
Matches: 275, Mismatches: 48, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
52 1 0.00
53 60 0.22
54 165 0.60
55 48 0.17
56 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (52 bp):
GGGTATTTCATAATTTTACAAATCAGGGTATTTTGGTAATTTTACAAACTGA
Found at i:133531522 original size:81 final size:82
Alignment explanation
Indices: 133531211--133531550 Score: 327
Period size: 81 Copynumber: 4.2 Consensus size: 82
133531201 TATAAGTCGA
* * * * * * *
133531211 GGGTATTTCAGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAA-CTGAGGGTA-TTTC
1 GGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTA
133531274 GATAATTTCACAAATCAG
66 G-TAATTTCACAAATCAG
* * * * ** * *
133531292 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCA-AGGTTATTTTG
1 GGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTA
* * *
133531356 GTAATTTTACAAGTCAA
66 GTAATTTCACAAATCAG
* * ** *
133531373 GGGTATTTCAGTAATTTCACAAA-TCAGGGT-TATTTGGTAATTTTACAAGTC-GAGGGTATTTC
1 GGGTATTTTAGTAATTTCACAAACTAAGGGTAT-TTTGGTAATTTTACAAACCAGAGGGTATTTT
*
133531435 AGTAATTTCACAAATTAG
65 AGTAATTTCACAAATCAG
* *
133531453 GGGTATTTTGGTAATTTCACAAACTAAGGATATTTTGGTAATTTTACAAACCAG-GGGTATTTTA
1 GGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTA
** *
133531517 GTAATTTTGCAAAT-TG
66 GTAATTTCACAAATCAG
*
133531533 AGGGCATTTTAGTAATTT
1 -GGGTATTTTAGTAATTT
133531551 GGTAAACTAA
Statistics
Matches: 207, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
79 1 0.00
80 62 0.30
81 137 0.66
82 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (82 bp):
GGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTA
GTAATTTCACAAATCAG
Found at i:133531566 original size:134 final size:133
Alignment explanation
Indices: 133531302--133531550 Score: 293
Period size: 134 Copynumber: 1.9 Consensus size: 133
133531292 GGGTATTTTG
* *** *
133531302 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGTTATTTTGGTAATTTTACA
1 GTAATTTCACAAACCAGGGGTATTTTGGTAATTTCACAAACCAAGGATATTTTGGTAATTTTACA
** * * **
133531367 AGTCAAGGGTATTTCAGTAATTTCACAAATCAGGGTTATTTGGTAATTTTACAAGTCGAGGGTAT
66 AACCAAGGGTATTTCAGTAATTTCACAAATCAGGGATATTTAGTAATTTTACAAG-CGAAAGTAT
133531432 TTCA
130 TTCA
** *
133531436 GTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAAGGATATTTTGGTAATTTTACA
1 GTAATTTCACAAACCAGGGGTATTTTGGTAATTTCACAAACCAAGGATATTTTGGTAATTTTACA
* * ** *
133531501 AACCAGGGGTATTTTAGTAATTTTGCAAATTGAGGGCAT-TTTAGTAATTT
66 AACCAAGGGTATTTCAGTAATTTCACAAA-TCAGGG-ATATTTAGTAATTT
133531551 GGTAAACTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
134 80 0.83
135 15 0.16
136 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (133 bp):
GTAATTTCACAAACCAGGGGTATTTTGGTAATTTCACAAACCAAGGATATTTTGGTAATTTTACA
AACCAAGGGTATTTCAGTAATTTCACAAATCAGGGATATTTAGTAATTTTACAAGCGAAAGTATT
TCA
Found at i:133534238 original size:29 final size:29
Alignment explanation
Indices: 133534204--133534322 Score: 159
Period size: 29 Copynumber: 4.1 Consensus size: 29
133534194 GAAAGCATGT
133534204 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
133534233 GTATGAATGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
133534262 ATACGAATTTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** * *
133534291 ATATGAATAAGA-TTGGGCCTAGTGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
133534319 ATAT
1 ATAT
133534323 ACATGTATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 18 0.23
29 61 0.77
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:133545018 original size:39 final size:39
Alignment explanation
Indices: 133544974--133545097 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
133544964 TATGAGATTG
133544974 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
133545013 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * **
133545052 AATATATCCGGACTTGAGGTTCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
133545091 AAAATAT
1 AAAATAT
133545098 TCGGGTTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:133545115 original size:78 final size:76
Alignment explanation
Indices: 133544973--133545127 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 76
133544963 GTATGAGATT
* * *
133544973 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
133545038 GGCTATATGCTA
66 GGCT-TACGCTA
* * * * **
133545050 GAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGCTGGAAAAATATTCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
133545114 CAGGCTTACGCTA
64 CAGGCTTACGCTA
133545127 G
1 G
133545128 TAATGTATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 12 0.18
78 54 0.82
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:133553006 original size:39 final size:38
Alignment explanation
Indices: 133552958--133553047 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 38
133552948 GTATGAGATT
133552958 GAAAATATCCGGACATGAGATCCGCAGGCTATA-TGCTA
1 GAAAATATCCGGACATGAGATCCGCAGGCTA-AGTGCTA
* * * *
133552996 GAAATATATCCGAACTTGAGGTCCGCAGGCTAAGTGCTG
1 GAAA-ATATCCGGACATGAGATCCGCAGGCTAAGTGCTA
133553035 GAAAAATATCCGG
1 G-AAAATATCCGG
133553048 GTTAAAGACC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 5 0.11
39 36 0.82
40 3 0.07
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (38 bp):
GAAAATATCCGGACATGAGATCCGCAGGCTAAGTGCTA
Found at i:133557809 original size:41 final size:41
Alignment explanation
Indices: 133557764--133557881 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
133557754 TGAAAGATAA
133557764 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
133557805 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133557835 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133557876 ATGTAG
1 ATGTAG
133557882 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:133557820 original size:71 final size:71
Alignment explanation
Indices: 133557732--133557895 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
133557722 GAGATGTATC
133557732 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133557797 AGGACA
66 AGGACA
133557803 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133557868 AGGACA
66 AGGACA
133557874 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
133557896 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:133564204 original size:41 final size:41
Alignment explanation
Indices: 133564159--133564276 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
133564149 TGAAAGATAA
133564159 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
133564200 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133564230 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133564271 ATGTAG
1 ATGTAG
133564277 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:133564215 original size:71 final size:71
Alignment explanation
Indices: 133564127--133564290 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
133564117 GAGATGTATC
133564127 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133564192 AGGACA
66 AGGACA
133564198 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133564263 AGGACA
66 AGGACA
133564269 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
133564291 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:133571516 original size:7 final size:7
Alignment explanation
Indices: 133571504--133571528 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
133571494 GTTGTCTTCT
133571504 TGTTTGA
1 TGTTTGA
133571511 TGTTTGA
1 TGTTTGA
133571518 TGTTTGA
1 TGTTTGA
133571525 TGTT
1 TGTT
133571529 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:133572444 original size:27 final size:28
Alignment explanation
Indices: 133572388--133572455 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
133572378 AAATTTGTAC
133572388 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
133572416 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
133572443 AGCACTAAGTGTG
1 AGCACTAAGTGTG
133572456 TGACTCACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:133580134 original size:41 final size:41
Alignment explanation
Indices: 133580089--133580206 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
133580079 TGAAAGATAA
133580089 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
133580130 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133580160 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133580201 ATGTAG
1 ATGTAG
133580207 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:133580142 original size:71 final size:71
Alignment explanation
Indices: 133580057--133580220 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
133580047 GAGATGTATC
133580057 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133580122 AGGACA
66 AGGACA
133580128 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133580193 AGGACA
66 AGGACA
133580199 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
133580221 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:133587660 original size:68 final size:70
Alignment explanation
Indices: 133587588--133587785 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
133587578 ACACCCTGTA
* * * *
133587588 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
133587650 ATAAAT
65 ATAAAT
*
133587656 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
133587721 ATAAAT
65 ATAAAT
*
133587727 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
133587786 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:133587699 original size:41 final size:41
Alignment explanation
Indices: 133587654--133587771 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
133587644 TGAAAGATAA
133587654 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
133587695 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133587725 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
133587766 ATGTAG
1 ATGTAG
133587772 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:133587711 original size:71 final size:71
Alignment explanation
Indices: 133587622--133587785 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
133587612 GAGATGTATC
133587622 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133587687 AGGACA
66 AGGACA
133587693 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
133587758 AGGACA
66 AGGACA
133587764 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
133587786 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:133594083 original size:40 final size:40
Alignment explanation
Indices: 133594021--133594238 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
133594011 CGGATGATAA
* *
133594021 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTGACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
** *
133594061 TTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
133594101 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
133594140 CCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
133594181 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* * *
133594221 -CTGGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
133594239 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:133594154 original size:80 final size:80
Alignment explanation
Indices: 133594017--133594212 Score: 338
Period size: 80 Copynumber: 2.5 Consensus size: 80
133594007 TATTCGGATG
* ***
133594017 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTGACTATTTTTGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATTCCCGGGCTAAGTCCCGAAGGCA
133594082 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
133594097 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATTCCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATTCCCGGGCTAAGTCCCGAAGGCA
133594162 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
133594177 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
133594213 AGCTATATCT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 109 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATTCCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:133599391 original size:29 final size:29
Alignment explanation
Indices: 133599357--133599517 Score: 186
Period size: 29 Copynumber: 5.6 Consensus size: 29
133599347 TAATCGATCA
*
133599357 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
133599386 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
133599415 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
133599444 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
133599473 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
133599502 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
133599518 ATCTTGTCAC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 110 0.93
31 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:133607368 original size:29 final size:29
Alignment explanation
Indices: 133607334--133607494 Score: 186
Period size: 29 Copynumber: 5.6 Consensus size: 29
133607324 TAATCGATCA
*
133607334 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
133607363 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
133607392 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
133607421 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
133607450 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
133607479 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
133607495 ATCTTGTCAC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 110 0.93
31 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Done.