Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 59 of 136
Found at i:19561325 original size:20 final size:22
Alignment explanation
Indices: 19561300--19561350 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
19561290 CTTTAAGAAA
*
19561300 CAAGCAT-AG-ATGGACAGTTT
1 CAAGCATAAGCATGGACAATTT
19561320 CAAGCATGAAGCATGGACAATTT
1 CAAGCAT-AAGCATGGACAATTT
19561343 CAATGCAT
1 CAA-GCAT
19561351 GGAGATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
22 2 0.08
23 13 0.50
24 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (22 bp):
CAAGCATAAGCATGGACAATTT
Found at i:19575288 original size:16 final size:16
Alignment explanation
Indices: 19575267--19575321 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
19575257 TTGATTTGCT
*
19575267 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
19575283 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
* *
19575299 ATTACACATCTAATCC
1 ATTACACAGCTATTCC
*
19575315 AATACAC
1 ATTACAC
19575322 CTCTAATCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:19575326 original size:16 final size:16
Alignment explanation
Indices: 19575280--19575336 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
19575270 ACACAGCTTT
* *
19575280 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
* *
19575296 TCCATTACACATCTAA
1 TCCAATACACCTCTAA
19575312 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
19575328 TCCAATACA
1 TCCAATACA
19575337 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:19578956 original size:19 final size:19
Alignment explanation
Indices: 19578934--19579037 Score: 100
Period size: 19 Copynumber: 5.2 Consensus size: 19
19578924 TCTTTAAGCA
*
19578934 TCAAGCATGGATGGATGTT
1 TCAAGCATAGATGGATGTT
19578953 TCAAGCATAGATGGATGTT
1 TCAAGCATAGATGGATGTT
* *
19578972 TCAAGCAAATATGGATGTT
1 TCAAGCATAGATGGATGTT
* * * *
19578991 ACAAACAAAGATGGACGATT
1 TCAAGCATAGATGGATG-TT
19579011 TCAAGCATGGAGCATGGATAGTT
1 TCAAGCAT--AG-ATGGAT-GTT
19579034 TCAA
1 TCAA
19579038 TCCATAAAGA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 48 0.70
20 7 0.10
22 2 0.03
23 11 0.16
24 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (19 bp):
TCAAGCATAGATGGATGTT
Found at i:19579117 original size:51 final size:50
Alignment explanation
Indices: 19579016--19579171 Score: 154
Period size: 51 Copynumber: 3.1 Consensus size: 50
19579006 CGATTTCAAG
* * * *
19579016 CATGGAGCATGGATAGTTTCAATCCATAAAGAC-GTTTTTCTTATTAAAATA
1 CATGG-GCATGGAT-GTTTCAATGCATGAAGACATTTTTTCTCATTAAAATA
*
19579067 CATGGGCATGGATGGTTTCAATGCATGAAGACATTTTTTCTCATTTAAATA
1 CATGGGCATGGAT-GTTTCAATGCATGAAGACATTTTTTCTCATTAAAATA
* * * * **
19579118 CATGAGCATGGACTGTTTCAAAGAATGAAAACATATTTTT-TCATCCAAATA
1 CATGGGCATGGA-TGTTTCAATGCATGAAGACAT-TTTTTCTCATTAAAATA
19579169 CAT
1 CAT
19579172 TTGCATGGGT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 24 0.27
51 60 0.67
52 6 0.07
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (50 bp):
CATGGGCATGGATGTTTCAATGCATGAAGACATTTTTTCTCATTAAAATA
Found at i:19579220 original size:22 final size:22
Alignment explanation
Indices: 19579194--19579237 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19579184 GTTCAAAGCA
19579194 TGGACAATTTTCTT-ATTCAATT
1 TGGAC-ATTTTCTTCATTCAATT
*
19579216 TGGACATTTTTTTCATTCAATT
1 TGGACATTTTCTTCATTCAATT
19579238 ATATGTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (22 bp):
TGGACATTTTCTTCATTCAATT
Found at i:19580077 original size:96 final size:96
Alignment explanation
Indices: 19579910--19580086 Score: 221
Period size: 96 Copynumber: 1.8 Consensus size: 96
19579900 AAACATCAAC
* * * * * * * *
19579910 AAAAATTTTCTTGTGTGTTTATTGTTATTGAAGTCATTTTAAATCTTTTGGTGCAATTTGGTGGT
1 AAAAAATTTCTTATGTGATTAGTGTTATTGAAGCCATTTTAAATCTTTTGGTGCAATTTAGAGGA
*
19579975 AGTAAAAATTTTCTTTTGTAAAAAATGCCAT
66 ACTAAAAATTTTCTTTTGTAAAAAATGCCAT
* ***
19580006 AAAAAATTTCTTATGTGATTAGTGTTTTTGAAGCCATTTTACAA-CTTTTGGTGTGGTTTAGAGG
1 AAAAAATTTCTTATGTGATTAGTGTTATTGAAGCCATTTTA-AATCTTTTGGTGCAATTTAGAGG
19580070 AACTAAAAATTTTCTTT
65 AACTAAAAATTTTCTTT
19580087 CGTCAATTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
96 65 0.97
97 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (96 bp):
AAAAAATTTCTTATGTGATTAGTGTTATTGAAGCCATTTTAAATCTTTTGGTGCAATTTAGAGGA
ACTAAAAATTTTCTTTTGTAAAAAATGCCAT
Found at i:19582161 original size:24 final size:24
Alignment explanation
Indices: 19582111--19582181 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
19582101 GAAAATAAGT
* * * * *
19582111 AAGAGAAAAGAAAAAGATAAGGTA
1 AAGAAAAAAGAAAATGAGAAAGAA
19582135 AAGAAAAAAGAAAATGAGAAAGAA
1 AAGAAAAAAGAAAATGAGAAAGAA
* * *
19582159 AAGAAAAGACAAAATGAGCAAGA
1 AAGAAAAAAGAAAATGAGAAAGA
19582182 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.06
Consensus pattern (24 bp):
AAGAAAAAAGAAAATGAGAAAGAA
Found at i:19585004 original size:19 final size:20
Alignment explanation
Indices: 19584978--19585024 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
19584968 TCTTCAAGCA
19584978 TCAAGCATGGATGGACG-TT
1 TCAAGCATGGATGGACGCTT
*
19584997 TTAAGCATGGATGGACGCTT
1 TCAAGCATGGATGGACGCTT
19585017 TCAAGCAT
1 TCAAGCAT
19585025 AGAGGATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TCAAGCATGGATGGACGCTT
Found at i:19585041 original size:23 final size:24
Alignment explanation
Indices: 19585005--19585052 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
19584995 TTTTAAGCAT
**
19585005 GGATGGACGCTTTCAA-GCATAGA
1 GGATGGACAATTTCAATGCATAGA
*
19585028 GGATGGACAATTTCAATGTATAGA
1 GGATGGACAATTTCAATGCATAGA
19585052 G
1 G
19585053 ATGTTTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (24 bp):
GGATGGACAATTTCAATGCATAGA
Found at i:19585092 original size:50 final size:50
Alignment explanation
Indices: 19585038--19585148 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
19585028 GGATGGACAA
* ** * *
19585038 TTTCAATGTATAGAGATGTTTTTCTCATTCAAATACTTAAGTATGGAGGG
1 TTTCAATGCATAGAGACATTTTTCTCATTCAAATACATAAGCATGGAGGG
* * *
19585088 TTTCAATGCATATAGACATTTTTCTCATTTAAATACATAAGCATGGATGG
1 TTTCAATGCATAGAGACATTTTTCTCATTCAAATACATAAGCATGGAGGG
19585138 TTTCAATGCAT
1 TTTCAATGCAT
19585149 GAAAACACTA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (50 bp):
TTTCAATGCATAGAGACATTTTTCTCATTCAAATACATAAGCATGGAGGG
Found at i:19585255 original size:40 final size:39
Alignment explanation
Indices: 19585204--19585346 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 39
19585194 GTTTGAATAA
19585204 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
* * * *
19585243 AAAAATCACCGCTAAAGATCCAGCATTAGCGGCGCTTTTTG
1 AAAAA-CGCCGCTAAAAATCAAGCATTAGCGGCGC-TTTTC
* * * *
19585284 GAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
19585322 AGAAAAGCGCCGC-AAAAATCTAAGC
1 A-AAAA-CGCCGCTAAAAATC-AAGC
19585347 CCAACGACAT
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.05
39 28 0.33
40 43 0.50
41 11 0.13
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
Found at i:19585563 original size:82 final size:83
Alignment explanation
Indices: 19585377--19585568 Score: 244
Period size: 83 Copynumber: 2.3 Consensus size: 83
19585367 CCTTTCAAGG
* *
19585377 CTTTAGCGGCGTTTTTGGGAAAGCGCTACTAATGCTCAAACCTTTAGCGGCGTTTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCTACTAATGCTCAAACCTTTAGCAGCGTTTTTTGGAAAAG
*
19585442 CGTCACTAATGCTCAGAC
66 CGCCACTAATGCTCAGAC
* * * * * * *
19585460 CTTTAACAGCGTTTATGGAAAAGTG-TCGCTAATGCTTAGACCTTTAGCAGCG-TTTTTGGAAAA
1 CTTTAGCGGCGTTTTTGGAAAAGCGCT-ACTAATGCTCAAACCTTTAGCAGCGTTTTTTGGAAAA
*
19585523 GCGCCGCTAATGCTCAGAC
65 GCGCCACTAATGCTCAGAC
*
19585542 CTTTAGCGGCGTTTTTTGAAAAAGCGC
1 CTTTAGCGGCG-TTTTTGGAAAAGCGC
19585569 CGCAAAAACA
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
82 38 0.42
83 52 0.58
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (83 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCTACTAATGCTCAAACCTTTAGCAGCGTTTTTTGGAAAAG
CGCCACTAATGCTCAGAC
Found at i:19585571 original size:42 final size:41
Alignment explanation
Indices: 19585377--19585571 Score: 246
Period size: 41 Copynumber: 4.7 Consensus size: 41
19585367 CCTTTCAAGG
* ** *
19585377 CTTTAGCGGCGTTTTTGGGAAAGCGCTACTAATGCTCAAAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
19585418 CTTTAGCGGCGTTTTTTGGAAAAGCGTCACTAATGCTCAGAC
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * * * * *
19585460 CTTTAACAGCGTTTATGGAAAAGTGTCGCTAATGCTTAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
19585501 CTTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
19585542 CTTTAGCGGCGTTTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGC
19585572 AAAAACATTT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 83 0.61
42 52 0.39
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:19585973 original size:19 final size:20
Alignment explanation
Indices: 19585947--19585993 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
19585937 TCTTCAAGCA
19585947 TCAAGCATGGATGGACG-TT
1 TCAAGCATGGATGGACGCTT
*
19585966 TTAAGCATGGATGGACGCTT
1 TCAAGCATGGATGGACGCTT
19585986 TCAAGCAT
1 TCAAGCAT
19585994 AGAGGATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TCAAGCATGGATGGACGCTT
Found at i:19586010 original size:23 final size:24
Alignment explanation
Indices: 19585974--19586021 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
19585964 TTTTAAGCAT
**
19585974 GGATGGACGCTTTCAA-GCATAGA
1 GGATGGACAATTTCAATGCATAGA
*
19585997 GGATGGACAATTTCAATGTATAGA
1 GGATGGACAATTTCAATGCATAGA
19586021 G
1 G
19586022 ATGTTTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (24 bp):
GGATGGACAATTTCAATGCATAGA
Found at i:19586061 original size:50 final size:50
Alignment explanation
Indices: 19586007--19586117 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
19585997 GGATGGACAA
* ** * *
19586007 TTTCAATGTATAGAGATGTTTTTCTCATTCAAATACTTAAGTATGGAGGG
1 TTTCAATGCATAGAGACATTTTTCTCATTCAAATACATAAGCATGGAGGG
* * *
19586057 TTTCAATGCATATAGACATTTTTCTCATTTAAATACATAAGCATGGATGG
1 TTTCAATGCATAGAGACATTTTTCTCATTCAAATACATAAGCATGGAGGG
19586107 TTTCAATGCAT
1 TTTCAATGCAT
19586118 GAAAACACTA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (50 bp):
TTTCAATGCATAGAGACATTTTTCTCATTCAAATACATAAGCATGGAGGG
Found at i:19586224 original size:40 final size:39
Alignment explanation
Indices: 19586173--19586315 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 39
19586163 GTTTGAATAA
19586173 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
* * * *
19586212 AAAAATCACCGCTAAAGATCCAGCATTAGCGGCGCTTTTTG
1 AAAAA-CGCCGCTAAAAATCAAGCATTAGCGGCGC-TTTTC
* * * *
19586253 GAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
19586291 AGAAAAGCGCCGC-AAAAATCTAAGC
1 A-AAAA-CGCCGCTAAAAATC-AAGC
19586316 CCAACGACAT
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.05
39 28 0.33
40 43 0.50
41 11 0.13
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTC
Found at i:19586532 original size:82 final size:83
Alignment explanation
Indices: 19586346--19586537 Score: 244
Period size: 83 Copynumber: 2.3 Consensus size: 83
19586336 CCTTTCAAGG
* *
19586346 CTTTAGCGGCGTTTTTGGGAAAGCGCTACTAATGCTCAAACCTTTAGCGGCGTTTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCTACTAATGCTCAAACCTTTAGCAGCGTTTTTTGGAAAAG
*
19586411 CGTCACTAATGCTCAGAC
66 CGCCACTAATGCTCAGAC
* * * * * * *
19586429 CTTTAACAGCGTTTATGGAAAAGTG-TCGCTAATGCTTAGACCTTTAGCAGCG-TTTTTGGAAAA
1 CTTTAGCGGCGTTTTTGGAAAAGCGCT-ACTAATGCTCAAACCTTTAGCAGCGTTTTTTGGAAAA
*
19586492 GCGCCGCTAATGCTCAGAC
65 GCGCCACTAATGCTCAGAC
*
19586511 CTTTAGCGGCGTTTTTTGAAAAAGCGC
1 CTTTAGCGGCG-TTTTTGGAAAAGCGC
19586538 CGCAAAAACA
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
82 38 0.42
83 52 0.58
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (83 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCTACTAATGCTCAAACCTTTAGCAGCGTTTTTTGGAAAAG
CGCCACTAATGCTCAGAC
Found at i:19586540 original size:42 final size:41
Alignment explanation
Indices: 19586346--19586540 Score: 246
Period size: 41 Copynumber: 4.7 Consensus size: 41
19586336 CCTTTCAAGG
* ** *
19586346 CTTTAGCGGCGTTTTTGGGAAAGCGCTACTAATGCTCAAAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
19586387 CTTTAGCGGCGTTTTTTGGAAAAGCGTCACTAATGCTCAGAC
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * * * * *
19586429 CTTTAACAGCGTTTATGGAAAAGTGTCGCTAATGCTTAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
19586470 CTTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
19586511 CTTTAGCGGCGTTTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGC
19586541 AAAAACATTT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 83 0.61
42 52 0.39
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:19587085 original size:14 final size:14
Alignment explanation
Indices: 19587066--19587103 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
19587056 TAAATAAGGT
19587066 TTAGGGGTTAGTAG
1 TTAGGGGTTAGTAG
*
19587080 TTAGGGGTTAGTGG
1 TTAGGGGTTAGTAG
*
19587094 TTTGGGGTTA
1 TTAGGGGTTA
19587104 AGGGTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (14 bp):
TTAGGGGTTAGTAG
Found at i:19587117 original size:35 final size:35
Alignment explanation
Indices: 19587070--19587137 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
19587060 TAAGGTTTAG
* * * * *
19587070 GGGTTAGTAGTTAGGGGTTAGTGGTTTGGGGTTAA
1 GGGTTAGAAGTTAAGAGTTAGTGATTTAGGGTTAA
19587105 GGGTTAGAAGTTAAGAGTTAGTGATTTAGGGTT
1 GGGTTAGAAGTTAAGAGTTAGTGATTTAGGGTT
19587138 TAGAGATTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (35 bp):
GGGTTAGAAGTTAAGAGTTAGTGATTTAGGGTTAA
Found at i:19591293 original size:18 final size:18
Alignment explanation
Indices: 19591270--19591329 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
19591260 ATGTAATTCT
19591270 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
19591288 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
19591305 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
19591323 AATGTAA
1 AATGTAA
19591330 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:19591662 original size:86 final size:86
Alignment explanation
Indices: 19591517--19591788 Score: 384
Period size: 86 Copynumber: 3.2 Consensus size: 86
19591507 AATTCATGTT
* * *
19591517 TTTAGCGGCATTTGTGGGAAAAGCACCGTTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAT
1 TTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-
*
19591582 A-CGCCGCTAAAGTTCTTGGTC
65 AGCGCCGCTAAAGGTCTTGGTC
* *
19591603 TTTAGCGGTGTTTGTGGGATAAGCACCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
*
19591668 GCGCTGCTAAAGGTCTTGGTC
66 GCGCCGCTAAAGGTCTTGGTC
* *
19591689 TTTAGTGGCGTTTGTGGGATAAGCACCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
* * * * * *
19591754 GTGCTGCTAAAGTTACTCGTTT
66 GCGCCGCTAAAGGT-CTTGGTC
19591776 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
19591789 TTTTTTGCGC
Statistics
Matches: 167, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
85 1 0.01
86 150 0.90
87 16 0.10
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
GCGCCGCTAAAGGTCTTGGTC
Found at i:19591763 original size:129 final size:130
Alignment explanation
Indices: 19591517--19591788 Score: 359
Period size: 129 Copynumber: 2.1 Consensus size: 130
19591507 AATTCATGTT
* *
19591517 TTTAGCGGCATTTGTGGGAAAAGCACCGTTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAT
1 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAT
* * * * * *
19591582 ACGCCGCTAAAGTTCTTGGTCTTTAGCGGTGTTTGTGGGATAAGCACCGCTAAAGGT-CTTGATC
66 ACACCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGAAAAGCACCGCTAAAGGTACTCGATC
* * *
19591646 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGATAA
1 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA-AA
* ** * * *
19591711 -GCACCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGAAAAGTGCTGCTAAAGTTACTCGTT
65 TACACCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGAAAAGCACCGCTAAAGGTACTCGAT
*
19591775 T
130 C
19591776 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
19591789 TTTTTTGCGC
Statistics
Matches: 123, Mismatches: 18, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
129 104 0.85
130 19 0.15
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (130 bp):
TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAT
ACACCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGAAAAGCACCGCTAAAGGTACTCGATC
Found at i:19591765 original size:43 final size:43
Alignment explanation
Indices: 19591517--19591754 Score: 352
Period size: 43 Copynumber: 5.5 Consensus size: 43
19591507 AATTCATGTT
* *
19591517 TTTAGCGGCATTTGTGGGAAAAGCACCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTC
* *
19591560 TTTAGCGGCGTTTGTGGGAAATA-CGCCGCTAAAGTTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAA-AGCACCGCTAAAGGTCTTGGTC
* * *
19591603 TTTAGCGGTGTTTGTGGGATAAGCACCGCTAAAGGTCTTGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTC
* *
19591646 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTC
* *
19591689 TTTAGTGGCGTTTGTGGGATAAGCACCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTC
*
19591732 TTTAGCAGCGTTTGTGGGAAAAG
1 TTTAGCGGCGTTTGTGGGAAAAG
19591755 TGCTGCTAAA
Statistics
Matches: 172, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 170 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTC
Found at i:19591922 original size:54 final size:54
Alignment explanation
Indices: 19591859--19591975 Score: 191
Period size: 53 Copynumber: 2.2 Consensus size: 54
19591849 TGTTGTAGTG
* * *
19591859 AGACATTTTTTTTTCTCATTAAAATACATGAGTATGGATGGTTTCAATGCATGA
1 AGACATTTTTTTTTCTCATTAAAATACATGAGTATGGAAGGTTTCAAAGAATGA
*
19591913 AGACA-TTTTTTTTCTCATTCAAATACATGAGTATGGAAGGTTTCAAAGAATGA
1 AGACATTTTTTTTTCTCATTAAAATACATGAGTATGGAAGGTTTCAAAGAATGA
19591966 AGACATTTTT
1 AGACATTTTT
19591976 CTCATCCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 49 0.84
54 9 0.16
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (54 bp):
AGACATTTTTTTTTCTCATTAAAATACATGAGTATGGAAGGTTTCAAAGAATGA
Found at i:19597830 original size:13 final size:14
Alignment explanation
Indices: 19597812--19597852 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
19597802 TAAAAGAGAA
19597812 ATTAATTAAAAA-G
1 ATTAATTAAAAATG
*
19597825 ATTAATTAAAAATTT
1 ATTAATTAAAAA-TG
19597840 ATTAATTAAAAAT
1 ATTAATTAAAAAT
19597853 TAAAAAAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 1 0.04
15 12 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
ATTAATTAAAAATG
Found at i:19597845 original size:15 final size:15
Alignment explanation
Indices: 19597812--19597853 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
19597802 TAAAAGAGAA
19597812 ATTAATTAAAAA--G
1 ATTAATTAAAAATTG
*
19597825 ATTAATTAAAAATTT
1 ATTAATTAAAAATTG
19597840 ATTAATTAAAAATT
1 ATTAATTAAAAATT
19597854 AAAAAAAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 12 0.46
15 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
ATTAATTAAAAATTG
Found at i:19602580 original size:2 final size:2
Alignment explanation
Indices: 19602573--19602601 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19602563 NNNNNNNNNN
19602573 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 A
19602602 ACACAAATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 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):
AT
Found at i:19604188 original size:17 final size:17
Alignment explanation
Indices: 19604166--19604198 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19604156 TTAAATCACC
19604166 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
*
19604183 TAAATTATTTTCTCAA
1 TAAATTAATTTCTCAA
19604199 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:19607689 original size:10 final size:10
Alignment explanation
Indices: 19607671--19607701 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19607661 GTTCTTGTGC
*
19607671 TACTGTTTCT
1 TACTTTTTCT
19607681 TACTTTTTCT
1 TACTTTTTCT
19607691 TACTTTTTCT
1 TACTTTTTCT
19607701 T
1 T
19607702 TCTCTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.68
Consensus pattern (10 bp):
TACTTTTTCT
Found at i:19608536 original size:44 final size:44
Alignment explanation
Indices: 19608475--19608691 Score: 148
Period size: 44 Copynumber: 4.7 Consensus size: 44
19608465 CTATCGTCAG
*
19608475 TCTGCTCCACTGAAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
** * * *
19608519 TCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAACTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG----G------CTGGTGGCTTCAA
* * * ** * * * *
19608573 TCTGTTCCACTGCAAC-GCTAGGGAAATAAGATTCGCTGTCTTGAG
1 TCTGCTCCACTGCAACTTC-AGGGAGATAAGGCT-GGTGGCTTCAA
* * *
19608618 TTTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
*
19608662 TCTGCTCCACTGCAACTTCAGGAAGATAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
19608692 ATTTGCCATA
Statistics
Matches: 126, Mismatches: 34, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
44 61 0.48
45 29 0.23
46 1 0.01
48 1 0.01
53 1 0.01
54 33 0.26
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
Found at i:19608548 original size:182 final size:182
Alignment explanation
Indices: 19608197--19608548 Score: 424
Period size: 181 Copynumber: 1.9 Consensus size: 182
19608187 GGCTTCAATG
* * *
19608197 TGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGC
1 TGCTCCACTGCAACTTCAGAAAGATAAGATCCG-C-TAATTTATAGCTTCAATCTGTTCCACTAC
* * * * * *
19608262 AACATCAGGGAAATAAGATTCGCTGTCTTCAGCTGCTCCGCTGCAACTTCAGGAGGATAAGGCTA
64 AACATCAGGGAAATAAGAGTCACTATCGTCAGCTGCTCCACTGAAACTTCAGGAGGATAAGGCTA
* ** * * *
19608327 GTATCTTTGACTTGCCCCACTGTAACTTTATGGAGATAAGGTTTGGATATGATC
129 GTAGCTTCAACTTGCCCCACTGCAACTTCATGAAGATAAGGTTTGGATATGATC
* * *
19608381 TGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TAATTTATAGCTTCAATCTGTTCCACTACAA
1 TGCTCCACTGCAACTTCAGAAAGATAAGATCCGCTAATTTATAGCTTCAATCTGTTCCACTACAA
* *
19608445 CTTCAGGGAAATAAGAGTCACTATCGTCAGTCTGCTCCACTGAAACTTCAGG-GAGATAAGGCTG
66 CATCAGGGAAATAAGAGTCACTATCGTCAG-CTGCTCCACTGAAACTTCAGGAG-GATAAGGCTA
* *
19608509 GTGGCTTCAA-TCTGCTCCACTGCAACTTCA-GAAAGATAAG
129 GTAGCTTCAACT-TGCCCCACTGCAACTTCATG-AAGATAAG
19608549 ATCCGCCATA
Statistics
Matches: 142, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
181 56 0.39
182 56 0.39
184 30 0.21
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (182 bp):
TGCTCCACTGCAACTTCAGAAAGATAAGATCCGCTAATTTATAGCTTCAATCTGTTCCACTACAA
CATCAGGGAAATAAGAGTCACTATCGTCAGCTGCTCCACTGAAACTTCAGGAGGATAAGGCTAGT
AGCTTCAACTTGCCCCACTGCAACTTCATGAAGATAAGGTTTGGATATGATC
Found at i:19608624 original size:143 final size:143
Alignment explanation
Indices: 19608378--19608845 Score: 622
Period size: 143 Copynumber: 3.3 Consensus size: 143
19608368 TTTGGATATG
* * * * * *
19608378 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG---TAATTTATAGCTTCAATCTGTTCCAC
1 ATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAACTTGTAGCTTTAATCTGTTCCAC
* * * * * * * *
19608440 TACAAC-TTCAGGGAAATAAGAGTCACTATCGTCAGTCTGCTCCACTGAAACTTCAGGGAGATAA
66 TGCAACGCT-AGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAA
19608504 GGCTGGTGGCTTCA
130 GGCTGGTGGCTTCA
19608518 ATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAACTTGTAGCTTTAATCTGTTCCAC
1 ATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAACTTGTAGCTTTAATCTGTTCCAC
* *
19608583 TGCAACGCTAGGGAAATAAGATTCGCTGTCTTGAGTTTGCTCCGCTGCAACTTCAGGGAGATAAG
66 TGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
*
19608648 GCTAGTGGCTTCA
131 GCTGGTGGCTTCA
* ** *
19608661 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATAACTTGTAGCTTTAATTTGTTCCAC
1 ATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAACTTGTAGCTTTAATCTGTTCCAC
* * * * *
19608726 TGCAACGCCAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCTGCTGCAACTTTAGGGAGATAAG
66 TGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
19608791 GCTGGTGGCTTCA
131 GCTGGTGGCTTCA
* * *
19608804 ATCTGCTCTATTGCAACTTCA-AGAAGATAAGATTCGCCATAA
1 ATCTGCTCCACTGCAACTTCAGA-AAGATAAGATCCGCCATAA
19608846 TGACTTCAAT
Statistics
Matches: 290, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
140 33 0.11
143 256 0.88
144 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (143 bp):
ATCTGCTCCACTGCAACTTCAGAAAGATAAGATCCGCCATAACTTGTAGCTTTAATCTGTTCCAC
TGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
GCTGGTGGCTTCA
Found at i:19608912 original size:143 final size:143
Alignment explanation
Indices: 19608488--19608912 Score: 476
Period size: 143 Copynumber: 3.0 Consensus size: 143
19608478 GCTCCACTGA
*
19608488 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC-AGAAAGATAAGATC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAG-AAGATAAGATT
*
19608552 CGCCATAACTTGTAGCTTTAA-TCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTG--TCT
65 CGCCATAAC-TGTAGCTTTAATTC-GTTCCACTGCAACGCTAGGGAAATAAGATTCG-TGTTTCA
* *
19608614 TGAGTTTG-CTCCGCTGC
127 TGA-TCTGTCTCTGCTGC
* * *
19608631 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTT
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTC
* * *
19608696 GCCATAACTTGTAGCTTTAATTTGTTCCACTGCAACGCCAAGGAAATAAGATTCGTTGTCTTCA-
66 GCCATAAC-TGTAGCTTTAATTCGTTCCACTGCAACGCTAGGGAAATAAGATTCG-TGT-TTCAT
19608760 G-TCTG-CTCTGCTGC
128 GATCTGTCTCTGCTGC
* * *
19608774 AACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCTATTGCAACTTCAAGAAGATAAGATTC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTC
* * * ** ** * *
19608839 GCCATAA-TG-A-CTTCAATTCATCCCACTATAACTTTAGGGATATAAGATTTGTGGTTTCACTG
66 GCCATAACTGTAGCTTTAATTCGTTCCACTGCAACGCTAGGGAAATAAGATTCGT-GTTTCA-TG
19608901 ATCTGTTCTCTG
129 ATCTG-TCTCTG
19608913 GAGAACATGA
Statistics
Matches: 242, Mismatches: 29, Indels: 22
0.83 0.10 0.08
Matches are distributed among these distances:
138 5 0.02
139 31 0.13
140 2 0.01
141 6 0.02
143 193 0.80
144 2 0.01
145 1 0.00
146 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (143 bp):
AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTC
GCCATAACTGTAGCTTTAATTCGTTCCACTGCAACGCTAGGGAAATAAGATTCGTGTTTCATGAT
CTGTCTCTGCTGC
Found at i:19612515 original size:12 final size:12
Alignment explanation
Indices: 19612498--19612531 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19612488 TTTGGCTAAT
*
19612498 TGCTCTTGCAGC
1 TGCTCTTGCAAC
19612510 TGCTCTTGCAAC
1 TGCTCTTGCAAC
*
19612522 TGATCTTGCA
1 TGCTCTTGCA
19612532 TATCCTTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (12 bp):
TGCTCTTGCAAC
Found at i:19613657 original size:19 final size:18
Alignment explanation
Indices: 19613629--19613668 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
19613619 GACTCGAACC
*
19613629 AATAAAGCAAACACATCAA
1 AATAAAGCAAAC-CATAAA
*
19613648 AATAATGCAAACCATAAA
1 AATAAAGCAAACCATAAA
19613666 AAT
1 AAT
19613669 GAAATGAAAG
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:0.62, C:0.17, G:0.05, T:0.15
Consensus pattern (18 bp):
AATAAAGCAAACCATAAA
Found at i:19616038 original size:15 final size:16
Alignment explanation
Indices: 19616012--19616045 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19616002 AAATGGATTT
*
19616012 TTTTATTTTTATTTGG
1 TTTTATTTTTATTTAG
19616028 TTTTA-TTTTATTTAG
1 TTTTATTTTTATTTAG
19616043 TTT
1 TTT
19616046 GGGCCCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTATTTAG
Found at i:19620260 original size:74 final size:74
Alignment explanation
Indices: 19620177--19620325 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
19620167 AACCTCCGAA
19620177 TTTGTGTTTCATTCACATGTTACAAGGATTCGAGAGTGATTATTCATGTATAGCAACATCTCATT
1 TTTGTGTTTCATTCACATGTTACAAGGATTCGAGAGTGATTATTCATGTATAGCAACATCTCATT
19620242 TGGAGATCT
66 TGGAGATCT
19620251 TTTGTGTTTCATTCACATGTTACAAGGATTCGAGAGTGATTATTCATGTATAGCAACATCTCATT
1 TTTGTGTTTCATTCACATGTTACAAGGATTCGAGAGTGATTATTCATGTATAGCAACATCTCATT
19620316 TGGAGATCT
66 TGGAGATCT
19620325 T
1 T
19620326 AGTTGATTGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (74 bp):
TTTGTGTTTCATTCACATGTTACAAGGATTCGAGAGTGATTATTCATGTATAGCAACATCTCATT
TGGAGATCT
Found at i:19621671 original size:17 final size:18
Alignment explanation
Indices: 19621643--19621677 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
19621633 GCTAAAAAAA
19621643 TATTTAGATTTAGAGCAT
1 TATTTAGATTTAGAGCAT
19621661 TATTT-GATTTAGAGCAT
1 TATTTAGATTTAGAGCAT
19621678 AAAATCCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (18 bp):
TATTTAGATTTAGAGCAT
Found at i:19622218 original size:31 final size:29
Alignment explanation
Indices: 19622177--19622278 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 29
19622167 AAAGCACATC
*
19622177 AACAGACACTAAACTTTGATTAAAATAACAA
1 AACAGTCACTAAACTTTGA--AAAATAACAA
* *
19622208 AACAGTCACTAAACTTTGAAAACTTACAA
1 AACAGTCACTAAACTTTGAAAAATAACAA
** * *
19622237 CTCAGTCGCTAAACTTTAAGAAAATAACAA
1 AACAGTCACTAAACTTTGA-AAAATAACAA
*
19622267 AATAGTCACTAA
1 AACAGTCACTAA
19622279 CGTTATCTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
29 23 0.40
30 16 0.28
31 18 0.32
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.24
Consensus pattern (29 bp):
AACAGTCACTAAACTTTGAAAAATAACAA
Found at i:19622477 original size:3 final size:3
Alignment explanation
Indices: 19622469--19622501 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19622459 TACCACCCAA
19622469 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
19622502 CTCTATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:19625466 original size:3 final size:3
Alignment explanation
Indices: 19625454--19625525 Score: 110
Period size: 3 Copynumber: 24.3 Consensus size: 3
19625444 ACTGCTCCAT
* *
19625454 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TCC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
19625501 TTC TTT TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
19625526 ACTGCCCAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:19625684 original size:29 final size:29
Alignment explanation
Indices: 19625652--19625739 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
19625642 AGTGACCGGT
* *
19625652 TTATTATTTTTTAAAATTTAGTGACTGA-A
1 TTATTATTTTTCAAAATTTAATGACT-ATA
* * *
19625681 TTATAAATTTTCAAAATTTAATGACTATT
1 TTATTATTTTTCAAAATTTAATGACTATA
* *
19625710 TTATTATTTTAATCAAAATTTCATAACTAT
1 TTATTATTTT--TCAAAATTTAATGACTAT
19625740 TGATGTAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.02
29 30 0.64
31 16 0.34
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (29 bp):
TTATTATTTTTCAAAATTTAATGACTATA
Found at i:19626775 original size:16 final size:18
Alignment explanation
Indices: 19626754--19626791 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
19626744 ATACTTTTAG
*
19626754 ATTTTAGTA-TTA-TTTT
1 ATTTTAATAGTTATTTTT
19626770 ATTTTAATAGTTATTTTT
1 ATTTTAATAGTTATTTTT
19626788 ATTT
1 ATTT
19626792 GTTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
ATTTTAATAGTTATTTTT
Found at i:19629789 original size:37 final size:37
Alignment explanation
Indices: 19629748--19629829 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
19629738 TCAGTTGCAC
*
19629748 TAGCTCTTCGGAGCAAT-TGGCATGTTATCAAGTGGAT
1 TAGCTCTTAGGAGC-ATCTGGCATGTTATCAAGTGGAT
* *
19629785 TAGCTCTTATGAGCATCTGGCATGTTATCGAGTGGAT
1 TAGCTCTTAGGAGCATCTGGCATGTTATCAAGTGGAT
19629822 TAGCTCTT
1 TAGCTCTT
19629830 TTGAGAGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 2 0.05
37 39 0.95
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (37 bp):
TAGCTCTTAGGAGCATCTGGCATGTTATCAAGTGGAT
Found at i:19630280 original size:11 final size:11
Alignment explanation
Indices: 19630264--19630289 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19630254 GATGAATGTG
19630264 TTGGTTATACT
1 TTGGTTATACT
19630275 TTGGTTATACT
1 TTGGTTATACT
19630286 TTGG
1 TTGG
19630290 AAGTCATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (11 bp):
TTGGTTATACT
Found at i:19632838 original size:51 final size:50
Alignment explanation
Indices: 19632717--19632951 Score: 240
Period size: 51 Copynumber: 4.7 Consensus size: 50
19632707 AAAGTGATGG
* * *** *
19632717 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTTGA
* * * * *
19632767 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTTGA
* * * *
19632818 TCACATATGTAGTACTATGTGCAAGCTACTACGTGTATCGGATA-TTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT--TGA
* * *
19632869 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGTTTGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGA
* *
19632919 TCACGTGTGTAGTACTATGTGAAGGCTACTACG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACG
19632952 AGTATCGAAT
Statistics
Matches: 152, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.01
50 70 0.46
51 78 0.51
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGA
Found at i:19632957 original size:101 final size:101
Alignment explanation
Indices: 19632717--19632963 Score: 320
Period size: 101 Copynumber: 2.5 Consensus size: 101
19632707 AAAGTGATGG
* * *
19632717 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
* * *
19632782 TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
66 TATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
* * * *
19632818 TCACATATGTAGTACTATGTGCAA-GCTACTACGTGTATCGGATATTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCGGA-ATGAAAGGTCACATGTGTAGT
* * * *
19632882 ACTATGTGTAGGCTACTACGTGAACCGGAAAG-TTTGA
64 ACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
*
19632919 TCACGTGTGTAGTACTATGTGAAGGCTACTACGAGTATC-GAATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGA
19632964 TAATAGTTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
99 3 0.02
100 4 0.03
101 73 0.58
102 45 0.36
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
Found at i:19632985 original size:101 final size:102
Alignment explanation
Indices: 19632717--19632992 Score: 319
Period size: 101 Copynumber: 2.7 Consensus size: 102
19632707 AAAGTGATGG
* * *
19632717 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGA-AA-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGATAATGGTCACATGTGTAGT
* * *
19632780 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
* * *
19632818 TCACATATGTAGTACTATGTGCAA-GCTACTACGTGTATCGGAT-ATTAATGGTCACATGTGTAG
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCGAATGA-TAATGGTCACATGTGTAG
* * * *
19632881 TACTATGTGTAGGCTACTACGTGAACCGGAAAG-TTTGA
64 TACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
* * * * * *
19632919 TCACGTGTGTAGTACTATGTGAAGGCTACTACGAGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
19632984 CTATGTGCA
66 CTATGTGCA
19632993 AACCACCGAA
Statistics
Matches: 146, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
99 1 0.01
100 5 0.03
101 98 0.67
102 42 0.29
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
Found at i:19632989 original size:152 final size:151
Alignment explanation
Indices: 19632713--19632993 Score: 334
Period size: 152 Copynumber: 1.8 Consensus size: 151
19632703 AGTGAAAGTG
* * * * *
19632713 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGCATGTGTA
1 ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGAAAGATCACATGTGTA
* * * * * * *
19632778 GTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATCACATATGTAGTACTATGTGCAAG
66 GTACTATGTGAAGGCTACTACGAGTACAAGATA-CATAGATCAAATATGTAGTACTATGTGCAAG
19632843 CTACTACGTGTATCGGATATTA
130 CTACTACGTGTATCGGATATTA
*** *
19632865 ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGTTTGATCACGTGTGTA
1 ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGAAAGATCACATGTGTA
* *
19632930 GTACTATGTGAAGGCTACTACGAGTATCGAATGATA-ATAG-TTAAATGA-GTGGTACTATGTGC
66 GTACTATGTGAAGGCTACTACGAGTA-C-AA-GATACATAGATCAAAT-ATGTAGTACTATGTGC
19632992 AA
127 AA
19632994 ACCACCGAAT
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
152 98 0.92
153 4 0.04
154 1 0.01
155 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (151 bp):
ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGAAAGATCACATGTGTA
GTACTATGTGAAGGCTACTACGAGTACAAGATACATAGATCAAATATGTAGTACTATGTGCAAGC
TACTACGTGTATCGGATATTA
Found at i:19633959 original size:47 final size:48
Alignment explanation
Indices: 19633871--19633963 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 48
19633861 CATGGCAACA
* *
19633871 TGTGATATGTGATTTCTGTATAAGACCATATCCGAGATATGGCATCGG
1 TGTGATATGTGATATCTGTATAAGACCATAGCCGAGATATGGCATCGG
* * * * *
19633919 TGTGATATGTGCTAT-TGTGTAAGACCATAGCTGGGCTATGGCATC
1 TGTGATATGTGATATCTGTATAAGACCATAGCCGAGATATGGCATC
19633964 AATATGTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 25 0.66
48 13 0.34
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (48 bp):
TGTGATATGTGATATCTGTATAAGACCATAGCCGAGATATGGCATCGG
Found at i:19638910 original size:17 final size:17
Alignment explanation
Indices: 19638888--19638926 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
19638878 AAAAGTCCGT
*
19638888 CAAATCTTAGAGTTCGC
1 CAAATCCTAGAGTTCGC
*
19638905 CAAATCCTGGAGTTCGC
1 CAAATCCTAGAGTTCGC
19638922 CAAAT
1 CAAAT
19638927 GACGAACCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (17 bp):
CAAATCCTAGAGTTCGC
Found at i:19645937 original size:30 final size:29
Alignment explanation
Indices: 19645901--19646090 Score: 157
Period size: 30 Copynumber: 6.3 Consensus size: 29
19645891 TTCGGCTATC
19645901 AATTATGAAAAGGGATGGTGACGACCATCA
1 AATTATGAAAAGGGATGGT-ACGACCATCA
*
19645931 AATTATGAAAAGGGATGGTGATGACCATCA
1 AATTATGAAAAGGGATGGT-ACGACCATCA
* * **
19645961 AATTATGAAAAGGGATGGCTTCGACTATTG
1 AATTATGAAAAGGGATGG-TACGACCATCA
* * * * * * *
19645991 TACTATGAAAAGGGGTGACTTCGGCTATC-
1 AATTATGAAAAGGGATG-GTACGACCATCA
* * * *
19646020 GATCTATGAAAAGGGATGGCTTCGGCTATCA
1 AAT-TATGAAAAGGGATGG-TACGACCATCA
*
19646051 AATTATGAAAAGGGATGGTGACGACCATTA
1 AATTATGAAAAGGGATGGT-ACGACCATCA
19646081 AATTATGAAA
1 AATTATGAAA
19646091 GAGATAGCTT
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
29 2 0.02
30 128 0.96
31 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (29 bp):
AATTATGAAAAGGGATGGTACGACCATCA
Found at i:19645977 original size:60 final size:60
Alignment explanation
Indices: 19645901--19646090 Score: 192
Period size: 60 Copynumber: 3.2 Consensus size: 60
19645891 TTCGGCTATC
* *
19645901 AATTATGAAAAGGGATGG-TGACGACCATCAAATTATGAAAAGGGATGGTGATGACCATCA
1 AATTATGAAAAGGGATGGCT-TCGACTATCAAATTATGAAAAGGGATGGTGATGACCATCA
*** * * *
19645961 AATTATGAAAAGGGATGGCTTCGACTATTGTACTATGAAAA-GG--GGTGACTTCGGCTATC-
1 AATTATGAAAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTGA--T-GACCATCA
* * * *
19646020 GATCTATGAAAAGGGATGGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATTA
1 AAT-TATGAAAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTGATGACCATCA
19646081 AATTATGAAA
1 AATTATGAAA
19646091 GAGATAGCTT
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
57 5 0.05
59 5 0.05
60 82 0.80
61 5 0.05
63 5 0.05
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (60 bp):
AATTATGAAAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTGATGACCATCA
Found at i:19646127 original size:30 final size:30
Alignment explanation
Indices: 19645963--19646156 Score: 96
Period size: 30 Copynumber: 6.5 Consensus size: 30
19645953 GACCATCAAA
*
19645963 TTATGAAAAGGGATGGCTTC-GACTATTGTA-
1 TTATGAAAAGGGATAGCTTCAG-CTATTG-AG
* * * *
19645993 CTATGAAAAGGGGT-GACTTCGGCTATCGA-
1 TTATGAAAAGGGATAG-CTTCAGCTATTGAG
* * ** *
19646022 TCTATGAAAAGGGATGGCTTCGGCTATCAAA
1 T-TATGAAAAGGGATAGCTTCAGCTATTGAG
* * * * *
19646053 TTATGAAAAGGGAT-G-GTGACGACCATTAAA
1 TTATGAAAAGGGATAGCTTCA-G-CTATTGAG
* *
19646083 TTATG-AAAGAGATAGCTTCAGCTATTGCG
1 TTATGAAAAGGGATAGCTTCAGCTATTGAG
* **
19646112 TTTTGAAAAGGGATAGCTTTGGCTATTGAG
1 TTATGAAAAGGGATAGCTTCAGCTATTGAG
*
19646142 TTATGAAAAAGGATA
1 TTATGAAAAGGGATA
19646157 ACTTTGGTTA
Statistics
Matches: 129, Mismatches: 25, Indels: 20
0.74 0.14 0.11
Matches are distributed among these distances:
28 1 0.01
29 19 0.15
30 104 0.81
31 5 0.04
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (30 bp):
TTATGAAAAGGGATAGCTTCAGCTATTGAG
Found at i:19646162 original size:30 final size:30
Alignment explanation
Indices: 19646103--19646183 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
19646093 GATAGCTTCA
* * * *
19646103 GCTATTGCGTTTTGAAAAGGGATAGCTTTG
1 GCTATTGAGTTATGAAAAAGGATAACTTTG
19646133 GCTATTGAGTTATGAAAAAGGATAACTTTG
1 GCTATTGAGTTATGAAAAAGGATAACTTTG
* * * *
19646163 GTTATCGAATTACGAAAAAGG
1 GCTATTGAGTTATGAAAAAGG
19646184 GATGTGTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (30 bp):
GCTATTGAGTTATGAAAAAGGATAACTTTG
Found at i:19648576 original size:42 final size:42
Alignment explanation
Indices: 19648443--19648607 Score: 134
Period size: 42 Copynumber: 3.9 Consensus size: 42
19648433 TGTGATTTTG
* * * * **
19648443 TGTAAGACCATGTCTGGGACATTGGAATCGATATGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCAT-TATATGTGATAACA
* * ** * **
19648486 TGTAAGACCATGCCTGGGACATTGCCATCGTATATGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATTATATGTGATAACA
* * *
19648528 TATAAGACCCTGTCTGGGACAGTGGCATTATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATTATATGTGATAACA
* * * *
19648570 TGTAAGACCATATCTAGGATA-TGGCATTGTATGTGATA
1 TGTAAGACCATGTCTGGGACATTGGCATTATATGTGATA
19648608 TATGTGTTTC
Statistics
Matches: 96, Mismatches: 26, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
41 16 0.17
42 55 0.57
43 25 0.26
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATTATATGTGATAACA
Found at i:19648808 original size:44 final size:44
Alignment explanation
Indices: 19648754--19648838 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
19648744 TGTTGTTTAA
19648754 TGAGACAAAGTGAAATACATGAGAAAAGTGTTTCTATATGTGTT
1 TGAGACAAAGTGAAATACATGAGAAAAGTGTTTCTATATGTGTT
*
19648798 TGAGACAAAGTGAAATACATGAGAAAAGTGTTTCTGTATGT
1 TGAGACAAAGTGAAATACATGAGAAAAGTGTTTCTATATGT
19648839 TTTTATGACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (44 bp):
TGAGACAAAGTGAAATACATGAGAAAAGTGTTTCTATATGTGTT
Found at i:19650439 original size:21 final size:21
Alignment explanation
Indices: 19650394--19650433 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19650384 GTATTTAAGT
*
19650394 TTTTAATGATAGATTATGAAA
1 TTTTAATGATAGATTATCAAA
*
19650415 TTTTAATGTTAGATTATCA
1 TTTTAATGATAGATTATCA
19650434 TGTTTTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTTAATGATAGATTATCAAA
Found at i:19651010 original size:82 final size:82
Alignment explanation
Indices: 19650905--19651198 Score: 450
Period size: 82 Copynumber: 3.6 Consensus size: 82
19650895 TACGGAATTC
* *
19650905 TAATTGTTTATA--GTTATATATTGTCGAAGTTGAATTGTATATGGATATATTAATTCGTATATG
1 TAATT-TTTATATGGTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATG
19650968 GTTGAACACTACTGAAAA
65 GTTGAACACTACTGAAAA
19650986 TAATTTTTATATGGTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGG
1 TAATTTTTATATGGTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGG
* *
19651051 TTGAACACTGCTAAAAA
66 TTGAACACTACTGAAAA
* * * *
19651068 TAATTTTTATATGGCTATACATTGTTGAAGTTGAATTGTATTTGGATATATTAATTCATATATGA
1 TAATTTTTATATGGTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGG
*
19651133 TTGAACACTTCTGAAAA
66 TTGAACACTACTGAAAA
* * *
19651150 T-TTTTTTAAATGGTTATACATTGTTGAAATTGAATTGTATATGGATATA
1 TAATTTTTATATGGTTATACATTGTTGAAGTTGAATTGTATATGGATATA
19651199 AGTTGTCGAA
Statistics
Matches: 196, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
80 6 0.03
81 48 0.24
82 142 0.72
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (82 bp):
TAATTTTTATATGGTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGG
TTGAACACTACTGAAAA
Found at i:19651266 original size:61 final size:62
Alignment explanation
Indices: 19651159--19651274 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 62
19651149 ATTTTTTTAA
* * *
19651159 ATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCG-AATTGATTCGTAT
1 ATGGTTATACATTGCTGAAATTAAATTGTACATGGATATAAGTTGTCGAAATTGATTCGTAT
* * * *
19651220 ATGGTTGTACCTTGCTGAAATTAAATTTTACATGGTTATACA-TTGTCGAAATTGA
1 ATGGTTATACATTGCTGAAATTAAATTGTACATGGATATA-AGTTGTCGAAATTGA
19651275 ATTTTTTATC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
61 39 0.85
62 7 0.15
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (62 bp):
ATGGTTATACATTGCTGAAATTAAATTGTACATGGATATAAGTTGTCGAAATTGATTCGTAT
Found at i:19651271 original size:31 final size:31
Alignment explanation
Indices: 19651153--19651279 Score: 118
Period size: 31 Copynumber: 4.1 Consensus size: 31
19651143 CTGAAAATTT
* *
19651153 TTTTAAATGGTTATACATTGTTGAAATTGAA
1 TTTTATATGGTTATACATTGTCGAAATTGAA
* *
19651184 TTGTATATGGATATA-AGTTGTCG-AATTG-A
1 TTTTATATGGTTATACA-TTGTCGAAATTGAA
* * * *
19651213 TTCGTATATGGTTGTACCTTG-CTGAAATTAAA
1 TT-TTATATGGTTATACATTGTC-GAAATTGAA
*
19651245 TTTTACATGGTTATACATTGTCGAAATTGAA
1 TTTTATATGGTTATACATTGTCGAAATTGAA
19651276 TTTT
1 TTTT
19651280 TTATCAATAT
Statistics
Matches: 76, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
29 4 0.05
30 21 0.28
31 47 0.62
32 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (31 bp):
TTTTATATGGTTATACATTGTCGAAATTGAA
Found at i:19651909 original size:15 final size:15
Alignment explanation
Indices: 19651889--19651917 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19651879 TGTGATATGT
19651889 TTGAATTCAATTTAG
1 TTGAATTCAATTTAG
19651904 TTGAATTCAATTTA
1 TTGAATTCAATTTA
19651918 TAATTTTCAT
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:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (15 bp):
TTGAATTCAATTTAG
Found at i:19656384 original size:50 final size:50
Alignment explanation
Indices: 19656274--19656522 Score: 216
Period size: 50 Copynumber: 4.9 Consensus size: 50
19656264 ACATTTGGGT
* *
19656274 GATGAGA--TCCCATGTAAGACCATCTCTGGCACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA
*
19656325 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
** * * **
19656378 GATGAGAGGTCCCCCGTAAGACCATGTCTTGGACATGGCATGGGCACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* ** * * * * *
19656428 TATGAGAACTCCCATGTAAGTCCGTATCTGGGATATGGCATTGGCAGT-A
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* * * ** *
19656477 CAGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19656523 TGTTATTATC
Statistics
Matches: 160, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
49 37 0.23
50 77 0.48
51 1 0.01
53 4 0.03
54 6 0.04
55 1 0.01
56 34 0.21
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:19661004 original size:83 final size:82
Alignment explanation
Indices: 19660904--19661187 Score: 496
Period size: 82 Copynumber: 3.5 Consensus size: 82
19660894 ATTGTTTATA
* * *
19660904 GTTATATATTGTCGAAGTTGAATTGTATATGGATATATTAATTCGTATATGGTTGAACACTACTG
1 GTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGGTTGAACACTGCTG
19660969 AAAATAATTTTTATATG
66 AAAATAATTTTTATATG
*
19660986 GTTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCTTATATGGTTGAACACTGCT
1 G-TTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGGTTGAACACTGCT
19661051 GAAAATAATTTTTATATG
65 GAAAATAATTTTTATATG
* *
19661069 GTTATACATTGTTGAAGTTGAATTGTATATGGATATAATAATTCGTATATGATTGAACACTGCTG
1 GTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGGTTGAACACTGCTG
19661134 AAAATAATTTTTATATG
66 AAAATAATTTTTATATG
*
19661151 GTTATACATTGTTGAAATTGAATTGTATATGGATATA
1 GTTATACATTGTTGAAGTTGAATTGTATATGGATATA
19661188 AGTTGCCGAA
Statistics
Matches: 193, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 115 0.60
83 78 0.40
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (82 bp):
GTTATACATTGTTGAAGTTGAATTGTATATGGATATATTAATTCGTATATGGTTGAACACTGCTG
AAAATAATTTTTATATG
Found at i:19661180 original size:31 final size:31
Alignment explanation
Indices: 19661145--19661346 Score: 125
Period size: 31 Copynumber: 6.5 Consensus size: 31
19661135 AAATAATTTT
*
19661145 TATATGGTTATACATTGTTGAAATTGAATTG
1 TATATGGTTATACATTGTCGAAATTGAATTG
* *
19661176 TATATGGATATA-AGTTGCCG-AATTG-ATTCG
1 TATATGGTTATACA-TTGTCGAAATTGAATT-G
* * * *
19661206 CATATGGTTGTACCTTG-CTGATATT-AATTTG
1 TATATGGTTATACATTGTC-GAAATTGAA-TTG
*
19661237 TACATGGTTATACATTGTCGAAATTGAATTG
1 TATATGGTTATACATTGTCGAAATTGAATTG
* ** * * *
19661268 TTTATGAATATAGGA-TGTCGAATTTGATTTG
1 TATATGGTTATA-CATTGTCGAAATTGAATTG
* *
19661299 TATATGTTTAT-CTATTG-CCAAACTTG-ATTCG
1 TATATGGTTATAC-ATTGTCGAAA-TTGAATT-G
19661330 TATATGGTTATACATTG
1 TATATGGTTATACATTG
19661347 CCTAATTGCT
Statistics
Matches: 128, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
29 4 0.03
30 26 0.20
31 91 0.71
32 7 0.05
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (31 bp):
TATATGGTTATACATTGTCGAAATTGAATTG
Found at i:19666145 original size:443 final size:443
Alignment explanation
Indices: 19665319--19666204 Score: 1772
Period size: 443 Copynumber: 2.0 Consensus size: 443
19665309 TACTACTGTG
19665319 ATTGCATTGATAGATCCAGAATCAACTCATTCTTATATATGCATAAATTTAGTATCCAGTAAGAC
1 ATTGCATTGATAGATCCAGAATCAACTCATTCTTATATATGCATAAATTTAGTATCCAGTAAGAC
19665384 TTTGCCTGTAGAGTCTACTGAATTGTGATTAGAGTATCGAACCCCTTAGGCAAGTGTGTCTTGGT
66 TTTGCCTGTAGAGTCTACTGAATTGTGATTAGAGTATCGAACCCCTTAGGCAAGTGTGTCTTGGT
19665449 AGATAAAGTGTGCAAGAACTGTTCGTTGATGATTCAAGATTTTTGCTTTTCGGCTAATCTAGTTG
131 AGATAAAGTGTGCAAGAACTGTTCGTTGATGATTCAAGATTTTTGCTTTTCGGCTAATCTAGTTG
19665514 TTACCATTTGATGAATTTGATATAATTCTGGGTATGGATTGACTAACATTGTATGATGCGATTGT
196 TTACCATTTGATGAATTTGATATAATTCTGGGTATGGATTGACTAACATTGTATGATGCGATTGT
19665579 GAACTACAAATGAAAGATGATCAATTTGAGATGTCAGAATAATGAGATATCCAAATTGAGTCAGA
261 GAACTACAAATGAAAGATGATCAATTTGAGATGTCAGAATAATGAGATATCCAAATTGAGTCAGA
19665644 TGATTTGAATGGTTTACCGGTAGTGATTTCTTCGATGTTAGCTCAAAAATATGTGAGAAAGGGTT
326 TGATTTGAATGGTTTACCGGTAGTGATTTCTTCGATGTTAGCTCAAAAATATGTGAGAAAGGGTT
19665709 GTGAAGCTTACTTTGCGTATGTACTCGACTCTAAAGTGACCGAAAAGAAGATT
391 GTGAAGCTTACTTTGCGTATGTACTCGACTCTAAAGTGACCGAAAAGAAGATT
19665762 ATTGCATTGATAGATCCAGAATCAACTCATTCTTATATATGCATAAATTTAGTATCCAGTAAGAC
1 ATTGCATTGATAGATCCAGAATCAACTCATTCTTATATATGCATAAATTTAGTATCCAGTAAGAC
19665827 TTTGCCTGTAGAGTCTACTGAATTGTGATTAGAGTATCGAACCCCTTAGGCAAGTGTGTCTTGGT
66 TTTGCCTGTAGAGTCTACTGAATTGTGATTAGAGTATCGAACCCCTTAGGCAAGTGTGTCTTGGT
19665892 AGATAAAGTGTGCAAGAACTGTTCGTTGATGATTCAAGATTTTTGCTTTTCGGCTAATCTAGTTG
131 AGATAAAGTGTGCAAGAACTGTTCGTTGATGATTCAAGATTTTTGCTTTTCGGCTAATCTAGTTG
19665957 TTACCATTTGATGAATTTGATATAATTCTGGGTATGGATTGACTAACATTGTATGATGCGATTGT
196 TTACCATTTGATGAATTTGATATAATTCTGGGTATGGATTGACTAACATTGTATGATGCGATTGT
19666022 GAACTACAAATGAAAGATGATCAATTTGAGATGTCAGAATAATGAGATATCCAAATTGAGTCAGA
261 GAACTACAAATGAAAGATGATCAATTTGAGATGTCAGAATAATGAGATATCCAAATTGAGTCAGA
19666087 TGATTTGAATGGTTTACCGGTAGTGATTTCTTCGATGTTAGCTCAAAAATATGTGAGAAAGGGTT
326 TGATTTGAATGGTTTACCGGTAGTGATTTCTTCGATGTTAGCTCAAAAATATGTGAGAAAGGGTT
19666152 GTGAAGCTTACTTTGCGTATGTACTCGACTCTAAAGTGACCGAAAAGAAGATT
391 GTGAAGCTTACTTTGCGTATGTACTCGACTCTAAAGTGACCGAAAAGAAGATT
19666205 GAATCAGTAC
Statistics
Matches: 443, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
443 443 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (443 bp):
ATTGCATTGATAGATCCAGAATCAACTCATTCTTATATATGCATAAATTTAGTATCCAGTAAGAC
TTTGCCTGTAGAGTCTACTGAATTGTGATTAGAGTATCGAACCCCTTAGGCAAGTGTGTCTTGGT
AGATAAAGTGTGCAAGAACTGTTCGTTGATGATTCAAGATTTTTGCTTTTCGGCTAATCTAGTTG
TTACCATTTGATGAATTTGATATAATTCTGGGTATGGATTGACTAACATTGTATGATGCGATTGT
GAACTACAAATGAAAGATGATCAATTTGAGATGTCAGAATAATGAGATATCCAAATTGAGTCAGA
TGATTTGAATGGTTTACCGGTAGTGATTTCTTCGATGTTAGCTCAAAAATATGTGAGAAAGGGTT
GTGAAGCTTACTTTGCGTATGTACTCGACTCTAAAGTGACCGAAAAGAAGATT
Found at i:19670070 original size:42 final size:43
Alignment explanation
Indices: 19670023--19670131 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 43
19670013 TCTCGAGGTG
* * * *
19670023 TGATTTCGTGTAAGACCATGTTTGAGACATTGGCATC-ATATA
1 TGATTTCATGTAAGACCATGTCTGAGACAGTCGCATCGATATA
* * * *
19670065 TGATTTCATATAAGACCCTGTCTGGGACAGTCGCATCGATATG
1 TGATTTCATGTAAGACCATGTCTGAGACAGTCGCATCGATATA
** *
19670108 TGATAACATGTAAGACCATATCTG
1 TGATTTCATGTAAGACCATGTCTG
19670132 GGATATGGCA
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 30 0.57
43 23 0.43
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTGAGACAGTCGCATCGATATA
Found at i:19670123 original size:43 final size:42
Alignment explanation
Indices: 19670031--19670134 Score: 109
Period size: 43 Copynumber: 2.5 Consensus size: 42
19670021 TGTGATTTCG
* * * * **
19670031 TGTAAGACCATGTTTGAGACATTGGCATCATATATGATTTCA
1 TGTAAGACCATGTCTGGGACAGTCGCATCATATATGATAACA
* * *
19670073 TATAAGACCCTGTCTGGGACAGTCGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGTCGCATC-ATATATGATAACA
*
19670116 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
19670135 TATGGCATTG
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 23 0.47
43 26 0.53
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTCGCATCATATATGATAACA
Found at i:19672170 original size:25 final size:26
Alignment explanation
Indices: 19672133--19672191 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
19672123 TCTCACCTCG
*
19672133 TTGCCCCCTTACCATACCATTCCATC
1 TTGCCCCCTTACCATACCATTCCAAC
19672159 TT-CCCCCTTACCATACCATTCCAAC
1 TTGCCCCCTTACCATACCATTCCAAC
19672184 TTGCCCCC
1 TTGCCCCC
19672192 CACCTCAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 24 0.77
26 7 0.23
ACGTcount: A:0.19, C:0.49, G:0.03, T:0.29
Consensus pattern (26 bp):
TTGCCCCCTTACCATACCATTCCAAC
Found at i:19672495 original size:8 final size:8
Alignment explanation
Indices: 19672480--19672544 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
19672470 TAATTCTTTC
19672480 TTATTTTA
1 TTATTTTA
*
19672488 TCATTTTA
1 TTATTTTA
19672496 TTATTTTA
1 TTATTTTA
*
19672504 TTATTTTCC
1 TTATTTT-A
*
19672513 TTAATTTA
1 TTATTTTA
19672521 TTTATTTTA
1 -TTATTTTA
* *
19672530 CTATTCTAA
1 TTATT-TTA
19672539 TTATTT
1 TTATTT
19672545 CATTTATTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 26 0.58
9 19 0.42
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (8 bp):
TTATTTTA
Found at i:19672793 original size:21 final size:23
Alignment explanation
Indices: 19672745--19672795 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
19672735 CATTATCAAT
*
19672745 TTATTATTATTCTTGTCTTAATTT
1 TTATT-TTATTCTTGTCTTAATTA
*
19672769 TTATTTTATTCTTG-C-TACTTA
1 TTATTTTATTCTTGTCTTAATTA
19672790 TTATTT
1 TTATTT
19672796 GTTTCCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 9 0.36
24 5 0.20
ACGTcount: A:0.20, C:0.10, G:0.04, T:0.67
Consensus pattern (23 bp):
TTATTTTATTCTTGTCTTAATTA
Found at i:19674200 original size:6 final size:6
Alignment explanation
Indices: 19674191--19674236 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
19674181 AGTTTTATTT
*
19674191 ATTTTA ATTTTA ATTTTA ATTTTT ATGTTT- ATTTTA ATTTT- ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT-TTTA ATTTTA ATTTTA ATTTT
19674237 CAGTTGTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
5 8 0.22
6 26 0.70
7 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (6 bp):
ATTTTA
Found at i:19674208 original size:12 final size:11
Alignment explanation
Indices: 19674177--19674236 Score: 61
Period size: 12 Copynumber: 5.4 Consensus size: 11
19674167 CTTGTTTTCT
*
19674177 TTTTAGTTTTA
1 TTTTAATTTTA
19674188 -TTT-ATTTTAA
1 TTTTAATTTT-A
19674198 TTTTAATTTTAA
1 TTTTAATTTT-A
*
19674210 TTTTTATGTTTA
1 TTTTAAT-TTTA
19674222 TTTTAATTTTA
1 TTTTAATTTTA
19674233 TTTT
1 TTTT
19674237 CAGTTGTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
11 11 0.26
12 20 0.48
13 3 0.07
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTTAATTTTA
Found at i:19674224 original size:24 final size:23
Alignment explanation
Indices: 19674189--19674236 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
19674179 TTAGTTTTAT
19674189 TTATTTTAATTTTAATTTTAATTT
1 TTATTTTAATTTTAATTTT-ATTT
19674213 TTATGTTT-ATTTTAATTTTATTT
1 TTAT-TTTAATTTTAATTTTATTT
19674236 T
1 T
19674237 CAGTTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 15 0.65
25 3 0.13
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTATTTTAATTTTAATTTTATTT
Found at i:19674257 original size:5 final size:6
Alignment explanation
Indices: 19674171--19674257 Score: 54
Period size: 6 Copynumber: 14.5 Consensus size: 6
19674161 AGTTTACTTG
* * * * *
19674171 TTTTCT TTTTAG TTTTA- -TTTAT TTTAAT TTTAAT TTTAAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
19674217 GTTTA- TTTTAA TTTTAT TTTCAGTT GTTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTA--T -TTTTAT TTTTAT TTT
19674258 CCTAGACTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.06
5 4 0.06
6 52 0.79
7 1 0.02
8 1 0.02
9 4 0.06
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:19676010 original size:25 final size:25
Alignment explanation
Indices: 19675955--19676021 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
19675945 ACTGATTTAT
* * *
19675955 AGCTCGTGAGAGCATACCGATCTAC
1 AGCTCGAGTGAGCATACCAATCTAC
*
19675980 AACTCGAGTGAGCATACCAAT-TCAC
1 AGCTCGAGTGAGCATACCAATCT-AC
19676005 AGCTCGTA-TGAGCATAC
1 AGCTCG-AGTGAGCATAC
19676022 ATGTACATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (25 bp):
AGCTCGAGTGAGCATACCAATCTAC
Found at i:19678455 original size:7 final size:7
Alignment explanation
Indices: 19678443--19678469 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19678433 AATCTTAGTA
19678443 TAACATT
1 TAACATT
19678450 TAACATT
1 TAACATT
19678457 TAACATT
1 TAACATT
19678464 TAACAT
1 TAACAT
19678470 GTTATGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:19680939 original size:21 final size:21
Alignment explanation
Indices: 19680915--19680967 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
19680905 CATTGTTTCT
*
19680915 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
19680936 AATCTCATCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
19680957 AATCTCACCGC
1 AATCTCACCGC
19680968 CACCACTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:19682129 original size:30 final size:30
Alignment explanation
Indices: 19682093--19682176 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
19682083 GTGTCTCAGT
*
19682093 CGTGTGTGACACACTGCCAGGTGACATGGC
1 CGTGTGTGACACACTGCCAGGTGACATGGA
*
19682123 CGTGTGTAACACACTGCCAGGTGACATGGA
1 CGTGTGTGACACACTGCCAGGTGACATGGA
*
19682153 CGTGTGTGACACACGGCCAGGTGA
1 CGTGTGTGACACACTGCCAGGTGA
19682177 TCCCTTGAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.19
Consensus pattern (30 bp):
CGTGTGTGACACACTGCCAGGTGACATGGA
Found at i:19685273 original size:9 final size:9
Alignment explanation
Indices: 19685255--19685286 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
19685245 ATGAGAAATT
19685255 AAAAGTGAG
1 AAAAGTGAG
*
19685264 AAAGGTGAG
1 AAAAGTGAG
19685273 AAAAGTGAG
1 AAAAGTGAG
19685282 AAAAG
1 AAAAG
19685287 ATTGGCAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.09
Consensus pattern (9 bp):
AAAAGTGAG
Found at i:19691583 original size:28 final size:29
Alignment explanation
Indices: 19691552--19691612 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
19691542 GAGCCCTATT
* * *
19691552 CAATAACAGT-ACAGTGTGGGCCTTAGCC
1 CAATAACAGTAACAATATGGACCTTAGCC
19691580 CAAT-ACAGTAACAATATGGACCTTAGCC
1 CAATAACAGTAACAATATGGACCTTAGCC
*
19691608 TAATA
1 CAATA
19691613 CAATATTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (29 bp):
CAATAACAGTAACAATATGGACCTTAGCC
Found at i:19691788 original size:26 final size:26
Alignment explanation
Indices: 19691723--19691791 Score: 104
Period size: 25 Copynumber: 2.7 Consensus size: 26
19691713 CCAATACACC
*
19691723 AATATCACAGCAAAGCTGGCAGTAAT
1 AATATCGCAGCAAAGCTGGCAGTAAT
*
19691749 AGT-TCGCAGCAAAGCTGGCAGTAAT
1 AATATCGCAGCAAAGCTGGCAGTAAT
*
19691774 AATATCGCAACAAAGCTG
1 AATATCGCAGCAAAGCTG
19691792 CCACTAACAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 23 0.61
26 15 0.39
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AATATCGCAGCAAAGCTGGCAGTAAT
Found at i:19695940 original size:20 final size:19
Alignment explanation
Indices: 19695915--19695952 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19695905 TAAGATAAGT
*
19695915 ATTATTAAATTTAATATTAA
1 ATTATTAAA-ATAATATTAA
19695935 ATTATTAAAATAATATTA
1 ATTATTAAAATAATATTA
19695953 TTTTTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTAAAATAATATTAA
Found at i:19704898 original size:119 final size:117
Alignment explanation
Indices: 19704744--19704981 Score: 325
Period size: 119 Copynumber: 2.0 Consensus size: 117
19704734 AATGACTGTG
* ** *
19704744 AGAAATTGCTCGTTTGAGAACTAGCAACATGTGGCCATGTTCCATATTTATCAATCCACACAATG
1 AGAAATTGCTCGTTCGAGAACTAGCAACACATGGCCATGTTCCATATTTATCAATCCACACAAAG
* ** *
19704809 CCAATAAGAGGATATCATTAACTTTTTAATTGAGTTATGAATTCTACTATTGCT
66 CCAATAAGAGGATATCATTAACTCTTT-A-TGACCTATGAATTCCACTATTGCT
*
19704863 AGAAATTGCTCGTTCGAGAA-TGAGCAACCCATGGCCATGTTCCATATTTATCAATCCACACAAA
1 AGAAATTGCTCGTTCGAGAACT-AGCAACACATGGCCATGTTCCATATTTATCAATCCACACAAA
* * * *
19704927 GCTAATGAGAGGATATCGTTAACTCTTTATGACCTATGAATTCCAGTATTGCT
65 GCCAATAAGAGGATATCATTAACTCTTTATGACCTATGAATTCCACTATTGCT
19704980 AG
1 AG
19704982 TAAAGCCATG
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
117 22 0.21
118 2 0.02
119 81 0.77
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (117 bp):
AGAAATTGCTCGTTCGAGAACTAGCAACACATGGCCATGTTCCATATTTATCAATCCACACAAAG
CCAATAAGAGGATATCATTAACTCTTTATGACCTATGAATTCCACTATTGCT
Found at i:19705171 original size:22 final size:23
Alignment explanation
Indices: 19705143--19705198 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
19705133 TGTCACAAGT
*
19705143 GAATTAATTCA-AAAAAAATTTA
1 GAATTAATTCACAAAAAAATTCA
* *
19705165 GAATTAATTCACAAACAGATTCA
1 GAATTAATTCACAAAAAAATTCA
*
19705188 AAATTAATTCA
1 GAATTAATTCA
19705199 TCTTGGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (23 bp):
GAATTAATTCACAAAAAAATTCA
Found at i:19706664 original size:6 final size:6
Alignment explanation
Indices: 19706648--19706698 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
19706638 TGGTTTTCTC
* * * *
19706648 AAAATG GAAATG AAAATG AAAATG ACAATG ACAATG AGAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG
19706697 AA
1 AA
19706699 TTCATTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.59, C:0.04, G:0.22, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:19712373 original size:27 final size:27
Alignment explanation
Indices: 19712320--19712373 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
19712310 CCTTAAAAAA
* *
19712320 AATTTGATATTTATGAAAAATATATAT
1 AATTTGAAATTTAGGAAAAATATATAT
*
19712347 AATTTGAAATTTAAGGAATAATA-ATAT
1 AATTTGAAATTT-AGGAAAAATATATAT
19712374 TTTCAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (27 bp):
AATTTGAAATTTAGGAAAAATATATAT
Found at i:19714071 original size:29 final size:29
Alignment explanation
Indices: 19714037--19714092 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
19714027 CCTTTAATTC
19714037 GATAAGTAAACCTTGCCCGTTTTTAGTTT
1 GATAAGTAAACCTTGCCCGTTTTTAGTTT
19714066 GATAAGTAAACCTTGCCCGTTTTTAGT
1 GATAAGTAAACCTTGCCCGTTTTTAGT
19714093 AATTTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (29 bp):
GATAAGTAAACCTTGCCCGTTTTTAGTTT
Found at i:19714289 original size:100 final size:100
Alignment explanation
Indices: 19714181--19714378 Score: 378
Period size: 100 Copynumber: 2.0 Consensus size: 100
19714171 GATAATATTA
*
19714181 AGTTTGAGTTATTCTTGAAGTTTTATGGAATAATATTAAGGTTGGTTGTTAGTTAGGACTATTTT
1 AGTTTGAGTTATTCTTAAAGTTTTATGGAATAATATTAAGGTTGGTTGTTAGTTAGGACTATTTT
*
19714246 GTAAAGTAGTTTTTGCTGGTTTTAACGTTTAAGTG
66 GTAAAGTAGTTTTTGATGGTTTTAACGTTTAAGTG
19714281 AGTTTGAGTTATTCTTAAAGTTTTATGGAATAATATTAAGGTTGGTTGTTAGTTAGGACTATTTT
1 AGTTTGAGTTATTCTTAAAGTTTTATGGAATAATATTAAGGTTGGTTGTTAGTTAGGACTATTTT
19714346 GTAAAGTAGTTTTTGATGGTTTTAACGTTTAAG
66 GTAAAGTAGTTTTTGATGGTTTTAACGTTTAAG
19714379 GACTAAAATG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (100 bp):
AGTTTGAGTTATTCTTAAAGTTTTATGGAATAATATTAAGGTTGGTTGTTAGTTAGGACTATTTT
GTAAAGTAGTTTTTGATGGTTTTAACGTTTAAGTG
Found at i:19724914 original size:25 final size:21
Alignment explanation
Indices: 19724862--19724925 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 21
19724852 TTGCAATTTA
19724862 TTTAT-TTATTTATTTTAAAC
1 TTTATATTATTTATTTTAAAC
*
19724882 TTTATATTATTTATTTTAAAT
1 TTTATATTATTTATTTTAAAC
19724903 TGTTCAAGTATTATTTATTTTAA
1 T-TT--A-TATTATTTATTTTAA
19724926 GTTTTTTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
20 5 0.13
21 15 0.39
22 2 0.05
24 1 0.03
25 15 0.39
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTATATTATTTATTTTAAAC
Found at i:19725010 original size:55 final size:56
Alignment explanation
Indices: 19724884--19725013 Score: 151
Period size: 55 Copynumber: 2.4 Consensus size: 56
19724874 TTTTAAACTT
* * * *
19724884 TATATTATTTATTTTAAA-T-TGTTCAAGTATTATTTATTTTAAGTTTTTTATATA
1 TATATTATTTATTTTAAACTATGTTCAACTATTATTCATTTTAAGATTTATATATA
** *
19724938 TATATTATGCATTTTAAACTATGTT-AATCTATTATTCATTTTAA-ATTTATATATG
1 TATATTATTTATTTTAAACTATGTTCAA-CTATTATTCATTTTAAGATTTATATATA
*
19724993 TATATTATTTATGTTAAACTA
1 TATATTATTTATTTTAAACTA
19725014 CATATGTATA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
54 16 0.25
55 29 0.46
56 18 0.29
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (56 bp):
TATATTATTTATTTTAAACTATGTTCAACTATTATTCATTTTAAGATTTATATATA
Found at i:19725084 original size:69 final size:69
Alignment explanation
Indices: 19725000--19725139 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
19724990 ATGTATATTA
19725000 TTTATGTTAAACTACATATGTATATTATTTATTTGGAATTGTTTTTATGCACATCATTCATTATC
1 TTTATGTTAAACTACATATGTATATTATTTATTTGGAATTGTTTTTATGCACATCATTCATTATC
19725065 ATTT
66 ATTT
*
19725069 TTTATGTTAAACTACATATGTATGTTATTTATTTGGAATTGTTTTTATGCACATCATTCATTATC
1 TTTATGTTAAACTACATATGTATATTATTTATTTGGAATTGTTTTTATGCACATCATTCATTATC
19725134 ATTT
66 ATTT
19725138 TT
1 TT
19725140 AAAAAATAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (69 bp):
TTTATGTTAAACTACATATGTATATTATTTATTTGGAATTGTTTTTATGCACATCATTCATTATC
ATTT
Found at i:19725236 original size:20 final size:21
Alignment explanation
Indices: 19725191--19725236 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
19725181 TTTTGACATA
19725191 TTAT-TTATTTTAAACTTTTT
1 TTATATTATTTTAAACTTTTT
**
19725211 ACATATTATTTTAAA-TTTTT
1 TTATATTATTTTAAACTTTTT
19725231 TTATAT
1 TTATAT
19725237 GTTATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATTATTTTAAACTTTTT
Found at i:19725250 original size:27 final size:26
Alignment explanation
Indices: 19725188--19725319 Score: 89
Period size: 27 Copynumber: 5.2 Consensus size: 26
19725178 TCCTTTTGAC
* * *
19725188 ATATTATTTATTTTAAA-CTTTTTAC
1 ATATTATTTGTTTTAAATTTTTTTAT
19725213 ATATTA----TTTTAAATTTTTTTAT
1 ATATTATTTGTTTTAAATTTTTTTAT
* * *
19725235 ATGTTATTTGTTTTTAAATTGCTTTGA-
1 ATATTATTTG-TTTTAAATT-TTTTTAT
** *
19725262 ATATTATTCATTTT-AATTTGTTTTAC
1 ATATTATTTGTTTTAAATTT-TTTTAT
*
19725288 ATATTATTTGTTTTAAATTGTTTTAT
1 ATATTATTTGTTTTAAATTTTTTTAT
19725314 ACTATT
1 A-TATT
19725320 TACTCCAAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
21 7 0.09
22 11 0.13
25 14 0.17
26 22 0.27
27 24 0.29
28 4 0.05
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
ATATTATTTGTTTTAAATTTTTTTAT
Found at i:19725924 original size:60 final size:60
Alignment explanation
Indices: 19725856--19725976 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
19725846 TAACTAAGTA
*
19725856 AGTTTTTAGAATTCATTCGCGCATCGGGAATTCAAGACATTGTGTCCTAACTTACTGGAT
1 AGTTTTTAGAATTCATTCGCGCATCGGGAATTCAAGACATTGTGTCCTAACTTACTAGAT
*
19725916 AGTTTTTAGCATTCATTCGCGCATCGGGAATTCAAGACATTGTGTCCTAACTTACTAGAT
1 AGTTTTTAGAATTCATTCGCGCATCGGGAATTCAAGACATTGTGTCCTAACTTACTAGAT
19725976 A
1 A
19725977 TAATTCTCTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (60 bp):
AGTTTTTAGAATTCATTCGCGCATCGGGAATTCAAGACATTGTGTCCTAACTTACTAGAT
Found at i:19734053 original size:349 final size:349
Alignment explanation
Indices: 19733414--19734116 Score: 1379
Period size: 349 Copynumber: 2.0 Consensus size: 349
19733404 AGCTTGGGAC
* *
19733414 TTTACAATGACATTTATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
1 TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
*
19733479 TTCCTATATGACCAAATAGGTAATTAAATGTATTGGTTAAGTATATGTATTTTAACTATGATATT
66 TTCCTATATGACCAAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
19733544 TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATAATTTAAATTATTATGG
131 TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATAATTTAAATTATTATGG
19733609 TCCATGCGCATAATCTTGAAATAAATTATAATGGCTAAGAATATGATAAATTTGGTAATAGTTAA
196 TCCATGCGCATAATCTTGAAATAAATTATAATGGCTAAGAATATGATAAATTTGGTAATAGTTAA
19733674 GCAAACGAAATTGAATTAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAAT
261 GCAAACGAAATTGAATTAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAAT
19733739 ATACTTTGAATATTTTGATTTGGT
326 ATACTTTGAATATTTTGATTTGGT
19733763 TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
1 TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
19733828 TTCCTATATGACCAAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
66 TTCCTATATGACCAAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
19733893 TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATAATTTAAATTATTATGG
131 TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATAATTTAAATTATTATGG
19733958 TCCATGCGCATAATCTTGAAATAAATTATAATGGCTAAGAATATGATAAATTTGGTAATAGTTAA
196 TCCATGCGCATAATCTTGAAATAAATTATAATGGCTAAGAATATGATAAATTTGGTAATAGTTAA
19734023 GCAAACGAAATTGAATTAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAAT
261 GCAAACGAAATTGAATTAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAAT
19734088 ATACTTTGAATATTTTGATTTGGT
326 ATACTTTGAATATTTTGATTTGGT
19734112 TTTAC
1 TTTAC
19734117 CTGGCGATGG
Statistics
Matches: 351, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
349 351 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (349 bp):
TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
TTCCTATATGACCAAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATAATTTAAATTATTATGG
TCCATGCGCATAATCTTGAAATAAATTATAATGGCTAAGAATATGATAAATTTGGTAATAGTTAA
GCAAACGAAATTGAATTAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAAT
ATACTTTGAATATTTTGATTTGGT
Found at i:19742297 original size:21 final size:22
Alignment explanation
Indices: 19742271--19742313 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
19742261 AAGCATGATT
*
19742271 TATATATGTGAAATG-ATTAAA
1 TATATATATGAAATGAATTAAA
*
19742292 TATATATATGAATTGAATTAAA
1 TATATATATGAAATGAATTAAA
19742314 AAAATCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (22 bp):
TATATATATGAAATGAATTAAA
Found at i:19746720 original size:15 final size:15
Alignment explanation
Indices: 19746702--19746731 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19746692 GTTTATATTG
19746702 AAATATAAACATTTA
1 AAATATAAACATTTA
*
19746717 AAATATAAAGATTTA
1 AAATATAAACATTTA
19746732 TAATTACATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATATAAACATTTA
Found at i:19754986 original size:12 final size:12
Alignment explanation
Indices: 19754969--19754995 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19754959 TTTTTATTTT
19754969 TATACATATATA
1 TATACATATATA
19754981 TATACATATATA
1 TATACATATATA
19754993 TAT
1 TAT
19754996 TAAAAACGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:19756317 original size:108 final size:109
Alignment explanation
Indices: 19755986--19756427 Score: 576
Period size: 108 Copynumber: 4.1 Consensus size: 109
19755976 AAGGAAATTT
* * *
19755986 TTTTC-AAATAAGGCAATGTTTTGCGTCTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTG
*
19756050 TCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
66 TCGA-TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAA
* * * *
19756095 TTTT-AAAATAAGGTAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGT
1 TTTTCAAAATAAGGCAATATTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTACTGGGT
* * *
19756159 GTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
65 GTCGA-TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAA
* * * * *
19756205 -TTTCAAAATAAGACAATATGTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTGGGTT
1 TTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTG
*
19756268 TCGA-TTTCTCGTTCGACCAAATGACTTAATATCCTTTTCAAAAA
66 TCGATTTTCTCGTTCAACCAAATGACTTAATATCCTTTT-AAAAA
* * * *
19756312 TTTTCAAAATAAGGCAATATTTTACGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTGGGTT
1 TTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTG
* *
19756376 TCGA-TTTCTCGTTCCACCAAATGACTTAAGA-CCTTTTCAAAAA
66 TCGATTTTCTCGTTCAACCAAATGACTTAATATCCTTTT-AAAAA
19756419 TTTTCAAAA
1 TTTTCAAAA
19756428 GGGTGCTAAC
Statistics
Matches: 305, Mismatches: 23, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
106 30 0.10
107 26 0.09
108 113 0.37
109 38 0.12
110 98 0.32
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
TTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTG
TCGATTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAA
Found at i:19761443 original size:88 final size:88
Alignment explanation
Indices: 19761290--19761626 Score: 548
Period size: 88 Copynumber: 3.8 Consensus size: 88
19761280 AGATAGCAGA
* *
19761290 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTACCTTCCTGCATTGACAGCGAAGTAGAT
1 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTACCTTCCTACATTGACAGCGAAGCAGAT
19761355 CGAAGACACAAACCTTGCCTCTC
66 CGAAGACACAAACCTTGCCTCTC
* ** * *
19761378 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGTATTGATAGTGAAGCAGAT
1 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTACCTTCCTACATTGACAGCGAAGCAGAT
*
19761443 CGAAGACACAAACCTTGCCTGTC
66 CGAAGACACAAACCTTGCCTCTC
* *
19761466 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTATATTGACAGCGAAGCAGAT
1 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTACCTTCCTACATTGACAGCGAAGCAGAT
19761531 CGAAGACACAAACCTTGCCTCTC
66 CGAAGACACAAACCTTGCCTCTC
* * *
19761554 TCGGTTGCAGCAGAGCTGGTTAAAGACAACAGATCTTACCTTCCTACATTGACAGTGAAGCAGAT
1 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTACCTTCCTACATTGACAGCGAAGCAGAT
*
19761619 TGAAGACA
66 CGAAGACA
19761627 GCAGATTTTG
Statistics
Matches: 233, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 233 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTACCTTCCTACATTGACAGCGAAGCAGAT
CGAAGACACAAACCTTGCCTCTC
Found at i:19761450 original size:45 final size:43
Alignment explanation
Indices: 19761311--19761677 Score: 182
Period size: 44 Copynumber: 8.3 Consensus size: 43
19761301 AGAGCTGGTT
* *
19761311 GAAGACAACAGATCTTACCTTCCTGCATTGACAGCGAAGTAGATC
1 GAAGACAACAGATCTTGCCTTCCTG-ATTGACAG-GAAGCAGATC
* * * * * *
19761356 GAAGAC-ACAAACCTTGCC-TCTCTCGGTTGTAGCA-G-AGCTGGTT
1 GAAGACAACAGATCTTGCCTTC-CT-GATTG-A-CAGGAAGCAGATC
*
19761399 GAAGACAACAGATCTTGCCTTCCTGTATTGATAGTGAAGCAGATC
1 GAAGACAACAGATCTTGCCTTCCTG-ATTGACAG-GAAGCAGATC
* * * * * *
19761444 GAAGAC-ACAAACCTTGCCTGT-CTCGGTTGTAGCA-G-AGCTGGTT
1 GAAGACAACAGATCTTGCCT-TCCT-GATTG-A-CAGGAAGCAGATC
*
19761487 GAAGACAACAGATCTTGCCTTCCTATATTGACAGCGAAGCAGATC
1 GAAGACAACAGATCTTGCCTTCCT-GATTGACAG-GAAGCAGATC
* * * * * * *
19761532 GAAGAC-ACAAACCTTGCC-TCTCTCGGTTG-CAGCAGAGCTGGTT
1 GAAGACAACAGATCTTGCCTTC-CT-GATTGACAGGA-AGCAGATC
* * * *
19761575 AAAGACAACAGATCTTACCTTCCTACATTGACAGTGAAGCAGATT
1 GAAGACAACAGATCTTGCCTTCCT-GATTGACAG-GAAGCAGATC
* * *
19761620 GAAGACAGCAGATTTTGCCTTCCTGTATTGACAGCGAAACAGATC
1 GAAGACAACAGATCTTGCCTTCCTG-ATTGACAG-GAAGCAGATC
19761665 GAAGATCAA-AGAT
1 GAAGA-CAACAGAT
19761678 GACAGATTTT
Statistics
Matches: 237, Mismatches: 58, Indels: 54
0.68 0.17 0.15
Matches are distributed among these distances:
42 4 0.02
43 42 0.18
44 94 0.40
45 91 0.38
46 6 0.03
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (43 bp):
GAAGACAACAGATCTTGCCTTCCTGATTGACAGGAAGCAGATC
Found at i:19761781 original size:95 final size:95
Alignment explanation
Indices: 19761660--19762145 Score: 749
Period size: 95 Copynumber: 5.1 Consensus size: 95
19761650 ACAGCGAAAC
* *
19761660 AGATCGAAGATCAAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA
1 AGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA
* *
19761725 TAATTCTATCTCCCTGATTGGCAGCGAAAT
66 TAATTCTATCTCCCTGATTGGCAGTGGAAT
* * * *
19761755 AGATTGAAGATCGAATATGGCAGATTTTACCTCCCTATGACTACAGTGGAGTACATTGAAGTCGA
1 AGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA
* *
19761820 TAATTCTATGTCCCTGGTTGGCAGTGGAAT
66 TAATTCTATCTCCCTGATTGGCAGTGGAAT
* *
19761850 AGATTGAAGATCAAAGATGGCAGGTTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGA
1 AGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA
*
19761915 TAATTCTATCTCCCTGGTTGGCAGTGGAAT
66 TAATTCTATCTCCCTGATTGGCAGTGGAAT
* * * * * * *
19761945 AGATCGTAGATCGAAGATGGCTGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAGGCCAA
1 AGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA
19762010 TAATTCTATCTCCCTGATTGGCAGTGGAAT
66 TAATTCTATCTCCCTGATTGGCAGTGGAAT
* *
19762040 AGATT-ACAGATCAAAGATGGCAGATTTTACCTCCTTATGACTACAGTGGAGTACATTGAAGCCG
1 AGATTGA-AGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCG
*
19762104 ATAATTCTATCTCCCTGGTTGGCAGTGGAAT
65 ATAATTCTATCTCCCTGATTGGCAGTGGAAT
19762135 AGATTGAAGAT
1 AGATTGAAGAT
19762146 TTCAAAGCTT
Statistics
Matches: 354, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
95 353 1.00
96 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (95 bp):
AGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA
TAATTCTATCTCCCTGATTGGCAGTGGAAT
Found at i:19762272 original size:126 final size:126
Alignment explanation
Indices: 19762046--19762397 Score: 524
Period size: 126 Copynumber: 2.8 Consensus size: 126
19762036 GAATAGATTA
* *
19762046 CAGATCAAAGATGGCAGATTTTACCTCCTTATGACTACAGTGGAGTACATTGAAGCCGATAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCTTATGACTACAGTGGAGTACATTGAAGCCAATAATTC
* *
19762111 TATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGCTTATCTCCCTAAGTGGAG
66 TATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGCTTATCTCCCAAAGTGAAG
* * * * *
19762172 TAGATCGAAGATGACATATTTTACCTCCTTCTGACTACAGTGGAGTACATTAAAGCCAATAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCTTATGACTACAGTGGAGTACATTGAAGCCAATAATTC
* * * *
19762237 TATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCAAAGTGAAG
66 TATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGCTTATCTCCCAAAGTGAAG
* * * * * *
19762298 CAGATTGAGGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCTTATGACTACAGTGGAGTACATTGAAGCCAATAATTC
*
19762363 TATCTCCCTGGTTGGTAGTGGAATAGATTGAAGAT
66 TATCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT
19762398 CGAAGATGGT
Statistics
Matches: 201, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 201 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (126 bp):
CAGATCGAAGATGGCAGATTTTACCTCCTTATGACTACAGTGGAGTACATTGAAGCCAATAATTC
TATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGCTTATCTCCCAAAGTGAAG
Found at i:19762372 original size:44 final size:44
Alignment explanation
Indices: 19762322--19762467 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
19762312 CAGATTTTAC
19762322 CTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
1 CTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
** * * * * *
19762366 CTCCCTG-G-TTGGTAGTGGAATAGATTGAAGATCGAAGATGGTAGATTTTAC
1 CTCCCTGTGATT-ACAGTGGAGTACATTGAAG--C---CA--GTA-ATTCTAT
19762417 CTCCCTGTGATTACAGTGGAGTACATTGAAGCC-GATAATTCTAT
1 CTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TAATTCTAT
19762461 CTCCCTG
1 CTCCCTG
19762468 GTTGGCAGTG
Statistics
Matches: 76, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
42 2 0.03
43 16 0.21
44 20 0.26
45 3 0.04
48 1 0.01
50 4 0.05
51 12 0.16
52 16 0.21
53 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
CTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
Found at i:19762393 original size:43 final size:43
Alignment explanation
Indices: 19762335--19762490 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 43
19762325 CCTGTGATTA
*
19762335 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGG
1 CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGTTGG
* * * * * *
19762378 TAGTGGAATAGATTGAAGATCGAAGATGGTAGATTTTACCTCCCTGTGATT-A
1 CAGTGGAATACATTGAAG--C---CA--GTA-ATTCTATCTCCCTG-G-TTGG
*
19762430 CAGTGGAGTACATTGAAGCC-GATAATTCTATCTCCCTGGTTGG
1 CAGTGGAATACATTGAAGCCAG-TAATTCTATCTCCCTGGTTGG
*
19762473 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
19762491 ATTTCAAATC
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
42 2 0.02
43 32 0.38
44 13 0.15
45 3 0.04
48 1 0.01
50 4 0.05
51 12 0.14
52 16 0.19
53 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGTTGG
Found at i:19762400 original size:221 final size:221
Alignment explanation
Indices: 19762173--19762594 Score: 666
Period size: 221 Copynumber: 1.9 Consensus size: 221
19762163 TAAGTGGAGT
* *
19762173 AGATCGAAGATGACATATTTTACCTCCTTCTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
1 AGATCGAAGATGACAGATTTTACCTCCCTCTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
* *
19762238 ATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCAAAGTGAAGCAGAT
66 ATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCAAAGTGAAGCAGAT
* * * *
19762303 TGAGGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TAATTCTATC
131 CGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAG-CAGATAATTCTATC
19762367 TCCCTGGTTGGTAGTGGAATAGATTGA
195 TCCCTGGTTGGTAGTGGAATAGATTGA
** * * * *
19762394 AGATCGAAGATGGTAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCGAAGATGACAGATTTTACCTCCCTCTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
* * *
19762459 ATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGTGGAGCAGAT
66 ATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCAAAGTGAAGCAGAT
*
19762524 CGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCTGATAATTCTATCT
131 CGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCAGATAATTCTATCT
19762589 CCCTGG
196 CCCTGG
19762595 GCAGCAATGA
Statistics
Matches: 182, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
220 2 0.01
221 180 0.99
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (221 bp):
AGATCGAAGATGACAGATTTTACCTCCCTCTGACTACAGTGGAGTACATTAAAGCCAATAATTCT
ATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCAAAGTGAAGCAGAT
CGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCAGATAATTCTATCT
CCCTGGTTGGTAGTGGAATAGATTGA
Found at i:19762470 original size:95 final size:95
Alignment explanation
Indices: 19762307--19762492 Score: 338
Period size: 95 Copynumber: 2.0 Consensus size: 95
19762297 GCAGATTGAG
19762307 GATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
19762372 GGTTGGTAGTGGAATAGATTGAAGATCGAA
66 GGTTGGCAGTGGAATAGATTGAAGATCGAA
*
19762402 GATGGTAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCC-GATAATTCTATCTCCC
1 GATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TAATTCTATCTCCC
19762466 TGGTTGGCAGTGGAATAGATTGAAGAT
65 TGGTTGGCAGTGGAATAGATTGAAGAT
19762493 TTCAAATCTT
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
94 1 0.01
95 87 0.99
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (95 bp):
GATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGTTGGCAGTGGAATAGATTGAAGATCGAA
Found at i:19762611 original size:347 final size:347
Alignment explanation
Indices: 19761960--19762625 Score: 1064
Period size: 347 Copynumber: 1.9 Consensus size: 347
19761950 GTAGATCGAA
* * *
19761960 GATGGCTGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAGGCCAATAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCT
*
19762025 GATTGGCAGTGGAATAGATTACAGATCAAAGATGGCAGATTTTACCTCCTTATGACTACAGTGGA
66 GATTGGCAGTGGAATAGATTACAGATCAAAGATGGCAGATTTTACCTCCCTATGACTACAGTGGA
19762090 GTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGCT
131 GTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGCT
* * *
19762155 TATCTCCCTAAGTGGAGTAGATCGAAGATGACATATTTTACCTCCTTCTGACTACAGTGGAGTAC
196 TATCTCCCTAAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTCTGACTACAGTGGAGTAC
*** * * * *
19762220 ATTAAAGCCAATAATTCTATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATT
261 ATTAAAGCCAATAATTCTATCTCCCTAGGCAGCAATGAAATAGATTGAAAATTGCAGATCTTATT
19762285 TCCCAAAGTGAAGCAGATTGAG
326 TCCCAAAGTGAAGCAGATTGAG
* *
19762307 GATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCT
* * * * * *
19762372 GGTTGGTAGTGGAATAGATTGA-AGATCGAAGATGGTAGATTTTACCTCCCTGTGATTACAGTGG
66 GATTGGCAGTGGAATAGATT-ACAGATCAAAGATGGCAGATTTTACCTCCCTATGACTACAGTGG
*
19762436 AGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAATC
130 AGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGC
* *
19762501 TTATCTCCCTAAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTA
195 TTATCTCCCTAAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTCTGACTACAGTGGAGTA
** *
19762566 CATTAAAGCTGATAATTCTATCTCCCTGGGCAGCAATGAAATAGATTGAAAATTGCAGAT
260 CATTAAAGCCAATAATTCTATCTCCCTAGGCAGCAATGAAATAGATTGAAAATTGCAGAT
19762626 TCTATCCCCC
Statistics
Matches: 290, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
347 289 1.00
348 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (347 bp):
GATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCT
GATTGGCAGTGGAATAGATTACAGATCAAAGATGGCAGATTTTACCTCCCTATGACTACAGTGGA
GTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAAGCT
TATCTCCCTAAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTCTGACTACAGTGGAGTAC
ATTAAAGCCAATAATTCTATCTCCCTAGGCAGCAATGAAATAGATTGAAAATTGCAGATCTTATT
TCCCAAAGTGAAGCAGATTGAG
Found at i:19762637 original size:126 final size:126
Alignment explanation
Indices: 19762394--19762639 Score: 359
Period size: 126 Copynumber: 2.0 Consensus size: 126
19762384 AATAGATTGA
* * *
19762394 AGATCGAAGATGGTAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCGATAATTCT
*** * * * * *
19762459 ATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGTGGAGC
66 ATCTCCCTGGGCAGCAATGAAATAGATTGAAAATTGCAAATCTTATCCCCCTAAGTGGAGC
*
19762520 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCTGATAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCGATAATTCT
*
19762585 ATCTCCCTGGGCAGCAATGAAATAGATTGAAAATTGCAGAT-TCTATCCCCCTAAG
66 ATCTCCCTGGGCAGCAATGAAATAGATTGAAAATTGCAAATCT-TATCCCCCTAAG
19762640 CAGTAGTGGA
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
125 1 0.01
126 105 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (126 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCGATAATTCT
ATCTCCCTGGGCAGCAATGAAATAGATTGAAAATTGCAAATCTTATCCCCCTAAGTGGAGC
Found at i:19763465 original size:12 final size:12
Alignment explanation
Indices: 19763448--19763472 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19763438 TTTTTATTTT
19763448 TATACATATATA
1 TATACATATATA
19763460 TATACATATATA
1 TATACATATATA
19763472 T
1 T
19763473 TAAAAACGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:19764103 original size:3 final size:3
Alignment explanation
Indices: 19764095--19764150 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
19764085 TATTTTTAAC
* * *
19764095 ATT ATT ATT -TT CA-T ATT TTT ATT ACT ATT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19764139 ATT ATT ATT ATT
1 ATT ATT ATT ATT
19764151 GCTTTTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 41 0.93
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:19764675 original size:109 final size:109
Alignment explanation
Indices: 19764484--19764717 Score: 432
Period size: 109 Copynumber: 2.1 Consensus size: 109
19764474 AAATTTTTGC
19764484 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * * *
19764549 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTCTCATTCAACCAAATCGCTAAATATCCTTTTAAAAATTTCA
19764593 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
19764658 TTTCTCATTCAACCAAATCGCTAAATATCCTTTTAAAAATTTCA
66 TTTCTCATTCAACCAAATCGCTAAATATCCTTTTAAAAATTTCA
19764702 AAATAAGGCAATGTTT
1 AAATAAGGCAATGTTT
19764718 AAATTTGAGG
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 121 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCATTCAACCAAATCGCTAAATATCCTTTTAAAAATTTCA
Found at i:19765184 original size:20 final size:20
Alignment explanation
Indices: 19765159--19765196 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19765149 AATAATAAAA
*
19765159 CTGATCAAAGTTTATAAGCC
1 CTGATCAAAGCTTATAAGCC
19765179 CTGATCAAAGCTTATAAG
1 CTGATCAAAGCTTATAAG
19765197 GCCCAAGCGT
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:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
CTGATCAAAGCTTATAAGCC
Found at i:19769163 original size:14 final size:14
Alignment explanation
Indices: 19769144--19769171 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19769134 TCAATGACTT
19769144 ATATTAATTTATCA
1 ATATTAATTTATCA
19769158 ATATTAATTTATCA
1 ATATTAATTTATCA
19769172 TTCCTTGAAG
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:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTAATTTATCA
Found at i:19769522 original size:38 final size:38
Alignment explanation
Indices: 19769471--19769548 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
19769461 TGTGGATATA
*
19769471 AAGTAAAAGGAATGGAAGTAAAAGTATCAAGTTGTCAC
1 AAGTAAAAGGAATGAAAGTAAAAGTATCAAGTTGTCAC
19769509 AAGTAAAAGGAATGAAAGTAAAAGTATCAAGTTGTCAC
1 AAGTAAAAGGAATGAAAGTAAAAGTATCAAGTTGTCAC
19769547 AA
1 AA
19769549 TTTATATTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.50, C:0.08, G:0.22, T:0.21
Consensus pattern (38 bp):
AAGTAAAAGGAATGAAAGTAAAAGTATCAAGTTGTCAC
Found at i:19785630 original size:20 final size:20
Alignment explanation
Indices: 19785605--19785651 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
19785595 GGGTTGAGGT
19785605 TGAGCTGAATTCAACTCGAA
1 TGAGCTGAATTCAACTCGAA
* * * *
19785625 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTCAACTCGAA
19785645 TGAGCTG
1 TGAGCTG
19785652 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTCAACTCGAA
Done.