Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 224 of 259
Found at i:70775303 original size:22 final size:22
Alignment explanation
Indices: 70775261--70775303 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
70775251 TATTTATGTT
*
70775261 TAATTTAAAAAATTATATTTAA
1 TAATTTAAAAAATAATATTTAA
70775283 TAATTTAAGAAAATAAT-TTTA
1 TAATTTAA-AAAATAATATTTA
70775304 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATTTAAAAAATAATATTTAA
Found at i:70777207 original size:12 final size:12
Alignment explanation
Indices: 70777190--70777215 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
70777180 CAAAATAGAC
70777190 TTTTAGCGGCGT
1 TTTTAGCGGCGT
70777202 TTTTAGCGGCGT
1 TTTTAGCGGCGT
70777214 TT
1 TT
70777216 GAAACGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:70777285 original size:40 final size:41
Alignment explanation
Indices: 70777241--70777346 Score: 144
Period size: 40 Copynumber: 2.6 Consensus size: 41
70777231 GAAAAAATCG
* *
70777241 AATAGATGGAGTTTTAGCGGCGTTTTTTTAAAAA-CGACGC
1 AATAGATCGAGCTTTAGCGGCGTTTTTTTAAAAAGCGACGC
*
70777281 AATAGATCGAGCTTTAGCGGCG-TTTTTTAAAAAGCGCCGC
1 AATAGATCGAGCTTTAGCGGCGTTTTTTTAAAAAGCGACGC
* * *
70777321 TATAGGTCGACCTTTAGCGGCGTTTT
1 AATAGATCGAGCTTTAGCGGCGTTTT
70777347 ACCAAAACGA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 11 0.19
40 44 0.76
41 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
AATAGATCGAGCTTTAGCGGCGTTTTTTTAAAAAGCGACGC
Found at i:70777508 original size:114 final size:115
Alignment explanation
Indices: 70777360--70777581 Score: 277
Period size: 114 Copynumber: 1.9 Consensus size: 115
70777350 AAAACGACGC
* * * * *
70777360 AAAAGGTTAAGCAAAACGACGCCGTTTTACATGAGCTTCATTGGCAGTAACGGGGTTTTCCC-AA
1 AAAAGGTTAAGCAAAACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCG-CTGCCCTAA
*
70777424 AAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTTG-AAAAAACACCACT
65 AAACGCCGCAATAGATCAAACTTTAGCGGCATTTTTGTAAAAAACACCACT
* * ** * *
70777474 AAAATGTTAAGCAAAACGACGTCGTTTTTTATGAGCTTCAATGACATTAGCGGCGCTGCCCTAAA
1 AAAAGGTTAAGCAAAACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCGCTGCCCTAAA
* ***
70777539 AACGCCGCAATAGCTTGCACTTTAGCGGCATTTTTGTAAAAAA
66 AACGCCGCAATAGATCAAACTTTAGCGGCATTTTTGTAAAAAA
70777582 ACGCTGCTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
113 4 0.04
114 80 0.89
115 6 0.07
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (115 bp):
AAAAGGTTAAGCAAAACGACGCCGTTTTACATGAGCTTCAATGACAGTAACGGCGCTGCCCTAAA
AACGCCGCAATAGATCAAACTTTAGCGGCATTTTTGTAAAAAACACCACT
Found at i:70778405 original size:14 final size:14
Alignment explanation
Indices: 70778373--70778439 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
70778363 TTTTTATAGG
* *
70778373 TTTAGGGGTTATGGG
1 TTTAGGGTTTAT-GA
*
70778388 TTTAAGGTTTATGA
1 TTTAGGGTTTATGA
*
70778402 TTTAGGGTTGATGA
1 TTTAGGGTTTATGA
* *
70778416 TTTATGTTTTATGA
1 TTTAGGGTTTATGA
70778430 TTTAGGGTTT
1 TTTAGGGTTT
70778440 GATGTTTATA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 32 0.76
15 10 0.24
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:70778419 original size:28 final size:28
Alignment explanation
Indices: 70778387--70778447 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
70778377 GGGGTTATGG
70778387 GTTTAAGGTTTATGATTTAGGG-TTGAT
1 GTTTAAGGTTTATGATTTAGGGTTTGAT
* *
70778414 GATTTATGTTTTATGATTTAGGGTTTGAT
1 G-TTTAAGGTTTATGATTTAGGGTTTGAT
70778443 GTTTA
1 GTTTA
70778448 TAATTTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 23 0.77
29 6 0.20
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (28 bp):
GTTTAAGGTTTATGATTTAGGGTTTGAT
Found at i:70778447 original size:14 final size:15
Alignment explanation
Indices: 70778388--70778447 Score: 65
Period size: 14 Copynumber: 4.3 Consensus size: 15
70778378 GGGTTATGGG
*
70778388 TTTAAGGTTT-ATGA
1 TTTAGGGTTTGATGA
70778402 TTTAGGG-TTGATGA
1 TTTAGGGTTTGATGA
* *
70778416 TTTA-TGTTTTATGA
1 TTTAGGGTTTGATGA
70778430 TTTAGGGTTTGATG-
1 TTTAGGGTTTGATGA
70778444 TTTA
1 TTTA
70778448 TAATTTAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 3 0.08
14 28 0.74
15 7 0.18
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTGATGA
Found at i:70778448 original size:28 final size:28
Alignment explanation
Indices: 70778395--70778448 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
70778385 GGGTTTAAGG
70778395 TTTATGATTTAGGGTTGATGATTTATGT
1 TTTATGATTTAGGGTTGATGATTTATGT
70778423 TTTATGATTTAGGGTTTGATG-TTTAT
1 TTTATGATTTAGGG-TTGATGATTTAT
70778449 AATTTAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (28 bp):
TTTATGATTTAGGGTTGATGATTTATGT
Found at i:70778922 original size:13 final size:13
Alignment explanation
Indices: 70778904--70778928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70778894 GGTTATGCTA
70778904 TTAGGGTTTAAGG
1 TTAGGGTTTAAGG
70778917 TTAGGGTTTAAG
1 TTAGGGTTTAAG
70778929 CTGGTAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (13 bp):
TTAGGGTTTAAGG
Found at i:70779018 original size:7 final size:7
Alignment explanation
Indices: 70778960--70779033 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
70778950 TTTTTAGCAT
70778960 TTTAGGG
1 TTTAGGG
*
70778967 TGTTAGGC
1 T-TTAGGG
*
70778975 TTTAGGC
1 TTTAGGG
70778982 TTTAGGG
1 TTTAGGG
*
70778989 TTTAGAG
1 TTTAGGG
*
70778996 TTTATGG
1 TTTAGGG
**
70779003 -TTA-TT
1 TTTAGGG
*
70779008 TTTAGTG
1 TTTAGGG
70779015 TTTATGGG
1 TTTA-GGG
70779023 TTTAGGG
1 TTTAGGG
70779030 TTTA
1 TTTA
70779034 AGAGTATACA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
6 6 0.11
7 36 0.67
8 12 0.22
ACGTcount: A:0.16, C:0.03, G:0.31, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:70779170 original size:21 final size:20
Alignment explanation
Indices: 70779144--70779193 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
70779134 AGGCTTAAGG
70779144 TTTGGGGTTTAGAATTTGAGA
1 TTTGGGGTTTAGAATTTG-GA
*
70779165 TTTGGGG-TTAGAGTTTGGA
1 TTTGGGGTTTAGAATTTGGA
*
70779184 TTTTGGGTTT
1 TTTGGGGTTT
70779194 TAGGGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 11 0.42
21 7 0.27
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (20 bp):
TTTGGGGTTTAGAATTTGGA
Found at i:70779191 original size:19 final size:20
Alignment explanation
Indices: 70779144--70779192 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
70779134 AGGCTTAAGG
70779144 TTTGGGGTTTAGAATTTGAGA
1 TTTGGGG-TTAGAATTTGAGA
*
70779165 TTTGGGGTTAGAGTTTG-GA
1 TTTGGGGTTAGAATTTGAGA
*
70779184 TTTTGGGTT
1 TTTGGGGTT
70779193 TTAGGGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 9 0.35
21 7 0.27
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (20 bp):
TTTGGGGTTAGAATTTGAGA
Found at i:70783075 original size:23 final size:23
Alignment explanation
Indices: 70783045--70783094 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
70783035 AACATTAATC
70783045 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
*
70783068 AAATGTATGAATTGTAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
70783091 AAAT
1 AAAT
70783095 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:70783629 original size:241 final size:241
Alignment explanation
Indices: 70783206--70783692 Score: 911
Period size: 241 Copynumber: 2.0 Consensus size: 241
70783196 ATGAATTAAT
*
70783206 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
70783271 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* *
70783336 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
70783401 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCACTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCACTTACTATTGAATA
70783447 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
70783512 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCTTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
70783577 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
* * *
70783642 AAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCACTTACTATTGAATA
70783688 TTTAT
1 TTTAT
70783693 ATAACCTTAA
Statistics
Matches: 239, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 239 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTACGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCACTTACTATTGAATA
Found at i:70783895 original size:9 final size:9
Alignment explanation
Indices: 70783872--70784038 Score: 163
Period size: 9 Copynumber: 17.6 Consensus size: 9
70783862 ATTCATCATT
*
70783872 ACTTAAATA
1 ACTTACATA
*
70783881 AATTACATA
1 ACTTACATA
70783890 ACTTACATA
1 ACTTACATA
* *
70783899 ACTCATATA
1 ACTTACATA
70783908 ACTTACATA
1 ACTTACATA
*
70783917 ATTTACATAACA
1 ACTTACAT---A
70783929 ACTTACATA
1 ACTTACATA
*
70783938 ACTCACATA
1 ACTTACATA
70783947 ACTTACATA
1 ACTTACATA
*
70783956 ATTTACATAACA
1 ACTTACAT---A
70783968 ACTTACATA
1 ACTTACATA
70783977 ACTTACATA
1 ACTTACATA
70783986 ACTTACATA
1 ACTTACATA
*
70783995 ATTTACATA
1 ACTTACATA
*
70784004 ACTCACATA
1 ACTTACATA
*
70784013 ACGTACATAACA
1 ACTTACAT---A
70784025 ACTTACATA
1 ACTTACATA
70784034 ACTTA
1 ACTTA
70784039 ACTAATACAT
Statistics
Matches: 130, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
9 106 0.82
12 24 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:70783941 original size:39 final size:39
Alignment explanation
Indices: 70783889--70784005 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
70783879 TAAATTACAT
*
70783889 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
70783928 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
70783967 AACTTACATAACTTACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
70784006 TCACATAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:70783962 original size:48 final size:47
Alignment explanation
Indices: 70783883--70784038 Score: 195
Period size: 48 Copynumber: 3.3 Consensus size: 47
70783873 CTTAAATAAA
* * *
70783883 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * *
70783931 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
* *
70783979 TTACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
70784027 TTACATAACTTA
1 TTACATAACTTA
70784039 ACTAATACAT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
47 4 0.04
48 83 0.91
49 4 0.04
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.32
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:70784034 original size:39 final size:36
Alignment explanation
Indices: 70783872--70784023 Score: 182
Period size: 39 Copynumber: 4.1 Consensus size: 36
70783862 ATTCATCATT
* * *
70783872 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACT-ACATA
70783908 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACT-ACATA
70783947 ACTTACATAATTTACATAACAACTTACATAACTTACATA
1 ACTTACATAATTTACAT-A-AACTTACATAAC-TACATA
*
70783986 ACTTACATAATTTACAT-AACTCACATAACGTACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TACATA
70784022 AC
1 AC
70784024 AACTTACATA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
36 34 0.32
39 72 0.67
40 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (36 bp):
ACTTACATAATTTACATAAACTTACATAACTACATA
Found at i:70789613 original size:21 final size:21
Alignment explanation
Indices: 70789587--70789634 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
70789577 TCAACTTAGA
*
70789587 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
70789608 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
70789629 GCGGAG
1 GCGGAG
70789635 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:70790044 original size:43 final size:44
Alignment explanation
Indices: 70789956--70790070 Score: 171
Period size: 43 Copynumber: 2.6 Consensus size: 44
70789946 AGCGCCGCTG
* *
70789956 GCTAAAGGTCCCT-GTCTTTAGCGGCGTTTTTTAAAAAAAGCGCC
1 GCTAAAAGT-CCTGGTCATTAGCGGCGTTTTTTAAAAAAAGCGCC
* *
70790000 GCTAAAAGTCCTGGTCATTCGCGGCGTTTTTT-AAAAAAGTGCC
1 GCTAAAAGTCCTGGTCATTAGCGGCGTTTTTTAAAAAAAGCGCC
70790043 GCTAAAAGTCCTGGTCATTAGCGGCGTT
1 GCTAAAAGTCCTGGTCATTAGCGGCGTT
70790071 ACATATGGCG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 40 0.62
44 25 0.38
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (44 bp):
GCTAAAAGTCCTGGTCATTAGCGGCGTTTTTTAAAAAAAGCGCC
Found at i:70791310 original size:209 final size:210
Alignment explanation
Indices: 70790953--70791340 Score: 643
Period size: 209 Copynumber: 1.8 Consensus size: 210
70790943 AAACAAACCA
70790953 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
* *
70791018 TATATAGAGAGATATTTACGCATGTAACACGTTACAAAAACAAAAATTTAAATACTTATACCTAA
66 TATAT--A-AGATATTTACGCATATAACACATTACAAAAACAAAAATTTAAATACTTATACCTAA
70791083 TAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTATAATTTTATTT
128 TAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTATAATTTTATTT
70791148 CTTATTTAATATTTTAAT
193 CTTATTTAATATTTTAAT
* * * *
70791166 TTAATTTTAATAATGCATACTTTATCCGGATGTAGTATGTATTAGCAGATTGACTAATATGATTC
1 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
* **
70791231 TATAT-ATATATTTACGCATATATTACATTACAAAAACAAAAATTTAAATACTTATACCTAATAA
66 TATATAAGATATTTACGCATATAACACATTACAAAAACAAAAATTTAAATACTTATACCTAATAA
* *
70791295 AACATGTATCTCATTACAATAATAGTTATTTTTCAAATAATATATT
131 AACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATT
70791341 ATTTTCCAAA
Statistics
Matches: 164, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
209 98 0.60
213 66 0.40
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (210 bp):
TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATTA
TATATAAGATATTTACGCATATAACACATTACAAAAACAAAAATTTAAATACTTATACCTAATAA
AACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTATAATTTTATTTCTT
ATTTAATATTTTAAT
Found at i:70791335 original size:18 final size:18
Alignment explanation
Indices: 70791312--70791359 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
70791302 ATCTCATTAC
*
70791312 AATAATAGTTATTTTTCA
1 AATAATAGTTATTTTCCA
*
70791330 AATAATATATTATTTTCCA
1 AATAATA-GTTATTTTCCA
70791349 AA-AATAAGTTA
1 AATAAT-AGTTA
70791360 ATGGTTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (18 bp):
AATAATAGTTATTTTCCA
Found at i:70804620 original size:29 final size:30
Alignment explanation
Indices: 70804573--70804640 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
70804563 TGGCCCAAGA
* *
70804573 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
70804603 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
70804633 GCAAATAT
1 GTAAATAT
70804641 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:70807122 original size:46 final size:46
Alignment explanation
Indices: 70807065--70807338 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
70807055 AGTGTGCTCT
* * *
70807065 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
70807111 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* *
70807157 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
*
70807203 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
70807249 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* * * * *
70807295 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGACACCATGGCA
70807339 TCATGTCAAA
Statistics
Matches: 215, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 214 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
Found at i:70814117 original size:5 final size:5
Alignment explanation
Indices: 70814107--70814140 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
70814097 AAATAATACT
* *
70814107 AAAGG AAAGG AAAGA AAAGG AAAGG AAAGT AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
70814141 AAATGATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (5 bp):
AAAGG
Found at i:70814127 original size:15 final size:15
Alignment explanation
Indices: 70814107--70814140 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
70814097 AAATAATACT
70814107 AAAGGAAAGGAAAGA
1 AAAGGAAAGGAAAGA
*
70814122 AAAGGAAAGGAAAGT
1 AAAGGAAAGGAAAGA
70814137 AAAG
1 AAAG
70814141 AAATGATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (15 bp):
AAAGGAAAGGAAAGA
Found at i:70815459 original size:18 final size:19
Alignment explanation
Indices: 70815438--70815476 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
70815428 ATTAGGATAT
*
70815438 TTTTATAAA-TATTTGGAA
1 TTTTAAAAATTATTTGGAA
*
70815456 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTGGAA
70815475 TT
1 TT
70815477 ATTTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATTTGGAA
Found at i:70826766 original size:21 final size:21
Alignment explanation
Indices: 70826654--70826811 Score: 104
Period size: 21 Copynumber: 7.5 Consensus size: 21
70826644 TCGAAAGCTA
* * *
70826654 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGTTG
*
70826675 AACAGAAGCTCGTAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
* * * *
70826696 AACAAAAACACA-AATGAGTTA
1 AACAGAAGCTCATAA-GAGTTG
* * *
70826717 AACAAAAGCTCATAAAAGCTG
1 AACAGAAGCTCATAAGAGTTG
*
70826738 AATAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
* ** *
70826759 AAGAGAAGCTCGA-AAGACCTA
1 AACAGAAGCTC-ATAAGAGTTG
* * * *
70826780 AACCGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGTTG
70826801 AACAGAAGCTC
1 AACAGAAGCTC
70826812 GTGAGAGCTA
Statistics
Matches: 103, Mismatches: 30, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.03
21 97 0.94
22 3 0.03
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTG
Found at i:70826823 original size:42 final size:42
Alignment explanation
Indices: 70826635--70826823 Score: 159
Period size: 42 Copynumber: 4.5 Consensus size: 42
70826625 GTACATCGTT
* * * *
70826635 AACATAAGCTCG-AA-AGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
* * * *
70826675 AACAGAAGCTCGTAAGAGTTGAACAAAAACACA-AATGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAA-GAGTTA
* * * * * * *
70826717 AACAAAAGCTCATAAAAGCTGAATAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
* * * * *
70826759 AAGAGAAGCTCGAAAGACCTAAACCGAAACTCATATGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
*
70826801 AACAGAAGCTCGTGAGAGCTAAA
1 AACAGAAGCTCGTAAGAGCTAAA
70826824 TGGAAAGTAA
Statistics
Matches: 113, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
40 11 0.10
41 4 0.04
42 96 0.85
43 2 0.02
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTA
Found at i:70827034 original size:7 final size:7
Alignment explanation
Indices: 70827022--70827060 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
70827012 ATATATATAT
70827022 ATTACCA
1 ATTACCA
70827029 ATTACCA
1 ATTACCA
70827036 ATTACCA
1 ATTACCA
*
70827043 ATCACCA
1 ATTACCA
*
70827050 ATCACCA
1 ATTACCA
70827057 ATTA
1 ATTA
70827061 ACATTCACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (7 bp):
ATTACCA
Found at i:70827068 original size:21 final size:21
Alignment explanation
Indices: 70827025--70827068 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
70827015 TATATATATT
* *
70827025 ACCAATTACCAATTACCAATC
1 ACCAATCACCAATTAACAATC
*
70827046 ACCAATCACCAATTAACATTC
1 ACCAATCACCAATTAACAATC
70827067 AC
1 AC
70827069 TTTAATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (21 bp):
ACCAATCACCAATTAACAATC
Found at i:70832794 original size:11 final size:10
Alignment explanation
Indices: 70832778--70832817 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 10
70832768 ATGTCACGTC
70832778 AAAAAATAATT
1 AAAAAAT-ATT
70832789 AAAAAATA--
1 AAAAAATATT
70832797 AAAAAATATT
1 AAAAAATATT
70832807 AAAAAA-ATT
1 AAAAAATATT
70832816 AA
1 AA
70832818 TAAGGATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.30
9 5 0.19
10 7 0.26
11 7 0.26
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAAATATT
Found at i:70837481 original size:18 final size:18
Alignment explanation
Indices: 70837432--70837483 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
70837422 AGCTCACAAC
**
70837432 TTTGGATGAGTTCACAGA
1 TTTGGATGAGTTCGTAGA
70837450 TTTGGATGAGTTCGTAGA
1 TTTGGATGAGTTCGTAGA
70837468 TTTGGATGAGTTCGTA
1 TTTGGATGAGTTCGTA
70837484 ACTGTGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (18 bp):
TTTGGATGAGTTCGTAGA
Found at i:70840802 original size:58 final size:57
Alignment explanation
Indices: 70840686--70840821 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 57
70840676 TTCATTTATG
* * * * *
70840686 ATAACATAGTTTTATCTTT-AAAA--GACCGACCGATCAATTTACTTTACAAATATG
1 ATAATATAATTTTATCTTTAAAAATTGACCGACCAATCAATTTAATTTACAAATATA
* * * *
70840740 ATAATATCATTTTGTCTTTTAAAAATTGACCGATCAATCAATTTAATTTTCAAATATA
1 ATAATATAATTTTATC-TTTAAAAATTGACCGACCAATCAATTTAATTTACAAATATA
70840798 ATAATATAATTTTATCTTTAAAAA
1 ATAATATAATTTTATCTTTAAAAA
70840822 CAGATAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
54 12 0.18
55 3 0.04
56 4 0.06
57 8 0.12
58 40 0.60
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.40
Consensus pattern (57 bp):
ATAATATAATTTTATCTTTAAAAATTGACCGACCAATCAATTTAATTTACAAATATA
Found at i:70849783 original size:13 final size:14
Alignment explanation
Indices: 70849767--70849802 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
70849757 CAATCTCATA
70849767 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
70849780 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
70849793 TCTC-ATTTCA
1 TCTCAATTTCA
70849803 TTCCAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:70849792 original size:18 final size:19
Alignment explanation
Indices: 70849754--70849794 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
70849744 TGGTTCATGT
70849754 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
70849773 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
70849791 TTTC
1 TTTC
70849795 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:70849929 original size:23 final size:23
Alignment explanation
Indices: 70849899--70849956 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
70849889 GTGGATTCCT
*
70849899 CCCAAACACACTAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
70849922 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
70849945 CCCAAACACACC
1 CCCAAACACACC
70849957 CGGAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.41, G:0.03, T:0.09
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:70850478 original size:15 final size:15
Alignment explanation
Indices: 70850458--70850504 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
70850448 TAATATATAT
70850458 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
70850473 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
70850488 TTCAATCAATATAAA
1 TTCAATCAATATAAA
70850503 TT
1 TT
70850505 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:70851805 original size:13 final size:13
Alignment explanation
Indices: 70851787--70851818 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
70851777 TTATATTTCA
70851787 TTTATTTCTTTAT
1 TTTATTTCTTTAT
70851800 TTTATTTCTTTAT
1 TTTATTTCTTTAT
70851813 TTTATT
1 TTTATT
70851819 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:70854966 original size:62 final size:62
Alignment explanation
Indices: 70854835--70854954 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
70854825 TATATTTTGG
* * ** * * * *
70854835 TGATGCACTATGTGTCAGTATGATATGATAGTGCTAAGTGCAGATTACTTCTGTCTTTTCAA
1 TGATGCACTATGTGCCAATATGATATGATAGCACTAAGCGAAGATTACTTCAGACTTTTCAA
* *
70854897 TAATGCACTATGTGCCAATATGATTTGATAGCACTAAGCGAAGATTACTTCAGACTTT
1 TGATGCACTATGTGCCAATATGATATGATAGCACTAAGCGAAGATTACTTCAGACTTT
70854955 CTGATGATGC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (62 bp):
TGATGCACTATGTGCCAATATGATATGATAGCACTAAGCGAAGATTACTTCAGACTTTTCAA
Found at i:70859151 original size:30 final size:30
Alignment explanation
Indices: 70859117--70859190 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
70859107 GTTAACCGTC
* *
70859117 AATTCTATACGTGGAAATGGTCAAAATAAG
1 AATTCTATACATGGAAATAGTCAAAATAAG
* *
70859147 AATTCTATATATGGAAATAGTCACAATAAG
1 AATTCTATACATGGAAATAGTCAAAATAAG
* *
70859177 AATTTTATATATGG
1 AATTCTATACATGG
70859191 GAACTCGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (30 bp):
AATTCTATACATGGAAATAGTCAAAATAAG
Found at i:70866324 original size:181 final size:181
Alignment explanation
Indices: 70865667--70866409 Score: 993
Period size: 180 Copynumber: 4.1 Consensus size: 181
70865657 CTTCACTGCA
* *
70865667 AACTTAAGGG-GATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACT
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* * * * * *
70865731 CATTCTTCAACCTGCTC-TCTTGCTACCTCAGAGTGATGAGG-TTCGTGGTAAAATTTACTCCA-
66 CATTCTTCAACCTGCTCTTCTTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCAT
* * ** * * * *
70865793 TGCCAATACATGGAAATAAGATTTATTATCTGCGAAAATTTGTTTCGCTAC
131 TGCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTAC
* * *
70865844 AACTTTAGGGAAATAAAATCTTCAATTCTTAGTCTGCTTCCTTGCTACCTC-GAGAAGATAAGAC
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAG-GAAGATAAGAC
* * * *
70865908 TCATTCTTCAACCTGCTC-TCCTGCTACTTCAGAGAGATAAGGCTTAGTAGTAAAATCTGCTCAA
65 TCATTCTTCAACCTGCTCTTCTTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCA
* * * * *
70865972 TTGCTGAA-ACATGAAGATAAAATTCACCATTTGCGAAGATCTGCTCCGCTGC
130 TTGC-CAATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTAC
* *
70866024 AACTTCAGGGAGATAAAATCTTCAATTCTTAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACT
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* *
70866089 CATTCTTCAACCCGCT-TTCTTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTGCTCCAT
66 CATTCTTCAACCTGCTCTTCTTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCAT
* * * *
70866153 TGCCGATACATGGAGATAAGATTCACCATTTGTGAATATCTGCTCCGCTAC
131 TGCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTAC
* * *
70866204 AACTTTAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTTGCTACCTTAGGAAGATAAGAC
1 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGAC
*
70866269 TCATTCTTCAACCTGCTCTTC-TGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATTTACTCCA
65 TCATTCTTCAACCTGCTCTTCTTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCA
* * * *
70866333 TTGCCAATACATGGGGATAAGATTCACCATCTGCAAAGATCTACTCC-CTGC
130 TTGCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTAC
70866384 AACTTCAGGGAGATAAAATCTTCAAT
1 AACTTCAGGGAGATAAAATCTTCAAT
70866410 CTTTACCAAT
Statistics
Matches: 499, Mismatches: 57, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
177 9 0.02
178 87 0.17
179 17 0.03
180 261 0.52
181 122 0.24
182 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (181 bp):
AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
CATTCTTCAACCTGCTCTTCTTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATCTACTCCAT
TGCCAATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTAC
Found at i:70866374 original size:361 final size:357
Alignment explanation
Indices: 70865650--70866409 Score: 1058
Period size: 361 Copynumber: 2.1 Consensus size: 357
70865640 GTATTTGCGG
* * *
70865650 AGATCTGCTTCACTGCAAACTTAAGGG-GATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTAC
1 AGATCTGC-TCCCTGC-AACTTCAGGGAGATAAAATCTTCAATTCTCAGTATGCTTCCTTGCTAC
* * * *
70865714 CTCAAGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGTGATGAGGTTCGTGG
64 CTCAAGAAGATAAGACTCATTCTTCAACCCGCTCTCTTGCTACCTCAGAGAGATAAGGTTCGTAG
* * ** * * *
70865779 TAAAATTTACTCCATGCCAATACATGGAAATAAGATTTATTATCTGCGAAAATTTGTTTCGCTAC
129 TAAAATCTACTCCATGCCAATACATGGAAATAAGATTCACCATCTGCGAAAATCTGCTCCGCTAC
* * *
70865844 AACTTTAGGGAAATAAAATCTTCAATTCTTAGTCTGCTTCCTTGCTACCTCGAGAAGATAAGACT
194 AACTTTAGGGAAATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTAGAGAAGATAAGACT
*
70865909 CATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTAGTAGTAAAATCTGCTCAATT
259 CATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTAGTAGTAAAATCTACTCAATT
* * *
70865974 GCTGAAACATGAAGATAAAATTCACCATTTGCGA
324 GCTCAAACATGAAGATAAAATTCACCATCTGCAA
*
70866008 AGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCTTAGTATGCTTCCTTGCTACC
1 AGATCTGCTCC-CTGCAACTTCAGGGAGATAAAATCTTCAATTCTCAGTATGCTTCCTTGCTACC
* * * *
70866073 TCAGGAAGATAAGACTCATTCTTCAACCCGCTTTCTTGCTACTTCAGAGAGATAAGGCTTGGTAG
65 TCAAGAAGATAAGACTCATTCTTCAACCCGCTCTCTTGCTACCTCAGAGAGATAAGG-TTCGTAG
* * * * * *
70866138 TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTGTGAATATCTGCTCCGCTA
129 TAAAATCTACTCCA-TGCCAATACATGGAAATAAGATTCACCATCTGCGAAAATCTGCTCCGCTA
*
70866203 CAACTTTAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTTGCTACCTTAG-GAAGATAAG
193 CAACTTTAGGGAAATAAAATCTTCAATTCTCAGTCTACTTCC-TTGCTACC-TAGAGAAGATAAG
* * * *
70866267 ACTCATTCTTCAACCTGCTCTTCTGCTACTTCAGAGAGATAAGGCTTGGTAGTAAAATTTACTCC
256 ACTCATTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTAGTAGTAAAATCTACTCA
** *
70866332 ATTGC-CAATACATGGGGATAAGATTCACCATCTGCAA
321 ATTGCTCAA-ACATGAAGATAAAATTCACCATCTGCAA
*
70866369 AGATCTACTCCCTGCAACTTCAGGGAGATAAAATCTTCAAT
1 AGATCTGCTCCCTGCAACTTCAGGGAGATAAAATCTTCAAT
70866410 CTTTACCAAT
Statistics
Matches: 354, Mismatches: 41, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
357 11 0.03
358 99 0.28
359 17 0.05
360 110 0.31
361 115 0.32
362 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (357 bp):
AGATCTGCTCCCTGCAACTTCAGGGAGATAAAATCTTCAATTCTCAGTATGCTTCCTTGCTACCT
CAAGAAGATAAGACTCATTCTTCAACCCGCTCTCTTGCTACCTCAGAGAGATAAGGTTCGTAGTA
AAATCTACTCCATGCCAATACATGGAAATAAGATTCACCATCTGCGAAAATCTGCTCCGCTACAA
CTTTAGGGAAATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTAGAGAAGATAAGACTCA
TTCTTCAACCTGCTCTCCTGCTACTTCAGAGAGATAAGGCTTAGTAGTAAAATCTACTCAATTGC
TCAAACATGAAGATAAAATTCACCATCTGCAA
Found at i:70866575 original size:64 final size:64
Alignment explanation
Indices: 70866474--70866599 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
70866464 TTATATGCAC
* *
70866474 ATGCTTATGCCAAATAATTAGGATCCTATGATCGAAATGAATCAAGTGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATCCTATGATCGAAATGAATCAAATACTCCTAACTAAATGTG
* * *
70866538 ATGCTTATGTCAAATAATTA-GAGTGCTATGATCGAAATTAATCAAATACTCCTAACTAAATG
1 ATGCTTATGCCAAATAATTAGGA-TCCTATGATCGAAATGAATCAAATACTCCTAACTAAATG
70866600 ATATATGTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 2 0.04
64 54 0.96
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATCCTATGATCGAAATGAATCAAATACTCCTAACTAAATGTG
Found at i:70867650 original size:54 final size:54
Alignment explanation
Indices: 70867529--70867686 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 54
70867519 TTTCTCTTTT
* ** *
70867529 TCTTTATTTTTTAATATTGGGTCTTAAAGCACCCTTTGCGGGTTTTCACTTTGGCC
1 TCTTT-TTTTTTAAT-TTGGGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTAGCC
*
70867585 T-TTTTCATTTTT-ATTTGGGTCTCAAAGTGCCCTTTACGGGTTTTCACTTTAGCC
1 TCTTTT--TTTTTAATTTGGGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTAGCC
* *
70867639 TCCTTTTTTTTTGAA----AGTCTCAAAATGCCCTTTGCGGGTTTTCACTTT
1 T-CTTTTTTTTT-AATTTGGGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTT
70867687 GACTTCCCTT
Statistics
Matches: 88, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
52 30 0.34
54 42 0.48
55 5 0.06
56 11 0.12
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.47
Consensus pattern (54 bp):
TCTTTTTTTTTAATTTGGGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTAGCC
Found at i:70879889 original size:11 final size:12
Alignment explanation
Indices: 70879861--70879889 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
70879851 TAATGTCCCC
70879861 AAAAAACTACAA
1 AAAAAACTACAA
70879873 AAAAAACTA-AA
1 AAAAAACTACAA
70879884 AAAAAA
1 AAAAAA
70879890 TATTTATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAACTACAA
Found at i:70882558 original size:26 final size:27
Alignment explanation
Indices: 70882529--70882595 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
70882519 CCGTTATATA
70882529 GCTCTTCGTGAGCTTT-CTGATTAAAG
1 GCTCTTCGTGAGCTTTCCTGATTAAAG
* *
70882555 GCTCTTTGTGAG-TTTCCTGATTAATG
1 GCTCTTCGTGAGCTTTCCTGATTAAAG
70882581 GCTCTTCG-GAGCTTT
1 GCTCTTCGTGAGCTTT
70882596 TCGATATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 6 0.17
26 30 0.83
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (27 bp):
GCTCTTCGTGAGCTTTCCTGATTAAAG
Found at i:70882691 original size:24 final size:23
Alignment explanation
Indices: 70882664--70882711 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
70882654 TATCAGTTAT
70882664 TGGCTCGCATGAGCTTCCCGATTA
1 TGGCTCGCATGAGCTTCCC-ATTA
**
70882688 TGGCTCTTATGAGCTTCCCATTA
1 TGGCTCGCATGAGCTTCCCATTA
70882711 T
1 T
70882712 ATAGTCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGCTCGCATGAGCTTCCCATTA
Found at i:70905073 original size:24 final size:23
Alignment explanation
Indices: 70905046--70905093 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
70905036 TATCAGTTAT
70905046 TGGCTCGCATGAGCTTCCCGATTA
1 TGGCTCGCATGAGCTTCCC-ATTA
**
70905070 TGGCTCTTATGAGCTTCCCATTA
1 TGGCTCGCATGAGCTTCCCATTA
70905093 T
1 T
70905094 ATAGTCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGCTCGCATGAGCTTCCCATTA
Found at i:70913409 original size:10 final size:10
Alignment explanation
Indices: 70913394--70913418 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
70913384 AAATATCTAG
70913394 ATTTCTCTTC
1 ATTTCTCTTC
70913404 ATTTCTCTTC
1 ATTTCTCTTC
70913414 ATTTC
1 ATTTC
70913419 CAGCAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTCTCTTC
Found at i:70923484 original size:39 final size:39
Alignment explanation
Indices: 70923408--70923571 Score: 267
Period size: 39 Copynumber: 4.2 Consensus size: 39
70923398 TTCAGTGATG
*
70923408 TATATCCGAACTTAGGGTCCGC-GGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
70923446 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
70923485 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
70923524 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
70923563 TATGTCCGG
1 TATATCCGG
70923572 GCTAAAGTCC
Statistics
Matches: 118, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
38 21 0.18
39 97 0.82
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:70923585 original size:39 final size:39
Alignment explanation
Indices: 70923408--70923606 Score: 240
Period size: 39 Copynumber: 5.1 Consensus size: 39
70923398 TTCAGTGATG
* * *
70923408 TATATCCGAACTTAGGGTCCGC-GGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
70923446 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
70923485 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
70923524 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
70923563 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
70923602 TATAT
1 TATAT
70923607 TGGGTTTAAA
Statistics
Matches: 145, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
38 26 0.18
39 119 0.82
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:70924334 original size:44 final size:44
Alignment explanation
Indices: 70924271--70924358 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
70924261 TCAGTATGTA
70924271 TTTCAGCTCGATCTCTGTTTATGTTTATTGACACTGTGAATGAG
1 TTTCAGCTCGATCTCTGTTTATGTTTATTGACACTGTGAATGAG
70924315 TTTCAGCTCGATCTCTGTTTATGTTTATTGACACTGTGAATGAG
1 TTTCAGCTCGATCTCTGTTTATGTTTATTGACACTGTGAATGAG
70924359 ATAATTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (44 bp):
TTTCAGCTCGATCTCTGTTTATGTTTATTGACACTGTGAATGAG
Found at i:70930173 original size:39 final size:39
Alignment explanation
Indices: 70930115--70930349 Score: 280
Period size: 39 Copynumber: 6.0 Consensus size: 39
70930105 TTCAGTGATG
*
70930115 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
70930154 TATATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
70930193 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
70930232 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
70930271 TATGTCCGGGC-TAAAGTCTCGCAGGCT-TCGAGCTGGTAT
1 TATATCCGGACTTAAGGTC-CGCAGGCTAT-GTGCTGGAAT
** **
70930310 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
70930349 T
1 T
70930350 GGTTTCAAGT
Statistics
Matches: 172, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 17 0.10
39 154 0.90
40 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:70933976 original size:18 final size:19
Alignment explanation
Indices: 70933930--70933978 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
70933920 AGAAGAAAGA
70933930 AAAAGAAAAATTTAACCTG
1 AAAAGAAAAATTTAACCTG
70933949 AAAAGAAAAATTTAACCTG
1 AAAAGAAAAATTTAACCTG
*
70933968 AAAACAAAAAT
1 AAAAGAAAAAT
70933979 GAAAATGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAAGAAAAATTTAACCTG
Found at i:70935572 original size:29 final size:28
Alignment explanation
Indices: 70935530--70935628 Score: 78
Period size: 29 Copynumber: 3.5 Consensus size: 28
70935520 AGACCGGCCG
*
70935530 ATCAATTTAC-TTTACAAATATGATAAT
1 ATCATTTTACTTTTACAAATATGATAAT
* * *
70935557 ATCATTTTGCCTTTTAAAAAT-TGAATGAT
1 ATCATTTT-ACTTTTACAAATATG-ATAAT
*
70935586 CAATCAATTTACTTTT-CAAATATGATAAT
1 --ATCATTTTACTTTTACAAATATGATAAT
*
70935615 ATAATTTTATCTTT
1 ATCATTTTA-CTTT
70935629 AAAAAAATTG
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
27 14 0.25
28 7 0.13
29 20 0.36
30 7 0.13
31 7 0.13
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.45
Consensus pattern (28 bp):
ATCATTTTACTTTTACAAATATGATAAT
Found at i:70945004 original size:23 final size:21
Alignment explanation
Indices: 70944982--70945039 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
70944972 ATAATGTATA
*
70944982 ATAAATTTGAAATATATTTTAT
1 ATAAATTTGAAA-ATATATTAT
* *
70945004 ATAAAATTTTAAAATATATAATT
1 AT-AAATTTGAAAATATATTA-T
70945027 ATAAATTTGAAAA
1 ATAAATTTGAAAA
70945040 AGTCAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
ATAAATTTGAAAATATATTAT
Found at i:70945334 original size:18 final size:20
Alignment explanation
Indices: 70945313--70945351 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
70945303 GTAAATTTTA
70945313 TTTTTATA-A-TTTATATTT
1 TTTTTATAGATTTTATATTT
*
70945331 TTTTTCTAGATTTTATATTT
1 TTTTTATAGATTTTATATTT
70945351 T
1 T
70945352 CTGATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATAGATTTTATATTT
Found at i:70958325 original size:55 final size:55
Alignment explanation
Indices: 70958242--70958352 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
70958232 ATTGTAGGTA
*
70958242 AAAAATACATAGTTCTTCAGCATTTTCATCAAGAAATGCTATACAATGAATAAAT
1 AAAAATACATAGTTCTGCAGCATTTTCATCAAGAAATGCTATACAATGAATAAAT
* * *
70958297 AAAAATACATGGTTCTGCAGTATTTTCATCAAGGAATGCTATACAATGAATAAAT
1 AAAAATACATAGTTCTGCAGCATTTTCATCAAGAAATGCTATACAATGAATAAAT
70958352 A
1 A
70958353 TCAGTCATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (55 bp):
AAAAATACATAGTTCTGCAGCATTTTCATCAAGAAATGCTATACAATGAATAAAT
Found at i:70960551 original size:20 final size:20
Alignment explanation
Indices: 70960518--70960562 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
70960508 TGCAAGCAGT
*
70960518 AAAATTTCCCCCAAAAATCCA
1 AAAATTTCCACC-AAAATCCA
*
70960539 AAAATTT-CACCAAAATTCA
1 AAAATTTCCACCAAAATCCA
70960558 AAAAT
1 AAAAT
70960563 ATAAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 3 0.14
21 7 0.32
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATTTCCACCAAAATCCA
Found at i:70960917 original size:30 final size:31
Alignment explanation
Indices: 70960872--70960937 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
70960862 AAATCATCAT
*
70960872 TAAACTATTTAAAA-TTTTCATTTAAATTAC
1 TAAACTATTTAAAATTTTTCATTTAAATAAC
* * *
70960902 TAAATTATTTGAAATTTTTTATTTAAATAAC
1 TAAACTATTTAAAATTTTTCATTTAAATAAC
70960933 TAAAC
1 TAAAC
70960938 AATTATTAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (31 bp):
TAAACTATTTAAAATTTTTCATTTAAATAAC
Found at i:70994520 original size:51 final size:51
Alignment explanation
Indices: 70994460--70994559 Score: 182
Period size: 51 Copynumber: 2.0 Consensus size: 51
70994450 GCCTGAACGA
*
70994460 TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGTAAGTATAT
1 TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGCAAGTATAT
*
70994511 TGGCTTGATTAAGAACATCCGTTAAATGTTTGATTCAATGGGCAAGTAT
1 TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGCAAGTAT
70994560 TTGAGTTGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (51 bp):
TGGCTTGATTAAGAACATCCGTTAAACGTTTGATTCAATGGGCAAGTATAT
Found at i:70995275 original size:58 final size:59
Alignment explanation
Indices: 70995207--70995345 Score: 146
Period size: 58 Copynumber: 2.4 Consensus size: 59
70995197 TAGTAGGACT
*
70995207 TAAACTTTTTTTTGTCCAAGTTGATTC-TTAAACTTGACAA-TAGTTC-CTACATT-AGAGTC
1 TAAATTTTTTTTTGTCCAAGTT-ATTCGTTAAACTTGACAATTA-TTCTC-ACATTGAGA-TC
* * ** *
70995266 TGAATTTTTTTTTGT-CAAATTATTCGTTGGACTTGACAATTATTCTCACATTGAGATT
1 TAAATTTTTTTTTGTCCAAGTTATTCGTTAAACTTGACAATTATTCTCACATTGAGATC
70995324 TAAA-TTTTTTTTGTCCAAGTTA
1 TAAATTTTTTTTTGTCCAAGTTA
70995346 GTCATTGATA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
57 14 0.21
58 34 0.51
59 19 0.28
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (59 bp):
TAAATTTTTTTTTGTCCAAGTTATTCGTTAAACTTGACAATTATTCTCACATTGAGATC
Found at i:71000976 original size:17 final size:17
Alignment explanation
Indices: 71000954--71000987 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71000944 ATCCACTAAT
*
71000954 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
71000971 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
71000988 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:71005615 original size:17 final size:17
Alignment explanation
Indices: 71005593--71005626 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71005583 ATCCACTAAT
*
71005593 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
71005610 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
71005627 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:71014347 original size:3 final size:3
Alignment explanation
Indices: 71014339--71014614 Score: 162
Period size: 3 Copynumber: 92.7 Consensus size: 3
71014329 CAATTTAACC
* *
71014339 TAT TAT TAT TAAT TAT TAT T-T TAC TAT TAT TAT CTAA TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* *** * *
71014384 CAT TAT CGC TAT TAT TAT T-T TAT TAT TGT AACT TAAT GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T-AT -TAT TAT TAT
* *
71014431 TAT TACT T-T TAT T-T TCAT TAT CAT TAT TAT TAT TAT TGT TAT TAT
1 TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
71014476 TAT TAT TAT TA- TAT TAC TAT CAT TAT CAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * *
71014523 GGT TAG CAT TAT T-T TCAT TAC TAT TA- TAT T-T TAT TGAT TA- TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * * * *
71014566 TAT TA- TATT TGT TA- TAT TAT CAT TAT TAT TCT TAC TAT TGT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
71014610 TAT TA
1 TAT TA
71014615 CTACTGTCGA
Statistics
Matches: 204, Mismatches: 47, Indels: 44
0.69 0.16 0.15
Matches are distributed among these distances:
2 24 0.12
3 159 0.78
4 19 0.09
5 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:71014443 original size:44 final size:44
Alignment explanation
Indices: 71014339--71014522 Score: 125
Period size: 44 Copynumber: 4.3 Consensus size: 44
71014329 CAATTTAACC
*
71014339 TATTATTATTA--ATTATTATTTTACTATTATTATCTAATATAT
1 TATTATTATTACTATTATTATTTTACTATTATAATCTAATATAT
* ** * * *
71014381 TATCATTATCGCTATTATTATTTTATTATTGTAA-CTTAATGTAT
1 TATTATTATTACTATTATTATTTTACTATTATAATC-TAATATAT
* *
71014425 TATTATTATTACTTTTATT-TTCATTA-TCATTATTAT-T-AT-TAT
1 TATTATTATTACTATTATTATT--TTACT-ATTATAATCTAATATAT
* * * * * *
71014467 TGTTATTATTATTATTATTATATTACTATCATTATC-ATTATTAT
1 TATTATTATTACTATTATTATTTTACTATTATAATCTAATA-TAT
71014511 TATTATTATTAC
1 TATTATTATTAC
71014523 GGTTAGCATT
Statistics
Matches: 108, Mismatches: 21, Indels: 24
0.71 0.14 0.16
Matches are distributed among these distances:
41 10 0.09
42 29 0.27
43 6 0.06
44 55 0.51
45 8 0.07
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (44 bp):
TATTATTATTACTATTATTATTTTACTATTATAATCTAATATAT
Found at i:71016084 original size:18 final size:17
Alignment explanation
Indices: 71016048--71016180 Score: 178
Period size: 18 Copynumber: 7.5 Consensus size: 17
71016038 AATCATATCT
71016048 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
71016067 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
71016085 TCTAAGATT-ATATCATA
1 TCTAAGATTGA-ATCATA
71016102 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
71016120 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
71016137 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
71016155 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
71016172 TCTAAGATT
1 TCTAAGATT
71016181 ACATATCATT
Statistics
Matches: 104, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
16 1 0.01
17 45 0.43
18 46 0.44
19 12 0.12
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:71016101 original size:35 final size:35
Alignment explanation
Indices: 71016048--71016201 Score: 222
Period size: 35 Copynumber: 4.4 Consensus size: 35
71016038 AATCATATCT
71016048 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGA-T-TATATCATATCTAAGATTGCAATCATA
71016085 TCTAAGATTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTATATCATATCTAAGATTGCAATCATA
*
71016120 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTATATCATATCTAAGATTGCAATCATA
* * *
71016155 TTTAAGATTGTATCATATCTAAGATTACATATCAT-
1 TCTAAGATTATATCATATCTAAGATTGCA-ATCATA
*
71016190 T-GAAGATTATAT
1 TCTAAGATTATAT
71016202 TTCCATATGA
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
34 9 0.08
35 89 0.80
36 6 0.05
37 7 0.06
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTATATCATATCTAAGATTGCAATCATA
Found at i:71016794 original size:83 final size:83
Alignment explanation
Indices: 71016574--71016926 Score: 634
Period size: 83 Copynumber: 4.2 Consensus size: 83
71016564 TTCGATTTGT
* * *
71016574 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
71016639 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
71016657 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
71016722 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
71016741 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
71016806 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
71016824 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
71016889 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
71016907 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
71016927 GATCTGCTTC
Statistics
Matches: 262, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
83 183 0.70
84 79 0.30
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:71017446 original size:119 final size:119
Alignment explanation
Indices: 71016850--71017443 Score: 1035
Period size: 119 Copynumber: 5.0 Consensus size: 119
71016840 CTTGAGTCTG
* * * * * *
71016850 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
71016915 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
71016969 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
71017034 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
71017088 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
71017153 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
71017207 TTTGAGAACGTCTGAGAATCAAATTTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
71017272 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
71017326 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
71017391 CAAATCATCTTGGATCTGCTTCAGTATAAACATTTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
71017444 CTTCGATCTG
Statistics
Matches: 453, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 453 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:71017483 original size:44 final size:44
Alignment explanation
Indices: 71017435--71017614 Score: 177
Period size: 44 Copynumber: 4.1 Consensus size: 44
71017425 TGAAGGTTAG
71017435 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
71017479 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
71017521 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
* * * * *
71017567 ATCTACTATATTTGATCTGTTCCCTGTAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
71017611 ATCT
1 ATCT
71017615 TGTTTCTTTG
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 81 0.74
45 11 0.10
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:71018519 original size:14 final size:13
Alignment explanation
Indices: 71018495--71018542 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
71018485 CTCTCCATCT
71018495 TTTTCTTTTTTCTC
1 TTTT-TTTTTTCTC
71018509 TTTATTTTTTTCTC
1 TTT-TTTTTTTCTC
*
71018523 TTTTTCTTTTCT-
1 TTTTTTTTTTCTC
71018535 TTTTTTTT
1 TTTTTTTT
71018543 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 7 0.23
13 8 0.26
14 15 0.48
15 1 0.03
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:71018541 original size:22 final size:21
Alignment explanation
Indices: 71018494--71018540 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
71018484 CCTCTCCATC
71018494 TTTTTCTTTTTTCTCTTTATT
1 TTTTTCTTTTTTCTCTTTATT
*
71018515 TTTTTCTCTTTTTCT-TTTCTT
1 TTTTTCT-TTTTTCTCTTTATT
71018536 TTTTT
1 TTTTT
71018541 TTGAAATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTCTTTTTTCTCTTTATT
Found at i:71024897 original size:18 final size:18
Alignment explanation
Indices: 71024861--71024976 Score: 164
Period size: 18 Copynumber: 6.5 Consensus size: 18
71024851 AATCATATCT
*
71024861 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
71024880 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
71024898 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
71024915 TCTAATATTGCAATCATA
1 TCTAAGATTGCAATCATA
71024933 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
71024951 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
71024968 TCTAAGATT
1 TCTAAGATT
71024977 ACATATCATT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
17 29 0.33
18 48 0.55
19 11 0.12
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:71024919 original size:35 final size:36
Alignment explanation
Indices: 71024861--71024985 Score: 166
Period size: 35 Copynumber: 3.5 Consensus size: 36
71024851 AATCATATCT
71024861 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
*
71024898 TCTAAGATTG-TATCATATCTAATATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
* *
71024933 TCTAAGATTGCA-ATCATATTTAAGATTG-TATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
*
71024968 TCTAAGATTACATATCAT
1 TCTAAGATT-GATATCAT
71024986 TGAAGATTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
35 50 0.63
36 19 0.24
37 10 0.13
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:71025203 original size:23 final size:23
Alignment explanation
Indices: 71025174--71025223 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
71025164 CAACTACTAC
*
71025174 TATTATTCTTATTA-ACATATTAT
1 TATTATTCTTACTATAC-TATTAT
*
71025197 TATTATTTTTACTATACTATTAT
1 TATTATTCTTACTATACTATTAT
71025220 TATT
1 TATT
71025224 CCCCTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTCTTACTATACTATTAT
Found at i:71025217 original size:20 final size:21
Alignment explanation
Indices: 71025165--71025223 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
71025155 GAGTGTCTAC
*
71025165 AACTACTACTATTATTCTTATT
1 AACTA-TACTATTATTATTATT
*
71025187 AAC-ATATTATTATTATT-TT
1 AACTATACTATTATTATTATT
*
71025206 TACTATACTATTATTATT
1 AACTATACTATTATTATT
71025224 CCCCTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.12
20 24 0.75
21 1 0.03
22 3 0.09
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (21 bp):
AACTATACTATTATTATTATT
Found at i:71025283 original size:3 final size:3
Alignment explanation
Indices: 71025270--71025448 Score: 98
Period size: 3 Copynumber: 59.7 Consensus size: 3
71025260 TATATTAATG
* * *
71025270 TAT TGT TAT TAT TAT TAT TAT TAC TAT TAC TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * *
71025317 T-T TGT GTAT ATAT TAG TAT T-T ATAT TAT CGT TAT TAT TAC TAT TGT
1 TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
71025363 TAA TAT TTT TAT TAC TAT TAT TTT TAT TCCT T-T TATT TAT TAT CAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
** * *
71025409 TA- TAT TAT TAT TGC TAT TGT TAC TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
71025449 AAAATTTTTA
Statistics
Matches: 130, Mismatches: 38, Indels: 16
0.71 0.21 0.09
Matches are distributed among these distances:
2 9 0.07
3 110 0.85
4 11 0.08
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:71025553 original size:17 final size:17
Alignment explanation
Indices: 71025520--71025553 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71025510 TTTTATTATC
*
71025520 ATTATTACTATCGTATT
1 ATTATTACTATCATATT
*
71025537 ATTATTACTATTATATT
1 ATTATTACTATCATATT
71025554 TTCATCTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTATTACTATCATATT
Found at i:71029541 original size:26 final size:26
Alignment explanation
Indices: 71029505--71029588 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71029495 CATGAAATTC
71029505 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
71029531 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
71029557 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
71029583 TTATCA
1 TTATCA
71029589 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:71035991 original size:4 final size:4
Alignment explanation
Indices: 71035984--71036016 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
71035974 TTTATTTATC
71035984 AATT AATT AATT AATT AATT AATT AAATT AATT
1 AATT AATT AATT AATT AATT AATT -AATT AATT
71036017 TCCTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:71036035 original size:17 final size:17
Alignment explanation
Indices: 71036003--71036035 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71035993 ATTAATTAAT
71036003 TAATTAAATTAATTTCC
1 TAATTAAATTAATTTCC
*
71036020 TAATTAAATTATTTTC
1 TAATTAAATTAATTTC
71036036 TCAATCCAAG
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:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTAAATTAATTTCC
Found at i:71038684 original size:19 final size:20
Alignment explanation
Indices: 71038662--71038702 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
71038652 AAATTATCCA
71038662 TTTTAAT-A-AAAAATATATT
1 TTTTAATGAGAAAAATAT-TT
*
71038681 TTTTGATGAGAAAAATATTT
1 TTTTAATGAGAAAAATATTT
71038701 TT
1 TT
71038703 AATTTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTTAATGAGAAAAATATTT
Found at i:71039866 original size:29 final size:29
Alignment explanation
Indices: 71039820--71039880 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
71039810 TGTAATATTG
* *
71039820 TTAGTCCAAGAAAGTAGTCGATAAAACAT
1 TTAGCCCAAGAAAATAGTCGATAAAACAT
71039849 TTAGCCCAAGAAAATAGTCGATAAAACAT
1 TTAGCCCAAGAAAATAGTCGATAAAACAT
71039878 TTA
1 TTA
71039881 CTAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (29 bp):
TTAGCCCAAGAAAATAGTCGATAAAACAT
Found at i:71042045 original size:23 final size:23
Alignment explanation
Indices: 71041964--71042060 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 23
71041954 TTTTAAATTA
** *
71041964 TTTTAATATTTAAATAATATATTT
1 TTTTAATATTTTTATAATATA-AT
* *
71041988 TTTTATTATGATTTTATAAAATAA-
1 TTTTAATAT--TTTTATAATATAAT
* *
71042012 TATAAATTATTTTTATAATATAAT
1 TTTTAA-TATTTTTATAATATAAT
71042036 TTTTAATA--TTTATAATATAAT
1 TTTTAATATTTTTATAATATAAT
71042057 TTTT
1 TTTT
71042061 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
21 17 0.29
23 14 0.24
24 15 0.26
25 3 0.05
26 9 0.16
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TTTTAATATTTTTATAATATAAT
Found at i:71043461 original size:20 final size:20
Alignment explanation
Indices: 71043436--71043485 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
71043426 TGGCTTAAAA
71043436 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
71043456 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
71043473 GTGGTAGTGGATT
1 TTGGTAGTGGATT
71043486 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:71048100 original size:20 final size:20
Alignment explanation
Indices: 71048075--71048124 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
71048065 TGGCTTAAAA
71048075 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
71048095 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
71048112 GTGGTAGTGGATT
1 TTGGTAGTGGATT
71048125 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:71051281 original size:13 final size:13
Alignment explanation
Indices: 71051263--71051291 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71051253 CAAAATTTTT
71051263 TAAATAATAATGA
1 TAAATAATAATGA
71051276 TAAATAATAATGA
1 TAAATAATAATGA
71051289 TAA
1 TAA
71051292 TTATCTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (13 bp):
TAAATAATAATGA
Found at i:71057024 original size:23 final size:24
Alignment explanation
Indices: 71056994--71057050 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
71056984 TTACTCTCTT
*
71056994 TTTTTTTTGCTATTTTATTGTTA-
1 TTTTTTTTGCTATTATATTGTTAC
* *
71057017 TTTTTTTTCCTATTATGTTGTTAC
1 TTTTTTTTGCTATTATATTGTTAC
71057041 TATTTTTTTG
1 T-TTTTTTTG
71057051 AAGTAATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.71
24 1 0.04
25 7 0.25
ACGTcount: A:0.12, C:0.07, G:0.09, T:0.72
Consensus pattern (24 bp):
TTTTTTTTGCTATTATATTGTTAC
Found at i:71057267 original size:2 final size:2
Alignment explanation
Indices: 71057230--71057254 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71057220 TTTAGTGTAT
71057230 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
71057255 TAAAAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71057497 original size:32 final size:30
Alignment explanation
Indices: 71057453--71057522 Score: 77
Period size: 32 Copynumber: 2.3 Consensus size: 30
71057443 TATTATAATC
*
71057453 TATAATATAATAATAATATTAATAATTATA
1 TATAATATAATAATAATAGTAATAATTATA
** *
71057483 TATACATATTAATAATTTTAGTAATAGTTATA
1 TATA-ATA-TAATAATAATAGTAATAATTATA
*
71057515 TATTATAT
1 TATAATAT
71057523 TATTATATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
30 5 0.15
31 6 0.18
32 22 0.67
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (30 bp):
TATAATATAATAATAATAGTAATAATTATA
Found at i:71062130 original size:24 final size:21
Alignment explanation
Indices: 71062102--71062190 Score: 99
Period size: 21 Copynumber: 4.1 Consensus size: 21
71062092 ACAAAAAAGA
*
71062102 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCCAAGTCACTTC---TCTT
*
71062126 TTTGTCCAAGTTACTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
**
71062147 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
*
71062168 TTTGTCCAACTCACTTC-CTT
1 TTTGTCCAAGTCACTTCTCTT
71062188 TTT
1 TTT
71062191 TCTTTGTGAG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
20 6 0.10
21 38 0.64
24 15 0.25
ACGTcount: A:0.12, C:0.25, G:0.10, T:0.53
Consensus pattern (21 bp):
TTTGTCCAAGTCACTTCTCTT
Found at i:71062191 original size:21 final size:21
Alignment explanation
Indices: 71062122--71062190 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
71062112 TCACTTCGTT
71062122 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
71062143 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* *
71062164 TCTTTTTGTCCAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
71062185 -CTTTTT
1 TCTTTTT
71062191 TCTTTGTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 6 0.14
21 38 0.86
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.54
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:71067843 original size:28 final size:28
Alignment explanation
Indices: 71067807--71067871 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
71067797 AAATCAAATG
* *
71067807 ATGAA-TTT-ATCATGTGTAATTTTATTT
1 ATGAATTTTAATCA-GTGTAATTATATAT
*
71067834 ATGAATTTTAATTAGTGTAATTATATAT
1 ATGAATTTTAATCAGTGTAATTATATAT
71067862 ATGAAATTTT
1 ATG-AATTTT
71067872 GATTATAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.16
28 18 0.56
29 9 0.28
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (28 bp):
ATGAATTTTAATCAGTGTAATTATATAT
Found at i:71072156 original size:20 final size:21
Alignment explanation
Indices: 71072110--71072157 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
71072100 TTTATTAAAA
*
71072110 ATAAAAAAATTATAAAATCGT
1 ATAAAAAAATTATAAAATCAT
*
71072131 A-AAAAAAAATATAAAAT-AT
1 ATAAAAAAATTATAAAATCAT
71072150 ACTAAAAA
1 A-TAAAAA
71072158 TTGAATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 15 0.65
21 6 0.26
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
ATAAAAAAATTATAAAATCAT
Found at i:71072232 original size:19 final size:19
Alignment explanation
Indices: 71072211--71072254 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
71072201 CGGAAAATAA
71072211 TTTCTGAAAAATGATTTAAT
1 TTTCT-AAAAATGATTTAAT
* *
71072231 TTTCTAGAAATGATTTACT
1 TTTCTAAAAATGATTTAAT
71072250 TTTCT
1 TTTCT
71072255 GGTGTTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTCTAAAAATGATTTAAT
Found at i:71072359 original size:16 final size:18
Alignment explanation
Indices: 71072331--71072367 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
71072321 GAAAAGCTGT
71072331 TTTAAGAAATTTA-TATA
1 TTTAAGAAATTTATTATA
71072348 TTTAAG-AATTTATTATA
1 TTTAAGAAATTTATTATA
71072365 TTT
1 TTT
71072368 TCATTGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAGAAATTTATTATA
Found at i:71075688 original size:61 final size:57
Alignment explanation
Indices: 71075588--71075709 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 57
71075578 AGAAATATTT
71075588 AAAAAGTTGAAGAACGGAAGAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGG
1 AAAAAGTTGAAGAACGGAAGAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGG
* *
71075645 AAAAAGTTGAAGAACGGAATAAGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGTGATGG
1 AAAAAGTTGAAGAACGG---AAG-AGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGG
71075706 AAAA
1 AAAA
71075710 TGTCTTACGG
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
57 17 0.29
60 3 0.05
61 39 0.66
ACGTcount: A:0.50, C:0.07, G:0.30, T:0.13
Consensus pattern (57 bp):
AAAAAGTTGAAGAACGGAAGAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGG
Found at i:71076674 original size:13 final size:13
Alignment explanation
Indices: 71076656--71076681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71076646 AAGTTTGAAA
71076656 AAAATTATATACG
1 AAAATTATATACG
71076669 AAAATTATATACG
1 AAAATTATATACG
71076682 TAATTTCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAATTATATACG
Found at i:71078976 original size:20 final size:21
Alignment explanation
Indices: 71078939--71078982 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
71078929 AAACATAATA
71078939 ATAGTATTAAAAAGTATATAC
1 ATAGTATTAAAAAGTATATAC
71078960 ATAGTATTAAAAA-TATATAC
1 ATAGTATTAAAAAGTATATAC
71078980 ATA
1 ATA
71078983 ATATATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAGTATTAAAAAGTATATAC
Found at i:71078985 original size:11 final size:11
Alignment explanation
Indices: 71078953--71078993 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
71078943 TATTAAAAAG
*
71078953 TATATACATAG
1 TATATACATAA
*
71078964 TAT-TA-AAAA
1 TATATACATAA
71078973 TATATACATAA
1 TATATACATAA
71078984 TATATACATA
1 TATATACATA
71078994 TTAGAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:71079068 original size:20 final size:20
Alignment explanation
Indices: 71079002--71079096 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 20
71078992 TATTAGAAAA
71079002 ATAATAATATTAAAAACA-AC
1 ATAATAATATTAAAAA-ATAC
*
71079022 TATTAATAATACTACATAAATATAC
1 -A-TAATAATATTA-A-AAA-ATAC
71079047 AT-ATATATATTAAAAAATAC
1 ATAATA-ATATTAAAAAATAC
71079067 ATAATAATATT-AAAAATAC
1 ATAATAATATTAAAAAATAC
*
71079086 GTACATAATAT
1 ATA-ATAATAT
71079097 ATATACATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
19 10 0.16
20 18 0.29
21 7 0.11
22 14 0.22
23 7 0.11
24 5 0.08
25 2 0.03
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (20 bp):
ATAATAATATTAAAAAATAC
Found at i:71079107 original size:62 final size:60
Alignment explanation
Indices: 71078972--71079131 Score: 150
Period size: 62 Copynumber: 2.6 Consensus size: 60
71078962 AGTATTAAAA
* * *
71078972 ATATATACATA-ATATATACATATTAGAAAAATA-ATAATATTAAAAACAACTATTAATAAT
1 ATATATACATATA-ATATATATATTA-AAAAATACATAATAATAAAAACAACTAGTAATAAT
* * *
71079032 ACTACATAAATATACATATATATATTAAAAAATACATAATAATATTAAA-AA-TACGTACATAAT
1 A-TATATACATATA-ATATATATATTAAAAAATACATAATAATA-AAAACAACTA-GTA-ATAAT
71079095 ATATATACATATAATATAGT-TATTAAAAAAATACATA
1 ATATATACATATAATATA-TATATT-AAAAAATACATA
71079132 CAATATATAG
Statistics
Matches: 83, Mismatches: 9, Indels: 14
0.78 0.08 0.13
Matches are distributed among these distances:
60 1 0.01
61 26 0.31
62 47 0.57
63 9 0.11
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (60 bp):
ATATATACATATAATATATATATTAAAAAATACATAATAATAAAAACAACTAGTAATAAT
Found at i:71079155 original size:27 final size:28
Alignment explanation
Indices: 71079092--71079165 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 28
71079082 ATACGTACAT
*
71079092 AATATATATACATATAATATAGTTATTAAA
1 AATATACATACA-AT-ATATAGTTATTAAA
* *
71079122 AAAATACATACAATATATAG-TATTAAG
1 AATATACATACAATATATAGTTATTAAA
71079149 AATATAC--ACAATATATA
1 AATATACATACAATATATA
71079166 AAAATATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 10 0.25
27 12 0.30
28 6 0.15
29 2 0.05
30 10 0.25
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (28 bp):
AATATACATACAATATATAGTTATTAAA
Found at i:71079190 original size:28 final size:31
Alignment explanation
Indices: 71079158--71079220 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
71079148 GAATATACAC
71079158 AATATATAAAAAT-A-TAAT-ATTAAAAAAT
1 AATATATAAAAATAAGTAATGATTAAAAAAT
* * *
71079186 AATATATACATATAAGTATTGATTAAAAAAT
1 AATATATAAAAATAAGTAATGATTAAAAAAT
71079217 AATA
1 AATA
71079221 CTAATAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.38
29 1 0.03
30 3 0.10
31 14 0.48
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (31 bp):
AATATATAAAAATAAGTAATGATTAAAAAAT
Found at i:71079191 original size:26 final size:27
Alignment explanation
Indices: 71079161--71079241 Score: 74
Period size: 31 Copynumber: 2.9 Consensus size: 27
71079151 TATACACAAT
71079161 ATATAAAAATA-TAATATTAAAAAATA
1 ATATAAAAATAGTAATATTAAAAAATA
* *
71079187 ATATATACATATAAGTATTGATTAAAAAATA
1 ATATA-A-AAAT-AGTAAT-ATTAAAAAATA
* *
71079218 ATACTAATAATAGTAATAGTAAAA
1 ATA-TAAAAATAGTAATATTAAAA
71079242 TACTAATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
26 5 0.12
27 1 0.02
28 9 0.21
29 6 0.14
30 5 0.12
31 15 0.35
32 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
ATATAAAAATAGTAATATTAAAAAATA
Found at i:71079412 original size:28 final size:28
Alignment explanation
Indices: 71079359--71079412 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
71079349 CATATATATA
*
71079359 TATTGAAAACATATATACATAGTATTAG
1 TATTGAAAACATATATACATAATATTAG
* *
71079387 TATTTAAATACATATA-ATATAATATT
1 TATTGAAA-ACATATATACATAATATT
71079413 TAAGAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (28 bp):
TATTGAAAACATATATACATAATATTAG
Found at i:71081281 original size:21 final size:21
Alignment explanation
Indices: 71081255--71081308 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
71081245 AAGATAAGAT
**
71081255 CTGCAACTTCAATGTGCTCCA
1 CTGCAACTTCAATCAGCTCCA
* * *
71081276 CTGCAACCTCGATCAGCTCTA
1 CTGCAACTTCAATCAGCTCCA
71081297 CTGCAACTTCAA
1 CTGCAACTTCAA
71081309 GGAGGCAAGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (21 bp):
CTGCAACTTCAATCAGCTCCA
Found at i:71081569 original size:87 final size:87
Alignment explanation
Indices: 71081363--71081675 Score: 251
Period size: 88 Copynumber: 3.6 Consensus size: 87
71081353 TACTCGGCAT
* * * * *
71081363 GTGATCCTGA-GCTCAACTCACTTCTCGCAATATAAGTTGACTCTTTAAAAATAGATATTAAAAA
1 GTGATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTAAAAACAGAAATTAAAAA
*
71081427 CAGAAATTGAAAATAGCTCAGCA
65 CAGAAATTGAAAATACCTCAGCA
* * * * * *
71081450 TGTGAGCC-AAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGACAAACGGAAATTGAAA
1 -GTGATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTT-AAAAACAGAAATT-AAA
* * *
71081514 AATAGAACTTGAAATTACCTCAGC-
63 AACAGAAATTGAAAATACCTCAGCA
* *** * *
71081538 GTG-TCCTGAGGCTCAACTCACATCTCGCAATATGAGCTGATTTTTTGGAACATAAATTGAATAA
1 GTGATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTAAAAACAGAAATT-AAAAA
**
71081602 CAGAAATT-AAAATTACCTCAGTGT
65 CAGAAATTGAAAA-TACCTCAG-CA
* * * * * * *
71081626 GTGAGCC-GAGGTTCAACTCACCTCTTGTAATACGAGTTGACTTTTAAAAA
1 GTGATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTAAAAA
71081676 AAAAAGAGGA
Statistics
Matches: 177, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
85 3 0.02
86 29 0.16
87 42 0.24
88 78 0.44
89 25 0.14
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
GTGATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTAAAAAC
AGAAATTGAAAATACCTCAGCA
Found at i:71081665 original size:175 final size:165
Alignment explanation
Indices: 71081367--71081993 Score: 448
Period size: 167 Copynumber: 3.8 Consensus size: 165
71081357 CGGCATGTGA
* * * *
71081367 TCCTGA-GCTCAACTCACTTCTCGCAATATAAGTTGACTCTTTAAAAATAGATATTAAAAACAGA
1 TCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTAAAAATAGATATTAAAAACAGA
* * *
71081431 AATTGAAAATAGCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTT
66 AATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCTCAATACGAGTTGACTTTT
*
71081496 GACAAACGGAAATTGAAAAATAGAACTTGAAATTACCTCAGCGTG
131 -A-AAA---AAA---AAAAA-AGAA-TTGAAAATACCTCAGCGTG
* * * *
71081541 TCCTGAGGCTCAACTCACATCTCGCAATATGAGCTGATTTTTTGGAACATA-A-ATTGAATAACA
1 TCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTT-AAAAATAGATATT-AAAAACA
** * * *
71081604 GAAATT-AAAATTACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCT-TGTAATACGAGTTGAC
64 GAAATTGAAAA-TACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCT-CAATACGAGTTGAC
* *
71081667 TTTTAAAAAAAAAAGAGGAATTGAAAATACCTCAGCGTG
127 TTTTAAAAAAAAAAAAAGAATTGAAAATACCTCAGCGTG
* *
71081706 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-----T-G-----AAAAATA
1 T--CCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTAAAAATAGATATTAAAAACA
* * * * * ** * * *
71081760 GGAACTAAAAATACCTCGGCTTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
64 GAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCTCAATACGAGTTGACTT
*** * * * *
71081824 TT--TTGAAAAATAGGAACTAAAAATACCTCAGCGTG
129 TTAAAAAAAAAAAAAGAATTGAAAATACCTCAGCGTG
* * * * * * *
71081859 TGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGGACAACAGAAATTAAAA
1 T--CCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA--TTTTTT-AAAAATAGATATTAAAA
* * * * * *
71081924 ATAGAAATTGAAAATATCTCGGCATGTG-GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
61 ACAGAAATTGAAAATACCTCAGCATGTGAG-CCAAGGCTCAACTCACCTCTCTCAATACGAGTTG
*
71081988 ATTTTT
125 ACTTTT
71081994 TTGAACAACA
Statistics
Matches: 378, Mismatches: 49, Indels: 58
0.78 0.10 0.12
Matches are distributed among these distances:
153 64 0.17
155 10 0.03
156 50 0.13
157 4 0.01
161 1 0.00
162 1 0.00
165 19 0.05
166 3 0.01
167 106 0.28
168 4 0.01
170 3 0.01
173 3 0.01
174 15 0.04
175 90 0.24
176 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (165 bp):
TCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTAAAAATAGATATTAAAAACAGA
AATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCTCAATACGAGTTGACTTTT
AAAAAAAAAAAAAGAATTGAAAATACCTCAGCGTG
Found at i:71081793 original size:77 final size:77
Alignment explanation
Indices: 71081609--71081904 Score: 396
Period size: 76 Copynumber: 3.8 Consensus size: 77
71081599 TAACAGAAAT
* * * * * * * **
71081609 TAAAATTACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTTGTAATACGAGTTGACTTTTAAA
1 TAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-TT
** * *
71081674 AAAAAAAGAGGAAT
64 TGAAAAATAGGAAC
* *
71081688 TGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
1 TAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
71081753 AAAAATAGGAAC
66 AAAAATAGGAAC
* * *
71081765 TAAAAATACCTCGGCTTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
1 TAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
71081829 AAAAATAGGAAC
66 AAAAATAGGAAC
*
71081841 TAAAAATACCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
71081905 TGGACAACAG
Statistics
Matches: 192, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
76 72 0.38
77 68 0.35
78 4 0.02
79 48 0.25
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (77 bp):
TAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
AAAAATAGGAAC
Found at i:71081984 original size:91 final size:89
Alignment explanation
Indices: 71081829--71082015 Score: 266
Period size: 91 Copynumber: 2.1 Consensus size: 89
71081819 TGATTTTTTG
* * *
71081829 AAAAATAGGAACTAAAAATACCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
71081894 TTGATTTTTTTTGGACAACAGAAATT
66 TTGA-TTTTTTTGAACAACA-AAAAT
* * * * *
71081920 AAAAATAGAAATTGAAAATATCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
71081985 TTGATTTTTTTGAACAACAAAAAT
66 TTGATTTTTTTGAACAACAAAAAT
71082009 AAAAATA
1 AAAAATA
71082016 TCTGGATACC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 11 0.13
90 14 0.16
91 61 0.71
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (89 bp):
AAAAATAGAAACTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAACAACAAAAAT
Found at i:71085585 original size:31 final size:31
Alignment explanation
Indices: 71085547--71085605 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
71085537 TAACAGAATA
71085547 TTCCCCACAACGTTACGAAAGTAGTTTTATG
1 TTCCCCACAACGTTACGAAAGTAGTTTTATG
71085578 TTCCCCACAACGTTACGAAAGTAGTTTT
1 TTCCCCACAACGTTACGAAAGTAGTTTT
71085606 CTCCATATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (31 bp):
TTCCCCACAACGTTACGAAAGTAGTTTTATG
Found at i:71094320 original size:20 final size:21
Alignment explanation
Indices: 71094283--71094326 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
71094273 AACCATAATA
71094283 ATAGTATTAAAAAGTATATAC
1 ATAGTATTAAAAAGTATATAC
71094304 ATAGTATTAAAAA-TATATAC
1 ATAGTATTAAAAAGTATATAC
71094324 ATA
1 ATA
71094327 ATATATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAGTATTAAAAAGTATATAC
Found at i:71094412 original size:14 final size:15
Alignment explanation
Indices: 71094387--71094419 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
71094377 CTACATAAAT
71094387 ATAAACATATATATA
1 ATAAACATATATATA
71094402 ATAAA-ATATATATA
1 ATAAACATATATATA
71094416 ATAA
1 ATAA
71094420 TATTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAACATATATATA
Found at i:71094501 original size:27 final size:27
Alignment explanation
Indices: 71094438--71094527 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 27
71094428 ATACGTACAT
*
71094438 AATATATATACATATAATATAGTTATTAAA
1 AATATACATACA-AT-ATATAG-TATTAAA
* *
71094468 AAAATACATACAATATATAGTATTAAG
1 AATATACATACAATATATAGTATTAAA
71094495 AATATAC--ACAATATATATGGTATTAAA
1 AATATACATACAATATATA--GTATTAAA
71094522 AATATA
1 AATATA
71094528 GTATTAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
25 10 0.19
27 25 0.47
28 6 0.11
29 2 0.04
30 10 0.19
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (27 bp):
AATATACATACAATATATAGTATTAAA
Found at i:71094584 original size:3 final size:3
Alignment explanation
Indices: 71094570--71094628 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
71094560 TTGATTAAAA
* * * *
71094570 AAT AAT ACT AAT AAT AGT AAT AGT AA- AAT ACT AAT AAAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT
71094616 -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
71094629 GAACATATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 35 0.80
4 5 0.11
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:71094728 original size:21 final size:18
Alignment explanation
Indices: 71094691--71094733 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 18
71094681 TTAGTAACGC
71094691 TATATATACATAAACATA
1 TATATATACATAAACATA
71094709 TATATATACATTGAAAACATA
1 TATATATACA-T--AAACATA
71094730 TATA
1 TATA
71094734 CATAGTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
21 11 0.50
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (18 bp):
TATATATACATAAACATA
Found at i:71095098 original size:19 final size:19
Alignment explanation
Indices: 71095076--71095146 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
71095066 ATACTAATGC
71095076 TAATAAATAAT-AAATATAA
1 TAAT-AATAATAAAATATAA
*
71095095 TAATAGTAATAAAATATAA
1 TAATAATAATAAAATATAA
*
71095114 TAGT-ATACATAAAAT-TAA
1 TAATAATA-ATAAAATATAA
71095132 -AATTAA-AATAAAATA
1 TAA-TAATAATAAAATA
71095147 ATGAGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
17 8 0.19
18 12 0.28
19 23 0.53
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (19 bp):
TAATAATAATAAAATATAA
Done.