Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 115 of 221
Found at i:35295731 original size:38 final size:38
Alignment explanation
Indices: 35295680--35295755 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
35295670 GATTTCGGGA
35295680 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
1 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
35295718 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
1 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
35295756 GTAGTGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.03, G:0.37, T:0.34
Consensus pattern (38 bp):
TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
Found at i:35297386 original size:28 final size:28
Alignment explanation
Indices: 35297346--35297423 Score: 138
Period size: 28 Copynumber: 2.8 Consensus size: 28
35297336 CAGTACAGCG
35297346 TGGGCCTTAGCCCAATACAATAACAATA
1 TGGGCCTTAGCCCAATACAATAACAATA
*
35297374 TGGGCCTTAGCCCAATATAATAACAATA
1 TGGGCCTTAGCCCAATACAATAACAATA
*
35297402 TGGGCCTTAGCCTAATACAATA
1 TGGGCCTTAGCCCAATACAATA
35297424 TCGGTACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAACAATA
Found at i:35297819 original size:27 final size:27
Alignment explanation
Indices: 35297789--35297902 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
35297779 GGTATAACAG
*
35297789 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTAATTCGA
* * ** *
35297816 TCATTTTAACCGATTAGGGTAATTCGG
1 TCATTTTACCCTATGGGGGTAATTCGA
* * *
35297843 TCATTTTACCGTATAGGGGCAATTC-A
1 TCATTTTACCCTATGGGGGTAATTCGA
* *
35297869 GTCATTTTATCCTGTGGGGGTAATTCGA
1 -TCATTTTACCCTATGGGGGTAATTCGA
35297897 TCATTT
1 TCATTT
35297903 ATTGACCTCT
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
27 66 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTAATTCGA
Found at i:35312473 original size:27 final size:27
Alignment explanation
Indices: 35312439--35312601 Score: 204
Period size: 27 Copynumber: 6.1 Consensus size: 27
35312429 CACTATTGTA
*
35312439 ACCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
**
35312466 ATTGAAATACCCCCATA-GGTGAAAATG
1 ACCGAAATACCCCCATAGGGT-AAAATG
*
35312493 ACCGAAACACCCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* * * *
35312520 ACCAAAATAGCCTCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
*
35312547 ACCAAAATA-CCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* *
35312573 ATCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
35312600 AC
1 AC
35312602 TGATATGGCC
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
26 25 0.22
27 88 0.76
28 3 0.03
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGGTAAAATG
Found at i:35312742 original size:26 final size:26
Alignment explanation
Indices: 35312713--35312793 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
35312703 TGGAGGAAGT
*
35312713 ATACTGTTACTAGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTACG
* *
35312739 ATACTGTTACTGGCAGCTTAGCTACG
1 ATACTGTTACTAGCAGCTTTGCTACG
* * * *
35312765 ATACTATTACTAGTAGCTCTGCTATG
1 ATACTGTTACTAGCAGCTTTGCTACG
35312791 ATA
1 ATA
35312794 TTGGTGTGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTAGCAGCTTTGCTACG
Found at i:35324981 original size:17 final size:17
Alignment explanation
Indices: 35324935--35324981 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
35324925 ACACAAAAAT
35324935 AAAC-AAATAAAATATA
1 AAACTAAATAAAATATA
*
35324951 AATA-TAACTAAAATATA
1 AA-ACTAAATAAAATATA
*
35324968 AAACTAAATTAAAT
1 AAACTAAATAAAAT
35324982 CACTTTGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAACTAAATAAAATATA
Found at i:35325516 original size:15 final size:14
Alignment explanation
Indices: 35325492--35325525 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
35325482 TTTTATTTTG
*
35325492 AAAAAAATAAAAGT
1 AAAAAAATAAAAAT
35325506 AAAATAAATAAAAAT
1 AAAA-AAATAAAAAT
35325521 AAAAA
1 AAAAA
35325526 CACTCAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:35332562 original size:158 final size:158
Alignment explanation
Indices: 35332274--35332590 Score: 598
Period size: 158 Copynumber: 2.0 Consensus size: 158
35332264 GATTGAACCC
35332274 ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
1 ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
35332339 TTTAATTTAATTTAGGTCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
66 TTTAATTTAATTTAGGTCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
* *
35332404 AAAGGGCGTAAATAATGTGTGGGTCTAA
131 AAAGGGCATAAATAATGTCTGGGTCTAA
35332432 ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
1 ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
* *
35332497 TTTAATTTAATTTAGGTCTGTTTTAAAGTTTATTAAAAAACATCAAGATTCGCTAGTGTGCTGCG
66 TTTAATTTAATTTAGGTCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
35332562 AAAGGGCATAAATAATGTCTGGGTCTAA
131 AAAGGGCATAAATAATGTCTGGGTCTAA
35332590 A
1 A
35332591 CTCAAAACTT
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 155 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (158 bp):
ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
TTTAATTTAATTTAGGTCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
AAAGGGCATAAATAATGTCTGGGTCTAA
Found at i:35342849 original size:5 final size:5
Alignment explanation
Indices: 35342839--35342863 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35342829 CAAACGGACC
35342839 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
35342864 CACTTTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:35366755 original size:16 final size:19
Alignment explanation
Indices: 35366731--35366767 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
35366721 TTTCAACGTG
35366731 ATTCGTA-TTCAAAA-GTT
1 ATTCGTATTTCAAAATGTT
35366748 ATTC-TATTTCAAAATGTT
1 ATTCGTATTTCAAAATGTT
35366766 AT
1 AT
35366768 CAATTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 11 0.61
18 5 0.28
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTCGTATTTCAAAATGTT
Found at i:35370982 original size:17 final size:16
Alignment explanation
Indices: 35370960--35370991 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
35370950 TTACAGATTA
35370960 TTGGAAGCTTGATCGGG
1 TTGGAAGCTTG-TCGGG
35370977 TTGGAAGCTTGTCGG
1 TTGGAAGCTTGTCGG
35370992 AAATCCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.12, G:0.41, T:0.31
Consensus pattern (16 bp):
TTGGAAGCTTGTCGGG
Found at i:35381808 original size:33 final size:33
Alignment explanation
Indices: 35381766--35381929 Score: 213
Period size: 33 Copynumber: 5.0 Consensus size: 33
35381756 TTAACATAAG
35381766 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* *
35381799 TGATTGGAACATCTATCAGGGCAGTTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* *
35381832 TGATTGGAATATCTATCAGAGCAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* * *
35381865 TGATTGGAACATCTATCGGGGCAACTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* ** *
35381898 TGATTAGAAC-TCCTATTGGGGTAGCTTCATCA
1 TGATTGGAACAT-CTATCAGGGCAGCTTCATCA
35381930 TTTTGTTCGA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
32 1 0.01
33 114 0.99
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAA
Found at i:35389498 original size:25 final size:25
Alignment explanation
Indices: 35389470--35389525 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
35389460 ACGCATGAGT
35389470 TGTGAATAA-GTATGCTCACACGAGC
1 TGTGAA-AAGGTATGCTCACACGAGC
*
35389495 TGTGAAAATGGGTCTGCTCACACGAGC
1 TGTGAAAA--GGTATGCTCACACGAGC
35389522 TGTG
1 TGTG
35389526 GGCCAGAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 6 0.22
27 19 0.70
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (25 bp):
TGTGAAAAGGTATGCTCACACGAGC
Found at i:35395422 original size:27 final size:27
Alignment explanation
Indices: 35395383--35395434 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
35395373 TTTAAATGTG
*
35395383 AAGGGGCTGCTAAGTGCTGATTCCCCC
1 AAGGGGCTACTAAGTGCTGATTCCCCC
*
35395410 AAGGGGTTACTAAGTGCTGATTCCC
1 AAGGGGCTACTAAGTGCTGATTCCC
35395435 GGAATCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (27 bp):
AAGGGGCTACTAAGTGCTGATTCCCCC
Found at i:35395511 original size:42 final size:43
Alignment explanation
Indices: 35395447--35395551 Score: 158
Period size: 43 Copynumber: 2.5 Consensus size: 43
35395437 AATCATTGGT
*
35395447 GGTTGCTAAGTGCTGATCCCACCGTA-TCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTCTTAAATGTGAAAGG
* * *
35395489 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAATGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTCTTAAATGTGAAAGG
*
35395532 GGTTGCTAAGAGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
35395552 CCAAATCACT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTCTTAAATGTGAAAGG
Found at i:35402934 original size:33 final size:33
Alignment explanation
Indices: 35402892--35403101 Score: 132
Period size: 33 Copynumber: 5.8 Consensus size: 33
35402882 ATGTGAAGGG
*
35402892 GGTTGCTAAGTGCTGATTCCCGGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
35402925 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
* **
35402967 GGTTGCTAAGTGCTGATTCCCCGATTCGCTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
35403000 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A---AT-CAT-TG---GT
*
35403043 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
35403076 GGTTGCTAAGTGCTGAATCCACCGAA
1 GGTTGCTAAGTGCTGATTCC-CCGAA
35403102 AATGGATAAC
Statistics
Matches: 138, Mismatches: 19, Indels: 39
0.70 0.10 0.20
Matches are distributed among these distances:
33 60 0.43
34 13 0.09
35 1 0.01
36 4 0.03
37 1 0.01
38 5 0.04
39 2 0.01
40 2 0.01
41 6 0.04
42 23 0.17
43 21 0.15
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:35403062 original size:76 final size:75
Alignment explanation
Indices: 35402812--35403099 Score: 450
Period size: 75 Copynumber: 3.8 Consensus size: 75
35402802 CATTGAATAT
* * * *
35402812 AAAGGGGTTGCTAAGTGCTAATTCTCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
35402877 TTTAAATGTG
66 TTTAAATGTG
* * * *
35402887 AAGGGGGTTGCTAAGTGCTGATTCCCGGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
*
35402952 CTTAAATGTG
66 TTTAAATGTG
* *
35402962 AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCGCTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTA-
*
35403027 TTTTGAATGTG
65 TTTTAAATGTG
*
35403038 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCG
35403100 AAAATGGATA
Statistics
Matches: 194, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
75 126 0.65
76 68 0.35
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (75 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
TTTAAATGTG
Found at i:35405290 original size:30 final size:27
Alignment explanation
Indices: 35405227--35405291 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
35405217 TTCTTGATTT
*
35405227 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
*
35405254 ATATTATAAAATATATTAATTAAAGTTAAG
1 ATATTATAAAA-ATATT-ATTAAA-TTAAA
35405284 ATATTATA
1 ATATTATA
35405292 TTATAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 11 0.33
28 5 0.15
29 5 0.15
30 12 0.36
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:35405753 original size:10 final size:10
Alignment explanation
Indices: 35405735--35405776 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
35405725 AACATAAAGT
*
35405735 AAATAAAATA
1 AAATGAAATA
35405745 AAATGAAATA
1 AAATGAAATA
35405755 AAA-GAAAGT-
1 AAATGAAA-TA
35405764 AAATGAAATA
1 AAATGAAATA
35405774 AAA
1 AAA
35405777 GAAGGAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (10 bp):
AAATGAAATA
Found at i:35406864 original size:22 final size:23
Alignment explanation
Indices: 35406806--35406869 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
35406796 TTTGCCGAGT
*
35406806 AGGCACTTTATGTGCCGTACATC
1 AGGCACTTTATGTGTCGTACATC
*
35406829 AGGCACTTTATGTGTCGTACCTC
1 AGGCACTTTATGTGTCGTACATC
*
35406852 ATGCAC-TTATGTGTCGTA
1 AGGCACTTTATGTGTCGTA
35406870 TATTGATCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 12 0.32
23 26 0.68
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (23 bp):
AGGCACTTTATGTGTCGTACATC
Found at i:35407079 original size:12 final size:12
Alignment explanation
Indices: 35407036--35407079 Score: 70
Period size: 12 Copynumber: 3.6 Consensus size: 12
35407026 AGGAAATTTA
35407036 AAATTGTGGATTG
1 AAATTGT-GATTG
*
35407049 AAATTGAGATTG
1 AAATTGTGATTG
35407061 AAATTGTGATTG
1 AAATTGTGATTG
35407073 AAATTGT
1 AAATTGT
35407080 TACATGTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 23 0.79
13 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (12 bp):
AAATTGTGATTG
Found at i:35413027 original size:23 final size:24
Alignment explanation
Indices: 35412976--35413032 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
35412966 TATTATAAAA
* *
35412976 ATATTAT-TTAATTAAAGTATTAT
1 ATATTATATTAATTAAAGTATAAG
*
35412999 AAATTATATTAATTAAAGT-TAAG
1 ATATTATATTAATTAAAGTATAAG
35413022 ATATTATATTA
1 ATATTATATTA
35413033 TAGGAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
ATATTATATTAATTAAAGTATAAG
Found at i:35413029 original size:30 final size:26
Alignment explanation
Indices: 35412965--35413029 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 26
35412955 TTCTTGATTT
*
35412965 ATATTATAAAAATATTATTTAATTAA
1 ATATTATAAAAATATTATTAAATTAA
*
35412991 AGTATTATAAATTATATTAATTAAAGTTAA
1 A-TATTATAAA-AATATT-ATTAAA-TTAA
35413021 GATATTATA
1 -ATATTATA
35413030 TTATAGGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 1 0.03
27 9 0.28
28 5 0.16
29 5 0.16
30 11 0.34
31 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAAATTAA
Found at i:35413491 original size:10 final size:10
Alignment explanation
Indices: 35413473--35413514 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
35413463 AACATAAAGT
*
35413473 AAATAAAATA
1 AAATGAAATA
35413483 AAATGAAATA
1 AAATGAAATA
35413493 AAA-GAAAGT-
1 AAATGAAA-TA
35413502 AAATGAAATA
1 AAATGAAATA
35413512 AAA
1 AAA
35413515 GAAGGAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (10 bp):
AAATGAAATA
Found at i:35414602 original size:22 final size:23
Alignment explanation
Indices: 35414541--35414607 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
35414531 AGCTTTGCCG
*
35414541 ATCAGGCACTTTATGTGCCGTAC
1 ATCAGGCACTTTATGTGTCGTAC
35414564 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACTTTATGTGTCGTAC
*
35414587 CTCAGGCAC-TTATGTGTCGTA
1 ATCAGGCACTTTATGTGTCGTA
35414608 TATTGATCAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 12 0.29
23 30 0.71
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAC
Found at i:35414799 original size:12 final size:12
Alignment explanation
Indices: 35414774--35414829 Score: 85
Period size: 12 Copynumber: 4.6 Consensus size: 12
35414764 AGGAAATTTA
35414774 AAATTGTGGATTG
1 AAATTGT-GATTG
*
35414787 AAATTGAGATTG
1 AAATTGTGATTG
35414799 AAATTGTGATTG
1 AAATTGTGATTG
*
35414811 AAATAGTGATTG
1 AAATTGTGATTG
35414823 AAATTGT
1 AAATTGT
35414830 TACATGTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
12 33 0.85
13 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (12 bp):
AAATTGTGATTG
Found at i:35415944 original size:5 final size:5
Alignment explanation
Indices: 35415934--35415977 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
35415924 TAAATGAATA
*
35415934 AATTC AATTC AATTC AATTC AA-T- AATT- -ATTC TATTC AATTC AAT
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AAT
35415978 CCAAATTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
3 5 0.14
4 2 0.06
5 28 0.80
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (5 bp):
AATTC
Found at i:35415985 original size:21 final size:19
Alignment explanation
Indices: 35415939--35415977 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
35415929 GAATAAATTC
*
35415939 AATTCAATTCAATTCAATA
1 AATTCTATTCAATTCAATA
35415958 ATTATTCTATTCAATTCAAT
1 A--ATTCTATTCAATTCAAT
35415978 CCAAATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
21 16 0.94
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTCTATTCAATTCAATA
Found at i:35420486 original size:9 final size:9
Alignment explanation
Indices: 35420467--35420503 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
35420457 TGAGTTTTCG
*
35420467 AATTTGAAT
1 AATTCGAAT
*
35420476 AACTCGAAT
1 AATTCGAAT
35420485 AATTCGAAT
1 AATTCGAAT
35420494 AATTCGAAT
1 AATTCGAAT
35420503 A
1 A
35420504 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35429760 original size:39 final size:39
Alignment explanation
Indices: 35429643--35429903 Score: 318
Period size: 39 Copynumber: 6.6 Consensus size: 39
35429633 GCTCCTCGTT
* *
35429643 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
35429683 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
35429723 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
35429762 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
35429801 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
35429840 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
*
35429881 C-AA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
35429904 CATCATTCGA
Statistics
Matches: 202, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
38 10 0.05
39 120 0.59
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:35432464 original size:28 final size:28
Alignment explanation
Indices: 35432424--35432517 Score: 170
Period size: 28 Copynumber: 3.4 Consensus size: 28
35432414 AACAGTACAG
35432424 TGTGGGCCTTAGCCCAATACAATAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
35432452 TGTGGGCCTTAGCCCAATACAATAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
*
35432480 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
*
35432508 TGTGGACCTT
1 TGTGGGCCTT
35432518 GAACCCAAGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAATAACAA
Found at i:35433798 original size:28 final size:27
Alignment explanation
Indices: 35433752--35433837 Score: 127
Period size: 28 Copynumber: 3.1 Consensus size: 27
35433742 CTATTCAGTA
* *
35433752 ACAATACAGTGTAGGCCTTAGCCCAAT
1 ACAATACAATGTGGGCCTTAGCCCAAT
35433779 ACAATAGCAATGTGGGCCTTAGCCCAAT
1 ACAATA-CAATGTGGGCCTTAGCCCAAT
*
35433807 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAAT-ACAATGTGGGCCTTAGCCCAAT
35433835 ACA
1 ACA
35433838 GTAATAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.11
28 47 0.87
29 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (27 bp):
ACAATACAATGTGGGCCTTAGCCCAAT
Found at i:35433838 original size:28 final size:28
Alignment explanation
Indices: 35433765--35433854 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
35433755 ATACAGTGTA
* *
35433765 GGCCTTAGCCCAATACAATAGCAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
35433793 GGCCTTAGCCCAATACAGTAACAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
35433821 GGCCTTAGCCCAATACAGTAATAATTTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
35433849 GGCCTT
1 GGCCTT
35433855 GAACCCAAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAGTAACAATGTG
Found at i:35441373 original size:25 final size:25
Alignment explanation
Indices: 35441290--35441412 Score: 72
Period size: 25 Copynumber: 5.0 Consensus size: 25
35441280 CGAGCTCTTA
* ** *
35441290 AATCAGTATGCTCTTATGAGCTG-T
1 AATCAGTAAGCTCTTACAAGCTGAG
* * **
35441314 AATCGGTAAGCTCTTTCAAAATGAG
1 AATCAGTAAGCTCTTACAAGCTGAG
* *
35441339 TAATGA-TAAGCTCTTGCAAGCTGA-
1 -AATCAGTAAGCTCTTACAAGCTGAG
* * *
35441363 ATATCGGTAAGCTCATACGAGCTGAG
1 A-ATCAGTAAGCTCTTACAAGCTGAG
* *
35441389 AATCAGTAAGCTCTCACGAGCTGA
1 AATCAGTAAGCTCTTACAAGCTGA
35441413 AATAGGTAAC
Statistics
Matches: 73, Mismatches: 21, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
23 1 0.01
24 18 0.25
25 50 0.68
26 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AATCAGTAAGCTCTTACAAGCTGAG
Found at i:35443359 original size:24 final size:25
Alignment explanation
Indices: 35443332--35443378 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
35443322 ATATTTTTCC
*
35443332 CAACTACCTTCGA-ACTCTAATACA
1 CAACTACCTTCGAGAATCTAATACA
*
35443356 CAACTATCTTCGAGAATCTAATA
1 CAACTACCTTCGAGAATCTAATA
35443379 TTTTTCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (25 bp):
CAACTACCTTCGAGAATCTAATACA
Found at i:35443392 original size:30 final size:30
Alignment explanation
Indices: 35443321--35443404 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
35443311 ACTAATGGTA
* *
35443321 AATATTTTTCCCAACTACCTTCGA-ACTCT
1 AATATTTTTCCCAACTATCTTCGAGAATCT
*
35443350 AATA-----CACAACTATCTTCGAGAATCT
1 AATATTTTTCCCAACTATCTTCGAGAATCT
35443375 AATATTTTTCCCAACTATCTTCGAGAATCT
1 AATATTTTTCCCAACTATCTTCGAGAATCT
35443405 GAATTACTCG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
24 13 0.29
25 8 0.18
29 4 0.09
30 20 0.44
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (30 bp):
AATATTTTTCCCAACTATCTTCGAGAATCT
Found at i:35448776 original size:16 final size:17
Alignment explanation
Indices: 35448745--35448777 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35448735 TTATTCATAT
*
35448745 TTCATATACATGTATCA
1 TTCATATACATATATCA
35448762 TTCAT-TACATATATCA
1 TTCATATACATATATCA
35448778 ATATATCAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
TTCATATACATATATCA
Found at i:35462404 original size:88 final size:92
Alignment explanation
Indices: 35462239--35462425 Score: 276
Period size: 95 Copynumber: 2.1 Consensus size: 92
35462229 CCAAAAAATC
*
35462239 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTTAATCCAATGAATAT
1 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTAAATCC-ATG-ATAT
*
35462304 TCATAACCTAAATACTAAACTAAAATTTAA
64 CCATAACCTAAATACTAAACTAAAATTT-A
35462334 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAA-TAAAT-C-TG-T-TCC
1 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTAAATCCATGATATCC
* *
35462394 ATAACCTAAATTCTGAACTAAAATTTA
66 ATAACCTAAATACTAAACTAAAATTTA
35462421 TTAAA
1 TTAAA
35462426 AACTAAATCT
Statistics
Matches: 88, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
87 6 0.07
88 26 0.30
89 1 0.01
91 2 0.02
93 1 0.01
94 4 0.05
95 48 0.55
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (92 bp):
TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTAAATCCATGATATCC
ATAACCTAAATACTAAACTAAAATTTA
Found at i:35464033 original size:38 final size:38
Alignment explanation
Indices: 35463982--35464076 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 38
35463972 CACCACTTCG
* * *
35463982 ACCACCCTGCACACCACAATAGGGCCATGAGAGACACA
1 ACCACCCTACACACCACAATAGGACCATAAGAGACACA
* * *
35464020 ACCACCCTACACACCAC-ATAGGACCATAATAGGCCCA
1 ACCACCCTACACACCACAATAGGACCATAAGAGACACA
* *
35464057 TCCACCCTACAGACCACAAT
1 ACCACCCTACACACCACAAT
35464077 TGTGGAACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 30 0.62
38 18 0.38
ACGTcount: A:0.37, C:0.40, G:0.13, T:0.11
Consensus pattern (38 bp):
ACCACCCTACACACCACAATAGGACCATAAGAGACACA
Found at i:35481160 original size:33 final size:32
Alignment explanation
Indices: 35481091--35481199 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 32
35481081 ATGTGAAGGG
*
35481091 GGTTGCTAAGTGCTGATT-CCC--C-CA-AGG
1 GGTTGCTAAGTGCTGATTCCCCAACTCATAGT
35481118 GGTTGCTAAGTGCTGATTCCCCAACTCATTAGT
1 GGTTGCTAAGTGCTGATTCCCCAACTCA-TAGT
* *
35481151 GGTTGCTAAGTGTTGATTCCCCGAA-TCACTGGT
1 GGTTGCTAAGTGCTGATTCCCC-AACTCA-TAGT
35481184 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
35481200 ATCCACGGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
27 18 0.26
28 3 0.04
30 1 0.01
31 2 0.03
33 44 0.63
34 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (32 bp):
GGTTGCTAAGTGCTGATTCCCCAACTCATAGT
Found at i:35485750 original size:128 final size:128
Alignment explanation
Indices: 35485522--35485778 Score: 460
Period size: 128 Copynumber: 2.0 Consensus size: 128
35485512 AGTGAAGACT
* *
35485522 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
1 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
35485587 AGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCTGATTTAAGCC
66 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
*
35485650 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
35485715 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
66 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
35485778 A
1 A
35485779 AAAACCCTAT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (128 bp):
AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
Found at i:35485836 original size:172 final size:172
Alignment explanation
Indices: 35485650--35486127 Score: 839
Period size: 172 Copynumber: 2.8 Consensus size: 172
35485640 GATTTAAGCC
*
35485650 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
* *
35485715 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAA
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
35485780 AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
131 AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
* *
35485822 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTAAAAATTGCAAATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
* *
35485887 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
*
35485952 AAACCCTATCACTCTGGACATCAGTGGAATAGGTTGAAGACT
131 AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
*
35485994 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
* * * *
35486059 GGTGGAGCAGATTGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
35486124 AAAC
131 AAAC
35486128 ATTATCTCCC
Statistics
Matches: 289, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 289 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (172 bp):
AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
Found at i:35485870 original size:128 final size:127
Alignment explanation
Indices: 35485527--35485852 Score: 388
Period size: 128 Copynumber: 2.5 Consensus size: 127
35485517 AGACTAGCCT
* * * * * *
35485527 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGG
1 TATCACCCTAAGCAGCAGTGGAATAGGTTGAAAACT-AAGACCTTATCTCCCTAAGTAGTAGTGG
* * *
35485592 AGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCTGATTTAAGCCAGCCT
65 AGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAACCC
* * * * * * *
35485655 TATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCACCCTAAGCAGCAGTGGAATAGGTTGAAAACTA-AGACCTTATCTCCCTAAGTAGTAGTGG
* *
35485720 AGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAAAAACC
65 AGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC---AACC
35485785 C
127 C
* * *
35485786 TATCACTCT-GGACAGCAGTGGAATAGGTTGAAGACT-AG-CCTTATCTCCCTAAGTAGTAGTGG
1 TATCACCCTAAG-CAGCAGTGGAATAGGTTGAAAACTAAGACCTTATCTCCCTAAGTAGTAGTGG
35485848 AGTAG
65 AGTAG
35485853 GTTAAAAATT
Statistics
Matches: 174, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
128 142 0.82
129 2 0.01
130 1 0.01
131 29 0.17
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (127 bp):
TATCACCCTAAGCAGCAGTGGAATAGGTTGAAAACTAAGACCTTATCTCCCTAAGTAGTAGTGGA
GTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAACCC
Found at i:35485914 original size:44 final size:44
Alignment explanation
Indices: 35485525--35486350 Score: 261
Period size: 44 Copynumber: 19.1 Consensus size: 44
35485515 GAAGACTAGC
* * * *
35485525 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTG-C-AGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACGA-AT
* * * *
35485569 CTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * **
35485613 CTTATCTTCCC-CAGGAGTAG-GGAAGCTGATTTAAG-C--C-AGC
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * **
35485653 CTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTAC-AGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA-AT
* *
35485697 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * * ** *
35485741 CTGATCTTCCC-CAGGAGTAG-GGAAGCAGATTTAAG-CCAAAAAC
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * * ** * * *
35485784 CCTATCACTCT-GGACAGCAGTGGAATAGGTTGAAGACTA-G--C
1 CTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * * * *
35485825 CTTATCTCCCTAAGTAGTAGTGGAGTAGGTTAAAAATTG-CAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACGAAT
*
35485869 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * *
35485913 CTTATCTTCCCCAAG-AGTAG-GGAAGCAGATTTAAG-CCACAAAC
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * ** * * *
35485956 CCTATCACTCT-GGACA-TCAGTGGAATAGGTTGAAGACTA-G--C
1 CTTATCTCCCTAAG-CAGT-AGTGGAGCAGATTGAAGACGACGAAT
* * * *
35485997 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTG-C-AGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACGA-AT
*
35486041 CTTATCTCCCTAAGCAGTGGTGGAGCAGATTGAAGAC-AGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA-CGAAT
* * * * * *
35486085 CTTATCTTCCC-CAGGAGTAG-GGAAGCAAATTTAAG-CCAC-AAA
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * *
35486127 CATTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTG-C-AGAT
1 C-TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACGA-AT
** * * *
35486172 CTTATCTCTTTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * *
35486216 CTTATCTTCCCT-AGGAGTAG-GGAAGCAGATTTAAGTC-ACAAAC
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
** * * * * * * *
35486259 CTTATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAACTA-TAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA-AT
* * * *
35486303 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
35486347 CTTA
1 CTTA
35486351 CTTCCCAGGC
Statistics
Matches: 561, Mismatches: 163, Indels: 116
0.67 0.19 0.14
Matches are distributed among these distances:
39 4 0.01
40 21 0.04
41 57 0.10
42 19 0.03
43 101 0.18
44 330 0.59
45 29 0.05
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
Found at i:35486156 original size:131 final size:131
Alignment explanation
Indices: 35485998--35486356 Score: 531
Period size: 131 Copynumber: 2.7 Consensus size: 131
35485988 AAGACTAGCC
* *
35485998 TTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTGGTG
1 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
35486063 GAGCAGATTGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
66 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
35486128 A
131 A
** *
35486129 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCTTTAAGCAGTAGTA
1 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* * * *
35486194 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAGCAGATTTAAGTCACAAAC
66 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
*
35486259 C
131 A
** * * ** *
35486260 TTATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAACTATAGATCTTATCTCCCTAAACAGTAGTG
1 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
**
35486325 GAGCAGATCGAAGACAATGAATCTTA-CTTCCC
66 GAGCAGATCGAAGACAGCGAATCTTATCTTCCC
35486357 AGGCGATGCA
Statistics
Matches: 204, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
130 6 0.03
131 198 0.97
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (131 bp):
TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
A
Found at i:35489515 original size:21 final size:19
Alignment explanation
Indices: 35489490--35489538 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
35489480 CATAATACAT
*
35489490 TTTTTTAATTATTATCAATA
1 TTTTTTAAAT-TTATCAATA
*
35489510 TGTTTTAAATTTATCAATA
1 TTTTTTAAATTTATCAATA
35489529 TTATTTTAAA
1 TT-TTTTAAA
35489539 AGTATATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTTAAATTTATCAATA
Found at i:35489535 original size:20 final size:19
Alignment explanation
Indices: 35489501--35489538 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
35489491 TTTTTAATTA
*
35489501 TTATCAATATGTTTTAAAT
1 TTATCAATATATTTTAAAT
35489520 TTATCAATATTATTTTAAA
1 TTATCAATA-TATTTTAAA
35489539 AGTATATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATCAATATATTTTAAAT
Found at i:35498615 original size:33 final size:33
Alignment explanation
Indices: 35498578--35498677 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 33
35498568 AGTCGAACAA
*
35498578 AATGATGAAGCTGCCTCGATAGTTGTTCCAATC
1 AATGATGAAGCTGCCTCGATAGATGTTCCAATC
* *
35498611 AATGATGAAGCTGCC-CTGATAAATGTTGCAATC
1 AATGATGAAGCTGCCTC-GATAGATGTTCCAATC
* *
35498644 ATTGATGAAGCTGCCTTGATAGATGTTCCAATC
1 AATGATGAAGCTGCCTCGATAGATGTTCCAATC
35498677 A
1 A
35498678 CTTATGTTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.02
33 57 0.98
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (33 bp):
AATGATGAAGCTGCCTCGATAGATGTTCCAATC
Found at i:35500605 original size:17 final size:19
Alignment explanation
Indices: 35500575--35500611 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
35500565 GAAAAGAAAT
35500575 TTTTCTTTTGAAAATCAAA
1 TTTTCTTTTGAAAATCAAA
*
35500594 TTTT-TTTT-AAAATTAAA
1 TTTTCTTTTGAAAATCAAA
35500611 T
1 T
35500612 AAATCTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTCTTTTGAAAATCAAA
Found at i:35501104 original size:79 final size:79
Alignment explanation
Indices: 35500944--35501423 Score: 497
Period size: 79 Copynumber: 6.1 Consensus size: 79
35500934 AATTAAAGAG
* * * * * * *
35500944 AAATAAAATCTGTTTC-AGGGTTGACTCCCACTGTTCAACGATTCTCTTCCAAAATTTTGATTTG
1 AAATAAAATCTGTTTCGA-GATTGATTCCCGCTGTTCAACGATTTTATTCC-AAATTTTGTTTTA
**
35501008 TTTCCAAAAACAAGTA
64 TTTCCAAAAATGAGTA
* * * *
35501024 AAATAAAATCTGTTTCGAGATTGATTCCCGCCGTTCAATGATTTTATTTCAAATTTGGTTTTATT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTGTTTTATT
* *
35501089 TCCGAAAACGAGTA
66 TCCAAAAATGAGTA
* * * *
35501103 AAATAAAATCTGTTTCGGGATTGATTCCTGCTGTTCAATGATTTTATTCCAAATTTTATTTTATT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTGTTTTATT
*
35501168 TCCAAAAATGAATA
66 TCCAAAAATGAGTA
* ** * *
35501182 AAATAAAATCCT-TTTCGAGATTGATACTTGCAGTTCAACAATTTTATTCCAAA-TTTGATTTTA
1 AAATAAAAT-CTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTG-TTTTA
35501245 TTTCCAAAAATGAGTA
64 TTTCCAAAAATGAGTA
** * * * * *
35501261 AAATAAAATCCATTCCGGGATTGATTCCCGCTGTTCAACGAATTTATTTCAAATTTTGCTTTATT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTGTTTTATT
35501326 TCCAAAAATGAGTA
66 TCCAAAAATGAGTA
* * ** * *
35501340 AAATAAAACCTGTTTCGGGATTGATTCCCGCCATTCAACAGA-TTTATT--ACATTTTGGTTTTG
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAAC-GATTTTATTCCAAATTTT-GTTTTA
*
35501402 TTGCCAAAAATGAG-A
64 TTTCCAAAAATGAGTA
*
35501417 AATTAAA
1 AAATAAA
35501424 TTAAATAAAA
Statistics
Matches: 341, Mismatches: 52, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
77 13 0.04
78 21 0.06
79 258 0.76
80 48 0.14
81 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (79 bp):
AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTGTTTTATT
TCCAAAAATGAGTA
Found at i:35501548 original size:86 final size:87
Alignment explanation
Indices: 35501363--35501562 Score: 242
Period size: 86 Copynumber: 2.3 Consensus size: 87
35501353 TTCGGGATTG
* * *
35501363 ATTCCCGCCATTCAAC-AGATTTATTACATTTTGGTTTTGTTGCCAAAAATGAGAAATTAAATTA
1 ATTCCCGCCGTTTAACAAGATTTATTTCATTTTGGTTTTGTTGCCAAAAATGAGAAATTAAATTA
*
35501427 AATAAAATCTATTTCGAAATTT
66 AATAAAATATATTTCGAAATTT
* ** * **
35501449 GTTCCCGCCGTTTAGTAAGATTTATTTGATTTT-GTTTTGTTTTCAAAAATGAGAAATTAAATTA
1 ATTCCCGCCGTTTAACAAGATTTATTTCATTTTGGTTTTGTTGCCAAAAATGAGAAATTAAATTA
* **
35501513 AATAAAATATGTTTCGGGATTT
66 AATAAAATATATTTCGAAATTT
* *
35501535 ATTCTCGCTGTTTAACAAGATTTTATTT
1 ATTCCCGCCGTTTAACAAGA-TTTATTT
35501563 TGTTTCCAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
86 73 0.78
87 21 0.22
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (87 bp):
ATTCCCGCCGTTTAACAAGATTTATTTCATTTTGGTTTTGTTGCCAAAAATGAGAAATTAAATTA
AATAAAATATATTTCGAAATTT
Found at i:35501601 original size:73 final size:76
Alignment explanation
Indices: 35501476--35501636 Score: 190
Period size: 73 Copynumber: 2.2 Consensus size: 76
35501466 AGATTTATTT
* * *
35501476 GATTTTGTTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATGTTTCGGGATTTATT-CT
1 GATTTTATTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATATTTCGGGAGTTATTCCT
35501540 -CGCTGTTTAACAA
66 ACG--GTTTAA-AA
* * *
35501553 GATTTTATTTTG-TTTC-CAAATTAG-AATT-AATTAAATAAAATCTATTTCGGGAGTTATTCCT
1 GATTTTATTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATATTTCGGGAGTTATTCCT
*
35501614 ACGGTTTAATA
66 ACGGTTTAAAA
35501625 GATTTTATTTTG
1 GATTTTATTTTG
35501637 ATATAATTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
72 13 0.17
73 33 0.44
74 6 0.08
75 8 0.11
76 4 0.05
77 11 0.15
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (76 bp):
GATTTTATTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATATTTCGGGAGTTATTCCT
ACGGTTTAAAA
Found at i:35506720 original size:51 final size:50
Alignment explanation
Indices: 35506644--35506975 Score: 262
Period size: 51 Copynumber: 6.6 Consensus size: 50
35506634 GATGAACACG
* * *
35506644 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGGTCACA
* * * * *
35506695 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATTTG-GTCACA
* * * * * *
35506746 TGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TTTGGTCACA
* * * * *
35506797 TGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG-TACC-GATAA-ATTTGGTCACA
* * *
35506848 TATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAAACTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGAT-AAATTTGGTCACA
* * ** * * **
35506898 TGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAAACTGATAATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGTCACA
*
35506947 TGTGTAGTACTATGTCAAGGCTACTACGT
1 TGTGTAGTACTATGTGAAGGCTACTACGT
35506976 CTATTGAATG
Statistics
Matches: 223, Mismatches: 46, Indels: 26
0.76 0.16 0.09
Matches are distributed among these distances:
49 36 0.16
50 43 0.19
51 140 0.63
52 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGTCACA
Found at i:35506816 original size:102 final size:102
Alignment explanation
Indices: 35506640--35506923 Score: 382
Period size: 102 Copynumber: 2.8 Consensus size: 102
35506630 TATCGATGAA
*
35506640 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
*
35506704 CTAAGTGAAGGCTACTATGTG-TACC-GAGAAGTTTTGAG-
65 CTAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTG-GT
* * *
35506742 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
35506807 TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
* * * * *
35506844 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTA
*
35506907 CTATGTGAAGGCTACTA
65 CTAAGTGAAGGCTACTA
35506924 CGTGAACTGT
Statistics
Matches: 163, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
101 36 0.22
102 124 0.76
103 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
Found at i:35513217 original size:51 final size:51
Alignment explanation
Indices: 35513153--35513491 Score: 320
Period size: 51 Copynumber: 6.7 Consensus size: 51
35513143 TATCGATGAA
* * * *
35513153 CACGTGTGTAGTACTGTGTGAAGGCTTCTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * * *
35513204 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTG-GT
* * * *
35513255 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATTGGT
* * * * *
35513306 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGA-AAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TACCGATAAA--TATTGGT
* *
35513357 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATA-TTGGT
* * * *
35513407 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
35513456 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
35513492 TCGAATGATA
Statistics
Matches: 236, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
49 39 0.17
50 50 0.21
51 144 0.61
52 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
Found at i:35513329 original size:102 final size:100
Alignment explanation
Indices: 35513153--35513494 Score: 390
Period size: 102 Copynumber: 3.4 Consensus size: 100
35513143 TATCGATGAA
* * *
35513153 CACGTGTGTAGTACTGTGTGAAGGCTTCTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
35513217 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGA-AAG-TTTGAG
* * * *
35513255 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
35513320 TAAGTGAAGGCTACTATG-GATACCGAAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTG-TACCG-AAAG-TTTGAG
* * * * *
35513356 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * ** *
35513419 ACTATGTGAAGGCTACTACGTGAACTGTAAA-ACTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAGTTTGAG
35513456 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
35513495 AATGATAAAA
Statistics
Matches: 206, Mismatches: 26, Indels: 18
0.82 0.10 0.07
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 42 0.20
102 125 0.61
103 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGTTTGAG
Found at i:35518586 original size:27 final size:27
Alignment explanation
Indices: 35518545--35518612 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
35518535 ATAAAGGCAA
*
35518545 AAAATCTACCAAATAACATATAATGCGAT
1 AAAATC-ACC-AATAACATATAATACGAT
* * *
35518574 AAATTCATCAATATCATATAATACGAT
1 AAAATCACCAATAACATATAATACGAT
35518601 AAAATCACCAAT
1 AAAATCACCAAT
35518613 CCCCTCGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 26 0.79
28 2 0.06
29 5 0.15
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.26
Consensus pattern (27 bp):
AAAATCACCAATAACATATAATACGAT
Found at i:35519478 original size:27 final size:28
Alignment explanation
Indices: 35519448--35519500 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
35519438 GTAACAAAAC
*
35519448 AATGTGGGCCTTAGCCCGATA-AGTAAT
1 AATGTGGGCCTTAGCCCAATATAGTAAT
35519475 AATGTGGGCCTTAGCCCAATATAGTA
1 AATGTGGGCCTTAGCCCAATATAGTA
35519501 TCAGAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (28 bp):
AATGTGGGCCTTAGCCCAATATAGTAAT
Found at i:35519831 original size:32 final size:32
Alignment explanation
Indices: 35519780--35519857 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
35519770 GAATGGCTAC
* * *
35519780 AAGCCATAAGTA-CAGTAATATGATTGGCATA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
35519811 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
35519843 CAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
35519858 TCGTAGCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 11 0.28
32 29 0.73
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGGCACA
Found at i:35519891 original size:26 final size:26
Alignment explanation
Indices: 35519862--35519911 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
35519852 GTAGCATCGT
*
35519862 AGCATAGCTGCCAGCAACAGTATAAC
1 AGCAAAGCTGCCAGCAACAGTATAAC
*
35519888 AGCAAAGTTGCCAGCAACAGTATA
1 AGCAAAGCTGCCAGCAACAGTATA
35519912 TATGGCCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTGCCAGCAACAGTATAAC
Found at i:35520026 original size:24 final size:24
Alignment explanation
Indices: 35519999--35520132 Score: 133
Period size: 24 Copynumber: 5.6 Consensus size: 24
35519989 CCACGCTCAG
**
35519999 AATCAATCATACAAATCACAGACA
1 AATCAATCATTTAAATCACAGACA
** *** *
35520023 AATCAGCCATACCAATCATAGACA
1 AATCAATCATTTAAATCACAGACA
*
35520047 AATCAATCATTTAAATCATAGACA
1 AATCAATCATTTAAATCACAGACA
* * * * *
35520071 CATCGATCATTTACATCTCAAACA
1 AATCAATCATTTAAATCACAGACA
*
35520095 AATCAATCATTTACATCACAGACA
1 AATCAATCATTTAAATCACAGACA
35520119 AATCAATCATTTAA
1 AATCAATCATTTAA
35520133 CCCCGAGGGG
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 90 1.00
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (24 bp):
AATCAATCATTTAAATCACAGACA
Found at i:35520181 original size:27 final size:27
Alignment explanation
Indices: 35520150--35520212 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
35520140 GGGCAAAATT
* * * *
35520150 ATCATTTTTCCCTATAGGGGTATTACT
1 ATCATTTTACCCTACAGCGGTATTACA
*
35520177 GTCATTTTACCCTACAGCGGTATTACA
1 ATCATTTTACCCTACAGCGGTATTACA
35520204 ATCATTTTA
1 ATCATTTTA
35520213 TAACATAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (27 bp):
ATCATTTTACCCTACAGCGGTATTACA
Found at i:35520235 original size:27 final size:26
Alignment explanation
Indices: 35520216--35520293 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 26
35520206 CATTTTATAA
*
35520216 CATAGGAGCATAACAGTCATTAAATGT
1 CATAGG-GCATAACAGTCATTTAATGT
35520243 CATAGTGGCATAACAGTCATTTAATGT
1 CATAG-GGCATAACAGTCATTTAATGT
*
35520270 CATGAGGGCATAATAGTCATTTAA
1 CAT-AGGGCATAACAGTCATTTAA
35520294 CCCTACATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
27 44 0.94
28 3 0.06
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (26 bp):
CATAGGGCATAACAGTCATTTAATGT
Found at i:35520235 original size:54 final size:53
Alignment explanation
Indices: 35520163--35520408 Score: 165
Period size: 54 Copynumber: 4.6 Consensus size: 53
35520153 ATTTTTCCCT
* * * * **
35520163 ATAGGGGTATTACTGTCATTTTACCCTACAGCGGTATTACAATCATTTTATAAC
1 ATAGGGGCATAACAGTCATTTTACCCTACAG-GGTATTACAGTCATTTTATCTC
* * *** * * * * *
35520217 ATAGGAGCATAACAGTCA-TTAAATGTCATAGTGGCATAACAGTCATTTAATGTC
1 ATAGGGGCATAACAGTCATTTTACCCT-ACAG-GGTATTACAGTCATTTTATCTC
* * * *
35520271 AT-GAGGGCATAATAGTCATTTAACCCTACATGGGTATTACAGTCATTTTACCTT
1 ATAG-GGGCATAACAGTCATTTTACCCTACA-GGGTATTACAGTCATTTTATCTC
* * * * *
35520325 ATAGGGGCATAACGGTCACTTTACCCTACAGGGGTATTACGGTTATTTTA-CCC
1 ATAGGGGCATAACAGTCATTTTACCCTACA-GGGTATTACAGTCATTTTATCTC
* *
35520378 TATAGGGGTATTACAGTCATTTTACCCTACA
1 -ATAGGGGCATAACAGTCATTTTACCCTACA
35520409 AAGGCATTAT
Statistics
Matches: 145, Mismatches: 41, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
53 6 0.04
54 132 0.91
55 7 0.05
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (53 bp):
ATAGGGGCATAACAGTCATTTTACCCTACAGGGTATTACAGTCATTTTATCTC
Found at i:35520314 original size:27 final size:27
Alignment explanation
Indices: 35520285--35520456 Score: 209
Period size: 27 Copynumber: 6.4 Consensus size: 27
35520275 GGGCATAATA
* * *
35520285 GTCATTTAACCCTACATGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
35520312 GTCATTTTACCTTATAGGGGCATAACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
35520339 GTCACTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
35520366 GTTATTTTACCCTATAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
** * *
35520393 GTCATTTTACCCTACAAAGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
35520420 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
35520447 GTCATTTTAC
1 GTCATTTTAC
35520457 AAATATTGGG
Statistics
Matches: 118, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:35520388 original size:81 final size:81
Alignment explanation
Indices: 35520285--35520456 Score: 245
Period size: 81 Copynumber: 2.1 Consensus size: 81
35520275 GGGCATAATA
* * * * **
35520285 GTCATTTAACCCTACATGGGTATTACAGTCATTTTACCTTATAGGGGCATAACGGTCACTTTACC
1 GTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAAAGGCATAACGGTCACTTTACC
35520350 CTACAGGGGTATTACG
66 CTACAGGGGTATTACG
* * * * *
35520366 GTTATTTTACCCTATAGGGGTATTACAGTCATTTTACCCTACAAAGGCATTATGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAAAGGCATAACGGTCACTTTACC
35520431 CTACAGGGGTATTACG
66 CTACAGGGGTATTACG
35520447 GTCATTTTAC
1 GTCATTTTAC
35520457 AAATATTGGG
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
GTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAAAGGCATAACGGTCACTTTACC
CTACAGGGGTATTACG
Found at i:35521770 original size:25 final size:25
Alignment explanation
Indices: 35521715--35521763 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
35521705 ATTCAAACAC
*
35521715 TCCAACGACAGAGTTCAAATCCAAA
1 TCCAACAACAGAGTTCAAATCCAAA
35521740 TCCAACAACAGAGTTCAAATCCAA
1 TCCAACAACAGAGTTCAAATCCAA
35521764 CACCAACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (25 bp):
TCCAACAACAGAGTTCAAATCCAAA
Found at i:35523831 original size:43 final size:41
Alignment explanation
Indices: 35523739--35524053 Score: 235
Period size: 43 Copynumber: 7.5 Consensus size: 41
35523729 AGATTTCCCG
* * * *
35523739 AGGGGTTTCTAAGTACTGATTCCCCGAAT-TATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAA
35523780 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* * * * *
35523824 AGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTAAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAA
* * * *
35523865 ATGTGGTTGATAAGTGCTGATTCCACCGTATCTTTGATAGTGAA
1 A-GGGGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* * * * * *
35523909 AGGGGTTGCTATGTGTTGATTCCCCGTAT-TACTAAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAA
* * *
35523950 AGGTGGTTGCTAAGTTCTGATTCCACTGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* * * *
35523994 AGGGGTTGCTATGTGTTGATTCCCCGTATCA-CTGAAT-TAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAA
35524034 AGGTGGTTGCTAAGTGCTGA
1 AGG-GGTTGCTAAGTGCTGA
35524054 ATCCACCGAG
Statistics
Matches: 214, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
40 5 0.02
41 27 0.13
42 82 0.38
43 85 0.40
44 15 0.07
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTAA
Found at i:35523882 original size:85 final size:85
Alignment explanation
Indices: 35523777--35524061 Score: 473
Period size: 85 Copynumber: 3.4 Consensus size: 85
35523767 TTATTGATTC
* *
35523777 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
35523842 ATTCCCCGTATCACTAAATA
66 ATTCCCCGTATCACTAAATA
* * *
35523862 TAAATGTGGTTGATAAGTGCTGATTCCACCGTATCTTTGATAGTGAAAGGGGTTGCTATGTGTTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
*
35523927 ATTCCCCGTATTACTAAATA
66 ATTCCCCGTATCACTAAATA
* *
35523947 TAAAGGTGGTTGCTAAGTTCTGATTCCACTGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
*
35524012 ATTCCCCGTATCACTGAAT-
66 ATTCCCCGTATCACTAAATA
*
35524031 TAAAGGTGGTTGCTAAGTGCTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCG
35524062 AGTAACGGAT
Statistics
Matches: 184, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
84 28 0.15
85 156 0.85
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (85 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
ATTCCCCGTATCACTAAATA
Found at i:35526842 original size:27 final size:27
Alignment explanation
Indices: 35526796--35527093 Score: 292
Period size: 27 Copynumber: 11.1 Consensus size: 27
35526786 TATAACAGTT
* *
35526796 ATTTTACCTTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * * *
35526822 ATCTTATCCTATGGTGGTATTCCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
35526849 ATTCTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
35526876 ATTTTACCCTATGGGGGTATTTCTGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * *
35526903 ATTCTACCTTATGGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
35526930 ATTCTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
35526957 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * **
35526984 ATTTTACCTTACGAAGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
35527011 ATTTTACCCTATGGAGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * * *
35527038 ATTCTACCTTATAGAGATATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * ** *
35527065 CTTTTACCCAATGAAGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
35527092 AT
1 AT
35527094 AACAGTGTAA
Statistics
Matches: 223, Mismatches: 48, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
26 9 0.04
27 214 0.96
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:35527291 original size:20 final size:21
Alignment explanation
Indices: 35527266--35527305 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
35527256 TGAGCCCACA
*
35527266 TGGCCCATTTCGGCC-AAACG
1 TGGCCCATTACGGCCTAAACG
35527286 TGGCCCATTACGGCCTAAAC
1 TGGCCCATTACGGCCTAAAC
35527306 CCATGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.20
Consensus pattern (21 bp):
TGGCCCATTACGGCCTAAACG
Found at i:35535778 original size:18 final size:19
Alignment explanation
Indices: 35535755--35535805 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
35535745 TTTCATTTAG
35535755 TTTTATATTTTATAT-TTT
1 TTTTATATTTTATATGTTT
*
35535773 TTTTATATATTT-TTTGTTT
1 TTTTATAT-TTTATATGTTT
35535792 TTATTATATTTTAT
1 TT-TTATATTTTAT
35535806 CTGGCACTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.36
19 11 0.39
20 7 0.25
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATATTTTATATGTTT
Found at i:35535783 original size:20 final size:20
Alignment explanation
Indices: 35535758--35535800 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35535748 CATTTAGTTT
*
35535758 TATATTTTATATTTTTTTTA
1 TATATTTTATATTTTTATTA
* *
35535778 TATATTTTTTGTTTTTATTA
1 TATATTTTATATTTTTATTA
35535798 TAT
1 TAT
35535801 TTTATCTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TATATTTTATATTTTTATTA
Found at i:35535918 original size:17 final size:17
Alignment explanation
Indices: 35535880--35535920 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
35535870 TTAAAGCTAG
35535880 TTTTTT-TTCTTTTGAT
1 TTTTTTCTTCTTTTGAT
35535896 TTTTTTCTTCTTTTG-T
1 TTTTTTCTTCTTTTGAT
35535912 TTCTTTTCT
1 TT-TTTTCT
35535921 ACCCAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTTTCTTCTTTTGAT
Found at i:35537717 original size:12 final size:10
Alignment explanation
Indices: 35537680--35537709 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
35537670 AAATCTGTTG
35537680 AAAA-TAATC
1 AAAATTAATC
35537689 AAAATTAATC
1 AAAATTAATC
35537699 AAAATTAATC
1 AAAATTAATC
35537709 A
1 A
35537710 TAAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTAATC
Found at i:35538219 original size:23 final size:24
Alignment explanation
Indices: 35538179--35538224 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
35538169 ATTTTTGTTC
35538179 TGAAAAAAAGAGAGAAAGAAAAAA
1 TGAAAAAAAGAGAGAAAGAAAAAA
35538203 TGAAAAAAATGA-A-AAAGAAAAA
1 TGAAAAAAA-GAGAGAAAGAAAAA
35538225 TATATATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 10 0.48
25 2 0.10
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (24 bp):
TGAAAAAAAGAGAGAAAGAAAAAA
Found at i:35543019 original size:12 final size:13
Alignment explanation
Indices: 35542996--35543023 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35542986 TATACATAGA
35542996 TTTAGTTTTTTTC
1 TTTAGTTTTTTTC
35543009 TTTAGTTTTTTTC
1 TTTAGTTTTTTTC
35543022 TT
1 TT
35543024 GTACATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTAGTTTTTTTC
Found at i:35544616 original size:19 final size:19
Alignment explanation
Indices: 35544592--35544630 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35544582 TATTTTAGGG
35544592 ATATTTTAGCATGATTAGA
1 ATATTTTAGCATGATTAGA
35544611 ATATTTTAGCATGATTAGA
1 ATATTTTAGCATGATTAGA
35544630 A
1 A
35544631 CTCTACTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
ATATTTTAGCATGATTAGA
Found at i:35549143 original size:12 final size:12
Alignment explanation
Indices: 35549126--35549158 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35549116 TATACAGACC
35549126 ATTAAGCTT-AAA
1 ATTAAG-TTCAAA
35549138 ATTAAGTTCAAA
1 ATTAAGTTCAAA
35549150 ATTAAGTTC
1 ATTAAGTTC
35549159 CGAGGGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 18 0.90
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (12 bp):
ATTAAGTTCAAA
Found at i:35551802 original size:43 final size:43
Alignment explanation
Indices: 35551454--35551851 Score: 464
Period size: 43 Copynumber: 9.3 Consensus size: 43
35551444 TTTTAGAAAA
*
35551454 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* *
35551497 AAACGCCGCAAAAGACCAGGACCTTTAGCGGCG-TTTTAGCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTA-CCAC
* * *
35551540 AAATGCCGCTAAAGACCAGGAACTTTAGCGGCGC-TTTAGCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTA-CCAC
* * *
35551583 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* *
35551626 AAACACCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * *
35551669 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * * *
35551712 AAACGCGGGTAAAGAACAAGACCTTTAGCGGCACTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * * ** *
35551755 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTATTAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * * * *
35551798 AAACGCCGCTATA-A-CATTGACTTTTAGCGACGCTTTT-TCAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTACCAC
*
35551839 AAACGCCACTAAA
1 AAACGCCGCTAAA
35551852 AGCATAACTT
Statistics
Matches: 307, Mismatches: 44, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
41 15 0.05
42 22 0.07
43 268 0.87
44 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
Found at i:35555488 original size:106 final size:105
Alignment explanation
Indices: 35555365--35555742 Score: 375
Period size: 106 Copynumber: 3.5 Consensus size: 105
35555355 ATAAAATGGT
* *
35555365 TTTTTTAAAGTACAATTATTTTTTGTGGCGTTTTTAT-TAAAACGTCGCTATTGCTTACCTTTAG
1 TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATATAAAACGCCGCTATTGCTTACCTTT-G
35555429 CGGCGTTTTTTTATAAAAACGCCGCTAAATGTTTTGC-GGCTA
65 CGGCG--TTTTTATAAAAACGCCGCTAAATGTTTTGCAGGCTA
* *
35555471 TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT-TATAAAACACCGCTATTTCTTACCTATTG
1 TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATATAAAACGCCGCTATTGCTTACCT-TTG
*
35555535 CGGC-ATTTT-T-----CGCCGCTAAATGTTTTGCTATATAAAATGGCTA
65 CGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGC--------A-GGCTA
* *
35555578 TTTTTTAAAGTAAAATTATTTTTTGTGTC-TTTTTTTATAAAACGCCGCTATTGCTTACCTTTTG
1 TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATATAAAACGCCGCTATTGCTTACC-TTTG
* *
35555642 CGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCCA
65 CGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGC--------A-GGCTA
35555692 TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT-TATAAAAACGCCGCTA
1 TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATAT-AAAACGCCGCTA
35555743 AATGTTTTGC
Statistics
Matches: 237, Mismatches: 12, Indels: 37
0.83 0.04 0.13
Matches are distributed among these distances:
97 18 0.08
102 1 0.00
103 4 0.02
105 1 0.00
106 64 0.27
107 64 0.27
108 5 0.02
109 1 0.00
114 62 0.26
115 17 0.07
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (105 bp):
TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATATAAAACGCCGCTATTGCTTACCTTTGC
GGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCAGGCTA
Found at i:35555650 original size:213 final size:212
Alignment explanation
Indices: 35555333--35555742 Score: 585
Period size: 213 Copynumber: 1.9 Consensus size: 212
35555323 TTTATAAAAA
*
35555333 CGCCACTAAATGTTTTTGCTATATAAAATGGTTTTTTTAAAGTACAATTATTTTTTGTGGCGTTT
1 CGCCACTAAATGTTTTTGCTATATAAAATGGTTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTT
* *
35555398 TTATTAAAACGTCGCTATTGCTTACCTTTAGCGGCGTTTTTTTATAAAAACGCCGCTAAATGTTT
66 TTATTAAAACGCCGCTATTGCTTACCTTTAGCGGCG--TTTTTATAAAAACGCCACTAAATGTTT
*
35555463 TGC-GGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTAT-AAAACACCGCTATTTCT
129 TGCAGGCCATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACACCGCTATTTCT
35555526 TACCTATTGCGGCATTTTT
194 TACCTATTGCGGCATTTTT
* *
35555545 CGCCGCTAAATG-TTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGTC-T
1 CGCCACTAAATGTTTTTGCTATATAAAATGG-T-TTTTTTAAAGTAAAATTATTTTTTGTGGCGT
* *
35555608 TTTTTTATAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTATAAAAACGCCACTAAATGTT
64 TTTTAT-TAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTATAAAAACGCCACTAAATGTT
*
35555673 TTGCTATATAAAATGGCCATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGC
128 TTGC--------A-GGCCATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACAC
35555738 CGCTA
184 CGCTA
35555743 AATGTTTTGC
Statistics
Matches: 175, Mismatches: 9, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
211 47 0.27
212 18 0.10
213 57 0.33
221 42 0.24
222 11 0.06
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (212 bp):
CGCCACTAAATGTTTTTGCTATATAAAATGGTTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTT
TTATTAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTATAAAAACGCCACTAAATGTTTTG
CAGGCCATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACACCGCTATTTCTTA
CCTATTGCGGCATTTTT
Found at i:35555711 original size:114 final size:107
Alignment explanation
Indices: 35555470--35555742 Score: 402
Period size: 114 Copynumber: 2.5 Consensus size: 107
35555460 TTTTGCGGCT
* *
35555470 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACACCGCTATTTCTTACCTATTG
1 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACGCCGCTATTGCTTACCTATTG
* *
35555535 CGGCATTTTTCGCCGCTAAATGTTTTGCTATATAAAATGGCT
66 CGGCATTTTTCGCCACTAAATGTTTTGCTATATAAAATGGCC
* * *
35555577 ATTTTTTAAAGTAAAATTATTTTTTGTGTCTTTTTTTATAAAACGCCGCTATTGCTTACCTTTTG
1 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACGCCGCTATTGCTTACCTATTG
*
35555642 CGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCC
66 CGGC-ATTTT-T-----CGCCACTAAATGTTTTGCTATATAAAATGGCC
35555691 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTA
1 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTAT-AAAACGCCGCTA
35555743 AATGTTTTGC
Statistics
Matches: 148, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
107 64 0.43
108 4 0.03
109 1 0.01
114 67 0.45
115 12 0.08
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (107 bp):
ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACGCCGCTATTGCTTACCTATTG
CGGCATTTTTCGCCACTAAATGTTTTGCTATATAAAATGGCC
Found at i:35555736 original size:76 final size:78
Alignment explanation
Indices: 35555637--35555799 Score: 269
Period size: 76 Copynumber: 2.1 Consensus size: 78
35555627 ATTGCTTACC
*
35555637 TTTTGCGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGC-C-ATTTTTT-A
1 TTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTAA
35555699 AAGTAAAATTATT
66 AAGTAAAATTATT
*
35555712 TTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTA
1 TTTTGTGGCG-TTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTA
35555777 AAAGTAAAATTATT
65 AAAGTAAAATTATT
*
35555791 TTCTGTGGC
1 TTTTGTGGC
35555800 TCCGCAATAA
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
75 9 0.11
76 42 0.52
77 1 0.01
78 7 0.09
79 22 0.27
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (78 bp):
TTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTAA
AAGTAAAATTATT
Found at i:35556689 original size:7 final size:7
Alignment explanation
Indices: 35556679--35556703 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35556669 ACTAACTCTT
35556679 AACCCCA
1 AACCCCA
35556686 AACCCCA
1 AACCCCA
35556693 AACCCCA
1 AACCCCA
35556700 AACC
1 AACC
35556704 TCTAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCCCA
Found at i:35556865 original size:89 final size:89
Alignment explanation
Indices: 35556654--35556867 Score: 275
Period size: 89 Copynumber: 2.4 Consensus size: 89
35556644 ACCTCAAATC
* * * *
35556654 TCTAAACCCTAAATCACTAACTCTTAACCCCAAACCCCAAACCCCAAACCTCTAAACCTTATTTA
1 TCTAAACCCTAAA-CCCTAAC-C-TAACCCCAAATCCCAAACCCCAAACCCCTAAACATTATTTA
35556719 ATATAGAAATTAAAAAACACTAATTAA
63 ATATAGAAATTAAAAAACACTAATTAA
* * ** * *
35556746 TCTAAATCATAAACCCTAACCCGACCCCAAATCCCTAACCCCTAACCCCTAAACATTATTTAATA
1 TCTAAACCCTAAACCCTAACCTAACCCCAAATCCCAAACCCCAAACCCCTAAACATTATTTAATA
* *
35556811 TATAAATTAAAACACACTAATTAA
66 TAGAAATTAAAAAACACTAATTAA
* *
35556835 TCTAAACCCTAAACCCCAACCTAACACCAAATC
1 TCTAAACCCTAAACCCTAACCTAACCCCAAATC
35556868 TATAACCCTA
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
89 86 0.83
90 1 0.01
91 6 0.06
92 11 0.11
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (89 bp):
TCTAAACCCTAAACCCTAACCTAACCCCAAATCCCAAACCCCAAACCCCTAAACATTATTTAATA
TAGAAATTAAAAAACACTAATTAA
Found at i:35556887 original size:14 final size:13
Alignment explanation
Indices: 35556870--35556923 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
35556860 ACCAAATCTA
*
35556870 TAACCCTAAATCCC
1 TAACCCTTAA-CCC
*
35556884 TAACTCTTAACCTC
1 TAACCCTTAACC-C
35556898 TAACCCTTAACCC
1 TAACCCTTAACCC
*
35556911 TTAACCCCTAACC
1 -TAACCCTTAACC
35556924 TATAAACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 3 0.09
14 31 0.91
ACGTcount: A:0.31, C:0.43, G:0.00, T:0.26
Consensus pattern (13 bp):
TAACCCTTAACCC
Found at i:35556895 original size:21 final size:20
Alignment explanation
Indices: 35556870--35556923 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
35556860 ACCAAATCTA
*
35556870 TAACCCTAAATCCC-TAACTCT
1 TAACCCT-AA-CCCTTAACCCT
35556891 TAACCTCTAACCCTTAACCCT
1 TAACC-CTAACCCTTAACCCT
35556912 TAACCCCTAACC
1 TAA-CCCTAACC
35556924 TATAAACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.31, C:0.43, G:0.00, T:0.26
Consensus pattern (20 bp):
TAACCCTAACCCTTAACCCT
Found at i:35556933 original size:21 final size:21
Alignment explanation
Indices: 35556889--35556935 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
35556879 ATCCCTAACT
* *
35556889 CTTAACCTCTAACCCTTAACC
1 CTTAACCCCTAACCCTTAAAC
35556910 CTTAACCCCTAA-CCTATAAAC
1 CTTAACCCCTAACCCT-TAAAC
35556931 CTTAA
1 CTTAA
35556936 ATCACAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (21 bp):
CTTAACCCCTAACCCTTAAAC
Found at i:35556946 original size:13 final size:13
Alignment explanation
Indices: 35556928--35556952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35556918 CTAACCTATA
35556928 AACCTTAAATCAC
1 AACCTTAAATCAC
35556941 AACCTTAAATCA
1 AACCTTAAATCA
35556953 GAATCTCTAA
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:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (13 bp):
AACCTTAAATCAC
Found at i:35556976 original size:14 final size:15
Alignment explanation
Indices: 35556954--35556986 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35556944 CTTAAATCAG
*
35556954 AATCTCTAA-TCCAT
1 AATCCCTAATTCCAT
35556968 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
35556983 AATC
1 AATC
35556987 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:35557416 original size:41 final size:41
Alignment explanation
Indices: 35557370--35557555 Score: 282
Period size: 41 Copynumber: 4.5 Consensus size: 41
35557360 CGCTTCTTGG
* *
35557370 AAAACGCCGCTAAAGATCTAAGCATTAGCGGCGCTTTTTCA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
* * * *
35557411 GAAACGCCGGTAAAGATTTGAGTATTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
* *
35557452 AAAATGCCACTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
*
35557493 AAAACGTCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTAA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTT-A
35557535 AAAACGCCGCTAAAGATCTGA
1 AAAACGCCGCTAAAGATCTGA
35557556 AAGGTAGAAA
Statistics
Matches: 128, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 107 0.84
42 21 0.16
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
Found at i:35557659 original size:39 final size:40
Alignment explanation
Indices: 35557611--35557716 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
35557601 TTCCAAAAAA
*
35557611 CGCCACTAATGCTC-ATTTTTAGTGGCGCTTT-CCTAGGAG
1 CGCCGCTAATGCTCGATTTTTAGTGGCGCTTTACCTA-GAG
* ** * * *
35557650 CGCCGCTAATGCTCGATCTTTAGCAGCGTTTTACGTAGTG
1 CGCCGCTAATGCTCGATTTTTAGTGGCGCTTTACCTAGAG
*
35557690 CGCTGCTAATGCTCGATTTTTAGTGGC
1 CGCCGCTAATGCTCGATTTTTAGTGGC
35557717 ATTTTTTGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 13 0.24
40 38 0.70
41 3 0.06
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATTTTTAGTGGCGCTTTACCTAGAG
Found at i:35566440 original size:41 final size:41
Alignment explanation
Indices: 35566369--35566479 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
35566359 AGTTAATTAT
*
35566369 CCCTGAATTGCACATACA-TGCCCCTATTTGTACTTCAGTAC
1 CCCTGAATTGCACATA-AGTGCCCCTGTTTGTACTTCAGTAC
* * *
35566410 CCCTCAATTGTACATAAGTGCCTCTGTTTGTACTTCAGTAC
1 CCCTGAATTGCACATAAGTGCCCCTGTTTGTACTTCAGTAC
* *
35566451 CCTTGAATTGCACATACGTGCCCCTGTTT
1 CCCTGAATTGCACATAAGTGCCCCTGTTT
35566480 ACACTCCGAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
40 1 0.02
41 59 0.98
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (41 bp):
CCCTGAATTGCACATAAGTGCCCCTGTTTGTACTTCAGTAC
Found at i:35570057 original size:19 final size:17
Alignment explanation
Indices: 35570035--35570082 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
35570025 TGTTTATCTC
*
35570035 AAGTAATTATTATTTAAAT
1 AAGTAATT-TTACTT-AAT
35570054 AAGTGAATTTTACTTAAT
1 AAGT-AATTTTACTTAAT
*
35570072 TAGTAATTTTA
1 AAGTAATTTTA
35570083 GACATGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 6 0.23
19 9 0.35
20 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (17 bp):
AAGTAATTTTACTTAAT
Found at i:35575955 original size:16 final size:16
Alignment explanation
Indices: 35575934--35575965 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35575924 TGGTTGAATG
*
35575934 GTATACTTAGTACCAT
1 GTATACGTAGTACCAT
35575950 GTATACGTAGTACCAT
1 GTATACGTAGTACCAT
35575966 TTGGTATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (16 bp):
GTATACGTAGTACCAT
Found at i:35579189 original size:23 final size:23
Alignment explanation
Indices: 35579163--35579209 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
35579153 AAGCTGGAAG
*
35579163 AAAGACTAGACTTAATAGCTTGT
1 AAAGACTAAACTTAATAGCTTGT
35579186 AAAGACTAAACTTAATAGCTTGT
1 AAAGACTAAACTTAATAGCTTGT
35579209 A
1 A
35579210 TCAGGTGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (23 bp):
AAAGACTAAACTTAATAGCTTGT
Found at i:35580915 original size:22 final size:23
Alignment explanation
Indices: 35580889--35580945 Score: 62
Period size: 27 Copynumber: 2.3 Consensus size: 23
35580879 TACAGCATTG
35580889 GTACAGTGTG-GGCCTTAGCCCA
1 GTACAGTGTGTGGCCTTAGCCCA
*
35580911 TTACAGTAACAGTGTGGCCTTAGCCCA
1 GTACAGT----GTGTGGCCTTAGCCCA
35580938 GTACAGTG
1 GTACAGTG
35580946 AAAATGTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
22 6 0.21
23 1 0.04
26 3 0.11
27 18 0.64
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (23 bp):
GTACAGTGTGTGGCCTTAGCCCA
Found at i:35580934 original size:27 final size:28
Alignment explanation
Indices: 35580891--35580974 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
35580881 CAGCATTGGT
*
35580891 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
35580919 ACAGTGT-GGCCTTAGCCCAGTACAGTGA
1 ACAGTGTGGGCCTTAGCCCAATACAGT-A
* *
35580947 A-AATGTGGGTCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
35580974 A
1 A
35580975 ACAGAATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
27 24 0.48
28 26 0.52
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:35581364 original size:27 final size:27
Alignment explanation
Indices: 35581336--35581585 Score: 211
Period size: 27 Copynumber: 9.3 Consensus size: 27
35581326 GGGTATAACA
*
35581336 GTCATTTTACCCTTCAGGGGTATTTCA
1 GTCATTTTACCCTTCAGGGGTATTTCG
* *** * *
35581363 GTTATTTTAAATTTCAAGTGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCG
*
35581390 GTCATTTTACCCATTGA-GGGTATTTCG
1 GTCATTTTACCC-TTCAGGGGTATTTCG
* * *
35581417 ATCATTATACCCATCAGGGGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCG
* **
35581444 GTCATTTTACCCATC-GAGGGTATTTTA
1 GTCATTTTACCCTTCAG-GGGTATTTCG
* * *
35581471 ATTATTTTACCCTTC-GAGGTTATTTCG
1 GTCATTTTACCCTTCAG-GGGTATTTCG
* * *
35581498 GACATTTTACCCATC-GAGGGTATTTCA
1 GTCATTTTACCCTTCAG-GGGTATTTCG
* * *
35581525 ATCATTTTACCCTTCAAGGCTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCG
* *
35581552 GTCATTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCG
35581579 GTCATTT
1 GTCATTT
35581586 GCCCATGAAT
Statistics
Matches: 177, Mismatches: 42, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
26 3 0.02
27 171 0.97
28 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTCAGGGGTATTTCG
Found at i:35581467 original size:81 final size:80
Alignment explanation
Indices: 35581337--35581585 Score: 268
Period size: 81 Copynumber: 3.1 Consensus size: 80
35581327 GGTATAACAG
* * *** *
35581337 TCATTTTACCCTTCAGGGGTATTTCAGTTATTTTAAATTTCAAGTGTATTTCGGTCATTTTACCC
1 TCATTTTACCCATCAGGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCC
35581402 ATTGAGGGTATTTCGA
66 -TTGAGGGTATTTCGA
* * * * *** *
35581418 TCATTATACCCATCAGGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTTAATTATTTTACCC
1 TCATTTTACCCATCAGGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCC
*
35581483 TTCGAGGTTATTTCGGA
66 TT-GAGGGTATTTC-GA
* *
35581500 -CATTTTACCCATC-GAGGGTATTTCAATCATTTTACCCTTCAAGGCTATTTCGGTCATTTTACC
1 TCATTTTACCCATCAG-GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACC
* *
35581563 CTTTAAGGGTATTTCGG
65 C-TTGAGGGTATTTCGA
35581580 TCATTT
1 TCATTT
35581586 GCCCATGAAT
Statistics
Matches: 135, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
80 4 0.03
81 127 0.94
82 4 0.03
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCATCAGGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCC
TTGAGGGTATTTCGA
Found at i:35581585 original size:54 final size:53
Alignment explanation
Indices: 35581336--35581577 Score: 270
Period size: 54 Copynumber: 4.5 Consensus size: 53
35581326 GGGTATAACA
* * * ***
35581336 GTCATTTTACCCTTC-AGGGGTATTTCAGTTATTTTAAATTTCAAGTGTATTTCG
1 GTCATTTTACCCATCGA-GGGTATTTCAATCATTTTACCCTTCAAG-GTATTTCG
* * * * *
35581390 GTCATTTTACCCATTGAGGGTATTTCGATCATTATACCCATCAGGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCAATCATTTTACCCTTCA-AGGTATTTCG
* * *
35581444 GTCATTTTACCCATCGAGGGTATTTTAATTATTTTACCCTTCGAGGTTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCAATCATTTTACCCTTCAAGG-TATTTCG
*
35581498 GACATTTTACCCATCGAGGGTATTTCAATCATTTTACCCTTCAAGGCTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCAATCATTTTACCCTTCAAGG-TATTTCG
* **
35581552 GTCATTTTACCCTTTAAGGGTATTTC
1 GTCATTTTACCCATCGAGGGTATTTC
35581578 GGTCATTTGC
Statistics
Matches: 157, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.01
54 153 0.97
55 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (53 bp):
GTCATTTTACCCATCGAGGGTATTTCAATCATTTTACCCTTCAAGGTATTTCG
Found at i:35588749 original size:26 final size:26
Alignment explanation
Indices: 35588675--35588750 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
35588665 ATACCAATAT
* * *
35588675 CGCAGCAAAGCTACTAG-AATAATAA
1 CGCAGCAAAGCTGCTAGTAACAGTAA
* **
35588700 CGCAGCAAAGCTGCCAGTTGCAGTAA
1 CGCAGCAAAGCTGCTAGTAACAGTAA
*
35588726 CGCAGTAAAGCTGCTAGTAACAGTA
1 CGCAGCAAAGCTGCTAGTAACAGTA
35588751 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 15 0.38
26 25 0.62
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
CGCAGCAAAGCTGCTAGTAACAGTAA
Found at i:35588946 original size:28 final size:28
Alignment explanation
Indices: 35588910--35588971 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
35588900 CATATTTTAA
*
35588910 CTTCTAGGGGTATAACAGTCATTTTACC
1 CTTCGAGGGGTATAACAGTCATTTTACC
**
35588938 CTTCGA-GGGTATTTCAGTCATTTTACC
1 CTTCGAGGGGTATAACAGTCATTTTACC
*
35588965 CATCGAG
1 CTTCGAG
35588972 TGTATTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (28 bp):
CTTCGAGGGGTATAACAGTCATTTTACC
Found at i:35588998 original size:54 final size:54
Alignment explanation
Indices: 35588926--35589204 Score: 267
Period size: 54 Copynumber: 5.1 Consensus size: 54
35588916 GGGGTATAAC
*
35588926 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGTGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* * * * *
35588980 AGTCATTATACTCATCGAGGGTATTTCGGTCATTATACCCATCGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* * * *
35589034 GGTAATTTTA-CCTATC-AGGGGTATTTCAGTTATTTTACCCATCGGGGGTATTTT
1 AGTCATTTTACCCT-TCGA-GGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* **** * ** *
35589088 GGTCATTTTTTTTGTTCGAGAGTATTTTGGTTATTTTACCCATCGAGGGTATTTT
1 AGTCA-TTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* * * * * * *
35589143 -GGCAATTTTACCCTTCAATGCTCTTTCAGTCATGTTACCCTTCGAGGGTATTTT
1 AGTC-ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
35589197 AGTCATTT
1 AGTCATTT
35589205 GCCCACGAAT
Statistics
Matches: 179, Mismatches: 39, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
53 2 0.01
54 134 0.75
55 41 0.23
56 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (54 bp):
AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
Found at i:35589095 original size:27 final size:27
Alignment explanation
Indices: 35588927--35589204 Score: 227
Period size: 27 Copynumber: 10.3 Consensus size: 27
35588917 GGGTATAACA
* **
35588927 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTTG
* *
35588954 GTCATTTTACCCATCGAGTGTATTTTA
1 GTCATTTTACCCATCGAGGGTATTTTG
* * *
35588981 GTCATTATACTCATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTTG
*
35589008 GTCATTATACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTTG
* * **
35589035 GTAATTTTACCTATC-AGGGGTATTTCA
1 GTCATTTTACCCATCGA-GGGTATTTTG
* *
35589062 GTTATTTTACCCATCGGGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTTG
***** *
35589089 GTCATTTTTTTTGTTCGAGAGTATTTTG
1 GTCA-TTTTACCCATCGAGGGTATTTTG
*
35589117 GTTATTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTTG
* * * * * **
35589144 G-CAATTTTACCCTTCAATGCTCTTTCA
1 GTC-ATTTTACCCATCGAGGGTATTTTG
* * *
35589171 GTCATGTTACCCTTCGAGGGTATTTTA
1 GTCATTTTACCCATCGAGGGTATTTTG
35589198 GTCATTT
1 GTCATTT
35589205 GCCCACGAAT
Statistics
Matches: 196, Mismatches: 50, Indels: 10
0.77 0.20 0.04
Matches are distributed among these distances:
26 1 0.01
27 175 0.89
28 20 0.10
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTTG
Found at i:35589153 original size:109 final size:109
Alignment explanation
Indices: 35588930--35589204 Score: 338
Period size: 109 Copynumber: 2.5 Consensus size: 109
35588920 TATAACAGTC
* *
35588930 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGTGTATTTTAGTCA-TTATACTCA
1 ATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTTATACTCA
* *
35588994 TCGAGGGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGTA
66 TCGAGAGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGCA
* * * * * ** *
35589038 ATTTTA-CCTATCAGGGGTATTTCAGTTATTTTACCCATCGGGGGTATTTTGGTCATTTTTTTTG
1 ATTTTACCCT-TCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTTATACTC
* * * *
35589102 TTCGAGAGTATTTTGGTTATTTTACCCATCGAGGGTATTTTGGCA
65 ATCGAGAGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGCA
* * * * *
35589147 ATTTTACCCTTCAATGCTCTTTCAGTCATGTTACCCTTCGAGGGTATTTTAGTCATTT
1 ATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTT
35589205 GCCCACGAAT
Statistics
Matches: 139, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
107 3 0.02
108 45 0.32
109 88 0.63
110 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (109 bp):
ATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTTATACTCA
TCGAGAGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGCA
Found at i:35591168 original size:12 final size:13
Alignment explanation
Indices: 35591144--35591172 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35591134 GGGCTAAAAC
35591144 TATTGCATTTATT
1 TATTGCATTTATT
35591157 TATTGC-TTTATT
1 TATTGCATTTATT
35591169 TATT
1 TATT
35591173 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:35597816 original size:50 final size:50
Alignment explanation
Indices: 35597716--35598005 Score: 318
Period size: 50 Copynumber: 5.7 Consensus size: 50
35597706 TAAAGAGATT
*
35597716 CCATGTAAGACCATGTCTGGGACATTGCATTGGCATCCTTGAGATCATGAGACGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGACGTC
*
35597772 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACGTC
* *
35597822 CCATGTAAGACCATGTCTGGGACATGGCGTTCGCACCGAGATGAGA-GATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACG-TC
** * * *
35597872 CCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC-TC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-ACGTC
* * * * * *
35597922 CCATGTAAGACCATATCTGGGATATGGCATTTGCA--GTACATGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGACGTC
* *
35597971 CCATGTATGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35598006 TGTTATTATC
Statistics
Matches: 204, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
48 3 0.01
49 38 0.19
50 123 0.60
51 1 0.00
53 3 0.01
55 2 0.01
56 34 0.17
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACGTC
Found at i:35597949 original size:150 final size:152
Alignment explanation
Indices: 35597720--35597998 Score: 370
Period size: 150 Copynumber: 1.8 Consensus size: 152
35597710 GAGATTCCAT
* * *
35597720 GTAAGACCATGTCTGGGACATTGCATTGGCATCCTTGAGATCATGAGACGTCCCATGTAAGACCA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCC-T--GATCATGAGACGTCCCATGTAAGACCA
* * * **
35597785 TGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
63 TATCTGGGACATGGCATTGGCA--GTACATGAAACATCCCATGTAAGACCATGTCTGGGACATGG
35597849 CGTTCGCACCGAGATGAGAGATCCCCC
126 CGTTCGCACCGAGATGAGAGATCCCCC
35597876 GTAAGACCATGTCTAGGACATGGCATGGGCA-CC-GAT-ATGAGAAC-TCCCATGTAAGACCATA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCCTGATCATGAG-ACGTCCCATGTAAGACCATA
* * *
35597937 TCTGGGATATGGCATTTGCAGTACATGAAACATCCCATGTATGACCATGTCTGGGACATGGC
65 TCTGGGACATGGCATTGGCAGTACATGAAACATCCCATGTAAGACCATGTCTGGGACATGGC
35597999 TTTGGCATGT
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
148 1 0.01
149 35 0.32
150 39 0.35
151 5 0.05
155 2 0.02
156 28 0.25
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (152 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCATCCTGATCATGAGACGTCCCATGTAAGACCATAT
CTGGGACATGGCATTGGCAGTACATGAAACATCCCATGTAAGACCATGTCTGGGACATGGCGTTC
GCACCGAGATGAGAGATCCCCC
Found at i:35599374 original size:15 final size:16
Alignment explanation
Indices: 35599340--35599378 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
35599330 TAAAGGACTT
35599340 AAGGATTAATGCAAAAA
1 AAGG-TTAATGCAAAAA
*
35599357 AAGGTTAAT-CACAAA
1 AAGGTTAATGCAAAAA
35599372 AAGGTTA
1 AAGGTTA
35599379 TGTCGAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.21
Consensus pattern (16 bp):
AAGGTTAATGCAAAAA
Found at i:35609879 original size:6 final size:6
Alignment explanation
Indices: 35609868--35609894 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
35609858 TGTAAAAATT
35609868 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
35609895 ATAGTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:35614138 original size:46 final size:46
Alignment explanation
Indices: 35614085--35614172 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
35614075 TATAAATGTG
35614085 TCACATGAGTCACATGAGTCAAATGAGAATACTTGGAGATAACACA
1 TCACATGAGTCACATGAGTCAAATGAGAATACTTGGAGATAACACA
*
35614131 TCACATGAGTCACATGAGTCAAATGAGAATAGTTGGAGATAA
1 TCACATGAGTCACATGAGTCAAATGAGAATACTTGGAGATAA
35614173 ATGAAAGTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.23
Consensus pattern (46 bp):
TCACATGAGTCACATGAGTCAAATGAGAATACTTGGAGATAACACA
Found at i:35614229 original size:66 final size:66
Alignment explanation
Indices: 35614148--35614282 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
35614138 AGTCACATGA
35614148 GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
1 GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
35614213 T
66 T
35614214 GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
1 GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
35614279 T
66 T
35614280 GTC
1 GTC
35614283 TCATATATGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.30
Consensus pattern (66 bp):
GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
T
Found at i:35619505 original size:20 final size:21
Alignment explanation
Indices: 35619463--35619507 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
35619453 TGCTAAAGTT
**
35619463 AAAA-AAATCATAAATATCCA
1 AAAATAAATCATAAATATAAA
35619483 AAAATAAAT-ATAAATATAAA
1 AAAATAAATCATAAATATAAA
35619503 AAAAT
1 AAAAT
35619508 TAAAGAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAATAAATCATAAATATAAA
Found at i:35637129 original size:28 final size:28
Alignment explanation
Indices: 35637066--35637218 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
35637056 ATATTAAGTC
* * *
35637066 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
35637093 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
35637121 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
35637149 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
35637177 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
35637204 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35637219 GCACAATTTA
Statistics
Matches: 121, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 39 0.32
28 82 0.68
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:35637237 original size:56 final size:54
Alignment explanation
Indices: 35637065--35637239 Score: 217
Period size: 56 Copynumber: 3.1 Consensus size: 54
35637055 TATATTAAGT
* * * *
35637065 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT-CACAATCAAAC
*
35637120 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCT-ACATAGTCAAAC
1 CCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTCACA-A-TCAAAC
* * *
35637176 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT-CACAA-TCAAAC
35637232 CCGCACAC
1 CCGCACAC
35637240 GTAGCGCCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
54 2 0.02
55 39 0.37
56 62 0.58
57 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (54 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTCACAATCAAAC
Found at i:35655340 original size:6 final size:6
Alignment explanation
Indices: 35655329--35655355 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
35655319 TGTAAAAATT
35655329 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
35655356 ATAGTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:35659556 original size:46 final size:45
Alignment explanation
Indices: 35659499--35659585 Score: 156
Period size: 46 Copynumber: 1.9 Consensus size: 45
35659489 TATAAATGTG
35659499 TCACATAGTCACATGAGTCAAATGAGAATACTTGGAGATAACACA
1 TCACATAGTCACATGAGTCAAATGAGAATACTTGGAGATAACACA
*
35659544 TCACATGAGTCACATGAGTCAAATGAGAATAGTTGGAGATAA
1 TCACAT-AGTCACATGAGTCAAATGAGAATACTTGGAGATAA
35659586 ATGAAAGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
45 6 0.15
46 34 0.85
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACATAGTCACATGAGTCAAATGAGAATACTTGGAGATAACACA
Found at i:35659666 original size:65 final size:66
Alignment explanation
Indices: 35659561--35659694 Score: 261
Period size: 65 Copynumber: 2.0 Consensus size: 66
35659551 AGTCACATGA
35659561 GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
1 GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
35659626 T
66 T
35659627 GTCAAATGAGAA-AGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
1 GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
35659691 T
66 T
35659692 GTC
1 GTC
35659695 TCATATATGT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 56 0.82
66 12 0.18
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (66 bp):
GTCAAATGAGAATAGTTGGAGATAAATGAAAGTATAGGTGATATAAAAAGATAACCTTATGTTTA
T
Done.