Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 309 of 362
Found at i:103522915 original size:20 final size:20
Alignment explanation
Indices: 103522886--103522935 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
103522876 TAAACCCAAA
*
103522886 AAACCATAAACCTA-AAAACC
1 AAACCCTAAACCTAGAAAA-C
103522906 AAACCCTAAACCTAGAAAAC
1 AAACCCTAAACCTAGAAAAC
103522926 AAACCCTAAA
1 AAACCCTAAA
103522936 AACTCTTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.58, C:0.30, G:0.02, T:0.10
Consensus pattern (20 bp):
AAACCCTAAACCTAGAAAAC
Found at i:103523594 original size:9 final size:10
Alignment explanation
Indices: 103523566--103523595 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
103523556 ATCACATGTT
103523566 TTTATTTTAA
1 TTTATTTTAA
103523576 TTTATTTTAA
1 TTTATTTTAA
103523586 TTT-TTTTAA
1 TTTATTTTAA
103523595 T
1 T
103523596 ATCTCCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:103525362 original size:45 final size:45
Alignment explanation
Indices: 103525298--103525391 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
103525288 ATGTGGTAGG
*
103525298 TCATCGTTGCCGGGCAATCCAGGATGACATAAATGAATTAAGAAA
1 TCATCATTGCCGGGCAATCCAGGATGACATAAATGAATTAAGAAA
103525343 TCATCATTGCCGGGCAATCCAGGATGACATAAATGAATTAAGAAA
1 TCATCATTGCCGGGCAATCCAGGATGACATAAATGAATTAAGAAA
103525388 TCAT
1 TCAT
103525392 TGTGGTGGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (45 bp):
TCATCATTGCCGGGCAATCCAGGATGACATAAATGAATTAAGAAA
Found at i:103530916 original size:6 final size:6
Alignment explanation
Indices: 103530907--103530931 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
103530897 ATATCCAGTA
103530907 CCTCTC CCTCTC CCTCTC CCTCTC C
1 CCTCTC CCTCTC CCTCTC CCTCTC C
103530932 ATCCATCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTCTC
Found at i:103530938 original size:4 final size:4
Alignment explanation
Indices: 103530929--103530953 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
103530919 CCTCTCCCTC
103530929 TCCA TCCA TCCA TCCA TCCA TCCA T
1 TCCA TCCA TCCA TCCA TCCA TCCA T
103530954 ATATATCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (4 bp):
TCCA
Found at i:103531302 original size:118 final size:117
Alignment explanation
Indices: 103531094--103531330 Score: 352
Period size: 118 Copynumber: 2.0 Consensus size: 117
103531084 TCTCTTAGAG
***** *
103531094 GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAATTTTTTTGGAAAAATGGAAAACTAAAG
1 GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAAGAAAATTGGAAAAACGGAAAACTAAAG
103531159 GGGGAGAAAAATAGAAAGATAGAAAAAAAATACTATTTTATT-TTCATTGGCAT
66 GGGGAGAAAAATAGAAAGATAGAAAAAAAATACT-TTTT-TTCTTCATTGGCAT
* *
103531212 GCATATTAACTTTAAGGCTTTGCTTGGTAAGGTGAAAAGAAAATTGGAAAAACGGAAAATTAAA-
1 GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAAGAAAATTGGAAAAACGGAAAACTAAAG
*
103531276 GGGGAGAAACATAGAAAGATAGGAAAAAAAATACTTTTTTTCTTCATTGGCAT
66 GGGGAGAAAAATAGAAAGATA-GAAAAAAAATACTTTTTTTCTTCATTGGCAT
103531329 GC
1 GC
103531331 TTAGTAGGAA
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
116 2 0.02
117 37 0.34
118 69 0.64
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (117 bp):
GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAAGAAAATTGGAAAAACGGAAAACTAAAG
GGGGAGAAAAATAGAAAGATAGAAAAAAAATACTTTTTTTCTTCATTGGCAT
Found at i:103535575 original size:3 final size:3
Alignment explanation
Indices: 103535567--103535599 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
103535557 AGGAAGGAAG
103535567 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
103535600 AACAACATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:103540352 original size:27 final size:27
Alignment explanation
Indices: 103540320--103540371 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
103540310 AACAAAAATT
*
103540320 GAGAGAATTGAAATTTTAGAGAGAACA
1 GAGAGAATTGAAAGTTTAGAGAGAACA
103540347 GAGAGAATTGAAAGTTTAGAGAGAA
1 GAGAGAATTGAAAGTTTAGAGAGAA
103540372 AAGAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (27 bp):
GAGAGAATTGAAAGTTTAGAGAGAACA
Found at i:103542812 original size:131 final size:131
Alignment explanation
Indices: 103542578--103542838 Score: 459
Period size: 131 Copynumber: 2.0 Consensus size: 131
103542568 AATTTAGAGA
* *
103542578 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGTAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
**
103542643 GATAGGACATGATTCCCCGAATGGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
66 GATAGGACACAATTCCCCGAATGGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
103542708 G
131 G
103542709 ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
* * *
103542774 GATAGGGCACAATTCCCCGAATGGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA
66 GATAGGACACAATTCCCCGAATGGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
103542839 TGAATAATTA
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 123 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (131 bp):
ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
GATAGGACACAATTCCCCGAATGGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
G
Found at i:103544534 original size:23 final size:21
Alignment explanation
Indices: 103544482--103544577 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
103544472 CCTGATCAGT
** * *
103544482 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
103544503 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
103544524 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
103544545 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
103544566 AAATACGACACA
1 --ATACGACACA
103544578 TAAAGTGTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:103544985 original size:15 final size:15
Alignment explanation
Indices: 103544960--103545016 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
103544950 TCATGTATAT
103544960 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
103544976 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
103544991 -ATAATTTCAATCAA
1 TATAAATTCAATCAA
103545005 TATAAATTCAAT
1 TATAAATTCAAT
103545017 AAATTCATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 13 0.34
15 21 0.55
16 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:103545001 original size:29 final size:27
Alignment explanation
Indices: 103544963--103545020 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
103544953 TGTATATTAT
103544963 ATAATTCAATCAATATAAATTCAATCAA
1 ATAATTCAATCAATATAAATTCAAT-AA
103544991 ATAATTTCAATCAATATAAATTCAATAA
1 ATAA-TTCAATCAATATAAATTCAATAA
103545019 AT
1 AT
103545021 TCATCGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAATTCAATCAATATAAATTCAATAA
Found at i:103548626 original size:34 final size:34
Alignment explanation
Indices: 103548522--103548626 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
103548512 GGTTTAAAAT
*
103548522 TTTTTAA-AAAA-TAATTAAATTAGGTTTTAAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGATTT-AGGG
* **
103548555 -TTTTAAGTAAATTAATTAAATTAAAATTTAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGATTTAGGG
*
103548588 TTTTTAAGAAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGATTTAGGG
103548622 TTTTT
1 TTTTT
103548627 TAAAAATAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
32 6 0.10
33 7 0.11
34 48 0.79
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (34 bp):
TTTTTAAGAAAATTAATTAAATTAGGATTTAGGG
Found at i:103549097 original size:125 final size:124
Alignment explanation
Indices: 103548720--103549237 Score: 621
Period size: 126 Copynumber: 4.2 Consensus size: 124
103548710 GATTTTGTTT
* * * ** * *
103548720 TTTTTCTACAGTAGTTTCTGAAAAATTAATTATGAGAAGACAATTCTAAAAAAATAGTGA-CAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAAT-ATCAAA
* * * ** * *
103548784 AACACTTCAAGCAGGATACACTATCAACAAAAGTACTG-AAAAAGCTCCCACGTGGATGCTC
64 AACGCTTCAAGCA-GATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
103548845 TTTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAA-AATGTCAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAAA
* *
103548908 CACTTCAAGCAGTATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
66 CGCTTCAAGCAG-ATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
103548968 TTTTTATACAGCAGTTCCTGAAAAATAATTTTGAGAAGGCGGTTTTGAAAAAATAATATCAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAAA
* * *
103549033 CGCTTCAAACATGATGCACTGTTAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTA
66 CGCTTCAAGCA-GATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* ** * **
103549093 TTTTTCTACAGTATTTCCTAAAAATATAATTTTGAGAAGACAATTCTAAAAAAATTGTATCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAA-ATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAA
* *
103549158 ACGCTTCAAGCAGGATTCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 ACGCTTCAAGCA-GATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
103549219 TTTTTCTATAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
103549238 GCTTGGCCTT
Statistics
Matches: 341, Mismatches: 45, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
121 1 0.00
122 37 0.11
123 68 0.20
124 27 0.08
125 102 0.30
126 106 0.31
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAAA
CGCTTCAAGCAGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:103549190 original size:126 final size:125
Alignment explanation
Indices: 103548720--103549237 Score: 627
Period size: 125 Copynumber: 4.2 Consensus size: 125
103548710 GATTTTGTTT
* *
103548720 TTTTTCTACAGTAGTTT-CTGAAAAATTAATTATGAGAAGACAATTCTAAAAAAATAGTGA-CAA
1 TTTTTCTACAGTA-TTTCCT-AAAAAATAATTTTGAGAAGACAATTCTAAAAAAATAGT-ATCAA
* ** * *
103548783 AAACACTTCAAGCAGGATACACTATCAACAAAAGTACTG-AAAAAGCTCCCACGTGGATGCTC
63 AAACACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
***
103548845 TTTTTCTACAGTAGTTT-CTAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAAAT-G--TCAAA
1 TTTTTCTACAGTA-TTTCCTAAAAAATAATTTTGAGAAGACAATTCT-AAAAAAATAGTATCAAA
* * *
103548906 AACACTTCAAGCAGTATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
64 AACACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * ** * * *
103548968 TTTTTATACAGCAGTTCCTGAAAAATAATTTTGAGAAGGCGGTTTTGAAAAAATAATATCAAAAA
1 TTTTTCTACAGTATTTCCTAAAAAATAATTTTGAGAAGACAATTCTAAAAAAATAGTATCAAAAA
* * * * * *
103549033 CGCTTCAAACATGATGCACTGTTAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTA
66 CACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
103549093 TTTTTCTACAGTATTTCCTAAAAATATAATTTTGAGAAGACAATTCTAAAAAAATTGTATCAAAA
1 TTTTTCTACAGTATTTCCTAAAAA-ATAATTTTGAGAAGACAATTCTAAAAAAATAGTATCAAAA
* *
103549158 ACGCTTCAAGCAGGATTCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 ACACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
103549219 TTTTTCTATAGTAGTTCCT
1 TTTTTCTACAGTATTTCCT
103549238 GCTTGGCCTT
Statistics
Matches: 339, Mismatches: 46, Indels: 15
0.85 0.12 0.04
Matches are distributed among these distances:
122 45 0.13
123 59 0.17
124 23 0.07
125 107 0.32
126 105 0.31
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTATTTCCTAAAAAATAATTTTGAGAAGACAATTCTAAAAAAATAGTATCAAAAA
CACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:103554110 original size:18 final size:18
Alignment explanation
Indices: 103554070--103554112 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
103554060 GACTGGGAAA
* *
103554070 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
103554088 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
103554106 CGGATAC
1 AGGATAC
103554113 GCATCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:103559985 original size:24 final size:24
Alignment explanation
Indices: 103559941--103559986 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
103559931 ATATATACCA
103559941 ATTCAATCAATATAAATTCAATAT
1 ATTCAATCAATATAAATTCAATAT
103559965 ATTC-ATCACATACTAAA-TCAAT
1 ATTCAATCA-ATA-TAAATTCAAT
103559987 CCATTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTCAATCAATATAAATTCAATAT
Found at i:103560754 original size:25 final size:21
Alignment explanation
Indices: 103560725--103560779 Score: 56
Period size: 25 Copynumber: 2.4 Consensus size: 21
103560715 CTTATTTTAT
103560725 TATTATAATGTAATATATACTTAA
1 TATTATAATGTAATAT-TA--TAA
* *
103560749 TAATTAAAATTTAATATTATAA
1 T-ATTATAATGTAATATTATAA
103560771 TATTATAAT
1 TATTATAAT
103560780 ATATATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.26
22 4 0.15
24 3 0.11
25 13 0.48
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTATAATGTAATATTATAA
Found at i:103569019 original size:26 final size:26
Alignment explanation
Indices: 103568990--103569071 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
103568980 TGATACAAAT
103568990 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
103569016 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103569042 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103569068 TGAT
1 TGAT
103569072 GGAAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:103569524 original size:12 final size:12
Alignment explanation
Indices: 103569507--103569531 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103569497 AAAATGATGA
103569507 AATGGAGATTAT
1 AATGGAGATTAT
103569519 AATGGAGATTAT
1 AATGGAGATTAT
103569531 A
1 A
103569532 CTTAAGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
AATGGAGATTAT
Found at i:103575788 original size:26 final size:26
Alignment explanation
Indices: 103575759--103575866 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
103575749 TGATACAAAT
103575759 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
103575785 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103575811 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103575837 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
103575863 TGAT
1 TGAT
103575867 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:103576318 original size:12 final size:12
Alignment explanation
Indices: 103576301--103576325 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103576291 AAAATGATGA
103576301 AATGGAGATTAT
1 AATGGAGATTAT
103576313 AATGGAGATTAT
1 AATGGAGATTAT
103576325 A
1 A
103576326 CTTAAGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
AATGGAGATTAT
Found at i:103579638 original size:6 final size:6
Alignment explanation
Indices: 103579600--103579773 Score: 124
Period size: 6 Copynumber: 28.3 Consensus size: 6
103579590 AAGAAACATT
* * * *
103579600 ATCAGA A-CTAGA ATCAAA ATGAGA ATCATA ATCAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
103579648 ATCAG- GTGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
103579698 ATCAGA ATCAGT TTCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
*
103579747 ATTAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
103579774 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
5 8 0.06
6 108 0.82
7 11 0.08
8 5 0.04
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:103579676 original size:37 final size:37
Alignment explanation
Indices: 103579621--103579707 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
103579611 AATCAAAATG
* * * *
103579621 AGAATCATAATCAGAATCAGAATTAGAATCAGGTGAC
1 AGAATCAAAATCAAAATCAGAATCAGAATCAGGTAAC
*
103579658 AGAATCAAAATCAAAATCAGAATCAGAATTAGGTAAC
1 AGAATCAAAATCAAAATCAGAATCAGAATCAGGTAAC
*
103579695 AGAATCAGAATCA
1 AGAATCAAAATCA
103579708 GTTTCAGGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:103579699 original size:19 final size:19
Alignment explanation
Indices: 103579675--103579767 Score: 100
Period size: 19 Copynumber: 4.6 Consensus size: 19
103579665 AAATCAAAAT
103579675 CAGAATCAGAATTAGGTAA
1 CAGAATCAGAATTAGGTAA
103579694 CAGAATCAGAATCAGTTTCAGGTAA
1 CAGAATCAG-A--A--TT-AGGTAA
*
103579719 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
103579736 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
103579756 CAGAATCAGAAT
1 CAGAATCAGAAT
103579768 CAGAATGTGA
Statistics
Matches: 63, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.03
18 14 0.22
19 23 0.37
20 4 0.06
22 2 0.03
24 3 0.05
25 15 0.24
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:103579700 original size:25 final size:26
Alignment explanation
Indices: 103579672--103579735 Score: 105
Period size: 25 Copynumber: 2.5 Consensus size: 26
103579662 TCAAAATCAA
103579672 AATCAGAATCAGAATT-AGGTAACAG
1 AATCAGAATCAGAATTCAGGTAACAG
*
103579697 AATCAGAATCAG-TTTCAGGTAACAG
1 AATCAGAATCAGAATTCAGGTAACAG
103579722 AATCAGAATCAGAA
1 AATCAGAATCAGAA
103579736 CCAGAATCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (26 bp):
AATCAGAATCAGAATTCAGGTAACAG
Found at i:103579701 original size:31 final size:31
Alignment explanation
Indices: 103579666--103579773 Score: 123
Period size: 31 Copynumber: 3.5 Consensus size: 31
103579656 ACAGAATCAA
*
103579666 AATCAAAATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGAATTAGGTAACAG
** *
103579697 AATCAGAATCAGTTTCAGGTAA-CA-G-AATCAG
1 AATCAGAATCAGAATCA-G-AATTAGGTAA-CAG
*
103579728 AATCAGAACCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGAATTAGGTAACAG
103579759 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
103579774 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 50 0.81
32 4 0.06
33 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATTAGGTAACAG
Found at i:103579703 original size:62 final size:62
Alignment explanation
Indices: 103579632--103579773 Score: 221
Period size: 62 Copynumber: 2.3 Consensus size: 62
103579622 GAATCATAAT
* * *
103579632 CAGAATCAGAATTAGAATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAAAATCAAAACCAGAATCAGAATTAGGTAA
** * *
103579694 CAGAATCAGAATCAGTTTCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAAAATCAAAACCAGAATCAGAATTAGGTAA
103579756 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
103579774 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAAAATCAAAACCAGAATCAGAATTAGGTAA
Found at i:103579735 original size:37 final size:37
Alignment explanation
Indices: 103579694--103579773 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
103579684 AATTAGGTAA
*
103579694 CAGAATCAGAATCAG-TTTCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATT-AGGTAACAGAATCAGAAT
*
103579731 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAAT
103579768 CAGAAT
1 CAGAAT
103579774 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 37 0.95
38 2 0.05
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAAT
Found at i:103580331 original size:27 final size:27
Alignment explanation
Indices: 103580276--103580448 Score: 193
Period size: 27 Copynumber: 6.1 Consensus size: 27
103580266 ACATCTTAAC
* * *
103580276 GGTAAAATGGTAATTTTATAAATCAAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
103580303 GGTAAAATGGTAATTCTGTAAATCGAGGGTCGAG
1 GGTAAAATGGTAATTCTGT-AA---A---TCGAG
*
103580337 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
* * * *
103580364 GATAAAATAGTGATTTTGTAAATCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
103580391 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
* *
103580418 GGTAAAATGGTAATTCTATAAATCGGG
1 GGTAAAATGGTAATTCTGTAAATCGAG
103580445 GGTA
1 GGTA
103580449 CTTTGGTAAT
Statistics
Matches: 126, Mismatches: 13, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
27 98 0.78
28 2 0.02
30 1 0.01
31 1 0.01
33 2 0.02
34 22 0.17
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
GGTAAAATGGTAATTCTGTAAATCGAG
Found at i:103580570 original size:28 final size:27
Alignment explanation
Indices: 103580444--103580571 Score: 116
Period size: 27 Copynumber: 4.7 Consensus size: 27
103580434 TATAAATCGG
* * *
103580444 GGGTACTTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTTGGTAATTTTACAAACT-AA
* ** * *
103580471 GGGCATTTCAGTAATTTCACAAA-TCA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
103580497 GAGGTATTTTGGTAATTTTACGAACTAA
1 G-GGTATTTTGGTAATTTTACAAACTAA
*
103580525 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
*
103580552 GGGTGTTTTTGGTAATTTTA
1 GGGT-ATTTTGGTAATTTTA
103580572 TAGGTCGAGG
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.02
27 61 0.74
28 19 0.23
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:103580583 original size:55 final size:53
Alignment explanation
Indices: 103580445--103580595 Score: 142
Period size: 54 Copynumber: 2.8 Consensus size: 53
103580435 ATAAATCGGG
* * * **
103580445 GGTACTTTGGTAATTTTACAAGTCGAGGGCATTTCAGTAATTTCACAAATCAGA
1 GGTATTTTGGTAATTTTA-AGGTCGAGGGTATTTTGGTAATTTCACAAATCAGA
* ** * * *
103580499 GGTATTTTGGTAATTTTACGAACTAAGGGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTAAGGTC-GAGGGTATTTTGGTAATTTCACAAATC-AGA
*
103580553 GGTGTTTTTGGTAATTTTATAGGTCGAGGGTATTTTGGTAATT
1 GGT-ATTTTGGTAATTTTA-AGGTCGAGGGTATTTTGGTAATT
103580596 CTACCCTACA
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
53 2 0.03
54 42 0.55
55 31 0.40
56 2 0.03
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (53 bp):
GGTATTTTGGTAATTTTAAGGTCGAGGGTATTTTGGTAATTTCACAAATCAGA
Found at i:103580614 original size:27 final size:27
Alignment explanation
Indices: 103580590--103580660 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
103580580 GGGTATTTTG
103580590 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* * *
103580617 GTACTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
103580644 GTAATGCTAGCCTACAG
1 GTAATTCTACCCTACAG
103580661 ATATGAGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:103582503 original size:6 final size:6
Alignment explanation
Indices: 103582473--103582628 Score: 106
Period size: 6 Copynumber: 25.3 Consensus size: 6
103582463 AAGAAACATT
* * *
103582473 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
103582522 ATCAAA ATCAAA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGA ACCAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
103582571 ATCAAA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
103582621 ATCAGA AT
1 ATCAGA AT
103582629 GTGAATGCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
5 8 0.07
6 94 0.80
7 10 0.08
8 6 0.05
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:103582537 original size:31 final size:31
Alignment explanation
Indices: 103582496--103582628 Score: 128
Period size: 31 Copynumber: 4.3 Consensus size: 31
103582486 TCAAAATGAG
*
103582496 AATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
* * *
103582527 AATCAAAATCAGAATTAGGTAACAGAATCAG
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
* * * *
103582558 AATCAGAACCAGAATCA--AAATTAGGTAA-CAG
1 AATCAGAATCAGAATCAGGTAA-CA-G-AATCAA
* *
103582589 AATCAGAATCAGTATCAGGTAACAGAATCAG
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
103582620 AATCAGAAT
1 AATCAGAAT
103582629 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
29 2 0.02
30 3 0.04
31 73 0.88
32 3 0.04
33 2 0.02
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:103582600 original size:37 final size:37
Alignment explanation
Indices: 103582518--103582600 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
103582508 AATCAGGTGA
* * *
103582518 CAGAATCAAAATCAAAATCAGAATTAGGTAACAGAAT
1 CAGAATCAGAACCAAAATCAAAATTAGGTAACAGAAT
*
103582555 CAGAATCAGAACCAGAATCAAAATTAGGTAACAGAAT
1 CAGAATCAGAACCAAAATCAAAATTAGGTAACAGAAT
103582592 CAGAATCAG
1 CAGAATCAG
103582601 TATCAGGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.17
Consensus pattern (37 bp):
CAGAATCAGAACCAAAATCAAAATTAGGTAACAGAAT
Found at i:103582625 original size:25 final size:25
Alignment explanation
Indices: 103582549--103582628 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
103582539 AATTAGGTAA
*
103582549 CAGAATCA-G-AATCAGAACCAGAAT
1 CAGAATCAGGTAA-CAGAATCAGAAT
* *
103582573 CAAAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAAT
*
103582598 CAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAAT
103582623 CAGAAT
1 CAGAAT
103582629 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
24 6 0.13
25 39 0.83
26 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.17
Consensus pattern (25 bp):
CAGAATCAGGTAACAGAATCAGAAT
Found at i:103582795 original size:27 final size:26
Alignment explanation
Indices: 103582747--103582806 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
103582737 GCGAGGCTGT
*
103582747 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
103582774 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
103582800 CAGATAT
1 CAGATAT
103582807 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:103582851 original size:71 final size:67
Alignment explanation
Indices: 103582774--103582911 Score: 195
Period size: 67 Copynumber: 2.0 Consensus size: 67
103582764 TCACCAGATA
* * *
103582774 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
103582839 GGCTGC
62 GGCTGC
* *
103582845 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
103582910 GC
66 GC
103582912 TAGAACACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
67 37 0.60
71 25 0.40
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:103582893 original size:27 final size:26
Alignment explanation
Indices: 103582845--103582896 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
103582835 GCGAGGCTGC
*
103582845 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
103582871 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
103582897 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:103583147 original size:27 final size:26
Alignment explanation
Indices: 103583132--103583324 Score: 197
Period size: 27 Copynumber: 7.2 Consensus size: 26
103583122 ACATCCTAGC
103583132 GGTAAAATGGTAATTTTATAAATCGAG
1 GGTAAAATGGTAA-TTTATAAATCGAG
*
103583159 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAA-TTTATAAATCGAG
** *
103583186 GGTAAAATAATAATTCTGTAAATCGAG
1 GGTAAAATGGTAATT-TATAAATCGAG
103583213 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATT-TATAAATCGAG
* * * *
103583240 GATAAAATAGTGATTTTGTAAATCGAG
1 GGTAAAATGGT-AATTTATAAATCGAG
*** * *
103583267 GGTAAAACAATAATTTTGTATATCGAG
1 GGTAAAATGGTAA-TTTATAAATCGAG
*
103583294 GGTAAAATGGTAATTCTATAAATCGGG
1 GGTAAAATGGTAATT-TATAAATCGAG
103583321 GGTA
1 GGTA
103583325 CTTTGGTAAT
Statistics
Matches: 141, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.04
27 133 0.94
28 3 0.02
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (26 bp):
GGTAAAATGGTAATTTATAAATCGAG
Found at i:103583337 original size:54 final size:54
Alignment explanation
Indices: 103583132--103583324 Score: 242
Period size: 54 Copynumber: 3.6 Consensus size: 54
103583122 ACATCCTAGC
* *
103583132 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAG
* * * *
103583186 GGTAAAATAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAG
* * * * *** *
103583240 GATAAAATAGTGATTTTGTAAATCGAGGGTAAAACAATAATTTTGTATATCGAG
1 GGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAG
* *
103583294 GGTAAAATGGTAATTCTATAAATCGGGGGTA
1 GGTAAAATAGTAATTCTATAAATCGAGGGTA
103583325 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (54 bp):
GGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAG
Found at i:103583350 original size:27 final size:26
Alignment explanation
Indices: 103583320--103583416 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 26
103583310 TATAAATCGG
* *
103583320 GGGTACTTTGGTAATTTTACAAGTTAA
1 GGGTATTTTGGTAATTTTACAA-ATAA
** * *
103583347 GGGTATTTCAGTAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTACAAATAA
103583373 GAGGTATTTTGGTAATTTTACAAACTAA
1 G-GGTATTTTGGTAATTTTACAAA-TAA
103583401 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
103583417 CTACCCTACA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.05
27 52 0.90
28 3 0.05
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAA
Found at i:103583351 original size:81 final size:81
Alignment explanation
Indices: 103583132--103583324 Score: 314
Period size: 81 Copynumber: 2.4 Consensus size: 81
103583122 ACATCCTAGC
* *
103583132 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAAT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAAT
103583197 AATTCTGTAAATCGAG
66 AATTCTGTAAATCGAG
* * *
103583213 GGTAAAATGGTAATTCTATAAATCGAGGATAAAATAGTGATTTTGTAAATCGAGGGTAAAACAAT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAAT
* *
103583278 AATTTTGTATATCGAG
66 AATTCTGTAAATCGAG
*
103583294 GGTAAAATGGTAATTCTATAAATCGGGGGTA
1 GGTAAAATGGTAATTCTATAAATCGAGGGTA
103583325 CTTTGGTAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (81 bp):
GGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAAT
AATTCTGTAAATCGAG
Found at i:103583361 original size:54 final size:54
Alignment explanation
Indices: 103583303--103583420 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
103583293 GGGTAAAATG
* * * **
103583303 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTAAGGGTATTTCA
1 GTAATTCTACAAATCAGAGGTACTTTGGTAATTTTACAAACTAAGGGTATTTCA
* **
103583357 GTAATT-TCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTG
1 GTAATTCT-ACAAATCAGAGGTACTTTGGTAATTTTACAAACTAAGGGTATTTCA
103583411 GTAATTCTAC
1 GTAATTCTAC
103583421 CCTACAGGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.02
54 52 0.96
55 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
GTAATTCTACAAATCAGAGGTACTTTGGTAATTTTACAAACTAAGGGTATTTCA
Found at i:103583435 original size:27 final size:27
Alignment explanation
Indices: 103583411--103583480 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
103583401 GGGTATTTTG
*
103583411 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
103583438 GTACTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* * *
103583465 ATAATGCTAGCCTACA
1 GTAATTCTACCCTACA
103583481 GATATGAGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:103584421 original size:71 final size:71
Alignment explanation
Indices: 103584202--103584424 Score: 349
Period size: 71 Copynumber: 3.1 Consensus size: 71
103584192 GGGTGTTACA
* * * **
103584202 GTATCGGTAGAAGTGCAGGGGATGCTGAACTTTGGCTACTAACTTGACTTGTTTCAATAGAAGTC
1 GTATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCTGTAGAAGTC
*
103584267 TTCAAG
66 CTCAAG
* *
103584273 GTATCGGTAGAAGTGCTGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTT-TGGTAGAAGT
1 GTATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCT-GTAGAAGT
103584337 CCTCAAG
65 CCTCAAG
*
103584344 GTATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTGACTTGACTTGTTTCTGTAGAAGTC
1 GTATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCTGTAGAAGTC
103584409 CTCAAG
66 CTCAAG
103584415 GTATCGATAG
1 GTATCGATAG
103584425 TAGTCTCAGG
Statistics
Matches: 141, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
71 140 0.99
72 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (71 bp):
GTATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCTGTAGAAGTC
CTCAAG
Found at i:103587416 original size:19 final size:19
Alignment explanation
Indices: 103587388--103587441 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
103587378 ACAATTTATA
103587388 AAAATTTTAATTTTTGTAT
1 AAAATTTTAATTTTTGTAT
* *
103587407 AAATTTTTAAATTTTTTTAT
1 AAAATTTT-AATTTTTGTAT
103587427 AAAATTTT-ATTTTTG
1 AAAATTTTAATTTTTG
103587442 AAATTGCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 17 0.57
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
AAAATTTTAATTTTTGTAT
Found at i:103599616 original size:13 final size:12
Alignment explanation
Indices: 103599590--103599633 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
103599580 CAAACAACGT
103599590 AAAAATAGCACA
1 AAAAATAGCACA
*
103599602 AAAAATAGCACC
1 AAAAATAGCACA
*
103599614 AAACA-A-CACA
1 AAAAATAGCACA
103599624 AAAAATAGCA
1 AAAAATAGCA
103599634 TCACCAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 17 0.65
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAATAGCACA
Found at i:103599619 original size:33 final size:32
Alignment explanation
Indices: 103599559--103599620 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
103599549 AAACAACACT
*
103599559 AAAATAGCAACAAAACAACACCAAACAACGTA
1 AAAATAGCAACAAAAAAACACCAAACAACGTA
103599591 AAAATAGC-ACAAAAAATAGCACCAAACAAC
1 AAAATAGCAACAAAAAA-A-CACCAAACAAC
103599621 ACAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 9 0.33
33 11 0.41
ACGTcount: A:0.63, C:0.24, G:0.06, T:0.06
Consensus pattern (32 bp):
AAAATAGCAACAAAAAAACACCAAACAACGTA
Found at i:103599627 original size:33 final size:31
Alignment explanation
Indices: 103599549--103599633 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 31
103599539 CTAAGTATAA
* *
103599549 AAACAACACTAAAATAGCAACAAAACAACACC
1 AAACAACACAAAAATAGC-ACAAAAAAACACC
**
103599581 AAACAACGTAAAAATAGCACAAAAAATAGCACC
1 AAACAACACAAAAATAGCACAAAAAA-A-CACC
103599614 AAACAACACAAAAAATAGCA
1 AAACAACAC-AAAAATAGCA
103599634 TCACCAACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
31 7 0.16
32 16 0.36
33 11 0.25
34 10 0.23
ACGTcount: A:0.64, C:0.24, G:0.06, T:0.07
Consensus pattern (31 bp):
AAACAACACAAAAATAGCACAAAAAAACACC
Found at i:103599642 original size:24 final size:22
Alignment explanation
Indices: 103599598--103599661 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
103599588 GTAAAAATAG
103599598 CACAAAAAATAGCACCAAACAA
1 CACAAAAAATAGCACCAAACAA
*
103599620 CACAAAAAATAGCATCACCAACAA
1 CACAAAAAATAGCA-C-CAAACAA
*
103599644 CAC-CAAAATAGCACCAAA
1 CACAAAAAATAGCACCAAA
103599662 AACCTGTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 15 0.41
23 10 0.27
24 9 0.24
ACGTcount: A:0.59, C:0.30, G:0.05, T:0.06
Consensus pattern (22 bp):
CACAAAAAATAGCACCAAACAA
Found at i:103599648 original size:34 final size:31
Alignment explanation
Indices: 103599549--103599650 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 31
103599539 CTAAGTATAA
*
103599549 AAACAACACTAAAATAGCAACAAAACAACACC
1 AAACAACACAAAAATAGC-ACAAAACAACACC
** *
103599581 AAACAACGTAAAAATAGCACAAAAAATAGCACC
1 AAACAACACAAAAATAGCACAAAACA-A-CACC
*
103599614 AAACAACACAAAAAATAGCATCACCAACAACACC
1 AAACAACAC-AAAAATAGCA-CA-AAACAACACC
103599648 AAA
1 AAA
103599651 ATAGCACCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
31 7 0.12
32 16 0.28
33 11 0.19
34 17 0.30
35 3 0.05
36 3 0.05
ACGTcount: A:0.62, C:0.26, G:0.05, T:0.07
Consensus pattern (31 bp):
AAACAACACAAAAATAGCACAAAACAACACC
Found at i:103601233 original size:18 final size:18
Alignment explanation
Indices: 103601207--103601242 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
103601197 GAAGTTAGAC
103601207 AAATGAAACCAGGTGCTT
1 AAATGAAACCAGGTGCTT
* *
103601225 AAATTAAACTAGGTGCTT
1 AAATGAAACCAGGTGCTT
103601243 TAGCCAACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (18 bp):
AAATGAAACCAGGTGCTT
Found at i:103602665 original size:14 final size:15
Alignment explanation
Indices: 103602642--103602670 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
103602632 AAAAATCTAC
103602642 AGAACAAAAAGAAAA
1 AGAACAAAAAGAAAA
103602657 AGAAC-AAAAGAAAA
1 AGAACAAAAAGAAAA
103602671 GAGCTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (15 bp):
AGAACAAAAAGAAAA
Found at i:103623819 original size:19 final size:19
Alignment explanation
Indices: 103623783--103623819 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
103623773 TAATTAGGCT
* *
103623783 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
103623802 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
103623820 GAAAAAGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:103625427 original size:13 final size:13
Alignment explanation
Indices: 103625409--103625434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103625399 ATTTGATTGG
103625409 AATATGAATTAAA
1 AATATGAATTAAA
103625422 AATATGAATTAAA
1 AATATGAATTAAA
103625435 TAAAAGTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AATATGAATTAAA
Found at i:103625824 original size:23 final size:23
Alignment explanation
Indices: 103625780--103625842 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
103625770 GTCGATCAAG
* *
103625780 CACTTTATATGTCATATATCAGA
1 CACTTTATGTGTCGTATATCAGA
* * *
103625803 CACTTTATGTGTTGTATTTCAGG
1 CACTTTATGTGTCGTATATCAGA
* *
103625826 CGCCTTATGTGTCGTAT
1 CACTTTATGTGTCGTAT
103625843 CAGGCACCTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (23 bp):
CACTTTATGTGTCGTATATCAGA
Found at i:103625847 original size:21 final size:20
Alignment explanation
Indices: 103625807--103625882 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
103625797 ATCAGACACT
*
103625807 TTATGTGTTGTATTTCAGGCGCC
1 TTATGTGTCGTA--TCAGGC-CC
103625830 TTATGTGTCGTATCAGGCACC
1 TTATGTGTCGTATCAGGC-CC
** * *
103625851 TCGTGTGTCGTTTCAGGCAC
1 TTATGTGTCGTATCAGGCCC
103625871 TTAT-TGTCGTAT
1 TTATGTGTCGTAT
103625883 ACTGATCAGG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 7 0.16
20 3 0.07
21 23 0.52
23 11 0.25
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (20 bp):
TTATGTGTCGTATCAGGCCC
Found at i:103627479 original size:57 final size:58
Alignment explanation
Indices: 103627414--103627526 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 58
103627404 TTTTCAGGTC
* * * *
103627414 ATTTTCATTTTGGAGAAAACCACATTCATTTCTAGATGATTTC-ATTTCTCCATTTTT
1 ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTTTT
* *
103627471 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGCTTCCTATTTCTCCATTT
1 ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
103627527 CACCATTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 37 0.76
58 12 0.24
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTTTT
Found at i:103631097 original size:47 final size:47
Alignment explanation
Indices: 103631029--103631201 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
103631019 ATCCATAAGT
103631029 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
103631076 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * *
103631123 AAACTTGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
*
103631169 GAACTCGCACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
103631202 CAAATATCCT
Statistics
Matches: 111, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 3 0.03
46 25 0.23
47 73 0.66
48 1 0.01
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:103637006 original size:46 final size:46
Alignment explanation
Indices: 103636939--103637203 Score: 249
Period size: 46 Copynumber: 5.7 Consensus size: 46
103636929 TGTAACCCGC
*
103636939 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
103636985 CCATAAGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* *** *
103637035 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
103637078 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--GC---GTTCGCAT
* *
103637128 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
103637171 CCATAAGTGAACTCGCACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
103637204 TGGATGCCCA
Statistics
Matches: 175, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.03
44 3 0.02
45 6 0.03
46 83 0.47
47 53 0.30
48 6 0.03
49 3 0.02
50 6 0.03
51 5 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:103637054 original size:93 final size:93
Alignment explanation
Indices: 103636946--103637211 Score: 451
Period size: 93 Copynumber: 2.9 Consensus size: 93
103636936 CGCCCATAAG
* *
103636946 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
103637011 ACGAGTTAGGATGCCTAGTTACATCTCA
66 ACGAGTTAGGATGCCTAGTTACATCTCA
***
103637039 CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
103637104 ACGAGTTCGGATGCTTAGTTACATCTCA
66 ACGAGTTAGGATGCCTAGTTACATCTCA
*
103637132 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGCACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
103637197 ACGAGTTTGGATGCC
66 ACGAGTTAGGATGCC
103637212 CAAATATCCT
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTAGGATGCCTAGTTACATCTCA
Found at i:103637158 original size:47 final size:46
Alignment explanation
Indices: 103636993--103637160 Score: 200
Period size: 47 Copynumber: 3.6 Consensus size: 46
103636983 ATCCATAAGT
*
103636993 GAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-CTAGTTACATCTCAC
** * * *
103637040 GAACTCGGACTCAACTCAACGAGTTC--AAAC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTT-ACAT-C-TCA-C
103637086 GAACTCGGACTCAACTCAACGAGTTCGGATGCTTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-TAGTTACATCTCAC
103637133 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
103637161 GCATTCGCAT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 26 0.26
47 53 0.52
48 4 0.04
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTTACATCTCAC
Found at i:103639694 original size:30 final size:30
Alignment explanation
Indices: 103639658--103639715 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
103639648 TGACACATGG
* *
103639658 GCGTGTGACATGCCCGTGTTTAATACACGA
1 GCGTGTGACATACCCGTGTGTAATACACGA
103639688 GCGTGTGACATACCCGTGTGTAATACAC
1 GCGTGTGACATACCCGTGTGTAATACAC
103639716 AGACGTGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (30 bp):
GCGTGTGACATACCCGTGTGTAATACACGA
Found at i:103641698 original size:18 final size:18
Alignment explanation
Indices: 103641677--103641713 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
103641667 AAATAGAAAT
*
103641677 AAAAATAAAAGGAAAAAA
1 AAAAACAAAAGGAAAAAA
*
103641695 AAAAGCAAAAGGAAAAAA
1 AAAAACAAAAGGAAAAAA
103641713 A
1 A
103641714 CAACTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAACAAAAGGAAAAAA
Found at i:103653530 original size:19 final size:20
Alignment explanation
Indices: 103653486--103653531 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
103653476 TCAACAAACC
*
103653486 CCCCTTCTCCTTCTCCCTTT
1 CCCCTTCTCCTTCTCCCTTA
**
103653506 TTCCTTCT-CTTCTCCCTTA
1 CCCCTTCTCCTTCTCCCTTA
103653525 CCCCTTC
1 CCCCTTC
103653532 CACATCTCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.02, C:0.52, G:0.00, T:0.46
Consensus pattern (20 bp):
CCCCTTCTCCTTCTCCCTTA
Found at i:103660508 original size:40 final size:40
Alignment explanation
Indices: 103660462--103660578 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 40
103660452 GGCGTTTGGA
* *
103660462 TAAAAAATGCCACTATAGATTAAGCATTAGCAGCGCTATT
1 TAAAAAACGCCACTATAGATCAAGCATTAGCAGCGCTATT
* * * * * *
103660502 TGAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCACTATAGATCAAGCATTAGCAGCGCTATT
** * * * *
103660542 TAAAAAACGCTGCTATAGGTCGACCATTAGCGGCGCT
1 TAAAAAACGCCACTATAGATCAAGCATTAGCAGCGCT
103660579 TTTTTTAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (40 bp):
TAAAAAACGCCACTATAGATCAAGCATTAGCAGCGCTATT
Found at i:103660579 original size:40 final size:40
Alignment explanation
Indices: 103660486--103660582 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
103660476 ATAGATTAAG
* * * *
103660486 CATTAGCAGCGCTATTTGAAAAACGCCGCTATAGGTCGAG
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGAC
*
103660526 CATTAGCGGCGCTTTTTAAAAAACGCTGCTATAGGTCGAC
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGAC
103660566 CATTAGCGGCGCTTTTT
1 CATTAGCGGCGCTTTTT
103660583 TTAAAATGCC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGAC
Found at i:103660751 original size:40 final size:40
Alignment explanation
Indices: 103660640--103660783 Score: 162
Period size: 40 Copynumber: 3.6 Consensus size: 40
103660630 AACTTTAGTG
* * *
103660640 GCATTAACGGCGCTTTTTGAAAAACGCCGCGATAGATTAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
* *
103660680 GCATTTGCGGCTCTTTTTGAAAAACGCCGCTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
* ** * **
103660720 GCATTAGCGACGCTTTTTGAAAAACATCGCTATAGGTTGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
* * *
103660760 CCATTAGCGGCGTTTTTTCAAAAA
1 GCATTAGCGGCGCTTTTTGAAAAA
103660784 TGCCACAAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
Found at i:103660816 original size:195 final size:195
Alignment explanation
Indices: 103660476--103660864 Score: 577
Period size: 195 Copynumber: 2.0 Consensus size: 195
103660466 AAATGCCACT
* * *
103660476 ATAGATTAAGCATTAGCAGCGCTATTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTT
1 ATAGATTAAGCATTAGCAGCGCTATTTGAAAAACGCCGCTATAGATCAAGCATTAGCGACGCTTT
* *
103660541 TTAAAAAACGCTGCTATAGGTCGACCATTAGCGGCGCTTTTTTTAAAATGCCACAAAAAAGTTAA
66 TTAAAAAACGCTGCTATAGGTCGACCATTAGCGGCGCTTTTTTAAAAATGCCACAAAAAAATTAA
**
103660606 GCACAACGTCATCGTTTTATGTTGAACTTTAGTGGCATTAACGG-CGCTTTTTGAAAAACGCCGC
131 GCACAACACCATCGTTTTATGTTGAACTTTAGTGGCATT-ACGGACGCTTTTTGAAAAACGCCGC
103660670 G
195 G
* * * *
103660671 ATAGATTAAGCATTTGCGGCTCTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGACGCTTT
1 ATAGATTAAGCATTAGCAGCGCTATTTGAAAAACGCCGCTATAGATCAAGCATTAGCGACGCTTT
* * *
103660736 TTGAAAAAC-ATCGCTATAGGTTGACCATTAGCGGCG-TTTTTTCAAAAATGCCACAAAAAAATT
66 TTAAAAAACGCT-GCTATAGGTCGACCATTAGCGGCGCTTTTTT-AAAAATGCCACAAAAAAATT
* * *
103660799 AAGTACAACACCATCGTTTTATGTTGAACTTTAGTGGCATTAGGGATGCTTTTTGAAAAACGCCG
129 AAGCACAACACCATCGTTTTATGTTGAACTTTAGTGGCATTACGGACGCTTTTTGAAAAACGCCG
103660864 C
194 C
103660865 AAAAACATTT
Statistics
Matches: 174, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
194 10 0.06
195 164 0.94
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (195 bp):
ATAGATTAAGCATTAGCAGCGCTATTTGAAAAACGCCGCTATAGATCAAGCATTAGCGACGCTTT
TTAAAAAACGCTGCTATAGGTCGACCATTAGCGGCGCTTTTTTAAAAATGCCACAAAAAAATTAA
GCACAACACCATCGTTTTATGTTGAACTTTAGTGGCATTACGGACGCTTTTTGAAAAACGCCGCG
Found at i:103661169 original size:14 final size:14
Alignment explanation
Indices: 103661146--103661340 Score: 110
Period size: 14 Copynumber: 13.7 Consensus size: 14
103661136 TTAATTATCA
103661146 TTATGGTTTAAGGT
1 TTATGGTTTAAGGT
* *
103661160 TTATGATTTAGGGT
1 TTATGGTTTAAGGT
* ** *
103661174 ATATAATTTAGGGT
1 TTATGGTTTAAGGT
*
103661188 TTAAGGTTTAAGAGT
1 TTATGGTTTAAG-GT
103661203 TACTAT--TTTAAGGT
1 T--TATGGTTTAAGGT
* * *
103661217 TTATGGATTATGGA
1 TTATGGTTTAAGGT
* *
103661231 TTATGGGTTTAGGGA
1 TTAT-GGTTTAAGGT
*
103661246 TTATGGTTTATGGT
1 TTATGGTTTAAGGT
*
103661260 TTATGGTTTATGGT
1 TTATGGTTTAAGGT
*
103661274 TTATGGTTTAAGGG
1 TTATGGTTTAAGGT
*
103661288 TTA-GGATTTAAGAT
1 TTATGG-TTTAAGGT
*
103661302 TTA-GGTGTTAGGGGT
1 TTATGGT-TTA-AGGT
* * *
103661317 TAAGGGTTTGAGGT
1 TTATGGTTTAAGGT
*
103661331 TTATGTTTTA
1 TTATGGTTTA
103661341 TGATTTAAGG
Statistics
Matches: 141, Mismatches: 30, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
12 3 0.02
13 3 0.02
14 103 0.73
15 27 0.19
16 3 0.02
17 2 0.01
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:103661227 original size:7 final size:7
Alignment explanation
Indices: 103661209--103661283 Score: 96
Period size: 7 Copynumber: 10.6 Consensus size: 7
103661199 GAGTTACTAT
*
103661209 TTTAAGG
1 TTTATGG
103661216 TTTATGG
1 TTTATGG
*
103661223 ATTATGG
1 TTTATGG
*
103661230 ATTATGGG
1 TTTAT-GG
*
103661238 TTTAGGG
1 TTTATGG
*
103661245 ATTATGG
1 TTTATGG
103661252 TTTATGG
1 TTTATGG
103661259 TTTATGG
1 TTTATGG
103661266 TTTATGG
1 TTTATGG
103661273 TTTATGG
1 TTTATGG
103661280 TTTA
1 TTTA
103661284 AGGGTTAGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
7 55 0.92
8 5 0.08
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:103661297 original size:21 final size:21
Alignment explanation
Indices: 103661146--103661297 Score: 64
Period size: 21 Copynumber: 7.1 Consensus size: 21
103661136 TTAATTATCA
* *
103661146 TTATGGTTTAAGGTTTATGAT
1 TTATGGTTTAAGGGTTAGGAT
* * *
103661167 TTAGGGTATATAA--TTTAGGGT
1 TTATGGT-T-TAAGGGTTAGGAT
* * **
103661188 TTAAGGTTTAAGAGTTACTATT
1 TTATGGTTTAAGGGTTAGGA-T
* * *
103661210 TTAAGGTTTATGGATTATGGA-
1 TTATGGTTTAAGGGTTA-GGAT
103661231 TTATGGGTTT-AGGGATTATGG-T
1 TTAT-GGTTTAAGGG-TTA-GGAT
* *
103661253 TTATGGTTTATGGTTTATGG-T
1 TTATGGTTTAAGGGTTA-GGAT
103661274 TTATGGTTTAAGGGTTAGGAT
1 TTATGGTTTAAGGGTTAGGAT
103661295 TTA
1 TTA
103661298 AGATTTAGGT
Statistics
Matches: 100, Mismatches: 20, Indels: 22
0.70 0.14 0.15
Matches are distributed among these distances:
19 3 0.03
20 3 0.03
21 57 0.57
22 33 0.33
23 4 0.04
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAGGAT
Found at i:103661325 original size:50 final size:49
Alignment explanation
Indices: 103661271--103661378 Score: 117
Period size: 50 Copynumber: 2.2 Consensus size: 49
103661261 TATGGTTTAT
* * * *
103661271 GGTTTATGGTTTAAGGGTTAGGATTTAAGATTTAGGTGTTAGGGGTTAAG
1 GGTTTA-GGTTTAAGGGTTAGGATTTAAGATCTAGGGGATAGGAGTTAAG
* ** * *
103661321 GGTTTGAGGTTTATGTTTTATGATTTAAGGTCTAGGGGATAGGAGTTAAG
1 GGTTT-AGGTTTAAGGGTTAGGATTTAAGATCTAGGGGATAGGAGTTAAG
103661371 GGTTTAGG
1 GGTTTAGG
103661379 GTTTTGATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.06
50 44 0.92
51 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.40
Consensus pattern (49 bp):
GGTTTAGGTTTAAGGGTTAGGATTTAAGATCTAGGGGATAGGAGTTAAG
Found at i:103661379 original size:7 final size:7
Alignment explanation
Indices: 103661235--103661382 Score: 59
Period size: 7 Copynumber: 20.9 Consensus size: 7
103661225 TATGGATTAT
103661235 GGGTTTA
1 GGGTTTA
*
103661242 GGGATTA
1 GGGTTTA
*
103661249 TGGTTTA
1 GGGTTTA
*
103661256 TGGTTTA
1 GGGTTTA
*
103661263 TGGTTTA
1 GGGTTTA
*
103661270 TGGTTTA
1 GGGTTTA
*
103661277 TGGTTTAA
1 GGGTTT-A
103661285 GGG-TTA
1 GGGTTTA
*
103661291 GGATTTA
1 GGGTTTA
* *
103661298 AGATTTA
1 GGGTTTA
103661305 -GGTGTTA
1 GGGT-TTA
*
103661312 GGGGTTAA
1 -GGGTTTA
103661320 GGGTTT-
1 GGGTTTA
103661326 GAGGTTTA
1 G-GGTTTA
* *
103661334 TGTTTTA
1 GGGTTTA
* *
103661341 TGATTTA
1 GGGTTTA
* *
103661348 AGGTCTA
1 GGGTTTA
**
103661355 GGGGATA
1 GGGTTTA
*
103661362 GGAGTTAA
1 GG-GTTTA
103661370 GGGTTTA
1 GGGTTTA
103661377 GGGTTT
1 GGGTTT
103661383 TGATTAATTA
Statistics
Matches: 111, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 6 0.05
7 93 0.84
8 9 0.08
9 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:103662056 original size:18 final size:18
Alignment explanation
Indices: 103662005--103662058 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
103661995 CTCTTCCTCC
*
103662005 ATTCCCTTTTCTTTCCCA
1 ATTCCCTTTTCTTTCTCA
*
103662023 ATTTCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
103662041 ATTCCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
103662059 GCCTTTCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCTCA
Found at i:103664390 original size:15 final size:16
Alignment explanation
Indices: 103664370--103664400 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
103664360 GTTTTTGTCT
103664370 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
103664385 TATATATGATCTAAAA
1 TATATATGATCTAAAA
103664401 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:103666429 original size:43 final size:43
Alignment explanation
Indices: 103666319--103666432 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 43
103666309 AATAATTTTT
* * *
103666319 TTAAAGGTCATGATCTTTAGCGGCATTTGTGAGAAAAGCGTCG
1 TTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCG
* *
103666362 CTAAAGGTCATGTTTTTTAGCGGCGTTTGTG-GAAAAAGCGCCG
1 TTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAG-AAAAGCGCCG
*
103666405 TTAAAGGTCATGTTCTATAGCGGCGTTT
1 TTAAAGGTCATGTTCTTTAGCGGCGTTT
103666433 TTTTCATAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCG
Found at i:103666490 original size:12 final size:14
Alignment explanation
Indices: 103666455--103666493 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
103666445 CCACAAAATG
103666455 TTAGCGGCGTTGTCT
1 TTAGCGGCGTT-TCT
103666470 TTAGCGGCGTTT-T
1 TTAGCGGCGTTTCT
103666483 TT-GCGGCGTTT
1 TTAGCGGCGTTT
103666494 GTAAAAGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 3 0.12
14 1 0.04
15 11 0.46
ACGTcount: A:0.05, C:0.18, G:0.33, T:0.44
Consensus pattern (14 bp):
TTAGCGGCGTTTCT
Found at i:103674433 original size:16 final size:16
Alignment explanation
Indices: 103674408--103674442 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
103674398 GATGCTCGTA
103674408 ACATTATTAACAATTT
1 ACATTATTAACAATTT
*
103674424 ACATTGTTAACAATTT
1 ACATTATTAACAATTT
103674440 ACA
1 ACA
103674443 ATAACCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (16 bp):
ACATTATTAACAATTT
Found at i:103675824 original size:17 final size:17
Alignment explanation
Indices: 103675805--103675838 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
103675795 AAAAAAATCT
103675805 AAATTTACAAAATATATA
1 AAATTT-CAAAATATATA
*
103675823 AAATTTTAAAATATAT
1 AAATTTCAAAATATAT
103675839 TTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTCAAAATATATA
Found at i:103676612 original size:12 final size:12
Alignment explanation
Indices: 103676578--103676619 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
103676568 CTGCAGGTAA
*
103676578 TATTTTCCATTT
1 TATTTTCCGTTT
* *
103676590 TCTTTT-AGTTT
1 TATTTTCCGTTT
103676601 TATTTTCCGTTT
1 TATTTTCCGTTT
103676613 TATTTTC
1 TATTTTC
103676620 TTTGATTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.69
Consensus pattern (12 bp):
TATTTTCCGTTT
Found at i:103677754 original size:15 final size:15
Alignment explanation
Indices: 103677736--103677784 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
103677726 CAAGATTAAT
*
103677736 ATGTGCAACATCAAC
1 ATGTGCAACATGAAC
* * *
103677751 ATGTACAACATGGAT
1 ATGTGCAACATGAAC
103677766 ATGTGCAACATGAAC
1 ATGTGCAACATGAAC
103677781 ATGT
1 ATGT
103677785 ACAGGATTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (15 bp):
ATGTGCAACATGAAC
Found at i:103677754 original size:30 final size:30
Alignment explanation
Indices: 103677718--103677787 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
103677708 AATGAAGAGT
* * *
103677718 AACATGTCCAAGATTAATATGTGCAACATC
1 AACATGTACAACATGAATATGTGCAACATC
* *
103677748 AACATGTACAACATGGATATGTGCAACATG
1 AACATGTACAACATGAATATGTGCAACATC
103677778 AACATGTACA
1 AACATGTACA
103677788 GGATTGACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (30 bp):
AACATGTACAACATGAATATGTGCAACATC
Found at i:103688545 original size:13 final size:14
Alignment explanation
Indices: 103688527--103688557 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
103688517 GAGAAAGCAT
103688527 ATACACATATAA-A
1 ATACACATATAATA
103688540 ATACACATATAATA
1 ATACACATATAATA
103688554 ATAC
1 ATAC
103688558 TCGAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (14 bp):
ATACACATATAATA
Found at i:103689170 original size:26 final size:25
Alignment explanation
Indices: 103689107--103689178 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
103689097 ATATTACATA
* *
103689107 AATATGTTATAAAAACT-TAATAAC
1 AATATATTATAATAACTATAATAAC
* *
103689131 ACATATATGATAATAACTATAATAAT
1 A-ATATATTATAATAACTATAATAAC
*
103689157 AATATATTAGTAATAAATATAA
1 AATATATTA-TAATAACTATAA
103689179 GAAGAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.51
26 18 0.46
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
AATATATTATAATAACTATAATAAC
Found at i:103689186 original size:26 final size:25
Alignment explanation
Indices: 103689133--103689186 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
103689123 TTAATAACAC
* * *
103689133 ATATATGATAATAACTATAATAATA
1 ATATATGATAATAAATATAAGAAGA
*
103689158 ATATATTAGTAATAAATATAAGAAGA
1 ATATATGA-TAATAAATATAAGAAGA
103689184 ATA
1 ATA
103689187 AAAATAACAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATGATAATAAATATAAGAAGA
Found at i:103691767 original size:12 final size:12
Alignment explanation
Indices: 103691752--103691776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103691742 CTATATCTAC
103691752 AACTACAACTAG
1 AACTACAACTAG
103691764 AACTACAACTAG
1 AACTACAACTAG
103691776 A
1 A
103691777 TTTGGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
AACTACAACTAG
Found at i:103692914 original size:38 final size:38
Alignment explanation
Indices: 103692848--103692920 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
103692838 ACCAGAATGG
*
103692848 CACCCAGTGCCTCATCGGACAGTTCGAAGCAAAGTTGA
1 CACCCAGTGCCTCATCGGACAGTCCGAAGCAAAGTTGA
* * *
103692886 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGT
1 CACCCAGTGCCTCATCGGAC-AGTCCGAAGCAAAGT
103692921 GGTACCCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.93
39 2 0.07
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.19
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGACAGTCCGAAGCAAAGTTGA
Found at i:103693631 original size:22 final size:24
Alignment explanation
Indices: 103693589--103693632 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
103693579 TAACTAAGTT
103693589 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
103693613 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
103693633 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:103694123 original size:19 final size:18
Alignment explanation
Indices: 103694079--103694126 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
103694069 AACTATAGTA
*
103694079 AATATATATTATATAATT
1 AATATATATTACATAATT
103694097 AATGATATATTACA-AATGT
1 AAT-ATATATTACATAAT-T
103694116 ATATATATATT
1 A-ATATATATT
103694127 TTCTTACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 18 0.69
20 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
AATATATATTACATAATT
Found at i:103694622 original size:15 final size:16
Alignment explanation
Indices: 103694604--103694636 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
103694594 ATTACAATTG
103694604 TACAAATATA-ATTTT
1 TACAAATATATATTTT
*
103694619 TACACATATATATTTT
1 TACAAATATATATTTT
103694635 TA
1 TA
103694637 TTACTATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
TACAAATATATATTTT
Found at i:103694678 original size:5 final size:5
Alignment explanation
Indices: 103694670--103694717 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
103694660 AATTTATTTC
*
103694670 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -CAAT -TAAT AATAAT ATA
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT -ATAAT ATA
103694718 TAATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 6 0.16
5 23 0.61
6 9 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:103694694 original size:21 final size:23
Alignment explanation
Indices: 103694670--103694728 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 23
103694660 AATTTATTTC
103694670 ATAATATAATATAAT-ATAAT-T
1 ATAATATAATATAATAATAATAT
103694691 ATAATATAATCAATTAATAATAATAT
1 ATAATATAAT--A-TAATAATAATAT
103694717 ATAATAT-ATATA
1 ATAATATAATATA
103694729 CCCAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 10 0.30
22 2 0.06
23 2 0.06
24 4 0.12
25 7 0.21
26 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAATATAATATAATAATAATAT
Found at i:103694727 original size:11 final size:11
Alignment explanation
Indices: 103694673--103694728 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
103694663 TTATTTCATA
103694673 ATATAATATA-
1 ATATAATATAT
103694683 ATATAAT-TAT
1 ATATAATATAT
103694693 AATATAATCA-AT
1 -ATATAAT-ATAT
103694705 -TAATAATA-AT
1 AT-ATAATATAT
103694715 ATATAATATAT
1 ATATAATATAT
103694726 ATA
1 ATA
103694729 CCCAAGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
9 2 0.05
10 17 0.44
11 18 0.46
12 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATAATATAT
Found at i:103695249 original size:89 final size:89
Alignment explanation
Indices: 103695098--103695277 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
103695088 AATCTAGAAC
103695098 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTGAGTAGAAA
1 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTGAGTAGAAA
103695163 CCTTAGCCTTTACTAACACTACTG
66 CCTTAGCCTTTACTAACACTACTG
103695187 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTGAGTAGAAA
1 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTGAGTAGAAA
103695252 CCTTAGCCTTTACTAACACTACTG
66 CCTTAGCCTTTACTAACACTACTG
103695276 AA
1 AA
103695278 TCTTTTCCAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (89 bp):
AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTGAGTAGAAA
CCTTAGCCTTTACTAACACTACTG
Found at i:103701018 original size:26 final size:25
Alignment explanation
Indices: 103700974--103701027 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
103700964 ACAAATAAAT
103700974 AAATGAATAAACAAAGAAAGAAACA
1 AAATGAATAAACAAAGAAAGAAACA
*
103700999 AAATGAAATAAA-AAAGGAAAGAAAGA
1 AAATG-AATAAACAAA-GAAAGAAACA
103701025 AAA
1 AAA
103701028 GACAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.07
Consensus pattern (25 bp):
AAATGAATAAACAAAGAAAGAAACA
Found at i:103701034 original size:21 final size:20
Alignment explanation
Indices: 103701009--103701062 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 20
103700999 AAATGAAATA
103701009 AAAAAGGAAAGAAAGAAAAG
1 AAAAAGGAAAGAAAGAAAAG
*
103701029 ACAAA--AAA-AAA-AAAAG
1 AAAAAGGAAAGAAAGAAAAG
103701045 AAAAAGGAAAGAAAGAAA
1 AAAAAGGAAAGAAAGAAA
103701063 GGAGAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 9 0.32
17 3 0.11
18 6 0.21
19 3 0.11
20 7 0.25
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAAGGAAAGAAAGAAAAG
Found at i:103701037 original size:26 final size:25
Alignment explanation
Indices: 103700974--103701047 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
103700964 ACAAATAAAT
* *
103700974 AAATGAATAAACAAAGAAAGAAACA
1 AAATGAAAAAAAAAAGAAAGAAACA
* *
103700999 AAATGAAATAAAAAAGGAAAGAAAGA
1 AAATGAAA-AAAAAAAGAAAGAAACA
*
103701025 AAA-GACAAAAAAAAAAAAAGAAA
1 AAATGA-AAAAAAAAAGAAAGAAA
103701048 AAGGAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 22 0.54
26 19 0.46
ACGTcount: A:0.77, C:0.04, G:0.14, T:0.05
Consensus pattern (25 bp):
AAATGAAAAAAAAAAGAAAGAAACA
Found at i:103701756 original size:30 final size:30
Alignment explanation
Indices: 103701720--103701789 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
103701710 GCACTTTGAC
*
103701720 ATTGAATTGAATTAAAGGTTGATTTAATGG
1 ATTGAATTGAATTAAAGGTTGATTGAATGG
103701750 ATTGAATTGAATTAAAGGTTGATTGAATGG
1 ATTGAATTGAATTAAAGGTTGATTGAATGG
103701780 ATTGAATTGA
1 ATTGAATTGA
103701790 TATATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (30 bp):
ATTGAATTGAATTAAAGGTTGATTGAATGG
Found at i:103704174 original size:26 final size:26
Alignment explanation
Indices: 103704143--103704200 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
103704133 TCCGATATAT
103704143 GGCTCTTCGTCAGCTTCCCAATTAAA
1 GGCTCTTCGTCAGCTTCCCAATTAAA
* * * *
103704169 GGCTCTTTGTGAGCTTCCTAATTAAT
1 GGCTCTTCGTCAGCTTCCCAATTAAA
103704195 GGCTCT
1 GGCTCT
103704201 CTAGAGCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (26 bp):
GGCTCTTCGTCAGCTTCCCAATTAAA
Found at i:103704279 original size:25 final size:25
Alignment explanation
Indices: 103704154--103704281 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 25
103704144 GCTCTTCGTC
* *
103704154 AGCTTCCCAATTAAAGGCTCTTTGTG
1 AGCTTCCTAATTAATGGCTCTTTG-G
* *
103704180 AGCTTCCTAATTAATGGCTCTCTAG
1 AGCTTCCTAATTAATGGCTCTTTGG
** * *
103704205 AGCTTCCCGA-T-ATAGCTCGCTT-G
1 AGCTTCCTAATTAATGGCTC-TTTGG
* * * **
103704228 AACTTCCTGA-TATATGGCTATCCGG
1 AGCTTCCTAATTA-ATGGCTCTTTGG
103704253 AGCTTCCTAATTAATGGCTCTTTGG
1 AGCTTCCTAATTAATGGCTCTTTGG
103704278 AGCT
1 AGCT
103704282 ACCCGTTATT
Statistics
Matches: 76, Mismatches: 21, Indels: 11
0.70 0.19 0.10
Matches are distributed among these distances:
23 16 0.21
24 2 0.03
25 36 0.47
26 22 0.29
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
AGCTTCCTAATTAATGGCTCTTTGG
Found at i:103705648 original size:17 final size:18
Alignment explanation
Indices: 103705616--103705652 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
103705606 GATTCTTACT
103705616 CGCCCGTGTAGGCCCACA
1 CGCCCGTGTAGGCCCACA
*
103705634 CGCCCTTGT-GGCCCACA
1 CGCCCGTGTAGGCCCACA
103705651 CG
1 CG
103705653 GCCCATTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.46, G:0.27, T:0.14
Consensus pattern (18 bp):
CGCCCGTGTAGGCCCACA
Found at i:103715808 original size:21 final size:21
Alignment explanation
Indices: 103715783--103715851 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
103715773 TATAATGATT
103715783 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
103715804 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
103715824 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
103715844 ATTATTAT
1 ATTATTAT
103715852 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:103716203 original size:14 final size:14
Alignment explanation
Indices: 103716178--103716211 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
103716168 AAAGAATTAA
103716178 AGAAACAAAGAAAC
1 AGAAACAAAGAAAC
103716192 A-AAACAAAAGAAAC
1 AGAAAC-AAAGAAAC
103716206 AGAAAC
1 AGAAAC
103716212 GAAGCAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAACAAAGAAAC
Found at i:103720345 original size:20 final size:20
Alignment explanation
Indices: 103720308--103720345 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
103720298 TGATGGGGAG
*
103720308 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
103720328 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
103720346 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:103722296 original size:46 final size:46
Alignment explanation
Indices: 103722244--103722469 Score: 330
Period size: 46 Copynumber: 5.0 Consensus size: 46
103722234 ACTGTGCTCT
*
103722244 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
103722290 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
103722336 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
** ***
103722382 GAGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
103722428 ATGACA--AAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
103722470 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 31 0.19
46 135 0.81
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:103726366 original size:21 final size:21
Alignment explanation
Indices: 103726341--103726409 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
103726331 TATAATGATT
103726341 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
103726362 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
103726382 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
103726402 ATTATTAT
1 ATTATTAT
103726410 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:103726422 original size:15 final size:14
Alignment explanation
Indices: 103726396--103726426 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
103726386 TATGGTTTTA
103726396 TATTAGATTATTAT
1 TATTAGATTATTAT
103726410 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
103726425 TA
1 TA
103726427 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:103747648 original size:39 final size:40
Alignment explanation
Indices: 103747570--103747658 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
103747560 TAAAAAGTGT
*
103747570 TTATATTAAAAAACACTACCATAAATAAAACAAATTTTTA
1 TTATATTAAAAAACACTACAATAAATAAAACAAATTTTTA
* * *
103747610 TTATATTAAAAAATA-TA-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATAAAACAAAT-TTTTA
*
103747649 TTGTATTAAA
1 TTATATTAAA
103747659 TTAAAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 13 0.30
39 16 0.37
40 14 0.33
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (40 bp):
TTATATTAAAAAACACTACAATAAATAAAACAAATTTTTA
Found at i:103760174 original size:21 final size:19
Alignment explanation
Indices: 103760150--103760191 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
103760140 GTAACTTTTA
103760150 ATGTTTACATTATAATATTAT
1 ATGTTTA-ATT-TAATATTAT
*
103760171 ATGTTTAATTTAATTTTAT
1 ATGTTTAATTTAATATTAT
103760190 AT
1 AT
103760192 AAATTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 3 0.15
21 7 0.35
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
ATGTTTAATTTAATATTAT
Found at i:103764844 original size:2 final size:2
Alignment explanation
Indices: 103764837--103764873 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
103764827 TCATCTTTCT
* *
103764837 TC TC TC TC TC TC TC GC TC TC GC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
103764874 GTCACTAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.05, T:0.46
Consensus pattern (2 bp):
TC
Found at i:103769783 original size:2 final size:2
Alignment explanation
Indices: 103769771--103769810 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
103769761 ATTTCAGGTT
*
103769771 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
103769811 ATATGTGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:103772993 original size:17 final size:17
Alignment explanation
Indices: 103772974--103773009 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
103772964 AAGAAGGTAT
103772974 AAATATTATTAAATATTAA
1 AAATA-TATT-AATATTAA
103772993 AAATATATTAATATTAA
1 AAATATATTAATATTAA
103773010 TATAAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATATTAATATTAA
Found at i:103773052 original size:20 final size:18
Alignment explanation
Indices: 103773019--103773055 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
103773009 ATATAAACTT
103773019 ATAAAAATTTTAAAATTA
1 ATAAAAATTTTAAAATTA
103773037 ATAAAATATATTTAAAATT
1 ATAAAA-AT-TTTAAAATT
103773056 TTATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAAATTTTAAAATTA
Found at i:103773061 original size:47 final size:47
Alignment explanation
Indices: 103772971--103773125 Score: 120
Period size: 47 Copynumber: 3.2 Consensus size: 47
103772961 TATAAGAAGG
* *
103772971 TATAAATATTATTAAATATTAAAAATATATTAATATTAATATAAACT
1 TATAAAAATTATTAAATATTAAAAATATATTAAAATTAATATAAACT
* * *
103773018 TATAAAAATT-TTAAA-ATTAATAAAATATATTTAAAATTTTATAAAAAAAT
1 TATAAAAATTATTAAATATT-A-AAAATATA-TTAAAA-TTAAT-ATAAACT
* * * *
103773068 GTATTAAATTCTATAGAAATCA-TAAAAA-GTATTAAAATTAATATAAACT
1 -TATAAAAAT-TAT-TAAAT-ATTAAAAATATATTAAAATTAATATAAACT
103773117 TATAAAAAT
1 TATAAAAAT
103773126 ATAAATTAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
45 3 0.04
46 6 0.07
47 17 0.20
48 12 0.14
49 9 0.11
50 9 0.11
51 13 0.16
52 3 0.04
53 5 0.06
54 4 0.05
55 1 0.01
56 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (47 bp):
TATAAAAATTATTAAATATTAAAAATATATTAAAATTAATATAAACT
Found at i:103773140 original size:16 final size:16
Alignment explanation
Indices: 103773107--103773139 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
103773097 TATTAAAATT
*
103773107 AATATAAACTTATAAA
1 AATATAAACTTAAAAA
103773123 AATATAAA-TTAAAAA
1 AATATAAACTTAAAAA
103773138 AA
1 AA
103773140 AAAGACTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATATAAACTTAAAAA
Found at i:103773660 original size:18 final size:18
Alignment explanation
Indices: 103773637--103773689 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
103773627 TTTTACAATT
*
103773637 TATTTATAATTTATTA-GA
1 TATTTATAATTT-TTATAA
*
103773655 TTTTTAT-ATTTTTATAA
1 TATTTATAATTTTTATAA
*
103773672 TATTTATAATTTTAATAA
1 TATTTATAATTTTTATAA
103773690 GTTTATATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 15 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTTATAATTTTTATAA
Found at i:103777314 original size:25 final size:25
Alignment explanation
Indices: 103777286--103777334 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
103777276 ATAAATAAAA
*
103777286 TTTTAAAATTATAATTA-TTAATTTT
1 TTTTAAAATT-TAATAATTTAATTTT
*
103777311 TTTTAGAATTTAATAATTTAATTT
1 TTTTAAAATTTAATAATTTAATTT
103777335 AAGTTCGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTAAAATTTAATAATTTAATTTT
Done.