Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 135 of 438
Found at i:40186921 original size:41 final size:41
Alignment explanation
Indices: 40186843--40186922 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
40186833 TTGGGCTCTA
*
40186843 TGCCTAGTAGGCTTCGTGCAAGTGTATTATGTCAGGCTTTG
1 TGCCTAGTAGGCTTCGTGCAAGTGTATTATATCAGGCTTTG
* * *
40186884 TGCCTAGTAGGCTTTGTGTCAA-TGTGTTATATTAGGCTT
1 TGCCTAGTAGGCTTCGTG-CAAGTGTATTATATCAGGCTT
40186923 CGAGCTTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 31 0.91
42 3 0.09
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.40
Consensus pattern (41 bp):
TGCCTAGTAGGCTTCGTGCAAGTGTATTATATCAGGCTTTG
Found at i:40192064 original size:17 final size:19
Alignment explanation
Indices: 40192022--40192065 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
40192012 ATAAAATTTT
*
40192022 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
40192041 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
40192059 AA-TATTA
1 AATTATTA
40192066 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:40192250 original size:20 final size:20
Alignment explanation
Indices: 40192225--40192262 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40192215 GTTTATTCGC
*
40192225 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
40192245 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
40192263 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:40193926 original size:28 final size:28
Alignment explanation
Indices: 40193894--40193950 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
40193884 ACGTAGAACA
40193894 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40193922 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40193950 C
1 C
40193951 AATATGCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:40197856 original size:19 final size:19
Alignment explanation
Indices: 40197832--40197869 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
40197822 ACATTGACGC
40197832 AAATCCTATAAGAGGGAAA
1 AAATCCTATAAGAGGGAAA
40197851 AAATCCTATAAGAGGGAAA
1 AAATCCTATAAGAGGGAAA
40197870 GGAAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.21, T:0.16
Consensus pattern (19 bp):
AAATCCTATAAGAGGGAAA
Found at i:40199989 original size:40 final size:40
Alignment explanation
Indices: 40199944--40200110 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
40199934 CGGAATATAA
40199944 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40199984 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
40200024 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40200064 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40200103 CCGGATAT
1 CCGGATAT
40200111 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40200094 original size:80 final size:79
Alignment explanation
Indices: 40199944--40200110 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
40199934 CGGAATATAA
* *
40199944 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
40200009 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
40200024 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
40200086 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
40200103 CCGGATAT
1 CCGGATAT
40200111 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:40200959 original size:17 final size:19
Alignment explanation
Indices: 40200936--40200981 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
40200926 AAGAAGCATG
40200936 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
40200954 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
40200972 AATCATGCTC
1 AATCATGCTC
40200982 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:40207996 original size:40 final size:40
Alignment explanation
Indices: 40207951--40208117 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
40207941 CGGAATATAA
40207951 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40207991 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
40208031 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40208071 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40208110 CCGGATAT
1 CCGGATAT
40208118 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40208101 original size:80 final size:79
Alignment explanation
Indices: 40207951--40208117 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
40207941 CGGAATATAA
* *
40207951 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
40208016 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
40208031 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
40208093 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
40208110 CCGGATAT
1 CCGGATAT
40208118 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:40208963 original size:17 final size:19
Alignment explanation
Indices: 40208940--40208985 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
40208930 AAGAAGCATG
40208940 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
40208958 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
40208976 AATCATGCTC
1 AATCATGCTC
40208986 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:40212121 original size:42 final size:43
Alignment explanation
Indices: 40212039--40212128 Score: 164
Period size: 42 Copynumber: 2.1 Consensus size: 43
40212029 AAAGAAAAAG
*
40212039 GGAGAAAGGAAACGTTTGAAAGAAAAAAAATAAAAATTCGGTA
1 GGAGAAAGGAAACGTTCGAAAGAAAAAAAATAAAAATTCGGTA
40212082 GGAGAAAGGAAACGTTCGAAAG-AAAAAAATAAAAATTCGGTA
1 GGAGAAAGGAAACGTTCGAAAGAAAAAAAATAAAAATTCGGTA
40212124 GGAGA
1 GGAGA
40212129 GAGAAGAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 25 0.54
43 21 0.46
ACGTcount: A:0.54, C:0.06, G:0.26, T:0.14
Consensus pattern (43 bp):
GGAGAAAGGAAACGTTCGAAAGAAAAAAAATAAAAATTCGGTA
Found at i:40218533 original size:43 final size:42
Alignment explanation
Indices: 40218484--40218596 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
40218474 GTTTGTTGAG
*
40218484 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTG-T
1 ATGTGATTA-ATGTAAGACCATGTCTGGGACATTGACATCGTT
*
40218526 ATTGTGATTAAGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTAA-TGTAAGACCATGTCTGGGACATTGACATCGTT
* **
40218570 ATATGATTTTGTGTAAGACCATGTCTG
1 ATGTGA-TTAATGTAAGACCATGTCTG
40218597 TAACACCCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.03
43 56 0.90
44 4 0.06
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (42 bp):
ATGTGATTAATGTAAGACCATGTCTGGGACATTGACATCGTT
Found at i:40221556 original size:30 final size:30
Alignment explanation
Indices: 40221520--40221576 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
40221510 ACGGCCATGA
*
40221520 CACATGGACGTGTGGTCTGCCCGTGTGCCT
1 CACATGGACGTGTGGTCTACCCGTGTGCCT
** *
40221550 CACATGGGTGTGTGGTTTACCCGTGTG
1 CACATGGACGTGTGGTCTACCCGTGTG
40221577 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.11, C:0.25, G:0.35, T:0.30
Consensus pattern (30 bp):
CACATGGACGTGTGGTCTACCCGTGTGCCT
Found at i:40227975 original size:47 final size:47
Alignment explanation
Indices: 40227886--40227976 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 47
40227876 AATCGATAAG
* *
40227886 TACCTATACAGTGGCCCGTAGCCAAATCAAGGTAACTCCTCACAAAA
1 TACCTATACAGTGGCCCGTAACCAAATCAAGGTAACTACTCACAAAA
**
40227933 TACCTATACCA-TGGCCCGTAACCAAATCAAGGTATTTACTCACA
1 TACCTATA-CAGTGGCCCGTAACCAAATCAAGGTAACTACTCACA
40227977 CCCAAAATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 37 0.95
48 2 0.05
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (47 bp):
TACCTATACAGTGGCCCGTAACCAAATCAAGGTAACTACTCACAAAA
Found at i:40234000 original size:37 final size:38
Alignment explanation
Indices: 40233950--40234032 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 38
40233940 ATTTGATGTG
* * * *
40233950 TATTCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTA
1 TATTCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
40233988 TA-TCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATTCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
40234025 TATTCGGG
1 TATTCGGG
40234033 CCTTCATGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 33 0.82
38 7 0.17
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (38 bp):
TATTCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:40234085 original size:42 final size:42
Alignment explanation
Indices: 40234004--40234127 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
40233994 GATAAATCCC
* * * *
40234004 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTC-GGCCTTCGTGCCTA
40234045 GCAGGCTTAGTGCCGGTGATGTGTATTCGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGCCTTCGTGCCTA
* *
40234087 GCAGGCTTAGTGACGGTGATGTGTATTTGGGCCTTCGTGCC
1 GCAGGCTTAGTGCCGGTGATGTGTA-TTCGGCCTTCGTGCC
40234128 GGTGATGAGT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 15 0.20
42 39 0.53
43 20 0.27
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (42 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGCCTTCGTGCCTA
Found at i:40234139 original size:27 final size:27
Alignment explanation
Indices: 40234100--40234154 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
40234090 GGCTTAGTGA
* *
40234100 CGGTGATGTGTATTTGGGCCTTCGTGC
1 CGGTGATGAGTATTCGGGCCTTCGTGC
40234127 CGGTGATGAGTATTCGGGCCTTCGTGC
1 CGGTGATGAGTATTCGGGCCTTCGTGC
40234154 C
1 C
40234155 TAGCAGGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.09, C:0.22, G:0.36, T:0.33
Consensus pattern (27 bp):
CGGTGATGAGTATTCGGGCCTTCGTGC
Found at i:40234166 original size:43 final size:42
Alignment explanation
Indices: 40234119--40234204 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
40234109 GTATTTGGGC
40234119 CTTCGTGCCGGTGATGAGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGAGTATTCGGG-CTTCGTGCCTAGCAGG
* *
40234162 CTTCGTGCTGGTGATGTGTATTCGGGCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGAGTATTCGGGCTTCGTGCCTAGCAGG
40234204 C
1 C
40234205 GTAATGCCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 17 0.41
43 24 0.59
ACGTcount: A:0.10, C:0.24, G:0.35, T:0.30
Consensus pattern (42 bp):
CTTCGTGCCGGTGATGAGTATTCGGGCTTCGTGCCTAGCAGG
Found at i:40234175 original size:70 final size:68
Alignment explanation
Indices: 40234048--40234196 Score: 228
Period size: 70 Copynumber: 2.2 Consensus size: 68
40234038 ATGCCTAGCA
* *
40234048 GGCTTAGTGCCGGTGATGTGTATTCGGCCTTCGTGCCTAGCAGGCTTAGTGACGGTGATGTGTAT
1 GGCTTCGTGCCGGTGATGAGTATTCGGCCTTCGTGCCTAGCAGGCTTAGTGACGGTGATGTGTAT
*
40234113 TTG
66 TCG
*
40234116 GGCCTTCGTGCCGGTGATGAGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG-CTGGTGATGTG
1 GG-CTTCGTGCCGGTGATGAGTATTC-GGCCTTCGTGCCTAGCAGGCTTAGTGAC-GGTGATGTG
40234180 TATTCG
63 TATTCG
40234186 GGCTTCGTGCC
1 GGCTTCGTGCC
40234197 TAGCAGGCGT
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
68 2 0.03
69 31 0.42
70 41 0.55
ACGTcount: A:0.11, C:0.21, G:0.36, T:0.32
Consensus pattern (68 bp):
GGCTTCGTGCCGGTGATGAGTATTCGGCCTTCGTGCCTAGCAGGCTTAGTGACGGTGATGTGTAT
TCG
Found at i:40234217 original size:42 final size:43
Alignment explanation
Indices: 40234124--40234217 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 43
40234114 TGGGCCTTCG
* **
40234124 TGCCGGTGATGAGTATTCGGGCCTTCGTGCCTAGCAGGCTTCG
1 TGCCGGTGATGAGTATTCGGGCCTTCGTGCCTAGCAGGCGTAA
* *
40234167 TGCTGGTGATGTGTATTCGGG-CTTCGTGCCTAGCAGGCGTAA
1 TGCCGGTGATGAGTATTCGGGCCTTCGTGCCTAGCAGGCGTAA
40234209 TGCCGGTGA
1 TGCCGGTGA
40234218 AATGATATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.13, C:0.22, G:0.36, T:0.29
Consensus pattern (43 bp):
TGCCGGTGATGAGTATTCGGGCCTTCGTGCCTAGCAGGCGTAA
Found at i:40235751 original size:28 final size:28
Alignment explanation
Indices: 40235711--40235769 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
40235701 TTTATGAAAC
40235711 ATGGTAGTTGCAACTAAACGTAATAACT
1 ATGGTAGTTGCAACTAAACGTAATAACT
*
40235739 ATGGTAGTTGCAATTAAACGTAATAACT
1 ATGGTAGTTGCAACTAAACGTAATAACT
40235767 ATG
1 ATG
40235770 TTATATTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (28 bp):
ATGGTAGTTGCAACTAAACGTAATAACT
Found at i:40240815 original size:29 final size:29
Alignment explanation
Indices: 40240775--40240877 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
40240765 GTTGAGAGAT
*
40240775 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
40240804 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
40240833 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
40240862 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40240878 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:40248895 original size:29 final size:29
Alignment explanation
Indices: 40248855--40248957 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
40248845 GTTGAGAGAT
*
40248855 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
40248884 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
40248913 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
40248942 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40248958 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:40251409 original size:14 final size:14
Alignment explanation
Indices: 40251370--40251415 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
40251360 CCAAAAAAGT
40251370 AAATCATTTTCCA-G
1 AAATCATTTT-CAGG
40251384 AAATCATTTTCAGG
1 AAATCATTTTCAGG
*
40251398 AAGTCATTTTCAGTG
1 AAATCATTTTCAG-G
40251413 AAA
1 AAA
40251416 CAAACGGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 2 0.07
14 23 0.82
15 3 0.11
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (14 bp):
AAATCATTTTCAGG
Found at i:40267040 original size:37 final size:37
Alignment explanation
Indices: 40266987--40267084 Score: 169
Period size: 37 Copynumber: 2.6 Consensus size: 37
40266977 AGTCCCCATG
* *
40266987 CGTAGTTATCGAGTCTTACCCGGACAAAATCTCCACA
1 CGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACA
*
40267024 CGTAGTCATCGGGTCTTACCCGGACATAATCTCCACA
1 CGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACA
40267061 CGTAGTCATCGGGTCTTACCCGGA
1 CGTAGTCATCGGGTCTTACCCGGA
40267085 ATATATTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACA
Found at i:40267283 original size:48 final size:48
Alignment explanation
Indices: 40267225--40267752 Score: 898
Period size: 48 Copynumber: 11.0 Consensus size: 48
40267215 ATATACACAC
* *
40267225 ATCTCCTACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40267273 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40267321 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40267369 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
40267417 ATCTCATTCATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
40267465 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40267513 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40267561 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40267607 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
40267655 ATCTCATATATATTTCACATTAGCCATTCGGCTGTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
40267703 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40267751 AT
1 AT
40267753 ATATTTATCT
Statistics
Matches: 460, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 45 0.10
48 415 0.90
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:40272979 original size:5 final size:6
Alignment explanation
Indices: 40272958--40272995 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
40272948 CAATAAACAT
* *
40272958 AAAAAG AAAAAT TAAAAG -AAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
40272996 TCTAAAGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:40272981 original size:17 final size:17
Alignment explanation
Indices: 40272959--40272995 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
40272949 AATAAACATA
**
40272959 AAAAGAAAAATTAAAAG
1 AAAAGAAAAAGAAAAAG
40272976 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGAAAAAG
40272993 AAA
1 AAA
40272996 TCTAAAGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAG
Found at i:40274588 original size:26 final size:24
Alignment explanation
Indices: 40274551--40274628 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 24
40274541 AAGTTAAAAC
40274551 AATAAAGATAATAAAGAAATAATAAG
1 AATAAAG-TAATAAA-AAATAATAAG
40274577 AATAATAGTAATAAAATAAATAA-AAG
1 AATAA-AGTAAT-AAA-AAATAATAAG
40274603 AA-AAAG-AATAAAATAATAATAA-
1 AATAAAGTAATAAAA-AATAATAAG
40274625 AATA
1 AATA
40274629 TAATAAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
21 1 0.02
22 10 0.22
23 6 0.13
24 2 0.04
25 2 0.04
26 14 0.30
27 11 0.24
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (24 bp):
AATAAAGTAATAAAAAATAATAAG
Found at i:40274596 original size:5 final size:5
Alignment explanation
Indices: 40274586--40274640 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
40274576 GAATAATAGT
* * *
40274586 AATAA AAT-A AATAA AAGAA AA-AG AATAA AATAA TAATAA AATAT AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA
40274635 AATAA A
1 AATAA A
40274641 TGAGGGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
4 7 0.17
5 30 0.71
6 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:40275108 original size:13 final size:13
Alignment explanation
Indices: 40275090--40275114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40275080 GTGTTGGGCG
40275090 ACACGCCCGTGTC
1 ACACGCCCGTGTC
40275103 ACACGCCCGTGT
1 ACACGCCCGTGT
40275115 TGTATCCTGT
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:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTC
Found at i:40290166 original size:40 final size:40
Alignment explanation
Indices: 40289967--40290152 Score: 351
Period size: 40 Copynumber: 4.7 Consensus size: 40
40289957 TATTCGGATG
40289967 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40290006 AT--CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40290044 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40290084 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40290124 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
40290153 AGCAAGTAGC
Statistics
Matches: 144, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
37 31 0.22
38 6 0.04
39 2 0.01
40 105 0.73
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40290166 original size:80 final size:78
Alignment explanation
Indices: 40289967--40290185 Score: 352
Period size: 80 Copynumber: 2.8 Consensus size: 78
40289957 TATTCGGATG
40289967 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAT-CCGGGCTAAGTCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATACCGGGCTAAGTCCCGAAGGCATT
40290031 TGTGCGAGTTACT
66 TGTGCGAGTTACT
40290044 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAT-ACCGGGCTAAGTCCCGAAGGCA
40290109 TTTGTGCGAGTTACT
64 TTTGTGCGAGTTACT
* * * *
40290124 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATA-CCGGGCTAAGTCCCGAAGG
40290186 TACTTGGTTT
Statistics
Matches: 133, Mismatches: 4, Indels: 8
0.92 0.03 0.06
Matches are distributed among these distances:
77 35 0.26
78 6 0.05
79 17 0.13
80 75 0.56
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATACCGGGCTAAGTCCCGAAGGCATT
TGTGCGAGTTACT
Found at i:40296835 original size:93 final size:93
Alignment explanation
Indices: 40296723--40296894 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
40296713 GCCCATAAGT
* **
40296723 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40296788 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
40296816 GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40296881 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
40296895 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40296890 original size:46 final size:45
Alignment explanation
Indices: 40296715--40296890 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 45
40296705 TGTAACCCGC
* * *
40296715 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-CTCGCAT
*
40296761 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTCG---CAT
* *
40296811 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-CTCGCAT
40296854 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40296891 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 67 0.60
47 31 0.28
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTCGCAT
Found at i:40300989 original size:80 final size:79
Alignment explanation
Indices: 40300820--40301046 Score: 323
Period size: 80 Copynumber: 2.9 Consensus size: 79
40300810 TATTCGGAGG
* *
40300820 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCGAGCTAAGTCCCGAAGGCAC
40300885 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* *
40300899 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAACTGAGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ACCGAGCTAAGTCCCGAAGGCA
40300964 CTTGTGCGAGTTACT
65 CTTGTGCGAGTTACT
* * * * * *
40300979 ATAACCGGGCTAAGTGCCGAAGGCATTTGAGCAAG-TAGCTATATCCG-GCTAAATTCCGAAGGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA-CCGAGCTAAGTCCCGAAGGC
40301042 ACTTG
64 ACTTG
40301047 GTTTGGGAAT
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 62 0.46
80 72 0.54
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCGAGCTAAGTCCCGAAGGCAC
TTGTGCGAGTTACT
Found at i:40301040 original size:39 final size:40
Alignment explanation
Indices: 40300820--40301007 Score: 324
Period size: 40 Copynumber: 4.7 Consensus size: 40
40300810 TATTCGGAGG
40300820 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40300860 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40300899 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
40300939 ATAACTGAGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40300979 ATAACCGGGCTAAGTGCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
40301008 AGCAAGTAGC
Statistics
Matches: 138, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 39 0.28
40 99 0.72
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40306287 original size:56 final size:56
Alignment explanation
Indices: 40306216--40306329 Score: 138
Period size: 56 Copynumber: 2.0 Consensus size: 56
40306206 TGAAGAATCC
* *
40306216 TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAGAGAAAATCTCAACAAA
1 TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAAAGAAAACCTCAACAAA
* * * ** * * *
40306272 TTATAATGAATGATGGACTCCATTTTGAAGAAAGAAAGAAATAAAACCTCATCAAA
1 TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAAAGAAAACCTCAACAAA
40306328 TT
1 TT
40306330 TGTTTCAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (56 bp):
TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAAAGAAAACCTCAACAAA
Found at i:40306781 original size:6 final size:6
Alignment explanation
Indices: 40306770--40306797 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
40306760 TTTCCCTCAC
40306770 TGCAAT TGCAAT TGCAAT TGCAAT TGCA
1 TGCAAT TGCAAT TGCAAT TGCAAT TGCA
40306798 GGCCGTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (6 bp):
TGCAAT
Found at i:40316430 original size:2 final size:2
Alignment explanation
Indices: 40316423--40316455 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
40316413 TTCAGAATCT
*
40316423 AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
40316456 AGTAAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:40318673 original size:45 final size:45
Alignment explanation
Indices: 40318624--40318709 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
40318614 TCGATGAAAC
40318624 TATGAGCTTTGTGATGTTAGTTGATGAATTATGAAAGATATAAAA
1 TATGAGCTTTGTGATGTTAGTTGATGAATTATGAAAGATATAAAA
40318669 TATGAGCTTTGTGATGTTAGTTGATGAATTATGAAAGATAT
1 TATGAGCTTTGTGATGTTAGTTGATGAATTATGAAAGATAT
40318710 GTTTTGGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (45 bp):
TATGAGCTTTGTGATGTTAGTTGATGAATTATGAAAGATATAAAA
Found at i:40321118 original size:37 final size:37
Alignment explanation
Indices: 40321068--40321164 Score: 176
Period size: 37 Copynumber: 2.6 Consensus size: 37
40321058 AGTCCCCACG
*
40321068 GTAGTTATCGGGTCTTACCCGGACAAAATCTCCACAC
1 GTAGTCATCGGGTCTTACCCGGACAAAATCTCCACAC
*
40321105 GTAGTCATCGGGTCTTACCCGGACATAATCTCCACAC
1 GTAGTCATCGGGTCTTACCCGGACAAAATCTCCACAC
40321142 GTAGTCATCGGGTCTTACCCGGA
1 GTAGTCATCGGGTCTTACCCGGA
40321165 ATATATTTCC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (37 bp):
GTAGTCATCGGGTCTTACCCGGACAAAATCTCCACAC
Found at i:40321366 original size:48 final size:48
Alignment explanation
Indices: 40321305--40321690 Score: 657
Period size: 48 Copynumber: 8.0 Consensus size: 48
40321295 ATATACACAC
* * *
40321305 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
40321353 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
40321401 ATCTCAT-TCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAT-ATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
40321449 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
40321497 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
40321545 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
40321593 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATGTACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
40321641 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
40321689 AT
1 AT
40321691 ATTTATCTTG
Statistics
Matches: 325, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 1 0.00
48 323 0.99
49 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:40323500 original size:40 final size:40
Alignment explanation
Indices: 40323398--40323581 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
40323388 AAATTGAATG
* * * * * *
40323398 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
40323438 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
40323478 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
40323518 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
40323558 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
40323582 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:40323606 original size:80 final size:80
Alignment explanation
Indices: 40323438--40323626 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
40323428 GCTGGAAATT
* * *
40323438 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
40323503 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
40323518 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
40323581 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
40323598 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40323627 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:40331600 original size:40 final size:40
Alignment explanation
Indices: 40331498--40331681 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
40331488 AAATTGAATG
* * * * * *
40331498 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
40331538 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
40331578 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
40331618 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
40331658 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
40331682 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:40331706 original size:80 final size:80
Alignment explanation
Indices: 40331538--40331726 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
40331528 GCTGGAAATT
* * *
40331538 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
40331603 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
40331618 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
40331681 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
40331698 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40331727 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:40336503 original size:40 final size:40
Alignment explanation
Indices: 40336459--40336777 Score: 530
Period size: 40 Copynumber: 8.0 Consensus size: 40
40336449 GAATGCACAT
* * *
40336459 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
40336499 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
40336539 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
40336579 CACCAACACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
40336619 CACCAGCACTAATGCTCTTCGGGACTTAGCTCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
40336659 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
40336699 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
40336739 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
40336778 TAACTCTCAA
Statistics
Matches: 259, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 259 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:40338110 original size:37 final size:37
Alignment explanation
Indices: 40338055--40338157 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
40338045 CGAATAGTCC
* *
40338055 CCACGCGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
40338092 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
40338129 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
40338158 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:40338355 original size:48 final size:48
Alignment explanation
Indices: 40338297--40338625 Score: 577
Period size: 48 Copynumber: 6.9 Consensus size: 48
40338287 CTATACACAC
* *
40338297 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40338345 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40338393 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
40338441 ATCTCATATATATTTCACTCTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40338489 ATCTCATATATATTTCACACTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40338537 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40338585 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACA
40338626 CATGTATATA
Statistics
Matches: 274, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 274 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:40347249 original size:51 final size:50
Alignment explanation
Indices: 40347173--40347272 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 50
40347163 CCCTAGTAGC
40347173 CAAAGGGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
1 CAAAGGGGCCTTCACATAGTACCACACTTGTGTCC-AAGCTATTTTATTCA
* *
40347224 CAAAGTGGCCTTCACATAGTACCACACTTGTGTCCAAGGTATTTTATTC
1 CAAAGGGGCCTTCACATAGTACCACACTTGTGTCCAAGCTATTTTATTC
40347273 CTAAGGTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 13 0.28
51 34 0.72
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (50 bp):
CAAAGGGGCCTTCACATAGTACCACACTTGTGTCCAAGCTATTTTATTCA
Found at i:40347328 original size:28 final size:28
Alignment explanation
Indices: 40347296--40347359 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
40347286 GAGAAATTTC
40347296 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
40347324 TCACTTAGCACATTGCCATTGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
40347352 TCACTTAG
1 TCACTTAG
40347360 ATGCGATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:40349051 original size:53 final size:53
Alignment explanation
Indices: 40348983--40349087 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
40348973 TTCCTTTTTA
* * * *
40348983 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
40349036 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT
40349088 AGTAGTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:40352544 original size:29 final size:29
Alignment explanation
Indices: 40352482--40352551 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
40352472 AATCAACCAT
* *
40352482 GCACACTTAGTGCCATGTACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACCC
* *
40352511 ACACACTTAGTGCCATGCA-TTTCAAGCCC
1 GCACACTTAGTGCCATGCACTTT-AAACCC
40352540 GCACACTTAGTG
1 GCACACTTAGTG
40352552 TCATTCTCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACCC
Found at i:40354060 original size:68 final size:70
Alignment explanation
Indices: 40353988--40354185 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
40353978 ACACCCTGTA
* * * *
40353988 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
40354050 ATAAAT
65 ATAAAT
*
40354056 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
40354121 ATAAAT
65 ATAAAT
*
40354127 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
40354186 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:40354099 original size:41 final size:41
Alignment explanation
Indices: 40354054--40354171 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
40354044 TGAAAGATAA
40354054 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
40354095 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40354125 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40354166 ATGTAG
1 ATGTAG
40354172 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:40354111 original size:71 final size:71
Alignment explanation
Indices: 40354022--40354185 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
40354012 GAGATGTATC
40354022 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40354087 AGGACA
66 AGGACA
40354093 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40354158 AGGACA
66 AGGACA
40354164 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
40354186 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:40361629 original size:68 final size:70
Alignment explanation
Indices: 40361557--40361754 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
40361547 ACACCCTGTA
* * * *
40361557 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
40361619 ATAAAT
65 ATAAAT
*
40361625 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
40361690 ATAAAT
65 ATAAAT
*
40361696 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
40361755 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:40361668 original size:41 final size:41
Alignment explanation
Indices: 40361623--40361740 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
40361613 TGAAAGATAA
40361623 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
40361664 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40361694 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40361735 ATGTAG
1 ATGTAG
40361741 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:40361680 original size:71 final size:71
Alignment explanation
Indices: 40361591--40361754 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
40361581 GAGATGTATC
40361591 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40361656 AGGACA
66 AGGACA
40361662 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40361727 AGGACA
66 AGGACA
40361733 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
40361755 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:40378523 original size:17 final size:19
Alignment explanation
Indices: 40378481--40378524 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
40378471 ATAAAATTTT
*
40378481 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
40378500 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
40378518 AA-TATTA
1 AATTATTA
40378525 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:40378600 original size:25 final size:26
Alignment explanation
Indices: 40378572--40378629 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
40378562 TTATTTACTG
40378572 TATTATTGATATTT-GAAATTT-TTAT
1 TATTATT-ATATTTAGAAATTTATTAT
* *
40378597 TATTAGATATATTTATAAATTTATTAT
1 TATTA-TTATATTTAGAAATTTATTAT
40378624 TATTAT
1 TATTAT
40378630 CGGAAAGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
25 11 0.41
26 7 0.26
27 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (26 bp):
TATTATTATATTTAGAAATTTATTAT
Found at i:40380376 original size:28 final size:28
Alignment explanation
Indices: 40380344--40380400 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
40380334 ACGTAGAACA
40380344 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40380372 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40380400 C
1 C
40380401 ATATACCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:40382991 original size:20 final size:20
Alignment explanation
Indices: 40382966--40383003 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40382956 GTTTATTCGC
*
40382966 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
40382986 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
40383004 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:40384658 original size:28 final size:28
Alignment explanation
Indices: 40384626--40384681 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
40384616 ACGTAGATCA
40384626 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40384654 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40384682 ATATACCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:40387294 original size:20 final size:20
Alignment explanation
Indices: 40387269--40387306 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40387259 GTTTATTCGC
*
40387269 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
40387289 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
40387307 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:40388964 original size:28 final size:28
Alignment explanation
Indices: 40388932--40389000 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
40388922 ACGTAGAACA
40388932 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40388960 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40388988 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
40389001 GTGTAACACC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 3 0.08
27 8 0.20
28 29 0.73
ACGTcount: A:0.45, C:0.28, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:40390399 original size:40 final size:39
Alignment explanation
Indices: 40390354--40390483 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
40390344 CGGAATATAA
40390354 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
40390394 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40390434 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
40390474 CCGGATATAA
1 CCGGATATAA
40390484 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:40390498 original size:40 final size:40
Alignment explanation
Indices: 40390370--40390521 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
40390360 ATAACCATGT
* * *
40390370 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
40390410 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
40390450 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
40390490 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
40390522 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:40390504 original size:80 final size:80
Alignment explanation
Indices: 40390370--40390519 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
40390360 ATAACCATGT
*
40390370 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
40390434 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
40390450 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
40390513 CCCGGAT
64 CCCGGAT
40390520 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:40395005 original size:71 final size:71
Alignment explanation
Indices: 40394895--40395044 Score: 225
Period size: 71 Copynumber: 2.1 Consensus size: 71
40394885 AGCAAAACCN
* *
40394895 AATTGAAAATACCTCACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATT-AAA
1 AATTGAAAATACCTCACGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATATTGAAA
40394958 AACACAA
66 AACA-AA
* *
40394965 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
1 AATTGAAAATACCTCA-CGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATATTGAA
40395030 AAACAAA
65 AAACAAA
40395037 AATT-AAAA
1 AATTGAAAA
40395045 GGCTTAACTC
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
70 16 0.22
71 42 0.58
72 8 0.11
73 7 0.10
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (71 bp):
AATTGAAAATACCTCACGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATATTGAAA
AACAAA
Found at i:40395123 original size:120 final size:122
Alignment explanation
Indices: 40394920--40395163 Score: 386
Period size: 120 Copynumber: 2.0 Consensus size: 122
40394910 ACGTGACCTG
* *
40394920 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTAAAAACACAAAATTGAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTAAAAACACAAAA-TCAAAATACCTCAGCGT
40394985 GCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
65 GCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * *
40395044 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACA-TAAA-CAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTAAAAACACAAAATCAAAATACCTCAGCGTG
* *
40395106 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
40395163 A
1 A
40395164 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
119 16 0.14
120 56 0.50
122 3 0.03
123 11 0.10
124 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTAAAAACACAAAATCAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:40395190 original size:71 final size:68
Alignment explanation
Indices: 40395044--40395217 Score: 208
Period size: 71 Copynumber: 2.5 Consensus size: 68
40395034 AAAAATTAAA
* * * * * * *
40395044 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACAAAATACCTCAGCGTGCC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAAAAAAATACCTCAACGTGCC
40395108 CCG
66 CCG
40395111 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAA--AAAAATACCTCAACGT
* **
40395176 GTCTTG
63 GCCCCG
40395182 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
40395218 CCTTGAAAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
67 26 0.28
68 5 0.05
69 9 0.10
70 1 0.01
71 51 0.55
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (68 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAAAAAAATACCTCAACGTGCC
CCG
Found at i:40403623 original size:2 final size:2
Alignment explanation
Indices: 40403616--40403650 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
40403606 ATAAAAATAC
40403616 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40403651 ATAAAAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:40404503 original size:34 final size:31
Alignment explanation
Indices: 40404458--40404552 Score: 136
Period size: 33 Copynumber: 3.0 Consensus size: 31
40404448 TGGCTAGGTT
* *
40404458 TTTTTATTTTTTTATTTTGGTTAGGTTTTTC
1 TTTTTCTTTTTTTTTTTTGGTTAGGTTTTTC
40404489 TTTTTTCTTCTTTTTTTTTTGGGTTAGGTTTTTC
1 -TTTTTCTT-TTTTTTTTTT-GGTTAGGTTTTTC
*
40404523 TTTTTCTTTTTTTTTTTGGGTTAGGTTTTT
1 TTTTTCTTTTTTTTTTTTGGTTAGGTTTTT
40404553 TTTGGGGGGC
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
31 12 0.21
32 16 0.28
33 17 0.29
34 13 0.22
ACGTcount: A:0.05, C:0.05, G:0.15, T:0.75
Consensus pattern (31 bp):
TTTTTCTTTTTTTTTTTTGGTTAGGTTTTTC
Found at i:40404537 original size:31 final size:32
Alignment explanation
Indices: 40404457--40404552 Score: 142
Period size: 31 Copynumber: 3.0 Consensus size: 32
40404447 GTGGCTAGGT
*
40404457 TTTTTTATTTTTTTATTTT-GGTTAGGTTTTTC
1 TTTTTTCTTTTTTT-TTTTGGGTTAGGTTTTTC
40404489 TTTTTTCTTCTTTTTTTTTTGGGTTAGGTTTTTC
1 TTTTTTC-T-TTTTTTTTTTGGGTTAGGTTTTTC
40404523 -TTTTTCTTTTTTTTTTTGGGTTAGGTTTTT
1 TTTTTTCTTTTTTTTTTTGGGTTAGGTTTTT
40404553 TTTGGGGGGC
Statistics
Matches: 60, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
31 23 0.38
32 7 0.12
33 11 0.18
34 19 0.32
ACGTcount: A:0.05, C:0.05, G:0.15, T:0.75
Consensus pattern (32 bp):
TTTTTTCTTTTTTTTTTTGGGTTAGGTTTTTC
Found at i:40406497 original size:2 final size:2
Alignment explanation
Indices: 40406490--40406529 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
40406480 TATTAAAATT
* *
40406490 TA TA TA TA TT TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40406530 ATAAATTGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:40406499 original size:16 final size:16
Alignment explanation
Indices: 40406475--40406514 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
40406465 AAACGTATTA
*
40406475 ATATCTATTAAAATTT
1 ATATATATTAAAATTT
* *
40406491 ATATATATTTATATTT
1 ATATATATTAAAATTT
40406507 ATATATAT
1 ATATATAT
40406515 ATATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATATTAAAATTT
Found at i:40406738 original size:31 final size:29
Alignment explanation
Indices: 40406703--40406794 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 29
40406693 TCCTAGGCTA
*
40406703 AATTTTTATATTTTTCATAAATTTAAAATTT
1 AATTTTTATATTTTT-AT-ATTTTAAAATTT
*
40406734 AATTTTTATATATTTAT-TTTTAAAAATTT
1 AATTTTTATATTTTTATATTTT-AAAATTT
* *
40406763 AATTTTTTTTAGTTTTATATTTTAAAATTT
1 AA-TTTTTATATTTTTATATTTTAAAATTT
40406793 AA
1 AA
40406795 ATCTATTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
28 3 0.06
29 9 0.17
30 23 0.43
31 18 0.34
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (29 bp):
AATTTTTATATTTTTATATTTTAAAATTT
Found at i:40406752 original size:14 final size:15
Alignment explanation
Indices: 40406727--40406769 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
40406717 TCATAAATTT
40406727 AAAATTTAATTTTTA
1 AAAATTTAATTTTTA
* *
40406742 TATATTT-ATTTTTA
1 AAAATTTAATTTTTA
40406756 AAAATTTAATTTTT
1 AAAATTTAATTTTT
40406770 TTTAGTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAAATTTAATTTTTA
Found at i:40406766 original size:29 final size:29
Alignment explanation
Indices: 40406724--40406794 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
40406714 TTTTCATAAA
40406724 TTTAAAATTTAATTTTTATATA-TTTAT-T
1 TTTAAAATTTAATTTTT-TATAGTTTATAT
*
40406752 TTTAAAAATTTAATTTTTTTTAGTTTTATAT
1 TTT-AAAATTTAATTTTTTATAG-TTTATAT
40406783 TTTAAAATTTAA
1 TTTAAAATTTAA
40406795 ATCTATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 6 0.16
29 14 0.37
30 14 0.37
31 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTAAAATTTAATTTTTTATAGTTTATAT
Found at i:40406780 original size:30 final size:29
Alignment explanation
Indices: 40406703--40406794 Score: 98
Period size: 31 Copynumber: 3.1 Consensus size: 29
40406693 TCCTAGGCTA
* *
40406703 AATTTTTATATTTTTCATAAATTTAAAATTT
1 AATTTTTATATATTT-AT-ATTTTAAAATTT
40406734 AATTTTTATATATTTAT-TTTTAAAAATTT
1 AATTTTTATATATTTATATTTT-AAAATTT
*
40406763 AATTTTT-TTTAGTTTTATATTTTAAAATTT
1 AATTTTTATATA--TTTATATTTTAAAATTT
40406793 AA
1 AA
40406795 ATCTATTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
28 6 0.11
29 14 0.26
30 16 0.30
31 18 0.33
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (29 bp):
AATTTTTATATATTTATATTTTAAAATTT
Found at i:40407529 original size:31 final size:29
Alignment explanation
Indices: 40407483--40407540 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
40407473 AAAGGTTTGC
40407483 ATCTTTTTTTTCTTTTTCTTTTCTTTCGA
1 ATCTTTTTTTTCTTTTTCTTTTCTTTCGA
* *
40407512 ATCTATTTTCTTTCTTTTTGTTTTTTTTC
1 ATCT-TTTT-TTTCTTTTTCTTTTCTTTC
40407541 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 4 0.16
31 17 0.68
ACGTcount: A:0.07, C:0.16, G:0.03, T:0.74
Consensus pattern (29 bp):
ATCTTTTTTTTCTTTTTCTTTTCTTTCGA
Found at i:40410869 original size:2 final size:2
Alignment explanation
Indices: 40410864--40410898 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
40410854 TAAATACTAT
*
40410864 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
40410899 TTTAATACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:40421370 original size:54 final size:54
Alignment explanation
Indices: 40421306--40421437 Score: 255
Period size: 54 Copynumber: 2.4 Consensus size: 54
40421296 TTAATTTTAA
40421306 CTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
1 CTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
40421360 CTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
1 CTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
*
40421414 CTCATATTGCGAGAGGTGAGTTGA
1 CTCATATTGCGAGAGGTGGGTTGA
40421438 GCCTCAGGTC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (54 bp):
CTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
Found at i:40421383 original size:126 final size:122
Alignment explanation
Indices: 40421105--40421383 Score: 380
Period size: 122 Copynumber: 2.3 Consensus size: 122
40421095 TTTTCAAGGG
* *
40421105 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAAGTTTATG
* * **
40421170 TTTTAAATTGACTCATATTGCGACAGGTGATTTAAGCCTTTTAATTTTTGTTTTTCA
66 TTTTAAATTAACTCATATTGCGACAGGTGATTGAAGCCTTTTAATTTTACTTTTTCA
* * *
40421227 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT-AA-GTTTA
* * *
40421292 TGTTTTAATTTTAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTTCA
64 TGTTTTAA-ATTAACTCATATTGCGACAGGT-GATTGAAGCCTTTTAATTT-TACTTTTTCA
* *
40421353 AAATCAGCTCATATTGCGAGAGGTGGGTTGA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGA
40421384 ACCTTTTAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
122 54 0.39
123 1 0.01
124 11 0.08
125 30 0.22
126 41 0.30
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (122 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAAGTTTATG
TTTTAAATTAACTCATATTGCGACAGGTGATTGAAGCCTTTTAATTTTACTTTTTCA
Found at i:40421589 original size:140 final size:140
Alignment explanation
Indices: 40421349--40421758 Score: 768
Period size: 140 Copynumber: 2.9 Consensus size: 140
40421339 TTTCTACTTT
*
40421349 TTCAA-AATCAGCTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
1 TTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
40421413 GCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
66 GCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
40421478 ATTTACGTTG
131 ATTTACGTTG
40421488 TTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
1 TTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
*
40421553 GCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGTTTTCA
66 GCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
40421618 ATTTACGTTG
131 ATTTACGTTG
40421628 TTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
1 TTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
* * *
40421693 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCA
66 GCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
40421758 A
131 A
40421759 AAAAATCAAC
Statistics
Matches: 264, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
139 5 0.02
140 259 0.98
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
TTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
GCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
ATTTACGTTG
Found at i:40421807 original size:74 final size:74
Alignment explanation
Indices: 40421686--40421977 Score: 433
Period size: 77 Copynumber: 3.9 Consensus size: 74
40421676 CTACTTTTTC
40421686 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
40421751 GTTGTCAAA
66 GTTGTCAAA
* * * *
40421760 AAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
40421825 CGTATGTTTC-AA
66 -GT-TG--TCAAA
*
40421837 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
40421902 GTTGTAAAAA
66 GTTGT-CAAA
* * *
40421912 AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
40421977 C
64 C
40421978 CGTTTTTCAA
Statistics
Matches: 196, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
73 1 0.01
74 61 0.31
75 44 0.22
76 4 0.02
77 84 0.43
78 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTGTCAAA
Found at i:40422147 original size:76 final size:75
Alignment explanation
Indices: 40422003--40422962 Score: 469
Period size: 72 Copynumber: 12.6 Consensus size: 75
40421993 GCCTTTCAAA
* *
40422003 AAAACAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAA
40422068 TTTCTGTTGT
66 TTTCTGTTGT
* * *
40422078 AAAA-AAAATCAACTCGTATTGCGAGCA-GCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTT
1 AAAACAAAATCAACTCATATTGCAAG-AGGCGAGTTGAGCCTCAGG--ACACGCCGAGGTAATTT
*
40422141 CAATTTCTGTTTTT
63 CAATTTCTG-TTGT
** ** * * * *
40422155 CAATTTCTGCCTTTAAAAAAAAATCA-ACT-CATATTGCGAGAGGTGAGTTGAGCCTC-GGACAC
1 -AA-----AAC---AAAATCAACTCATATTGCA-A--GAG-G---CGAGTTGAGCCTCAGGACAC
*
40422217 GCTGAGGTAATTTCAATTTCTGTT-T
50 GCCGAGGTAATTTCAATTTCTGTTGT
* * *** * ** *
40422242 ---TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 AAAACAAAA-TCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCA
*
40422304 ATTTCTGTTTT
65 ATTTCTGTTGT
* * * * * * * * *
40422315 CAAA-AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTT
1 AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGG-ACAC--GCCGAGGTAATTT
* *
40422378 CAATTTCTATCTTT
63 CAATTTCTGT-TGT
* * * * * * *
40422392 CAAA-AAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGATATTT
1 AAAACAAAAT-CAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGG-ACAC--GCCGAGGTAATT
* *
40422455 TCAATTTTTGTCTTT
62 TCAATTTCTGT-TGT
* * * * *
40422470 CAAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
1 AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAA
*
40422534 TTTCTATT-T
66 TTTCTGTTGT
* * *** * ** *
40422543 ---TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 AAAACAAAA-TCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCA
40422605 ATTT-TGGTT-T
65 ATTTCT-GTTGT
** * * * *
40422615 TCAA-AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAA
40422679 TTTCTGTTGT
66 TTTCTGTTGT
* * *** * *
40422689 CAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
1 ---AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTT
40422754 CAATTTCTGTT-T
63 CAATTTCTGTTGT
* * *** * * * ** *
40422766 ---TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTCATGTTGAGGTATTTTCA
1 AAAACAAAA-TCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCA
*
40422828 ATTTCTGTTTT
65 ATTTCTGTTGT
* * * * * * * *
40422839 CAAA-AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTC
1 AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAG--GACACGCCGAGGTAATTTC
*
40422903 AATTTCTGTCTTT
64 AATTTCTGT-TGT
* ** * *
40422916 CAAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAG
1 ---AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAG
40422963 ATCACACACT
Statistics
Matches: 736, Mismatches: 88, Indels: 116
0.78 0.09 0.12
Matches are distributed among these distances:
71 22 0.03
72 143 0.19
73 60 0.08
74 105 0.14
75 37 0.05
76 74 0.10
77 59 0.08
78 142 0.19
80 3 0.00
81 36 0.05
85 1 0.00
86 3 0.00
87 9 0.01
88 3 0.00
89 25 0.03
91 2 0.00
92 12 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (75 bp):
AAAACAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAA
TTTCTGTTGT
Found at i:40422156 original size:14 final size:14
Alignment explanation
Indices: 40422137--40422163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40422127 CGCCGAGGTA
40422137 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
40422151 TTTTCAATTTCTG
1 TTTTCAATTTCTG
40422164 CCTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:40422177 original size:171 final size:165
Alignment explanation
Indices: 40421835--40422918 Score: 841
Period size: 145 Copynumber: 6.9 Consensus size: 165
40421825 CGTATGTTTC
* *
40421835 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
40421900 CTGTTGTAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
66 CTGTTGT-AAAAAAAATCAACTCGTATTGCGAGA-GCGAGTTGAGCCTCAGGTCACACGCCGAGG
*
40421965 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA
129 TATTTTCAATTTCTGTTTTTCAATTTCTGCCTTT---AAA
*
40422005 AACAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
40422070 TCTGTTGTAAAAAAAATCAACTCGTATTGCGAGCAGCGAGTTGAGCCTCAGGTCACACGCCGAGG
65 TCTGTTGTAAAAAAAATCAACTCGTATTGCGAG-AGCGAGTTGAGCCTCAGGTCACACGCCGAGG
40422135 TATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTAAA
129 TATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTAAA
40422172 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
** * * ** * **
40422236 CTGTT-T-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGT
66 CTGTTGTAAAAAAAATCAACTCGTATTGCGAG-AGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
40422297 ATTTTCAATTTCTG--------TTT-T--C-----A
130 ATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTAAA
* * * * *
40422317 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTAATTTCAA
* * * * * **
40422381 TTTCTATCTTTCAAAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGC
63 TTTCTGT-TGTAAAAAAAAT-CAACTCGTATTGCGAGA-GCGAGTTGAGCCTCAGG-TCACACGC
* * *
40422445 TGAGATATTTTCAA--T-T-TTTGTC---TT-T--C-----A
124 CGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTAAA
*
40422472 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* ** * * ** * **
40422537 CTATT-T-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGT
66 CTGTTGTAAAAAAAATCAACTCGTATTGCGAG-AGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
*
40422598 ATTTTCAATTT-TG-------GTTT-T--C------
130 ATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTAAA
*
40422617 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* ** * *
40422682 CTGTTGTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTG
66 CTGTTGT----AAAAAAAATCAACTCGTATTGCGAG-AGCGAGTTGAGCCTCAGGTCACACGCCG
*
40422745 AGGTAATTTCAATTTCTG--------TTT-T--C------
126 AGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTAAA
* ** * * * * *
40422768 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTCATGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* * ** * * * *
40422832 CTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACATGCTGAGGT
66 CTGTTGTAAAAAAAATCAACTCGTATTGCGAGA-GCGAGTTGAGCCTCAGGTCACACGCCGAGGT
*
40422897 ATTTTCAATTTCTGTCTTTCAA
130 ATTTTCAATTTCTGTTTTTCAA
40422919 AAAAAAAAAT
Statistics
Matches: 800, Mismatches: 68, Indels: 106
0.82 0.07 0.11
Matches are distributed among these distances:
145 108 0.14
146 45 0.06
147 16 0.02
148 44 0.05
149 32 0.04
150 70 0.09
151 75 0.09
152 34 0.04
153 24 0.03
154 16 0.02
155 45 0.06
156 2 0.00
161 24 0.03
163 35 0.04
164 1 0.00
165 30 0.04
166 36 0.05
167 5 0.01
170 90 0.11
171 68 0.09
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (165 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTA
TTTTCAATTTCTGTTTTTCAATTTCTGCCTTTAAA
Found at i:40422241 original size:89 final size:89
Alignment explanation
Indices: 40422062--40422242 Score: 253
Period size: 92 Copynumber: 2.0 Consensus size: 89
40422052 GCTGAGGTAA
*
40422062 TTTCAATTTCTGTTGTAAAAAAAATCAACTCGTATTGCGAGCAGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGCAGCGAGTTGAGCCTCAGG-CACA
*
40422127 CGCCGAGGTATTTTCAATTTCTGTT
65 CGCCGAGGTAATTTCAATTTCTGTT
*
40422152 TTTCAATTTCTGCCTT-TAAAAAAAAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTC-GG-
1 TTTCAATTTCTG--TTGT-AAAAAAAATCAACTCATATTGCGAGCA-GCGAGTTGAGCCTCAGGC
*
40422213 ACACGCTGAGGTAATTTCAATTTCTGTT
62 ACACGCCGAGGTAATTTCAATTTCTGTT
40422241 TT
1 TT
40422243 CAAAATTCAA
Statistics
Matches: 83, Mismatches: 4, Indels: 9
0.86 0.04 0.09
Matches are distributed among these distances:
89 28 0.34
90 12 0.14
91 4 0.05
92 39 0.47
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (89 bp):
TTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGCAGCGAGTTGAGCCTCAGGCACAC
GCCGAGGTAATTTCAATTTCTGTT
Found at i:40422316 original size:72 final size:73
Alignment explanation
Indices: 40422172--40422957 Score: 904
Period size: 72 Copynumber: 10.5 Consensus size: 73
40422162 TGCCTTTAAA
* *
40422172 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
40422236 CTGTTTTC
66 CTGTTTTC
* ** *
40422244 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
40422308 CTGTTTTC
66 CTGTTTTC
* ** * *
40422316 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC--GCTGAGGTATTTTCA
*
40422380 ATTTCTATCTTTC
62 ATTTCTGT-TTTC
* * *
40422393 AAAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGATATTTTC
1 -AAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC--GCTGAGGTATTTTC
*
40422457 AATTTTTGTCTTTC
61 AATTTCTGT-TTTC
** *
40422471 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
*
40422536 TCTATTTTC
65 TCTGTTTTC
* ** *
40422545 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
40422609 -TGGTTTTC
66 CT-GTTTTC
* * *
40422617 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
*
40422682 CTGTTGTC
66 CTGTTTTC
** *
40422690 AAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
1 -----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
40422755 AATTTCTGTTTTC
61 AATTTCTGTTTTC
* ** * * *
40422768 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTCATGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
40422832 CTGTTTTC
66 CTGTTTTC
* *
40422840 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACATGCTGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCA
40422904 ATTTCTGTCTTTC
62 ATTTCTGT-TTTC
*
40422917 AAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
1 -----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
40422958 TTCAGATCAC
Statistics
Matches: 627, Mismatches: 59, Indels: 47
0.86 0.08 0.06
Matches are distributed among these distances:
71 36 0.06
72 159 0.25
73 65 0.10
74 75 0.12
75 19 0.03
76 45 0.07
77 51 0.08
78 142 0.23
81 35 0.06
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:40422727 original size:223 final size:220
Alignment explanation
Indices: 40422151--40422957 Score: 1043
Period size: 223 Copynumber: 3.6 Consensus size: 220
40422141 CAATTTCTGT
**
40422151 TTTTCAATTTCTGCCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
1 TTTTCAATTTCTG--TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
*
40422216 CGCTGAGGTAATTTCAATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAG
64 CGCTGAGGTAATTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
* * * * **
40422278 CCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGG
129 CCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAA
** *
40422343 TGAGTTGAGCCT-TGGCTCACGTGCTGAGCTA
192 TGAGTTGAGCCTCAAG-TCACGT--TGAGGTA
* *
40422374 TTTTCAATTTCTATCTTTCAAAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
1 TTTTCAATTTCTGT-TTTCAAAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-AC
* * * **
40422439 ACGTGCTGAGATATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
63 AC--GCTGAGGTAATTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTT
** *
40422504 GAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAA
126 GAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAA
*
40422569 ATGAGTTGAGCCTCAAGACACGTTGAGGTA
191 ATGAGTTGAGCCTCAAGTCACGTTGAGGTA
*
40422599 TTTTCAATTT-TGGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
*
40422662 CGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGT
64 CGCTGAGGTAATTTCAATTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAAATGAGT
40422726 TGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGA
125 TGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGA
*
40422791 AATGAGTTGAGCCTCAAGTCATGTTGAGGTA
190 AATGAGTTGAGCCTCAAGTCACGTTGAGGTA
* *
40422822 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTTCAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G--GAC
* * * **
40422887 ATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAAATCAACTCATATTGTGAGAGGTGAG
63 ACGCTGAGGTAATTTCAATTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAAATGAG
40422952 TTGAGC
124 TTGAGC
40422958 TTCAGATCAC
Statistics
Matches: 520, Mismatches: 44, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
219 3 0.01
220 20 0.04
221 1 0.00
222 44 0.08
223 192 0.37
224 50 0.10
225 17 0.03
226 45 0.09
227 83 0.16
228 1 0.00
229 64 0.12
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (220 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACG
CTGAGGTAATTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
TCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAG
TTGAGCCTCAAGTCACGTTGAGGTA
Found at i:40423760 original size:10 final size:10
Alignment explanation
Indices: 40423745--40423769 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
40423735 TAACCCCCCA
40423745 AAAAAAAAAG
1 AAAAAAAAAG
40423755 AAAAAAAAAG
1 AAAAAAAAAG
40423765 AAAAA
1 AAAAA
40423770 CCTAACCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:40423791 original size:36 final size:35
Alignment explanation
Indices: 40423724--40423821 Score: 144
Period size: 35 Copynumber: 2.8 Consensus size: 35
40423714 TAAGCCCCCC
*
40423724 AAAA-AAAAACCTAACCCCCCAAAAAAAAAAGAAAAA
1 AAAAGAAAAACCTAA-CCCCAAAAAAAAAAAG-AAAA
* *
40423760 AAAAGAAAAACCTAACCCAAAAAAAAAAAAGAAGA
1 AAAAGAAAAACCTAACCCCAAAAAAAAAAAGAAAA
40423795 AAAAGAAAAACCTAACCCCAAAAAAAA
1 AAAAGAAAAACCTAACCCCAAAAAAAA
40423822 GAAACTAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
35 29 0.51
36 18 0.32
37 10 0.18
ACGTcount: A:0.72, C:0.19, G:0.05, T:0.03
Consensus pattern (35 bp):
AAAAGAAAAACCTAACCCCAAAAAAAAAAAGAAAA
Found at i:40425850 original size:20 final size:20
Alignment explanation
Indices: 40425825--40425864 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
40425815 TAATCAAATT
40425825 GTAACAACAAAAT-AAATAAA
1 GTAAC-ACAAAATAAAATAAA
*
40425845 GTAACATAAAATAAAATAAA
1 GTAACACAAAATAAAATAAA
40425865 ACGAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (20 bp):
GTAACACAAAATAAAATAAA
Found at i:40426582 original size:20 final size:20
Alignment explanation
Indices: 40426557--40426598 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
40426547 GAAAAATTCT
40426557 CTCTCCTCTCTCTCAAATAC
1 CTCTCCTCTCTCTCAAATAC
40426577 CTCTCCTCTCTCTCAAATAC
1 CTCTCCTCTCTCTCAAATAC
40426597 CT
1 CT
40426599 ATAAGTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.45, G:0.00, T:0.36
Consensus pattern (20 bp):
CTCTCCTCTCTCTCAAATAC
Found at i:40426675 original size:106 final size:106
Alignment explanation
Indices: 40426492--40426693 Score: 404
Period size: 106 Copynumber: 1.9 Consensus size: 106
40426482 TGGGAGCCTA
40426492 TATAAGTTAGTTTTTTGACAAAAAAATCATTTAACCCTTGTTTTAAAAAAAATCTGAAAAATTCT
1 TATAAGTTAGTTTTTTGACAAAAAAATCATTTAACCCTTGTTTTAAAAAAAATCTGAAAAATTCT
40426557 CTCTCCTCTCTCTCAAATACCTCTCCTCTCTCTCAAATACC
66 CTCTCCTCTCTCTCAAATACCTCTCCTCTCTCTCAAATACC
40426598 TATAAGTTAGTTTTTTGACAAAAAAATCATTTAACCCTTGTTTTAAAAAAAATCTGAAAAATTCT
1 TATAAGTTAGTTTTTTGACAAAAAAATCATTTAACCCTTGTTTTAAAAAAAATCTGAAAAATTCT
40426663 CTCTCCTCTCTCTCAAATACCTCTCCTCTCT
66 CTCTCCTCTCTCTCAAATACCTCTCCTCTCT
40426694 GGCCAAGCTC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.38
Consensus pattern (106 bp):
TATAAGTTAGTTTTTTGACAAAAAAATCATTTAACCCTTGTTTTAAAAAAAATCTGAAAAATTCT
CTCTCCTCTCTCTCAAATACCTCTCCTCTCTCTCAAATACC
Found at i:40427689 original size:44 final size:45
Alignment explanation
Indices: 40427565--40427728 Score: 129
Period size: 45 Copynumber: 3.7 Consensus size: 45
40427555 CTTTTTCAAG
* * *
40427565 TAGCTTCATTCTAAC-CTACTACAACTTCAGGGAGATAAGA--TTA
1 TAGCTTCAATCT-ACTCTACTACAACTTCAGAGAGATGAGATTTTA
* * ** * * *
40427608 GTGGCTTCAATTTTGTCCCACTGCAACTTCAGTGAGATGAGA-TTTA
1 -TAGCTTCAATCTACT-CTACTACAACTTCAGAGAGATGAGATTTTA
* * * *
40427654 TAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATGAGATTTTC
1 TAGCTTCAATCTACTCTACTACAACTTCAGAGAGATGAGATTTTA
* *
40427699 TATCTTCAATCTACTCTACTGCAACTTCAG
1 TAGCTTCAATCTACTCTACTACAACTTCAG
40427729 GGAAATAAGA
Statistics
Matches: 92, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
44 30 0.33
45 59 0.64
46 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
TAGCTTCAATCTACTCTACTACAACTTCAGAGAGATGAGATTTTA
Found at i:40427724 original size:45 final size:44
Alignment explanation
Indices: 40427627--40428328 Score: 169
Period size: 44 Copynumber: 15.4 Consensus size: 44
40427617 ATTTTGTCCC
* * * * *
40427627 ACTGCAACTTCAGTGAGATGAGATTTATAGCTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATGAGATTTTTATCTTCAATCTACTCT
* * *
40427671 ACTACAACTTTAGAGAGATGAGATTTTCTATCTTCAATCTACTCT
1 ACTGCAACTTCAGGGAGATGAGATTTT-TATCTTCAATCTACTCT
* * * * * *
40427716 ACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAACCTACCCC
1 ACTGCAACTTCAGGGAGATGAGATT-TTTATCTTCAATCTACTCT
* * * * ** ** * * *
40427761 ATTGCAACTTTAGGGAGATAAGGTTAATGGCTTTAATCTATTCC
1 ACTGCAACTTCAGGGAGATGAGATTTTTATCTTCAATCTACTCT
* * * * * * *
40427805 ACTACAACTTTAGGGAGATAAGATTCGCCATAATAACTTTAATCCA-TCT
1 ACTGCAACTTCAGGGAGATGAGATT-----T-TTATCTTCAATCTACTCT
* * * * * * *
40427854 CATTGTAACTTCAAGGG-TATGGGATTTGTAACTTCAATCTACTCC
1 -ACTGCAACTTC-AGGGAGATGAGATTTTTATCTTCAATCTACTCT
* * * * * * *
40427899 ACTGCAACTTCAAGGAGATAAGATTTGTTATTTTTAACCTGCTCC
1 ACTGCAACTTCAGGGAGATGAGATTT-TTATCTTCAATCTACTCT
* * * * * *
40427944 ACTTCAACTTCAGGGAGATAAGGTTCGTGA-CTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATGAGATT-TTTATCTTCAATCTACTCT
* * * * * *
40427988 GCTGCAACCTCAGGGAGATAAGATTCGCCATAATAACTTCAATTTA-TCCT
1 ACTGCAACTTCAGGGAGATGAGATT-----T-TTATCTTCAATCTACT-CT
* * * * * *
40428038 ACTGCAATTTCAAGGG-TATG-GAATTTGTAACTTCAATCTATTCC
1 ACTGCAACTTC-AGGGAGATGAG-ATTTTTATCTTCAATCTACTCT
* * * * * *
40428082 ACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCC
1 ACTGCAACTTCAGGGAGATGAGATTT-TTATCTTCAATCTACTCT
* * * * * * * *
40428127 ACTACAACTTAAGGAAGATAAGGTTCGTGAT-TTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATGAGATT-TTTATCTTCAATCTACTCT
* * * * *
40428171 ACTGCAACCTCAGTGAGATAAGATTTGCCATAATAGCTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATGAGATTT----T--TATCTTCAATCTACTCT
* * * * * ** * *
40428221 ATTGTAACTTTAGGGAGATAAGATTTATGGCTTTAATCTGCT-T
1 ACTGCAACTTCAGGGAGATGAGATTTTTATCTTCAATCTACTCT
** * * * * *
40428264 CACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCTGCTCC
1 -ACTGCAACTTCAGGGAGATGAGATTT-TTATCTTCAATCTACTCT
*
40428310 ACTACAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAGAT
40428329 AAGACTTGTA
Statistics
Matches: 482, Mismatches: 138, Indels: 75
0.69 0.20 0.11
Matches are distributed among these distances:
43 7 0.01
44 205 0.43
45 173 0.36
46 1 0.00
47 1 0.00
49 6 0.01
50 81 0.17
51 8 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATGAGATTTTTATCTTCAATCTACTCT
Found at i:40427900 original size:94 final size:94
Alignment explanation
Indices: 40427795--40428106 Score: 286
Period size: 94 Copynumber: 3.4 Consensus size: 94
40427785 TAATGGCTTT
* * * *
40427795 AATCTATTCCACTACAACTTTAGGGAGATAAGATTCGCCATAATAACTTTAATCCATCTCATTGT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAATAACTTTAATCCATCTCATTGC
40427860 AACTTCAAGGGTATGGGATTTGTAACTTC
66 AACTTCAAGGGTATGGGATTTGTAACTTC
* * **
40427889 AATCTACTCCACTGCAACTTCAAGGAGATAAGATTTG---T--TATTTTTAA-CC-TGCTCCACT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAATAACTTTAATCCAT-CT-CA-T
* * * *
40427947 T-CAACTTC-AGGGAGATAAGG-TTCGTGACTTC
63 TGCAACTTCAAGGG-TAT-GGGATTTGTAACTTC
* ** * * ** *
40427978 AATCTGCTCTGCTGCAACCTCAGGGAGATAAGATTCGCCATAATAACTTCAATTTATC-CTACTG
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAATAACTTTAATCCATCTC-ATTG
* *
40428042 CAATTTCAAGGGTATGGAATTTGTAACTTC
65 CAACTTCAAGGGTATGGGATTTGTAACTTC
*
40428072 AATCTATTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATT
40428107 TGTTATTTTT
Statistics
Matches: 167, Mismatches: 35, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
87 1 0.01
88 8 0.05
89 57 0.34
90 4 0.02
91 1 0.01
92 1 0.01
93 3 0.02
94 86 0.51
95 5 0.03
96 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (94 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAATAACTTTAATCCATCTCATTGC
AACTTCAAGGGTATGGGATTTGTAACTTC
Found at i:40427922 original size:183 final size:182
Alignment explanation
Indices: 40427702--40428331 Score: 674
Period size: 183 Copynumber: 3.4 Consensus size: 182
40427692 GATTTTCTAT
* * * * * *
40427702 CTTCAATCTACTCTACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAACCTACCCCATTGCA
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTTATCTTCAACCTGCTCCATT-CA
* ** * * * *
40427767 ACTTTAGGGAGATAAGGTTAATGGCTTTAATCTATTCCACTACAACTTTAGGGAGATAAGATTCG
65 ACTTAAGGGAGATAAGGTTCGTGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTCG
* *
40427832 CCATAATAACTTTAATCCATCTCATTGTAACTTCAAGGGTATGGGATTTGTAA
130 CCATAATAACTTCAATCTATCTCATTGTAACTTCAAGGGTATGGGATTTGTAA
* *
40427885 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTTCA
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTTATCTTCAACCTGCTCCA-TTCA
* * * * **
40427950 ACTTCAGGGAGATAAGGTTCGTGACTTCAATCTGCTCTGCTGCAACCTCAGGGAGATAAGATTCG
65 ACTTAAGGGAGATAAGGTTCGTGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTCG
* * * * *
40428015 CCATAATAACTTCAATTTATC-CTACTGCAATTTCAAGGGTATGGAATTTGTAA
130 CCATAATAACTTCAATCTATCTC-ATTGTAACTTCAAGGGTATGGGATTTGTAA
* * * * *
40428068 CTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTACA
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTTATCTTCAACCTGCTCCA-TTCA
* * * *
40428133 ACTTAAGGAAGATAAGGTTCGT-GATTTCAATCTACTCCACTGCAACCTCAGTGAGATAAGATTT
65 ACTTAAGGGAGATAAGGTTCGTGGCTTT-AATCTACTCCACTGCAACCTCAGGGAGATAAGATTC
* * * ** * **
40428197 GCCATAATAGCTTCAATCTA-CTCCATTGTAACTT-TAGGGAGATAAGATTTATGG
129 GCCATAATAACTTCAATCTATCT-CATTGTAACTTCAAGGG-TATGGGATTTGTAA
* * * * * ** *
40428251 CTTTAATCTGCTTCACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACA
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTTATCTTCAACCTGCTCCA-TTCA
*
40428316 ACTTCAGGGAGATAAG
65 ACTTAAGGGAGATAAG
40428332 ACTTGTAACT
Statistics
Matches: 375, Mismatches: 66, Indels: 12
0.83 0.15 0.03
Matches are distributed among these distances:
182 8 0.02
183 364 0.97
184 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (182 bp):
CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTTATCTTCAACCTGCTCCATTCAA
CTTAAGGGAGATAAGGTTCGTGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTCGC
CATAATAACTTCAATCTATCTCATTGTAACTTCAAGGGTATGGGATTTGTAA
Found at i:40427993 original size:89 final size:89
Alignment explanation
Indices: 40427582--40428331 Score: 372
Period size: 89 Copynumber: 8.2 Consensus size: 89
40427572 ATTCTAACCT
* * * * **
40427582 ACTACAACTTCAGGGAGATAAGATTAGTGGCTTCAATTTTGTCCCACTGCAACTTC-AGTGAGAT
1 ACTACAACTTCAGGGAGATAAGGTTCGTGACTTCAATCTACT-CCACTGCAACTTCAAG-GAGAT
* * * * * *
40427646 GAGATTT-ATAGCTTTAATCTGCTCT
64 AAGATTTGTTATCTTCAACCTGCTCC
* * ** * * *
40427671 ACTACAACTTTAGAGAGATGAGATTTTC-T-ATCTTCAATCTACTCTACTGCAACTTCAGGGAAA
1 ACTACAACTTCAGGGAGAT-A-AGGTTCGTGA-CTTCAATCTACTCCACTGCAACTTCAAGGAGA
* * *
40427734 TAAGATTCGTTATCTTCAACCTACCCC
63 TAAGATTTGTTATCTTCAACCTGCTCC
* * * ** * * * * * *
40427761 ATTGCAACTTTAGGGAGATAAGGTTAATGGCTTTAATCTATTCCACTACAACTTTAGGGAGATAA
1 ACTACAACTTCAGGGAGATAAGGTTCGTGACTTCAATCTACTCCACTGCAACTTCAAGGAGATAA
* * *
40427826 GATTCGCCATAATAACTTTAATCCAT-CT-C
66 GATTTG---T--TATCTTCAA-CC-TGCTCC
* ** * * * *
40427855 ATTGTAACTTCAAGG-G-TATGGGATTTGTAACTTCAATCTACTCCACTGCAACTTCAAGGAGAT
1 ACTACAACTTCAGGGAGATA-AGG-TTCGTGACTTCAATCTACTCCACTGCAACTTCAAGGAGAT
* *
40427918 AAGATTTGTTATTTTTAACCTGCTCC
64 AAGATTTGTTATCTTCAACCTGCTCC
* * ** * *
40427944 ACTTCAACTTCAGGGAGATAAGGTTCGTGACTTCAATCTGCTCTGCTGCAACCTCAGGGAGATAA
1 ACTACAACTTCAGGGAGATAAGGTTCGTGACTTCAATCTACTCCACTGCAACTTCAAGGAGATAA
* * * **
40428009 GATTCGCCATAATAACTTCAA-TTTATCC
66 GATTTG---T--TATCTTCAACCTGCTCC
* * * * * * * *
40428037 TACTGCAATTTCAAGG-G-TATGGAATTTGTAACTTCAATCTATTCCACTGCAACTTCAGGGAGA
1 -ACTACAACTTCAGGGAGATAAGG--TTCGTGACTTCAATCTACTCCACTGCAACTTCAAGGAGA
* *
40428100 TAAGATTTGTTATTTTTAACCTGCTCC
63 TAAGATTTGTTATCTTCAACCTGCTCC
* * * *
40428127 ACTACAACTTAAGGAAGATAAGGTTCGTGATTTCAATCTACTCCACTGCAACCTC-AGTGAGATA
1 ACTACAACTTCAGGGAGATAAGGTTCGTGACTTCAATCTACTCCACTGCAACTTCAAG-GAGATA
* * *
40428191 AGATTTGCCATAATAGCTTCAATCTACTCC
65 AGATTTG---T--TATCTTCAACCTGCTCC
* ** * * ** * * * * *
40428221 ATTGTAACTTTAGGGAGATAAGATTTATGGCTTTAATCTGCTTCACTGCAACTTCAAAGAGATAA
1 ACTACAACTTCAGGGAGATAAGGTTCGTGACTTCAATCTACTCCACTGCAACTTCAAGGAGATAA
* **
40428286 GATTTGCTATCTTCAGTCTGCTCC
66 GATTTGTTATCTTCAACCTGCTCC
40428310 ACTACAACTTCAGGGAGATAAG
1 ACTACAACTTCAGGGAGATAAG
40428332 ACTTGTAACT
Statistics
Matches: 493, Mismatches: 130, Indels: 76
0.71 0.19 0.11
Matches are distributed among these distances:
87 1 0.00
88 8 0.02
89 222 0.45
90 47 0.10
91 11 0.02
92 9 0.02
93 8 0.02
94 182 0.37
95 4 0.01
96 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
ACTACAACTTCAGGGAGATAAGGTTCGTGACTTCAATCTACTCCACTGCAACTTCAAGGAGATAA
GATTTGTTATCTTCAACCTGCTCC
Found at i:40428328 original size:139 final size:139
Alignment explanation
Indices: 40428068--40428332 Score: 311
Period size: 139 Copynumber: 1.9 Consensus size: 139
40428058 GAATTTGTAA
* * **
40428068 CTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTACA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGATAGCTTTAACCTGCTCCACTACA
* * * *
40428133 ACTTAAGGAAGATAAGGTTCGTGATTTCAATCTACTCCACTGCAACCTCAGTGAGATAAGATTTG
66 ACTTAAAGAAGATAAGATTCGTGATTTCAATCTACTCCACTACAACCTCAGGGAGATAAGATTTG
40428198 CCATAATAG
131 CCATAATAG
* * * * * * *
40428207 CTTCAATCTACTCCATTGTAACTTTAGGGAGATAAGATTT-ATGGCTTTAATCTGCTTCACTGCA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGATAGCTTTAACCTGCTCCACTACA
* * * *
40428271 ACTTCAAAG-AGATAAGATTTGCT-ATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
66 ACTT-AAAGAAGATAAGATTCG-TGAT-TTCAATCTACTCCACTACAACCTCAGGGAGATAAGA
40428333 CTTGTAACTT
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
138 33 0.32
139 71 0.68
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (139 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGATAGCTTTAACCTGCTCCACTACA
ACTTAAAGAAGATAAGATTCGTGATTTCAATCTACTCCACTACAACCTCAGGGAGATAAGATTTG
CCATAATAG
Found at i:40428374 original size:366 final size:366
Alignment explanation
Indices: 40427702--40428384 Score: 843
Period size: 366 Copynumber: 1.9 Consensus size: 366
40427692 GATTTTCTAT
* * *
40427702 CTTCAATCTACTCTACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAACCTACCCCATTGCA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAACCTACCCCACTACA
* * * * * *
40427767 ACTTTAGGGAGATAAGGTTAATGGCTTTAATCTATTCCACTACAACTTTAGGGAGATAAGATTCG
66 ACTTAAGGAAGATAAGGTTAATGGATTTAATCTACTCCACTACAACCTCAGGGAGATAAGATTCG
* * ** *
40427832 CCATAATAACTTTAATCCATCTCATTGTAACTTCAAGGGTATGGGATTTGTAACTTCAATCTACT
131 CCATAATAACTTCAATCCATCTCATTGTAACTTCAAGGGGATAAGATTTATAACTTCAATCTACT
* * * * *
40427897 CCACTGCAACTTCAAGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTTCAACTTCAGGGAGA
196 CCACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAACCTGCTCCACTACAACTTCAGGGAGA
* * * **
40427962 TAAGGTTCGTGACTTCAATCTGCTCTGCTGCAACCTCAGGGAGATAAGATTCGCCATAATAACTT
261 TAAGCTTCGTAACTTCAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATAATAACTT
40428027 CAATTTATCCTACTGCAATTTCAAGGGTATGGAATTTGTAA
326 CAATTTATCCTACTGCAATTTCAAGGGTATGGAATTTGTAA
* * * * * * *
40428068 CTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTACA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAACCTACCCCACTACA
** * * *
40428133 ACTTAAGGAAGATAAGGTTCGT-GATTTCAATCTACTCCACTGCAACCTCAGTGAGATAAGATTT
66 ACTTAAGGAAGATAAGGTTAATGGATTT-AATCTACTCCACTACAACCTCAGGGAGATAAGATTC
* * * ** *
40428197 GCCATAATAGCTTCAATCTA-CTCCATTGTAACTT-TAGGGAGATAAGATTTATGGCTTTAATCT
130 GCCATAATAACTTCAATCCATCT-CATTGTAACTTCAAGGG-GATAAGATTTATAACTTCAATCT
* * **
40428260 GCTTCACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGG
193 ACTCCACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAACCTGCTCCACTACAACTTCAGGG
* * * **
40428325 AGATAAGACTT-GTAACTTCAACCTGTTCCATTGTAATTTCAGGGAGATAAGATTCGCCAT
258 AGATAAG-CTTCGTAACTTCAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCAT
40428385 GGTAGATTTG
Statistics
Matches: 262, Mismatches: 51, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
365 10 0.04
366 250 0.95
367 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (366 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAACCTACCCCACTACA
ACTTAAGGAAGATAAGGTTAATGGATTTAATCTACTCCACTACAACCTCAGGGAGATAAGATTCG
CCATAATAACTTCAATCCATCTCATTGTAACTTCAAGGGGATAAGATTTATAACTTCAATCTACT
CCACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAACCTGCTCCACTACAACTTCAGGGAGA
TAAGCTTCGTAACTTCAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATAATAACTT
CAATTTATCCTACTGCAATTTCAAGGGTATGGAATTTGTAA
Found at i:40428588 original size:6 final size:6
Alignment explanation
Indices: 40428577--40428602 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
40428567 TCGCCATTTA
40428577 TAGCCT TAGCCT TAGCCT TAGCCT TA
1 TAGCCT TAGCCT TAGCCT TAGCCT TA
40428603 ATCGCCTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (6 bp):
TAGCCT
Found at i:40431023 original size:40 final size:40
Alignment explanation
Indices: 40430974--40431178 Score: 112
Period size: 40 Copynumber: 5.1 Consensus size: 40
40430964 CAGAGTTTAA
** *
40430974 CCGGATATAGCTA-CTCATTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAGCTCACACAAATGCCTTCGGGACATAAC
* * *
40431014 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAGCTCACACAAATGCCTTCGGGACATAAC
* * *** * **
40431054 CCGGATTTAGTAACTTGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAGCTCACACAAATGCCTTCGGGA-CATAAC
* * * * * **
40431094 CCAGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAGCTCACACAAATGCCTTCGGGA-CATAAC
* * * * *
40431134 CCGGATTTAGTAACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCA-CACAAATGCCTTCGGGACATAAC
40431174 CCGGA
1 CCGGA
40431179 CATCATTCGA
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 5 0.04
40 127 0.90
41 9 0.06
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAGTAGCTCACACAAATGCCTTCGGGACATAAC
Found at i:40431172 original size:80 final size:80
Alignment explanation
Indices: 40430993--40431174 Score: 237
Period size: 80 Copynumber: 2.3 Consensus size: 80
40430983 GCTACTCATT
* * * *
40430993 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCAGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
40431058 ATTTAGTAACTTGTA
66 ATTTAGTAACTTGCA
**
40431073 CAAATGCCTTC-GGATCTTAGTCCAGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAG-CCAGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
40431135 CGGATTTAGTAACTTAGCA
63 CGGATTTAGTAACTT-GCA
40431154 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
40431175 CGGACATCAT
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
79 8 0.09
80 68 0.76
81 14 0.16
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCAGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTTGCA
Found at i:40439214 original size:40 final size:40
Alignment explanation
Indices: 40439081--40439266 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
40439071 GCTACTCGTT
* *
40439081 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
** *
40439121 CAAATGCCTTCGGGA-CTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
*
40439161 CAAATGCCTTCGGATCTTAGTTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * *
40439201 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
40439242 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
40439267 CATCATTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:40439260 original size:80 final size:80
Alignment explanation
Indices: 40439081--40439265 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 80
40439071 GCTACTCGTT
*
40439081 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* *
40439146 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
** * **
40439161 CAAATGCCTTC-GGATCTTAGTTCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
40439223 CGGATATAGTCACTTAGCA
63 CAGATATAGTAAC-TAGCA
40439242 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
40439266 ACATCATTCG
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
79 6 0.07
80 69 0.78
81 13 0.15
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCA
Found at i:40441719 original size:30 final size:30
Alignment explanation
Indices: 40441685--40441749 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
40441675 TCTGATGACT
40441685 GTGTGAGGCACACAGCCTTGGCATATGGGC
1 GTGTGAGGCACACAGCCTTGGCATATGGGC
*
40441715 GTGTGAGGCACACAGCCTTGGCATATTGGC
1 GTGTGAGGCACACAGCCTTGGCATATGGGC
40441745 GTGTG
1 GTGTG
40441750 TGGCCATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.22, G:0.37, T:0.23
Consensus pattern (30 bp):
GTGTGAGGCACACAGCCTTGGCATATGGGC
Found at i:40442532 original size:22 final size:23
Alignment explanation
Indices: 40442486--40442533 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
40442476 GAAAATTTTG
*
40442486 CCAGTAAAAATGTAGACAAGCTA
1 CCAGTAAAAATGTAGACAAACTA
* *
40442509 CCAGTAAAAATG-AGATAAATTA
1 CCAGTAAAAATGTAGACAAACTA
40442531 CCA
1 CCA
40442534 TTCCCCTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.19
Consensus pattern (23 bp):
CCAGTAAAAATGTAGACAAACTA
Found at i:40448915 original size:42 final size:42
Alignment explanation
Indices: 40448803--40448936 Score: 148
Period size: 42 Copynumber: 3.1 Consensus size: 42
40448793 TTCCAATATG
*
40448803 TGATTTTGTGTAAGACAAC-GTCTGGGACATTGGCATCG-ATT
1 TGATTTTGTGTAAGAC-CCTGTCTGGGACATTGGCATCGTATT
* * *
40448844 TAAGATTTATTTGTAAGATCATG-CTTGGGACATTGGCATCGTATT
1 T--GATTT-TGTGTAAGACCCTGTC-TGGGACATTGGCATCGTATT
*
40448889 TGATTTTGTGTAAGACCCTGTCTGGGACAATGGCATCGATATT
1 TGATTTTGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATT
40448932 TGATT
1 TGATT
40448937 ACATGTAAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.01
42 26 0.34
43 21 0.27
44 25 0.32
45 4 0.05
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCCTGTCTGGGACATTGGCATCGTATT
Found at i:40449832 original size:31 final size:33
Alignment explanation
Indices: 40449775--40449839 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
40449765 TTTCGGTCAC
* *
40449775 AACCAATAACAGAATCAATTGGGCCT-AGCCCA
1 AACCAAAAACAGAATCAAGTGGGCCTAAGCCCA
*
40449807 AACCAAAAATAGAAT-AAGTGGGCCTAAGCCCA
1 AACCAAAAACAGAATCAAGTGGGCCTAAGCCCA
40449839 A
1 A
40449840 TACGGTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.14
Consensus pattern (33 bp):
AACCAAAAACAGAATCAAGTGGGCCTAAGCCCA
Found at i:40450086 original size:32 final size:31
Alignment explanation
Indices: 40450035--40450130 Score: 93
Period size: 32 Copynumber: 3.0 Consensus size: 31
40450025 ATACGGCTCT
* *
40450035 AAGCCTTCAGTAGCGGTATTATAATTGGCACA
1 AAGCCATCAGTAAC-GTATTATAATTGGCACA
* **
40450067 AAGCCATCGGTAACTGTATTATGTTTGGCACA
1 AAGCCATCAGTAAC-GTATTATAATTGGCACA
* * *
40450099 TAGCCATCAGTGACGATAATATAATTGGCACA
1 AAGCCATCAGTAACG-TATTATAATTGGCACA
40450131 CAACCTTGGG
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 1 0.02
32 50 0.98
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (31 bp):
AAGCCATCAGTAACGTATTATAATTGGCACA
Found at i:40450651 original size:27 final size:26
Alignment explanation
Indices: 40450618--40450679 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
40450608 CAAAACAATC
40450618 ATTTTAC-CCTACAGAGGTATTTCTA-TA
1 ATTTTACACCTA-AG-GGTATTTC-AGTA
40450645 ATTTTACAACCTAAGGGTATTTCAGTA
1 ATTTTAC-ACCTAAGGGTATTTCAGTA
40450672 ATTTTACA
1 ATTTTACA
40450680 AATCAGGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 2 0.06
27 24 0.75
28 2 0.06
29 4 0.12
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTTACACCTAAGGGTATTTCAGTA
Found at i:40454132 original size:72 final size:72
Alignment explanation
Indices: 40454005--40454146 Score: 248
Period size: 73 Copynumber: 2.0 Consensus size: 72
40453995 CATACGGCCT
*
40454005 GTTCACACGGGCGTGTGACCTTTGTAACTTAGTAAAAATTGTTTAGCATCAAAAAATTTTGTATG
1 GTTCACACGGGCGTGTGACCTTTGTAACTTAGAAAAAATTGTTTAGCATCAAAAAATTTTGTATG
40454070 TGTTCCG
66 TGTTCCG
* *
40454077 GTTCACACTGGTGTGTGACCTTTGTAACTTAGAAAAAAATTGTTTAGCATCAAAAAATTTTGTAT
1 GTTCACACGGGCGTGTGACCTTTGTAACTTAG-AAAAAATTGTTTAGCATCAAAAAATTTTGTAT
40454142 GTGTT
65 GTGTT
40454147 TAGTTTAGTC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
72 30 0.45
73 36 0.55
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (72 bp):
GTTCACACGGGCGTGTGACCTTTGTAACTTAGAAAAAATTGTTTAGCATCAAAAAATTTTGTATG
TGTTCCG
Found at i:40459089 original size:26 final size:26
Alignment explanation
Indices: 40459053--40459102 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
40459043 CGTGGGAGCC
40459053 TGAAGATGCTCTGAGACAACAATATA
1 TGAAGATGCTCTGAGACAACAATATA
40459079 TGAAGATGCTCTGAGACAACAATA
1 TGAAGATGCTCTGAGACAACAATA
40459103 CCTGAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (26 bp):
TGAAGATGCTCTGAGACAACAATATA
Done.