Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 131 of 292
Found at i:39006865 original size:13 final size:14
Alignment explanation
Indices: 39006847--39006879 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
39006837 CAAAAACAAC
39006847 TTAATAAG-CTTAA
1 TTAATAAGACTTAA
39006860 TTAAT-AGACTTAA
1 TTAATAAGACTTAA
39006873 TTAATAA
1 TTAATAA
39006880 ACACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 15 0.83
14 1 0.06
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (14 bp):
TTAATAAGACTTAA
Found at i:39010945 original size:11 final size:11
Alignment explanation
Indices: 39010917--39010951 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
39010907 ATCAACCAAA
*
39010917 AAATTTATTTT
1 AAATTGATTTT
39010928 AAA-TGATTTT
1 AAATTGATTTT
39010938 AAATTGATTTT
1 AAATTGATTTT
39010949 AAA
1 AAA
39010952 AACCACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (11 bp):
AAATTGATTTT
Found at i:39017758 original size:62 final size:59
Alignment explanation
Indices: 39017650--39017766 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
39017640 ATCACTTTAA
* * * *
39017650 TATTAAACTAATATAATATCTATAAAGATAAATATTATATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATCTATAAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
39017709 TATTAAAATAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATCTA--TA-AAGATAAACATTAAATTAAATTTAATATTAA
39017767 CATAATCAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 19 0.38
61 2 0.04
62 29 0.58
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (59 bp):
TATTAAAATAATAGAATATCTATAAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:39018631 original size:23 final size:23
Alignment explanation
Indices: 39018601--39018646 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
39018591 TTGCAGACTC
39018601 CTTATTGTATACTCTTTATGAAA
1 CTTATTGTATACTCTTTATGAAA
39018624 CTTATTGTATACTCTTTATGAAA
1 CTTATTGTATACTCTTTATGAAA
39018647 GCAATTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (23 bp):
CTTATTGTATACTCTTTATGAAA
Found at i:39020878 original size:40 final size:40
Alignment explanation
Indices: 39020833--39020999 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
39020823 CGGAATATAA
*
39020833 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
39020873 CCGGATAGAGTAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
39020913 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
39020953 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39020992 CCGGATAT
1 CCGGATAT
39021000 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39028770 original size:40 final size:40
Alignment explanation
Indices: 39028725--39028891 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
39028715 CGGAATATAA
*
39028725 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
39028765 CCGGATAGAGTAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
39028805 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
39028845 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39028884 CCGGATAT
1 CCGGATAT
39028892 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39038929 original size:50 final size:49
Alignment explanation
Indices: 39038800--39038992 Score: 197
Period size: 50 Copynumber: 3.9 Consensus size: 49
39038790 ATTGTGAGGC
* ** * *
39038800 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGT
* ** * **
39038851 CACGTGTTTAGTACTAAGTGCAACCTACTACGTGTATCAGATGGTTAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGT
* * *
39038901 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCGGATAATTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGT
* * * *
39038950 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
39038993 GCTTTGGCTA
Statistics
Matches: 114, Mismatches: 28, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
49 39 0.34
50 41 0.36
51 34 0.30
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGT
Found at i:39045338 original size:43 final size:42
Alignment explanation
Indices: 39045291--39045391 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
39045281 TCCCAAACGT
* *
39045291 GGTCTTACATGTAATCAAATATCGATGC-CACTATCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CGATGCTCA-TATCCCAGACAG
* * * *
39045334 GGTCTTACACGAAATCATATACGATGCTGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCTCATATCCCAGACAG
39045376 GGTCTTACACGAAATC
1 GGTCTTACACGAAATC
39045392 TCAAGTTGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.63
43 19 0.37
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCTCATATCCCAGACAG
Found at i:39046515 original size:39 final size:39
Alignment explanation
Indices: 39046444--39046584 Score: 167
Period size: 39 Copynumber: 3.6 Consensus size: 39
39046434 ACCAGCTCGA
* * * * *
39046444 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
** *
39046483 AGCCTGCAAACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
39046522 AGCCTGTGGACCTTAAGTCCGGATATAATTCTAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
39046561 AGCCTGCGGACCCTAAGTCCGGAT
1 AGCCTGCGGACCTTAAGTCCGGAT
39046585 GAACATCACT
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 85 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:39047961 original size:27 final size:27
Alignment explanation
Indices: 39047831--39047961 Score: 208
Period size: 27 Copynumber: 4.9 Consensus size: 27
39047821 ATTACCAAAG
*
39047831 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
39047858 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
39047885 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
39047912 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
39047939 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
39047962 AAAATACCCT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:39047969 original size:27 final size:27
Alignment explanation
Indices: 39047792--39048213 Score: 138
Period size: 27 Copynumber: 15.6 Consensus size: 27
39047782 TTAGTTTACC
* * * *
39047792 AAATTACTAAAATGCCCTCAAATTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* *
39047819 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* **** * *
39047846 GAATTACTGTTTTACCATCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* *****
39047873 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* * **** *
39047900 GAATTATTGTTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* **** *
39047927 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
39047954 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* * * *
39047981 AAATTACCAAAAAAACCTCGA-TCAGTA
1 AAATTACTAAAATACCCTCGATTTA-TA
* * * *
39048008 AAATTACCAAAATACCCTAG-TCTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
39048034 AAATTGCTAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTATA
* * * * *
39048061 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
39048088 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-AAAATACCCTCGATTTATA
* *
39048115 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACTAAAATACCCTC-GATTTATA
* * *
39048142 AAGTTAC-AGAAATACCCTTGACTTTTTAA
1 AAATTACTA-AAATACCCTCGA-TTTAT-A
** * * *
39048171 AAATTA-TAGAAATACTATTGGTTTACA
1 AAATTACTA-AAATACCCTCGATTTATA
*
39048198 AAATTACTGAAATACC
1 AAATTACTAAAATACC
39048214 ATTGGTTTGT
Statistics
Matches: 309, Mismatches: 72, Indels: 28
0.76 0.18 0.07
Matches are distributed among these distances:
26 22 0.07
27 263 0.85
28 7 0.02
29 17 0.06
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTATA
Found at i:39047979 original size:54 final size:54
Alignment explanation
Indices: 39047831--39047988 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
39047821 ATTACCAAAG
* * **** *
39047831 TACCCTCGATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCGTTT
* * * **** *
39047885 TACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCGTTT
* * *
39047939 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACC
39047989 AAAAAAACCT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCGTTT
Found at i:39047986 original size:81 final size:81
Alignment explanation
Indices: 39047831--39047986 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
39047821 ATTACCAAAG
* * ****
39047831 TACCCTCGATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATT
* *
39047896 TATAGAATTATTGTTT
66 TACAAAATTATTGTTT
* * * *
39047912 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATT
39047977 TACAAAATTA
66 TACAAAATTA
39047987 CCAAAAAAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATT
TACAAAATTATTGTTT
Found at i:39048064 original size:80 final size:81
Alignment explanation
Indices: 39047953--39048148 Score: 225
Period size: 80 Copynumber: 2.4 Consensus size: 81
39047943 CTCGATTTAC
*
39047953 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAAAAACC-TCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACC-AAAAAACCATCGATCAGTAAAATTACCA
*
39048017 AAATACCCT-AGTCTGT
65 AAATACCCTCAATCTGT
* ** * * * ** * *
39048033 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTATCGA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAAAACCATCGATCAGTAAAATTACCAA
*
39048098 AATACCCTCAATTTGT
66 AATACCCTCAATCTGT
* * *
39048114 AAAATTACCAAAATACCCCTGATTTACAAAGTTAC
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTAC
39048149 AGAAATACCC
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 7 0.07
80 54 0.57
81 34 0.36
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAAAACCATCGATCAGTAAAATTACCAA
AATACCCTCAATCTGT
Found at i:39048113 original size:54 final size:53
Alignment explanation
Indices: 39047939--39048130 Score: 188
Period size: 54 Copynumber: 3.6 Consensus size: 53
39047929 ATTACTGTTT
** * **
39047939 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATA-CCTTGGTTTGTAAAATTACCAAAA
* * ** * * * * *
39047993 AAACCTCGATCAGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCTTGGTTTGTAAAATTACCAAAA
* * *
39048046 TACCC-CTGGTTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTATCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACC-TTGGTTTGTAAAATTACCAAAA
*
39048100 TACCCTCAATTTGTAAAATTACCAAAATACC
1 TACCCTCGATTTGTAAAATTACCAAAATACC
39048131 CCTGATTTAC
Statistics
Matches: 107, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 41 0.38
54 64 0.60
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCTTGGTTTGTAAAATTACCAAAA
Found at i:39048155 original size:81 final size:81
Alignment explanation
Indices: 39047953--39048185 Score: 213
Period size: 80 Copynumber: 2.9 Consensus size: 81
39047943 CTCGATTTAC
* * * * * ** *
39047953 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAAAAACC-TCGA-TCAGTAAAATTACC
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACC-AAAATACCATTGACTTTGTAAAATTATC
* *
39048016 AAAATACCCTAGTCTGT
65 GAAATACCCTAATCTGT
* * * ** *
39048033 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTG-GTTTGTAAAATTATCG
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCATTGACTTTGTAAAATTATCG
*
39048097 AAATACCCTCAATTTGT
66 AAATACCCT-AATCTGT
* * *
39048114 AAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTTTAAAAATTAT
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACCA-AAATACCATTGACTTTGT-AAAATTAT
*
39048178 AGAAATAC
64 CGAAATAC
39048186 TATTGGTTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 7 0.06
80 56 0.45
81 43 0.34
82 4 0.03
83 15 0.12
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCATTGACTTTGTAAAATTATCG
AAATACCCTAATCTGT
Found at i:39048217 original size:27 final size:26
Alignment explanation
Indices: 39048166--39048221 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
39048156 CCCTTGACTT
*
39048166 TTTAAAAATTATAGAAATACTATTGG
1 TTTAAAAATTATAGAAATACCATTGG
39048192 TTTACAAAATTACT-GAAATACCATTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
39048219 TTT
1 TTT
39048222 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:39048366 original size:27 final size:27
Alignment explanation
Indices: 39048275--39048366 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
39048265 ACCCCTATTA
*
39048275 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
39048302 GGTAAAGA-GACCGTAAAGCTCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
39048329 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
39048356 GGTAAAATGAC
1 GGTAAAATGAC
39048367 GAATATGCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:39049194 original size:26 final size:26
Alignment explanation
Indices: 39049165--39049352 Score: 274
Period size: 26 Copynumber: 7.3 Consensus size: 26
39049155 GAGGAAGTGC
39049165 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
39049191 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
39049217 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
39049243 AAAAGAGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
39049269 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
39049295 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
39049320 AAAAGGGCTT-TGCCCCAG-TTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
39049344 AAAAAGGCT
1 AAAAGGGCT
39049353 AGGCCTCCAG
Statistics
Matches: 146, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
24 11 0.08
25 31 0.21
26 104 0.71
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:39049243 original size:52 final size:52
Alignment explanation
Indices: 39049165--39049352 Score: 328
Period size: 52 Copynumber: 3.7 Consensus size: 52
39049155 GAGGAAGTGC
39049165 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
39049217 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGAGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
39049269 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
39049320 AAAAGGGCTT-TGCCCCAG-TTATTAAAAAAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCT
39049353 AGGCCTCCAG
Statistics
Matches: 132, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
49 13 0.10
50 8 0.06
51 25 0.19
52 86 0.65
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:39049635 original size:31 final size:31
Alignment explanation
Indices: 39049558--39049636 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
39049548 CGTTTATAGT
*
39049558 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
39049589 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
39049620 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
39049637 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:39054624 original size:27 final size:27
Alignment explanation
Indices: 39054591--39054704 Score: 87
Period size: 27 Copynumber: 4.3 Consensus size: 27
39054581 GCAAACAGTC
39054591 ATTTTACCCTATAGGGGTATTTCGATA
1 ATTTTACCCTATAGGGGTATTTCGATA
* * *
39054618 ATTTTACACTACAAGGGTATTTC-AGTA
1 ATTTTACCCTATAGGGGTATTTCGA-TA
*
39054645 ATTTTACAAACC-A-A-GGGTATTTCGTTA
1 ATTTTAC---CCTATAGGGGTATTTCGATA
* *
39054672 ATTTTA--CAATCCGGGGTATTTCGATA
1 ATTTTACCCTAT-AGGGGTATTTCGATA
39054698 ATTTTAC
1 ATTTTAC
39054705 AAACTGGGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
26 19 0.27
27 46 0.66
28 1 0.01
29 1 0.01
30 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGATA
Found at i:39054706 original size:53 final size:54
Alignment explanation
Indices: 39054605--39054708 Score: 149
Period size: 53 Copynumber: 1.9 Consensus size: 54
39054595 TACCCTATAG
*
39054605 GGGTATTTCGATAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACCAA
1 GGGTATTTCGATAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAACCAA
* **
39054659 GGGTATTTCGTTAATTTTACAAT-CCGGGGTATTTC-GATAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAATACAAGGGTATTTCAG-TAATTTTACAAAC
39054709 TGGGGTCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
52 1 0.02
53 23 0.51
54 21 0.47
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAATACAAGGGTATTTCAGTAATTTTACAAACCAA
Found at i:39054713 original size:26 final size:26
Alignment explanation
Indices: 39054603--39054714 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
39054593 TTTACCCTAT
*
39054603 AGGGGTATTTCGATAATTTTACACTAC
1 AGGGGTATTTCGATAATTTTACA-AAC
*
39054630 AAGGGTATTTC-AGTAATTTTACAAACC
1 AGGGGTATTTCGA-TAATTTTACAAA-C
* * *
39054657 AAGGGTATTTCGTTAATTTTACAATC
1 AGGGGTATTTCGATAATTTTACAAAC
*
39054683 CGGGGTATTTCGATAATTTTACAAAC
1 AGGGGTATTTCGATAATTTTACAAAC
*
39054709 TGGGGT
1 AGGGGT
39054715 CTTAACGACC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 30 0.41
27 43 0.59
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (26 bp):
AGGGGTATTTCGATAATTTTACAAAC
Found at i:39057687 original size:14 final size:15
Alignment explanation
Indices: 39057668--39057696 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39057658 TTACATTCTT
39057668 TTTAG-TTATTTTTA
1 TTTAGTTTATTTTTA
39057682 TTTAGTTTATTTTTA
1 TTTAGTTTATTTTTA
39057697 GTGAGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTAGTTTATTTTTA
Found at i:39059509 original size:184 final size:184
Alignment explanation
Indices: 39059001--39059557 Score: 798
Period size: 185 Copynumber: 3.0 Consensus size: 184
39058991 GAGATAATAA
* ** * **
39059001 TAAATTACAATTATTTCTAAAAATCACAACTTTGGAAAAATTACTTTATCATCCACGGCAATAAA
1 TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAAA
* * * *
39059066 ATAATTGCATATATTCATT--CATAAGCATTCCCTGAAACATGCATACAATTACAAGAATGTCAC
66 TTAATTACATACATTCATTCGCAT-A-CATTCCCCGAAACATGCATACAATTACAAGAATGTCAC
* * *
39059129 ATCTTATCAAAAATAATCATACATAAAGAAGAGAGAATTTTGGTCTCAGTTTACAC
129 ATCTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
* * ** * *
39059185 TAAATTACATTTAATCTCTAGGAATCATAAATTTGGAAATTTTACTTTATCTTCCATAGTAATAA
1 TAAATTACATTT-ATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAA
* *
39059250 ATTAATTACATACATTCATTCGCATACATTCCTCAAAACATGCATACAATTACAAGAATGTCACA
65 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACA
*
39059315 TCTTATCAAATATAATCATACATGAAGAATAGAGAATTTTGGTCTAAGTTTACAC
130 TCTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
39059370 TAAATTACATTTATTTTCTAGGAATCACAAATTT-GAAAAATTACTTTATCATCCATAGCAATAA
1 TAAATTACATTTA-TTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAA
*
39059434 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTATAAGAATGTCACA
65 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACA
* *
39059499 TCTTATCAAATATACTCATACATGAAGAAGAGAAAGAATTTTTGTCTCAA-TTTACAC
130 TCTTATCAAATATAATCATACATGAAGAAGAG--AGAATTTTGGTCT-AAGTTTACAC
39059556 TA
1 TA
39059558 TAAACATAGC
Statistics
Matches: 332, Mismatches: 34, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
184 130 0.39
185 175 0.53
186 22 0.07
187 5 0.02
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (184 bp):
TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAAA
TTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACAT
CTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
Found at i:39063675 original size:21 final size:18
Alignment explanation
Indices: 39063649--39063695 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 18
39063639 TTTTCCGTTA
39063649 TTTATAAATTGTAAAGTTATT
1 TTTATAAATT-TAAA--TATT
39063670 TTTATAATATTTAAATATT
1 TTTATAA-ATTTAAATATT
39063689 TTT-TAAA
1 TTTATAAA
39063696 AAAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 7 0.28
21 11 0.44
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTTATAAATTTAAATATT
Found at i:39063738 original size:27 final size:27
Alignment explanation
Indices: 39063704--39063759 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
39063694 AAAAAATTAT
*
39063704 ATTTT-AT-TTTTAA-TTTATAATATA
1 ATTTTAATATTTTAATTTTACAATATA
*
39063728 ATTTTAATATTTTAATTTTACAATATC
1 ATTTTAATATTTTAATTTTACAATATA
39063755 ATTTT
1 ATTTT
39063760 TATTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 2 0.07
26 6 0.22
27 14 0.52
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTTTAATATTTTAATTTTACAATATA
Found at i:39063809 original size:19 final size:19
Alignment explanation
Indices: 39063761--39063830 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
39063751 TATCATTTTT
*
39063761 ATTTATAAAATTATTGAAGTA
1 ATTTAT-AATTTA-TGAAGTA
*
39063782 A-TT-TAATTTATGACA-TT
1 ATTTATAATTTATGA-AGTA
*
39063799 ATTTATAATTTTTGAAGTA
1 ATTTATAATTTATGAAGTA
39063818 ATTTATAATTTAT
1 ATTTATAATTTAT
39063831 AACGTAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 5 0.12
18 9 0.22
19 23 0.57
20 2 0.05
21 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTTATAATTTATGAAGTA
Found at i:39063837 original size:19 final size:19
Alignment explanation
Indices: 39063785--39063842 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
39063775 TGAAGTAATT
* * *
39063785 TAATTTATGACATTATTTA
1 TAATTTATAACGTAATTTA
*
39063804 TAATTTTTGAA-GTAATTTA
1 TAATTTAT-AACGTAATTTA
*
39063823 TAATTTATAACGTAAATTA
1 TAATTTATAACGTAATTTA
39063842 T
1 T
39063843 TGAATTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 2 0.06
19 28 0.90
20 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (19 bp):
TAATTTATAACGTAATTTA
Found at i:39065196 original size:8 final size:8
Alignment explanation
Indices: 39065183--39065227 Score: 90
Period size: 8 Copynumber: 5.6 Consensus size: 8
39065173 AATTAAAATT
39065183 AAATTTAA
1 AAATTTAA
39065191 AAATTTAA
1 AAATTTAA
39065199 AAATTTAA
1 AAATTTAA
39065207 AAATTTAA
1 AAATTTAA
39065215 AAATTTAA
1 AAATTTAA
39065223 AAATT
1 AAATT
39065228 ACAAAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAATTTAA
Found at i:39065196 original size:24 final size:23
Alignment explanation
Indices: 39065177--39065225 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
39065167 CCATTTAATT
39065177 AAAATT-AAATTTAAAAATTTAA
1 AAAATTAAAATTTAAAAATTTAA
*
39065199 AAATTTAAAAATTTAAAAATTTAA
1 AAAATT-AAAATTTAAAAATTTAA
39065223 AAA
1 AAA
39065226 TTACAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.21
24 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATTAAAATTTAAAAATTTAA
Found at i:39065236 original size:10 final size:10
Alignment explanation
Indices: 39065221--39065266 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
39065211 TTAAAAATTT
39065221 AAAAATTACA
1 AAAAATTACA
39065231 AAAAATTACA
1 AAAAATTACA
39065241 AAAAATTAATTCA
1 AAAAATT-A--CA
39065254 AAAAA-TACA
1 AAAAATTACA
39065263 AAAA
1 AAAA
39065267 CTAAAATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 6 0.18
10 17 0.52
11 2 0.06
12 1 0.03
13 7 0.21
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAATTACA
Found at i:39065274 original size:23 final size:24
Alignment explanation
Indices: 39065222--39065276 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
39065212 TAAAAATTTA
39065222 AAAATTACAAAAAATTACAAAAAAT
1 AAAATT-CAAAAAATTACAAAAAAT
* *
39065247 -TAATTCAAAAAA-TACAAAAACT
1 AAAATTCAAAAAATTACAAAAAAT
39065269 AAAATTCA
1 AAAATTCA
39065277 TCAAACTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.35
23 13 0.50
24 4 0.15
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAATTCAAAAAATTACAAAAAAT
Found at i:39069876 original size:63 final size:63
Alignment explanation
Indices: 39069777--39069903 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
39069767 TTACCATTCA
39069777 ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
1 ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
* * *
39069840 ACCCAATACTTACAGAGTTGTCCCCTCATATTTTGTAAAGATTAAATTAAGCTATGAAGTGTG
1 ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
39069903 A
1 A
39069904 TACATCAAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (63 bp):
ACCCAATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTG
Found at i:39082435 original size:2 final size:2
Alignment explanation
Indices: 39082430--39082454 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39082420 TGTGTGTGTC
39082430 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
39082455 TGACCTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:39086373 original size:12 final size:13
Alignment explanation
Indices: 39086354--39086379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39086344 GAACCAAAGT
39086354 CTTTTTTTTCTTG
1 CTTTTTTTTCTTG
39086367 CTTTTTTTTCTTG
1 CTTTTTTTTCTTG
39086380 AAAAACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (13 bp):
CTTTTTTTTCTTG
Found at i:39087944 original size:11 final size:11
Alignment explanation
Indices: 39087928--39087952 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39087918 TTGAATAGAG
39087928 GATATTTTGAT
1 GATATTTTGAT
39087939 GATATTTTGAT
1 GATATTTTGAT
39087950 GAT
1 GAT
39087953 TATTAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (11 bp):
GATATTTTGAT
Found at i:39089855 original size:28 final size:28
Alignment explanation
Indices: 39089815--39089877 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
39089805 GTCATTATCA
39089815 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
39089843 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
39089871 ACCCCAT
1 ACCCCAT
39089878 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:39090221 original size:35 final size:38
Alignment explanation
Indices: 39090152--39090222 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
39090142 TAAATATAAA
* * *
39090152 AATAATTATATTAAGAATGTTATTAAGTTATATTTAAT
1 AATAATTATATTAAGAATATGATTAAGATATATTTAAT
39090190 AATAATTATATTAA-AATATGATTAA-AT-TATTTA
1 AATAATTATATTAAGAATATGATTAAGATATATTTA
39090223 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 1 0.03
37 9 0.30
38 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (38 bp):
AATAATTATATTAAGAATATGATTAAGATATATTTAAT
Found at i:39090407 original size:16 final size:16
Alignment explanation
Indices: 39090386--39090436 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
39090376 TGAATTACTG
39090386 ATTACAGGCTTATTCC
1 ATTACAGGCTTATTCC
39090402 ATTACA-GCTCTATTCC
1 ATTACAGGCT-TATTCC
*
39090418 ATTAC-GGCCCTATTCC
1 ATTACAGG-CTTATTCC
39090434 ATT
1 ATT
39090437 CCAGTGAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 27 0.87
17 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.37
Consensus pattern (16 bp):
ATTACAGGCTTATTCC
Found at i:39091054 original size:21 final size:21
Alignment explanation
Indices: 39091015--39091058 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
39091005 TAGTCAATGG
39091015 GATTAAAATTAACTTTTTATAT
1 GATTAAAATTAACTTTTTA-AT
39091037 GATTAAAATTAA-TTTTTAAT
1 GATTAAAATTAACTTTTTAAT
39091057 GA
1 GA
39091059 AAATAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (21 bp):
GATTAAAATTAACTTTTTAAT
Found at i:39096905 original size:39 final size:39
Alignment explanation
Indices: 39096851--39096982 Score: 203
Period size: 39 Copynumber: 3.4 Consensus size: 39
39096841 AGCATGGTAT
39096851 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* *
39096890 TGGAAATATATCCGGACTTGAAGTCCGTAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
39096929 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
39096968 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
39096983 GCTAAGTCCC
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
38 2 0.02
39 84 0.98
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:39097007 original size:39 final size:39
Alignment explanation
Indices: 39096887--39097141 Score: 257
Period size: 39 Copynumber: 6.5 Consensus size: 39
39096877 GCAGGCTTTA
* * **
39096887 TGCTGGAAATATATCCGGACTTGAAGT-CCGTAGGC-TTTA
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
* * **
39096926 TGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGC-TAAG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
*
39096965 TGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * *
39097004 TGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* ***
39097043 TACTGGTGCTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
***
39097082 TGCTGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
39097121 TGCTGGTATTATATCCGGGCT
1 TGCTGGAAATATATCCGGGCT
39097142 TAAAGTCTCG
Statistics
Matches: 191, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
37 4 0.02
38 8 0.04
39 179 0.94
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
Found at i:39097008 original size:78 final size:78
Alignment explanation
Indices: 39096851--39097141 Score: 261
Period size: 78 Copynumber: 3.7 Consensus size: 78
39096841 AGCATGGTAT
* * *
39096851 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGCTGGAAATATATCCGGACTTGAAGT-
1 TGGAAATATATCCGGACTT-AAGTCCGCAGGCATTAGTGCTGGAAATATATCCGGGC-T-AAGTC
* **
39096914 CCGTAGGC-TTTATGC
63 CCGAAGGCATTCGTGC
* *
39096929 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAGTCCC
1 TGGAAATATATCCGGACTT-AAGTCCGCAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCC
39096993 GAAGGCATTCGTGC
65 GAAGGCATTCGTGC
* * * * * * ***
39097007 TGGTATTATATCCGGGC-TAAGTCCTGAAGGCATTCGTACTGGTGCTATATCCGGGCTAAGTCCC
1 TGGAAATATATCCGGACTTAAGTCC-GCAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCC
39097071 GAAGGCATTCGTGC
65 GAAGGCATTCGTGC
*** * * * * *
39097085 TGGCGTTATATCCGGGC-TAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCT
1 TGGAAATATATCCGGACTTAAGT-CCGCAGGCATTAGTGCTGGAAATATATCCGGGCT
39097142 TAAAGTCTCG
Statistics
Matches: 183, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
76 10 0.05
77 16 0.09
78 155 0.85
79 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (78 bp):
TGGAAATATATCCGGACTTAAGTCCGCAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCG
AAGGCATTCGTGC
Found at i:39103952 original size:30 final size:30
Alignment explanation
Indices: 39103916--39103976 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
39103906 AATATTAGCG
39103916 AAAATAACCTATACACGCCATTATAACCAA
1 AAAATAACCTATACACGCCATTATAACCAA
*
39103946 AAAATAACCTATACATGCCATTATAACCAA
1 AAAATAACCTATACACGCCATTATAACCAA
39103976 A
1 A
39103977 CTCAAACCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.21
Consensus pattern (30 bp):
AAAATAACCTATACACGCCATTATAACCAA
Found at i:39104527 original size:25 final size:25
Alignment explanation
Indices: 39104499--39104547 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
39104489 ATGTATGCTC
39104499 TCACGAGCTGTGAACCGATAAGCTT
1 TCACGAGCTGTGAACCGATAAGCTT
* * *
39104524 TCACGAGTTGTGAATCGGTAAGCT
1 TCACGAGCTGTGAACCGATAAGCT
39104548 CATATGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
TCACGAGCTGTGAACCGATAAGCTT
Found at i:39109893 original size:10 final size:11
Alignment explanation
Indices: 39109823--39109897 Score: 66
Period size: 10 Copynumber: 7.1 Consensus size: 11
39109813 ACCCAAACCA
*
39109823 TGCATATAATG
1 TGCATATCATG
* *
39109834 AGTATATCAT-
1 TGCATATCATG
*
39109844 AGCATATCATG
1 TGCATATCATG
39109855 TGCATATCAT-
1 TGCATATCATG
**
39109865 AACATATCATG
1 TGCATATCATG
39109876 TGCATATCATG
1 TGCATATCATG
*
39109887 T-CCTATCATG
1 TGCATATCATG
39109897 T
1 T
39109898 ATAACAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
10 26 0.50
11 26 0.50
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (11 bp):
TGCATATCATG
Found at i:39109897 original size:21 final size:21
Alignment explanation
Indices: 39109837--39109885 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
39109827 TATAATGAGT
*
39109837 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
39109858 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
39109879 ATATCAT
1 ATATCAT
39109886 GTCCTATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:39110071 original size:27 final size:27
Alignment explanation
Indices: 39110037--39110133 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
39110027 AGTTATCTCA
39110037 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
39110064 ATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
39110091 GTAATTCTACCATACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
39110118 GTAATTCTACCCTACA
1 GTAATTCTACCCTACA
39110134 AAGGTGCTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:39110148 original size:27 final size:26
Alignment explanation
Indices: 39110036--39110150 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
39110026 AAGTTATCTC
*
39110036 AGTAATTCTACCCTACAGGGGTATTT
1 AGTAATTCTACCCTACAAGGGTATTT
* *
39110062 CGATATTTCTACCCTACAAGGGTATTT
1 AG-TAATTCTACCCTACAAGGGTATTT
* * *
39110089 CGGTAATTCTACCATACAGGGGTATTTT
1 -AGTAATTCTACCCTACAAGGGTA-TTT
* * *
39110117 GGTAATTCTACCCTACAAAGGTGCTTT
1 AGTAATTCTACCCTACAAGGGT-ATTT
39110144 AGTAATT
1 AGTAATT
39110151 TTGTAAATCG
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 68 0.93
28 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (26 bp):
AGTAATTCTACCCTACAAGGGTATTT
Found at i:39110150 original size:54 final size:54
Alignment explanation
Indices: 39110011--39110138 Score: 166
Period size: 54 Copynumber: 2.4 Consensus size: 54
39110001 GGCAAAATGG
* * * * *
39110011 TAATTTTACCCCACAAAGTTATCTCAGTAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCATACAGGGGTATTTCGA
* * * * *
39110065 TATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTTGG
1 TAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCATACAGGGGTATTTCGA
39110119 TAATTCTACCCTACAAAGGT
1 TAATTCTACCCTACAAAGGT
39110139 GCTTTAGTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (54 bp):
TAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCATACAGGGGTATTTCGA
Found at i:39110220 original size:27 final size:26
Alignment explanation
Indices: 39110190--39110421 Score: 203
Period size: 27 Copynumber: 8.6 Consensus size: 26
39110180 GTAAATCAGA
* *
39110190 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAA-TCAAG
** * * *
39110217 GGTATTTCAGTAATTTTATAGGTCGAG
1 GGTATTTTGGTAATTTTACA-ATCAAG
* *
39110244 GGTATTTCGGTAATTTCACAAATCAAG
1 GGTATTTTGGTAATTTTAC-AATCAAG
* *
39110271 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAATC-AAG
* * *
39110298 GGTATTTTGGTAATTTTATAAACCAGG
1 GGTATTTTGGTAATTTTA-CAATCAAG
* * *
39110325 GGTATTTTGGTAATTTTATAAACCAAA
1 GGTATTTTGGTAATTTTA-CAATCAAG
* *
39110352 GGTATTTTGATAATTTTACAAGTCAAA
1 GGTATTTTGGTAATTTTACAA-TCAAG
* *
39110379 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAATC-AAG
39110406 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
39110422 GGTAAACTAA
Statistics
Matches: 174, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.03
27 164 0.94
28 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAATCAAG
Found at i:39110301 original size:54 final size:54
Alignment explanation
Indices: 39110190--39110421 Score: 259
Period size: 54 Copynumber: 4.3 Consensus size: 54
39110180 GTAAATCAGA
* * * ** * ** *
39110190 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTA-TAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAG-G
* *
39110244 GGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
* * * * * **
39110298 GGTATTTTGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTATAAACCAAA
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
* * *
39110352 GGTATTTTGATAATTTTACAAGTCAAAGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
39110406 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
39110422 GGTAAACTAA
Statistics
Matches: 146, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
54 143 0.98
55 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
Found at i:39110428 original size:81 final size:80
Alignment explanation
Indices: 39110189--39110421 Score: 261
Period size: 81 Copynumber: 2.9 Consensus size: 80
39110179 TGTAAATCAG
* * ** * ** * *
39110189 AGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTATAGGTCGAGGGTATTTCGG
1 AGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAAAACTAG-GGGTATTTTGG
* *
39110254 TAATTTCACAAATCAA
65 TAATTTCATAAACCAA
* * * *
39110270 GGGTATTTTGGTAATTTTACAA-ACTAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTG
1 AGGTATTTTGGTAATTTTACAAGTC-AAGGGTATTTTGGTAATTTTA-AAACTAGGGGTATTTTG
*
39110334 GTAATTTTATAAACCAA
64 GTAATTTCATAAACCAA
* *
39110351 AGGTATTTTGATAATTTTACAAGTCAAAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 AGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTA-AAACTAGGGGTATTTTGG
39110416 TAATTT
65 TAATTT
39110422 GGTAAACTAA
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 122 0.97
82 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAAAACTAGGGGTATTTTGGT
AATTTCATAAACCAA
Found at i:39114059 original size:32 final size:31
Alignment explanation
Indices: 39114022--39114093 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
39114012 ATCATAAATT
* *
39114022 TATAAATTAATTACTTGAATTTAATAACTCA
1 TATAAATTAATTAATTGAATTAAATAACTCA
*
39114053 TGATAAATTAATTAATTTAATTAAATAACTCA
1 T-ATAAATTAATTAATTGAATTAAATAACTCA
*
39114085 TATAGATTA
1 TATAAATTA
39114094 GTTGATCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 8 0.22
32 28 0.78
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (31 bp):
TATAAATTAATTAATTGAATTAAATAACTCA
Found at i:39114282 original size:31 final size:31
Alignment explanation
Indices: 39114221--39114283 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
39114211 TTATTACTTT
* *
39114221 TTTCTTTTTATTTTTGAACATATTATCTCTC
1 TTTCTTTCTATTTTTGAACATATTACCTCTC
* *
39114252 TTTCTTTCTATTTTTGAATATATTCCCTCTC
1 TTTCTTTCTATTTTTGAACATATTACCTCTC
39114283 T
1 T
39114284 ATAACAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTCTTTCTATTTTTGAACATATTACCTCTC
Found at i:39116234 original size:116 final size:116
Alignment explanation
Indices: 39116030--39116265 Score: 427
Period size: 116 Copynumber: 2.0 Consensus size: 116
39116020 CCAAAAAAAG
39116030 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
1 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
* * *
39116095 AGGTATTAGTTTTAATTTTCAAATAAGTAATCTTATAATCAATTCAAATAT
66 AAGTATTAGTTTTAATTATCAAATAAGTAATATTATAATCAATTCAAATAT
*
39116146 AATTTCCAGCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
1 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
*
39116211 AAGTATTAGTTTTAATTATCAAATAAGTAATATTCTAATCAATTCAAATAT
66 AAGTATTAGTTTTAATTATCAAATAAGTAATATTATAATCAATTCAAATAT
39116262 AATT
1 AATT
39116266 CCCTTTTAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (116 bp):
AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
AAGTATTAGTTTTAATTATCAAATAAGTAATATTATAATCAATTCAAATAT
Found at i:39120285 original size:7 final size:7
Alignment explanation
Indices: 39120273--39120306 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
39120263 TAATAATGCC
39120273 GATAAAT
1 GATAAAT
39120280 GATAAAT
1 GATAAAT
39120287 GATAAAT
1 GATAAAT
39120294 GATAAAT
1 GATAAAT
39120301 GATAAA
1 GATAAA
39120307 AATGTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:39123620 original size:39 final size:39
Alignment explanation
Indices: 39123556--39123697 Score: 230
Period size: 39 Copynumber: 3.6 Consensus size: 39
39123546 AACATAATTT
* * *
39123556 CCTTTGGGACTTAGCCCGGATATAACACCAGTATGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
39123595 CCTTCGGGATTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
* *
39123634 CCTTTGGGACTTAGGCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
39123673 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
39123698 ATCTCACACA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
Found at i:39124287 original size:2 final size:2
Alignment explanation
Indices: 39124282--39124322 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
39124272 CGAATTTATT
*
39124282 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39124323 ACTGAATGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:39130076 original size:7 final size:7
Alignment explanation
Indices: 39130064--39130091 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
39130054 ATAATAATGC
39130064 TGATAAA
1 TGATAAA
39130071 TGATAAA
1 TGATAAA
39130078 TGATAAA
1 TGATAAA
39130085 TGATAAA
1 TGATAAA
39130092 AATGTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TGATAAA
Found at i:39138966 original size:55 final size:55
Alignment explanation
Indices: 39138882--39138993 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
39138872 TCTTGTTGAG
* * *
39138882 TCGCCTTAATTTTGTTTGATCGTTTTGGCATTGGAATGGCTCGACTAAAATCATC
1 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCAACTAAAATCATC
*
39138937 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAGTGGCTCAACTAAAATCATC
1 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCAACTAAAATCATC
39138992 TC
1 TC
39138994 TCGACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (55 bp):
TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCAACTAAAATCATC
Found at i:39144230 original size:42 final size:42
Alignment explanation
Indices: 39144170--39144276 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
39144160 CGGAAACCTG
* *
39144170 TAAGGGTTAAAC-GAAAGCTCATAGGAACTGAATAGAAACCCA
1 TAAGGGTTAAACTG-AAGCTCATAAGAACTAAATAGAAACCCA
* *** * *
39144212 TAAGGGTTAATCTGAAGCTTGGAAGAGCTAAATTGAAACCCA
1 TAAGGGTTAAACTGAAGCTCATAAGAACTAAATAGAAACCCA
* *
39144254 AAAGGGTTAAACTGAAACTCATA
1 TAAGGGTTAAACTGAAGCTCATA
39144277 TGAGTTGACT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (42 bp):
TAAGGGTTAAACTGAAGCTCATAAGAACTAAATAGAAACCCA
Found at i:39145424 original size:18 final size:18
Alignment explanation
Indices: 39145401--39145437 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39145391 CCTTTTTACT
39145401 TAATTAACTATCAAAATG
1 TAATTAACTATCAAAATG
39145419 TAATTAACTATCAAAATG
1 TAATTAACTATCAAAATG
39145437 T
1 T
39145438 TAAAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (18 bp):
TAATTAACTATCAAAATG
Found at i:39151138 original size:40 final size:40
Alignment explanation
Indices: 39151051--39151199 Score: 128
Period size: 40 Copynumber: 3.7 Consensus size: 40
39151041 AATTGAATGA
* * * **
39151051 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
39151091 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
39151132 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
39151171 TATCCGGGCTAAGACCCGAAGGCATTTGT
1 TATCCGGGCTAAGACCCGAAGGCAATTGT
39151200 ACAAATCGTG
Statistics
Matches: 88, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 80 0.91
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:39151215 original size:40 final size:40
Alignment explanation
Indices: 39151132--39151233 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
39151122 TAGTGGCTAC
* * * **
39151132 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTACAAATCATGAT
* *
39151172 ATCCGGGCTAAGACCCGAAGGCATTTGTACAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTACAAATCATGAT
* * *
39151212 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
39151234 CTTGGTGCGG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTACAAATCATGAT
Found at i:39158995 original size:40 final size:39
Alignment explanation
Indices: 39158830--39159013 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
39158820 AAATTGAATG
* * *
39158830 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
39158870 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
39158910 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
39158950 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
39158989 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
39159014 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:39159038 original size:80 final size:81
Alignment explanation
Indices: 39158870--39159058 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
39158860 GCTGGAAATT
* * * *
39158870 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
39158935 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
39158951 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
39159014 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
39159030 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
39159059 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:39161044 original size:19 final size:18
Alignment explanation
Indices: 39161016--39161052 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
39161006 ATTTTACAAA
*
39161016 TTAATCAATCTAACAAAAG
1 TTAATAAATCTAA-AAAAG
39161035 TTAATAAATCTAAAAAAG
1 TTAATAAATCTAAAAAAG
39161053 AATTTCACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (18 bp):
TTAATAAATCTAAAAAAG
Found at i:39161954 original size:22 final size:22
Alignment explanation
Indices: 39161928--39161973 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
39161918 TTTTCTCCTT
39161928 CTCTAAACCAAGTATCATTTTC
1 CTCTAAACCAAGTATCATTTTC
39161950 CTCTAAACCAAGTATCATTTTC
1 CTCTAAACCAAGTATCATTTTC
39161972 CT
1 CT
39161974 TAGACAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.37
Consensus pattern (22 bp):
CTCTAAACCAAGTATCATTTTC
Found at i:39165293 original size:24 final size:23
Alignment explanation
Indices: 39165260--39165307 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
39165250 TCTGGGCTAT
39165260 ATAATGGGAAAC-TCATGAGAGCC
1 ATAATGGGAAACTTC-TGAGAGCC
*
39165283 ATAATCGGGAAGCTTCTGAGAGCC
1 ATAAT-GGGAAACTTCTGAGAGCC
39165307 A
1 A
39165308 ATTGCAGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 15 0.68
25 2 0.09
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (23 bp):
ATAATGGGAAACTTCTGAGAGCC
Found at i:39165434 original size:26 final size:27
Alignment explanation
Indices: 39165375--39165457 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 27
39165365 AATTTCAAGC
* *
39165375 GAGCCATT-ATCGGGAAGCTC-CG-GA
1 GAGCCATTAATCAGGAAGCTCACGAAA
39165399 GAGCCATTAATCAGGAAGCTCAC-AAA
1 GAGCCATTAATCAGGAAGCTCACGAAA
*
39165425 GAGCCTTTAATCAGGAAGCTCACGAAA
1 GAGCCATTAATCAGGAAGCTCACGAAA
39165452 -AGCCAT
1 GAGCCAT
39165458 ATAACGGGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
24 8 0.16
25 11 0.22
26 29 0.57
27 3 0.06
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
GAGCCATTAATCAGGAAGCTCACGAAA
Found at i:39167032 original size:29 final size:29
Alignment explanation
Indices: 39166998--39167129 Score: 97
Period size: 29 Copynumber: 4.6 Consensus size: 29
39166988 TACTCGATTT
* * *
39166998 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
39167027 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
39167056 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
39167085 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
39167114 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
39167130 ATCTCATCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:39167090 original size:58 final size:59
Alignment explanation
Indices: 39166997--39167129 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 59
39166987 ATACTCGATT
* * * *
39166997 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
* * * * * *
39167055 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATACACTTCCAGCA
39167114 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
39167130 ATCTCATCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 58 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
Found at i:39180097 original size:47 final size:47
Alignment explanation
Indices: 39180025--39180166 Score: 234
Period size: 47 Copynumber: 3.0 Consensus size: 47
39180015 GTTGAATTTA
*
39180025 AAGCTTGTTAAA-TTGCTCTTAATATTTTCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
39180071 AAGCTTGTTAAATTTGCTCTTAATA-TTTCTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTC-GGATAAGTTACTTAGTT
* *
39180118 AAGCTTGTTAAATTTGCCCTTATTATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
39180165 AA
1 AA
39180167 AGAAAATTTT
Statistics
Matches: 90, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
46 16 0.18
47 70 0.78
48 4 0.04
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
Found at i:39181083 original size:44 final size:44
Alignment explanation
Indices: 39180973--39181090 Score: 157
Period size: 44 Copynumber: 2.7 Consensus size: 44
39180963 ATATCGCACA
* * *
39180973 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAG
1 ATACTATTCGGG-CTTTGAGCCTAGCAGGCGATAATACCAGTGAG
* *
39181018 ATACTATTCGGGCTTTTAGCCTAGCAGGCGA-AATACCGGTGAG
1 ATACTATTCGGGCTTTGAGCCTAGCAGGCGATAATACCAGTGAG
*
39181061 ATACTATTCGAGCTTTCGAGCCTAGCAGGC
1 ATACTATTCGGGCTTT-GAGCCTAGCAGGC
39181091 TGTAATGCCG
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 25 0.38
44 28 0.43
45 12 0.18
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (44 bp):
ATACTATTCGGGCTTTGAGCCTAGCAGGCGATAATACCAGTGAG
Found at i:39187551 original size:25 final size:24
Alignment explanation
Indices: 39187523--39187614 Score: 62
Period size: 25 Copynumber: 3.8 Consensus size: 24
39187513 ACACTCTCTC
39187523 GAGCCATATAACGGGAAGTTCATA
1 GAGCCATATAACGGGAAGTTCATA
* * * *
39187547 TGAGCCATGTAAGGGGGAGCTT-ATCC
1 -GAGCCATATAACGGGAAG-TTCAT-A
* * *
39187573 GGGCTATATAACGGGAAGCTCATGA
1 GAGCCATATAACGGGAAGTTCAT-A
*
39187598 GAGCCATA-ATCGGGAAG
1 GAGCCATATAACGGGAAG
39187615 GCTCGTGTGA
Statistics
Matches: 49, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
24 9 0.18
25 38 0.78
26 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.20
Consensus pattern (24 bp):
GAGCCATATAACGGGAAGTTCATA
Found at i:39187611 original size:24 final size:26
Alignment explanation
Indices: 39187580--39187633 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
39187570 TCCGGGCTAT
39187580 ATAA-CGGGAA-GCTCATGAGAGCC-
1 ATAATCGGGAAGGCTCATGAGAGCCA
* *
39187603 ATAATCGGGAAGGCTCGTGTGAGCCA
1 ATAATCGGGAAGGCTCATGAGAGCCA
39187629 ATAAT
1 ATAAT
39187634 AGGTAGCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 6 0.23
25 11 0.42
26 5 0.19
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.19
Consensus pattern (26 bp):
ATAATCGGGAAGGCTCATGAGAGCCA
Found at i:39187747 original size:25 final size:26
Alignment explanation
Indices: 39187697--39187777 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
39187687 AGTTCAAGCA
* * *
39187697 AGCCATT-ATCAGGAAACTC-TAGAG
1 AGCCATTAATCAGGAAGCTCACAAAG
*
39187721 AGCCATTAATCAGGAAG-TTACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* **
39187746 AGCCTTTAATTGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
39187772 AGCCAT
1 AGCCAT
39187778 ATAACGGGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
24 8 0.18
25 25 0.56
26 12 0.27
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:39187786 original size:26 final size:25
Alignment explanation
Indices: 39187719--39187786 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
39187709 GAAACTCTAG
* *
39187719 AGAGCCATTAATCAGGAAGTTACAA
1 AGAGCCATTAATCGGGAAGTCACAA
* *
39187744 AGAGCCTTTAATTGGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAG-TCACAA
39187770 AGAGCCATATAA-CGGGA
1 AGAGCCAT-TAATCGGGA
39187787 CACTCATAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 16 0.46
26 16 0.46
27 3 0.09
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATCGGGAAGTCACAA
Found at i:39191726 original size:26 final size:26
Alignment explanation
Indices: 39191697--39191770 Score: 123
Period size: 26 Copynumber: 2.8 Consensus size: 26
39191687 GCTCGAATTC
*
39191697 AATTTAAA-TAATAATAATAAATTTTA
1 AATTTAAATTAATTATAA-AAATTTTA
39191723 AATTTAAATTAATTATAAAAATTTTA
1 AATTTAAATTAATTATAAAAATTTTA
39191749 AATTTAAATTAATTATAAAAAT
1 AATTTAAATTAATTATAAAAAT
39191771 ACATAAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 38 0.83
27 8 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAAATTAATTATAAAAATTTTA
Found at i:39191971 original size:21 final size:22
Alignment explanation
Indices: 39191946--39191996 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
39191936 GAAACATTAT
39191946 AAATAT-TTCTATTGATCAATA
1 AAATATATTCTATTGATCAATA
*
39191967 AAATACATAATTCTCTTGATCAATA
1 AAAT--AT-ATTCTATTGATCAATA
39191992 AAATA
1 AAATA
39191997 CATAATTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.16
23 3 0.12
25 18 0.72
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (22 bp):
AAATATATTCTATTGATCAATA
Found at i:39191986 original size:25 final size:25
Alignment explanation
Indices: 39191952--39192008 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
39191942 TTATAAATAT
*
39191952 TTCTATTGATCAATAAAATACATAA
1 TTCTCTTGATCAATAAAATACATAA
39191977 TTCTCTTGATCAATAAAATACATAA
1 TTCTCTTGATCAATAAAATACATAA
39192002 TTCTCTT
1 TTCTCTT
39192009 TTACTATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (25 bp):
TTCTCTTGATCAATAAAATACATAA
Found at i:39192388 original size:18 final size:19
Alignment explanation
Indices: 39192355--39192390 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
39192345 TTAAGAAGTT
39192355 TTTTATTTAATATTTAATA
1 TTTTATTTAATATTTAATA
*
39192374 TTTTA-TTAATTTTTAAT
1 TTTTATTTAATATTTAAT
39192391 TAATTAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATTTAATATTTAATA
Found at i:39194505 original size:43 final size:43
Alignment explanation
Indices: 39194435--39194526 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
39194425 AAGAATTTTG
* *
39194435 TATTAAAAAATTATCGTCTTCACTCTAGTTTGTACTATGCATA
1 TATTAGAAAATTATAGTCTTCACTCTAGTTTGTACTATGCATA
*
39194478 TATTAGAAAATTATATTCTGTCA-TCTAGTTTGTACTATGCATA
1 TATTAGAAAATTATAGTCT-TCACTCTAGTTTGTACTATGCATA
*
39194521 TTTTAG
1 TATTAG
39194527 TACGGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 41 0.93
44 3 0.07
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (43 bp):
TATTAGAAAATTATAGTCTTCACTCTAGTTTGTACTATGCATA
Found at i:39194737 original size:20 final size:20
Alignment explanation
Indices: 39194686--39194737 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
39194676 ATAAGAATTT
39194686 ACATGAATATTTATTAAAGA
1 ACATGAATATTTATTAAAGA
* *
39194706 GCATAAATATTTATTAAAGA
1 ACATGAATATTTATTAAAGA
* *
39194726 ACTTGAAGATTT
1 ACATGAATATTT
39194738 TTCATTATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (20 bp):
ACATGAATATTTATTAAAGA
Found at i:39205789 original size:58 final size:58
Alignment explanation
Indices: 39205719--39205834 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
39205709 TAAACATGGC
*
39205719 AACCACATATCAACAAGGTGAGTATCAACATATATTGCAT-CTTATAATAAATCAAGCA
1 AACCACATATCAACAAGGTGAGTATAAACATATATTGCATCCTT-TAATAAATCAAGCA
39205777 AACCACATATCAACAAGGTGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
1 AACCACATATCAACAAGGTGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
39205835 TATAACACTC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 53 0.95
59 3 0.05
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (58 bp):
AACCACATATCAACAAGGTGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
Found at i:39209355 original size:42 final size:42
Alignment explanation
Indices: 39209296--39209501 Score: 209
Period size: 42 Copynumber: 4.9 Consensus size: 42
39209286 TTAGGGTTAC
* *
39209296 TGAGA-TTACGTGTAAGACCATATCTGGGATATGGTATCAATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
39209338 TGAGACTTCGTATAAGACTATATTTAGTATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
39209380 TGAGACTTTGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
39209422 TGAGACTTCGTGTAAGAACATAGCTGGGCTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
** * * * *
39209465 CCAGA-TTACATGTAATACCGTATCTAGGATATGGCAT
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCAT
39209502 TGGTACGGTA
Statistics
Matches: 135, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
42 103 0.76
43 32 0.24
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:39209596 original size:12 final size:12
Alignment explanation
Indices: 39209566--39209590 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39209556 TTTAACGTGA
39209566 AATTCAACGGGT
1 AATTCAACGGGT
39209578 AATTCAACGGGT
1 AATTCAACGGGT
39209590 A
1 A
39209591 TGTCAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
AATTCAACGGGT
Found at i:39213456 original size:34 final size:34
Alignment explanation
Indices: 39213395--39213528 Score: 153
Period size: 34 Copynumber: 3.9 Consensus size: 34
39213385 TTTTTACTTG
* *
39213395 TTATAATGTTGTCCAAATCTGGTTGTTTTGCATA
1 TTATAATGTTGTCCAAATGTGGCTGTTTTGCATA
* * *
39213429 TTATAATGCTATCAAAATGTGGCTGTTTTGCATA
1 TTATAATGTTGTCCAAATGTGGCTGTTTTGCATA
* ** * *
39213463 TTAAAATGTTGTCCAAATACGGTTGTTTTGCATG
1 TTATAATGTTGTCCAAATGTGGCTGTTTTGCATA
*
39213497 TTATAATGATGTCCAAATGTGGCT-TTTATGCA
1 TTATAATGTTGTCCAAATGTGGCTGTTT-TGCA
39213529 CGTTACAATG
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
33 3 0.04
34 78 0.96
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (34 bp):
TTATAATGTTGTCCAAATGTGGCTGTTTTGCATA
Found at i:39213515 original size:68 final size:68
Alignment explanation
Indices: 39213399--39213528 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 68
39213389 TACTTGTTAT
*
39213399 AATGTTGTCCAAATCTGGTTGTTTTGCATATTATAATGCTATCAAAATGTGGCTGTTT-TGCATA
1 AATGTTGTCCAAATCTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCT-TTTATGCATA
39213463 TTAA
65 TTAA
* * *
39213467 AATGTTGTCCAAATAC-GGTTGTTTTGCATGTTATAATGATGTCCAAATGTGGCTTTTATGCA
1 AATGTTGTCCAAAT-CTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTTTTATGCA
39213529 CGTTACAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
67 3 0.05
68 52 0.93
69 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (68 bp):
AATGTTGTCCAAATCTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTTTTATGCATAT
TAA
Found at i:39213539 original size:34 final size:33
Alignment explanation
Indices: 39213393--39213548 Score: 114
Period size: 34 Copynumber: 4.6 Consensus size: 33
39213383 AATTTTTACT
* * * *
39213393 TGTTATAATGTTGTCCAAATCTGGTTGTTTTGCA
1 TGTTAAAATGATGTCCAAATGTGGCT-TTTTGCA
* * * * *
39213427 TATTATAATGCTATCAAAATGTGGCTGTTTTGCA
1 TGTTAAAATGATGTCCAAATGTGGCT-TTTTGCA
* * ** *
39213461 TATTAAAATGTTGTCCAAATACGGTTGTTTTGCA
1 TGTTAAAATGATGTCCAAATGTGGCT-TTTTGCA
*
39213495 TGTTATAATGATGTCCAAATGTGGCTTTTATGCA
1 TGTTAAAATGATGTCCAAATGTGGCTTTT-TGCA
* * *
39213529 CGTTACAATGATGACCAAAT
1 TGTTAAAATGATGTCCAAAT
39213549 ATGTTTACAA
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
33 3 0.03
34 96 0.97
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (33 bp):
TGTTAAAATGATGTCCAAATGTGGCTTTTTGCA
Found at i:39213547 original size:68 final size:69
Alignment explanation
Indices: 39213407--39213549 Score: 175
Period size: 68 Copynumber: 2.1 Consensus size: 69
39213397 ATAATGTTGT
* *
39213407 CCAAAT-CTGGTTGTTTTGCATATTATAATGCTATCAAAATGTGGCTGTTTTGCATATTAAAATG
1 CCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTGTTTTGCACATTAAAATG
* *
39213471 TTGT
66 ATGA
* * * * *
39213475 CCAAATAC-GGTTGTTTTGCATGTTATAATGATGTCCAAATGTGGCT-TTTATGCACGTTACAAT
1 CCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTGTTT-TGCACATTAAAAT
39213538 GATGA
65 GATGA
39213543 CCAAATA
1 CCAAATA
39213550 TGTTTACAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 3 0.05
68 60 0.94
69 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (69 bp):
CCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTGTTTTGCACATTAAAATG
ATGA
Found at i:39213619 original size:36 final size:36
Alignment explanation
Indices: 39213572--39213653 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
39213562 TTTCTTCTTG
* *
39213572 ATGTTCGAATGAGATTGAATTTAATTGTGTTAATGC
1 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
39213608 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
1 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
39213644 ATGTTCAAAT
1 ATGTTCAAAT
39213654 ATAGTTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (36 bp):
ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
Found at i:39215228 original size:37 final size:37
Alignment explanation
Indices: 39215185--39215279 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 37
39215175 TTTTAGGAGT
* ** **
39215185 TGCGATCTTAAATTAGCTAACTCAATGAAATTTAGGC
1 TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
* * *
39215222 TGCGATCTTAAATCAACTAACTTAAAAAAAAATAGGT
1 TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
*
39215259 TGCAATCTTAAATCAGCTAAC
1 TGCGATCTTAAATCAGCTAAC
39215280 CTTTATAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (37 bp):
TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
Found at i:39216819 original size:26 final size:26
Alignment explanation
Indices: 39216783--39216836 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
39216773 TAATAAAGCC
39216783 TATGCAACACCTTCAAACTCACAAGT
1 TATGCAACACCTTCAAACTCACAAGT
*
39216809 TATGCAACACCTTTAAACTCACAAGT
1 TATGCAACACCTTCAAACTCACAAGT
39216835 TA
1 TA
39216837 GCATACTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (26 bp):
TATGCAACACCTTCAAACTCACAAGT
Found at i:39220901 original size:5 final size:5
Alignment explanation
Indices: 39220891--39220922 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
39220881 TAATAAAAAG
*
39220891 ATAAA ATAAA ATAAA ATAAA ATAAG ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
39220923 GGCACTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:39222125 original size:41 final size:41
Alignment explanation
Indices: 39222080--39222162 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
39222070 AGGGCTAATA
39222080 ATTCAATTCTAAAGTCTAAATAACATTAAGAATCAATGGTC
1 ATTCAATTCTAAAGTCTAAATAACATTAAGAATCAATGGTC
* *
39222121 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCGATGGTC
1 ATTCAATTCTAAAGTCTAAATAACATTAAGAATCAATGGTC
39222162 A
1 A
39222163 CATGAATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (41 bp):
ATTCAATTCTAAAGTCTAAATAACATTAAGAATCAATGGTC
Found at i:39232556 original size:21 final size:21
Alignment explanation
Indices: 39232517--39232556 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
39232507 AATGCTTGAG
* *
39232517 ATTTTGAATGATTGTTGATGA
1 ATTTTGAAAGATTGATGATGA
*
39232538 ATTTTGAAAGCTTGATGAT
1 ATTTTGAAAGATTGATGAT
39232557 AGATATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
ATTTTGAAAGATTGATGATGA
Found at i:39238224 original size:41 final size:40
Alignment explanation
Indices: 39238179--39238258 Score: 90
Period size: 41 Copynumber: 1.9 Consensus size: 40
39238169 ATTAAAATTT
* *
39238179 AATTAGATTTTT-AATAAATATTTATAATTATAAATTTTACA
1 AATTAGATTTTTAAATAAACATTT-TAATT-GAAATTTTACA
**
39238220 AATTATTTTTTTAAAATAAACATTTTAATTGAAATTTTA
1 AATTAGATTTTT-AAATAAACATTTTAATTGAAATTTTA
39238259 TGTATAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 18 0.55
42 5 0.15
43 10 0.30
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (40 bp):
AATTAGATTTTTAAATAAACATTTTAATTGAAATTTTACA
Found at i:39243974 original size:56 final size:56
Alignment explanation
Indices: 39243907--39244016 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
39243897 ATATTTGATA
*
39243907 TGGTCAATTAACTCGTTATAGGATAAACTATATTCAAAATCACTCAACAATTAACG
1 TGGTCAATTAACTCATTATAGGATAAACTATATTCAAAATCACTCAACAATTAACG
39243963 TGGTCAATTAACTCATTATAGGATAAACTATATTCAAAATCACTCAACAATTAA
1 TGGTCAATTAACTCATTATAGGATAAACTATATTCAAAATCACTCAACAATTAA
39244017 TAAGTTCATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (56 bp):
TGGTCAATTAACTCATTATAGGATAAACTATATTCAAAATCACTCAACAATTAACG
Found at i:39245315 original size:15 final size:15
Alignment explanation
Indices: 39245297--39245328 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
39245287 TCAAAAGGGA
39245297 AATGGTGAGTGAGTT
1 AATGGTGAGTGAGTT
39245312 AATGGTGAGTGAGTT
1 AATGGTGAGTGAGTT
39245327 AA
1 AA
39245329 GAATGAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (15 bp):
AATGGTGAGTGAGTT
Found at i:39248738 original size:29 final size:30
Alignment explanation
Indices: 39248683--39248748 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
39248673 GTTTAATATA
*
39248683 CAATTTTATATATGAACTTTGATTTTG-TG
1 CAATTTTATACATGAACTTTGATTTTGATG
* *
39248712 CAATTTTATACATGAAATTTTGA-TTTGATT
1 CAATTTTATACATG-AACTTTGATTTTGATG
39248742 CAATTTT
1 CAATTTT
39248749 CATAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.52
Consensus pattern (30 bp):
CAATTTTATACATGAACTTTGATTTTGATG
Found at i:39249717 original size:21 final size:21
Alignment explanation
Indices: 39249691--39249733 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
39249681 ATTATACATT
*
39249691 ATTAATAACTATAAAATCCTA
1 ATTAATAACAATAAAATCCTA
* *
39249712 ATTAATCACAATAAAATTCTA
1 ATTAATAACAATAAAATCCTA
39249733 A
1 A
39249734 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAATAACAATAAAATCCTA
Found at i:39250704 original size:21 final size:21
Alignment explanation
Indices: 39250678--39250720 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39250668 CATTTAAAAA
* *
39250678 TGTTCATCTTGTCTCTAGACT
1 TGTTCAACTTGTCTCGAGACT
39250699 TGTTCAACTTGTCTCGAGACT
1 TGTTCAACTTGTCTCGAGACT
39250720 T
1 T
39250721 AAACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (21 bp):
TGTTCAACTTGTCTCGAGACT
Found at i:39252028 original size:40 final size:40
Alignment explanation
Indices: 39251962--39252171 Score: 215
Period size: 40 Copynumber: 5.2 Consensus size: 40
39251952 AATTATTGAA
* *
39251962 GAATGCACATTTGTACCCC-GATTTGTACTTCGGTACCCCT
1 GAATGCACATTTATGCCCCTGA-TTGTACTTCGGTACCCCT
* * ** *
39252002 GAATGCACATTTATGCCACAGATTGTACTTCAATACCCTT
1 GAATGCACATTTATGCCCCTGATTGTACTTCGGTACCCCT
* * * * * *
39252042 TAATGCACATTCATGCCCCTGTTTGTTCTTTGGTACCCTT
1 GAATGCACATTTATGCCCCTGATTGTACTTCGGTACCCCT
* * * *
39252082 GAATGCACATATGTGCCCCTGAGTGTACTTTGGTACCCCT
1 GAATGCACATTTATGCCCCTGATTGTACTTCGGTACCCCT
* ** *
39252122 GAATGCATATACATGCCCCGGATTGTACTTCGGTACCCCT
1 GAATGCACATTTATGCCCCTGATTGTACTTCGGTACCCCT
39252162 GAATGCACAT
1 GAATGCACAT
39252172 ACGTGCCCCT
Statistics
Matches: 139, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
40 137 0.99
41 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (40 bp):
GAATGCACATTTATGCCCCTGATTGTACTTCGGTACCCCT
Found at i:39252109 original size:80 final size:80
Alignment explanation
Indices: 39251977--39252182 Score: 241
Period size: 80 Copynumber: 2.6 Consensus size: 80
39251967 CACATTTGTA
* * * * * * *
39251977 CCCCGATTTGTACTTCGGTACCCCTGAATGCACATTTATGCCACAGATTGTACTTCAATACCCTT
1 CCCCGGTTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTGAGTGTACTTCAATACCCCT
* *
39252042 TAATGCACATTCATG
66 GAATGCACATACATG
* * * * ***
39252057 CCCCTGTTTGTTCTTTGGTACCCTTGAATGCACATATGTGCCCCTGAGTGTACTTTGGTACCCCT
1 CCCCGGTTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTGAGTGTACTTCAATACCCCT
*
39252122 GAATGCATATACATG
66 GAATGCACATACATG
* *
39252137 CCCCGGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTG
1 CCCCGGTTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTG
39252183 TTTATACTCC
Statistics
Matches: 103, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 103 1.00
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.32
Consensus pattern (80 bp):
CCCCGGTTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTGAGTGTACTTCAATACCCCT
GAATGCACATACATG
Found at i:39252179 original size:40 final size:40
Alignment explanation
Indices: 39251984--39252182 Score: 218
Period size: 40 Copynumber: 5.0 Consensus size: 40
39251974 GTACCCCGAT
** * *
39251984 TTGTACTTCGGTACCCCTGAATGCACATTTATGCCACAGA
1 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGA
** * * * *
39252024 TTGTACTTCAATACCCTTTAATGCACATTCATGCCCCTGT
1 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGA
* * * **
39252064 TTGTTCTTTGGTACCCTTGAATGCACATATGTGCCCCTGA
1 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGA
* * * *
39252104 GTGTACTTTGGTACCCCTGAATGCATATACATGCCCCGGA
1 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGA
*
39252144 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTG
1 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTG
39252183 TTTATACTCC
Statistics
Matches: 130, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (40 bp):
TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGA
Found at i:39252179 original size:120 final size:120
Alignment explanation
Indices: 39251962--39252185 Score: 297
Period size: 120 Copynumber: 1.9 Consensus size: 120
39251952 AATTATTGAA
* * **
39251962 GAATGCACATTTGTACCCCGATTTGTACTTCGGTACCCCTGAATGCACATTTATGCCACAGATTG
1 GAATGCACATATGTACCCCGATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATTG
* * *
39252027 TACTTCAATACCCTTTAATGCACATTCATGCCCCTGTTTGTTCTTTGGTACCCTT
66 TACTTCAATACCCCTGAATGCACATACATGCCCCTGTTTGTTCTTTGGTACCCTT
* * * * *
39252082 GAATGCACATATGTGCCCCTGA-GTGTACTTTGGTACCCCTGAATGCATATACATGCCCCGGATT
1 GAATGCACATATGTACCCC-GATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATT
** *
39252146 GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
65 GTACTTCAATACCCCTGAATGCACATACATGCCCCTGTTT
39252186 ATACTCCAGT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
120 86 0.98
121 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (120 bp):
GAATGCACATATGTACCCCGATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATTG
TACTTCAATACCCCTGAATGCACATACATGCCCCTGTTTGTTCTTTGGTACCCTT
Found at i:39252182 original size:20 final size:20
Alignment explanation
Indices: 39252081--39252182 Score: 62
Period size: 20 Copynumber: 5.1 Consensus size: 20
39252071 TTGGTACCCT
*
39252081 TGAATGCACATATGTGCCCC
1 TGAATGCACATACGTGCCCC
* * * ** *
39252101 TGAGTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCC
* *
39252121 TGAATGCATATACATGCCCC
1 TGAATGCACATACGTGCCCC
* * * * *
39252141 GGATTGTAC-TTCGGTACCCC
1 TGAATGCACATAC-GTGCCCC
39252161 TGAATGCACATACGTGCCCC
1 TGAATGCACATACGTGCCCC
39252181 TG
1 TG
39252183 TTTATACTCC
Statistics
Matches: 54, Mismatches: 26, Indels: 4
0.64 0.31 0.05
Matches are distributed among these distances:
19 2 0.04
20 50 0.93
21 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (20 bp):
TGAATGCACATACGTGCCCC
Found at i:39257594 original size:30 final size:30
Alignment explanation
Indices: 39257558--39257616 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
39257548 ATTCATCATG
39257558 AGAGTAAATCAAAATGTCATCAATAAACAC
1 AGAGTAAATCAAAATGTCATCAATAAACAC
39257588 AGAGTAAATCAAAATGTCATCAATAAACA
1 AGAGTAAATCAAAATGTCATCAATAAACA
39257617 AAACTACGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAGTAAATCAAAATGTCATCAATAAACAC
Found at i:39260539 original size:66 final size:65
Alignment explanation
Indices: 39260406--39260546 Score: 167
Period size: 66 Copynumber: 2.2 Consensus size: 65
39260396 CATGGCATAC
* * * * *
39260406 ATACTGACTTGTATAACATGGCCAAGGACACGCCCGTGTGCTAGACCGTGTGAAAACTGGAGGGT
1 ATACTGACTTATACAACACGGCCAAGCACACGCCCGTGTGCTAGACCGTGTGAAAACTGGAGAGT
* * ** *
39260471 ATACTGACTTATGCAACACGGCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGCCAATTAGG-GA
1 ATACTGACTTATACAACACGGCCAAG-CACACGCCCGTGTGCTAGACCGTGTGAAAACT-GGAGA
39260535 GT
64 GT
39260537 ATACTGACTT
1 ATACTGACTT
39260547 GTACCACATG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
65 22 0.34
66 40 0.62
67 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (65 bp):
ATACTGACTTATACAACACGGCCAAGCACACGCCCGTGTGCTAGACCGTGTGAAAACTGGAGAGT
Found at i:39277437 original size:79 final size:81
Alignment explanation
Indices: 39277323--39277506 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 81
39277313 ACGACTCACT
** *
39277323 CAAATGCCTTCGGGACAAAGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACGAATGCATTC-GGATCTTAACCCG
* *
39277387 GGTTTAGTAAC-TCGCA
65 GATTTAGTAACTTAGCA
* * **
39277403 CAAATGCCTTCGGG-CTTAGCCTGGATT-TATTAACTCGCACGAATGCATTCGGATTCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACGAATGCATTCGGA-TCTTAACCC
*
39277466 GGATTTAGTCACTTAGCA
64 GGATTTAGTAACTTAGCA
39277484 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
39277507 AACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 28 0.32
80 41 0.47
81 16 0.18
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACGAATGCATTCGGATCTTAACCCGG
ATTTAGTAACTTAGCA
Found at i:39277448 original size:39 final size:40
Alignment explanation
Indices: 39277325--39277506 Score: 167
Period size: 40 Copynumber: 4.5 Consensus size: 40
39277315 GACTCACTCA
*
39277325 AATGCCTTCGGGAC-AAAGCCCGG-TTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCACG
* *
39277365 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * *
39277405 AATGCCTTCGGG-CTTAGCCTGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* ** * *
39277444 AATGCATTC-GGATTCTTAGTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA--CTTAACCCGGATTTAGTAAC-TCGCACG
* *
39277485 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAACCCG
39277507 AACATCATTC
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 52 0.44
41 27 0.23
42 8 0.07
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:39285435 original size:40 final size:39
Alignment explanation
Indices: 39285389--39285571 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
39285379 GACTCACTCA
*
39285389 AATGCCTTCGGGACAAAGCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGGTT-TAGTAACTCGCACG
* *
39285429 AATGCCTTAGGGACTTAA-CCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGAC-TAAGCCC-GGTTTAGTAACTCGCACG
* * *
39285469 AATGCCTTCGGG-TTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGG-TTTAGTAACTCGCACG
* * * *
39285508 AATGCCTTC-GGATTCTTAGTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA--CTAAGCCCGG-TTTAGTAAC-TCGCACG
* *
39285549 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTAAGCCCGG
39285572 ACATCATTCA
Statistics
Matches: 119, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
38 6 0.05
39 26 0.22
40 49 0.41
41 30 0.25
42 8 0.07
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTAAGCCCGGTTTAGTAACTCGCACG
Found at i:39285501 original size:79 final size:82
Alignment explanation
Indices: 39285387--39285572 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 82
39285377 ACGACTCACT
** *
39285387 CAAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTAGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTT-CGGATCTTAACCC
* *
39285450 GGGTTTAGTAAC-TCGCA
65 GGATTTAGTAACTTAGCA
* * **
39285467 CAAATGCCTTCGGG-TTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATTCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGA-TCTTAACCC
*
39285530 GGATTTAGTCACTTAGCA
65 GGATTTAGTAACTTAGCA
39285548 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39285573 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 28 0.31
80 41 0.46
81 18 0.20
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCTTAACCCG
GATTTAGTAACTTAGCA
Found at i:39287300 original size:30 final size:30
Alignment explanation
Indices: 39287266--39287470 Score: 279
Period size: 30 Copynumber: 6.8 Consensus size: 30
39287256 GGCTGTCACA
39287266 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
39287296 ACTAGCCACACTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
39287326 ACTAGCCACACCTTTTCCACCAACAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
39287356 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
39287386 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
39287416 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
39287446 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
39287471 CTTGTACCTA
Statistics
Matches: 156, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
29 3 0.02
30 153 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:39287993 original size:23 final size:24
Alignment explanation
Indices: 39287956--39288000 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
39287946 CATTTTTTGT
39287956 TATTATTATATTTC-TTAATATTA
1 TATTATTATATTTCTTTAATATTA
39287979 TATTA-TATATATTCTTTAATAT
1 TATTATTATAT-TTCTTTAATAT
39288001 ATTAGGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 7 0.35
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATTATATTTCTTTAATATTA
Found at i:39288082 original size:25 final size:25
Alignment explanation
Indices: 39288034--39288092 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
39288024 ATTACGTATA
* *
39288034 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
39288059 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATG
39288084 TATATATAT
1 TATATATAT
39288093 ATATATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Done.