Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 30 of 189
Found at i:9454278 original size:135 final size:134
Alignment explanation
Indices: 9453877--9454529 Score: 474
Period size: 135 Copynumber: 4.9 Consensus size: 134
9453867 AATCTACTTT
* * *
9453877 CTGCAACATCAAAGAGATAAGA--T-CTGAT-TTTAATCCGCTCCACTGCAACTTCAGGGAGAT-
1 CTGCAACTTCAGAGAGATAAGACTTACT-ATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* ** * * * * * * *
9453937 AGAATTATTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAAATCAGATTGGTT-TATTCAGTCT
65 AGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT-GTTATCTTCAATCC
* *
9454001 GCTCCT
129 ACTCCA
* * * * * * *
9454007 CTGCAAATTCAGGGAGATAAGAC-TA-GA--TGTGATCTGCT-CTCTGCAACTTCAGAGAGATAA
1 CTGCAACTTCAGAGAGATAAGACTTACTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * * * *
9454067 GATCTAC-AGTCTT-AATCCGCTCCACTGCAACTTC-AGAGAGATAGGATTATTTTCTTCAATCT
66 GATTTGCTA-TCTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTGTTATCTTCAATCC
**
9454129 GTTCCA
129 ACTCCA
* * *
9454135 CTGCAACTTTAGAGAGATAAGACTTACTATCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 CTGCAACTTCAGAGAGATAAGACTTACTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
9454200 GATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTTATCTTCAATCCA
66 GATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGTTATCTTCAATCCA
9454265 CTCCA
130 CTCCA
* * * * * * * ** * * * *
9454270 CTGCAACTTTAGGGAGATAGGATTTGCTATCTTCAGTCTATTCCGCAGCAACCTCAGAGAGATAA
1 CTGCAACTTCAGAGAGATAAGACTTACTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * * * *
9454335 GACTTGTTATCTTCAGTTTGCTCCGCTGCAACTTC-AGAGAGATAAAACTTGTTATTTTCAATCC
66 GATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGA-TTGTTATCTTCAATCC
*
9454399 ACTCAA
129 ACTCCA
* * * * * * * *
9454405 CTGCAACTTCA-AGGAGATAGGATTTGCTATCTTCAATCTACTCCGCTGTAACCTCAGGGAGATA
1 CTGCAACTTCAGA-GAGATAAGACTTACTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * ** * *
9454469 AGACTTGCTATCTTTAATCCACTCCACTGCAACTTCATGGAGATAGGATTTGTTATCTTCA
65 AGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGTTATCTTCA
9454530 CCGATCTATT
Statistics
Matches: 421, Mismatches: 84, Indels: 31
0.79 0.16 0.06
Matches are distributed among these distances:
127 3 0.01
128 78 0.19
129 19 0.05
130 20 0.05
131 1 0.00
132 8 0.02
133 28 0.07
134 29 0.07
135 234 0.56
136 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (134 bp):
CTGCAACTTCAGAGAGATAAGACTTACTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGTTATCTTCAATCCAC
TCCA
Found at i:9455530 original size:13 final size:13
Alignment explanation
Indices: 9455512--9455537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9455502 GTTTGACATG
9455512 TGCTTAAAAGATC
1 TGCTTAAAAGATC
9455525 TGCTTAAAAGATC
1 TGCTTAAAAGATC
9455538 AACAGTACCC
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGCTTAAAAGATC
Found at i:9470811 original size:9 final size:9
Alignment explanation
Indices: 9470799--9470840 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
9470789 TTTTGGTTAA
9470799 GAATTACCC
1 GAATTACCC
9470808 GAATTACCC
1 GAATTACCC
*
9470817 GAATTAACC
1 GAATTACCC
*
9470826 GGATTACCC
1 GAATTACCC
9470835 GAATTA
1 GAATTA
9470841 ACTGAATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (9 bp):
GAATTACCC
Found at i:9470822 original size:18 final size:18
Alignment explanation
Indices: 9470799--9470848 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
9470789 TTTTGGTTAA
*
9470799 GAATTACCCGAATTACCC
1 GAATTAACCGAATTACCC
*
9470817 GAATTAACCGGATTACCC
1 GAATTAACCGAATTACCC
*
9470835 GAATTAACTGAATT
1 GAATTAACCGAATT
9470849 GAATCACTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (18 bp):
GAATTAACCGAATTACCC
Found at i:9470974 original size:18 final size:18
Alignment explanation
Indices: 9470951--9470994 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9470941 AATTTTTATG
*
9470951 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGAATA
9470969 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
9470987 CTTGGGTT
1 ATTGGGTT
9470995 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:9478998 original size:40 final size:39
Alignment explanation
Indices: 9478912--9478999 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
9478902 TGAATTAGGG
* * *
9478912 AATACTGGATATTGTTTTGAATACTGAGTGAATTGTGAA
1 AATACTGAATATTGTTATGAATAATGAGTGAATTGTGAA
* * *
9478951 AAGACTGAATATTGTTATGTATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGAATAATG-AGTGAATTGTGAA
*
9478991 ATTACTGAA
1 AATACTGAA
9479000 GTAATAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 21 0.52
40 19 0.47
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (39 bp):
AATACTGAATATTGTTATGAATAATGAGTGAATTGTGAA
Found at i:9479266 original size:45 final size:45
Alignment explanation
Indices: 9479201--9479350 Score: 212
Period size: 45 Copynumber: 3.3 Consensus size: 45
9479191 ATGTGCCAAC
* *
9479201 TACTGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACTAT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
* *
9479246 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
* * * *
9479291 TACCGTTACTGTTACAGATTC-AGTACTTTGTGTGTTGAATACTGC
1 TACTGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGT
9479336 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
9479351 TGCTATCGTT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:9479353 original size:18 final size:19
Alignment explanation
Indices: 9479330--9479371 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
9479320 GTGTGTTGAA
9479330 TACTGCTA-CTGTTACTG-T
1 TACTGCTATC-GTTACTGAT
9479348 TACTGCTATCGTTACTGAT
1 TACTGCTATCGTTACTGAT
9479367 TACTG
1 TACTG
9479372 TTTACTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (19 bp):
TACTGCTATCGTTACTGAT
Found at i:9481550 original size:39 final size:40
Alignment explanation
Indices: 9481415--9481576 Score: 229
Period size: 40 Copynumber: 4.1 Consensus size: 40
9481405 GAAAACAGAC
* * *
9481415 CAGATGCTCATAATAGCTAGTCCAACTGAAACGCACTAGA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
* * * *
9481455 CAGATGCTTATAAGAGCTAGTCCAACTGAAACACACCAAA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
*
9481495 CAGATGCTCATAAGAGCTAGTCCAACCG-AACATACTAGA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
*
9481534 TAGATGCTCATAAGAGCTAGTCCAACCG-AACACACTAGA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
9481573 CAGA
1 CAGA
9481577 GAGTATAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 48 0.44
40 61 0.56
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (40 bp):
CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
Found at i:9481554 original size:79 final size:79
Alignment explanation
Indices: 9481415--9481568 Score: 229
Period size: 79 Copynumber: 1.9 Consensus size: 79
9481405 GAAAACAGAC
* * * *
9481415 CAGATGCTCATAATAGCTAGTCCAACTGAAACGCACTAGACAGATGCTTATAAGAGCTAGTCCAA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGACAGATGCTCATAAGAGCTAGTCCAA
*
9481480 CTGAAACACACCAAA
66 CCG-AACACACCAAA
* *
9481495 CAGATGCTCATAAGAGCTAGTCCAACCG-AACATACTAGATAGATGCTCATAAGAGCTAGTCCAA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGACAGATGCTCATAAGAGCTAGTCCAA
9481559 CCGAACACAC
66 CCGAACACAC
9481569 TAGACAGAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 7 0.10
79 34 0.51
80 26 0.39
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (79 bp):
CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGACAGATGCTCATAAGAGCTAGTCCAA
CCGAACACACCAAA
Found at i:9489746 original size:19 final size:19
Alignment explanation
Indices: 9489724--9489776 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
9489714 ATTTATCAAG
9489724 TTTTTATAATTTTTTG-AA
1 TTTTTATAATTTTTTGAAA
**
9489742 TTTTTATTTTATTTTTGAATA
1 TTTTTATAAT-TTTTTGAA-A
9489763 TTTTTATAAATTTT
1 TTTTTAT-AATTTT
9489777 AAATTATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 8 0.30
19 6 0.22
20 1 0.04
21 11 0.41
22 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTATAATTTTTTGAAA
Found at i:9501228 original size:30 final size:31
Alignment explanation
Indices: 9501189--9501248 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
9501179 GGAGGTGAGA
* *
9501189 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTGAGGGGAAAAG
* *
9501220 TGGG-AGGGAGTAAAAATTTGGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTGAGGGGAAAA
9501249 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTGAGGGGAAAAG
Found at i:9510458 original size:16 final size:17
Alignment explanation
Indices: 9510439--9510471 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9510429 GAAAATGAAA
9510439 ATGAAAAA-TAAAAATG
1 ATGAAAAAGTAAAAATG
9510455 ATGAAAAAGTAAAAATG
1 ATGAAAAAGTAAAAATG
9510472 GAGAGGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (17 bp):
ATGAAAAAGTAAAAATG
Found at i:9511951 original size:128 final size:128
Alignment explanation
Indices: 9511712--9512582 Score: 1350
Period size: 128 Copynumber: 6.8 Consensus size: 128
9511702 TCGGTGAAAT
*
9511712 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGTTTAGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* ** * *
9511777 CAGTAGCGGAGCAGATCGAAAGTGAAAAATCTTATTTTCAATAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
*
9511840 CACAAGTCCTATATCCCTGGTCAGCAGTAGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* * *
9511905 TAGTAGCGGAGCAGATCAAAAGCGGCAAATCTTATCTTTAAGAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* * *
9511968 CACAAGTCCTATATCCCTAGTCAGCAGTGGAATAGGTTAAAAATTACAGATCTTGTCTCCCTAAA
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
*
9512033 CAGTAGCGGAGCAGATCAAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* *
9512096 CACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGTTAGAAATTATAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* * *
9512161 CAGTAGCAGAGCAGATCGAAAGCGCCAAATCTTATCTTCAAGAGTACGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* *
9512224 CACAGGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATTTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* * *
9512289 CAGTAGCGGAACAGATCGAAAGCGGCAAATATTATCTTCAAGAGTAAGGAAGCAAATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
*
9512352 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAAGTTGAGAAATTACAGATCTTGTCTCCCTAA
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT-AGAAATTACAGATCTTGTCTCCCTAA
* * * * *
9512417 GCAGTAGCGAAGCAGATCG-AAGACGACGAAGCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
65 GCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* * * * * *
9512481 CACAAGTCCTATCTCCTTGGTCGGCAGTGGAGTAGGTTGGAAATTACAAATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* * *
9512546 CAGTAGCGAAGCAGATCG-AAGATGACAAATCTTATCT
66 CAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCT
9512583 CCCTGAGGAT
Statistics
Matches: 685, Mismatches: 56, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
128 575 0.84
129 110 0.16
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (128 bp):
CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
Found at i:9512888 original size:44 final size:44
Alignment explanation
Indices: 9512574--9512914 Score: 135
Period size: 44 Copynumber: 7.8 Consensus size: 44
9512564 AAGATGACAA
* * * ** **
9512574 ATCTTATCTCCCTGAGGATGTAGTGGAGTAGATTGAAGCCGATA-
1 ATCTTATCTCTCTGAAGTTGTAGTGGAGCGGATTGAAG-TAATAG
* * * *
9512618 ATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAAGTTGTAGTGGAGCGGATTGAAGTAATAG
* * * * * * *
9512662 ATCTTATCTCTCCGAAGTTGCAGTAGAGTGGATCGTA-TCAT-G
1 ATCTTATCTCTCTGAAGTTGTAGTGGAGCGGATTGAAGTAATAG
* * * * *
9512704 -TCTTATCTCTTTG-AGTTTGTAGTGGAGCAGACT-AAG-AAAACA
1 ATCTTATCTCTCTGAAG-TTGTAGTGGAGCGGATTGAAGTAATA-G
* * *** * * *** *
9512746 AGTCTTATCCCCCTGAAGTCACAGT-GAGGCAGATCGAAGATGGCAA
1 A-TCTTATCTCTCTGAAGTTGTAGTGGA-GCGGATTGAAG-TAATAG
* * * * **
9512792 ATCTTATCTCCCTGAGGATGTAGTGGAGCAGATTGAAGCCGATA-
1 ATCTTATCTCTCTGAAGTTGTAGTGGAGCGGATTGAAG-TAATAG
* *
9512836 ATCCTATCTCTCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAAGTTGTAGTGGAGCGGATTGAAGTAATAG
* * *
9512880 ATCTTATCTCT-TCGAAGTTGCAGTAGAGTGGATTG
1 ATCTTATCTCTCT-GAAGTTGTAGTGGAGCGGATTG
9512915 CATCAGGTCT
Statistics
Matches: 215, Mismatches: 67, Indels: 30
0.69 0.21 0.10
Matches are distributed among these distances:
40 4 0.02
41 22 0.10
42 1 0.00
43 12 0.06
44 137 0.64
45 34 0.16
46 4 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAGTTGTAGTGGAGCGGATTGAAGTAATAG
Found at i:9513264 original size:217 final size:215
Alignment explanation
Indices: 9512556--9513350 Score: 1154
Period size: 217 Copynumber: 3.7 Consensus size: 215
9512546 CAGTAGCGAA
* * * *
9512556 GCAGATCGAAGATGACAAATCTTATCTCCCTGAGGATGTAGTGGAGTAGATTGAAGCCGATAATC
1 GCAGACCGAAGAAG-CAAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATC
*
9512621 CTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGT
65 CTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGT
* * ** *
9512686 AGAGTGGATCGTATCATGTCTTATCTCTTTGAGTTTGTAGTGGAGCAGACTAAGAAAACAAGTCT
130 AGAGTGGATCGCATCAGGTCTTATCTCCCTGAG-TTG-AGTGGAGCAGACTGAGAAAACAAGTCT
*
9512751 TATCCCCCTGAAGTCACAGTGAG
193 TATCCCCCTGAAGTCACAGTGGG
* * *
9512774 GCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGATGTAGTGGAGCAGATTGAAGCCGATAATC
1 GCAGACCGAAGA-AGCAAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATC
* *
9512839 CTATCTCTCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTTCGAAGTTGCAGT
65 CTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGT
* * *
9512904 AGAGTGGATTGCATCAGGTCTTATCTCCC-----T--GTGGAGCAGACTGAGAAAATAAGTTTTA
130 AGAGTGGATCGCATCAGGTCTTATCTCCCTGAGTTGAGTGGAGCAGACTGAGAAAACAAGTCTTA
9512962 TCCCCCTGAAGTCACAGTGGG
195 TCCCCCTGAAGTCACAGTGGG
* * * * *
9512983 GCAGACCGAAGAAGTAAATCTTATCTCCCTGAGGTTGCAGTAGAGTAGATTGAAGCCAATAATCC
1 GCAGACCGAAGAAGCAAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCC
*
9513048 TATCTCCCTGAAGTTGTAGTGGAGCGAATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTA
66 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTA
9513113 GAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAAGTCTT
131 GAGTGGATCGCATCAGGTCTTATCTCCCTGA-GTTG-AGTGGAGCAGACTGAGAAAACAAGTCTT
*
9513178 ATCCCTCTGAAGTCACAGTGGG
194 ATCCCCCTGAAGTCACAGTGGG
* * * *
9513200 GCAGACCAAAGAAGCAAATATTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATAATCC
1 GCAGACCGAAGAAGCAAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCC
* * * *
9513265 TATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAGGAATAGATCTTATGTCTCTGAAGTTGCAGTA
66 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTA
** *
9513330 GAGCAGATCGCATCAAGTCTT
131 GAGTGGATCGCATCAGGTCTT
9513351 GCTGACTAGA
Statistics
Matches: 523, Mismatches: 44, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
208 135 0.26
209 56 0.11
212 1 0.00
214 1 0.00
217 182 0.35
218 147 0.28
219 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (215 bp):
GCAGACCGAAGAAGCAAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCC
TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTA
GAGTGGATCGCATCAGGTCTTATCTCCCTGAGTTGAGTGGAGCAGACTGAGAAAACAAGTCTTAT
CCCCCTGAAGTCACAGTGGG
Found at i:9513269 original size:44 final size:44
Alignment explanation
Indices: 9512999--9513337 Score: 189
Period size: 44 Copynumber: 7.8 Consensus size: 44
9512989 CGAAGAAGTA
* * * *
9512999 AATCTTATCTCCCTGAGGTTGCAGTAGAGTAGATTGAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
* * *
9513043 AATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGTCAAT
* ** * *
9513086 AGATCTTATCTCTCC-GAAGTTGCAGTAGAGTGGATCGCA-TC-A-
1 A-ATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
** * * ** *
9513128 GGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTG-AGAAAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
** * **
9513171 AAGTCTTATC-CCTCTGAAGTCACAGTGGGGCAGACCAAAGAAG-C-A-
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAG---ATTGAAGTCAAT
* * *
9513216 AATATTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
* * * * * *
9513260 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAG-GAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
* * *
9513303 AGATCTTATGTCTCTGAAGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
9513338 CGCATCAAGT
Statistics
Matches: 219, Mismatches: 56, Indels: 40
0.70 0.18 0.13
Matches are distributed among these distances:
40 3 0.01
41 30 0.14
42 2 0.01
43 13 0.06
44 159 0.73
45 7 0.03
46 1 0.00
47 2 0.01
48 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
Found at i:9514935 original size:17 final size:18
Alignment explanation
Indices: 9514913--9514947 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9514903 TAGTACTTTA
9514913 ATTTATAACAT-ATTATT
1 ATTTATAACATAATTATT
*
9514930 ATTTATCACATAATTATT
1 ATTTATAACATAATTATT
9514948 TGAAGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATAACATAATTATT
Found at i:9517122 original size:17 final size:18
Alignment explanation
Indices: 9517100--9517133 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9517090 TTTGTACAAA
9517100 ATTTATAATAA-AATTTT
1 ATTTATAATAATAATTTT
*
9517117 ATTTATTATAATAATTT
1 ATTTATAATAATAATTT
9517134 AATATGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTATAATAATAATTTT
Found at i:9524328 original size:5 final size:5
Alignment explanation
Indices: 9524318--9524343 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9524308 AAGCCATGCC
9524318 CCATA CCATA CCATA CCATA CCATA C
1 CCATA CCATA CCATA CCATA CCATA C
9524344 GTACTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (5 bp):
CCATA
Found at i:9525332 original size:29 final size:29
Alignment explanation
Indices: 9525290--9525360 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
9525280 ATTTTCTTTT
* *
9525290 GTTACCCAATTATGAAAAGATACAAAATA
1 GTTAACCAACTATGAAAAGATACAAAATA
*
9525319 GTTAACCAACTATGAAAAGATACAAAATG
1 GTTAACCAACTATGAAAAGATACAAAATA
9525348 GTT-ACCTAACTAT
1 GTTAACC-AACTAT
9525361 TCAATTGTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (29 bp):
GTTAACCAACTATGAAAAGATACAAAATA
Found at i:9525827 original size:18 final size:18
Alignment explanation
Indices: 9525804--9525840 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9525794 ATAAAAATTA
* *
9525804 TATATATGATATTTATAT
1 TATATATAACATTTATAT
9525822 TATATATAACATTTATAT
1 TATATATAACATTTATAT
9525840 T
1 T
9525841 TGGATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATATAACATTTATAT
Found at i:9526180 original size:40 final size:40
Alignment explanation
Indices: 9526134--9526253 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 40
9526124 ATAAAGCAGG
* *
9526134 AAAACGCTTCCTCAAGGAAACACTTTGTCCACGTGGACAA
1 AAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACAA
* * * *
9526174 AAAACGCTTCCCCAAGGAAGCGCTTTGTCCACGTGAATAG
1 AAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACAA
**
9526214 AAAACGCTTCCTTGAGGAAGCGCTTTGTGTCCACGTGGAC
1 AAAACGCTTCCTCAAGGAAGCGC-TT-TGTCCACGTGGAC
9526254 CTTCCTTGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 54 0.81
41 2 0.03
42 11 0.16
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
AAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACAA
Found at i:9526608 original size:98 final size:97
Alignment explanation
Indices: 9526380--9526670 Score: 394
Period size: 98 Copynumber: 3.0 Consensus size: 97
9526370 AAATAAGGGT
* * * *
9526380 TTAGGGTTTAGAATTTCTTAATTAAATTAATTATAAATTTT--AAAAAATTAGATTAGAGTTTAG
1 TTAGGGTTTAGAGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTAGAGTTTAG
* *
9526443 TGTTTATGATTTTTAAGGGAAAAAAT-AAATAAA
66 TGTTTAGGGTTTTTAA-GG-AAAAATCAAATAAA
9526476 TTAGGGTTTAG-GATTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTA-AGGTTT
1 TTAGGGTTTAGAG-TTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTAGA-GTTT
* *
9526539 AGTGTTTAGGGTTTTTAAGGTAACATCAAATAAA
64 AGTGTTTAGGGTTTTTAAGGAAAAATCAAATAAA
* * *
9526573 TTAGGGTTTAGAGTTACTTGAGTAAATTAATTTATAATTTTTAAAAAAAATTAGATTGGTGTTTA
1 TTAGGGTTTAGAGTTACTTGAGTAAATTAA-TTATAAATTTTAAAAAAAATTAGATTAGAGTTTA
*
9526638 GTATTTAGGGTTTTTAAGGAAAAATCAAATAAA
65 GTGTTTAGGGTTTTTAAGGAAAAATCAAATAAA
9526671 ACTAGTTGTT
Statistics
Matches: 173, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
96 40 0.23
97 38 0.22
98 95 0.55
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (97 bp):
TTAGGGTTTAGAGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTAGAGTTTAG
TGTTTAGGGTTTTTAAGGAAAAATCAAATAAA
Found at i:9527526 original size:40 final size:41
Alignment explanation
Indices: 9527468--9527552 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
9527458 AAAACCCTAA
* *
9527468 TTTTTCTGTCCATATGGACAAAGCGCGTCCTTGAGGAAGCG
1 TTTTTCTGTCCACATGGACAAAGCGCGTCCTTAAGGAAGCG
* *
9527509 TTTTT-TGTCCACGTGGACAAAGCGCTTCCTTAAGGAAGCG
1 TTTTTCTGTCCACATGGACAAAGCGCGTCCTTAAGGAAGCG
9527549 TTTT
1 TTTT
9527553 CCTGCTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTTTCTGTCCACATGGACAAAGCGCGTCCTTAAGGAAGCG
Found at i:9532720 original size:11 final size:11
Alignment explanation
Indices: 9532704--9532761 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 11
9532694 AAATATTAAA
9532704 ATTTTTAATAT
1 ATTTTTAATAT
9532715 ATTTTTAAT-T
1 ATTTTTAATAT
**
9532725 -TTTTTTGTA-
1 ATTTTTAATAT
* *
9532734 AATTTTAGTAT
1 ATTTTTAATAT
9532745 ATTTTTAA-AT
1 ATTTTTAATAT
9532755 ATTTTTA
1 ATTTTTA
9532762 TGACGCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
9 6 0.16
10 17 0.45
11 15 0.39
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:9535415 original size:20 final size:20
Alignment explanation
Indices: 9535390--9535428 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9535380 GGCTTGATGC
* *
9535390 CGGTGAAATGTTTTAGACTG
1 CGGTGAAATATTTCAGACTG
9535410 CGGTGAAATATTTCAGACT
1 CGGTGAAATATTTCAGACT
9535429 TTACATCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (20 bp):
CGGTGAAATATTTCAGACTG
Found at i:9547337 original size:22 final size:21
Alignment explanation
Indices: 9547296--9547346 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
9547286 GATAAAAGAA
*
9547296 ATAATAAAATAATAAGAATAAAT
1 ATAA-AAAATAATAACAAT-AAT
*
9547319 ATAAAAAATAATGACAATAAT
1 ATAAAAAATAATAACAATAAT
9547340 AGTAAAA
1 A-TAAAA
9547347 GGGATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 17 0.68
23 4 0.16
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (21 bp):
ATAAAAAATAATAACAATAAT
Found at i:9549329 original size:85 final size:88
Alignment explanation
Indices: 9549182--9549429 Score: 295
Period size: 89 Copynumber: 2.8 Consensus size: 88
9549172 TGTAATCTGT
* * * * * *
9549182 TCCACTGCAGCTTTAGGGAAATAAGATTTGTAACTTCAATCTACTCCACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* *
9549247 TAATATTTA-TAACTCCAA-T-C
66 TAAGATTCATTAACTCCAACTGC
* * *
9549267 TCCACTACAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* *
9549332 TAAGATTCATTATCTTCAATCTGC
66 TAAGATTCATTAACTCCAA-CTGC
* * * * * *
9549356 TCCATTGTAACTTTAGGGAGATAAGATCTGTAGTTTTAATTTGCTCTACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
9549421 TAAGATTCA
66 TAAGATTCA
9549430 CCACAGTGAC
Statistics
Matches: 137, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
85 63 0.46
86 7 0.05
88 1 0.01
89 66 0.48
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (88 bp):
TCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTCATTAACTCCAACTGC
Found at i:9549368 original size:45 final size:45
Alignment explanation
Indices: 9549094--9549428 Score: 249
Period size: 44 Copynumber: 7.5 Consensus size: 45
9549084 TACTTCATTA
** * * * *
9549094 CAACTTCAATGAGATAAGACT-TGTAACTTCAATCTGCTCCATTG
1 CAACTTCAGGGAGATAAGATTCTGTATCTTTAATCTGCTCCACTG
* * * *
9549138 CAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTGTAATCTGTTCCACTG
1 CAACTTCAGGGAGATAAGA--T-T--C-TGTATCTTTAATCTGCTCCACTG
* * * * * *
9549189 CAGCTTTAGGGAAATAAGATT-TGTAACTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTCTGTATCTTTAATCTGCTCCACTG
* * * * ** *
9549233 CAACTTTAGGGAGATAATATT-TATAACTCCAA--T-CTCCACTA
1 CAACTTCAGGGAGATAAGATTCTGTATCTTTAATCTGCTCCACTG
**
9549274 CAACTTCAGGGAGATAAGATT-TGTGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTCTGTATCTTTAATCTGCTCCACTG
* *
9549318 CAACTTCAGGGAGATAAGATTCAT-TATCTTCAATCTGCTCCATTG
1 CAACTTCAGGGAGATAAGATTC-TGTATCTTTAATCTGCTCCACTG
* * * *
9549363 TAACTTTAGGGAGATAAGA-TCTGTAGT-TTTAATTTGCTCTACTG
1 CAACTTCAGGGAGATAAGATTCTGTA-TCTTTAATCTGCTCCACTG
9549407 CAACTTCAGGGAGATAAGATTC
1 CAACTTCAGGGAGATAAGATTC
9549429 ACCACAGTGA
Statistics
Matches: 234, Mismatches: 42, Indels: 29
0.77 0.14 0.10
Matches are distributed among these distances:
41 32 0.14
42 1 0.00
43 2 0.01
44 123 0.53
45 37 0.16
46 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
51 35 0.15
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAGATTCTGTATCTTTAATCTGCTCCACTG
Found at i:9555760 original size:34 final size:35
Alignment explanation
Indices: 9555716--9555782 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
9555706 CAGTAAAATA
*
9555716 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
9555750 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
9555783 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:9556804 original size:20 final size:20
Alignment explanation
Indices: 9556771--9556818 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
9556761 AAGGCCTTGG
*
9556771 TGGCTGGTTGTCACAGTCCT
1 TGGCTGGCTGTCACAGTCCT
*
9556791 TGGTTGGCTGTCACAGTCCT
1 TGGCTGGCTGTCACAGTCCT
9556811 TGGCTGGC
1 TGGCTGGC
9556819 ATATAGTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.25, G:0.33, T:0.33
Consensus pattern (20 bp):
TGGCTGGCTGTCACAGTCCT
Found at i:9560802 original size:12 final size:12
Alignment explanation
Indices: 9560785--9560818 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
9560775 GTCACATATT
9560785 TACATATCATGA
1 TACATATCATGA
9560797 TACATATCATGA
1 TACATATCATGA
9560809 TACATATCAT
1 TACATATCAT
9560819 TCTCTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (12 bp):
TACATATCATGA
Found at i:9560833 original size:29 final size:29
Alignment explanation
Indices: 9560799--9560856 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9560789 TATCATGATA
9560799 CATATCATGATACATATCATTCTCTTGCT
1 CATATCATGATACATATCATTCTCTTGCT
9560828 CATATCATGATACATATCATTCTCTTGCT
1 CATATCATGATACATATCATTCTCTTGCT
9560857 GTTTCTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (29 bp):
CATATCATGATACATATCATTCTCTTGCT
Found at i:9561313 original size:49 final size:48
Alignment explanation
Indices: 9561260--9561375 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
9561250 AGATCATGTA
* * * * * *
9561260 AGCCATTAACAGGAAGCTTATTCGGGCTATATAACGGGAAGCT-CATAAG
1 AGCCATTAACGGGAAGCTCATGCGAGCCA-ATAACAGGAAGCTCCA-AAG
*
9561309 AGCCA-TAATCGGGAAGCTCATGCGAGCCAATAACAGGTAGCTCCAAAG
1 AGCCATTAA-CGGGAAGCTCATGCGAGCCAATAACAGGAAGCTCCAAAG
9561357 AGCCATTAACGGGAAGCTC
1 AGCCATTAACGGGAAGCTC
9561376 CGGATAGCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
48 32 0.56
49 25 0.44
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (48 bp):
AGCCATTAACGGGAAGCTCATGCGAGCCAATAACAGGAAGCTCCAAAG
Found at i:9561324 original size:24 final size:24
Alignment explanation
Indices: 9561290--9561481 Score: 92
Period size: 24 Copynumber: 7.9 Consensus size: 24
9561280 TTCGGGCTAT
9561290 ATAA-CGGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
**
9561313 ATAATCGGGAAGCTCATGCGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* *
9561337 AATAA-CAGGTAGCTCCA-AAGAGCC
1 -ATAATCGGGAAGCT-CATAAGAGCC
*** *
9561361 ATTAA-CGGGAAGCTCCGGATAGCC
1 A-TAATCGGGAAGCTCATAAGAGCC
* * *
9561385 ATATATCGGGGAGTTCA-AGCGAGCC
1 ATA-ATCGGGAAGCTCATA-AGAGCC
* *
9561410 AT-ATCAGGAAGCTC-TGGAGAGCC
1 ATAATCGGGAAGCTCAT-AAGAGCC
** *
9561433 ATTAATTAGGAAGCTCACAAAGAGCC
1 A-TAATCGGGAAGCTCA-TAAGAGCC
* *
9561459 ATATATCGGGACGCTTATAAGAG
1 ATA-ATCGGGAAGCTCATAAGAG
9561482 TTGTGGCGTG
Statistics
Matches: 124, Mismatches: 30, Indels: 28
0.68 0.16 0.15
Matches are distributed among these distances:
23 23 0.19
24 47 0.38
25 38 0.31
26 16 0.13
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (24 bp):
ATAATCGGGAAGCTCATAAGAGCC
Found at i:9561423 original size:72 final size:72
Alignment explanation
Indices: 9561291--9561469 Score: 180
Period size: 72 Copynumber: 2.4 Consensus size: 72
9561281 TCGGGCTATA
* * *
9561291 TAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATGCGAGCCAATAACAGGTAGCTCCAAA
1 TAACGGGAAGCTCAGAAGAGCCATAATCGGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAA
9561356 GAGCCAT
66 GAGCCAT
* * * * * * ***
9561363 TAACGGGAAGCTCCGGATAGCCATATATCGGGGAGTTCAAGCGAGCC-ATATCAGGAAGCTCTGG
1 TAACGGGAAGCTCAGAAGAGCCATA-ATCGGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAA
9561427 AGAGCCAT
65 AGAGCCAT
** *
9561435 TAATTAGGAAGCTCACAAAGAGCCATATATCGGGA
1 TAA-CGGGAAGCTCA-GAAGAGCCATA-ATCGGGA
9561470 CGCTTATAAG
Statistics
Matches: 85, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
72 44 0.52
73 26 0.31
74 15 0.18
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (72 bp):
TAACGGGAAGCTCAGAAGAGCCATAATCGGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAA
GAGCCAT
Found at i:9564195 original size:33 final size:32
Alignment explanation
Indices: 9564153--9564299 Score: 98
Period size: 33 Copynumber: 4.4 Consensus size: 32
9564143 ATAACCTAGT
*
9564153 TATGGTCTTATCATCAGAATGTCATAGCCCAGC
1 TATGGTCTTA-CATCAAAATGTCATAGCCCAGC
* * * *
9564186 TATGGTCTTACATATAAACACTGTCATGGTCCAAC
1 TATGGTCTTACAT-CAAA-A-TGTCATAGCCCAGC
* * * * * *
9564221 CATGGTCTTACGTTCATAGTG-CTATAACCCAGT
1 TATGGTCTTAC-ATCAAAATGTC-ATAGCCCAGC
* * *
9564254 TATGGTTTTATCATCAAAATTTCATGGCCCAGC
1 TATGGTCTTA-CATCAAAATGTCATAGCCCAGC
9564287 TATGGTCTTACAT
1 TATGGTCTTACAT
9564300 ATAAACACTG
Statistics
Matches: 82, Mismatches: 25, Indels: 15
0.67 0.20 0.12
Matches are distributed among these distances:
32 7 0.09
33 48 0.59
34 3 0.04
35 23 0.28
36 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (32 bp):
TATGGTCTTACATCAAAATGTCATAGCCCAGC
Found at i:9564315 original size:101 final size:101
Alignment explanation
Indices: 9564127--9564372 Score: 393
Period size: 101 Copynumber: 2.4 Consensus size: 101
9564117 AATTTATCCT
* * * *
9564127 TTACATTCGTAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGTCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
*
9564192 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * *
9564228 TTACGTTCATAGTGCTATAACCCAGTTATGGTTTTATCATCAAAATTTCATGGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
*
9564293 CTTACATATAAACACTGCCATGGTTCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
9564329 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCCATCAA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTAT-CATCAA
9564373 TTCATCCTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 126 0.95
102 6 0.05
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:9566358 original size:19 final size:19
Alignment explanation
Indices: 9566320--9566372 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
9566310 GGGTCTTTTT
9566320 ATGAAATTTAATGCATATG-
1 ATGAAA-TTAATGCATATGA
9566339 ATGAAATGTAATGC-TGATGA
1 ATGAAAT-TAATGCAT-ATGA
*
9566359 ATGGAATTAATGCA
1 ATGAAATTAATGCA
9566373 AAAAGAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.07
19 21 0.72
20 6 0.21
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (19 bp):
ATGAAATTAATGCATATGA
Found at i:9568158 original size:21 final size:21
Alignment explanation
Indices: 9568132--9568177 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
9568122 AGATGTTGGA
9568132 GGCTCTAAAATAAGCTTTGTC
1 GGCTCTAAAATAAGCTTTGTC
*
9568153 GGCTCTAGAATAAGCTTTGTC
1 GGCTCTAAAATAAGCTTTGTC
9568174 GGCT
1 GGCT
9568178 TGGATCCTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
GGCTCTAAAATAAGCTTTGTC
Found at i:9573085 original size:90 final size:83
Alignment explanation
Indices: 9572919--9573108 Score: 199
Period size: 89 Copynumber: 2.2 Consensus size: 83
9572909 TTGTATTTTT
* *
9572919 AAAATGTAT-AAAAAAGCCCTTAAATTAAAAAAAAATTAGGCCCTTGATTTTTTTTTCGCACTCA
1 AAAATGTATCAAAAAAGCCCTTAAATTAAAAAAAAATTAAGCCCCTGATTTTTTTTTC-CACTCA
** **
9572983 ATTGAGTGCTTGAACTTTC
65 ATTGAGAACTTGAACCGTC
*
9573002 AAAATGCATCAAAAAAGCCCTTAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGATTTGTTTTTT
1 AAAATGTATCAAAAAAGCCCTTAAA----TT-AAAAAAA--AATTAAGCCCCTGATTT-TTTTTT
9573067 -CACTCAATTG-GAAACTTGAACCGTC
58 CCACTCAATTGAG-AACTTGAACCGTC
9573092 -AAATGTATCAAAAAAGC
1 AAAATGTATCAAAAAAGC
9573109 TTTTTAACCG
Statistics
Matches: 89, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
83 8 0.09
84 15 0.17
88 2 0.02
89 24 0.27
90 19 0.21
91 15 0.17
92 6 0.07
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (83 bp):
AAAATGTATCAAAAAAGCCCTTAAATTAAAAAAAAATTAAGCCCCTGATTTTTTTTTCCACTCAA
TTGAGAACTTGAACCGTC
Found at i:9573306 original size:38 final size:39
Alignment explanation
Indices: 9573236--9573327 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
9573226 AAAATCAATA
* * *
9573236 AAAAATTTATTAAATTTATTAAATTTTAATAAAAATAT-T
1 AAAATTTTATAAAAATTATTAAATTTTAATAAAAAT-TGT
* * *
9573275 GAAATTTTATAAAAATTA-TAATTTTTTATAAAAATTGT
1 AAAATTTTATAAAAATTATTAAATTTTAATAAAAATTGT
9573313 AAAATTTTATAAAAA
1 AAAATTTTATAAAAA
9573328 ATCATAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.02
38 30 0.67
39 14 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (39 bp):
AAAATTTTATAAAAATTATTAAATTTTAATAAAAATTGT
Found at i:9573335 original size:20 final size:19
Alignment explanation
Indices: 9573236--9573346 Score: 89
Period size: 19 Copynumber: 5.7 Consensus size: 19
9573226 AAAATCAATA
* * *
9573236 AAAAATTTATTAAATTTAT
1 AAAATTTTATAAAAATTAT
*
9573255 TAAATTTTAATAAAAA-TATT
1 AAAATTTT-ATAAAAATTA-T
*
9573275 GAAATTTTATAAAAATTAT
1 AAAATTTTATAAAAATTAT
** *
9573294 AATTTTTTATAAAAATTGT
1 AAAATTTTATAAAAATTAT
*
9573313 AAAATTTTATAAAAAATCAT
1 AAAATTTTAT-AAAAATTAT
**
9573333 AAAAAATTATAAAA
1 AAAATTTTATAAAA
9573347 TGCATCAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
19 43 0.59
20 30 0.41
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATTTTATAAAAATTAT
Found at i:9573684 original size:18 final size:18
Alignment explanation
Indices: 9573663--9573697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9573653 CAATATTTAA
*
9573663 TATTTTTCTATTTTTATT
1 TATTTTTATATTTTTATT
*
9573681 TATTTTTATTTTTTTAT
1 TATTTTTATATTTTTAT
9573698 CGTTTTTTGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
TATTTTTATATTTTTATT
Found at i:9584596 original size:47 final size:47
Alignment explanation
Indices: 9584544--9584637 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
9584534 GGAAAAGGCT
9584544 ATATATGGACACAAAAATAGACACCTGTCGGTTATCAATCATTTCAC
1 ATATATGGACACAAAAATAGACACCTGTCGGTTATCAATCATTTCAC
9584591 ATATATGGACACAAAAATAGACACCTGTCGGTTATCAATCATTTCAC
1 ATATATGGACACAAAAATAGACACCTGTCGGTTATCAATCATTTCAC
9584638 GCATTGCTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (47 bp):
ATATATGGACACAAAAATAGACACCTGTCGGTTATCAATCATTTCAC
Found at i:9598813 original size:4 final size:4
Alignment explanation
Indices: 9598804--9598828 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9598794 ACTCCTTCCG
9598804 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
9598829 AAAGCTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:9599160 original size:226 final size:222
Alignment explanation
Indices: 9598770--9599217 Score: 758
Period size: 226 Copynumber: 2.0 Consensus size: 222
9598760 TGGGCTTTCA
* *
9598770 AGACTTGCAAGCCTTTAATGTAACACTCCTTCCGATACATACATACATACATACATACAAAAGCT
1 AGACTTGCAAGCCTTTAATGCAACACTCCTTCCGAAACATACATACATACATACATACAAAAGCT
*
9598835 ATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTTAGTGAGAGAACCAAGGAACTACATG
66 ATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGAGAGAACCAAGGAACTACATG
*
9598900 CACTAATAAAACAACTTTGATTAAGCCTAAATATGAAGTAATAAACCCCAAGGAGAATAATCTAT
131 CACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCCAAGGAGAATAATCTAT
9598965 TTTGGCAAATCAATTTGGATTAAACCC
196 TTTGGCAAATCAATTTGGATTAAACCC
9598992 AGACTTGCAAGCCTTTAATGCAACACTCCTTCC-AAAGCA-AGCATGGACACATACATACATACA
1 AGACTTGCAAGCCTTTAATGCAACACTCCTTCCGAAA-CATA-CAT----ACATACATACATACA
*
9599055 AAAGCTATTAAATTTTATTGAAGCAAACAATAAGGTTACAAACTTAAGTG-GTAGAACCAAGGAA
60 AAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGAG-AGAACCAAGGAA
*
9599119 CTACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGGAGAAT
124 CTACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCCAAGGAGAAT
9599184 AATCTATTTTGGCAAATCAATTTGGATTAAACCC
189 AATCTATTTTGGCAAATCAATTTGGATTAAACCC
9599218 GGATATGAAC
Statistics
Matches: 213, Mismatches: 6, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
221 3 0.01
222 37 0.17
225 1 0.00
226 172 0.81
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (222 bp):
AGACTTGCAAGCCTTTAATGCAACACTCCTTCCGAAACATACATACATACATACATACAAAAGCT
ATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGAGAGAACCAAGGAACTACATG
CACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCCAAGGAGAATAATCTAT
TTTGGCAAATCAATTTGGATTAAACCC
Found at i:9605746 original size:24 final size:24
Alignment explanation
Indices: 9605712--9605857 Score: 91
Period size: 26 Copynumber: 6.0 Consensus size: 24
9605702 TTCGGGCTGT
*
9605712 ATAAT-GGAAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* ** *
9605735 ATAATCGGAAAGCTCATGCGAGTC
1 ATAATCGGGAAGCTCATAAGAGCC
***
9605759 AT-ATCGGGAAGCTTC-GGGGAGCC
1 ATAATCGGGAAGC-TCATAAGAGCC
**
9605782 ATTAATTAGGAAGCTCATAAAGAGCC
1 A-TAATCGGGAAGCTCAT-AAGAGCC
* *
9605808 TTTAACCGGGAAGCTCATGAAGAGCC
1 -ATAATCGGGAAGCTCAT-AAGAGCC
* *
9605834 ATATATCGGGATGCTTATAAGAGC
1 ATA-ATCGGGAAGCTCATAAGAGC
9605858 TGTGGTGTAT
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
23 20 0.21
24 22 0.23
25 16 0.17
26 36 0.38
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (24 bp):
ATAATCGGGAAGCTCATAAGAGCC
Found at i:9606349 original size:5 final size:5
Alignment explanation
Indices: 9606334--9606365 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
9606324 AATTTAATAT
9606334 AATTC ATATTC AATTC AATTC AATTC AATTC A
1 AATTC A-ATTC AATTC AATTC AATTC AATTC A
9606366 CATCTTAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTC
Found at i:9617496 original size:21 final size:21
Alignment explanation
Indices: 9617463--9617504 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9617453 GAGTAGTGGG
*
9617463 AGCGGTAGCGGTAGTGAAAGT
1 AGCGGAAGCGGTAGTGAAAGT
* *
9617484 AGCGGAAGTGGTAGTGGAAGT
1 AGCGGAAGCGGTAGTGAAAGT
9617505 GGAAGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.45, T:0.19
Consensus pattern (21 bp):
AGCGGAAGCGGTAGTGAAAGT
Found at i:9617505 original size:27 final size:27
Alignment explanation
Indices: 9617440--9617510 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
9617430 TCGAGTAGTA
* * *
9617440 GTAGTGGAAGTGAGAGTAGTGGGAGCG
1 GTAGTGGAAGTGAAAGTAGCGGAAGCG
* * *
9617467 GTAGCGGTAGTGAAAGTAGCGGAAGTG
1 GTAGTGGAAGTGAAAGTAGCGGAAGCG
*
9617494 GTAGTGGAAGTGGAAGT
1 GTAGTGGAAGTGAAAGT
9617511 GAAAGCAGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.04, G:0.48, T:0.20
Consensus pattern (27 bp):
GTAGTGGAAGTGAAAGTAGCGGAAGCG
Found at i:9617569 original size:4 final size:4
Alignment explanation
Indices: 9617560--9617585 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9617550 GTTGATGATC
9617560 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
9617586 ATGCTAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:9623415 original size:17 final size:18
Alignment explanation
Indices: 9623381--9623415 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9623371 GTTAGAGCCT
*
9623381 ATATGTTGTGTCTTTATG
1 ATATGTTCTGTCTTTATG
9623399 ATATGTTCTGT-TTTATG
1 ATATGTTCTGTCTTTATG
9623416 TCAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.06, G:0.20, T:0.57
Consensus pattern (18 bp):
ATATGTTCTGTCTTTATG
Found at i:9633210 original size:21 final size:21
Alignment explanation
Indices: 9633186--9633251 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
9633176 ATATAAGTGC
* *
9633186 TAAACGGAAACCCGTAAGGGT
1 TAAACGGAAACCCATAAGAGT
* * *
9633207 TAAACGGAAGCTCATAAGAGC
1 TAAACGGAAACCCATAAGAGT
9633228 TAAACGGAAACCCATAAGAGT
1 TAAACGGAAACCCATAAGAGT
9633249 TAA
1 TAA
9633252 TCTAAAGCTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (21 bp):
TAAACGGAAACCCATAAGAGT
Found at i:9633237 original size:42 final size:42
Alignment explanation
Indices: 9633178--9633306 Score: 150
Period size: 42 Copynumber: 3.1 Consensus size: 42
9633168 ACAAAAGCAT
* * *
9633178 ATAAGTGCTAAACGGAAACCCGTAAGGGTTAAACGGAAGCTC
1 ATAAGAGCTAAACGGAAACCCATAAGGGTTAAACGAAAGCTC
* * *
9633220 ATAAGAGCTAAACGGAAACCCATAAGAGTTAATCTAAAGCTC
1 ATAAGAGCTAAACGGAAACCCATAAGGGTTAAACGAAAGCTC
* ** * * *
9633262 AGAAGAGCTAAACTAAAACCCATTAGGGTTAAACTAAAACTC
1 ATAAGAGCTAAACGGAAACCCATAAGGGTTAAACGAAAGCTC
9633304 ATA
1 ATA
9633307 TGAGTTAACT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (42 bp):
ATAAGAGCTAAACGGAAACCCATAAGGGTTAAACGAAAGCTC
Found at i:9633267 original size:21 final size:21
Alignment explanation
Indices: 9633217--9633337 Score: 109
Period size: 21 Copynumber: 5.8 Consensus size: 21
9633207 TAAACGGAAG
* **
9633217 CTCATAAGAGCTAAACGGAAA
1 CTCATAAGAGTTAAACTAAAA
* * *
9633238 CCCATAAGAGTTAATCTAAAG
1 CTCATAAGAGTTAAACTAAAA
* *
9633259 CTCAGAAGAGCTAAACTAAAA
1 CTCATAAGAGTTAAACTAAAA
* * *
9633280 CCCATTAGGGTTAAACTAAAA
1 CTCATAAGAGTTAAACTAAAA
* *
9633301 CTCATATGAGTT-AACTAAAG
1 CTCATAAGAGTTAAACTAAAA
*
9633321 CTCATAAGAGCTAAACT
1 CTCATAAGAGTTAAACT
9633338 GAAAGCAAAC
Statistics
Matches: 76, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
20 17 0.22
21 59 0.78
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (21 bp):
CTCATAAGAGTTAAACTAAAA
Found at i:9642382 original size:21 final size:21
Alignment explanation
Indices: 9642358--9642401 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9642348 TAAACCGATT
9642358 TTTCTATT-TTATTTTCAACTC
1 TTTCTATTATTATTTTCAA-TC
*
9642379 TTTCTATTATTTTTTTCAATC
1 TTTCTATTATTATTTTCAATC
9642400 TT
1 TT
9642402 GTGAACAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTCTATTATTATTTTCAATC
Found at i:9651468 original size:22 final size:21
Alignment explanation
Indices: 9651426--9651473 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
9651416 TATAGATAGG
*
9651426 ATTTTTTTATCAATTATTTTA
1 ATTTTTTTATCAACTATTTTA
9651447 ACTTTTTTTATCTAACTA-TTTA
1 A-TTTTTTTATC-AACTATTTTA
9651469 ATTTT
1 ATTTT
9651474 ATTTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 15 0.62
23 4 0.17
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTTTATCAACTATTTTA
Found at i:9656104 original size:3 final size:3
Alignment explanation
Indices: 9656096--9656205 Score: 89
Period size: 3 Copynumber: 34.7 Consensus size: 3
9656086 TTTAGTCTCG
* * * *
9656096 TTA TTA TTA TTA TTT TTA TTA TTA TTA -AA CTAA GTA GTT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA
9656141 TTA TTA TTA TTA TTA TTA TTA TTGCA TTTA TTA TTA TTA CTTA CCTTA
1 TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA TTA -TTA --TTA
*
9656189 TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
9656206 TACCCATTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
2 3 0.03
3 73 0.81
4 7 0.08
5 5 0.06
6 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9673105 original size:6 final size:7
Alignment explanation
Indices: 9673090--9673114 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9673080 TTCAGATTTG
9673090 AAAAGAA
1 AAAAGAA
9673097 AAAAGAA
1 AAAAGAA
9673104 AAAAGAA
1 AAAAGAA
9673111 AAAA
1 AAAA
9673115 AATCAAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:9673149 original size:30 final size:28
Alignment explanation
Indices: 9673097--9673173 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 28
9673087 TTGAAAAGAA
9673097 AAAAGAAAAAAGAAAAAAAATCAAAGTC
1 AAAAGAAAAAAGAAAAAAAATCAAAGTC
**
9673125 AAAAGCAAAAAAGAGAAATCAATCAAAGTC
1 AAAAG-AAAAAAGA-AAAAAAATCAAAGTC
*
9673155 AAAATAAAAATATGAAAAA
1 AAAAGAAAAA-A-GAAAAA
9673174 GAGAAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 5 0.12
29 13 0.32
30 21 0.51
31 2 0.05
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.10
Consensus pattern (28 bp):
AAAAGAAAAAAGAAAAAAAATCAAAGTC
Found at i:9674852 original size:43 final size:43
Alignment explanation
Indices: 9674804--9674940 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 43
9674794 GATAGCAGAT
9674804 CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
9674847 CTTGCC-T-CTATCGGTT-GCAGTGGAGCTGGT-TAAAGATAGCAGAT
1 CTTGCCTTCCTA-C-GTTAACAGCGAAGCAGATCGAAA-ACA-AAG-C
* *
9674891 CTTTCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
9674934 CTTGCCT
1 CTTGCCT
9674941 CCATTAGTTG
Statistics
Matches: 64, Mismatches: 21, Indels: 18
0.62 0.20 0.17
Matches are distributed among these distances:
41 6 0.09
42 13 0.20
43 17 0.27
44 10 0.16
45 13 0.20
46 5 0.08
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:9674901 original size:87 final size:87
Alignment explanation
Indices: 9674750--9675012 Score: 427
Period size: 87 Copynumber: 3.0 Consensus size: 87
9674740 GTGAAAATAA
* *
9674750 AAAATAAAGCATTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
*
9674815 ACGTTAACAGCGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* *
9674837 AAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
9674902 GCGTTAACAGCGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
** *
9674924 AAAACAAAGCCTTGCCTCCATTAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
* * *
9674989 GCGTCAACAGTGAAACAGATCG
66 GCGTTAACAGCGAAGCAGATCG
9675011 AA
1 AA
9675013 GATTACAAGT
Statistics
Matches: 163, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 163 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
GCGTTAACAGCGAAGCAGATCG
Found at i:9675309 original size:9 final size:9
Alignment explanation
Indices: 9675292--9675328 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9675282 TGAGTTTTCA
9675292 AATTCGAAT
1 AATTCGAAT
*
9675301 AACTCGAAT
1 AATTCGAAT
9675310 AATTCGAAT
1 AATTCGAAT
9675319 AATTCGAAT
1 AATTCGAAT
9675328 A
1 A
9675329 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9676861 original size:12 final size:12
Alignment explanation
Indices: 9676846--9676870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9676836 AAAATAGCAG
9676846 AAAAAAACAAAA
1 AAAAAAACAAAA
9676858 AAAAAAACAAAA
1 AAAAAAACAAAA
9676870 A
1 A
9676871 GAGAGAATGT
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:9679215 original size:2 final size:2
Alignment explanation
Indices: 9679208--9679233 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9679198 TTGGTTTAAA
9679208 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9679234 TCATGTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9688739 original size:2 final size:2
Alignment explanation
Indices: 9688732--9688756 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9688722 AAATCATACA
9688732 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
9688757 ATTGACCTCT
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:9692768 original size:21 final size:20
Alignment explanation
Indices: 9692739--9692779 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9692729 ATGAATTAAG
9692739 TTCAAATAAGAATTTATATTT
1 TTCAAATAA-AATTTATATTT
* *
9692760 TTCATATAATATTTATATTT
1 TTCAAATAAAATTTATATTT
9692780 GGTAAAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (20 bp):
TTCAAATAAAATTTATATTT
Found at i:9694564 original size:15 final size:16
Alignment explanation
Indices: 9694544--9694574 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9694534 TTAAAATATT
9694544 CATATAT-TATAAAAA
1 CATATATCTATAAAAA
9694559 CATATATCTATAAAAA
1 CATATATCTATAAAAA
9694575 AATGCATGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
CATATATCTATAAAAA
Found at i:9695421 original size:10 final size:10
Alignment explanation
Indices: 9695402--9695445 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
9695392 ATTTATTTAG
*
9695402 AAAAACAAAA
1 AAAAAGAAAA
9695412 AAAAAGAAAA
1 AAAAAGAAAA
9695422 AAAAAGAAATA
1 AAAAAGAAA-A
9695433 ACGAAAAGAAAA
1 A--AAAAGAAAA
9695445 A
1 A
9695446 GAACAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 18 0.60
11 2 0.07
12 2 0.07
13 8 0.27
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:9696154 original size:50 final size:50
Alignment explanation
Indices: 9696094--9696641 Score: 361
Period size: 50 Copynumber: 11.0 Consensus size: 50
9696084 TCCACTCCAC
9696094 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
1 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * * * * **
9696144 TGCAATGTCAGGAAAACTAA-ATCCACCGTCGTAGTTTCAATCTATTCCAT
1 TGCAATGTCAGG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
9696194 TGCACTG-CTAGGGAAGTAAAATCCGCCGTTGTGGCTTCAATCTTTTTAAT
1 TGCAATGTC-AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *** * * * ** *
9696244 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * *
9696294 TGCACTG-CTGAGGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTTAAT
1 TGCAATGTCAG-GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *** * * * ** *
9696344 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * * * *
9696394 TGCACTG-CTGAGAAAGTAAGATCTGCTGTTGTGGCTTTAATTTTTTTAAT
1 TGCAATGTCAG-GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *** * * * ** *
9696444 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * ** *
9696494 TGCACTG-CTGATAAAGTAAGATCCGCCGTTGTGGCTTCAATATTTTTAAT
1 TGCAATGTCAG-GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *** * * * * ** *
9696544 TGCAATATCAGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
9696594 TGCACTG-CTGAGGAAGTAAGATCCGCCATTGTGGCTTCAATCTTTTTA
1 TGCAATGTCAG-GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
9696642 CTTTTCAACC
Statistics
Matches: 350, Mismatches: 137, Indels: 22
0.69 0.27 0.04
Matches are distributed among these distances:
49 14 0.04
50 324 0.93
51 12 0.03
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:9696255 original size:100 final size:100
Alignment explanation
Indices: 9696105--9696641 Score: 869
Period size: 100 Copynumber: 5.4 Consensus size: 100
9696095 GCAATGTCAG
* * * * *
9696105 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGAAAACTAAATCCAC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGC
* * *
9696170 CGTCGTAGTTTCAATCTATTCCATTGCACTGCT-A
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
*
9696204 GGGAAGTAAAATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCG
1 -GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCG
9696269 CCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
65 CCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
* *
9696305 GGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGC
9696370 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
* * * * *
9696405 GAAAGTAAGATCTGCTGTTGTGGCTTTAATTTTTTTAATTGCAATATCAGGGAAACCAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGC
9696470 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
** * *
9696505 TAAAGTAAGATCCGCCGTTGTGGCTTCAATATTTTTAATTGCAATATCAGGGAAACCAGATTCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGC
9696570 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
*
9696605 GGAAGTAAGATCCGCCATTGTGGCTTCAATCTTTTTA
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
9696642 CTTTTCAACC
Statistics
Matches: 409, Mismatches: 27, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
100 408 1.00
101 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (100 bp):
GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGC
CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTGA
Found at i:9700305 original size:10 final size:10
Alignment explanation
Indices: 9700286--9700329 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
9700276 ATTTATTTAG
*
9700286 AAAAACAAAA
1 AAAAAGAAAA
9700296 AAAAAGAAAA
1 AAAAAGAAAA
9700306 AAAAAGAAATA
1 AAAAAGAAA-A
9700317 ACGAAAAGAAAA
1 A--AAAAGAAAA
9700329 A
1 A
9700330 GAACAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 18 0.60
11 2 0.07
12 2 0.07
13 8 0.27
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:9708369 original size:21 final size:21
Alignment explanation
Indices: 9708327--9708369 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9708317 ACATGTTAAT
* *
9708327 TTTATCTTATTACAGAGTATA
1 TTTATCATATTACAGAATATA
9708348 TTTATCATATTACA-AATCATA
1 TTTATCATATTACAGAAT-ATA
9708369 T
1 T
9708370 ATAGCATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTATCATATTACAGAATATA
Found at i:9709550 original size:16 final size:17
Alignment explanation
Indices: 9709523--9709555 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9709513 TTAAGTTTTC
*
9709523 AATTTAAATTTAGAGTT
1 AATTTAAATTTAAAGTT
9709540 AATTT-AATTTAAAGTT
1 AATTTAAATTTAAAGTT
9709556 TTCGATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
AATTTAAATTTAAAGTT
Found at i:9713132 original size:17 final size:17
Alignment explanation
Indices: 9713110--9713145 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9713100 ATAAAAGTGA
9713110 AAAAAAATACTTTT-TTT
1 AAAAAAATA-TTTTATTT
9713127 AAAAAAATATTTTATTT
1 AAAAAAATATTTTATTT
9713144 AA
1 AA
9713146 TAATGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAAAAATATTTTATTT
Found at i:9715333 original size:25 final size:25
Alignment explanation
Indices: 9715288--9715352 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
9715278 GTCATTAGGG
*
9715288 TTACCGATTC-CAGCTATTATGAGC
1 TTACCGATACTCAGCTATTATGAGC
9715312 TTACCGATACTCAGCTCA-TATGAGC
1 TTACCGATACTCAGCT-ATTATGAGC
*
9715337 TTACCGTTACTCAGCT
1 TTACCGATACTCAGCT
9715353 TGGAGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 9 0.24
25 27 0.73
26 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (25 bp):
TTACCGATACTCAGCTATTATGAGC
Found at i:9723591 original size:5 final size:5
Alignment explanation
Indices: 9723520--9723603 Score: 62
Period size: 5 Copynumber: 16.8 Consensus size: 5
9723510 ACAAACCCAC
* * * * * *
9723520 CAGAA CAGGA CAGAG CAGAA CATG-A CAGAA TAGAA CAGAG CAGAG TAGAA
1 CAGAA CAGAA CAGAA CAGAA CA-GAA CAGAA CAGAA CAGAA CAGAA CAGAA
* * * *
9723570 TAGAA CAGAG CAAAA CAGAA CAGAA CATAA CAGA
1 CAGAA CAGAA CAGAA CAGAA CAGAA CAGAA CAGA
9723604 GTAGAGCAAA
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
4 1 0.02
5 59 0.97
6 1 0.02
ACGTcount: A:0.54, C:0.17, G:0.24, T:0.06
Consensus pattern (5 bp):
CAGAA
Found at i:9723601 original size:15 final size:15
Alignment explanation
Indices: 9723571--9723623 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
9723561 AGAGTAGAAT
*
9723571 AGAACAGAGCAAAAC
1 AGAACAGAACAAAAC
*
9723586 AGAACAGAACATAAC
1 AGAACAGAACAAAAC
** *
9723601 AGAGTAGAGCAAAAC
1 AGAACAGAACAAAAC
*
9723616 TGAACAGA
1 AGAACAGA
9723624 GCTACGCAGA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.57, C:0.17, G:0.21, T:0.06
Consensus pattern (15 bp):
AGAACAGAACAAAAC
Found at i:9736810 original size:6 final size:6
Alignment explanation
Indices: 9736799--9736830 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
9736789 AAACAAATGA
9736799 AGTGAG AGTGAG AGTGAG AGTGAG AGTGAG AG
1 AGTGAG AGTGAG AGTGAG AGTGAG AGTGAG AG
9736831 ACTGAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (6 bp):
AGTGAG
Found at i:9736837 original size:18 final size:18
Alignment explanation
Indices: 9736799--9736837 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9736789 AAACAAATGA
**
9736799 AGTGAGAGTGAGAGTGAG
1 AGTGAGAGTGAGAGACAG
*
9736817 AGTGAGAGTGAGAGACTG
1 AGTGAGAGTGAGAGACAG
9736835 AGT
1 AGT
9736838 AATGGAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.46, T:0.18
Consensus pattern (18 bp):
AGTGAGAGTGAGAGACAG
Found at i:9738923 original size:30 final size:30
Alignment explanation
Indices: 9738855--9738943 Score: 107
Period size: 25 Copynumber: 3.1 Consensus size: 30
9738845 TCCATATTTA
*
9738855 TGGAAAGTCAAAGATATGAGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
9738882 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
9738910 TGGAAATTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
9738941 TGG
1 TGG
9738944 CATAAGAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
25 20 0.38
26 2 0.04
27 2 0.04
28 1 0.02
30 20 0.38
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:9743551 original size:25 final size:29
Alignment explanation
Indices: 9743516--9743601 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 29
9743506 CATATTTATG
9743516 GAAAGTCAAAGATATGGGTATC-AA-A-T
1 GAAAGTCAAAGATATGGGTATCAAATATT
9743542 -AAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
*
9743570 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 -GAAAGTCAAAGATATGGGTATC-AAATATT
9743601 G
1 G
9743602 GCATAAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
25 21 0.40
26 2 0.04
27 1 0.02
28 1 0.02
30 22 0.42
31 6 0.11
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:9743578 original size:30 final size:30
Alignment explanation
Indices: 9743514--9743602 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
9743504 TCCATATTTA
9743514 TGGAAAGTCAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
9743541 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
9743569 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
9743600 TGG
1 TGG
9743603 CATAAGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
25 21 0.38
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.38
31 8 0.15
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:9748265 original size:229 final size:229
Alignment explanation
Indices: 9747856--9748324 Score: 886
Period size: 229 Copynumber: 2.0 Consensus size: 229
9747846 AATCAATTTT
*
9747856 TTATATTA-ATTTTTTTTAGTTTAAATAAAATATTATTGGTTTTTTTCCCGGATTAGTATATAAC
1 TTAT-TTATATTTTTTTTAGTTTAAATAAAATATTATTAGTTTTTTTCCCGGATTAGTATATAAC
9747920 TCGGGTATACGAAATACAGGGACTAATTGAGCCTATCTGACAGGCGCGACTAGTTGTGCCTAACT
65 TCGGGTATACGAAATACAGGGACTAATTGAGCCTATCTGACAGGCGCGACTAGTTGTGCCTAACT
* *
9747985 CAGATGCGCGAATGGTGGACCCCACTGCTGCTTCATTTTTCCCCTATCTTATATAGTATGTTGAT
130 CAGAGGCGCGAATGGTGGACCCCACTGCTGCTTCATTTTCCCCCTATCTTATATAGTATGTTGAT
9748050 AGTCAATCAACTATATTCATTACATAAATATGAAA
195 AGTCAATCAACTATATTCATTACATAAATATGAAA
9748085 TTATTTATATTTTTTTTAGTTTAAATAAAATATTATTAGTTTTTTTCCCGGATTAGTATATAACT
1 TTATTTATATTTTTTTTAGTTTAAATAAAATATTATTAGTTTTTTTCCCGGATTAGTATATAACT
*
9748150 CGGGTATACGAAATACAGGGACTAATTGAGCCTATCTGACAGGTGCGACTAGTTGTGCCTAACTC
66 CGGGTATACGAAATACAGGGACTAATTGAGCCTATCTGACAGGCGCGACTAGTTGTGCCTAACTC
9748215 AGAGGCGCGAATGGTGGACCCCACTGCTGCTTCATTTTCCCCCTATCTTATATAGTATGTTGATA
131 AGAGGCGCGAATGGTGGACCCCACTGCTGCTTCATTTTCCCCCTATCTTATATAGTATGTTGATA
9748280 GTCAATCAACTATATTCATTACATAAATATGAAA
196 GTCAATCAACTATATTCATTACATAAATATGAAA
9748314 TTATTTATATT
1 TTATTTATATT
9748325 ACAAAAATAT
Statistics
Matches: 235, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
228 3 0.01
229 232 0.99
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (229 bp):
TTATTTATATTTTTTTTAGTTTAAATAAAATATTATTAGTTTTTTTCCCGGATTAGTATATAACT
CGGGTATACGAAATACAGGGACTAATTGAGCCTATCTGACAGGCGCGACTAGTTGTGCCTAACTC
AGAGGCGCGAATGGTGGACCCCACTGCTGCTTCATTTTCCCCCTATCTTATATAGTATGTTGATA
GTCAATCAACTATATTCATTACATAAATATGAAA
Found at i:9752521 original size:56 final size:56
Alignment explanation
Indices: 9752448--9752555 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 56
9752438 CCAATTGCTC
* *
9752448 ATATCACATCACATTTTCATTTGTCAACTTTCTCCACTCCACCTCCTGTCCTACGT
1 ATATCACATCACATTTTCATTTGTCAACTTTCTCCACTCCACCACCTATCCTACGT
*
9752504 ATATCACATCACTTTTTCATTTGTCAACTTTCTCCACTCCACCACCTATCCT
1 ATATCACATCACATTTTCATTTGTCAACTTTCTCCACTCCACCACCTATCCT
9752556 CTGTACAACT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.22, C:0.36, G:0.04, T:0.38
Consensus pattern (56 bp):
ATATCACATCACATTTTCATTTGTCAACTTTCTCCACTCCACCACCTATCCTACGT
Found at i:9757128 original size:11 final size:9
Alignment explanation
Indices: 9757105--9757131 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9757095 TTTCAAAATC
9757105 CACACATTT
1 CACACATTT
9757114 CACACATTT
1 CACACATTT
9757123 CACACATTT
1 CACACATTT
9757132 GTCACAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (9 bp):
CACACATTT
Found at i:9757136 original size:20 final size:18
Alignment explanation
Indices: 9757105--9757146 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
9757095 TTTCAAAATC
9757105 CACACATTTCACACA-TTT
1 CACACATTTCACA-ATTTT
9757123 CACACATTTGTCACAATTTT
1 CACACA-TT-TCACAATTTT
9757143 CACA
1 CACA
9757147 TTTATCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (18 bp):
CACACATTTCACAATTTT
Found at i:9762312 original size:66 final size:65
Alignment explanation
Indices: 9762204--9762327 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 65
9762194 CTATAGTTGA
* *
9762204 AGTTCGTCATATTTTCTGCTTGCCTCTGCTTCCCTCGCTGCTGCATCCGCTTTAAGTTGTAGCTA
1 AGTTCGTCATATTTTCT-CTTGCCTCTACTTCCCTCGATGCTGCATCCGCTTTAAGTTGTAGCTA
9762269 G
65 G
* * * **
9762270 AGTTCTTCATATTTTCT-TTGAGCCTCTACTTCTCTCGATGCTGCCTTTGCTTTAAGTT
1 AGTTCGTCATATTTTCTCTT--GCCTCTACTTCCCTCGATGCTGCATCCGCTTTAAGTT
9762328 AAGCAATTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
64 2 0.04
66 47 0.96
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.44
Consensus pattern (65 bp):
AGTTCGTCATATTTTCTCTTGCCTCTACTTCCCTCGATGCTGCATCCGCTTTAAGTTGTAGCTAG
Found at i:9766081 original size:21 final size:21
Alignment explanation
Indices: 9766057--9766124 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
9766047 ACTAAATATT
9766057 AACTTTTATTACAAAGAACTA
1 AACTTTTATTACAAAGAACTA
* * * * ** *
9766078 AACTTTAAGTCCTATCAAAT-
1 AACTTTTATTACAAAGAACTA
*
9766098 ATCTTTTATTACAAAGAACTA
1 AACTTTTATTACAAAGAACTA
9766119 AACTTT
1 AACTTT
9766125 AAGTCCTATC
Statistics
Matches: 30, Mismatches: 16, Indels: 2
0.62 0.33 0.04
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (21 bp):
AACTTTTATTACAAAGAACTA
Found at i:9766110 original size:41 final size:41
Alignment explanation
Indices: 9766059--9766143 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
9766049 TAAATATTAA
9766059 CTTTTATTACAAAGAACTAAACTTTAAGTCCTATCAAATAT
1 CTTTTATTACAAAGAACTAAACTTTAAGTCCTATCAAATAT
9766100 CTTTTATTACAAAGAACTAAACTTTAAGTCCTATCAAATAT
1 CTTTTATTACAAAGAACTAAACTTTAAGTCCTATCAAATAT
9766141 CTT
1 CTT
9766144 AATGCTGGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.38
Consensus pattern (41 bp):
CTTTTATTACAAAGAACTAAACTTTAAGTCCTATCAAATAT
Found at i:9772298 original size:43 final size:43
Alignment explanation
Indices: 9772237--9772399 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 43
9772227 TCGATAACTA
* *
9772237 TTTTCGTGTAAGACCACGTCTGGAACATTAGCATCGACTTGTG
1 TTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTGTG
** *
9772280 TTTTCGTGTAAGACCACGTCTGGGATGTTGGAATCGACTTGTG
1 TTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTGTG
* * *
9772323 TTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATTGA-TCTGTG
1 TTTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGACT-TGTG
* * * * *
9772366 ATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TTTTCGTGTAAGACCACGTCTGGGACATTGGCAT
9772400 TGTACGAGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.02
43 96 0.97
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTGTG
Found at i:9782282 original size:43 final size:43
Alignment explanation
Indices: 9782221--9782384 Score: 201
Period size: 43 Copynumber: 3.8 Consensus size: 43
9782211 TTTCTGGTAA
* *
9782221 GTATTTTCATGTAAGACCACATCTGGGACGATGGCATCGGTTT
1 GTATTTTCATGTAAGACCACGTCTGGGACGATGGCATCGATTT
*
9782264 GTATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTT
1 GTATTTTCATGTAAGACCACGTCTGGGACGATGGCATCGATTT
* *
9782307 GTATTTTCGA-GTAAGACC-CTGTCTGAGAC-AGTGGTATCGATTT
1 GTATTTTC-ATGTAAGACCAC-GTCTGGGACGA-TGGCATCGATTT
* *
9782350 GCGA-TTACATGTAAGACCACGTCTGGGACGATGGC
1 G-TATTTTCATGTAAGACCACGTCTGGGACGATGGC
9782385 GTTGTATGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
42 3 0.03
43 98 0.94
44 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
GTATTTTCATGTAAGACCACGTCTGGGACGATGGCATCGATTT
Found at i:9786588 original size:15 final size:16
Alignment explanation
Indices: 9786568--9786600 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9786558 TTTGACATAG
9786568 ATAATAATATATA-AA
1 ATAATAATATATATAA
9786583 ATAATAATATATATAA
1 ATAATAATATATATAA
9786599 AT
1 AT
9786601 TTAAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATATATATAA
Found at i:9787176 original size:6 final size:6
Alignment explanation
Indices: 9787165--9787202 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
9787155 GACAATGGGA
* *
9787165 TCGCCG TCGCCG TCGCCG TTGCCG CCGCCG TCG-CG TCG
1 TCGCCG TCGCCG TCGCCG TCGCCG TCGCCG TCGCCG TCG
9787203 GCCACCGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.47, G:0.34, T:0.18
Consensus pattern (6 bp):
TCGCCG
Found at i:9788086 original size:44 final size:43
Alignment explanation
Indices: 9788008--9788859 Score: 165
Period size: 44 Copynumber: 19.9 Consensus size: 43
9787998 CGACCTCAGA
* * * *
9788008 TTTAATCCGAC-CCTCTGCAACGTCAAAG-GTATAGGATTCATCAT
1 TTTAATCCG-CTCCACTGCAACTTCAGAGAG-ATAGGATT-ATGAT
* *
9788052 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA-GTAGC
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATG-A-T
* * * * * * *
9788096 TTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGACT-GGA-
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
* * * * ** * *
9788137 TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAAATATGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATGAT
*
9788181 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-T-TGATT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGA-T
** * * ** * *
9788223 TCTTCTGTCTGCTCCACTACTGCTT-AGGGAGATAAGACTTA--A-
1 T-TT-AATCCGCTCCACTGCAACTTCAGAGAGATAGGA-TTATGAT
* * ** * * *
9788265 TGTGATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGA-
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TAT-GAT
* * *
9788309 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-GGTT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
** ** * ** * * *
9788351 TCTTCTGTCTACTCCACTACTGCTT-AGGGAGATAAGACT-TGA-
1 T-TT-AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
*** * * * * * *
9788393 TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATGAT
* * * * * * *
9788437 TTCAATCCGCTCCACTACAGCTTTAGGGAGATAGGATT-GGTTT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATG-AT
** * * * * *
9788480 TTTCTGTCTGCTCTACTGCAACTTCAGAGAGATAAGACT-GGA-
1 TTT-AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
*** * * * * * *
9788522 TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATGAT
* * * *
9788566 TTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATT-GGTTT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATG-AT
** * * ** * * *
9788609 CTTTTGTCTGCTCCACTACTGCTT-AGGGAGATAAGACT-TGA-
1 -TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
*** ** * * * *
9788650 TGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATGAT
* * *
9788694 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTA-GTT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
* ** * ** * * *
9788736 TCTTCTATCTACTCCACTACTGCTT-AGGGAGATAAGACT-TGA-
1 T-TT-AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
* * * * ** * * *
9788778 TGTGATCTGCTCTACTATAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATGAT
*
9788822 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATT
9788860 GGTTTCTTCT
Statistics
Matches: 584, Mismatches: 180, Indels: 89
0.68 0.21 0.10
Matches are distributed among these distances:
40 54 0.09
41 109 0.19
42 18 0.03
43 77 0.13
44 324 0.55
45 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (43 bp):
TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATGAT
Found at i:9788313 original size:128 final size:128
Alignment explanation
Indices: 9788051--9789080 Score: 1603
Period size: 128 Copynumber: 8.0 Consensus size: 128
9788041 GGATTCATCA
* ** * **
9788051 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTACAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
* * * * *
9788116 CTTCAGAGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAAATATGTGG
66 CTT-AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
*
9788180 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
* * *
9788245 CTTAGGGAGATAAGACTTAATGTGATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* *
9788308 ATTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
*
9788373 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGG
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* * * * * * * **
9788436 TTTCAATCCGCTCCACTACAGCTTTAGGGAGATAGGATTGGTTTTTTCTGTCTGCTCTACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
* * *
9788501 CTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGG
66 CTT-AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* *
9788565 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTGGTTTCTTTTGTCTGCTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
*
9788630 CTTAGGGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* * * *
9788693 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTATCTACTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
* **
9788758 CTTAGGGAGATAAGACTTGATGTGATCTGCTCTACTATAACTTCAGAGAGATAAGATCTGTGG
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
*
9788821 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG-TTCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
* * * *
9788885 CTTAGGGAGATAAAACTTGATGCTATCTGCTCTACTGTAACTTCAGAAAGATAAGATCTGTGG
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* *
9788948 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTCCTTCTGTCTGCTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
*
9789013 TTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
9789076 TTTTA
1 TTTTA
9789081 CTGATCTGTC
Statistics
Matches: 823, Mismatches: 76, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
127 119 0.14
128 528 0.64
129 176 0.21
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (128 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
Found at i:9788553 original size:257 final size:256
Alignment explanation
Indices: 9788051--9789080 Score: 1603
Period size: 257 Copynumber: 4.0 Consensus size: 256
9788041 GGATTCATCA
* ** * **
9788051 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTACAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
* * * * *
9788116 CTTCAGAGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAAATATGTGGT
66 CTT-AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
*
9788181 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACTGC
130 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGC
* * *
9788246 TTAGGGAGATAAGACTTAATGTGATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
195 TTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* *
9788308 ATTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
*
9788373 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTT
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT
* * * * * * * **
9788438 TCAATCCGCTCCACTACAGCTTTAGGGAGATAGGATTGGTTTTTTCTGTCTGCTCTACTGCAACT
131 TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCT
* * *
9788503 TCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGG
196 T-AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* *
9788565 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTGGTTTCTTTTGTCTGCTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
*
9788630 CTTAGGGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT
* * * *
9788695 TTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTATCTACTCCACTACTGCT
131 TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCT
* **
9788760 TAGGGAGATAAGACTTGATGTGATCTGCTCTACTATAACTTCAGAGAGATAAGATCTGTGG
196 TAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
*
9788821 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG-TTCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
* * * *
9788885 CTTAGGGAGATAAAACTTGATGCTATCTGCTCTACTGTAACTTCAGAAAGATAAGATCTGTGGTT
66 CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT
* * *
9788950 TTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTCCTTCTGTCTGCTCCACTACTGTT
131 TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCT
9789015 TAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
196 TAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
9789076 TTTTA
1 TTTTA
9789081 CTGATCTGTC
Statistics
Matches: 701, Mismatches: 71, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
255 190 0.27
256 220 0.31
257 291 0.42
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (256 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTG
CTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT
TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCT
TAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
Found at i:9788765 original size:385 final size:384
Alignment explanation
Indices: 9788055--9789080 Score: 1678
Period size: 385 Copynumber: 2.7 Consensus size: 384
9788045 TCATCATTTT
* ** *
9788055 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTACAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCT-CACTACAACTTC
* * * *
9788120 AGAGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAAATATGTGGTTTTA
65 AGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
*
9788185 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACTGCTTAG
130 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
* * *
9788250 GGAGATAAGACTTAATGTGATCTT-CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGATTTAA
195 GGAGATAAGACTTGATGCGAT-TTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
* *
9788314 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTTAGG
259 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTATCTACTCCACTACTGCTTAGG
*
9788379 GAGATAAGACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTC
324 GAGATAAGACTTGATGCGATCTGCTCTACTATAACTTCAGAGAGATAAGATCTGTGGTTTC
* * * * *
9788440 AATCCGCTCCACTACAGCTTTAGGGAGATAGGATTGGTTTTTTCTGTCTGCTCTACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTC-ACTACAACTTC
9788505 AGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
65 AGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
* *
9788570 ATCCGCTCCACTGCAACTTCAGGGAGATATGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAG
130 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
9788635 GGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAT
195 GGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAT
*
9788700 CTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTATCTACTCCACTACTGCTTAGGG
260 CCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTATCTACTCCACTACTGCTTAGGG
* *
9788765 AGATAAGACTTGATGTGATCTGCTCTACTATAACTTCAGAGAGATAAGATCTGTGGTTTT
325 AGATAAGACTTGATGCGATCTGCTCTACTATAACTTCAGAGAGATAAGATCTGTGGTTTC
* **
9788825 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGTTCACTACTGCTT-A
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCACTACAACTTCA
* * * * *
9788889 GGGAGATAAAACTTGATGCTATCTGCTCTACTGTAACTTCAGAAAGATAAGATCTGTGGTTTTAA
66 GAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA
* * *
9788954 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTCCTTCTGTCTGCTCCACTACTGTTTAGG
131 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGG
*
9789019 GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
196 GAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
9789081 CTGATCTGTC
Statistics
Matches: 595, Mismatches: 44, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
383 182 0.31
384 10 0.02
385 403 0.68
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (384 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCACTACAACTTCA
GAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA
TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGG
GAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
CGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTATCTACTCCACTACTGCTTAGGGA
GATAAGACTTGATGCGATCTGCTCTACTATAACTTCAGAGAGATAAGATCTGTGGTTTC
Found at i:9789362 original size:24 final size:24
Alignment explanation
Indices: 9789328--9789385 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
9789318 CAGATTGGCC
9789328 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
* *
9789352 CTACTGTAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAGGTTCAAT
9789376 CCACTGTAAT
1 CCACTGTAAT
9789386 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:9790378 original size:21 final size:20
Alignment explanation
Indices: 9790335--9790384 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
9790325 CTCCTTTTTC
9790335 TTTTCTTTTATTTTCTTCCT
1 TTTTCTTTTATTTTCTTCCT
*
9790355 TTTTCTTTTCATTTT-TTTCT
1 TTTTCTTTT-ATTTTCTTCCT
9790375 TTTT-TTTTAT
1 TTTTCTTTTAT
9790385 GAAACATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 4 0.14
20 17 0.61
21 5 0.18
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTTTATTTTCTTCCT
Found at i:9790382 original size:25 final size:25
Alignment explanation
Indices: 9790326--9790375 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
9790316 CCTTGGCCTC
*
9790326 TCCTTTTTCTTTTCTTTTATTTTCT
1 TCCTTTTTCTTTTCATTTATTTTCT
9790351 TCCTTTTTCTTTTCATTT-TTTTCT
1 TCCTTTTTCTTTTCATTTATTTTCT
9790375 T
1 T
9790376 TTTTTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (25 bp):
TCCTTTTTCTTTTCATTTATTTTCT
Found at i:9792097 original size:23 final size:22
Alignment explanation
Indices: 9792054--9792097 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
9792044 TTTCAAGTCA
9792054 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
9792077 ATATTCATCATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
9792098 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:9792229 original size:23 final size:23
Alignment explanation
Indices: 9792197--9792310 Score: 156
Period size: 23 Copynumber: 5.0 Consensus size: 23
9792187 TAAGTGCCAC
*
9792197 ACTGATATGTAGCCGAAGCTACA
1 ACTGAAATGTAGCCGAAGCTACA
* * *
9792220 ATTGAAATGTAGTCGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACA
* *
9792243 ACTGATATGTAGCCGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACA
*
9792266 ACTGAAAAGTAGCCGAAGCTACA
1 ACTGAAATGTAGCCGAAGCTACA
*
9792289 ACTGATATGTAGCCGAAGCTAC
1 ACTGAAATGTAGCCGAAGCTAC
9792311 CACTAGTCAA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 79 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (23 bp):
ACTGAAATGTAGCCGAAGCTACA
Found at i:9792311 original size:46 final size:46
Alignment explanation
Indices: 9792197--9792314 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
9792187 TAAGTGCCAC
* * * * *
9792197 ACTGATATGTAGCCGAAGCTACAATTGAAATGTAGTCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACCACTGAAAAGTAGCCGAAGCTACA
9792243 ACTGATATGTAGCCGAAGCTACCACTGAAAAGTAGCCGAAGCTACA
1 ACTGATATGTAGCCGAAGCTACCACTGAAAAGTAGCCGAAGCTACA
9792289 ACTGATATGTAGCCGAAGCTACCACT
1 ACTGATATGTAGCCGAAGCTACCACT
9792315 AGTCAATAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (46 bp):
ACTGATATGTAGCCGAAGCTACCACTGAAAAGTAGCCGAAGCTACA
Found at i:9795007 original size:49 final size:47
Alignment explanation
Indices: 9794952--9795077 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 47
9794942 GTTTTCACAT
* *
9794952 TGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAACTATGGTCTTACACGGAATCACATATCACA-A-CGA
* * *
9795001 TGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACAATGA
1 TGCCATAGTCCAACTATGGTCTTACACGGAATCACATATCACAACGA
* *
9795048 TGTCATATTCCAGA-TATGGTCTTACACGGA
1 TGCCATAGTCCA-ACTATGGTCTTACACGGA
9795078 GATTTCATAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 27 0.40
48 1 0.01
49 39 0.58
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (47 bp):
TGCCATAGTCCAACTATGGTCTTACACGGAATCACATATCACAACGA
Found at i:9796899 original size:31 final size:32
Alignment explanation
Indices: 9796863--9796927 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
9796853 CTTAGATAAT
9796863 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
9796894 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
9796926 TT
1 TT
9796928 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:9800721 original size:31 final size:32
Alignment explanation
Indices: 9800685--9800749 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
9800675 CTTAGATAAT
9800685 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
9800716 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
9800748 TT
1 TT
9800750 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:9801318 original size:17 final size:16
Alignment explanation
Indices: 9801289--9801364 Score: 77
Period size: 16 Copynumber: 4.9 Consensus size: 16
9801279 TTCTTTAAAT
9801289 AAAAAAAA--AAAAAA
1 AAAAAAAAGCAAAAAA
*
9801303 AAAAAACAGCAAAAAA
1 AAAAAAAAGCAAAAAA
9801319 AAAAAAAAGC-AAAAA
1 AAAAAAAAGCAAAAAA
**** *
9801334 GCGCAAAAGAAAAAAA
1 AAAAAAAAGCAAAAAA
9801350 AAAAAAAAGCAAAAA
1 AAAAAAAAGCAAAAA
9801365 GCGCAAAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
14 7 0.15
15 10 0.21
16 30 0.64
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGCAAAAAA
Found at i:9801323 original size:25 final size:24
Alignment explanation
Indices: 9801289--9801364 Score: 93
Period size: 25 Copynumber: 3.2 Consensus size: 24
9801279 TTCTTTAAAT
9801289 AAAAAAAAAAAAAAAAAAAACAGCA
1 AAAAAAAAAAAAAAAAAAAAC-GCA
* *
9801314 AAAAAAAAAAAAAGCAAAAAGCGC-
1 AAAAAAAAAAAAA-AAAAAAACGCA
*
9801338 AAAAGAAAAAAAAAAAAAAA-GCA
1 AAAAAAAAAAAAAAAAAAAACGCA
9801361 AAAA
1 AAAA
9801365 GCGCAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 2 0.05
23 9 0.20
24 12 0.27
25 15 0.34
26 6 0.14
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAAAAACGCA
Found at i:9801333 original size:31 final size:31
Alignment explanation
Indices: 9801290--9801379 Score: 55
Period size: 31 Copynumber: 3.0 Consensus size: 31
9801280 TCTTTAAATA
*
9801290 AAAAAAAAAAAAAAA--AAAACAGCAAAAAA-
1 AAAAAAAAAAAAAAAGCAAAA-AGAAAAAAAG
** *
9801319 AAAAAAAAGCAAAAAGCGCAAAAGAAAAAAA-
1 AAAAAAAAAAAAAAAGC-AAAAAGAAAAAAAG
** **
9801350 AAAAAAAAGCAAAAAGCGCAAA-AAAAAAAG
1 AAAAAAAAAAAAAAAGCAAAAAGAAAAAAAG
9801380 TTGCCTACCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 20 0.39
30 3 0.06
31 25 0.49
32 3 0.06
ACGTcount: A:0.81, C:0.09, G:0.10, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAAAAAAAGCAAAAAGAAAAAAAG
Found at i:9804530 original size:31 final size:32
Alignment explanation
Indices: 9804494--9804557 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9804484 TTAGATAATC
9804494 TTAAAGAG-TTTTATTAGGATTCAATTACTCT
1 TTAAAGAGTTTTTATTAGGATTCAATTACTCT
9804525 TTAAAGAGTTTTTATTAGGATTCAATTACTCT
1 TTAAAGAGTTTTTATTAGGATTCAATTACTCT
9804557 T
1 T
9804558 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (32 bp):
TTAAAGAGTTTTTATTAGGATTCAATTACTCT
Found at i:9805116 original size:9 final size:9
Alignment explanation
Indices: 9805098--9805198 Score: 55
Period size: 9 Copynumber: 11.2 Consensus size: 9
9805088 CTTATTCTTT
9805098 AAAAAA-AA
1 AAAAAAGAA
9805106 AAAAAAGAAA
1 AAAAAAG-AA
9805116 AAAAACAGCAA
1 AAAAA-AG-AA
* *
9805127 AAACAACAA
1 AAAAAAGAA
*
9805136 AAAAAAGCA
1 AAAAAAGAA
* *
9805145 AAAAACGCA
1 AAAAAAGAA
*
9805154 AAAGAA-AA
1 AAAAAAGAA
*
9805162 AAATAA-AA
1 AAAAAAGAA
*
9805170 AAAAAAGCA
1 AAAAAAGAA
** *
9805179 AAAAGCGCA
1 AAAAAAGAA
9805188 AAAAAAGAA
1 AAAAAAGAA
9805197 AA
1 AA
9805199 GTTGCCTACC
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
8 19 0.27
9 36 0.51
10 8 0.11
11 8 0.11
ACGTcount: A:0.80, C:0.10, G:0.09, T:0.01
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:9805128 original size:19 final size:18
Alignment explanation
Indices: 9805098--9805182 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
9805088 CTTATTCTTT
9805098 AAAAAAAA--AAAAAAGA-
1 AAAAAAAAGCAAAAAA-AC
9805114 AAAAAAACAGCAAAAACAAC
1 AAAAAAA-AGCAAAAA-AAC
*
9805134 AAAAAAAAGCAAAAAACGC
1 AAAAAAAAGCAAAAAA-AC
* *
9805153 AAAAGAAA--AAAATAA-
1 AAAAAAAAGCAAAAAAAC
9805168 AAAAAAAAGCAAAAA
1 AAAAAAAAGCAAAAA
9805183 GCGCAAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
15 7 0.13
16 7 0.13
17 10 0.18
18 1 0.02
19 22 0.40
20 8 0.15
ACGTcount: A:0.82, C:0.09, G:0.07, T:0.01
Consensus pattern (18 bp):
AAAAAAAAGCAAAAAAAC
Found at i:9805163 original size:34 final size:34
Alignment explanation
Indices: 9805125--9805198 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
9805115 AAAAAACAGC
*
9805125 AAAAACAACAAAAAAAAGCAAAAAACGCAAAAGAA
1 AAAAATAA-AAAAAAAAGCAAAAAACGCAAAAGAA
*
9805160 AAAAATAAAAAAAAAAGCAAAAAGCGCAAAA-AA
1 AAAAATAAAAAAAAAAGCAAAAAACGCAAAAGAA
9805193 AGAAAA
1 A-AAAA
9805199 GTTGCCTACC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 3 0.08
34 26 0.72
35 7 0.19
ACGTcount: A:0.78, C:0.11, G:0.09, T:0.01
Consensus pattern (34 bp):
AAAAATAAAAAAAAAAGCAAAAAACGCAAAAGAA
Found at i:9805190 original size:19 final size:18
Alignment explanation
Indices: 9805114--9805193 Score: 62
Period size: 20 Copynumber: 4.4 Consensus size: 18
9805104 AAAAAAAAGA
*
9805114 AAAAAAACAGCAAAAACAAC
1 AAAAAAA-AGCAAAAAC-GC
9805134 AAAAAAAAGCAAAAAACGC
1 AAAAAAAAGC-AAAAACGC
9805153 AAAAGAAAA--AAATAA---
1 AAAA-AAAAGCAAA-AACGC
9805168 AAAAAAAAGCAAAAAGCGC
1 AAAAAAAAGCAAAAA-CGC
9805187 AAAAAAA
1 AAAAAAA
9805194 GAAAAGTTGC
Statistics
Matches: 50, Mismatches: 1, Indels: 19
0.71 0.01 0.27
Matches are distributed among these distances:
14 4 0.08
15 6 0.12
16 3 0.06
17 3 0.06
18 2 0.04
19 15 0.30
20 17 0.34
ACGTcount: A:0.78, C:0.12, G:0.09, T:0.01
Consensus pattern (18 bp):
AAAAAAAAGCAAAAACGC
Found at i:9808350 original size:31 final size:32
Alignment explanation
Indices: 9808314--9808378 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
9808304 CTTAGATAAT
9808314 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
9808345 TTTAAAGAGTTTTTTTTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
9808377 TT
1 TT
9808379 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.49
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:9808690 original size:4 final size:4
Alignment explanation
Indices: 9808681--9808711 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
9808671 ATCTATCCTT
9808681 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9808712 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:9809355 original size:37 final size:37
Alignment explanation
Indices: 9809291--9809362 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
9809281 TTTTCATAAT
*
9809291 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
9809328 TTCAC-TTTTCTA-TTTTAAGTCAATATTCAATTCAA
1 TTCACTTTTTC-ACTTTTAA-TCAATATTCAATTCAA
9809363 TTCCACGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 11 0.34
37 21 0.66
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.47
Consensus pattern (37 bp):
TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
Done.