Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 140 of 172
Found at i:46202356 original size:46 final size:44
Alignment explanation
Indices: 46202252--46202359 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
46202242 TATCTTTGAC
** * * *
46202252 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
46202296 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
46202342 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
46202360 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:46209068 original size:11 final size:11
Alignment explanation
Indices: 46209013--46209067 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
46209003 TCAATATAAT
*
46209013 AGCAAAATAAC
1 AGCAAAACAAC
*
46209024 AGCAAAACACC
1 AGCAAAACAAC
*
46209035 AGCAAAACAAT
1 AGCAAAACAAC
*
46209046 AGTAAAA-AAC
1 AGCAAAACAAC
*
46209056 AACAAAACAAC
1 AGCAAAACAAC
46209067 A
1 A
46209068 ATAGGGAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 7 0.20
11 28 0.80
ACGTcount: A:0.65, C:0.22, G:0.07, T:0.05
Consensus pattern (11 bp):
AGCAAAACAAC
Found at i:46212800 original size:25 final size:25
Alignment explanation
Indices: 46212772--46212880 Score: 75
Period size: 24 Copynumber: 4.4 Consensus size: 25
46212762 AGCTCTTTCA
46212772 AGCCATATAACAGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATAAG
** *
46212797 AGCC--ATAATTGGAAAGCTCATACG
1 AGCCATATAACAGG-AAGCTCATAAG
* * *
46212821 AGCCAT-TATCGGGTAGCTC-TAGAG
1 AGCCATATAACAGGAAGCTCATA-AG
*
46212845 AGCCAT-TAATCAGGAAGCTCATGAAAA
1 AGCCATATAA-CAGGAAGCTCAT--AAG
46212872 AGCCATATA
1 AGCCATATA
46212881 TTGGGAAGCT
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
23 8 0.13
24 28 0.44
25 16 0.25
26 1 0.02
27 7 0.11
28 3 0.05
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATAAG
Found at i:46212838 original size:24 final size:24
Alignment explanation
Indices: 46212784--46212891 Score: 92
Period size: 24 Copynumber: 4.3 Consensus size: 24
46212774 CCATATAACA
* *
46212784 GGAAGCTCATAAGAGCCATAATTG
1 GGAAGCTCATAAGAGCCATTATCG
* *
46212808 GAAAGCTCATACGAGCCATTATCG
1 GGAAGCTCATAAGAGCCATTATCG
* *
46212832 GGTAGCTC-TAGAGAGCCATTAATCA
1 GGAAGCTCATA-AGAGCCATT-ATCG
* *
46212857 GGAAGCTCATGAAAAAGCCATATATTG
1 GGAAGCTCAT--AAGAGCCAT-TATCG
46212884 GGAAGCTC
1 GGAAGCTC
46212892 CGGAGAGCCA
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.03
24 34 0.52
25 10 0.15
26 1 0.02
27 17 0.26
28 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATTATCG
Found at i:46213068 original size:24 final size:24
Alignment explanation
Indices: 46213017--46213078 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
46213007 ATATTAGGAA
* * * *
46213017 GCTCATGAGATCCAATATCGAGAT
1 GCTCATGAGAGCTAATAACGAGAC
*
46213041 GCTCATGAGAGCTAATAACGGGAC
1 GCTCATGAGAGCTAATAACGAGAC
* *
46213065 GCTCTTGTGAGCTA
1 GCTCATGAGAGCTA
46213079 TGGTGTGTCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (24 bp):
GCTCATGAGAGCTAATAACGAGAC
Found at i:46217560 original size:131 final size:131
Alignment explanation
Indices: 46217286--46217894 Score: 475
Period size: 131 Copynumber: 4.6 Consensus size: 131
46217276 GATGTTTGGC
* * * *
46217286 AATTCGCAGAATCGTGCCCTAACGTGTTGGGTTACAATTTCGCATTTGCTCAAAATAATCGAATA
1 AATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATA
* * * * *
46217351 TCACTTCAAAATTTCACTCAT-GTCTTTTAAAAATCCCTTAAACGAAGGCGAT-ATGCGATATTT
66 TCCCTTCAAAATTTCACTC-TGGTCTTTTAAAAATCCTTTAAACGAAGGCAATAAT-CGGTGTTT
**
46217414 GGC
129 GAT
** * * * * *
46217417 AATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATA
1 AATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATA
* *
46217482 TCCCTTCAAAATTTCACTCTGGTCTTCTAAAAATCCTTTAAAGGGAAGGCAATAATCGGTGTTTG
66 TCCCTTCAAAATTTCACTCTGGTCTTTTAAAAATCCTTTAAA-CGAAGGCAATAATCGGTGTTTG
46217547 AT
130 AT
* * ** ** *
46217549 AATTCG-AGAATCATGCCCTATCGTACTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATA
1 AATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATA
* * *** * * *
46217613 TTCCTTTAGGTTTTCACTC-GTGT-TTATTAAAAA-CCTTCCAAAACGAAGACAATACTCGGTGT
66 TCCCTTCAAAATTTCACTCTG-GTCTT-TTAAAAATCCTT--TAAACGAAGGCAATAATCGGTGT
46217675 TTGAT
127 TTGAT
* * ** * * *
46217680 AATTCG-GGAATCGTGCCCGAACGTGTTGGGTTGTGATTTCTCGTTTTTTTCAAAACAATCGAAG
1 AATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTC-ATTTGTTCAAAACAATCGAAT
* ** * * ** *
46217744 ATTCCTTCAAAATTTCACTCACGT-TTATTAAAAA-CCTTTCAAAACGAATGCGATGTTCGATGT
65 ATCCCTTCAAAATTTCACTCTGGTCTT-TTAAAAATCCTTT--AAACGAAGGCAATAATCGGTGT
**
46217807 TTGGC
127 TTGAT
* * * * * ** * *
46217812 GATTTG-AGAATCGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTT-AAAACAATCGAAG
1 AATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTG-TTCAAAACAATCGAAT
*
46217875 ATCCCTTCGAAATTTCACTC
65 ATCCCTTCAAAATTTCACTC
46217895 GTATTTTCTA
Statistics
Matches: 389, Mismatches: 77, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
130 8 0.02
131 252 0.65
132 127 0.33
133 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (131 bp):
AATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATA
TCCCTTCAAAATTTCACTCTGGTCTTTTAAAAATCCTTTAAACGAAGGCAATAATCGGTGTTTGA
T
Found at i:46217893 original size:263 final size:261
Alignment explanation
Indices: 46217247--46217896 Score: 602
Period size: 263 Copynumber: 2.5 Consensus size: 261
46217237 TCATTCATTC
* * * *
46217247 AAAAATTC-TTCAAAACGAAGACGA-GATTTGATGTTTGGCAATTCGCAGAATCGTGCCCTAACG
1 AAAAATCCTTTCAAAACGAAG-CGATG-TTCGATGTTTGGCAATTCG-AGAATCGAGCCCTATCG
* * * * * * * *
46217310 TGTTGGGTTACAATTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTC
63 TGCTGGGTTGCGATTTCTCATTTGCTTAAAACAATCGAATATCCCTTCAAAATTTCACTCGTGTC
* * * *
46217375 TTTTAAAAATCCCTTAAACGAAGGCGATATGCGATATTTGGCAATTCGTGGAATCGTGCCCTAAC
128 TTTTAAAAA-CCCTTAAACGAAGACAATATGCGATATTTGACAATTCGTGGAATCGTGCCCGAAC
* * **
46217440 GTGTTAGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCTGGT
192 GTGTTAGGTTGCAATTTCCCATTTGTTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGT
46217505 CTTCT
257 CTTCT
** * ** * **
46217510 AAAAATCCTTT-AAAGGGAAGGCAATAATCGGTGTTTGATAATTCGAGAATC-ATGCCCTATCGT
1 AAAAATCCTTTCAAAACGAA-GCGATGTTCGATGTTTGGCAATTCGAGAATCGA-GCCCTATCGT
* * * * * ***
46217573 ACTGGGTTGTGATTTCTCGTTTG-TTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCGTGT-
64 GCTGGGTTGCGATTTCTCATTTGCTT-AAAACAATCGAATATCCCTTCAAAATTTCACTCGTGTC
* * *
46217636 TTATTAAAAA-CCTTCCAAAACGAAGACAATACT-CGGTGTTTGATAATTCG-GGAATCGTGCCC
128 TT-TTAAAAACCCTT---AAACGAAGACAATA-TGCGATATTTGACAATTCGTGGAATCGTGCCC
* ** * * * * *
46217698 GAACGTGTTGGGTTGTGATTTCTCGTTTTTTTCAAAACAATCGAAGATTCCTTCAAAATTTCACT
188 GAACGTGTTAGGTTGCAATTTCCCATTTGTTT-AAAACAATCAAAGATCCCTTCAAAATTTCACT
*
46217763 CACGT-TTATT
252 CACGTCTT-CT
* *
46217773 AAAAA-CCTTTCAAAACGAATGCGATGTTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTG
1 AAAAATCCTTTCAAAACGAA-GCGATGTTCGATGTTTGGCAATTCGAGAATCGAGCCCTATCGTG
* * * *
46217837 CTGGGTTGCGCTTTTTCATTTGCTTAAAACAATCGAAGATCCCTTCGAAATTTCACTCGT
65 CTGGGTTGCGATTTCTCATTTGCTTAAAACAATCGAATATCCCTTCAAAATTTCACTCGT
46217897 ATTTTCTAAG
Statistics
Matches: 301, Mismatches: 71, Indels: 30
0.75 0.18 0.07
Matches are distributed among these distances:
260 4 0.01
261 3 0.01
262 111 0.37
263 176 0.58
264 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (261 bp):
AAAAATCCTTTCAAAACGAAGCGATGTTCGATGTTTGGCAATTCGAGAATCGAGCCCTATCGTGC
TGGGTTGCGATTTCTCATTTGCTTAAAACAATCGAATATCCCTTCAAAATTTCACTCGTGTCTTT
TAAAAACCCTTAAACGAAGACAATATGCGATATTTGACAATTCGTGGAATCGTGCCCGAACGTGT
TAGGTTGCAATTTCCCATTTGTTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGTCTTC
T
Found at i:46219880 original size:23 final size:23
Alignment explanation
Indices: 46219836--46219880 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
46219826 TTTTGTTGTT
* * * *
46219836 TAAATCAGGTTTATATTTATTTA
1 TAAATCAGATTTAAACTGATTTA
46219859 TAAATCAGATTTAAACTGATTT
1 TAAATCAGATTTAAACTGATTT
46219881 GCAATCTAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (23 bp):
TAAATCAGATTTAAACTGATTTA
Found at i:46232636 original size:45 final size:44
Alignment explanation
Indices: 46232455--46232914 Score: 132
Period size: 45 Copynumber: 10.4 Consensus size: 44
46232445 TGTTTCCCTG
*
46232455 AAGTTGCAGTGAAGTAGATCGAAGACGGCGGATCTTGACTTCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTG-CTTCCTA
* ** ** ** * * *
46232500 AAGTTACAGTGAAGCAGATTTAAG-CCACCAACCTAGCTCCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTGCTTCCTA
* * * **** * *
46232543 AAGTTGTAGT-AGAGCAGGTTGAA-ATTTTAGG-TCTTGTTTCCCTG
1 AAGTTGCAGTGA-AGCAGATCGAAGA-CGGCGGATCTTGCTT-CCTA
46232587 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTGACTTCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTG-CTTCCTA
* ** ** ** * * *
46232632 AAGTTACAGTGAAGCAGATTTAAG-CCACCAACCTAGCTCCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTGCTTCCTA
* * * * * ***** *
46232675 AAGTTGTAGTGAAGTAG-GCTAAAATTTTATG-TCTTGTTTCCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGA-CGGCGGATCTTGCTT-CCTA
* * * *
46232719 GAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTG
1 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTT-GCTTCCTA
** ** ** * * *
46232764 AAGTTGCAGTGAAGCAGATTTAAG-CTACCAACCTAGCTACCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTGCTTCCTA
* * * * **** * *
46232807 AAGTTGTAGTGGAGTAG-GCTGAA-ATTTTAGG-TCTTGTTTCTCTG
1 AAGTTGCAGTGAAGCAGATC-GAAGA-CGGCGGATCTTGCTTC-CTA
* * *
46232851 AAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTG
1 AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTT-GCTTCCTA
46232896 AAGTTGCAGTGAAGCAGAT
1 AAGTTGCAGTGAAGCAGAT
46232915 TTAAGCCACC
Statistics
Matches: 282, Mismatches: 111, Indels: 44
0.65 0.25 0.10
Matches are distributed among these distances:
42 4 0.01
43 78 0.28
44 80 0.28
45 111 0.39
46 9 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTGCTTCCTA
Found at i:46233029 original size:45 final size:45
Alignment explanation
Indices: 46232980--46233175 Score: 134
Period size: 45 Copynumber: 4.4 Consensus size: 45
46232970 TCTTGTTTCT
46232980 CTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTC
1 CTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTC
** * ** * * *
46233025 CTGAAGTTGCAGTGAAGCAGATTTAAGCCACT-AA-CCTAGCTCC
1 CTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTC
* * * * * ** * * *
46233068 CTAAAGTTGTAGTGGAGTAG-GCTGAA-A-TTTTAGGTCTT-GTTTCC
1 CTGAAGTTGCAGTGAAGCAGATC-GAAGACGGTGA-ATCTTGGCTT-C
* *
46233112 CTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGACTTC
1 CTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTC
*
46233157 TTGAAGTTGCAGTGAAGCA
1 CTGAAGTTGCAGTGAAGCA
46233176 TATTTAAGCG
Statistics
Matches: 107, Mismatches: 35, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 26 0.24
44 24 0.22
45 52 0.49
46 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (45 bp):
CTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTC
Found at i:46233220 original size:132 final size:132
Alignment explanation
Indices: 46232181--46233207 Score: 1653
Period size: 132 Copynumber: 7.8 Consensus size: 132
46232171 CTACAGATCG
* * * * *
46232181 TGTTTCCCTGAAGTTACAGCGAAGCAGGTCAAAGACGGAGAATCTTGGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * *
46232246 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGAAGTAGGCTAAAATTTTATGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
46232311 CT
131 CT
*
46232313 TGTTTCCCT-AGAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAG
1 TGTTTCCCTGA-AGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAG
* *
46232377 TGAAGCAGATTTAAGCCACAAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGG
65 TGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGG
46232442 TCT
130 TCT
* * * * *
46232445 TGTTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGCGGATCTTGACTTCCTAAAGTTACAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * *
46232510 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAGCAGGTTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
46232575 CT
131 CT
* * * *
46232577 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGGATCTTGACTTCCTAAAGTTACAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * *
46232642 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGAAGTAGGCTAAAATTTTATGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
46232707 CT
131 CT
*
46232709 TGTTTCCCT-AGAGTTGCAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAG
1 TGTTTCCCTGA-AGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAG
* *
46232773 TGAAGCAGATTTAAGCTACCAACCTAGCTACCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGG
65 TGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGG
46232838 TCT
130 TCT
* *
46232841 TGTTTCTCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
*
46232906 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAGTAGGCTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
46232971 CT
131 CT
* *
46232973 TGTTTCTCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
*
46233038 GAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
46233103 CT
131 CT
* *
46233105 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGACTTCTTGAAGTTGCAGT
1 TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * * *
46233170 GAAGCATATTTAAGCGACTAACCTAGCTCTCTAAAGTT
66 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTT
46233208 ATAGCGGGGT
Statistics
Matches: 841, Mismatches: 50, Indels: 8
0.94 0.06 0.01
Matches are distributed among these distances:
131 2 0.00
132 837 1.00
133 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
TGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGGT
CT
Found at i:46233623 original size:25 final size:26
Alignment explanation
Indices: 46233589--46233637 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
46233579 CTGGCCCGAG
*
46233589 CAAACAAAACCA-AAAACCAAAAAAA
1 CAAACAAAACAAGAAAACCAAAAAAA
*
46233614 CAAACAAAACAAGAAAATCAAAAA
1 CAAACAAAACAAGAAAACCAAAAA
46233638 TATTATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.76, C:0.20, G:0.02, T:0.02
Consensus pattern (26 bp):
CAAACAAAACAAGAAAACCAAAAAAA
Found at i:46236230 original size:131 final size:131
Alignment explanation
Indices: 46236078--46236562 Score: 421
Period size: 131 Copynumber: 3.7 Consensus size: 131
46236068 AGATTTGATG
* *
46236078 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAATAAT
* *
46236143 CGAATATCACTTCAAAATTTCACTCATG-TCTTTTAAAAATCCCTT-AAACAAAGGCGATA-TGC
65 CGAATATCACTTCAAAATTTCACTCA-GATCTTCTAAAAATCCCTTAAAACAAAGGCAATACT-C
46236205 GATA
128 GATA
* *
46236209 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAAATAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAATAAT
* * * * * *
46236274 CAAATATCCCTTCAAAATTTCACTCAGATCTTCTAAAAATCCTTTAAAACGAATGCAATACTCGG
65 CGAATATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCCTTAAAACAAAGGCAATACTCGA
*
46236339 TG
130 TA
** * * * * ** **
46236341 TTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTTGTTTGTTCAAAATAATC
1 TTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAATAATC
* *** * * * *
46236406 GAATATTC-CTTTAGGTTTTCACTC-G-TGTT-TATTAAAA-ACCTTCCAAAACGAAGACAATAC
66 GAATA-TCACTTCAAAATTTCACTCAGATCTTCTA--AAAATCCCTT--AAAACAAAGGCAATAC
* *
46236466 TCGGTG
126 TCGATA
** * ** * * *
46236472 TTTGATAATTCGGGAATCGTGCCCTAACGTCTTGGGTTGTGATTTCTCGTTTTTTTCAAAACAAT
1 TTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCG-TTTGTTCAAAATAAT
* *
46236537 CAAAGTTTC-CTTCAAAATTTCACTCA
65 CGAA-TATCACTTCAAAATTTCACTCA
46236563 CGTTTATTAA
Statistics
Matches: 293, Mismatches: 50, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
128 2 0.01
129 6 0.02
130 6 0.02
131 221 0.75
132 56 0.19
133 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (131 bp):
TTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAATAATC
GAATATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCCTTAAAACAAAGGCAATACTCGAT
A
Found at i:46236691 original size:263 final size:263
Alignment explanation
Indices: 46236215--46236694 Score: 598
Period size: 263 Copynumber: 1.8 Consensus size: 263
46236205 GATATTTGGC
* *
46236215 AATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATA
1 AATTCGTGGAATCGTGCCCTAACGTCTTGGGTTGCAATTTCCCATTTGTTTAAAACAATCAAATA
* *
46236280 TCCCTTCAAAATTTCACTCAGATCTTCTAAAAATCCTTTAAAACGAATGCAATACTCGGTGTTTG
66 TCCCTTCAAAATTTCACTCAGATCTTCTAAAAATCCTTTAAAACGAAGGCAATACTCGATGTTTG
* * * * *
46236345 ATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTTGTTTGTTCAAAATAATCGAAT
131 ATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTTATTTGCTCAAAACAATCGAAG
* *
46236410 ATTCCTTTAGGTTTTCACTCGTGTTTATTAAAAACCTTCCAAAACGAAGACAATACTCGGTGTTT
196 ATTCCCTTAGGATTTCACTCGTGTTTATTAAAAACCTTCCAAAACGAAGACAATACTCGGTGTTT
46236475 GAT
261 GAT
** * * *
46236478 AATTCG-GGAATCGTGCCCTAACGTCTTGGGTTGTGATTTCTCGTTTTTTTCAAAACAATCAAAG
1 AATTCGTGGAATCGTGCCCTAACGTCTTGGGTTGCAATTTCCCATTTGTTT-AAAACAATCAAA-
* * * **
46236542 T-TTCCTTCAAAATTTCACTCACG-T-TTATTAAAAA-CCTTTCAAAACGAAGGCGATGTTCGAT
64 TATCCCTTCAAAATTTCACTCA-GATCTT-CTAAAAATCCTTT-AAAACGAAGGCAATACTCGAT
* * * *
46236603 GTTTGGTGATTTGAGAATCGA-GCCCTATCGTGCTGGGTTGCGCTTT-TTCATTTGCTCAAAACA
126 GTTTGATAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTGCGATTTCTT-ATTTGCTCAAAACA
*
46236666 ATCGAAGA-TCCCTTCGGAATTTCACTCGT
189 ATCGAAGATTCCCTTAGG-ATTTCACTCGT
46236695 ATTTTCTAAG
Statistics
Matches: 183, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
262 54 0.30
263 126 0.69
264 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (263 bp):
AATTCGTGGAATCGTGCCCTAACGTCTTGGGTTGCAATTTCCCATTTGTTTAAAACAATCAAATA
TCCCTTCAAAATTTCACTCAGATCTTCTAAAAATCCTTTAAAACGAAGGCAATACTCGATGTTTG
ATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTTATTTGCTCAAAACAATCGAAG
ATTCCCTTAGGATTTCACTCGTGTTTATTAAAAACCTTCCAAAACGAAGACAATACTCGGTGTTT
GAT
Found at i:46240702 original size:39 final size:39
Alignment explanation
Indices: 46240659--46240782 Score: 223
Period size: 39 Copynumber: 3.2 Consensus size: 39
46240649 TGAAATCTAG
46240659 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
46240698 CTGAAGCACATAAGTGCTAAACGGAAGCCC-AGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGA-AGGCTAA
*
46240737 CTGAAGCACATAAGTGCTAAACGGAAGCCTGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
46240776 CTGAAGC
1 CTGAAGC
46240783 TCATCAGAGC
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 1 0.01
39 80 0.98
40 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
Found at i:46253872 original size:100 final size:97
Alignment explanation
Indices: 46253754--46253947 Score: 325
Period size: 100 Copynumber: 2.0 Consensus size: 97
46253744 ATTGAAGAAA
* * *
46253754 GCTTTGGTACTATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTTAAAACTC
1 GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTCAAAACGC
46253819 AAAGGAATACGAACTTAGAATAATAGAAAAAAAAT
66 AAAGG-A-A-GAACTTAGAATAATAGAAAAAAAAT
*
46253854 GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACATAATGAAACTCAAAACGC
1 GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTCAAAACGC
46253919 AAAGGAAGAACTTAGAATAATAGAAAAAA
66 AAAGGAAGAACTTAGAATAATAGAAAAAA
46253948 TTGGTACATT
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
97 22 0.24
98 1 0.01
99 1 0.01
100 66 0.73
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.22
Consensus pattern (97 bp):
GCTTTGGTACCATGTGAAGATTCAAAGATAACAAATATACAAATACACAATGAAACTCAAAACGC
AAAGGAAGAACTTAGAATAATAGAAAAAAAAT
Found at i:46260821 original size:48 final size:47
Alignment explanation
Indices: 46260769--46260909 Score: 135
Period size: 51 Copynumber: 2.9 Consensus size: 47
46260759 ACCTTAAACG
46260769 GTTTTAT-TACATATTATTTTAAATTATTTTACATATTACTTATTTTAA
1 GTTTTATATACATATTATTTTAAA-TATTTTACATATTA-TTATTTTAA
*
46260817 GTTTTTTATATACATTATTTATTTTAAA-CTTTTACATATTATATATTTTAA
1 G--TTTTATATACA-TA-TTATTTTAAATATTTTACATATTAT-TATTTTAA
* * *
46260868 G-TTTATGTACATAATGTAGTTTAAACTATTTTATATATTATT
1 GTTTTATATACAT-AT-TATTTTAAA-TATTTTACATATTATT
46260910 TCTTTTAAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
47 2 0.03
48 19 0.24
49 1 0.01
50 19 0.24
51 25 0.32
52 2 0.03
53 10 0.13
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (47 bp):
GTTTTATATACATATTATTTTAAATATTTTACATATTATTATTTTAA
Found at i:46260827 original size:23 final size:25
Alignment explanation
Indices: 46260781--46260836 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
46260771 TTTATTACAT
46260781 ATTATTTTAAATTATTTTACATATTAC
1 ATTATTTTAAATTATTTTA-ATA-TAC
*
46260808 -TTATTTTAAGTT-TTTT-ATATAC
1 ATTATTTTAAATTATTTTAATATAC
46260830 ATTATTT
1 ATTATTT
46260837 ATTTTAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.11
23 9 0.33
25 4 0.15
26 11 0.41
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTATTTTAAATTATTTTAATATAC
Found at i:46260839 original size:27 final size:27
Alignment explanation
Indices: 46260770--46260844 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 27
46260760 CCTTAAACGG
46260770 TTTTAT-TACA-TATTATTTTAAATTA
1 TTTTATATACATTATTATTTTAAATTA
* *
46260795 TTTTACAT--ATTACTTATTTTAAGTT-
1 TTTTATATACATTA-TTATTTTAAATTA
46260820 TTTTATATACATTATTTATTTTAAA
1 TTTTATATACATTA-TTATTTTAAA
46260845 CTTTTACATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 1 0.03
25 14 0.35
26 12 0.30
27 13 0.32
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTTATATACATTATTATTTTAAATTA
Found at i:46260850 original size:51 final size:49
Alignment explanation
Indices: 46260770--46260871 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 49
46260760 CCTTAAACGG
46260770 TTTTATTACATATTATTTTAAATTATTTTACATATTACT-TATTTTAAGTT
1 TTTTATTACATATTATTTTAAA-TATTTTACATATTA-TATATTTTAAGTT
*
46260820 TTTTATATACATTATTTATTTTAAA-CTTTTACATATTATATATTTTAAGTT
1 TTTTAT-TACA-TA-TTATTTTAAATATTTTACATATTATATATTTTAAGTT
46260871 T
1 T
46260872 ATGTACATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
50 7 0.15
51 28 0.60
52 2 0.04
53 10 0.21
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (49 bp):
TTTTATTACATATTATTTTAAATATTTTACATATTATATATTTTAAGTT
Found at i:46260863 original size:24 final size:23
Alignment explanation
Indices: 46260780--46260971 Score: 81
Period size: 24 Copynumber: 7.7 Consensus size: 23
46260770 TTTTATTACA
*
46260780 TATTATTTTAAATTATTTTACATAT
1 TATTATTTTAAA--CTTTTACATAT
** *
46260805 TACTTATTTTAAGTTTTTTATATACAT
1 TA-TTATTTTAA-ACTTTTACAT--AT
46260832 TATTTATTTTAAACTTTTACATAT
1 TA-TTATTTTAAACTTTTACATAT
**
46260856 TATATATTTTAAGTTTATGTACATA-
1 TAT-TATTTTAAACTT-T-TACATAT
* *
46260881 -ATGTAGTTTAAACTATTTTATATAT
1 TAT-TATTTTAAAC--TTTTACATAT
*
46260906 TATTTCTTTTAAACCTTTT--ATAT
1 TA-TTATTTTAAA-CTTTTACATAT
46260929 TAGTTATTTTAAACCGTTTTACAT-T
1 TA-TTATTTTAAA-C-TTTTACATAT
46260954 GT-TTATTTTAAACATTTT
1 -TATTATTTTAAAC-TTTT
46260972 TTTGTTATTT
Statistics
Matches: 131, Mismatches: 19, Indels: 36
0.70 0.10 0.19
Matches are distributed among these distances:
23 23 0.18
24 42 0.32
25 16 0.12
26 35 0.27
27 15 0.11
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTATTTTAAACTTTTACATAT
Found at i:46260927 original size:25 final size:24
Alignment explanation
Indices: 46260887--46261039 Score: 91
Period size: 24 Copynumber: 6.3 Consensus size: 24
46260877 CATAATGTAG
46260887 TTTAAACTATTTTATATATTATTTCT
1 TTTAAAC-ATTTT-TATATTATTTCT
* * *
46260913 TTTAAAC-CTTTTATATTAGTTAT
1 TTTAAACATTTTTATATTATTTCT
** * * *
46260936 TTTAAACCGTTTTACATTGTTTAT
1 TTTAAACATTTTTATATTATTTCT
* *
46260960 TTTAAACATTTTTTTGTTATTT-T
1 TTTAAACATTTTTATATTATTTCT
*
46260983 TTT-AACTATTTTATATATTA-TTCAC
1 TTTAAAC-ATTTT-TATATTATTTC-T
* *
46261008 TTTAAA-TTTTTTATATAATATTCAT
1 TTTAAACATTTTTATATTAT-TTC-T
46261033 TTTAAAC
1 TTTAAAC
46261040 TGTTTTTTAA
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
22 3 0.03
23 34 0.34
24 40 0.40
25 13 0.13
26 9 0.09
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTAAACATTTTTATATTATTTCT
Found at i:46261016 original size:23 final size:24
Alignment explanation
Indices: 46260991--46261038 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
46260981 TTTTTAACTA
*
46260991 TTTTATATATTATTCACTTTAAATT
1 TTTTATATAATATTCACTTTAAA-T
*
46261016 TTTTATATAATATTCATTTTAAA
1 TTTTATATAATATTCACTTTAAA
46261039 CTGTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTATATAATATTCACTTTAAAT
Found at i:46261308 original size:18 final size:17
Alignment explanation
Indices: 46261247--46261313 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
46261237 CTCTTTATAC
*
46261247 ATTATTTATTTTTTTTAT
1 ATTATTTA-TTTTATTAT
* *
46261265 ATTATTTATGTTA-AACT
1 ATTATTTATTTTATTA-T
*
46261282 TTTATTTTATTTTATGTAT
1 ATTA-TTTATTTTAT-TAT
46261301 ATTATTTATTTTA
1 ATTATTTATTTTA
46261314 AATTTCCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 1 0.03
17 7 0.18
18 25 0.66
19 4 0.11
20 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTATTTATTTTATTAT
Found at i:46261397 original size:25 final size:24
Alignment explanation
Indices: 46261347--46261406 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
46261337 TTTTAGACTT
*
46261347 TTTATTTTAAATTGTTTTGTATTA
1 TTTATTTTAAATTGCTTTGTATTA
*
46261371 TTTACTTTAAATTGCTTT-TATGGTA
1 TTTATTTTAAATTGCTTTGTAT--TA
46261396 TTTATTTTAAA
1 TTTATTTTAAA
46261407 CCTTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.10
24 16 0.52
25 12 0.39
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTATTTTAAATTGCTTTGTATTA
Found at i:46264672 original size:57 final size:56
Alignment explanation
Indices: 46264610--46264767 Score: 152
Period size: 57 Copynumber: 2.9 Consensus size: 56
46264600 TTTTTATAGT
* *
46264610 ATTATATATTATGATTT-TT-AATTCATA-TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTGAATT-ATATTAATAATAATTATATTAA-AATATGATTAA
* *
46264667 ATTATATATTATTTTATTGAATTATATTTAATAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTGAATTATA-TTAATAATAATTATATTAAAATATGATTAA
* *
46264724 ATTATTTATTATTTAATT--ATT-T-TTAATAATAATCT-TATTAAAAT
1 ATTATATATTATTTTATTGAATTATATTAATAATAAT-TATATTAAAAT
46264768 TTAATAACAA
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
52 19 0.21
53 1 0.01
54 1 0.01
55 6 0.07
56 5 0.06
57 40 0.45
58 17 0.19
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (56 bp):
ATTATATATTATTTTATTGAATTATATTAATAATAATTATATTAAAATATGATTAA
Found at i:46264956 original size:16 final size:16
Alignment explanation
Indices: 46264930--46264984 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
46264920 TGAATTACTA
*
46264930 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
46264946 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
46264962 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
46264978 ATTACAG
1 ATTACAG
46264985 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:46272457 original size:13 final size:13
Alignment explanation
Indices: 46272439--46272465 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46272429 AATAGCTTCG
46272439 GCTACACTTATCT
1 GCTACACTTATCT
46272452 GCTACACTTATCT
1 GCTACACTTATCT
46272465 G
1 G
46272466 ATCAAGGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (13 bp):
GCTACACTTATCT
Found at i:46272489 original size:63 final size:63
Alignment explanation
Indices: 46272390--46272515 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
46272380 ATAGCTTCGA
46272390 CTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTG
1 CTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTG
* * *
46272453 CTACACTTATCTGATCAAGGACTAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTG
1 CTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTG
46272516 ATCAAGGACA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (63 bp):
CTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTG
Found at i:46272556 original size:51 final size:50
Alignment explanation
Indices: 46272452--46272557 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 50
46272442 ACACTTATCT
* * *
46272452 GCTACACTTATCTGATCAAGGACTAGTGAAAGTGATAAGTGATAGCTTCG
1 GCTACACTTATCTGATCAAGGACAAATGAAAGTGAAAAGTGATAGCTTCG
*
46272502 GCTACACTTATCTGATCAAGGACAAATGACAAGTGAAAAGTGGTAGCTTCG
1 GCTACACTTATCTGATCAAGGACAAATGA-AAGTGAAAAGTGATAGCTTCG
46272553 GCTAC
1 GCTAC
46272558 CTGATCAATG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 27 0.53
51 24 0.47
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (50 bp):
GCTACACTTATCTGATCAAGGACAAATGAAAGTGAAAAGTGATAGCTTCG
Found at i:46272573 original size:31 final size:31
Alignment explanation
Indices: 46272533--46272681 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
46272523 ACAAATGACA
46272533 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
46272564 AATGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
46272595 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
46272626 AGTGCAAAA-TGGTAGCTCCGACTACCTGATC
1 AGTG-AAAAGTGGTAGCTTCGGCTACCTGATC
* *
46272657 AGCGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
46272682 AAGTGACAAG
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 3 0.03
31 97 0.93
32 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:46272854 original size:49 final size:48
Alignment explanation
Indices: 46272781--46272886 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 48
46272771 GCATCAGTGA
* * * *
46272781 GATATGTGATTCGTGTAAGACCATAGCTGGGCTACGCCATCGATATGT
1 GATATGTGATACGTGTAAGACCATAGCTAGGCTACGACATCGATATAT
* *
46272829 GATATGTGACTACGTGTAAGGCCATAGCTAGGCTATGACATCGATATAT
1 GATATGTGA-TACGTGTAAGACCATAGCTAGGCTACGACATCGATATAT
46272878 GAATATGTG
1 G-ATATGTG
46272887 TAAGACCATA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 9 0.18
49 34 0.68
50 7 0.14
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (48 bp):
GATATGTGATACGTGTAAGACCATAGCTAGGCTACGACATCGATATAT
Found at i:46272940 original size:42 final size:42
Alignment explanation
Indices: 46272842--46272956 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
46272832 ATGTGACTAC
* * * * *
46272842 GTGTAAGGCCATAGCTAGGCTATGACATCGATATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATATATGAAGAT
*
46272884 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAAGAT
**
46272926 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
46272957 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATATATGAAGAT
Found at i:46277411 original size:28 final size:28
Alignment explanation
Indices: 46277361--46277613 Score: 231
Period size: 28 Copynumber: 9.0 Consensus size: 28
46277351 CACGAAAGTT
* * * * *
46277361 AAGAATAGCTTTTTTGGCAAACTATGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* *
46277389 AAGAATAACCTTTGTGGTGAACTTTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* * *
46277417 AAGAATAGCTTTTGTGGCGAACTTTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* * * * *
46277445 AAGAATAGCTTTTATGGCAAACTCTAAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* *
46277473 AAGAATAGA-CTGTGTGGCGAACTATGAA
1 AAGAATA-ACCTTTGTGGCGAACTCTGAA
* * *
46277501 AATAATAAGCTTTGTGGCAAACTCTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* *
46277529 AAGAATAACCTTTATGGCGAAATCTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* * *
46277557 AAGAAT-AGCTTGTGTAGTGAACTCTGAA
1 AAGAATAACCTT-TGTGGCGAACTCTGAA
* *
46277585 AAGAACAGCCTTTGTGGCGAACTCTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
46277613 A
1 A
46277614 GGGATGCCTT
Statistics
Matches: 182, Mismatches: 39, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
27 5 0.03
28 174 0.96
29 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (28 bp):
AAGAATAACCTTTGTGGCGAACTCTGAA
Found at i:46277447 original size:56 final size:56
Alignment explanation
Indices: 46277361--46277632 Score: 260
Period size: 56 Copynumber: 4.9 Consensus size: 56
46277351 CACGAAAGTT
* * * ** *
46277361 AAGAATAGCTTTTTTGGCAAACTATGAAAAGAATAACCTTTGTGGTGAACTTTGAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
* * * * * *
46277417 AAGAATAGCTTTTGTGGCGAACTTTGAAAAGAATAGCTTTTATGGCAAACTCTAAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
* * * *
46277473 AAGAATAGACTGTGTGGCGAACTATGAAAATAATAAGCTTTGTGGCAAACTCTGAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
* * * * * * **
46277529 AAGAATAACCTTTATGGCGAAATCTGAAAAGAAT-AGCTTGTGTAGTGAACTCTGAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTT-TGTGGCAAACTCTGAA
* * * * *
46277585 AAGAACAGCCTTTGTGGCGAACTCTGAAAGGGAT-GCCTTTGTGGCAAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAA
46277633 TTTTACATGG
Statistics
Matches: 174, Mismatches: 41, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
55 11 0.06
56 163 0.94
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (56 bp):
AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
Found at i:46277502 original size:84 final size:83
Alignment explanation
Indices: 46277361--46277613 Score: 305
Period size: 84 Copynumber: 3.0 Consensus size: 83
46277351 CACGAAAGTT
* * * *
46277361 AAGAATAGCTTTTTTGGCAAACTATGAAAAGAATA-ACCTTTGTGGTGAACTTTGAAAAGAATAG
1 AAGAATAGCTTTTATGGCAAACTCTGAAAAGAATAGA-CTGTGTGGTGAACTATGAAAAGAATAG
*
46277425 CTTTTGTGGCGAACTTTGAA
65 C-TTTGTGGCGAACTCTGAA
* * *
46277445 AAGAATAGCTTTTATGGCAAACTCTAAAAAGAATAGACTGTGTGGCGAACTATGAAAATAATAAG
1 AAGAATAGCTTTTATGGCAAACTCTGAAAAGAATAGACTGTGTGGTGAACTATGAAAAGAAT-AG
*
46277510 CTTTGTGGCAAACTCTGAA
65 CTTTGTGGCGAACTCTGAA
* * * * *
46277529 AAGAATAACCTTTATGGCGAAA-TCTGAAAAGAATAG-CTTGTGTAGTGAACTCTGAAAAGAACA
1 AAGAATAGCTTTTATGGC-AAACTCTGAAAAGAATAGAC-TGTGTGGTGAACTATGAAAAGAATA
46277592 GCCTTTGTGGCGAACTCTGAA
64 G-CTTTGTGGCGAACTCTGAA
46277613 A
1 A
46277614 GGGATGCCTT
Statistics
Matches: 146, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
83 3 0.02
84 136 0.93
85 7 0.05
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (83 bp):
AAGAATAGCTTTTATGGCAAACTCTGAAAAGAATAGACTGTGTGGTGAACTATGAAAAGAATAGC
TTTGTGGCGAACTCTGAA
Found at i:46277691 original size:27 final size:27
Alignment explanation
Indices: 46277592--46277684 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
46277582 GAAAAGAACA
* * * *
46277592 GCCTTTGTGGCGAACTCTGAAAGGGAT-
1 GCCTTTGTGGC-AAATTTTAAATGGATC
* *
46277619 GCCTTTGTGGCAAATTTTACATGGCTC
1 GCCTTTGTGGCAAATTTTAAATGGATC
*
46277646 GGCTTTGTGGCAAATTTTAAATGGATC
1 GCCTTTGTGGCAAATTTTAAATGGATC
46277673 GCCTTTGTGGCA
1 GCCTTTGTGGCA
46277685 TGTTTTATCT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.16
27 46 0.84
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (27 bp):
GCCTTTGTGGCAAATTTTAAATGGATC
Found at i:46280346 original size:21 final size:21
Alignment explanation
Indices: 46280322--46280439 Score: 67
Period size: 21 Copynumber: 5.6 Consensus size: 21
46280312 TGAGTTTCTT
*
46280322 TTTAACCCTAATGGGTTTCCG
1 TTTAACCCTTATGGGTTTCCG
* * * * * *
46280343 TTTAGCTCTTTTGAGCTTCAG
1 TTTAACCCTTATGGGTTTCCG
*
46280364 TTTAACCCTTATGGGTTTCCA
1 TTTAACCCTTATGGGTTTCCG
* * * *
46280385 TTCAGCTCTTATGAGCTTT-CG
1 TTTAACCCTTATG-GGTTTCCG
* * *
46280406 TTCAACCCTCACGGGTTTCCG
1 TTTAACCCTTATGGGTTTCCG
* *
46280427 TTTAGCACTTATG
1 TTTAACCCTTATG
46280440 TGCTTCTGTG
Statistics
Matches: 66, Mismatches: 29, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
20 4 0.06
21 58 0.88
22 4 0.06
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TTTAACCCTTATGGGTTTCCG
Found at i:46280381 original size:42 final size:42
Alignment explanation
Indices: 46280322--46280444 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
46280312 TGAGTTTCTT
*
46280322 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTTTGAGC-TTCAG
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTC-G
* * *
46280364 TTTAACCCTTATGGGTTTCCATTCAGCTCTTATGAGCTTTCG
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTCG
* * * * *
46280406 TTCAACCCTCACGGGTTTCCGTTTAGCACTTATGTGCTT
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTT
46280445 CTGTGTAGCC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 66 0.96
43 3 0.04
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTCG
Found at i:46284629 original size:4 final size:4
Alignment explanation
Indices: 46284620--46284646 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46284610 AGATATTGGT
46284620 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
46284647 TAAAATTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:46285508 original size:15 final size:14
Alignment explanation
Indices: 46285476--46285519 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
46285466 TTTTAGTATC
*
46285476 AAATTTTACTATTA
1 AAATATTACTATTA
46285490 AAATATTACTATATA
1 AAATATTACTAT-TA
* *
46285505 AAATAATAATATTA
1 AAATATTACTATTA
46285519 A
1 A
46285520 GACAATAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATTACTATTA
Found at i:46286762 original size:201 final size:199
Alignment explanation
Indices: 46286416--46287190 Score: 729
Period size: 201 Copynumber: 3.9 Consensus size: 199
46286406 GGAGGAAGTT
* * * * * *
46286416 GAGTTCCTAATATCCCTTTCTTTACCACCACAATAATCTGAAACATTTTGTGTTGAAATTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * *
46286481 TTCAGAGCAACTTGATGCAAGGGTCACCGGACTTGTCATGTTTCTCATATCCAATTCATCTCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCA-CTGACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
* *
46286546 CAACA-TTGATGGGTTCTGGAGATGGGGAAAAGGAGTTGCCGATATCCATTTCTTTAACAACGT-
130 CAACATTTG-TGGGTTCTGGAGATGAGGAAAAGGAGTT-CCAATATCCATTTCTTTAACAA-GTG
*
46286609 AGGGCATG
192 AGCGCATG
* **
46286617 GAGTTCCT-ACAATCCATTTGTTTAACACCAGAATAATCCAAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAAC-ATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAG
**
46286681 CTTCAGAGCAGCTTGATGCAAGGGTCACTGAACTAGTCATGTTTCTTGCATCCAATTCATCCCTC
65 CTTCAGAGCAGCTTGATGCAAGGGTCACTG-ACTAGTCATGTTTCTTATATCCAATTCATCCCTC
* * *
46286746 GCAACATTTGTGGGTTCTGGAGATGAGGAAATGGAGTTCCCAATATCCTTTTCTTTAA-AAGTGG
129 ACAACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTT-CCAATATCCATTTCTTTAACAAGT-G
*
46286810 AGCGCATT
192 AGCGCATG
** * * * *
46286818 GAGTTCCTAACATCCACCTCTTTAACACAAGAATAATATGAAGCATTTGATGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * *
46286883 TTCATAGCAGCTTGCTGCAAGGGTCACTTGACTAATCCTGTTTCTTATATCTAATTCATCCCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCAC-TGACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
** * *
46286948 CAACATTCATGGGTTCTGGAGACGAGGAAATA-GAGTTCACAATATCCATTTCTTGAAC-----A
130 CAACATTTGTGGGTTCTGGAGATGAGGAAA-AGGAGTTC-CAATATCCATTTCTTTAACAAGTGA
46287007 -C-CA--
193 GCGCATG
* **** ** * *
46287010 GAG---GTAATGGACATTTCTTCGACACCAGAATAATCCGAAATATTTGGTGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * ** * *
46287072 TCCACAGAAACTTAATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCACT-GACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
* * * ** * * *
46287137 TAACATCTATCAGTTCAGGAGATGAGGAGATGGAGTTCCTAATATCCATTTCTT
130 CAACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTTCC-AATATCCATTTCTT
46287191 CTACACCAGA
Statistics
Matches: 477, Mismatches: 84, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
188 2 0.00
189 136 0.29
192 3 0.01
194 2 0.00
195 1 0.00
196 1 0.00
199 2 0.00
200 6 0.01
201 317 0.66
202 7 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (199 bp):
GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
TTCAGAGCAGCTTGATGCAAGGGTCACTGACTAGTCATGTTTCTTATATCCAATTCATCCCTCAC
AACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTTCCAATATCCATTTCTTTAACAAGTGAGCG
CATG
Found at i:46287343 original size:162 final size:161
Alignment explanation
Indices: 46287021--46287362 Score: 415
Period size: 162 Copynumber: 2.1 Consensus size: 161
46287011 AGGTAATGGA
* * *
46287021 CATTTCTTCGACACCAGAATAATCCGAAATATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTA
1 CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAACTTA
* *
46287086 ATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCATAACATCTATCAGT
66 ATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCCTCATAACATCTATCAGT
* *
46287151 TCAGGAGATGAGGAGATGGAGTTCCTAATATC
131 TCAGGAGATGAGAAGA-GGAGTTACTAATATC
* * * * *
46287183 CATTTCTTCTACACCAGAATAATCTGAAACATTCGGTGTTGAACTTAAAGCTTCAGA-AAATTTT
1 CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAA-CTT
* * * *
46287247 GATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAGTTCATCCCTTGC-T-TCATTTA-C
65 AATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCC-T-CATAACATCTATC
** *
46287309 GAGTTTTGGGGATGAAGAAGCA-GAGTTACTAATATC
128 -AGTTCAGGAGATG-AGAAG-AGGAGTTACTAATATC
46287345 CATTTCTTCAACACCAGA
1 CATTTCTTCAACACCAGA
46287363 GCAAATAGAG
Statistics
Matches: 155, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
161 4 0.03
162 143 0.92
163 6 0.04
164 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (161 bp):
CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAACTTA
ATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCCTCATAACATCTATCAGT
TCAGGAGATGAGAAGAGGAGTTACTAATATC
Found at i:46288257 original size:99 final size:100
Alignment explanation
Indices: 46288119--46288331 Score: 340
Period size: 99 Copynumber: 2.1 Consensus size: 100
46288109 CATCATTATT
*
46288119 GCTACTTGGCCTGC-AAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGGGCATTTTCC
1 GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
*
46288183 CCAATACTTAACCTGCTTATAGGGGCATCAACACT
66 CCAATACTTAACCTGCTTATAGGGGCATCAACACC
* **
46288218 TCTACTTGGCCTGCTAAA-GGGGTAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
1 GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
* *
46288282 CCCATACTTAACCTGCTTATAGGGGCATCATCACC
66 CCAATACTTAACCTGCTTATAGGGGCATCAACACC
*
46288317 GCTACTAGGCCTGCT
1 GCTACTTGGCCTGCT
46288332 TATAGGAGCA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 101 0.97
100 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (100 bp):
GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
CCAATACTTAACCTGCTTATAGGGGCATCAACACC
Found at i:46288335 original size:33 final size:33
Alignment explanation
Indices: 46288293--46288413 Score: 115
Period size: 33 Copynumber: 3.7 Consensus size: 33
46288283 CCATACTTAA
*
46288293 CCTGCTTATAGGGGCATCATCACC-GCTACTAGG
1 CCTGCTTATAGGAGCATCATC-CCAGCTACTAGG
*
46288326 CCTGCTTATAGGAGCATCATCCCAGGTACTTGAGG
1 CCTGCTTATAGGAGCATCATCCCAGCTAC-T-AGG
* * *
46288361 --TGCTCACAGGGGCATCATCCCTA-CTACTAGG
1 CCTGCTTATAGGAGCATCATCCC-AGCTACTAGG
* *
46288392 ACTACTTATAGGAGCATCATCC
1 CCTGCTTATAGGAGCATCATCC
46288414 GTTCTACTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
31 3 0.04
32 3 0.04
33 61 0.85
34 2 0.03
35 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
CCTGCTTATAGGAGCATCATCCCAGCTACTAGG
Found at i:46288356 original size:66 final size:66
Alignment explanation
Indices: 46288286--46288413 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
46288276 TTTTCCCCCA
* * * * *
46288286 TACTTAACCTGCTTATAGGGGCATCATCACC-GCTACTAGGCCTGCTTATAGGAGCATCATCCCA
1 TACTTAACCTGCTCACAGGGGCATCATC-CCTACTACTAGGACTACTTATAGGAGCATCATCCCA
46288350 GG
65 GG
* **
46288352 TACTTGAGGTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCC
1 TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCC
46288414 GTTCTACTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 2 0.04
66 51 0.96
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (66 bp):
TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCCCAG
G
Found at i:46295906 original size:71 final size:71
Alignment explanation
Indices: 46295785--46295928 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
46295775 TATTTCTCTC
46295785 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
1 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
46295850 AATAAG
66 AATAAG
*
46295856 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTATTAATAGGTATATTCTCCTT
1 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
46295921 AATAAG
66 AATAAG
46295927 TC
1 TC
46295929 TATAGAAATC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (71 bp):
TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
AATAAG
Found at i:46297006 original size:17 final size:17
Alignment explanation
Indices: 46296984--46297023 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46296974 TAAATTTAAT
*
46296984 TTTTAATTTACA-TATTA
1 TTTTAATTTA-ATTATGA
46297001 TTTTAATTTAATTATGA
1 TTTTAATTTAATTATGA
46297018 TTTTAA
1 TTTTAA
46297024 AAAATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTAATTTAATTATGA
Found at i:46299011 original size:27 final size:27
Alignment explanation
Indices: 46298980--46299060 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
46298970 ATAGGTGGTG
*
46298980 CCTATCTGGTAGGCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
* * *
46299007 CCTATCTGATAGGTGCCGCTAGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
*
46299034 CCTACCTGATAGGCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
46299061 TTTATCTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.26
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACTGGTGACT
Found at i:46301803 original size:5 final size:5
Alignment explanation
Indices: 46301793--46301839 Score: 78
Period size: 5 Copynumber: 9.4 Consensus size: 5
46301783 TTCTTAACAG
46301793 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA GAAAG- AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAGA AA
46301840 TTATTTAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
6 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:46302912 original size:17 final size:17
Alignment explanation
Indices: 46302890--46302928 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
46302880 AACTAGTATA
46302890 ATAATAAACAATAATAT
1 ATAATAAACAATAATAT
* *
46302907 ATAATATATAATAATAT
1 ATAATAAACAATAATAT
*
46302924 GTAAT
1 ATAAT
46302929 GTTTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAATAAACAATAATAT
Found at i:46302943 original size:14 final size:14
Alignment explanation
Indices: 46302918--46302949 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
46302908 TAATATATAA
*
46302918 TAATATGTAATGTT
1 TAATATATAATGTT
46302932 TAATATATAATGTT
1 TAATATATAATGTT
46302946 TAAT
1 TAAT
46302950 CATTGATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
TAATATATAATGTT
Found at i:46308570 original size:28 final size:28
Alignment explanation
Indices: 46308530--46308608 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
46308520 GCAATCAAAT
* * *
46308530 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
46308558 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
46308586 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
46308609 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:46311137 original size:16 final size:16
Alignment explanation
Indices: 46311116--46311149 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
46311106 CTGAAAAAGC
46311116 TTGAGCCCAAGAAAAT
1 TTGAGCCCAAGAAAAT
*
46311132 TTGAGCCCGAGAAAAT
1 TTGAGCCCAAGAAAAT
46311148 TT
1 TT
46311150 AAGTCTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (16 bp):
TTGAGCCCAAGAAAAT
Found at i:46315822 original size:27 final size:27
Alignment explanation
Indices: 46315792--46315865 Score: 62
Period size: 29 Copynumber: 2.7 Consensus size: 27
46315782 AAATATTTTT
* * *
46315792 TATTATTGTTTACTTTAAATTTTTATA
1 TATTATTATTTACTTTAAATGTATATA
* *
46315819 TATT-TTTTTCATACTTTTACATGTATATA
1 TATTATTATT--TAC-TTTAAATGTATATA
46315848 TA-TATTATTTACTTTAAA
1 TATTATTATTTACTTTAAA
46315866 ATTATTCGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
26 9 0.24
27 7 0.19
28 4 0.11
29 17 0.46
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (27 bp):
TATTATTATTTACTTTAAATGTATATA
Found at i:46319072 original size:21 final size:20
Alignment explanation
Indices: 46319021--46319082 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
46319011 AATTACTTTG
*
46319021 ATAATTATTTTCAATATTTTT
1 ATAA-TATTTTAAATATTTTT
** *
46319042 ATTACCATTTTTAATAATTTTT
1 A-TAATATTTTAAAT-ATTTTT
46319064 ATAATATTTTAAATCATTT
1 ATAATATTTTAAAT-ATTT
46319083 GAACAAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAATATTTTAAATATTTTT
Found at i:46322102 original size:32 final size:32
Alignment explanation
Indices: 46322038--46322101 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
46322028 TTAGTTTATA
46322038 TGTATTGTTATTTTAAAAGTCGATATAATTTT
1 TGTATTGTTATTTTAAAAGTCGATATAATTTT
*
46322070 TGTA-TGTTATTTTAAAAGTTGATATAATTTT
1 TGTATTGTTATTTTAAAAGTCGATATAATTTT
46322101 T
1 T
46322102 TAACTCATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (32 bp):
TGTATTGTTATTTTAAAAGTCGATATAATTTT
Found at i:46341728 original size:230 final size:230
Alignment explanation
Indices: 46341325--46341783 Score: 918
Period size: 230 Copynumber: 2.0 Consensus size: 230
46341315 TTTGGAAATA
46341325 CGATTGATTTTTTATCCCCGAAGGCTTGCACGTTGAAAATTACAAAAGGATGTCCCATGATTTAG
1 CGATTGATTTTTTATCCCCGAAGGCTTGCACGTTGAAAATTACAAAAGGATGTCCCATGATTTAG
46341390 TCTAATGAAGAATCGAAACTCAGCAGGGTAGGGCACGATTTTTCGAATTTCTAAACATTGAATAT
66 TCTAATGAAGAATCGAAACTCAGCAGGGTAGGGCACGATTTTTCGAATTTCTAAACATTGAATAT
46341455 TGCCTTATCTTAGAATTTAGAAAACACAAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACA
131 TGCCTTATCTTAGAATTTAGAAAACACAAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACA
46341520 AACGGGAAATCGAAACCCAGCACGATAGGGCACGT
196 AACGGGAAATCGAAACCCAGCACGATAGGGCACGT
46341555 CGATTGATTTTTTATCCCCGAAGGCTTGCACGTTGAAAATTACAAAAGGATGTCCCATGATTTAG
1 CGATTGATTTTTTATCCCCGAAGGCTTGCACGTTGAAAATTACAAAAGGATGTCCCATGATTTAG
46341620 TCTAATGAAGAATCGAAACTCAGCAGGGTAGGGCACGATTTTTCGAATTTCTAAACATTGAATAT
66 TCTAATGAAGAATCGAAACTCAGCAGGGTAGGGCACGATTTTTCGAATTTCTAAACATTGAATAT
46341685 TGCCTTATCTTAGAATTTAGAAAACACAAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACA
131 TGCCTTATCTTAGAATTTAGAAAACACAAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACA
46341750 AACGGGAAATCGAAACCCAGCACGATAGGGCACG
196 AACGGGAAATCGAAACCCAGCACGATAGGGCACG
46341784 ATTCCCCGAA
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
230 229 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (230 bp):
CGATTGATTTTTTATCCCCGAAGGCTTGCACGTTGAAAATTACAAAAGGATGTCCCATGATTTAG
TCTAATGAAGAATCGAAACTCAGCAGGGTAGGGCACGATTTTTCGAATTTCTAAACATTGAATAT
TGCCTTATCTTAGAATTTAGAAAACACAAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACA
AACGGGAAATCGAAACCCAGCACGATAGGGCACGT
Found at i:46343107 original size:22 final size:22
Alignment explanation
Indices: 46343082--46343123 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46343072 TCAATACATA
* *
46343082 CAAAAGCGGTGATTCGAACACC
1 CAAAAGCGGAGAATCGAACACC
*
46343104 CAAAATCGGAGAATCGAACA
1 CAAAAGCGGAGAATCGAACA
46343124 AACGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (22 bp):
CAAAAGCGGAGAATCGAACACC
Found at i:46345238 original size:3 final size:3
Alignment explanation
Indices: 46345163--46345222 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
46345153 TTAATTTTGA
* * **
46345163 TAT TAT TAT TAT TA- TAT TCAC TAT TATT TAT TGT TAT TGG TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT TAT
46345209 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
46345223 ATATATGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:46345343 original size:27 final size:26
Alignment explanation
Indices: 46345274--46345353 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
46345264 TACTTTACAT
* * *
46345274 TATTATATTTATTATTTATTTCTAACA
1 TATTATATTTAAT-TTTATTTATATCA
* *
46345301 TATTATTATTTTATTTTCTTTATATCA
1 TATTA-TATTTAATTTTATTTATATCA
*
46345328 TCATTATATTTAATTTGTGTTTATAT
1 T-ATTATATTTAATTT-TATTTATAT
46345354 ATTTTCTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATATTTAATTTTATTTATATCA
Found at i:46345952 original size:15 final size:17
Alignment explanation
Indices: 46345932--46345964 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46345922 CCGTCACCTT
46345932 ACATAT-TAT-TATATA
1 ACATATGTATATATATA
46345947 ACATATGTATATATATA
1 ACATATGTATATATATA
46345964 A
1 A
46345965 TTCATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
ACATATGTATATATATA
Found at i:46350192 original size:14 final size:15
Alignment explanation
Indices: 46350173--46350205 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46350163 TATGCCTAAA
*
46350173 AAAAAG-AAAGAAAG
1 AAAAAGAAAAAAAAG
46350187 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
46350202 AAAA
1 AAAA
46350206 GATCAAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:46351207 original size:73 final size:73
Alignment explanation
Indices: 46351065--46351213 Score: 235
Period size: 73 Copynumber: 2.0 Consensus size: 73
46351055 TTTATTTCTG
* *
46351065 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
46351130 TTTTTGTT
66 TTTTTGTT
* * * **
46351138 TTTCAAAAATCGACTCATATTGCGATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATGTTCCG
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
46351203 TTTTTGTT
66 TTTTTGTT
46351211 TTT
1 TTT
46351214 TAATTTATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (73 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
TTTTTGTT
Found at i:46351506 original size:89 final size:89
Alignment explanation
Indices: 46351297--46351729 Score: 561
Period size: 88 Copynumber: 4.9 Consensus size: 89
46351287 AATTTCTATT
* * ** * * ** *
46351297 TTTTAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCATATG-TCGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCT-GAGCTATTT
** * ** *
46351361 TCAAAATCTGCTTTTCAAATT-AAG
65 TCAATTTCTGTTTTTTTAATTCATG
*
46351385 TTTT-AACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
46351449 CAATTTCTGTTTTTTTAATTCATG
66 CAATTTCTGTTTTTTTAATTCATG
* *
46351473 TTTTCAAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
*
46351538 CAATTTCT-ATTTTTTAATTCATG
66 CAATTTCTGTTTTTTTAATTCATG
* * *
46351561 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
* * * *
46351626 CTATTTCTG-TTTTTCAATTTATAT
66 CAATTTCTGTTTTTTTAATTCAT-G
*
46351650 TTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
1 TTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
46351715 TCAATTTCTGTTTTT
65 TCAATTTCTGTTTTT
46351730 AATGTCTGTT
Statistics
Matches: 305, Mismatches: 33, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
87 64 0.21
88 103 0.34
89 74 0.24
90 60 0.20
91 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (89 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
CAATTTCTGTTTTTTTAATTCATG
Found at i:46351610 original size:177 final size:176
Alignment explanation
Indices: 46351384--46351776 Score: 560
Period size: 177 Copynumber: 2.2 Consensus size: 176
46351374 TTCAAATTAA
* * *
46351384 GTTTTAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTT
* ** *
46351449 CAATTTCTGTTTTTTTAATTCAT-GTTTTCAAAA-ATTAACTCATATTGCTAGAGGTGAGTTGAG
66 CAATTTCTG-TTTTTCAATTCATAGTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
*
46351512 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTTAAT-TCAT
130 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCT-GTTTTTAATGTC-T
*
46351560 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTT
1 GTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTT
* * *
46351625 TCTATTTCTGTTTTTCAATTTATATTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
65 TCAATTTCTGTTTTTCAATTCATAGTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
46351690 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCT
130 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCT
* * * **
46351737 G-TTTAAAGAGTCAATTCATATTCCGAGAAATGAGTTGAGC
1 GTTTTAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
46351777 TCAAGATCAC
Statistics
Matches: 195, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
175 3 0.02
176 46 0.24
177 83 0.43
178 63 0.32
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (176 bp):
GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTT
CAATTTCTGTTTTTCAATTCATAGTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGC
CTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCT
Found at i:46351902 original size:44 final size:44
Alignment explanation
Indices: 46351838--46351940 Score: 188
Period size: 44 Copynumber: 2.3 Consensus size: 44
46351828 CAGATTTGGC
*
46351838 CTCCCTGAAGTTGCAGTGAAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
*
46351882 CTCCCTAAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
46351926 CTCCCTGAAGTTGCA
1 CTCCCTGAAGTTGCA
46351941 GTAGAGCTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
Found at i:46353587 original size:3 final size:3
Alignment explanation
Indices: 46353517--46353571 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
46353507 TTGATATTTT
* * *
46353517 TTA TTA TTA -TA TTCA TTA TTA TTTA TTG TTA TTG GTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
46353563 TTA TTA TTA
1 TTA TTA TTA
46353572 ATATATGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:46354300 original size:15 final size:17
Alignment explanation
Indices: 46354280--46354312 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46354270 CCATCACCTT
46354280 ACATAT-TAT-TATATA
1 ACATATGTATATATATA
46354295 ACATATGTATATATATA
1 ACATATGTATATATATA
46354312 A
1 A
46354313 TTCATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
ACATATGTATATATATA
Found at i:46355117 original size:14 final size:14
Alignment explanation
Indices: 46355098--46355124 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46355088 ATAGAGATAT
46355098 AAATAGATAAATAC
1 AAATAGATAAATAC
46355112 AAATAGATAAATA
1 AAATAGATAAATA
46355125 ATAGTATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAGATAAATAC
Found at i:46356777 original size:25 final size:23
Alignment explanation
Indices: 46356746--46356796 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
46356736 CTTACTTTTA
46356746 TATTATATAT-TGTAAGATTATTT
1 TATTATATATAT-TAAGATTATTT
*
46356769 TATTATATATATTAATATTA-TT
1 TATTATATATATTAAGATTATTT
46356791 TATTAT
1 TATTAT
46356797 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTATATATATTAAGATTATTT
Found at i:46356877 original size:21 final size:21
Alignment explanation
Indices: 46356836--46356903 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 21
46356826 TACATCATTG
46356836 TTTT-ATTATTATTAT-TATAT
1 TTTTAATTA-TATTATATATAT
* *
46356856 TTTTACTTGTATTATATATAT
1 TTTTAATTATATTATATATAT
*
46356877 TTATTAATTATTTATATATATAT
1 TT-TTAATTATAT-TATATATAT
46356900 TTTT
1 TTTT
46356904 TACATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 10 0.26
21 9 0.23
22 9 0.23
23 11 0.28
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTAATTATATTATATATAT
Found at i:46356952 original size:21 final size:19
Alignment explanation
Indices: 46356836--46357030 Score: 60
Period size: 21 Copynumber: 9.2 Consensus size: 19
46356826 TACATCATTG
46356836 TTTTATTATTATTATTATAT
1 TTTTATTA-TATTATTATAT
*
46356856 TTTTACTTGTATTATATATAT
1 TTTTA-TTATATTAT-TATAT
46356877 TTATTAATTAT-TTATATATAT
1 TT-TT-ATTATATTAT-TATAT
46356898 ATTTT-TTACATATATACTTTCATTAT
1 -TTTTATT--ATAT-TA--TT-A-TAT
46356924 TTTATATTATATCTATTATAT
1 TTT-TATTATAT-TATTATAT
**
46356945 TTCTTATT-TCCTA-TATAT
1 TT-TTATTATATTATTATAT
**
46356963 TTAAATTATATTTTATTATAT
1 TTTTATTATA--TTATTATAT
*
46356984 AAAATTTATTATATT-TT-TAT
1 ---TTTTATTATATTATTATAT
46357004 TTTTATCCTATATTACTTATTAT
1 TTTTAT--TATATTA-TTA-TAT
46357027 TTTT
1 TTTT
46357031 CTTTTTTTTT
Statistics
Matches: 133, Mismatches: 13, Indels: 55
0.66 0.06 0.27
Matches are distributed among these distances:
17 8 0.06
18 8 0.06
19 10 0.08
20 17 0.13
21 41 0.31
22 12 0.09
23 12 0.09
24 8 0.06
25 11 0.08
26 4 0.03
27 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATTATATTATTATAT
Found at i:46357070 original size:12 final size:12
Alignment explanation
Indices: 46357055--46357081 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46357045 ATGTTTTGTA
46357055 TATCATATATAT
1 TATCATATATAT
46357067 TATCATATATAT
1 TATCATATATAT
46357079 TAT
1 TAT
46357082 TTATGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
TATCATATATAT
Found at i:46358402 original size:12 final size:12
Alignment explanation
Indices: 46358385--46358417 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46358375 ATGACATTAA
46358385 AATAATA-ACAAT
1 AATAATATA-AAT
46358397 AATAATATAAAT
1 AATAATATAAAT
46358409 AATAATATA
1 AATAATATA
46358418 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:46358412 original size:15 final size:14
Alignment explanation
Indices: 46358389--46358429 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
46358379 CATTAAAATA
*
46358389 ATAACAATAATAAT
1 ATAAAAATAATAAT
46358403 ATAAATAATAAT-AT
1 ATAAA-AATAATAAT
46358417 ATAAAAA-AATAAT
1 ATAAAAATAATAAT
46358430 GATTGTCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 3 0.12
13 4 0.17
14 11 0.46
15 6 0.25
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAAATAATAAT
Found at i:46359715 original size:21 final size:21
Alignment explanation
Indices: 46359654--46359724 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
46359644 TTAAAATTAT
*
46359654 ATAATAATAA-ATAATGAATA
1 ATAATAATAATATAGTGAATA
*
46359674 ATTATAAT-ATATAGT-AA-A
1 ATAATAATAATATAGTGAATA
*
46359692 ATAACAATAATATAGTGAATA
1 ATAATAATAATATAGTGAATA
46359713 AT-ATATATAATA
1 ATAATA-ATAATA
46359725 AAATGATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 7 0.17
19 10 0.24
20 15 0.37
21 9 0.22
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAATAATAATATAGTGAATA
Found at i:46359724 original size:12 final size:12
Alignment explanation
Indices: 46359651--46359826 Score: 58
Period size: 12 Copynumber: 13.9 Consensus size: 12
46359641 TTTTTAAAAT
46359651 TATATAATAATA
1 TATATAATAATA
46359663 -A-ATAATGAATA
1 TATATAAT-AATA
46359674 -ATTATAATATATA
1 TA-TATAATA-ATA
* *
46359687 GTAAAATAACAATAA
1 -T-ATATAATAAT-A
46359702 TATAGTGAATAATA
1 TATA-T-AATAATA
46359716 TATATAATAAAATGA
1 TATATAAT--AAT-A
*
46359731 TATATAATAAAA
1 TATATAATAATA
* *
46359743 TGTATAAATCAAAA
1 TATAT-AAT-AATA
*
46359757 TATATAATAAAA
1 TATATAATAATA
*
46359769 TATA-AATGATA
1 TATATAATAATA
*
46359780 TA-ACAAATAATA
1 TATA-TAATAATA
* * *
46359792 CACA-AATATAAA
1 TATATAATA-ATA
* *
46359804 TAAAAAATAATA
1 TATATAATAATA
46359816 TATATAATAAT
1 TATATAATAAT
46359827 TTTTCATATA
Statistics
Matches: 127, Mismatches: 17, Indels: 40
0.69 0.09 0.22
Matches are distributed among these distances:
10 6 0.05
11 17 0.13
12 39 0.31
13 24 0.19
14 20 0.16
15 20 0.16
16 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (12 bp):
TATATAATAATA
Found at i:46359733 original size:15 final size:15
Alignment explanation
Indices: 46359715--46359769 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
46359705 AGTGAATAAT
46359715 ATATATAATAAAATG
1 ATATATAATAAAATG
46359730 ATATATAATAAAATG
1 ATATATAATAAAATG
*
46359745 -TATA-AATCAAA--
1 ATATATAATAAAATG
46359756 ATATATAATAAAAT
1 ATATATAATAAAAT
46359770 ATAAATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 4 0.11
13 12 0.34
14 4 0.11
15 15 0.43
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATATAATAAAATG
Found at i:46359749 original size:24 final size:22
Alignment explanation
Indices: 46359722--46359781 Score: 59
Period size: 26 Copynumber: 2.6 Consensus size: 22
46359712 AATATATATA
46359722 ATAAAATGATATATAATAAAATGT
1 ATAAAATGATATATAATAAAA--T
**
46359746 ATAAATCAAAATATATAATAAAAT
1 ATAAA--ATGATATATAATAAAAT
46359770 AT-AAATGATATA
1 ATAAAATGATATA
46359782 ACAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.20
23 2 0.07
24 8 0.27
26 14 0.47
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAAATGATATATAATAAAAT
Found at i:46361173 original size:3 final size:3
Alignment explanation
Indices: 46361158--46361227 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
46361148 AGTGAAGATG
* * *
46361158 ATA ATA ATG ATA ATAA ATA A-A AAA ATA ATA ATA CTA ATA ATA AT-
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
46361202 ATA ATA GTA ATA ATCA A-A ATA A-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA
46361228 GCAATAACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 8 0.15
3 41 0.76
4 5 0.09
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:46361215 original size:20 final size:19
Alignment explanation
Indices: 46361173--46361234 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
46361163 AATGATAATA
*
46361173 AATAA-AAAA-ATAATAAT
1 AATAATAAAATATAATAGT
*
46361190 ACTAATAATAATATAATAGT
1 AATAATAA-AATATAATAGT
* *
46361210 AATAATCAAAATAAAATAGC
1 AATAAT-AAAATATAATAGT
46361230 AATAA
1 AATAA
46361235 CATTGAAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.11
18 2 0.06
19 2 0.06
20 26 0.72
21 2 0.06
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (19 bp):
AATAATAAAATATAATAGT
Found at i:46361263 original size:20 final size:20
Alignment explanation
Indices: 46361240--46361286 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
46361230 AATAACATTG
46361240 AAAGTAAAAA-AATAAATAAA
1 AAAGTAAAAAGAATAAA-AAA
46361260 AAAG-AAAAAGAATAAAAAA
1 AAAGTAAAAAGAATAAAAAA
*
46361279 ATAGTAAA
1 AAAGTAAA
46361287 TAAACGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.13
Consensus pattern (20 bp):
AAAGTAAAAAGAATAAAAAA
Found at i:46363148 original size:41 final size:41
Alignment explanation
Indices: 46363071--46363148 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
46363061 TGACTTCAAC
* *
46363071 CTGCTCCACTGCAACTTCAGGTAGATAAGGTTTGTTTTGAT
1 CTGCTCCACTGCAACTTCAGGTAGATAAGATCTGTTTTGAT
* *
46363112 CTGCTCTACTGTAACTTCAGAG-AGATAAGATCTGTTT
1 CTGCTCCACTGCAACTTCAG-GTAGATAAGATCTGTTT
46363149 ATTTATAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 31 0.97
42 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (41 bp):
CTGCTCCACTGCAACTTCAGGTAGATAAGATCTGTTTTGAT
Found at i:46363345 original size:68 final size:68
Alignment explanation
Indices: 46363261--46363999 Score: 1154
Period size: 68 Copynumber: 10.9 Consensus size: 68
46363251 ATCTACTCCT
* ** * * *
46363261 CTGAAACTTCAAGGAGATCTGCTGTGGCTTCGAGCCGTTCTAACGTCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363326 CCG
66 CCG
* * * *
46363329 CTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCTGCTCTAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363394 CCG
66 CCG
* *
46363397 CTGAAACTTTAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
46363462 CCA
66 CCG
* *
46363465 CTAAAATTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363530 CCG
66 CCG
* *
46363533 CTGAAACTTTAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
46363598 CAG
66 CCG
* * * *
46363601 CTAAAACTTCAAAGAGATCTGCTGTAGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363666 CCG
66 CCG
46363669 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363734 CCG
66 CCG
* * **
46363737 CTGAAACTTCAAGGAGATCTATTGTGGCTTTTAGCCGCTCTAAATCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363802 CCG
66 CCG
* * * * *
46363805 CTGAAACTTCAAGAAGATCTGTTGTAGCTTCTAGCTGCTCTAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363870 CCG
66 CCG
* * *
46363873 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCTAACGTCATTTCAGGGAGAAAAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
46363938 CCG
66 CCG
* *
46363941 CTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGA
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGA
46364000 TAAAATCTAC
Statistics
Matches: 616, Mismatches: 55, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 616 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
CCG
Found at i:46364168 original size:88 final size:87
Alignment explanation
Indices: 46364014--46364187 Score: 235
Period size: 88 Copynumber: 2.0 Consensus size: 87
46364004 ATCTACAATT
* * * * * *
46364014 TTCAGCCTGTTACCCTATTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTATTTCCTTACTGC
1 TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCCCTACTGC
46364079 TTAGGGTA-ATAAGATCTTGTAAA
66 TTAGGG-AGATAAGATC-TGTAAA
* *
46364102 TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCT-GTTCCACTACTG
1 TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCC-CTACTG
46364166 CTTAGGGAGATAAGATCTGTAA
65 CTTAGGGAGATAAGATCTGTAA
46364188 TTTTCAGACG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 10 0.13
88 66 0.87
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (87 bp):
TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCCCTACTGC
TTAGGGAGATAAGATCTGTAAA
Found at i:46371228 original size:14 final size:14
Alignment explanation
Indices: 46371209--46371235 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46371199 ATAGAGATAT
46371209 AAATAGATAAATAC
1 AAATAGATAAATAC
46371223 AAATAGATAAATA
1 AAATAGATAAATA
46371236 ATAGTATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAGATAAATAC
Found at i:46371877 original size:167 final size:167
Alignment explanation
Indices: 46371699--46372051 Score: 706
Period size: 167 Copynumber: 2.1 Consensus size: 167
46371689 ACAAGAAAGT
46371699 AAATGAATAAATAAATAAATTAAAATAAGGACTTAATTGTAACTTAAGTAAAATTAAAGAAACAA
1 AAATGAATAAATAAATAAATTAAAATAAGGACTTAATTGTAACTTAAGTAAAATTAAAGAAACAA
46371764 GCTGTAAATAAATAAATAATATAATAGGTATAAATACTAAGTAAATAAGTATTAGGGGAAAACAA
66 GCTGTAAATAAATAAATAATATAATAGGTATAAATACTAAGTAAATAAGTATTAGGGGAAAACAA
46371829 AACTTTGATTATAACAGAGGTAAATAAATAGTAAAAC
131 AACTTTGATTATAACAGAGGTAAATAAATAGTAAAAC
46371866 AAATGAATAAATAAATAAATTAAAATAAGGACTTAATTGTAACTTAAGTAAAATTAAAGAAACAA
1 AAATGAATAAATAAATAAATTAAAATAAGGACTTAATTGTAACTTAAGTAAAATTAAAGAAACAA
46371931 GCTGTAAATAAATAAATAATATAATAGGTATAAATACTAAGTAAATAAGTATTAGGGGAAAACAA
66 GCTGTAAATAAATAAATAATATAATAGGTATAAATACTAAGTAAATAAGTATTAGGGGAAAACAA
46371996 AACTTTGATTATAACAGAGGTAAATAAATAGTAAAAC
131 AACTTTGATTATAACAGAGGTAAATAAATAGTAAAAC
46372033 AAATGAATAAATAAATAAA
1 AAATGAATAAATAAATAAA
46372052 AATAAATGAA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 186 1.00
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (167 bp):
AAATGAATAAATAAATAAATTAAAATAAGGACTTAATTGTAACTTAAGTAAAATTAAAGAAACAA
GCTGTAAATAAATAAATAATATAATAGGTATAAATACTAAGTAAATAAGTATTAGGGGAAAACAA
AACTTTGATTATAACAGAGGTAAATAAATAGTAAAAC
Found at i:46372067 original size:24 final size:23
Alignment explanation
Indices: 46372016--46372061 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
46372006 ATAACAGAGG
46372016 TAAATAAATAGTAAAACAAATGAA
1 TAAATAAATAG-AAAACAAATGAA
*
46372040 TAAATAAATA-AAAATAAATGAA
1 TAAATAAATAGAAAACAAATGAA
46372062 AATAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (23 bp):
TAAATAAATAGAAAACAAATGAA
Found at i:46378840 original size:26 final size:26
Alignment explanation
Indices: 46378804--46378911 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
46378794 TGAAATTCCC
* *
46378804 ATCATGGAACATTTACCTAAACCGTT
1 ATCATGGAACATTTACCTAACCCATT
**
46378830 ATCATTAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46378856 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
46378882 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46378908 ATCA
1 ATCA
46378912 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46379484 original size:26 final size:26
Alignment explanation
Indices: 46379455--46379538 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
46379445 ATAAGCGTCG
**
46379455 TTATCATTAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
46379481 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGGAACATTTACCTAACCCA
46379507 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
46379533 TTATCA
1 TTATCA
46379539 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:46379649 original size:25 final size:25
Alignment explanation
Indices: 46379620--46379671 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
46379610 AAGAATAATT
* *
46379620 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGACATTGCCTAATAAA
* *
46379645 TGAATATCTGACATTGCTTAGTAAA
1 TGAATATCTGACATTGCCTAATAAA
46379670 TG
1 TG
46379672 CCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCTGACATTGCCTAATAAA
Found at i:46381794 original size:138 final size:138
Alignment explanation
Indices: 46381638--46381922 Score: 435
Period size: 138 Copynumber: 2.1 Consensus size: 138
46381628 AGAGAACATA
* * * *
46381638 AATATAATTAATATATGAATTTGATTCAAACAAAATATTAATTGTATATCTTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
* *
46381703 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
46381768 TTGGAAAG
131 TTGGAAAG
* * * * *
46381776 AATACAATTAATATATGAATTTGATTCATATAAAATACTAATTGTATATATTTCATATAATTTAT
1 AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
* * * *
46381841 TAATATAAACAATTATATTAATTAAATTCGGTCAAAATGTAAAAGACTTGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
46381906 TTGGAAAG
131 TTGGAAAG
46381914 AATATAATT
1 AATATAATT
46381923 CATTTTTCTA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAG
Found at i:46382010 original size:20 final size:20
Alignment explanation
Indices: 46381987--46382028 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
46381977 TTCTTTTGGA
46381987 AAAATATAATTCATTTTTCT
1 AAAATATAATTCATTTTTCT
46382007 AAAATATAATTCATTTTTCT
1 AAAATATAATTCATTTTTCT
46382027 AA
1 AA
46382029 CTTTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATATAATTCATTTTTCT
Found at i:46388527 original size:22 final size:21
Alignment explanation
Indices: 46388497--46388543 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
46388487 TACAAATTAA
46388497 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
46388519 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
46388540 ATCT
1 ATCT
46388544 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:46388549 original size:19 final size:19
Alignment explanation
Indices: 46388514--46388573 Score: 79
Period size: 17 Copynumber: 3.2 Consensus size: 19
46388504 AGATTACAAG
46388514 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
46388535 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
46388552 ATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCAT
46388571 ATC
1 ATC
46388574 CTTAAAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 16 0.44
19 11 0.31
20 1 0.03
21 8 0.22
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:46389078 original size:87 final size:86
Alignment explanation
Indices: 46388977--46389352 Score: 245
Period size: 87 Copynumber: 4.3 Consensus size: 86
46388967 ACAATATAGA
*
46388977 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
46389042 ATTTGCTCCTTGTGAACACAAG
66 ATTTGCTCCTTGT-AACACAAG
* * * *
46389064 GATGCCAAATCATCTTGGATCTGCTTCA--GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGT-AAA-CA-CGTGAAAGCCAAATCTGCTATGTCT
* * * ** *
46389126 TTAATTTGCTTCTTGTAAAATTAT
63 TCAATTTGCTCCTTGTAACACAAG
* * * * * * *
46389150 GATTGTCCTATTGAT-ATCTTCGGTCTGCTCTCCGTCG-AATACA-GAG-ACGCCAAATATG-T-
1 GA-TG-CC-A--AATCATCTTAGATCTGCT-TCAG-CGTAA-ACACGTGAAAGCCAAATCTGCTA
* * *
46389209 T-TCTTCAATTTG-T-TTTCTAACAATACAG
58 TGTCTTCAATTTGCTCCTTGTAAC-ACA-AG
* * * * * *
46389237 AGATGCCAAATCATCTTAGATTTGGTTCAGCGTAAGCACGCGAAAACCAAATCAGCTATGTCTTC
1 -GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTC
* *
46389302 GATTTGTTCCTTGTAAGCACAAG
65 AATTTGCTCCTTGTAA-CACAAG
* *
46389325 GATGCCAAACCATCTTGGATCTGCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCA
46389353 ATATAAACAT
Statistics
Matches: 216, Mismatches: 46, Indels: 54
0.68 0.15 0.17
Matches are distributed among these distances:
82 4 0.02
83 9 0.04
84 18 0.08
85 9 0.04
86 15 0.07
87 111 0.51
88 9 0.04
89 9 0.04
90 21 0.10
91 5 0.02
92 4 0.02
93 1 0.00
94 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (86 bp):
GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
ATTTGCTCCTTGTAACACAAG
Found at i:46389366 original size:261 final size:261
Alignment explanation
Indices: 46388899--46389384 Score: 769
Period size: 261 Copynumber: 1.9 Consensus size: 261
46388889 GATTATCATG
* *
46388899 TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTTTT
1 TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCAATTTGTTTT
* * * *
46388964 CTGACAATATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATC
66 CTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAATC
* * * *
46389029 TGCTGTGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGT
131 AGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAAT
46389094 AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGATTGTCCT
196 AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGATTGTCCT
46389159 A
261 A
* * *
46389160 TTGATATCTTCGGTCTGCTCTCCGTCGAATACAGAGACGCCAAATATGTTTCTTCAATTTGTTTT
1 TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCAATTTGTTTT
* * *
46389225 CTAACAATACAGAGATGCCAAATCATCTTAGATTTGGTTCAGCGTAAGCACGCGAAAACCAAATC
66 CTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAATC
* *
46389290 AGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAA
131 AGCTATGTCTTCAATTTGCTCCTTGTGAA-CACAAGGATGCCAAACCATCTTGGATCTGCTTCAA
*
46389354 TATAAA-CATCTGAAGGTTAGATCTGCTATGT
195 TA-AAATCATCTGAAGGTCAGATCTGCTATGT
46389385 ATCTGCTCTC
Statistics
Matches: 204, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
260 2 0.01
261 199 0.98
262 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (261 bp):
TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCAATTTGTTTT
CTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAATC
AGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAAT
AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGATTGTCCT
A
Found at i:46390514 original size:8 final size:8
Alignment explanation
Indices: 46390501--46390552 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
46390491 GGCCTCTCCA
46390501 TTTTTATT
1 TTTTTATT
46390509 TTTTTATT
1 TTTTTATT
*
46390517 TTTTTCTT
1 TTTTTATT
*
46390525 TTTATA-T
1 TTTTTATT
*
46390532 TTTTTCTT
1 TTTTTATT
*
46390540 TTTTTCTT
1 TTTTTATT
46390548 TTTTT
1 TTTTT
46390553 TTTGAAATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
7 5 0.13
8 33 0.87
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:46390526 original size:15 final size:15
Alignment explanation
Indices: 46390508--46390555 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
46390498 CCATTTTTAT
46390508 TTTTTTATTTTTTTC
1 TTTTTTATTTTTTTC
46390523 -TTTTTATATTTTTTC
1 TTTTTTAT-TTTTTTC
*
46390538 TTTTTT-TCTTTTT-
1 TTTTTTATTTTTTTC
46390551 TTTTT
1 TTTTT
46390556 GAAATAGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 8 0.27
16 5 0.17
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTATTTTTTTC
Found at i:46390526 original size:16 final size:16
Alignment explanation
Indices: 46390501--46390552 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
46390491 GGCCTCTCCA
*
46390501 TTTTTATTTTTTTATT
1 TTTTTCTTTTTTTATT
*
46390517 TTTTTCTTTTTATA-T
1 TTTTTCTTTTTTTATT
*
46390532 TTTTTCTTTTTTTCTT
1 TTTTTCTTTTTTTATT
46390548 TTTTT
1 TTTTT
46390553 TTTGAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 13 0.42
16 18 0.58
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTCTTTTTTTATT
Found at i:46390534 original size:23 final size:22
Alignment explanation
Indices: 46390501--46390555 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
46390491 GGCCTCTCCA
46390501 TTTTTATTTTTTTATTTTTTTC
1 TTTTTATTTTTTTATTTTTTTC
*
46390523 TTTTTATATTTTTTCTTTTTTTC
1 TTTTTAT-TTTTTTATTTTTTTC
46390546 TTTTT-TTTTT
1 TTTTTATTTTT
46390556 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 19 0.61
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.87
Consensus pattern (22 bp):
TTTTTATTTTTTTATTTTTTTC
Found at i:46397338 original size:19 final size:19
Alignment explanation
Indices: 46397273--46397351 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
46397263 AGATTACAAG
*
46397273 ATCATATCTTCAAGACTGCAT
1 ATCATATC-T-AAGATTGCAT
46397294 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
46397311 ATTATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
46397330 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
46397349 ATC
1 ATC
46397352 CTTAAAGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:46397360 original size:36 final size:34
Alignment explanation
Indices: 46397275--46397361 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 34
46397265 ATTACAAGAT
*
46397275 CATATCTTCAAGACTGCATATCATATCTAAGATTG
1 CATATCTT-AAGATTGCATATCATATCTAAGATTG
* *
46397310 TATTATATCTAAGATTGCATATCATATCTAAGATTG
1 CA-TATCT-TAAGATTGCATATCATATCTAAGATTG
46397346 CATATCCTTAAAGATT
1 CATAT-CTT-AAGATT
46397362 ATATTTCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
35 5 0.12
36 37 0.86
37 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (34 bp):
CATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:46400460 original size:20 final size:20
Alignment explanation
Indices: 46400437--46400486 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
46400427 AAATCCAAAT
46400437 TAAAATACTAAAATTC-AGAA
1 TAAAATACTAAAATTCAAG-A
* *
46400457 TAAAATCCTGAAATTCAAGA
1 TAAAATACTAAAATTCAAGA
46400477 TAAGAATACT
1 TAA-AATACT
46400487 GATAGGACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:46400592 original size:36 final size:36
Alignment explanation
Indices: 46400552--46400624 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
46400542 TACAATCCTT
46400552 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
1 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
46400588 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
1 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
46400624 T
1 T
46400625 ACAATTCTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.42
Consensus pattern (36 bp):
TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
Found at i:46406762 original size:5 final size:5
Alignment explanation
Indices: 46406752--46406778 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46406742 ATAAGAATAT
46406752 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
46406779 ACTAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:46410081 original size:3 final size:3
Alignment explanation
Indices: 46410073--46410098 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46410063 AAAGTGTGAA
46410073 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
46410099 ATAACAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46411160 original size:47 final size:47
Alignment explanation
Indices: 46411091--46411180 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
46411081 TGTATCCGTT
*
46411091 ACCGGAATAGGGTTATGAGGCATTACCAAACTTATACACTAACCATC
1 ACCGGAATAGGGTTACGAGGCATTACCAAACTTATACACTAACCATC
*
46411138 ACCGGAATAGGGTTACGAGGCATTACCAGACTTATACACTAAC
1 ACCGGAATAGGGTTACGAGGCATTACCAAACTTATACACTAAC
46411181 ATTTATACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (47 bp):
ACCGGAATAGGGTTACGAGGCATTACCAAACTTATACACTAACCATC
Found at i:46413732 original size:16 final size:15
Alignment explanation
Indices: 46413711--46413740 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46413701 AAAATACTGA
46413711 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
46413727 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
46413741 CCAATTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:46414949 original size:26 final size:26
Alignment explanation
Indices: 46414918--46415025 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
46414908 TGAAATTCCC
*
46414918 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
46414944 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46414970 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
46414996 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46415022 ATCA
1 ATCA
46415026 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46417225 original size:92 final size:92
Alignment explanation
Indices: 46417068--46417251 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
46417058 ATCCCTTCTC
46417068 TCACCTATCACCATAACCTCCTCATCCTTTGTAGTTCTTAACACCATTCGTTTAGCAGCACAATC
1 TCACCTATCACCATAACCTCCTCATCCTTTGTAGTTCTTAACACCATTCGTTTAGCAGCACAATC
*
46417133 CAGAGTTGCCTTATGCTTAACAAGCCA
66 CAGAGTCGCCTTATGCTTAACAAGCCA
46417160 TCACCTATCACCATAACCTCCTCATCCTTTGTAGTTCTTAACACCATTCGTTTAGCAGCACAATC
1 TCACCTATCACCATAACCTCCTCATCCTTTGTAGTTCTTAACACCATTCGTTTAGCAGCACAATC
*
46417225 CAGAGTCGCCTTGTGCTTAACAAGCCA
66 CAGAGTCGCCTTATGCTTAACAAGCCA
46417252 ATCCATTCCA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (92 bp):
TCACCTATCACCATAACCTCCTCATCCTTTGTAGTTCTTAACACCATTCGTTTAGCAGCACAATC
CAGAGTCGCCTTATGCTTAACAAGCCA
Found at i:46417246 original size:44 final size:44
Alignment explanation
Indices: 46417104--46417246 Score: 103
Period size: 47 Copynumber: 3.2 Consensus size: 44
46417094 CTTTGTAGTT
* *
46417104 CTTAACACCATTCGTTTAGCAGCACAATCCAGAGTTGCCTTATG
1 CTTAACACCATTCGTTTAGCAGCACAATCCAGAGTCGCCTTGTG
*** * * * ** *
46417148 CTTAACAAGCCA-TCACCTATCACCATAACCTCCTCA-TC-CTTTGTAG
1 CTTAAC-A-CCATTCGTTTAGCAGCACAA--TCCAGAGTCGCCTTGT-G
46417194 TTCTTAACACCATTCGTTTAGCAGCACAATCCAGAGTCGCCTTGTG
1 --CTTAACACCATTCGTTTAGCAGCACAATCCAGAGTCGCCTTGTG
46417240 CTTAACA
1 CTTAACA
46417247 AGCCAATCCA
Statistics
Matches: 69, Mismatches: 20, Indels: 20
0.63 0.18 0.18
Matches are distributed among these distances:
44 13 0.19
45 19 0.28
46 11 0.16
47 20 0.29
48 6 0.09
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (44 bp):
CTTAACACCATTCGTTTAGCAGCACAATCCAGAGTCGCCTTGTG
Found at i:46420286 original size:26 final size:26
Alignment explanation
Indices: 46420250--46420347 Score: 160
Period size: 26 Copynumber: 3.8 Consensus size: 26
46420240 TGAAATTCCC
**
46420250 ATCATGGAACATTTACCTAACTTATT
1 ATCATGGAACATTTACCTAACCCATT
46420276 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46420302 ATAATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46420328 ATCATGGAACATTTACCTAA
1 ATCATGGAACATTTACCTAA
46420348 ATTATGGATA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46421128 original size:14 final size:15
Alignment explanation
Indices: 46421092--46421128 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
46421082 TTTCTTTTTT
*
46421092 TTATTATAACTATTA
1 TTATTATATCTATTA
46421107 -TATTATATC-ATTA
1 TTATTATATCTATTA
46421120 TTATTATAT
1 TTATTATAT
46421129 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:46421145 original size:21 final size:21
Alignment explanation
Indices: 46421094--46421156 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
46421084 TCTTTTTTTT
* *
46421094 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
46421113 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
46421134 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
46421155 AT
1 AT
46421157 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:46422977 original size:20 final size:20
Alignment explanation
Indices: 46422954--46422999 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
46422944 TATATTTACT
46422954 TAATA-AATAAGAATATTATA
1 TAATATAAT-AGAATATTATA
*
46422974 TAATATAATATAATATTATA
1 TAATATAATAGAATATTATA
*
46422994 TTATAT
1 TAATAT
46423000 TATATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAATATAATAGAATATTATA
Found at i:46422989 original size:15 final size:15
Alignment explanation
Indices: 46422965--46423014 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
46422955 AATAAATAAG
46422965 AATATTATATAATAT
1 AATATTATATAATAT
* *
46422980 AATATAATATTATAT
1 AATATTATATAATAT
* *
46422995 TATATTATATTATTAT
1 AATATTATA-TAATAT
46423011 AATA
1 AATA
46423015 CAATGATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 20 0.74
16 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTATATAATAT
Found at i:46422993 original size:18 final size:18
Alignment explanation
Indices: 46422972--46423014 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
46422962 AAGAATATTA
46422972 TATAATATAATATAATAT
1 TATAATATAATATAATAT
* * *
46422990 TATATTATATTATATTAT
1 TATAATATAATATAATAT
46423008 TATAATA
1 TATAATA
46423015 CAATGATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATAATATAATATAATAT
Found at i:46423007 original size:10 final size:10
Alignment explanation
Indices: 46422965--46423004 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
46422955 AATAAATAAG
46422965 AATATTATAT
1 AATATTATAT
*
46422975 AATATAATAT
1 AATATTATAT
46422985 AATATTATAT
1 AATATTATAT
*
46422995 TATATTATAT
1 AATATTATAT
46423005 TATTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATATTATAT
Done.