Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 162 of 378
Found at i:47269578 original size:46 final size:44
Alignment explanation
Indices: 47269474--47269581 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
47269464 TGTCTTTGAC
** * * *
47269474 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
47269518 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
47269564 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
47269582 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:47273989 original size:23 final size:22
Alignment explanation
Indices: 47273962--47274011 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
47273952 TGCCTAAAAT
47273962 GACACACGAGGTGCCTG-ATAC
1 GACACACGAGGTGCCTGAATAC
47273983 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG-AATAC
47274006 GACACA
1 GACACA
47274012 TAAAGTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.12
Consensus pattern (22 bp):
GACACACGAGGTGCCTGAATAC
Found at i:47274019 original size:23 final size:23
Alignment explanation
Indices: 47273937--47274023 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
47273927 CCTGATCAGT
*
47273937 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
47273959 A-ATGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
47273979 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
47274002 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
47274024 TCGATAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 1 0.02
23 19 0.36
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:47276131 original size:29 final size:29
Alignment explanation
Indices: 47276092--47276170 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
47276082 CTTAATAATC
*
47276092 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
47276122 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
47276151 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
47276171 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:47276828 original size:2 final size:2
Alignment explanation
Indices: 47276810--47276845 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
47276800 TGATGGCCGA
* *
47276810 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47276846 CAACTATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47278556 original size:5 final size:5
Alignment explanation
Indices: 47278548--47278574 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47278538 TCTTTAGTTT
47278548 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
47278575 TAAAACATAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:47278605 original size:3 final size:3
Alignment explanation
Indices: 47278599--47278639 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
47278589 TCTTTATTAT
47278599 ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47278640 TACTAAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 8 0.24
3 26 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:47278610 original size:8 final size:8
Alignment explanation
Indices: 47278597--47278641 Score: 90
Period size: 8 Copynumber: 5.6 Consensus size: 8
47278587 TATCTTTATT
47278597 ATATAATA
1 ATATAATA
47278605 ATATAATA
1 ATATAATA
47278613 ATATAATA
1 ATATAATA
47278621 ATATAATA
1 ATATAATA
47278629 ATATAATA
1 ATATAATA
47278637 ATATA
1 ATATA
47278642 CTAAACATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:47283076 original size:40 final size:40
Alignment explanation
Indices: 47282996--47283213 Score: 304
Period size: 40 Copynumber: 5.5 Consensus size: 40
47282986 ACCCAAGTTT
* * *
47282996 CTTCGGGAT-TTAG-CCGGATATAACCACAT-GCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAAC-TCGCACAAATGC
* * *
47283035 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
47283075 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
47283115 CTTCGGGTCTTAGCCCGGATATAACAACT---ACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
47283152 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
47283192 CTTTGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
47283214 CATTCAAATG
Statistics
Matches: 162, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
37 37 0.23
38 1 0.01
39 11 0.07
40 113 0.70
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:47283179 original size:77 final size:78
Alignment explanation
Indices: 47282996--47283213 Score: 300
Period size: 77 Copynumber: 2.8 Consensus size: 78
47282986 ACCCAAGTTT
* * * * *
47282996 CTTCGGGAT-TTAG-CCGGATATAACCACAT-GCCCAATTGCCTTCGGGTCTTAACCCGGACATA
1 CTTCGGG-TCTTAGCCCGGATATAACAAC-TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
*
47283058 GCAACTCGCACAAATGC
64 ACAACT--CACAAATGC
47283075 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAC
47283140 AACT-ACAAATGC
66 AACTCACAAATGC
* *
47283152 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTTGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
47283214 CATTCAAATG
Statistics
Matches: 128, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
77 68 0.53
78 1 0.01
79 12 0.09
80 47 0.37
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (78 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAC
AACTCACAAATGC
Found at i:47284004 original size:2 final size:2
Alignment explanation
Indices: 47283999--47284024 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47283989 ATTCGGCAAC
47283999 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47284025 GTCAATGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47286162 original size:35 final size:35
Alignment explanation
Indices: 47286122--47286273 Score: 142
Period size: 35 Copynumber: 4.3 Consensus size: 35
47286112 GTATGTACAT
*
47286122 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
* * * * *
47286157 ATGTGATGTTATATTAAACTTCAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
* * * * * * *
47286192 CTGTGATGTTTTATTGAGCTTGAATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
* * * * *
47286227 ATATGATGATAAATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
47286262 ATGTGATGATAT
1 ATGTGATGATAT
47286274 GATAAACCTT
Statistics
Matches: 89, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 89 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGAATATTTGGCCAC
Found at i:47295501 original size:12 final size:13
Alignment explanation
Indices: 47295484--47295534 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 13
47295474 TTTTAATAAG
47295484 ATTTAATATTAA-
1 ATTTAATATTAAT
47295496 ATTTAAT-TTAAT
1 ATTTAATATTAAT
47295508 ATTTAAATATT-AT
1 ATTT-AATATTAAT
47295521 A-TTAAT-TTAAT
1 ATTTAATATTAAT
47295532 ATT
1 ATT
47295535 AAAATGATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.06
11 10 0.29
12 14 0.41
13 6 0.18
14 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTAATATTAAT
Found at i:47295535 original size:62 final size:61
Alignment explanation
Indices: 47295339--47295535 Score: 159
Period size: 62 Copynumber: 3.1 Consensus size: 61
47295329 ATTCCAAAAA
* * *
47295339 TAATATTATTTTAATAG-TTTAATATTAAATTTAACTTAATAGTTATCTTAATAGATTTTATTAA
1 TAATATTATTTTAATAGATTTAATATTAAATTTAA-TT--TA-ATAT-TTAA-ATATTATATTAA
47295403 TT
60 TT
*** * * ** * *
47295405 TAATATTAAAGTGAT-TATCTTAATATTAAATTTAATTTAATATTTATCT-TGTAGATAAATAT
1 TAATATTATTTTAATAGAT-TTAATATTAAATTTAATTTAATATTTAAATAT-TATATTAAT-T
*
47295467 T-CTATTATTTTAATAAGATTTAATATTAAATTTAATTTAATATTTAAATATTATATTAATT
1 TAATATTATTTTAAT-AGATTTAATATTAAATTTAATTTAATATTTAAATATTATATTAATT
47295528 TAATATTA
1 TAATATTA
47295536 AAATGATTAA
Statistics
Matches: 100, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
60 1 0.01
61 16 0.16
62 45 0.45
63 6 0.06
64 2 0.02
66 14 0.14
67 16 0.16
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (61 bp):
TAATATTATTTTAATAGATTTAATATTAAATTTAATTTAATATTTAAATATTATATTAATT
Found at i:47307666 original size:20 final size:21
Alignment explanation
Indices: 47307636--47307674 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
47307626 CCGTAGCCCT
47307636 AAACTCTTGAATCTTAAACCC
1 AAACTCTTGAATCTTAAACCC
47307657 AAAC-CTTGAATCTTAAAC
1 AAACTCTTGAATCTTAAAC
47307675 TCATAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (21 bp):
AAACTCTTGAATCTTAAACCC
Found at i:47311955 original size:2 final size:2
Alignment explanation
Indices: 47311948--47311976 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47311938 AATTTTAGTT
47311948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47311977 TCTGATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47318745 original size:19 final size:18
Alignment explanation
Indices: 47318704--47318748 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
47318694 ATGTATTTAT
47318704 ATAATTT-ATTTTAATAA
1 ATAATTTAATTTTAATAA
*
47318721 AAAATTTAATTTTATATAA
1 ATAATTTAATTTTA-ATAA
*
47318740 TTAATTTAA
1 ATAATTTAA
47318749 GTAATCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAATTTAATTTTAATAA
Found at i:47318903 original size:23 final size:21
Alignment explanation
Indices: 47318845--47318903 Score: 50
Period size: 23 Copynumber: 2.7 Consensus size: 21
47318835 ATGCAATAAA
47318845 TAATAATATTATTT-CGAATTC
1 TAATAATATT-TTTGCGAATTC
*
47318866 TAA-AATAAGTATTTGCGTAATTGC
1 TAATAAT-A-TTTTTGCG-AATT-C
47318890 TAATAATATTTTTG
1 TAATAATATTTTTG
47318904 TTTTGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
20 3 0.10
21 7 0.23
22 3 0.10
23 9 0.30
24 5 0.17
25 3 0.10
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (21 bp):
TAATAATATTTTTGCGAATTC
Found at i:47320279 original size:18 final size:18
Alignment explanation
Indices: 47320256--47320291 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47320246 ACTACAAATC
47320256 TATAAAAACAAAAAAGGG
1 TATAAAAACAAAAAAGGG
* *
47320274 TATAAAATCAAAGAAGGG
1 TATAAAAACAAAAAAGGG
47320292 GACTTACCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.19, T:0.14
Consensus pattern (18 bp):
TATAAAAACAAAAAAGGG
Found at i:47333039 original size:42 final size:44
Alignment explanation
Indices: 47332977--47333089 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
47332967 ATGATGGGCT
**
47332977 TTAACCCCTTAAGCAGTAGGGTAACAAGC-CGA-ATTTACA-AGCC
1 TTAACCCC-TAAGCAGTAGGGTAACAAGCTAAAGATTTACAGA-CC
* *
47333020 TTAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATC
1 TTAACCCCTAAGCAGTAGGGTAACAAGCTAAAGATTTACAGACC
*
47333064 TTAACCCCCTAAGCAGTAGGGAAACA
1 TTAA-CCCCTAAGCAGTAGGGTAACA
47333090 GATCAAAGAC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 19 0.31
43 9 0.15
44 12 0.20
45 21 0.34
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (44 bp):
TTAACCCCTAAGCAGTAGGGTAACAAGCTAAAGATTTACAGACC
Found at i:47333110 original size:44 final size:44
Alignment explanation
Indices: 47333060--47333393 Score: 216
Period size: 44 Copynumber: 7.7 Consensus size: 44
47333050 AAGATTTACA
47333060 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAG
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAG
* * * * * ** *
47333104 GGTCTTAAACCCCTAAGTAGTAGGGTAACAGACCAAA-TTGCA-
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAG
* * *
47333146 GATCTTATCCCCCTAAGCAGTGGGGAAACAGATCAAAGACAAAG
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAG
* * * * **
47333190 GGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTAC--A-
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGACGAAG
* * * * * * *
47333232 GATCTTATCTCCCTAAGCATTAGTGGAGATA-ATCGAGGACGAAG
1 GATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCAAAGACGAAG
* * * * * * **
47333276 AACCTTAAACCCCTAAGCAGTAGGGCAACAGGTTAAATTC-ACA-
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGA-AG
* * * * *
47333319 GATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGACGATG
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAG
** * *
47333363 GGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAG
47333394 GCTAGAAATC
Statistics
Matches: 207, Mismatches: 72, Indels: 22
0.69 0.24 0.07
Matches are distributed among these distances:
41 3 0.01
42 50 0.24
43 42 0.20
44 108 0.52
45 4 0.02
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (44 bp):
GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAG
Found at i:47333123 original size:86 final size:87
Alignment explanation
Indices: 47333017--47333402 Score: 408
Period size: 86 Copynumber: 4.4 Consensus size: 87
47333007 GAATTTACAA
*
47333017 GCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGCAGT
1 GCCTTAAACCCCTAAG-AGTAGGGTAACAGGCTAAA-ATTTACAGATCTTATCCCCCTAAGCAGT
47333081 AGGGAAACAGATCAAAGACGAAGG
64 AGGGAAACAGATCAAAGACGAAGG
* * * * *
47333105 GTCTTAAACCCCTAAGTAGTAGGGTAACAGAC-CAAA-TTGCAGATCTTATCCCCCTAAGCAGTG
1 GCCTTAAACCCCTAAG-AGTAGGGTAACAGGCTAAAATTTACAGATCTTATCCCCCTAAGCAGTA
*
47333168 GGGAAACAGATCAAAGACAAAGG
65 GGGAAACAGATCAAAGACGAAGG
* * ** * *
47333191 GTCTTAAACCCCTAAGCAGTAGGGTAACAGAC-CGAA-TTACAGATCTTATCTCCCTAAGCATTA
1 GCCTTAAACCCCTAAG-AGTAGGGTAACAGGCTAAAATTTACAGATCTTATCCCCCTAAGCAGTA
* * * * *
47333254 GTGGAGATA-ATCGAGGACGAAGA
65 G-GGAAACAGATCAAAGACGAAGG
* * * * * *
47333277 ACCTTAAACCCCTAAGCAGTAGGGCAACAGG-TTAAATTCACAGATCTTATCACCCTAAGTAGTA
1 GCCTTAAACCCCTAAG-AGTAGGGTAACAGGCTAAAATTTACAGATCTTATCCCCCTAAGCAGTA
* *
47333341 GGGAAACAGATCGAAGACGATGG
65 GGGAAACAGATCAAAGACGAAGG
*
47333364 GCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAGAAAT
1 GCCTTAAACCCCTAAG-AGTAGGGTAACAGGCTA-AAAT
47333403 CAAATATCCT
Statistics
Matches: 251, Mismatches: 40, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
86 148 0.59
87 68 0.27
88 7 0.03
89 28 0.11
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGAGTAGGGTAACAGGCTAAAATTTACAGATCTTATCCCCCTAAGCAGTAG
GGAAACAGATCAAAGACGAAGG
Found at i:47333161 original size:131 final size:131
Alignment explanation
Indices: 47332927--47333176 Score: 319
Period size: 131 Copynumber: 1.9 Consensus size: 131
47332917 GGCAAATTCG
* * * * * *
47332927 CAGATCTTGACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCTTTAACCCCTTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGCTTAAACCCCTTAAGCA
* *
47332992 GTAGGGTAACAAGCCGAATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTT
66 GTAGGGTAACAAGCCGAAATTACAAGCCTTAACCCCTAAGCAGTAGGGAAACAGGCTAAAGATTT
47333057 A
131 A
*
47333058 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTCTTAAACCCC-TAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGG-CTTAAACCCCTTAAGC
* * * *
47333122 AGTAGGGTAAC-AGACC-AAATTGC-AGATCTTATCCCCCTAAGCAGTGGGGAAACAG
65 AGTAGGGTAACAAG-CCGAAATTACAAG-CCTTA-ACCCCTAAGCAGTAGGGAAACAG
47333177 ATCAAAGACA
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
129 2 0.02
130 11 0.11
131 80 0.78
132 9 0.09
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (131 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGCTTAAACCCCTTAAGCA
GTAGGGTAACAAGCCGAAATTACAAGCCTTAACCCCTAAGCAGTAGGGAAACAGGCTAAAGATTT
A
Found at i:47333176 original size:42 final size:42
Alignment explanation
Indices: 47332919--47333250 Score: 174
Period size: 44 Copynumber: 7.7 Consensus size: 42
47332909 GCAACATCGG
* *
47332919 CAAATTCGCAGATCTTGACCCCCTAAGCAGTAGGGAAATAGATC
1 CAAATT-GCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA-C
* ** * *
47332963 GAAGA-TG-ATGGGCTTTAACCCCTTAAGCAGTAGGGTAACA-AGC
1 CAA-ATTGCA-GATC-TTAACCCCCTAAGCAGTAGGGAAACAGA-C
* * * * *
47333006 CGAATTTACA-AGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGC
1 C-AAATTGCAGA-TCTTAACCCCCTAAGCAGTAGGGAAACAGAC
* * *
47333048 TAAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
1 -CAA-A-TTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAC
** * * * * *
47333093 CAAAGACGAAGGGTCTTAAACCCCTAAGTAGTAGGGTAACAGAC
1 CAAA-TTGCA-GATCTTAACCCCCTAAGCAGTAGGGAAACAGAC
* * *
47333137 CAAATTGCAGATCTTATCCCCCTAAGCAGTGGGGAAACAGAT
1 CAAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAC
* * *
47333179 CAAA--GACAAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGAC
1 CAAATTG-C--A-GATCTTAACCCCCTAAGCAGTAGGGAAACAGAC
* * * *
47333223 CGAATTACAGATCTTATCTCCCTAAGCA
1 CAAATTGCAGATCTTAACCCCCTAAGCA
47333251 TTAGTGGAGA
Statistics
Matches: 214, Mismatches: 54, Indels: 42
0.69 0.17 0.14
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 69 0.32
43 15 0.07
44 103 0.48
45 25 0.12
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (42 bp):
CAAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAC
Found at i:47333184 original size:131 final size:129
Alignment explanation
Indices: 47332927--47333392 Score: 312
Period size: 131 Copynumber: 3.6 Consensus size: 129
47332917 GGCAAATTCG
* * * * * *
47332927 CAGATCTTGACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCTTTAACCCCTTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGCTTAAACCCCTTAAGCA
* * *
47332992 GTAGGGTAACAAGCCGAATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTT
66 GTAGGGTAACAAGCCGAAATTACAAGCCTTAACCCCTAAGCAGTAGGGAAACAGGCTAAAGA--C
47333057 A
129 A
*
47333058 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTCTTAAACCCC-TAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGG-CTTAAACCCCTTAAGC
* * * * *
47333122 AGTAGGGTAAC-AGACC-AAATTGC-AGATCTTATCCCCCTAAGCAGTGGGGAAACA-GATCAAA
65 AGTAGGGTAACAAG-CCGAAATTACAAG-CCTTA-ACCCCTAAGCAGTAGGGAAACAGGCT-AAA
47333183 GACA
126 GACA
* * * * * ** ** *
47333187 AAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTAC--AGATCTT-ATCTCCC-TAA
1 CA-GATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGACGAAGGGCTTAAAC-CCCTTAA
* * * ** * *
47333248 GCATTAGTGG-AGATAA-TCG--AGGACGAAGAACCTTAAACCCCTAAGCAGTAGGGCAACAGGT
63 GCAGTAG-GGTA-ACAAGCCGAAATTAC-AAG--CCTT-AACCCCTAAGCAGTAGGGAAACAGGC
**
47333309 TAAATTCA
122 TAAAGACA
* * * * * * *
47333317 CAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGACGATGGGCCTT-AACCCCCTAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGG-CTTAAACCCCTTAAGC
47333381 AGTAGGGTAACA
65 AGTAGGGTAACA
47333393 GGCTAGAAAT
Statistics
Matches: 256, Mismatches: 57, Indels: 45
0.72 0.16 0.13
Matches are distributed among these distances:
127 4 0.02
128 19 0.07
129 38 0.15
130 81 0.32
131 105 0.41
132 9 0.04
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (129 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGCTTAAACCCCTTAAGCA
GTAGGGTAACAAGCCGAAATTACAAGCCTTAACCCCTAAGCAGTAGGGAAACAGGCTAAAGACA
Found at i:47333418 original size:173 final size:172
Alignment explanation
Indices: 47333107--47333420 Score: 405
Period size: 173 Copynumber: 1.8 Consensus size: 172
47333097 GACGAAGGGT
* * * * *
47333107 CTTAAACCCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCCCCCTAAGCAGTGGGGA
1 CTTAAACCCCTAAGCAGTAGGGCAACAGACCAAATTACAGATCTTATCACCCTAAGCAGTAGGGA
* * * * *
47333172 AACAGATCAAAGACAAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTACAGATCT
66 AACAGATCAAAGACAAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGACAGAAATACAAATAT
*
47333237 TATCTCCCTAAGCATTAGTGGAGATAATCGAGGACGAAGAAC
131 CATCTCCCTAAGCATTAGTGGAGATAATCGAGGACGAAGAAC
*** *
47333279 CTTAAACCCCTAAGCAGTAGGGCAACAGGTTAAATTCACAGATCTTATCACCCTAAGTAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGCAACAGACCAAATT-ACAGATCTTATCACCCTAAGCAGTAGGG
* * * * * *
47333344 AAACAGATCGAAGACGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAGAAAT-CAAAT
65 AAACAGATCAAAGACAAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGAC-AGAAATACAAAT
*
47333408 ATCCTCTCCCTAA
129 ATCATCTCCCTAA
47333421 AACAGCTTTG
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
172 31 0.26
173 83 0.70
174 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (172 bp):
CTTAAACCCCTAAGCAGTAGGGCAACAGACCAAATTACAGATCTTATCACCCTAAGCAGTAGGGA
AACAGATCAAAGACAAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGACAGAAATACAAATAT
CATCTCCCTAAGCATTAGTGGAGATAATCGAGGACGAAGAAC
Found at i:47333854 original size:132 final size:132
Alignment explanation
Indices: 47333583--47333862 Score: 339
Period size: 132 Copynumber: 2.1 Consensus size: 132
47333573 AGTTACAGAG
* * *
47333583 GAGCAGA-CTGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCA
1 GAGCAGATC-GAAGATAGCAGATCTGACATTCCTATACTTACAGTGAAGCAGATCAAAGATTTCA
* * * *
47333647 GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTAT
65 GCATCGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGACATCCCTGTGATTAT
*
47333712 AGG
130 AGA
* * ***
47333715 GAACAGATCGAAGATAGCATATCTGACATTCCTATACTTACAGTGAAGCAGATTGGAGATTTCAG
1 GAGCAGATCGAAGATAGCAGATCTGACATTCCTATACTTACAGTGAAGCAGATCAAAGATTTCAG
* * * * ** *
47333780 CATCGTATCCCTGTGTTTATAGGGAACAAGTTGAAGATAACAGATTTGATGTCTCTGT-ATTGAT
66 CATCGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGACATCCCTGTGATT-AT
47333844 AGA
130 AGA
*
47333847 GAGCAGATCAAAGATA
1 GAGCAGATCGAAGATA
47333863 ACAGGTTTGG
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
131 2 0.02
132 121 0.98
133 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
GAGCAGATCGAAGATAGCAGATCTGACATTCCTATACTTACAGTGAAGCAGATCAAAGATTTCAG
CATCGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGACATCCCTGTGATTATA
GA
Found at i:47333917 original size:45 final size:44
Alignment explanation
Indices: 47333813--47333958 Score: 161
Period size: 45 Copynumber: 3.3 Consensus size: 44
47333803 GAACAAGTTG
*
47333813 AAGATAACAGATTT-GATGTCTCTGTATTGATAGAGAGCAGATCA
1 AAGATAACAGATTTGGA-GTCTCTGTATTGACAGAGAGCAGATCA
* * *
47333857 AAGATAACAGGTTTGGCGTCTCTGTGTTGACAGAAGAGCAGATCGA
1 AAGATAACAGATTTGGAGTCTCTGTATTGACAG-AGAGCAGATC-A
* * * *
47333903 AA-ATGACAGATTTGGAGTCTCTGTATTAGACGGGGAACAGATCA
1 AAGATAACAGATTTGGAGTCTCTGTATT-GACAGAGAGCAGATCA
*
47333947 AAGATAGCAGAT
1 AAGATAACAGAT
47333959 ATCGCATTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
44 30 0.36
45 47 0.56
46 7 0.08
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (44 bp):
AAGATAACAGATTTGGAGTCTCTGTATTGACAGAGAGCAGATCA
Found at i:47350018 original size:40 final size:40
Alignment explanation
Indices: 47349907--47350057 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
47349897 TTTGAGCTAC
* * *
47349907 TTTCAGTAGAA-TCAGTATGTATGGCTCAATAGAGCATAC-
1 TTTCAGTA-AATTCAGTAGGTATGGCTCGATAGCGCATACA
* * *
47349946 TTTCAGTAGAA-TCAATAGGAATAGCTCGATAGCGCATACA
1 TTTCAGTA-AATTCAGTAGGTATGGCTCGATAGCGCATACA
* *
47349986 TTTCAATAAATTCAGTAGGTATGGCTCCATAGCGCATACA
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAGCGCATACA
* *
47350026 TTTCAGTATATTCAGTAGGTATGACTCGATAG
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAG
47350058 TATTTCAACT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 35 0.37
40 60 0.63
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (40 bp):
TTTCAGTAAATTCAGTAGGTATGGCTCGATAGCGCATACA
Found at i:47359698 original size:23 final size:23
Alignment explanation
Indices: 47359640--47359700 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
47359630 GACACATAAA
*
47359640 GTGCCT-AAA-ACGACATACGAG
1 GTGCCTGAAATACGACACACGAG
47359661 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
47359682 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
47359701 AAGTGCCTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.69
23 10 0.29
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:47359706 original size:21 final size:21
Alignment explanation
Indices: 47359638--47359710 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
47359628 ATGACACATA
* *
47359638 AAGTGCCT-AAAACGACATAC
1 AAGTGCCTGAATACGACACAC
*
47359658 GAGGTGCCTG-ATACGACACAC
1 -AAGTGCCTGAATACGACACAC
*
47359679 GAGGTGCCTGAAATACGACACA-
1 -AAGTGCCTG-AATACGACACAC
47359701 AAGTGCCTGA
1 AAGTGCCTGA
47359711 TCAGTAAAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
20 1 0.02
21 34 0.76
23 10 0.22
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (21 bp):
AAGTGCCTGAATACGACACAC
Found at i:47360686 original size:14 final size:14
Alignment explanation
Indices: 47360667--47360694 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47360657 TTTATTCATC
47360667 CTATAATTTAATTT
1 CTATAATTTAATTT
47360681 CTATAATTTAATTT
1 CTATAATTTAATTT
47360695 ATTCTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
CTATAATTTAATTT
Found at i:47360895 original size:231 final size:231
Alignment explanation
Indices: 47360492--47360920 Score: 849
Period size: 231 Copynumber: 1.9 Consensus size: 231
47360482 AAATAGACTC
47360492 ATTATTTTTCTTCAACTTTTTGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTTATTCTGA
1 ATTATTTTTCTTCAACTTTTTGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTTATTCTGA
47360557 CCTTGTCTCACAAAATTCATTATATCTCTTAATTTACAATTCAATTGCTTATATCGTTTCTTCTA
66 CCTTGTCTCACAAAATTCATTATATCTCTTAATTTACAATTCAATTGCTTATATCGTTTCTTCTA
*
47360622 TAAGAAACTAGACTCAATAAGATTTAATTCCATATTTTATTCATCCTATAATTTAATTTCTATAA
131 TAAGAAACTAGACTCAATAAGATTTAATTCCATATTTTATTCATCCTATAATTTAATTTCTACAA
47360687 TTTAATTTATTCTAAACATATAACTTTAAGCCTCTA
196 TTTAATTTATTCTAAACATATAACTTTAAGCCTCTA
47360723 ATTATTTTTCTTCAACTTTTTGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTTATTCTGA
1 ATTATTTTTCTTCAACTTTTTGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTTATTCTGA
47360788 CCTTGTCTCACAAAATTCATTATATCTCTTAATTTACAATTCAATTGCTTATATCGTTTCTTCTA
66 CCTTGTCTCACAAAATTCATTATATCTCTTAATTTACAATTCAATTGCTTATATCGTTTCTTCTA
47360853 TAAGAAACTAGACTCAATAAGATTTAATTCCATATTTTATTCATCCTATAATTTAATTTCTACAA
131 TAAGAAACTAGACTCAATAAGATTTAATTCCATATTTTATTCATCCTATAATTTAATTTCTACAA
47360918 TTT
196 TTT
47360921 TTGGTGATTT
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
231 197 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (231 bp):
ATTATTTTTCTTCAACTTTTTGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTTATTCTGA
CCTTGTCTCACAAAATTCATTATATCTCTTAATTTACAATTCAATTGCTTATATCGTTTCTTCTA
TAAGAAACTAGACTCAATAAGATTTAATTCCATATTTTATTCATCCTATAATTTAATTTCTACAA
TTTAATTTATTCTAAACATATAACTTTAAGCCTCTA
Found at i:47369545 original size:47 final size:47
Alignment explanation
Indices: 47369393--47369569 Score: 177
Period size: 47 Copynumber: 3.8 Consensus size: 47
47369383 TGTAGCCCGC
* * * * *
47369393 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--GTGATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTCACAT
*
47369439 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTCACAT
* * *
47369489 -C-TCA-CGAACTCGGACTCAACTTAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
*
47369533 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47369570 TGTTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 36 0.34
47 55 0.51
48 2 0.02
49 1 0.01
50 3 0.03
51 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
Found at i:47370025 original size:30 final size:30
Alignment explanation
Indices: 47369991--47370050 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47369981 CCTTAATACG
47369991 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
47370021 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
47370051 GGCTCGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:47373377 original size:28 final size:27
Alignment explanation
Indices: 47373314--47373383 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47373304 ATAGTGAGTC
47373314 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47373341 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47373369 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47373384 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47380044 original size:47 final size:46
Alignment explanation
Indices: 47379976--47380064 Score: 151
Period size: 47 Copynumber: 1.9 Consensus size: 46
47379966 TGTAACCCGC
*
47379976 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
47380022 CCATAAGTGAAACTCGGACTCAACTCAACGAGTTCGGATGTTC
1 CCATAAGTG-AACTCGGACTCAACTCAACGAGCTCGGATGTTC
47380065 AACCATCCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 9 0.22
47 31 0.77
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:47380513 original size:30 final size:30
Alignment explanation
Indices: 47380479--47380538 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47380469 CCTTAATACG
47380479 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
47380509 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
47380539 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:47385130 original size:30 final size:30
Alignment explanation
Indices: 47385096--47385155 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47385086 CCTTAATACG
47385096 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
47385126 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
47385156 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:47392141 original size:93 final size:94
Alignment explanation
Indices: 47392034--47392204 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 94
47392024 GCCCATAAGT
* *
47392034 GAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCATCCATAAGTGAACTCT-GACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGGAGAGTTCACATCCATAAGTGAACT-TGGACTCAACTC
47392097 AACGAGTTCGGATGCCTAGTTACATCTCAC
65 AACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
47392127 GAACTCGGACTCAACTCAACGAGTTCGGATATTTCACATCCATAAGTGAACTTGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAGAGTTCACATCCATAAGTGAACTTGGACTCAACTCA
47392192 ACGAGTTCGGATG
66 ACGAGTTCGGATG
47392205 TTCAGCCATC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
93 28 0.39
94 43 0.61
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (94 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAGAGTTCACATCCATAAGTGAACTTGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47392178 original size:47 final size:47
Alignment explanation
Indices: 47392026--47392208 Score: 207
Period size: 47 Copynumber: 3.9 Consensus size: 47
47392016 TGTAACCCGC
* ** *
47392026 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATAGTTCACAT
*
47392072 CCATAAGTGAACTCTGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA----TAGTTCACAT
* * *
47392122 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATAGTTCACAT
*
47392166 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGAT-GTTCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATAGTTCA
47392209 GCCATCCTAG
Statistics
Matches: 115, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 4 0.03
45 1 0.01
46 40 0.35
47 57 0.50
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATAGTTCACAT
Found at i:47392657 original size:30 final size:30
Alignment explanation
Indices: 47392623--47392679 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47392613 CCTTAATACG
47392623 AACTTTGGCAAAATTAC-CATTTTGCCCTTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCTTA
* *
47392653 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGCAAAATTACACTTTTGCCC
47392680 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCTTA
Found at i:47394278 original size:43 final size:43
Alignment explanation
Indices: 47394221--47394328 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
47394211 GATTAACGAG
* * *
47394221 ATGTGATTATGTGTAAGACCATGCCTGGGACATTGGCATCATT
1 ATGTGATCACGTGTAAGACCATGCCTGGCACATTGGCATCATT
* * * *
47394264 ATGTGGTCACGTGTAAGACTATGTCTGGCACATTGGCATCGTT
1 ATGTGATCACGTGTAAGACCATGCCTGGCACATTGGCATCATT
* **
47394307 ATTTGATTTCGTGTAAGACCAT
1 ATGTGATCACGTGTAAGACCAT
47394329 AGCTGGGCTA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
ATGTGATCACGTGTAAGACCATGCCTGGCACATTGGCATCATT
Found at i:47406621 original size:20 final size:20
Alignment explanation
Indices: 47406577--47406615 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47406567 CAATAGCTTC
*
47406577 ATTAAAATAAGGTTTATTAA
1 ATTAAAATAAGGTTAATTAA
*
47406597 ATTAAAGTAAGGTTAATTA
1 ATTAAAATAAGGTTAATTA
47406616 TTTTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTAAAATAAGGTTAATTAA
Found at i:47407756 original size:20 final size:19
Alignment explanation
Indices: 47407720--47407771 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
47407710 TACACTTATG
47407720 CGCCAAGATGCACCTTGTA
1 CGCCAAGATGCACCTTGTA
*
47407739 CGCCAAGTATGCATCTTGTA
1 CGCCAAG-ATGCACCTTGTA
* *
47407759 CGTCAGGATGCAC
1 CGCCAAGATGCAC
47407772 TTCGATGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (19 bp):
CGCCAAGATGCACCTTGTA
Found at i:47409633 original size:48 final size:48
Alignment explanation
Indices: 47409581--47409850 Score: 263
Period size: 48 Copynumber: 5.6 Consensus size: 48
47409571 TATGTCGAGG
* * * * ** *
47409581 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATA
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTA
* * * *
47409629 CCGATGCCATG-TCTCAGACATGCTCTTACTCTGGCTCTCGTAACATTA
1 CCGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCTCATAACATTA
* * * * *
47409677 CTGATGCCATGTTCCAAAAATGGTCTTACATTGGGTCTCATAACATTG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTA
* *
47409725 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATTG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTA
* * * * ** **
47409773 CCAATGCCATGTTCCAAACATGGTCTTGCACTAGCTTTCATAATGTGG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTA
* * *
47409821 TCGATTCCATGTCCCAAACATGGTCTTACA
1 CCGATGCCATGTTCCAAACATGGTCTTACA
47409851 GTAGCACACA
Statistics
Matches: 188, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 185 0.98
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (48 bp):
CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTA
Found at i:47413901 original size:39 final size:40
Alignment explanation
Indices: 47413812--47413904 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 40
47413802 TAGCGACTTT
* **
47413812 CACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTG
1 CACGAATGCCTTCGGGACTTAACCCGGATTTAGTAACCCG
* * *
47413852 CAC-AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGATTTAGTAACCCG
47413890 CACGAATGCCTTCGG
1 CACGAATGCCTTCGG
47413905 ATCCTAGTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 20 0.44
39 22 0.49
40 3 0.07
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CACGAATGCCTTCGGGACTTAACCCGGATTTAGTAACCCG
Found at i:47413957 original size:40 final size:39
Alignment explanation
Indices: 47413774--47413957 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
47413764 ACGACTCGCT
** * ** *
47413774 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTTCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
47413814 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * **
47413854 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACCCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
47413892 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
47413933 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
47413958 CATCATTCGA
Statistics
Matches: 112, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
38 23 0.21
39 20 0.18
40 60 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:47421894 original size:40 final size:39
Alignment explanation
Indices: 47421850--47421978 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
47421840 GACTCGCTCA
*
47421850 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
47421889 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
47421929 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
47421967 GAATGCCTTCGG
1 -AATGCCTTCGG
47421979 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:47421978 original size:78 final size:80
Alignment explanation
Indices: 47421885--47422031 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
47421875 ATAGCGACTT
* * *
47421885 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
47421947 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
47421963 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
47422028 CGGA
66 CGGA
47422032 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:47422015 original size:40 final size:37
Alignment explanation
Indices: 47421866--47422031 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
47421856 TTCGGGACGA
* ** *
47421866 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
47421906 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
47421944 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
47421984 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
47422024 AGCCCGGA
1 AGCCCGGA
47422032 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:47428729 original size:48 final size:48
Alignment explanation
Indices: 47428622--47428777 Score: 127
Period size: 48 Copynumber: 3.2 Consensus size: 48
47428612 GGGTAAATTA
* ** * * * * *
47428622 CCGATACCATGTCCCAGACATGGTCTTACACCGGCTCACATGTCGAGG
1 CCGATACCATGTCCAAGACATGGTCTTACACTAGCTCTCGTATCAATG
* * *
47428670 CTGATATCATGTCCAAGACATGGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATACCATGTCCAAGACATGGTCTTACACTAGCTCTCGTATCAATG
* * * *
47428718 CCGATGCCATGTCCCAA-ACTTGGTCTTA-ATCTAGCTCTCGTAACATTG
1 CCGATACCATGT-CCAAGACATGGTCTTACA-CTAGCTCTCGTATCAATG
* *
47428766 TCGATGCCATGT
1 CCGATACCATGT
47428778 AACACCCCTA
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 83 0.94
49 4 0.05
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATACCATGTCCAAGACATGGTCTTACACTAGCTCTCGTATCAATG
Found at i:47433505 original size:15 final size:16
Alignment explanation
Indices: 47433476--47433510 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
47433466 TATAAAATAA
47433476 ATTAAAAAAAGTTCAT
1 ATTAAAAAAAGTTCAT
*
47433492 ATTAAAACAA-TTCAT
1 ATTAAAAAAAGTTCAT
47433507 ATTA
1 ATTA
47433511 TTTTAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTAAAAAAAGTTCAT
Found at i:47441057 original size:7 final size:7
Alignment explanation
Indices: 47441045--47441070 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
47441035 ACCTTTAATG
47441045 AAAAGGC
1 AAAAGGC
47441052 AAAAGGC
1 AAAAGGC
47441059 AAAAGGC
1 AAAAGGC
47441066 AAAAG
1 AAAAG
47441071 CCCCCACTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.27, T:0.00
Consensus pattern (7 bp):
AAAAGGC
Found at i:47442218 original size:23 final size:25
Alignment explanation
Indices: 47442173--47442241 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 25
47442163 ATAAAAACAT
* *
47442173 ATAAATATTTTAAATATATATAATG
1 ATAAATATTTAAAATATAAATAATG
47442198 ATAAA-ATTTAAAAT-TAAATAA--
1 ATAAATATTTAAAATATAAATAATG
47442219 AT--ATATTTAAAATATATAATAAT
1 ATAAATATTTAAAATATA-AATAAT
47442242 ATTAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 4 0.11
22 5 0.13
23 6 0.16
24 8 0.21
25 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (25 bp):
ATAAATATTTAAAATATAAATAATG
Found at i:47442246 original size:18 final size:18
Alignment explanation
Indices: 47442225--47442268 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
47442215 ATAAATATAT
47442225 TTAAAATATATAATAATA
1 TTAAAATATATAATAATA
*
47442243 TTAAAATATATAATTATA
1 TTAAAATATATAATAATA
*
47442261 TAAAAATA
1 TTAAAATA
47442269 AATTAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAATATATAATAATA
Found at i:47442258 original size:45 final size:42
Alignment explanation
Indices: 47442173--47442264 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 42
47442163 ATAAAAACAT
*
47442173 ATAAATATTTTAAATATATATAATGATAAAATTTAAAATTAA
1 ATAAATATTTTAAATATATATAATGATAAAATATAAAATTAA
* *
47442215 ATAAATATATTTAAAATATATAATAAT-ATTAAAATATATAATTAT
1 ATAAATAT-TTT-AAATATAT-ATAATGA-TAAAATATAAAATTAA
47442260 ATAAA
1 ATAAA
47442265 AATAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 8 0.19
43 3 0.07
44 9 0.21
45 23 0.53
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (42 bp):
ATAAATATTTTAAATATATATAATGATAAAATATAAAATTAA
Found at i:47442272 original size:15 final size:17
Alignment explanation
Indices: 47442226--47442273 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
47442216 TAAATATATT
*
47442226 TAAAATATATAATAATA
1 TAAAATATATAATTATA
47442243 TTAAAATATATAATTATA
1 -TAAAATATATAATTATA
47442261 TAAAA-ATA-AATTA
1 TAAAATATATAATTA
47442274 AAATCCTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 5 0.17
18 16 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATATATAATTATA
Found at i:47449444 original size:15 final size:15
Alignment explanation
Indices: 47449424--47449492 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
47449414 GTATCTTGGG
47449424 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
47449439 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
47449454 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
47449469 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
47449484 TTTCTTTAT
1 TTTCTTTAT
47449493 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:47449493 original size:30 final size:30
Alignment explanation
Indices: 47449415--47449502 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
47449405 CATAGTATCG
* * * *
47449415 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
47449445 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
47449475 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
47449503 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:47451965 original size:47 final size:46
Alignment explanation
Indices: 47451847--47452017 Score: 183
Period size: 45 Copynumber: 3.7 Consensus size: 46
47451837 GGGATATTTG
*
47451847 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
47451894 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
47451939 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
47451987 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
47452018 GCTTATGGGC
Statistics
Matches: 105, Mismatches: 10, Indels: 19
0.78 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 27 0.26
47 31 0.30
48 5 0.05
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:47452016 original size:46 final size:46
Alignment explanation
Indices: 47451852--47452025 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
47451842 ATTTGGGCAT
* *
47451852 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
47451897 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
47451942 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
47451990 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47452026 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.27
46 34 0.31
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:47455299 original size:20 final size:19
Alignment explanation
Indices: 47455276--47455326 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
47455266 TTGGGAAGAG
47455276 AAAGAAAAATTAAAATTAGA
1 AAAGAAAAA-TAAAATTAGA
*
47455296 AAAGAAAAATAAAATTATA
1 AAAGAAAAATAAAATTAGA
47455315 ATAA-AAAAATAA
1 A-AAGAAAAATAA
47455327 GAAATCCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (19 bp):
AAAGAAAAATAAAATTAGA
Found at i:47457901 original size:5 final size:5
Alignment explanation
Indices: 47457887--47457921 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
47457877 AATATACTCA
*
47457887 CAATT TAATT CAATT CAATT CAATT CAATAT CAAT
1 CAATT CAATT CAATT CAATT CAATT CAAT-T CAAT
47457922 ACTTACCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (5 bp):
CAATT
Found at i:47458555 original size:15 final size:15
Alignment explanation
Indices: 47458535--47458568 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47458525 CCTTTTTCTT
47458535 TTTCTTTCTATTTTC-
1 TTTCTTTCT-TTTTCG
47458550 TTTCTTTCTTTTTCG
1 TTTCTTTCTTTTTCG
47458565 TTTC
1 TTTC
47458569 AACTTTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTCTTTCTTTTTCG
Found at i:47458652 original size:11 final size:12
Alignment explanation
Indices: 47458625--47458658 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
47458615 TTTTATTTTA
47458625 ATTATAATGATAT
1 ATTATAAT-ATAT
47458638 ATTATAATA-AT
1 ATTATAATATAT
47458649 ATTATAATAT
1 ATTATAATAT
47458659 TTACTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 1 0.05
13 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
ATTATAATATAT
Found at i:47464583 original size:27 final size:28
Alignment explanation
Indices: 47464519--47464587 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
47464509 GCGTAGATCA
*
47464519 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGAAAAATTAC
47464547 CGAAATTACCCCTAAAGAGAAAAATTAC
1 CGAAATTACCCCTAAAGAGAAAAATTAC
*
47464575 CGATA-TACCCCTA
1 CGAAATTACCCCTA
47464588 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGAAAAATTAC
Found at i:47476763 original size:12 final size:12
Alignment explanation
Indices: 47476748--47476818 Score: 63
Period size: 12 Copynumber: 5.9 Consensus size: 12
47476738 GGTTATTTCG
47476748 ATTTCAATTTTA
1 ATTTCAATTTTA
47476760 ATTTCAATTTTA
1 ATTTCAATTTTA
* *
47476772 ATTTCGATTTTG
1 ATTTCAATTTTA
**
47476784 ATTTTGATTTCT-
1 ATTTCAATTT-TA
* *
47476796 ATTTCGATTTTG
1 ATTTCAATTTTA
*
47476808 ATTACAATTTT
1 ATTTCAATTTT
47476819 GAAACACTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
11 1 0.02
12 49 0.96
13 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.59
Consensus pattern (12 bp):
ATTTCAATTTTA
Found at i:47476769 original size:18 final size:18
Alignment explanation
Indices: 47476742--47476817 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
47476732 AATTAGGGTT
* *
47476742 ATTTCGATTTCAATTTTA
1 ATTTCGATTTTAATTTCA
* *
47476760 ATTTCAATTTTAATTTCG
1 ATTTCGATTTTAATTTCA
* * *
47476778 ATTTTGATTTTGATTTCT
1 ATTTCGATTTTAATTTCA
* *
47476796 ATTTCGATTTTGATTACA
1 ATTTCGATTTTAATTTCA
47476814 ATTT
1 ATTT
47476818 TGAAACACTC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTTAATTTCA
Found at i:47476901 original size:24 final size:23
Alignment explanation
Indices: 47476838--47476901 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
47476828 ACTGATTCTG
*
47476838 ATTTAGATTTCGATTTCAATTTCA
1 ATTT-GATTTCGATTTCAATTACA
* * * *
47476862 ATTTTGATCTCCATTTAGAATTAGA
1 A-TTTGATTTCGATTT-CAATTACA
47476887 ATTTGATTTCGATTT
1 ATTTGATTTCGATTT
47476902 TGATTTAGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 22 0.71
25 9 0.29
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (23 bp):
ATTTGATTTCGATTTCAATTACA
Found at i:47477072 original size:48 final size:48
Alignment explanation
Indices: 47477005--47477111 Score: 205
Period size: 48 Copynumber: 2.2 Consensus size: 48
47476995 ATTGTATGCG
47477005 TATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTA
1 TATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTA
*
47477053 TATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTA
1 TATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTA
47477101 TATCTGCCATT
1 TATCTGCCATT
47477112 ATTTGTATCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (48 bp):
TATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTA
Found at i:47477181 original size:64 final size:64
Alignment explanation
Indices: 47477043--47477184 Score: 221
Period size: 64 Copynumber: 2.2 Consensus size: 64
47477033 AAACTGATGT
* * * *
47477043 TTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTG
1 TTATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
** *
47477107 CCATTATTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
1 TTATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
47477171 TTATTGTTTGTATC
1 TTATTGTTTGTATC
47477185 CAAGATCTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (64 bp):
TTATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
Found at i:47479220 original size:40 final size:40
Alignment explanation
Indices: 47479171--47479267 Score: 176
Period size: 40 Copynumber: 2.4 Consensus size: 40
47479161 TTAGTGAATG
*
47479171 TTTTTAATATGCATGCACTGATTGTTGGTGTGTTGAATAT
1 TTTTTAATATGCATGCAATGATTGTTGGTGTGTTGAATAT
*
47479211 TTTTTAATATGCATACAATGATTGTTGGTGTGTTGAATAT
1 TTTTTAATATGCATGCAATGATTGTTGGTGTGTTGAATAT
47479251 TTTTTAATATGCATGCA
1 TTTTTAATATGCATGCA
47479268 GTGAGTATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (40 bp):
TTTTTAATATGCATGCAATGATTGTTGGTGTGTTGAATAT
Found at i:47479981 original size:21 final size:21
Alignment explanation
Indices: 47479955--47479995 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47479945 GTGTCCTAAC
47479955 TCAGCAACAGGCTACCCCAAA
1 TCAGCAACAGGCTACCCCAAA
* *
47479976 TCAGCAAGAGGGTACCCCAA
1 TCAGCAACAGGCTACCCCAA
47479996 CTCAACAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.20, T:0.10
Consensus pattern (21 bp):
TCAGCAACAGGCTACCCCAAA
Found at i:47483232 original size:46 final size:46
Alignment explanation
Indices: 47483182--47483287 Score: 203
Period size: 46 Copynumber: 2.3 Consensus size: 46
47483172 CTTTGATAGA
47483182 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
47483228 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
*
47483274 AAACGTGTAAGACC
1 AAATGTGTAAGACC
47483288 TGATATGAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
Found at i:47483318 original size:21 final size:21
Alignment explanation
Indices: 47483264--47483308 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
47483254 TACCATGGCA
47483264 ACCTGATATGAAACGTGTAAG
1 ACCTGATATGAAACGTGTAAG
*
47483285 ACCTGATATGAAATGTGTAAG
1 ACCTGATATGAAACGTGTAAG
47483306 ACC
1 ACC
47483309 ATGGTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (21 bp):
ACCTGATATGAAACGTGTAAG
Found at i:47483364 original size:67 final size:67
Alignment explanation
Indices: 47483218--47483354 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
47483208 TACCATGGCA
*
47483218 ACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTA
1 ACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGTGTA
47483283 AG
66 AG
* *
47483285 ACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGTGTA
1 ACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGTGTA
47483350 AG
66 AG
47483352 ACC
1 ACC
47483355 ATGGTTGAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (67 bp):
ACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGTGTA
AG
Found at i:47483409 original size:47 final size:46
Alignment explanation
Indices: 47483294--47483469 Score: 226
Period size: 46 Copynumber: 3.8 Consensus size: 46
47483284 GACCTGATAT
* * *
47483294 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
1 GAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACGTGACAG
* * * *
47483340 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAACGGG
1 GAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACGTGAC-AG
* * *
47483387 GAAATGAATAAGACCATAGTTGAATGATACCATGGCAACATGACAG
1 GAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACGTGACAG
* * *
47483433 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GAAATGAGTAAGACCATAGTTGAAAGATACCATGGCA
47483470 TCATGTCGAA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 76 0.67
47 38 0.33
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
GAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACGTGACAG
Found at i:47484937 original size:3 final size:3
Alignment explanation
Indices: 47484931--47484963 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47484921 TCTCCTTCTT
47484931 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
47484964 TTTCTCTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:47488317 original size:15 final size:15
Alignment explanation
Indices: 47488297--47488326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47488287 TTCACTATCA
*
47488297 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
47488312 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
47488327 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:47495009 original size:20 final size:18
Alignment explanation
Indices: 47494985--47495036 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
47494975 AATAGCATTT
47494985 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
47495003 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
47495023 T-TTAATTTAATATT
1 TATTAATTTAATATT
47495037 TATCTACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 4 0.13
20 14 0.47
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:47502199 original size:42 final size:42
Alignment explanation
Indices: 47502152--47502258 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
47502142 TATTGGTCTC
47502152 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
47502194 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
47502236 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
47502259 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:47502323 original size:27 final size:28
Alignment explanation
Indices: 47502266--47502335 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
47502256 AAAATTGTAC
**
47502266 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
47502294 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
47502321 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47502336 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:47509432 original size:42 final size:42
Alignment explanation
Indices: 47509385--47509491 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
47509375 TATTGGTCTC
47509385 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
47509427 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
47509469 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
47509492 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:47509556 original size:27 final size:28
Alignment explanation
Indices: 47509499--47509568 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
47509489 AAAATTGTAC
**
47509499 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
47509527 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
47509554 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47509569 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:47511632 original size:29 final size:29
Alignment explanation
Indices: 47511575--47511634 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
47511565 GTTATAACCA
* *
47511575 AACCTTTACATGCCATTATTGACCAAATT
1 AACCTATACATGCCATTATTAACCAAATT
*
47511604 AACCTATACATGCCATT-TTAACTATAATT
1 AACCTATACATGCCATTATTAACCA-AATT
47511633 AA
1 AA
47511635 TTTACCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (29 bp):
AACCTATACATGCCATTATTAACCAAATT
Found at i:47513433 original size:46 final size:46
Alignment explanation
Indices: 47513383--47513558 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47513373 TGGTTGAGCA
47513383 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47513429 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47513474 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47513522 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47513559 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47513539 original size:93 final size:93
Alignment explanation
Indices: 47513380--47513551 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47513370 GGATGGTTGA
* *
47513380 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47513445 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
47513473 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47513538 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
47513552 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47518832 original size:24 final size:24
Alignment explanation
Indices: 47518799--47518850 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
47518789 TTTGTAGTTC
**
47518799 AAATAAATTATGTTAATAAATACT
1 AAATAAATTATACTAATAAATACT
*
47518823 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
47518847 AAAT
1 AAAT
47518851 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:47522849 original size:20 final size:20
Alignment explanation
Indices: 47522824--47522871 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
47522814 ATCGATCTTA
*
47522824 TATCGATACTTTTTGTAAAG
1 TATCGATACATTTTGTAAAG
* **
47522844 TATCGATAGATTTTGTTGAG
1 TATCGATACATTTTGTAAAG
47522864 TATCGATA
1 TATCGATA
47522872 GATTCAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (20 bp):
TATCGATACATTTTGTAAAG
Found at i:47527593 original size:31 final size:31
Alignment explanation
Indices: 47527557--47527624 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
47527547 TAAATTTGGT
* *
47527557 CGTGTGGTCCCACACGAGTAAACCACATGGG
1 CGTGTGGGCCCACACGAGTAAACCACACGGG
* *
47527588 CGTGTGGGCCCACATGGGTAAACCACACGGG
1 CGTGTGGGCCCACACGAGTAAACCACACGGG
47527619 CGTGTG
1 CGTGTG
47527625 AGATTCTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (31 bp):
CGTGTGGGCCCACACGAGTAAACCACACGGG
Found at i:47527651 original size:22 final size:22
Alignment explanation
Indices: 47527621--47527669 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
47527611 CACACGGGCG
*
47527621 TGTGAGATTCTAGGCCAATCCA
1 TGTGAGATTCTAGGCCAAGCCA
* * *
47527643 TGTGGGATTCTGGGCCAGGCCA
1 TGTGAGATTCTAGGCCAAGCCA
47527665 TGTGA
1 TGTGA
47527670 TCTACACGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (22 bp):
TGTGAGATTCTAGGCCAAGCCA
Found at i:47527731 original size:18 final size:18
Alignment explanation
Indices: 47527698--47527742 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
47527688 ATTTGTGCCG
47527698 TGTGGG-CCACACGGGCC
1 TGTGGGCCCACACGGGCC
* *
47527715 TGTGGGCCCACATGGGCG
1 TGTGGGCCCACACGGGCC
*
47527733 TGTGCGCCCA
1 TGTGGGCCCA
47527743 TTTTTTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.11, C:0.33, G:0.40, T:0.16
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCC
Found at i:47531947 original size:11 final size:11
Alignment explanation
Indices: 47531926--47531967 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
47531916 TACTTTTAAT
47531926 TATTA-TATTA
1 TATTATTATTA
47531936 TATTATTATTA
1 TATTATTATTA
47531947 TATT-TTAGTTA
1 TATTATTA-TTA
47531958 TGATTATTAT
1 T-ATTATTAT
47531968 ATTTTACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.29
11 13 0.46
12 4 0.14
13 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (11 bp):
TATTATTATTA
Found at i:47533994 original size:19 final size:19
Alignment explanation
Indices: 47533950--47534006 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
47533940 TTGATACCGA
* *
47533950 TACAAAAATATTGACACTT
1 TACAAAAATATCGATACTT
*
47533969 TATAAAAAGTATCGATAC-T
1 TACAAAAA-TATCGATACTT
47533988 TACAAAAAATTATCGATAC
1 TAC-AAAAA-TATCGATAC
47534007 CTATTGGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (19 bp):
TACAAAAATATCGATACTT
Found at i:47537025 original size:20 final size:21
Alignment explanation
Indices: 47536937--47537018 Score: 98
Period size: 20 Copynumber: 4.0 Consensus size: 21
47536927 TATCGATCCT
*
47536937 ATATCAATTCTTTTTGTCAAG
1 ATATCAATTCTTTTTTTCAAG
** *
47536958 -TATCAATAGATTTTGTT-AAG
1 ATATCAAT-TCTTTTTTTCAAG
47536978 ATATCAATTCTTTTTTTC-AG
1 ATATCAATTCTTTTTTTCAAG
47536998 ATATCAATTCTTTTTTTCAAG
1 ATATCAATTCTTTTTTTCAAG
47537019 TGTCAATAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 36 0.72
21 14 0.28
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (21 bp):
ATATCAATTCTTTTTTTCAAG
Found at i:47539774 original size:16 final size:16
Alignment explanation
Indices: 47539755--47539785 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47539745 AATTTATTAA
47539755 AATAATTAATTATATT
1 AATAATTAATTATATT
*
47539771 AATAATTTATTATAT
1 AATAATTAATTATAT
47539786 GACTAGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATTAATTATATT
Found at i:47539774 original size:29 final size:30
Alignment explanation
Indices: 47539717--47539782 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
47539707 AAAACATTTC
47539717 TTATTAAAATAAAATTAAAATATTAAATAAT
1 TTATTAAAAT-AAATTAAAATATTAAATAAT
*
47539748 TTATTAAAAT-AATTAATTATATT-AATAAT
1 TTATTAAAATAAATTAA-AATATTAAATAAT
47539777 TTATTA
1 TTATTA
47539783 TATGACTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 18 0.55
30 5 0.15
31 10 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTAAAATAAATTAAAATATTAAATAAT
Found at i:47541177 original size:38 final size:40
Alignment explanation
Indices: 47541116--47541194 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 40
47541106 TGCCAATAAA
*
47541116 TAAATAAATATATTTTTTCAAAATTATTTTTATAATT-AAATT
1 TAAATAAATATA-TTTTTCAAAA-TATTATT-TAATTGAAATT
47541158 TAAATAAA-ATA-TTTT-AAAATATTATTTAATTGAAATT
1 TAAATAAATATATTTTTCAAAATATTATTTAATTGAAATT
47541195 AGAATTGAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
36 5 0.14
37 11 0.31
38 4 0.11
39 4 0.11
41 3 0.09
42 8 0.23
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (40 bp):
TAAATAAATATATTTTTCAAAATATTATTTAATTGAAATT
Found at i:47549505 original size:43 final size:44
Alignment explanation
Indices: 47549422--47549536 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 44
47549412 TGTGATTACA
*
47549422 TGTAAGACCATGTCTGGGACATTGGCAT-TATATTAAGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCTATAATAAGATTTCG
* * *
47549465 TGTAAAACCATGTCTGGGACATTGGCATCGT-TAAT-CGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATC-TATAATAAGATTTCG
* *
47549508 TGTAAGACCCTGT-TGGGGACAGTGGCATC
1 TGTAAGACCATGTCT-GGGACATTGGCATC
47549537 AATTTATGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 57 0.92
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCTATAATAAGATTTCG
Found at i:47554005 original size:20 final size:20
Alignment explanation
Indices: 47553982--47554019 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47553972 TTATAAACTT
*
47553982 TTTTTATTTTTTAATTTTGA
1 TTTTGATTTTTTAATTTTGA
47554002 TTTTGATTTTTTAATTTT
1 TTTTGATTTTTTAATTTT
47554020 TATAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTGATTTTTTAATTTTGA
Found at i:47559241 original size:24 final size:24
Alignment explanation
Indices: 47559209--47559257 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47559199 GTATTTAATT
47559209 AATTTATTATATATTATAAAGTAA
1 AATTTATTATATATTATAAAGTAA
47559233 AATTTATTATATATTATAAAGTAA
1 AATTTATTATATATTATAAAGTAA
47559257 A
1 A
47559258 TTTGTTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
AATTTATTATATATTATAAAGTAA
Found at i:47562271 original size:16 final size:16
Alignment explanation
Indices: 47562211--47562271 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
47562201 AAAGTTTTAT
*
47562211 TTTTTAATTTTAAAGAG
1 TTTTTAATTTTCAA-AG
* *
47562228 TTTTTATTTTTCATAAT
1 TTTTTAATTTTCA-AAG
*
47562245 TTTTTATTTTTCAAAG
1 TTTTTAATTTTCAAAG
*
47562261 TTTATAATTTT
1 TTTTTAATTTT
47562272 TTATGATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 11 0.30
17 25 0.68
18 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTAATTTTCAAAG
Found at i:47562271 original size:34 final size:34
Alignment explanation
Indices: 47562209--47562281 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
47562199 ATAAAGTTTT
*
47562209 ATTTTTTAATTTTAAAGAGTTTTTATTTTTCATA
1 ATTTTTTAATTTTAAAGAGTTTTAATTTTTCATA
* * * *
47562243 ATTTTTTATTTTTCAA-AGTTTATAATTTTTTATG
1 ATTTTTTAATTTTAAAGAGTTT-TAATTTTTCATA
47562277 ATTTT
1 ATTTT
47562282 ATTTAAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (34 bp):
ATTTTTTAATTTTAAAGAGTTTTAATTTTTCATA
Found at i:47565777 original size:40 final size:40
Alignment explanation
Indices: 47565552--47565777 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
47565542 GCTACTCGTT
*
47565552 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* * *
47565592 CAAATGCCTTCGGGA-CTTAACCCAGATTTAGTAACTGGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
47565632 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* ** *
47565672 CGAATGCCTTCGGATCTTATTCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47565712 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
47565753 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
47565778 CATCATTCGA
Statistics
Matches: 164, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 149 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:47569014 original size:32 final size:31
Alignment explanation
Indices: 47568956--47569046 Score: 130
Period size: 32 Copynumber: 2.8 Consensus size: 31
47568946 TAAGCCCTCC
*
47568956 AAAAAAAAAAAACCTAACCCAAAAAAAAAAGAAG
1 AAAAAAGAAAAACCTAA-CC--AAAAAAAAGAAG
47568990 AAAAAAGAAAAACCTAACCTAAAAAAAAGAAG
1 AAAAAAGAAAAACCTAACC-AAAAAAAAGAAG
47569022 AAAAAAGAAAAACCTAA-CAAAAAAA
1 AAAAAAGAAAAACCTAACCAAAAAAA
47569047 CTAAAAAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.13
31 1 0.02
32 29 0.53
33 2 0.04
34 16 0.29
ACGTcount: A:0.76, C:0.13, G:0.07, T:0.04
Consensus pattern (31 bp):
AAAAAAGAAAAACCTAACCAAAAAAAAGAAG
Found at i:47569612 original size:2 final size:2
Alignment explanation
Indices: 47569607--47569639 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
47569597 TAAATACTAT
*
47569607 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47569640 TTTAAATACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:47575639 original size:32 final size:36
Alignment explanation
Indices: 47575531--47575743 Score: 193
Period size: 39 Copynumber: 5.6 Consensus size: 36
47575521 GCTACTCGTT
* *
47575531 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAG-CC-GAT-TAGTAACTCGCA
*
47575571 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTT-AGCC-GA-TTAGTAACTCGCA
47575611 C-AATGCCTTCGG-CTTAG-C-ATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCGATTAGTAACTCGCA
47575643 CAAATGCCTTCGGATCTTAGTCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAG-CC-GATTAGTAACTCGCA
* *
47575682 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAG-CC-GAT-TAGTAAC-TCGCA
47575723 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTC-GGACTTAGCC
47575744 CGGACATCAT
Statistics
Matches: 155, Mismatches: 6, Indels: 25
0.83 0.03 0.13
Matches are distributed among these distances:
32 14 0.09
33 12 0.08
35 6 0.04
36 1 0.01
37 4 0.03
38 2 0.01
39 52 0.34
40 51 0.33
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (36 bp):
CAAATGCCTTCGGACTTAGCCGATTAGTAACTCGCA
Found at i:47575673 original size:39 final size:39
Alignment explanation
Indices: 47575531--47575747 Score: 247
Period size: 40 Copynumber: 5.7 Consensus size: 39
47575521 GCTACTCGTT
* *
47575531 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
47575571 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
47575611 C-AATGCCTTC-GG-CTTAG--C--ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
47575643 CAAATGCCTTC-GGATCTTAGTCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAACTCGCA
* * *
47575682 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
47575723 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47575748 CATCATTCGA
Statistics
Matches: 159, Mismatches: 7, Indels: 22
0.85 0.04 0.12
Matches are distributed among these distances:
32 14 0.09
33 12 0.08
35 6 0.04
37 5 0.03
38 2 0.01
39 50 0.31
40 58 0.36
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:47575688 original size:72 final size:72
Alignment explanation
Indices: 47575559--47575747 Score: 222
Period size: 72 Copynumber: 2.5 Consensus size: 72
47575549 AGCCCGGTTA
47575559 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGC
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGC
47575624 TTAGCAT
66 TTAGCAT
**
47575631 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA-TTAGTAACTCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCG
47575694 GATCTTAGTCCGGAT
64 G--CTTAG--C--AT
* * *
47575709 ATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
47575748 CATCATTCGA
Statistics
Matches: 101, Mismatches: 5, Indels: 15
0.83 0.04 0.12
Matches are distributed among these distances:
71 17 0.17
72 43 0.43
74 5 0.05
76 1 0.01
78 2 0.02
79 22 0.22
80 11 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (72 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGC
TTAGCAT
Found at i:47586250 original size:40 final size:40
Alignment explanation
Indices: 47586206--47586431 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
47586196 GCTACTCGTT
* *
47586206 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* *
47586246 CAAATGCCTTCGGGA-CTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
* *
47586286 CAAATACCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
47586326 CGAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
47586366 CGAATACCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
47586407 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
47586432 CATCATTCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 150 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:47586318 original size:80 final size:80
Alignment explanation
Indices: 47586227--47586431 Score: 281
Period size: 80 Copynumber: 2.6 Consensus size: 80
47586217 GGGACATAGC
*
47586227 CCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTA-ACCTGGATTTAGTAACTCGCACAAAT
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGACC-GGATTTAGTAACTCGCACAAAT
47586291 ACCTTCGGATCTTAGT
65 ACCTTCGGATCTTAGT
* * * * *
47586307 CCGGATTTAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGAAT
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAACTCGCACAAAT
47586371 ACCTTCGGATCTTAGT
65 ACCTTCGGATCTTAGT
* * *
47586387 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAGACCGGA
47586432 CATCATTCGA
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
79 3 0.03
80 96 0.88
81 10 0.09
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (80 bp):
CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCACAAATA
CCTTCGGATCTTAGT
Found at i:47590190 original size:40 final size:40
Alignment explanation
Indices: 47590146--47590225 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
47590136 ATCCCGTCGT
47590146 AAGATGTGAGATTCGCGGGAGTGTGTACATGAGACGATCA
1 AAGATGTGAGATTCGCGGGAGTGTGTACATGAGACGATCA
47590186 AAGATGTGAGATTCGCGGGAGTGTGTACATGAGACGATCA
1 AAGATGTGAGATTCGCGGGAGTGTGTACATGAGACGATCA
47590226 CTCTTATGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (40 bp):
AAGATGTGAGATTCGCGGGAGTGTGTACATGAGACGATCA
Found at i:47599449 original size:30 final size:31
Alignment explanation
Indices: 47599319--47599461 Score: 89
Period size: 30 Copynumber: 4.7 Consensus size: 31
47599309 TCCTATAGCG
* * *
47599319 AACTCTCCCATGGCGATCTCAGTTAT-GTCA
1 AACTCCCCCATGGCGAACTCACTTATAGTCA
* * * *
47599349 AACTCCACTATGGCGAACTCACTTTTGGT-A
1 AACTCCCCCATGGCGAACTCACTTATAGTCA
* * ** * * *
47599379 AA-TGCACCTATGGAAAACTCTCCTATAG-CG
1 AACT-CCCCCATGGCGAACTCACTTATAGTCA
* * *
47599409 AGCTCTCCCATGGCAAACTCACTTAT-GTCA
1 AACTCCCCCATGGCGAACTCACTTATAGTCA
47599439 AACTCCCCCATGGCGAACTCACT
1 AACTCCCCCATGGCGAACTCACT
47599462 ATTGGCGAAT
Statistics
Matches: 83, Mismatches: 25, Indels: 10
0.70 0.21 0.08
Matches are distributed among these distances:
29 2 0.02
30 78 0.94
31 3 0.04
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (31 bp):
AACTCCCCCATGGCGAACTCACTTATAGTCA
Found at i:47599452 original size:90 final size:90
Alignment explanation
Indices: 47599295--47599480 Score: 282
Period size: 90 Copynumber: 2.1 Consensus size: 90
47599285 TAGGCATAGC
* * * * *
47599295 CCTATGGCAAACTCTCCTATAGCGAACTCTCCCATGGCGATCTCAGTTATGTCAAACTCCACTAT
1 CCTATGGAAAACTCTCCTATAGCGAACTCTCCCATGGCAAACTCACTTATGTCAAACTCCACCAT
* *
47599360 GGCGAACTCACTTTTGGTAAATGCA
66 GGCGAACTCACTATTGGCAAATGCA
* *
47599385 CCTATGGAAAACTCTCCTATAGCGAGCTCTCCCATGGCAAACTCACTTATGTCAAACTCCCCCAT
1 CCTATGGAAAACTCTCCTATAGCGAACTCTCCCATGGCAAACTCACTTATGTCAAACTCCACCAT
*
47599450 GGCGAACTCACTATTGGCGAATGCA
66 GGCGAACTCACTATTGGCAAATGCA
47599475 CCTATG
1 CCTATG
47599481 ACAAACAAAC
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (90 bp):
CCTATGGAAAACTCTCCTATAGCGAACTCTCCCATGGCAAACTCACTTATGTCAAACTCCACCAT
GGCGAACTCACTATTGGCAAATGCA
Found at i:47601291 original size:41 final size:44
Alignment explanation
Indices: 47601252--47601337 Score: 113
Period size: 47 Copynumber: 1.9 Consensus size: 44
47601242 CTTCAGGTGC
47601252 GAATAA-TACCTTGATTTGGCTAC-GAGCCATGGTATAGGTGCTCCG
1 GAATAAGTACCTTGATTTGGCTACAG-GCCATGGTATAGGTG--CCG
*
47601297 GGATAAGTTACCTTGATTTGGCTACAGGCCATGGTATAGGT
1 GAATAAG-TACCTTGATTTGGCTACAGGCCATGGTATAGGT
47601338 ACGTAATGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
45 5 0.14
47 31 0.84
48 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (44 bp):
GAATAAGTACCTTGATTTGGCTACAGGCCATGGTATAGGTGCCG
Found at i:47602285 original size:30 final size:30
Alignment explanation
Indices: 47602246--47602313 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
47602236 TGTGGCTTGA
* *
47602246 CCGTATGTGACACATGGCTTTGATATACAG
1 CCGTGTGTGACACATGGCCTTGATATACAG
* *
47602276 CCGTGTGTGACACATGGCCTTGGTATACGG
1 CCGTGTGTGACACATGGCCTTGATATACAG
47602306 CCGTGTGT
1 CCGTGTGT
47602314 CCCGTAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (30 bp):
CCGTGTGTGACACATGGCCTTGATATACAG
Found at i:47604404 original size:93 final size:93
Alignment explanation
Indices: 47604288--47604458 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
47604278 CGCCCATAAG
* *
47604288 CGAACTCAGAATCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTTGGACTCAACTC
1 CGAACTCAGAATCAACTCAACGAG-TCAGGACATTCGCATCAATAAGTGAACTCGGACTCAACTC
*
47604352 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACAAGTTCGGATGCCTAGTTACATTTCA
* * ** *
47604381 CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGAATCAACTCAACGAGTCAGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
47604446 ACAAGTTCGGATG
66 ACAAGTTCGGATG
47604459 ACCAAATATC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 3 0.04
93 66 0.96
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAGAATCAACTCAACGAGTCAGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATTTCA
Found at i:47607236 original size:15 final size:15
Alignment explanation
Indices: 47607188--47607255 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
47607178 TAAAGATAAC
*
47607188 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
47607202 AAGAAATCCA-AGATT
1 AAGAAACCCAGA-ATA
*
47607217 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
47607232 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
47607247 AAGAAACCC
1 AAGAAACCC
47607256 GAGATACGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.21
15 33 0.77
16 1 0.02
ACGTcount: A:0.57, C:0.18, G:0.15, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:47607252 original size:30 final size:29
Alignment explanation
Indices: 47607188--47607257 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
47607178 TAAAGATAAC
* *
47607188 AAGAAAACCGAATAAAGAAATCCAAGATT
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
47607217 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCC-GAATAAAGAAATCCAAG-ATA
47607247 AAGAAACCCGA
1 AAGAAACCCGA
47607258 GATACGATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.57, C:0.17, G:0.16, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Done.