Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 55 of 313
Found at i:18378132 original size:20 final size:21
Alignment explanation
Indices: 18378107--18378146 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18378097 GACTTGAAGC
18378107 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
18378127 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
18378147 CCCTTATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:18379498 original size:47 final size:47
Alignment explanation
Indices: 18379340--18379602 Score: 221
Period size: 49 Copynumber: 5.6 Consensus size: 47
18379330 AAATATTGAC
18379340 GCCATGTCCCAGACATGGTCTTACACT-AGCTAGCACATTAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGA-CTAGCACATTAAAGTCGAT
* * * ** * * * *
18379388 GCCGTGTCCTAGATAGGTCTTACACTGACTTTCAAATATCGAGGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTAGCACAT-T-AAAGTCGAT
* * * *
18379437 GCCATATCCTAGACAGGTCTTACATTGGCTAGCACATTAAAGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTAGCACATTAAAGTCGAT
* * ** * ** *
18379484 GCCGTGTCCCAGACAGCTCTTACACTGACTTTCAAATATCGAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTAGCACAT-TAAAGTC-GAT
* *
18379533 GCCATATCCCAGACAGGTCTTACACTGAC-A-CACA--ACAAGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTAGCACATTA-AAGTCGAT
18379577 GCCATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
18379603 AGCTTGTATA
Statistics
Matches: 167, Mismatches: 42, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
44 28 0.17
45 2 0.01
47 54 0.32
48 19 0.11
49 64 0.38
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTAGCACATTAAAGTCGAT
Found at i:18379520 original size:96 final size:96
Alignment explanation
Indices: 18379335--18379602 Score: 382
Period size: 96 Copynumber: 2.8 Consensus size: 96
18379325 GGATAAAATA
* * * *
18379335 TTGACGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATTAAAGTCGATGCCGTGTCCTAG
1 TTGATGCCATATCCCAGACA-GGTCTTACACTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAG
*
18379400 ATAGGTCTTACACTGACTTTCAAATATCGAGG
65 ACAGGTCTTACACTGACTTTCAAATATCGAGG
* *
18379432 TTGATGCCATATCCTAGACAGGTCTTACATTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAGA
1 TTGATGCCATATCCCAGACAGGTCTTACACTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAGA
*
18379497 CAGCTCTTACACTGACTTTCAAATATCGAGG
66 CAGGTCTTACACTGACTTTCAAATATCGAGG
* * * *
18379528 CTGATGCCATATCCCAGACAGGTCTTACACTGAC-A-CACA--ACAAGTTGATGCCATGTCCCAG
1 TTGATGCCATATCCCAGACAGGTCTTACACTGGCTAGCACATTA-AAGTCGATGCCGTGTCCCAG
18379589 ACAGGTCTTACACT
65 ACAGGTCTTACACT
18379603 AGCTTGTATA
Statistics
Matches: 155, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 31 0.20
94 4 0.03
95 1 0.01
96 101 0.65
97 17 0.11
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (96 bp):
TTGATGCCATATCCCAGACAGGTCTTACACTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAGA
CAGGTCTTACACTGACTTTCAAATATCGAGG
Found at i:18379627 original size:93 final size:95
Alignment explanation
Indices: 18379340--18379651 Score: 314
Period size: 96 Copynumber: 3.3 Consensus size: 95
18379330 AAATATTGAC
* * * *
18379340 GCCATGTCCCAGACATGGTCTTACACT-AGCTAGCACATTAAAGTCGATGCCGTGTCCTAGATAG
1 GCCATATCCCAGACA-GGTCTTACACTGA-CTAGCACA-TAAAGTCGATGCCATGTCCCAGACAG
* * **
18379404 GTCTTACACTGACTTTCAAATATCGAGGTTGAT
63 CTCTTACACTGACTTTCAAATACCGAGGCAGAT
* * * *
18379437 GCCATATCCTAGACAGGTCTTACATTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAGACAGCT
1 GCCATATCCCAGACAGGTCTTACACTGACTAGCACA-TAAAGTCGATGCCATGTCCCAGACAGCT
* *
18379502 CTTACACTGACTTTCAAATATCGAGGCTGAT
65 CTTACACTGACTTTCAAATACCGAGGCAGAT
* *
18379533 GCCATATCCCAGACAGGTCTTACACTGAC-A-CACA-ACAAGTTGATGCCATGTCCCAGACAGGT
1 GCCATATCCCAGACAGGTCTTACACTGACTAGCACATA-AAGTCGATGCCATGTCCCAGACAGCT
* * *
18379595 CTTACACT-AGCTTGT-ATATCCCGAGGGAGAT
65 CTTACACTGA-CTT-TCAAATACCGAGGCAGAT
* * *
18379626 G-CATGTCCCAAACATGTCTTACACTG
1 GCCATATCCCAGACAGGTCTTACACTG
18379652 GCTCAGATAC
Statistics
Matches: 189, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
92 24 0.13
93 46 0.24
94 5 0.03
95 1 0.01
96 100 0.53
97 13 0.07
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (95 bp):
GCCATATCCCAGACAGGTCTTACACTGACTAGCACATAAAGTCGATGCCATGTCCCAGACAGCTC
TTACACTGACTTTCAAATACCGAGGCAGAT
Found at i:18384184 original size:31 final size:31
Alignment explanation
Indices: 18384141--18384209 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
18384131 GTGTCCCAAG
*
18384141 CCACACGGGCGTGTGTGACCACAGGCCCCAC
1 CCACACGAGCGTGTGTGACCACAGGCCCCAC
18384172 CCACACGAGCGTGTGTGACCACAGGCCCCAC
1 CCACACGAGCGTGTGTGACCACAGGCCCCAC
18384203 CCACACG
1 CCACACG
18384210 GGTGTATGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.22, C:0.43, G:0.26, T:0.09
Consensus pattern (31 bp):
CCACACGAGCGTGTGTGACCACAGGCCCCAC
Found at i:18384214 original size:29 final size:30
Alignment explanation
Indices: 18384141--18384219 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 30
18384131 GTGTCCCAAG
18384141 CCACACGGGCGTGTGTGACCACAGGCCCCAC
1 CCACAC-GGCGTGTGTGACCACAGGCCCCAC
18384172 CCACACGAGCGTGTGTGACCACAGGCCCCAC
1 CCACACG-GCGTGTGTGACCACAGGCCCCAC
*
18384203 CCACACGG-GTGTATGAC
1 CCACACGGCGTGTGTGAC
18384220 TCTCCAAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 8 0.17
30 2 0.04
31 36 0.78
ACGTcount: A:0.22, C:0.39, G:0.28, T:0.11
Consensus pattern (30 bp):
CCACACGGCGTGTGTGACCACAGGCCCCAC
Found at i:18386488 original size:40 final size:40
Alignment explanation
Indices: 18386411--18386547 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 40
18386401 ACCCAAGTAT
* *
18386411 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTAGAACAAATGC
*
18386450 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGAATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTAGAACAAATGC
* * * * * *
18386490 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTAGAACAAATGC
* *
18386530 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
18386548 TTATCATCCG
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 12 0.15
40 66 0.82
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTAGAACAAATGC
Found at i:18399246 original size:79 final size:81
Alignment explanation
Indices: 18399113--18399294 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
18399103 AATGATGTCT
* *
18399113 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
*
18399177 GCGAGATACTA-ATTCC
66 GCGAGATACTATA-ACC
* * * **
18399193 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTG
*
18399255 TGCGAGTTACTATAACC
65 TGCGAGATACTATAACC
* *
18399272 GGGATATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
18399295 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 30 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
GCGAGATACTATAACC
Found at i:18399301 original size:40 final size:40
Alignment explanation
Indices: 18399117--18399294 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
18399107 ATGTCTGGGC
* * * *
18399117 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC-GGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA
* * *
18399156 CTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGC
1 -TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
*
18399197 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
*
18399236 TAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGA
*
18399276 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
18399295 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.30
40 71 0.60
41 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
Found at i:18399316 original size:79 final size:79
Alignment explanation
Indices: 18399163--18399327 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
18399153 GGACTAAGAT
* * * **
18399163 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18399228 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18399242 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGATATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGATAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
18399305 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18399321 CCGAAGG
1 CCGAAGG
18399328 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18401173 original size:316 final size:316
Alignment explanation
Indices: 18400328--18401125 Score: 1517
Period size: 316 Copynumber: 2.5 Consensus size: 316
18400318 CGGCATCAGT
* *
18400328 ATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGATCCCTG
1 ATTGAAGCCCTGTACAGGAAGATATCCAAGTCGTAATGTGCAAAGGTCAGTGTAGTCGATCCCTG
18400393 TAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCAACTAAAAATTCTAGAAAAAAAT
66 TAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCAACTAAAAATTCTAGAAAAAAAT
18400458 ATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCAAGTTCCTGAA
131 ATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCAAGTTCCTGAA
18400523 CTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGGGAAATTATTTTTAAA
196 CTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGGGAAATTATTTTTAAA
18400588 GTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTCGGGGTGTTACA
261 GTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTCGGGGTGTTACA
18400644 ATTGAAGCCCTGTACAGGAAGATATCCAAGTCGTAATGTGCAAAGGTCAGTGTAGTCGATCCCTG
1 ATTGAAGCCCTGTACAGGAAGATATCCAAGTCGTAATGTGCAAAGGTCAGTGTAGTCGATCCCTG
18400709 TAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCAACTAAAAATTCTAGAAAAAAAT
66 TAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCAACTAAAAATTCTAGAAAAAAAT
18400774 ATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCAAGTTCCTGAA
131 ATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCAAGTTCCTGAA
18400839 CTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGGGAAATTATTTTTAAA
196 CTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGGGAAATTATTTTTAAA
18400904 GTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTCGGGGTGTTACA
261 GTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTCGGGGTGTTACA
18400960 ATTGAAGCCCTGTACAGGAAGATATCCAAGTCGTAATGTGCAAAGGTCAGTGTAGTCGATCCCTG
1 ATTGAAGCCCTGTACAGGAAGATATCCAAGTCGTAATGTGCAAAGGTCAGTGTAGTCGATCCCTG
* *
18401025 TAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAAT
66 TAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCAACTAAAAATTCTAGAAAAAAAT
* * *
18401090 TTGTAGAT-GCATATATGAGTCTAGTTTCACGGAAAA
131 ATGTAGATGGGA-ATATGAGTCTAGTTTCAGGGAAAA
18401126 ATCATGAAGC
Statistics
Matches: 474, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
315 2 0.00
316 472 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (316 bp):
ATTGAAGCCCTGTACAGGAAGATATCCAAGTCGTAATGTGCAAAGGTCAGTGTAGTCGATCCCTG
TAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCAACTAAAAATTCTAGAAAAAAAT
ATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCAAGTTCCTGAA
CTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGGGAAATTATTTTTAAA
GTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTCGGGGTGTTACA
Found at i:18402754 original size:27 final size:26
Alignment explanation
Indices: 18402679--18402755 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
18402669 CAACTTGATG
**
18402679 AAATGACTGTTATACCTCTACAAGGTA
1 AAATGACTGTTATACC-CTATGAGGTA
*
18402706 AAATGACTTTTATACCCTTATGAGGTA
1 AAATGACTGTTATACCC-TATGAGGTA
*
18402733 AAATGACTGATATATCCCTATGA
1 AAATGACTGTTATA-CCCTATGA
18402756 TATGTATGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.91
28 3 0.07
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (26 bp):
AAATGACTGTTATACCCTATGAGGTA
Found at i:18410727 original size:39 final size:39
Alignment explanation
Indices: 18410670--18410755 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
18410660 CGATATTTGG
* *
18410670 AACATATCCAGACATGAGGTCCGCAGGCTACGTGCTGGA
1 AACATATCCAGACATGAGGTCCACAGGCTACGTGCTAGA
* * *
18410709 AACATATCCGGACCTGAGGTCTACAGGCTACGTGCTAGA
1 AACATATCCAGACATGAGGTCCACAGGCTACGTGCTAGA
*
18410748 AATATATC
1 AACATATC
18410756 TGGGCCTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (39 bp):
AACATATCCAGACATGAGGTCCACAGGCTACGTGCTAGA
Found at i:18413038 original size:21 final size:21
Alignment explanation
Indices: 18413012--18413064 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
18413002 TAAAATTCGA
*
18413012 GATAGATTGAAGACAACTTTC
1 GATAGATAGAAGACAACTTTC
18413033 GATAGATAGAAGACAACTTTC
1 GATAGATAGAAGACAACTTTC
18413054 GATAGATAGAA
1 GATAGATAGAA
18413065 ATCATATGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (21 bp):
GATAGATAGAAGACAACTTTC
Found at i:18413895 original size:28 final size:28
Alignment explanation
Indices: 18413839--18413895 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
18413829 CATCATAACT
* *
18413839 TATAATAGTTTAATATATATAAGTTATA
1 TATAATAGTTTAATATAAATAAATTATA
18413867 TATAAT-GTTTAATA-AAATGAAATTA-A
1 TATAATAGTTTAATATAAAT-AAATTATA
18413893 TAT
1 TAT
18413896 GTATTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 7 0.27
27 13 0.50
28 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (28 bp):
TATAATAGTTTAATATAAATAAATTATA
Found at i:18414692 original size:44 final size:43
Alignment explanation
Indices: 18414626--18414710 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 43
18414616 TGTAATTTGA
18414626 TTTAATGCATATGGTAAGTGTTTGAGGTGAGTATTTGACATTGT
1 TTTAATGCATATGGTAAGTGTTTGAGG-GAGTATTTGACATTGT
*
18414670 TTTAATGCATATGGTAATTGTTTGAGGGAGTATTTGACATT
1 TTTAATGCATATGGTAAGTGTTTGAGGGAGTATTTGACATT
18414711 TTTATACTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 14 0.35
44 26 0.65
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (43 bp):
TTTAATGCATATGGTAAGTGTTTGAGGGAGTATTTGACATTGT
Found at i:18421038 original size:12 final size:12
Alignment explanation
Indices: 18421016--18421047 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18421006 TAGAATTTAC
18421016 TAAAA-TAAAAA
1 TAAAAGTAAAAA
18421027 TAAAAGTAAAAA
1 TAAAAGTAAAAA
18421039 TAAAAGTAA
1 TAAAAGTAA
18421048 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
TAAAAGTAAAAA
Found at i:18423138 original size:55 final size:55
Alignment explanation
Indices: 18423078--18423202 Score: 124
Period size: 55 Copynumber: 2.3 Consensus size: 55
18423068 GTTAATTTAA
* * * * *
18423078 CAGGTTCGACCACGGGTGTTTCACACGGGCGTGTCGAACGCTCGTGTTGTTTTGG
1 CAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCGAACACCCATGTTGTTTTGG
*** ** * *
18423133 CAGGTTATCCCATAGTTCTTCCACACGGGCGTGTCGCACACCCATGTTGTTTTGG
1 CAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCGAACACCCATGTTGTTTTGG
* *
18423188 TAGGCTCGACCACGG
1 CAGGTTCGACCACGG
18423203 CCATATCGCA
Statistics
Matches: 51, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (55 bp):
CAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCGAACACCCATGTTGTTTTGG
Found at i:18426006 original size:19 final size:19
Alignment explanation
Indices: 18425978--18426016 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18425968 AGAGTGAAAG
18425978 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
18425996 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
18426016 A
1 A
18426017 GTACAAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:18434073 original size:20 final size:21
Alignment explanation
Indices: 18434029--18434073 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
18434019 AGCGAAAGGA
18434029 ACGAG-AAACGGGCCAAAAAT
1 ACGAGAAAACGGGCCAAAAAT
* *
18434049 A-GAGAAAATGGGCC-AAAGT
1 ACGAGAAAACGGGCCAAAAAT
18434068 ACGAGA
1 ACGAGA
18434074 TCAACATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.49, C:0.16, G:0.29, T:0.07
Consensus pattern (21 bp):
ACGAGAAAACGGGCCAAAAAT
Found at i:18439372 original size:17 final size:18
Alignment explanation
Indices: 18439352--18439385 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18439342 CTAGATGAAT
*
18439352 AGAAGACAC-ATAAACCG
1 AGAACACACGATAAACCG
18439369 AGAACACACGATAAACC
1 AGAACACACGATAAACC
18439386 AAAACTACGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.26, G:0.15, T:0.06
Consensus pattern (18 bp):
AGAACACACGATAAACCG
Found at i:18443731 original size:112 final size:112
Alignment explanation
Indices: 18443593--18443809 Score: 380
Period size: 112 Copynumber: 1.9 Consensus size: 112
18443583 GTGCGACACG
* * * *
18443593 CCCGTGCCAAATAATCGTGGGTGAACCTGCCAAAACAACATGGGTGTGGACTTTCATATACAGGT
1 CCCGTGCCAAACAACCGTGGGCGAACCTGCCAAAACAACATGGGTGTGGACTTTCATACACAGGT
*
18443658 GTGGCAGAAGTGAACAAAGACAGACACGGTCGTGCGACACGGCCACT
66 GTGGCAGAAGTGAACAAAGACAGACACAGTCGTGCGACACGGCCACT
*
18443705 CCCGTGCCAAACAACCGTGGGCGAACCTGCCAAAACAACATGGGTTTGGACTTTCATACACAGGT
1 CCCGTGCCAAACAACCGTGGGCGAACCTGCCAAAACAACATGGGTGTGGACTTTCATACACAGGT
18443770 GTGGCAGAAGTGAACAAAGACAGACACAGTCGTGCGACAC
66 GTGGCAGAAGTGAACAAAGACAGACACAGTCGTGCGACAC
18443810 AGCCGTGTGC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 99 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (112 bp):
CCCGTGCCAAACAACCGTGGGCGAACCTGCCAAAACAACATGGGTGTGGACTTTCATACACAGGT
GTGGCAGAAGTGAACAAAGACAGACACAGTCGTGCGACACGGCCACT
Found at i:18463887 original size:40 final size:40
Alignment explanation
Indices: 18463856--18464185 Score: 493
Period size: 40 Copynumber: 8.3 Consensus size: 40
18463846 GGACTAAGAT
* * * *
18463856 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
18463896 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
18463936 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
18463976 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
18464016 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
18464056 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
18464096 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
18464136 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
18464175 CCGAAGGCATT
1 CCGAAGGCATT
18464186 TGAACGAGGA
Statistics
Matches: 275, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 34 0.12
40 238 0.87
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:18463940 original size:80 final size:80
Alignment explanation
Indices: 18463803--18464185 Score: 495
Period size: 80 Copynumber: 4.8 Consensus size: 80
18463793 TTGAATGCTG
* * * * * * **
18463803 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
18463866 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * *
18463882 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
18463947 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
18463963 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
18464028 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
**
18464043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
18464108 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
18464123 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
18464186 TGAACGAGGA
Statistics
Matches: 274, Mismatches: 26, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
79 34 0.12
80 230 0.84
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:18464019 original size:120 final size:120
Alignment explanation
Indices: 18463803--18464185 Score: 495
Period size: 120 Copynumber: 3.2 Consensus size: 120
18463793 TTGAATGCTG
* * * * * **
18463803 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * * * *
18463866 TTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
18463923 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
18463988 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
18464043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
18464108 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
18464162 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
18464186 TGAACGAGGA
Statistics
Matches: 233, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
119 36 0.15
120 188 0.81
121 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
Found at i:18471180 original size:40 final size:40
Alignment explanation
Indices: 18471097--18471399 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
18471087 TTGAATGCTG
* * * * * *
18471097 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
18471137 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
18471177 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18471217 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18471257 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18471297 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
18471337 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
18471376 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
18471400 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:18493697 original size:56 final size:56
Alignment explanation
Indices: 18493635--18493847 Score: 284
Period size: 56 Copynumber: 3.8 Consensus size: 56
18493625 TCCCAGACAG
* *
18493635 GGTCTTACTCATAAACACATATCGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCACACACACATATCGAAATCACATATCGATGCCAACGTATTAAATGT
* * * * *
18493691 GATCTTACTCGCACACACATATAGGAATCACATATCGATGCCAATGTATTAAATGT
1 GGTCTTACTCACACACACATATCGAAATCACATATCGATGCCAACGTATTAAATGT
* * *
18493747 GGTCTTACTCACACACACATATC-AGAATCACATATTGATGCCAACATATTAAACGT
1 GGTCTTACTCACACACACATATCGA-AATCACATATCGATGCCAACGTATTAAATGT
** * *
18493803 GGTCTTACTCGTACACACATATCGGAATCACATATCAATGCCAAC
1 GGTCTTACTCACACACACATATCGAAATCACATATCGATGCCAAC
18493848 TCAAAAATGT
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
56 135 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCACACACACATATCGAAATCACATATCGATGCCAACGTATTAAATGT
Found at i:18493809 original size:112 final size:112
Alignment explanation
Indices: 18493635--18493846 Score: 327
Period size: 112 Copynumber: 1.9 Consensus size: 112
18493625 TCCCAGACAG
* * *
18493635 GGTCTTACTCATAAACACATATCGAAATCACATATCGATGCCAACGTATTAAATGTGATCTTACT
1 GGTCTTACTCACAAACACATATCGAAATCACATATCGATGCCAACATATTAAACGTGATCTTACT
*
18493700 CGCACACACATATAGGAATCACATATCGATGCCAATGTATTAAATGT
66 CGCACACACATATAGGAATCACATATCAATGCCAATGTATTAAATGT
* * *
18493747 GGTCTTACTCACACACACATATC-AGAATCACATATTGATGCCAACATATTAAACGTGGTCTTAC
1 GGTCTTACTCACAAACACATATCGA-AATCACATATCGATGCCAACATATTAAACGTGATCTTAC
* *
18493811 TCGTACACACATATCGGAATCACATATCAATGCCAA
65 TCGCACACACATATAGGAATCACATATCAATGCCAA
18493847 CTCAAAAATG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
111 1 0.01
112 89 0.99
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (112 bp):
GGTCTTACTCACAAACACATATCGAAATCACATATCGATGCCAACATATTAAACGTGATCTTACT
CGCACACACATATAGGAATCACATATCAATGCCAATGTATTAAATGT
Found at i:18500436 original size:43 final size:43
Alignment explanation
Indices: 18500368--18500485 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 43
18500358 ATAAAACTCG
* * * *
18500368 TACAATGCC-ATATCCCGGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * *
18500409 TATCGATGCCACTGTCCCAGACATGGTCTTACACGTAATCTCAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
*
18500453 TACAATGCCAATGTCCTAGACATGGTCTTACAT
1 TACAATGCCAATGTCCCAGACATGGTCTTACAT
18500486 TATTGAGATG
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 2 0.03
42 6 0.10
43 51 0.82
44 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:18511619 original size:20 final size:20
Alignment explanation
Indices: 18511594--18511640 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
18511584 TGAAGGGCAT
18511594 GGGCGTGCCCCAAGATACAC
1 GGGCGTGCCCCAAGATACAC
18511614 GGGCGTGCCCCAAGATACAC
1 GGGCGTGCCCCAAGATACAC
18511634 GGGCGTG
1 GGGCGTG
18511641 TGAGTCCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.32, G:0.36, T:0.11
Consensus pattern (20 bp):
GGGCGTGCCCCAAGATACAC
Found at i:18516678 original size:15 final size:17
Alignment explanation
Indices: 18516647--18516679 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
18516637 CACCATAGCT
18516647 GAAACATAAACAAGAAA
1 GAAACATAAACAAGAAA
18516664 GAAA-ATAAA-AAGAAA
1 GAAACATAAACAAGAAA
18516679 G
1 G
18516680 CTAGGGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
GAAACATAAACAAGAAA
Found at i:18527608 original size:43 final size:43
Alignment explanation
Indices: 18527581--18527696 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
18527571 TATCACATAT
*
18527581 CGATGCCATTGTTCCAGACAAGGTCTTACACGAAATCAATTAA
1 CGATGCCAATGTTCCAGACAAGGTCTTACACGAAATCAATTAA
* *
18527624 CGATGCCAATGTTCCAGACATGGTCTTACACGTAATCTCAA-T-A
1 CGATGCCAATGTTCCAGACAAGGTCTTACACG-AA-ATCAATTAA
* * *
18527667 CAATGCCAATGTTCCAGACATGGTATTACA
1 CGATGCCAATGTTCCAGACAAGGTCTTACA
18527697 TGTAAACACA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 59 0.89
44 3 0.05
45 4 0.06
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
CGATGCCAATGTTCCAGACAAGGTCTTACACGAAATCAATTAA
Found at i:18530334 original size:40 final size:40
Alignment explanation
Indices: 18530290--18530553 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
18530280 GCTCCTCGTT
* *
18530290 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
18530330 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
18530370 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
18530410 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
18530450 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
18530489 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
18530530 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18530554 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18539035 original size:40 final size:40
Alignment explanation
Indices: 18538991--18539252 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
18538981 GCTCCTCGTT
* *
18538991 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
18539031 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18539071 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18539110 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18539149 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
18539188 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
18539229 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18539253 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:18555579 original size:33 final size:34
Alignment explanation
Indices: 18555512--18555579 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
18555502 CTAAGCCCAG
**
18555512 ATCAGTAACAATCTAGGCCTGAGCCCTATTCAGT
1 ATCAGTAACAATCTAGGCCTGAGCCCTACACAGT
* * *
18555546 ATCAGT-ACAGTCTGGGCCTTAGCCCTACACAGT
1 ATCAGTAACAATCTAGGCCTGAGCCCTACACAGT
18555579 A
1 A
18555580 ATAGTGTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (34 bp):
ATCAGTAACAATCTAGGCCTGAGCCCTACACAGT
Found at i:18555992 original size:27 final size:26
Alignment explanation
Indices: 18555962--18556082 Score: 107
Period size: 27 Copynumber: 4.5 Consensus size: 26
18555952 GGGCATAATT
* *
18555962 GTCATTTTACCATATAGGGATATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
18555989 GTCATTTTATCCTACAGGGGCATTACG
1 GTCATTTTA-CCTACAGGGGTATTACG
* * **
18556016 GTTATTTTACCCTAGAGGGGTATTATA
1 GTCATTTTA-CCTACAGGGGTATTACG
* **
18556043 GTTATTTTACCTTACAGGGGTATTATA
1 GTCATTTTACC-TACAGGGGTATTACG
*
18556070 GTCATTGTACCTA
1 GTCATTTTACCTA
18556083 TTTTGGGGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
26 4 0.05
27 74 0.93
28 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:18556023 original size:54 final size:54
Alignment explanation
Indices: 18555965--18556067 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
18555955 CATAATTGTC
* *
18555965 ATTTTACCATATAGGGATATTACGGTCATTTTATCC-TACAGGGGCATTACGGTT
1 ATTTTACCATAGAGGGATATTACAGTCATTTTA-CCTTACAGGGGCATTACGGTT
* * * * *
18556019 ATTTTACCCTAGAGGGGTATTATAGTTATTTTACCTTACAGGGGTATTA
1 ATTTTACCATAGAGGGATATTACAGTCATTTTACCTTACAGGGGCATTA
18556068 TAGTCATTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.05
54 39 0.95
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (54 bp):
ATTTTACCATAGAGGGATATTACAGTCATTTTACCTTACAGGGGCATTACGGTT
Found at i:18559096 original size:13 final size:13
Alignment explanation
Indices: 18559078--18559103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18559068 ATGTAATTGT
18559078 AACAAATTAATTC
1 AACAAATTAATTC
18559091 AACAAATTAATTC
1 AACAAATTAATTC
18559104 CCTTTTAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AACAAATTAATTC
Found at i:18559469 original size:31 final size:31
Alignment explanation
Indices: 18559412--18559490 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
18559402 AATATAAATG
* *
18559412 AGCTCAATTAAGCTA-AGTT-GAGTTGAATTA
1 AGCTCAA-TAAGCTAGAATTCGAGTTGAATCA
*
18559442 AGCTCAATGAGCTAGAATTCGAGTTGAATCA
1 AGCTCAATAAGCTAGAATTCGAGTTGAATCA
18559473 AGCTCAATAAGCTAGAAT
1 AGCTCAATAAGCTAGAAT
18559491 AGAGCTGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 6 0.14
30 10 0.23
31 27 0.63
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (31 bp):
AGCTCAATAAGCTAGAATTCGAGTTGAATCA
Found at i:18561207 original size:6 final size:6
Alignment explanation
Indices: 18561146--18561233 Score: 74
Period size: 6 Copynumber: 14.0 Consensus size: 6
18561136 CTCAATCTCT
18561146 TTTTTC TTTCTT- TTGTTCTC TTTTTC --TTTC TATTTTC TTTCATTC
1 TTTTTC TTT-TTC TT-TT-TC TTTTTC TTTTTC T-TTTTC TTT--TTC
* *
18561191 TTTTTTC TTTATC TTTATC TTTTTC TTTTTC TTTTTC TTTTTC
1 -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
18561234 ACATGCTTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
4 4 0.06
6 44 0.63
7 14 0.20
8 5 0.07
9 3 0.04
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:18578513 original size:15 final size:15
Alignment explanation
Indices: 18578481--18578509 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18578471 ATTTTCTATG
18578481 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
18578496 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
18578510 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:18579686 original size:45 final size:42
Alignment explanation
Indices: 18579631--18579790 Score: 139
Period size: 45 Copynumber: 3.8 Consensus size: 42
18579621 AATATGGGTT
**
18579631 TTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGTGG
1 TTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT-T-TAA
* *
18579675 TTACGTGTAAGACCATGTCTGGGACATCGGCATC-ATATTTAA
1 TT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTAA
* * * *
18579717 TTCGTTTAAGACC-CTATCTGGGACAGTGGCATCGATA-TGAGA
1 TTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTA-A
* * *
18579759 TAGCATGTAAGACCACGTC-GGGACGTTGGCAT
1 T-TCGTGTAAGACCACGTCTGGGACATTGGCAT
18579791 TGTATGATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 27 0.29
42 19 0.20
43 12 0.13
44 7 0.07
45 29 0.31
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
TTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTAA
Found at i:18585117 original size:16 final size:16
Alignment explanation
Indices: 18585098--18585128 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18585088 GAAAAACATT
18585098 TTAAAATCGTCAGGAG
1 TTAAAATCGTCAGGAG
18585114 TTAAAATCGTCAGGA
1 TTAAAATCGTCAGGA
18585129 CTCGTCACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (16 bp):
TTAAAATCGTCAGGAG
Found at i:18587371 original size:154 final size:154
Alignment explanation
Indices: 18587091--18587398 Score: 616
Period size: 154 Copynumber: 2.0 Consensus size: 154
18587081 TGGGTCTTGA
18587091 AGATAACTTAGCAACGATCTCAAAAATGTAAAAATTATCAAAAACCGAGCTAAACACATACCTTG
1 AGATAACTTAGCAACGATCTCAAAAATGTAAAAATTATCAAAAACCGAGCTAAACACATACCTTG
18587156 GTTAAGCTTTAAAGATGGCCGAACCCTAGCTTCTAATATTTCTTTTTCTTTTTGTTTAGTTTCGG
66 GTTAAGCTTTAAAGATGGCCGAACCCTAGCTTCTAATATTTCTTTTTCTTTTTGTTTAGTTTCGG
18587221 TCAAAGCTTATTTTGTTTATGTTC
131 TCAAAGCTTATTTTGTTTATGTTC
18587245 AGATAACTTAGCAACGATCTCAAAAATGTAAAAATTATCAAAAACCGAGCTAAACACATACCTTG
1 AGATAACTTAGCAACGATCTCAAAAATGTAAAAATTATCAAAAACCGAGCTAAACACATACCTTG
18587310 GTTAAGCTTTAAAGATGGCCGAACCCTAGCTTCTAATATTTCTTTTTCTTTTTGTTTAGTTTCGG
66 GTTAAGCTTTAAAGATGGCCGAACCCTAGCTTCTAATATTTCTTTTTCTTTTTGTTTAGTTTCGG
18587375 TCAAAGCTTATTTTGTTTATGTTC
131 TCAAAGCTTATTTTGTTTATGTTC
18587399 TATGATATAT
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (154 bp):
AGATAACTTAGCAACGATCTCAAAAATGTAAAAATTATCAAAAACCGAGCTAAACACATACCTTG
GTTAAGCTTTAAAGATGGCCGAACCCTAGCTTCTAATATTTCTTTTTCTTTTTGTTTAGTTTCGG
TCAAAGCTTATTTTGTTTATGTTC
Found at i:18590261 original size:27 final size:26
Alignment explanation
Indices: 18590217--18590268 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18590207 CTCGCTGCAA
*
18590217 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
18590244 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
18590269 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:18590333 original size:33 final size:32
Alignment explanation
Indices: 18590284--18590347 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
18590274 CTCGCTGCAA
* *
18590284 TCTGGTGGCTTTGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
18590317 TCTGGTGGCCTAGCCACAATATCTTTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
18590348 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:18602075 original size:17 final size:17
Alignment explanation
Indices: 18602053--18602092 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
18602043 AAGAAAATTG
18602053 TGTTTAAAACTACCTCT
1 TGTTTAAAACTACCTCT
*
18602070 TGTTTAAAACTACTTCT
1 TGTTTAAAACTACCTCT
*
18602087 TATTTA
1 TGTTTA
18602093 GATTAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (17 bp):
TGTTTAAAACTACCTCT
Found at i:18608526 original size:5 final size:5
Alignment explanation
Indices: 18608516--18608571 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
18608506 TTCTCTACAC
18608516 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
18608566 TTATA T
1 TTATA T
18608572 AAGTTATAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:18608602 original size:15 final size:18
Alignment explanation
Indices: 18608576--18608623 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 18
18608566 TTATATAAGT
*
18608576 TATAACATATAA-AAA-C
1 TATAATATATAATAAACC
18608592 TA-AATATATAATAAACC
1 TATAATATATAATAAACC
18608609 TATAATATTATAATA
1 TATAATA-TATAATA
18608624 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.30
16 5 0.19
17 3 0.11
18 4 0.15
19 7 0.26
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
TATAATATATAATAAACC
Found at i:18608622 original size:19 final size:16
Alignment explanation
Indices: 18608582--18608623 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
18608572 AAGTTATAAC
18608582 ATATAA-AAACTAAAT
1 ATATAATAAACTAAAT
18608597 ATATAATAAACCTATAAT
1 ATATAATAAA-CTA-AAT
18608615 ATTATAATA
1 A-TATAATA
18608624 TAAATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 3 0.13
17 3 0.13
18 4 0.17
19 7 0.30
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAATAAACTAAAT
Found at i:18610350 original size:16 final size:16
Alignment explanation
Indices: 18610331--18610361 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18610321 CTTCTTCACT
18610331 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
18610347 TACTTACTTACTTAA
1 TACTCACTTACTTAA
18610362 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:18610367 original size:20 final size:20
Alignment explanation
Indices: 18610328--18610367 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18610318 AAACTTCTTC
* *
18610328 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18610348 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18610368 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18622669 original size:50 final size:50
Alignment explanation
Indices: 18622609--18622736 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 50
18622599 GTAGGTGCGG
*
18622609 ATGCCATGTCCCAGACAAGGTCTTACACAAGCTCTAACATA-TCTGTCCCA
1 ATGCCATGTCCCAGACAAGGTCTTACACAAGCTATAACATAGT-TGTCCCA
* * * * *
18622659 ATGCCATGTCCTAGACATGGTCTTACACAAGCTATAGCATAGTTGTGCCG
1 ATGCCATGTCCCAGACAAGGTCTTACACAAGCTATAACATAGTTGTCCCA
18622709 ATGCCATGTCCCAGAC-AGGTTCTTACAC
1 ATGCCATGTCCCAGACAAGG-TCTTACAC
18622737 TGACAAAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.03
50 65 0.96
51 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACAAGGTCTTACACAAGCTATAACATAGTTGTCCCA
Found at i:18622838 original size:46 final size:45
Alignment explanation
Indices: 18622753--18622924 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 45
18622743 AACTCATAGT
* * * *
18622753 CGATGCATGTCCCA-AGCATGTCTCACACTGGCTTATGTCTCGAGGT
1 CGATGCATGTCCCAGA-CATGTCTTACACTAGCCT-TGTCTCGAGGC
* *
18622799 CGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-CTTGTCTCGAGGC
* * * ** * *
18622845 CGATGCCATGTCCCAGATATGGTCTTATACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CTTGT-CTCGAGGC
*
18622893 CGATGAATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
18622925 TCACACAAGT
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
46 52 0.51
47 27 0.27
48 21 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCCTTGTCTCGAGGC
Found at i:18630520 original size:46 final size:45
Alignment explanation
Indices: 18630432--18630647 Score: 220
Period size: 46 Copynumber: 4.6 Consensus size: 45
18630422 TATCTGTGTT
18630432 GATGCCATGTCCTAGACATGGTCTTACACTGGCTT-ATGTCTCGAGGCC
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTCA--TCTCGAGGCC
*
18630480 GATGCATGTCCTAGACATGTCTCACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTT-CATCTCGAGGCC
* * * * * *
18630526 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGC-TTCATCTCGAGGCC
* * *
18630572 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCC
* *
18630620 GATGCATGTTCTAGAGATGTCTTACACT
1 GATGCATGTCCTAGACATGTCTTACACT
18630648 AGCTCACACA
Statistics
Matches: 142, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
46 75 0.53
47 39 0.27
48 27 0.19
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTTCATCTCGAGGCC
Found at i:18630640 original size:94 final size:93
Alignment explanation
Indices: 18630378--18630651 Score: 288
Period size: 94 Copynumber: 2.9 Consensus size: 93
18630368 TGGGTACAGG
* ** * **
18630378 TGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGTTGATGCCATGTC
1 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTA-CATATGTG-GCCGATG-CATGTC
* *
18630443 CTAGACATGGTCTTACACTGGCTTATGTCTCGA
63 CTAGACAT-GTCTTACACTAGC-TATGTCTCAA
* * * * * *
18630476 GGCCGATG-CATGTCCTAGACAT-GTCTCACACTGGCT-TACATCTCGAGGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTACATAT-GTGGCCGATGCATGTCCT
18630538 AGACATGTCTTACACTAGC-ACTCGTCTCAA
65 AGACATGTCTTACACTAGCTA-T-GTCTCAA
*
18630568 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTTCT
1 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCT
*
18630632 AGAGATGTCTTACACTAGCT
65 AGACATGTCTTACACTAGCT
18630652 CACACAAGTG
Statistics
Matches: 147, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
90 1 0.01
91 1 0.01
92 25 0.17
93 26 0.18
94 58 0.39
95 5 0.03
96 11 0.07
97 13 0.09
98 7 0.05
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTACATATGTGGCCGATGCATGTCCTA
GACATGTCTTACACTAGCTATGTCTCAA
Found at i:18630867 original size:163 final size:163
Alignment explanation
Indices: 18630616--18630973 Score: 689
Period size: 163 Copynumber: 2.2 Consensus size: 163
18630606 CTCATAATGT
* *
18630616 GGCCGATGCATGTTCTAGAGATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATGGCATG
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATGGCATG
18630681 AATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTTATGCATGT
66 AATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTTATGCATGT
18630746 CCTAGACATGTCTCACACTGGCTTACGTCTCGA
131 CCTAGACATGTCTCACACTGGCTTACGTCTCGA
18630779 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATGGCATG
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATGGCATG
18630844 AATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTTATGCATGT
66 AATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTTATGCATGT
18630909 CCTAGACATGTCTCACACTGGCTTACGTCTCGA
131 CCTAGACATGTCTCACACTGGCTTACGTCTCGA
*
18630942 GGCCGATGCATGTCCTAGACATGTCTCACACT
1 GGCCGATGCATGTCCTAGACATGTCTTACACT
18630974 GGCTTACGTC
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 192 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (163 bp):
GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATGGCATG
AATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTTATGCATGT
CCTAGACATGTCTCACACTGGCTTACGTCTCGA
Found at i:18630953 original size:46 final size:46
Alignment explanation
Indices: 18630901--18631065 Score: 321
Period size: 46 Copynumber: 3.6 Consensus size: 46
18630891 CTCATAGCTT
18630901 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
18630947 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
18630993 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
*
18631039 ATGCATGTCCTAGACATGTCTTACACT
1 ATGCATGTCCTAGACATGTCTCACACT
18631066 AGCACTCGTC
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (46 bp):
ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
Found at i:18631076 original size:46 final size:46
Alignment explanation
Indices: 18630901--18631095 Score: 302
Period size: 46 Copynumber: 4.2 Consensus size: 46
18630891 CTCATAGCTT
*
18630901 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCTAGACATGTCTCACACTAGCTTACGTCTCGAGGCCG
*
18630947 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCTAGACATGTCTCACACTAGCTTACGTCTCGAGGCCG
*
18630993 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCTAGACATGTCTCACACTAGCTTACGTCTCGAGGCCG
* * * *
18631039 ATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAATGCCG
1 ATGCATGTCCTAGACATGTCTCACACTAGC-TTACGTCTCGAGGCCG
18631085 ATGCCATGTCC
1 ATG-CATGTCC
18631096 CAAGCATGGT
Statistics
Matches: 142, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
46 134 0.94
47 8 0.06
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.27
Consensus pattern (46 bp):
ATGCATGTCCTAGACATGTCTCACACTAGCTTACGTCTCGAGGCCG
Found at i:18632876 original size:45 final size:44
Alignment explanation
Indices: 18632826--18632971 Score: 120
Period size: 45 Copynumber: 3.2 Consensus size: 44
18632816 TGAAACAAAC
*
18632826 TATGGCATCATACCGAAAATGAGTAAGACCATAGTCGAAAGACGT
1 TATGGCATCATA-CGATAATGAGTAAGACCATAGTCGAAAGACGT
* *** *
18632871 TATGGCATCACAATTTTAACGAGTAAGACCATAGAT-GAAAGACGT
1 TATGGCATCA-TACGATAATGAGTAAGACCATAG-TCGAAAGACGT
* * *
18632916 TATGGTATC--ACGATTCTAATGAGTAAGACCATAG-CTAAAAGATGT
1 TATGGCATCATACGA---TAATGAGTAAGACCATAGTC-GAAAGACGT
18632961 TATGGCATCAT
1 TATGGCATCAT
18632972 GAATTAGATG
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
45 75 0.96
46 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (44 bp):
TATGGCATCATACGATAATGAGTAAGACCATAGTCGAAAGACGT
Found at i:18632988 original size:45 final size:45
Alignment explanation
Indices: 18632843--18633014 Score: 136
Period size: 45 Copynumber: 3.8 Consensus size: 45
18632833 TCATACCGAA
* * *
18632843 AATGAGTAAGACCATAG-TCGAAAGACGTTATGGCATCAC-AATTTT
1 AATGAATAAGACCATAGAT-AAAAGACGTTATGGCATCACGAA-TCT
* * * * *
18632888 AACGAGTAAGACCATAGATGAAAGACGTTATGGTATCACGATTCT
1 AATGAATAAGACCATAGATAAAAGACGTTATGGCATCACGAATCT
* * * *
18632933 AATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGAAT-T
1 AATGAATAAGACCATAGATAAAAGACGTTATGGCATCACGAATCT
* * **
18632977 AGATGAATAAGATCAT-GATTGAAAGACACTATGGCATC
1 A-ATGAATAAGACCATAGA-TAAAAGACGTTATGGCATC
18633015 CTTCAACCAT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
44 3 0.03
45 100 0.95
46 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (45 bp):
AATGAATAAGACCATAGATAAAAGACGTTATGGCATCACGAATCT
Found at i:18633010 original size:90 final size:89
Alignment explanation
Indices: 18632843--18633010 Score: 198
Period size: 90 Copynumber: 1.9 Consensus size: 89
18632833 TCATACCGAA
* *
18632843 AATGAGTAAGACCATAGTCGAAAGACGTTATGGCATCACAATTTTAACGAGTAAGACCATAGATG
1 AATGAGTAAGACCATAGTCAAAAGACGTTATGGCATCACAA-TTTAACGAATAAGACCATAGATG
**
18632908 AAAGACGTTATGGTATCACGATTCT
65 AAAGACACTATGGTATCACGATTCT
* * * *
18632933 AATGAGTAAGACCATAG-CTAAAAGATGTTATGGCATCATGAA-TTAGATGAATAAGATCAT-GA
1 AATGAGTAAGACCATAGTC-AAAAGACGTTATGGCATCA-CAATTTA-ACGAATAAGACCATAGA
18632995 TTGAAAGACACTATGG
63 -TGAAAGACACTATGG
18633011 CATCCTTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
89 6 0.09
90 58 0.88
91 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (89 bp):
AATGAGTAAGACCATAGTCAAAAGACGTTATGGCATCACAATTTAACGAATAAGACCATAGATGA
AAGACACTATGGTATCACGATTCT
Found at i:18633411 original size:17 final size:17
Alignment explanation
Indices: 18633386--18633419 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18633376 AACTCTGTTC
*
18633386 ATTAATATTTTATTTGA
1 ATTAATATTATATTTGA
*
18633403 ATTATTATTATATTTGA
1 ATTAATATTATATTTGA
18633420 TTCAGTAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTAATATTATATTTGA
Found at i:18638282 original size:43 final size:43
Alignment explanation
Indices: 18638234--18638403 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
18638224 GTTACCGAGA
18638234 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
** * *
18638277 TGTGATTATGTGTAAGACCATGTCT-AGGACATTGG-ACT-CAT
1 TGTGATTACATGTAAGACCATGTCTGA-GACATTGGCATTGTAT
* * * * * *
18638318 TAATCGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 T-GT-GATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
* * * *
18638362 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTA
18638404 CGAGCTATAT
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 3 0.03
42 11 0.11
43 80 0.81
44 4 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
Found at i:18647966 original size:51 final size:51
Alignment explanation
Indices: 18647890--18647987 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
18647880 AGATATGCAG
*
18647890 CATCCGAGCTCATTGAGAGGTTCGAGTTCATAGTGGATATGATTCATGTAA
1 CATCCGAGCTCATTAAGAGGTTCGAGTTCATAGTGGATATGATTCATGTAA
* *
18647941 CATCCGAGCTCATTAAGAGGTTCGAGTTCATGGTGGATGTGATTCAT
1 CATCCGAGCTCATTAAGAGGTTCGAGTTCATAGTGGATATGATTCAT
18647988 TAGGGATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
CATCCGAGCTCATTAAGAGGTTCGAGTTCATAGTGGATATGATTCATGTAA
Found at i:18669451 original size:51 final size:52
Alignment explanation
Indices: 18669355--18669461 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 52
18669345 TTCATTATGG
* *
18669355 ATGTAAGCATTCGAGCTCGTTGAGAGGTCCGAGTTCATGGTGGATGTGATT-C
1 ATGTAAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATAGTGGATGTG-TTGC
*
18669407 ATGTAA-CATCCGAGCTCGTTGAGGGGTCCGAGTTCATTAG-GGATGTGTTGC
1 ATGTAAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCA-TAGTGGATGTGTTGC
18669458 ATGT
1 ATGT
18669462 TATGTGGTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
50 2 0.04
51 40 0.80
52 8 0.16
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (52 bp):
ATGTAAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATAGTGGATGTGTTGC
Found at i:18673493 original size:20 final size:20
Alignment explanation
Indices: 18673468--18673519 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
18673458 CGGGTAAGGG
18673468 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
18673488 ACACGGGCGTGTCCCAACGC
1 ACACGGGCGTGTCCCAAAGC
18673508 ACACGGGCGTGT
1 ACACGGGCGTGT
18673520 GCATTGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.35, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:18676574 original size:46 final size:47
Alignment explanation
Indices: 18676471--18676694 Score: 235
Period size: 47 Copynumber: 4.8 Consensus size: 47
18676461 GGGTTATTTT
* * * *
18676471 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGA
* *
18676518 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATG-A
* *
18676565 -AGCCGGTGTAAGACATGTCTGGGACAT-GCATCTG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGAGATGA
* * * * * *
18676610 TAGTCAGTGTATGACCATGTCTAGGACATGGCATC-GACTTGAGAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGATGA
18676656 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
18676695 ACCTTACCCC
Statistics
Matches: 151, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
45 3 0.02
46 62 0.41
47 78 0.52
48 8 0.05
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGA
Found at i:18676637 original size:93 final size:93
Alignment explanation
Indices: 18676476--18676691 Score: 262
Period size: 93 Copynumber: 2.3 Consensus size: 93
18676466 ATTTTGAGCT
*
18676476 AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTAG
* *
18676541 GACAT-GCATCGGCCTCGAGATGTAAGCC
66 GACATGGCATC-GACTCGAGATATAAGCC
* * * *
18676569 GGTGTAAGACATGTCTGGGACAT-GCATCTGC-TACGAGATGA-TAG-TCAGTGTATGACCATGT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCAT-CGAGACGAGT-GCT-AGTGTAAGA-CATGT
* *
18676630 CTAGGACATGGCATCGACTTGAGATATGAGCC
62 CTAGGACATGGCATCGACTCGAGATATAAGCC
18676662 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
18676692 GGCACCTTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
91 3 0.03
92 23 0.22
93 56 0.53
94 19 0.18
95 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTAG
GACATGGCATCGACTCGAGATATAAGCC
Found at i:18684112 original size:47 final size:46
Alignment explanation
Indices: 18684001--18684172 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
18683991 GGTTAGTGTG
** * *
18684001 AGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCA-C-ATTATG-A
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATCGA-GACGTA
*
18684046 GAGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACG-A
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACGTA
* * * *
18684094 GTGCTACTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGTA
*
18684141 AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC
18684173 TGCTATGAGA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 56 0.52
47 31 0.29
48 20 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGTA
Found at i:18684172 original size:46 final size:48
Alignment explanation
Indices: 18684000--18684267 Score: 234
Period size: 47 Copynumber: 5.7 Consensus size: 48
18683990 GGGTTAGTGT
* ** ** *
18684000 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCC-ACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA-GATGA
* * * *
18684046 GAGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGA
* * * *
18684094 GTGCTACTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATG-A
*
18684141 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCTG-CTATGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-TGAGATGA
* * * * *
18684186 TAGTCAGTGTATGACCATGTCTAGGACATGGCATC-GACTTGAGAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGA
*
18684232 TGAGCCAGTGTAAGACCATGTCTGGCACATGGCATC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
18684268 GGCACCTTAC
Statistics
Matches: 187, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 76 0.41
47 79 0.42
48 28 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGA
Found at i:18684230 original size:93 final size:94
Alignment explanation
Indices: 18684051--18684267 Score: 248
Period size: 93 Copynumber: 2.3 Consensus size: 94
18684041 TATGAGAGCT
*
18684051 AGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTA
* *
18684116 GGACATGCATCAGCCTCGAGATGTAAGCC
66 GGACATGCATCAGACTCGAGATATAAGCC
* * * *
18684145 AGTGTAAGA-CATGTCTGGGACAT-GCATCTGC-TATGAGATGA-TAG-TCAGTGTATGACCATG
1 AGTGTAAGACCATGTCTGGGACATAGCATCAGCAT-TGAGACGAGT-GCT-ACTGTAAGA-CATG
* *
18684205 TCTAGGACATGGCATC-GACTTGAGATATGAGCC
62 TCTAGGACAT-GCATCAGACTCGAGATATAAGCC
* *
18684238 AGTGTAAGACCATGTCTGGCACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATAGCATC
18684268 GGCACCTTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
91 3 0.03
92 22 0.21
93 49 0.46
94 27 0.25
95 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTA
GGACATGCATCAGACTCGAGATATAAGCC
Found at i:18684262 original size:140 final size:141
Alignment explanation
Indices: 18684005--18684267 Score: 315
Period size: 140 Copynumber: 1.9 Consensus size: 141
18683995 AGTGTGAGCT
* *
18684005 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTAG
* * *
18684070 GACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTGGGACAT-GCATCAGCCTCG
66 GACATAGCATCAGCATTGAGACGAGAGCCACTGTAAGACATGTCTGGCACATGGCATCAGCCTCG
18684134 AGATGTAAGCC
131 AGATGTAAGCC
* * * *
18684145 AGTGTAAGACATGTCTGGGACATGCATCT-GCTATGA-GATGATAG-TCAGTGTATGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCAT-TGGCCA-CATGATGAGAGCT-AGTGTAAGACCATGTC
* * *
18684207 TAGGACATGGCATC-G-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTGGCACATGGCATC
63 TAGGACATAGCATCAGCA-TTGAGACGA-GAGCCACTGTAAGA-CATGTCTGGCACATGGCATC
18684268 GGCACCTTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
138 2 0.02
139 19 0.18
140 76 0.73
141 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTAG
GACATAGCATCAGCATTGAGACGAGAGCCACTGTAAGACATGTCTGGCACATGGCATCAGCCTCG
AGATGTAAGCC
Found at i:18685265 original size:28 final size:28
Alignment explanation
Indices: 18685233--18685287 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
18685223 AGGCTAGGAC
*
18685233 ATGGGCATGTCATGGCCGTGTGAAGCAT
1 ATGGGCATGTCATGGCCGTCTGAAGCAT
* *
18685261 ATGGGCGTGTCATGGCTGTCTGAAGCA
1 ATGGGCATGTCATGGCCGTCTGAAGCA
18685288 CACGGGCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.25
Consensus pattern (28 bp):
ATGGGCATGTCATGGCCGTCTGAAGCAT
Found at i:18685294 original size:28 final size:28
Alignment explanation
Indices: 18685235--18685294 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18685225 GCTAGGACAT
* * *
18685235 GGGCATGTCATGGCCGTGTGAAGCATAT
1 GGGCATGTCATGGCCGTCTGAAGCACAC
* *
18685263 GGGCGTGTCATGGCTGTCTGAAGCACAC
1 GGGCATGTCATGGCCGTCTGAAGCACAC
18685291 GGGC
1 GGGC
18685295 CAAGGACACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (28 bp):
GGGCATGTCATGGCCGTCTGAAGCACAC
Found at i:18688688 original size:19 final size:19
Alignment explanation
Indices: 18688664--18688709 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
18688654 AAAGATCACC
*
18688664 ATACAGATACAAATCTCAT
1 ATACAGATACAAATCTCAG
18688683 ATACAGATACAAATCTCAG
1 ATACAGATACAAATCTCAG
18688702 ATACAGAT
1 ATACAGAT
18688710 CTCACCCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.24
Consensus pattern (19 bp):
ATACAGATACAAATCTCAG
Found at i:18689312 original size:14 final size:14
Alignment explanation
Indices: 18689293--18689322 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18689283 GAATAGTAAA
18689293 CAGGGCATTTTGGT
1 CAGGGCATTTTGGT
18689307 CAGGGCATTTTGGT
1 CAGGGCATTTTGGT
18689321 CA
1 CA
18689323 TTTAGGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (14 bp):
CAGGGCATTTTGGT
Found at i:18697984 original size:13 final size:14
Alignment explanation
Indices: 18697957--18697994 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
18697947 TCCAGTTACA
18697957 ATATACAGAATCAG
1 ATATACAGAATCAG
18697971 ATATACAG-ATCAG
1 ATATACAGAATCAG
*
18697984 A-ACACAGAATC
1 ATATACAGAATC
18697995 CTATCCCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 9 0.41
14 8 0.36
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (14 bp):
ATATACAGAATCAG
Found at i:18705758 original size:37 final size:37
Alignment explanation
Indices: 18705708--18705781 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
18705698 ATACCTCATA
18705708 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
1 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
18705745 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
1 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
18705782 TGCTTAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (37 bp):
ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
Found at i:18710955 original size:47 final size:47
Alignment explanation
Indices: 18710902--18710996 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
18710892 AATTAATAAC
*
18710902 TTCAATGAATATCCATTAAACCAAATTAACAAAAATTATAATTCGTT
1 TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
18710949 TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
1 TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
18710996 T
1 T
18710997 AGATTGACAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (47 bp):
TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
Found at i:18717436 original size:38 final size:38
Alignment explanation
Indices: 18717385--18717459 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
18717375 TAGGATATGA
18717385 TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTGG
1 TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTGG
*
18717423 TCTCAGGGAAGATGATTGGCAACGCTTAAGAATCTTG
1 TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTG
18717460 TGAAATTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (38 bp):
TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTGG
Found at i:18730546 original size:18 final size:18
Alignment explanation
Indices: 18730513--18730547 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18730503 TTTATATTAG
* *
18730513 AAATTAAATTATAATATT
1 AAATTAAAATAAAATATT
18730531 AAATTAAAATAAAATAT
1 AAATTAAAATAAAATAT
18730548 AACATATCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAAATAAAATATT
Found at i:18737539 original size:40 final size:40
Alignment explanation
Indices: 18737484--18737692 Score: 208
Period size: 41 Copynumber: 5.1 Consensus size: 40
18737474 GCAAAAATTG
* * * *
18737484 TAAAACACATAGCAATAGCGGCGTTTTAACAAAAACGCCAC
1 TAAAAC-CAGAGCATTAGCGGCGTTTTAGCAAAAACGCCGC
* * *
18737525 TAAAACCAGAGCAATAGCGGCGTTTTAGTAAAAAAGGCCGC
1 TAAAACCAGAGCATTAGCGGCGTTTTAG-CAAAAACGCCGC
* * * *
18737566 TAAAAACAGAGCATTAGCGGCACTTTTGGC-AAAACACCGC
1 TAAAACCAGAGCATTAGCGGC-GTTTTAGCAAAAACGCCGC
* *
18737606 TAAAAACCAGAGCATTAGAGGCGCTTTT-GGAAAAACGCCGC
1 T-AAAACCAGAGCATTAGCGGCG-TTTTAGCAAAAACGCCGC
*
18737647 TAAAAACCAGAGCATTAGCGGCGCTTTTGGC-AAAACGCCGC
1 T-AAAACCAGAGCATTAGCGGCG-TTTTAGCAAAAACGCCGC
18737688 TAAAA
1 TAAAA
18737693 GTTTGTCTTC
Statistics
Matches: 143, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
40 34 0.24
41 103 0.72
42 6 0.04
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (40 bp):
TAAAACCAGAGCATTAGCGGCGTTTTAGCAAAAACGCCGC
Found at i:18737609 original size:81 final size:81
Alignment explanation
Indices: 18737515--18737692 Score: 252
Period size: 82 Copynumber: 2.2 Consensus size: 81
18737505 CGTTTTAACA
* * *
18737515 AAAACGCCACTAAAACCAGAGCAATAGCGGCG-TTTTAGTAAAAAAGGCCGCTAAAAA-CAGAGC
1 AAAACGCCGCTAAAACCAGAGCAATAGAGGCGCTTTT-G-AAAAAACGCCGCTAAAAACCAGAGC
18737578 ATTAGCGGCACTTTTGGC
64 ATTAGCGGCACTTTTGGC
* * *
18737596 AAAACACCGCTAAAAACCAGAGCATTAGAGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCT-AAAACCAGAGCAATAGAGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCA
*
18737661 TTAGCGGCGCTTTTGGC
65 TTAGCGGCACTTTTGGC
18737678 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
18737693 GTTTGTCTTC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
81 29 0.34
82 53 0.62
83 4 0.05
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (81 bp):
AAAACGCCGCTAAAACCAGAGCAATAGAGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCAT
TAGCGGCACTTTTGGC
Found at i:18737834 original size:72 final size:72
Alignment explanation
Indices: 18737717--18738034 Score: 620
Period size: 72 Copynumber: 4.4 Consensus size: 72
18737707 AGTTAACTAT
18737717 GGTTTAA-GATATATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGAT
1 GGTTTAAGGAT-TATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGAT
18737781 GAATTGTG
65 GAATTGTG
18737789 GGTTTAAGGATTATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGATG
1 GGTTTAAGGATTATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGATG
18737854 AATTGTG
66 AATTGTG
18737861 GGTTTAAGGATTATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGATG
1 GGTTTAAGGATTATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGATG
18737926 AATTGTG
66 AATTGTG
18737933 GGTTTAAGGATTATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGATG
1 GGTTTAAGGATTATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGATG
18737998 AATTGTG
66 AATTGTG
18738005 GGTTTAAGGATTATGATTTAGGGTTTAAGG
1 GGTTTAAGGATTATGATTTAGGGTTTAAGG
18738035 GTTAGGGTTA
Statistics
Matches: 245, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
72 242 0.99
73 3 0.01
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (72 bp):
GGTTTAAGGATTATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAGTATTTGAAGGTTTATGATG
AATTGTG
Found at i:18738039 original size:14 final size:14
Alignment explanation
Indices: 18738022--18738078 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
18738012 GGATTATGAT
18738022 TTAGGGTTTAAGGG
1 TTAGGGTTTAAGGG
* *
18738036 TTAGGG-TTAAAGT
1 TTAGGGTTTAAGGG
* *
18738049 TTAAGGTGTAAGGG
1 TTAGGGTTTAAGGG
* *
18738063 TTTGGGGTTAAGGG
1 TTAGGGTTTAAGGG
18738077 TT
1 TT
18738079 TAGAGTTTAG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
13 10 0.31
14 22 0.69
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (14 bp):
TTAGGGTTTAAGGG
Found at i:18738060 original size:27 final size:28
Alignment explanation
Indices: 18738021--18738073 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
18738011 AGGATTATGA
* *
18738021 TTTAGGGTTTAAGGG-TTAGGGTTAAAG
1 TTTAAGGTGTAAGGGTTTAGGGTTAAAG
*
18738048 TTTAAGGTGTAAGGGTTTGGGGTTAA
1 TTTAAGGTGTAAGGGTTTAGGGTTAA
18738074 GGGTTTAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (28 bp):
TTTAAGGTGTAAGGGTTTAGGGTTAAAG
Found at i:18738482 original size:75 final size:75
Alignment explanation
Indices: 18738306--18738606 Score: 523
Period size: 75 Copynumber: 4.0 Consensus size: 75
18738296 TGGCTTCCAA
*
18738306 ATTATATCAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTT-AAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
*
18738370 AAAAAATACT
66 AAAAAACACT
* ** *
18738380 ATTATAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTAAAAAAAATGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
18738445 AAAAAACACT
66 AAAAAACACT
* *
18738455 ATTATAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTTTAAAAAATGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
18738520 AAAAAACACT
66 AAAAAACACT
18738530 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
18738595 AAAAAACACT
66 AAAAAACACT
18738605 AT
1 AT
18738607 GAAAACGGCG
Statistics
Matches: 216, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
74 49 0.23
75 167 0.77
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (75 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
AAAAAACACT
Found at i:18738759 original size:18 final size:18
Alignment explanation
Indices: 18738736--18738779 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18738726 CCCAAAACAG
* *
18738736 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
18738754 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
18738772 ATTTCCCC
1 ATTTCCCC
18738780 CAAAATCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:18743026 original size:41 final size:41
Alignment explanation
Indices: 18742904--18743069 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 41
18742894 TGAAATATAT
* ** * *
18742904 ATGGTCTTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGATC
1 ATGGTCTTTAGCGGCGTTTTT--AAAAAGCGCCGCTAAAGGTC
* *
18742947 AT-GTCGTTAGCGGCGTTTTTGGGGAAAAGCGCCGCTAAAGGTC
1 ATGGTCTTTAGCGGCGTTTTT---AAAAAGCGCCGCTAAAGGTC
* *
18742990 TTGGTCTTTAGCGGCGTTTTTAAAAAGTGCCGCTAAAGGTC
1 ATGGTCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTC
* * * *
18743031 CTGTTCTTTAGCGGCATTTTTTAAAAAAACGCCGCTAAA
1 ATGGTCTTTAGCGGC-GTTTTT-AAAAAGCGCCGCTAAA
18743070 AGTTTGTCTT
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
41 31 0.30
42 21 0.20
43 36 0.34
44 17 0.16
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
ATGGTCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTC
Found at i:18743319 original size:31 final size:30
Alignment explanation
Indices: 18743266--18743331 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
18743256 TCGGTCTCGA
18743266 CATATACTGGGCCGAAGCCTTTTCATAAAT
1 CATATACTGGGCCGAAGCCTTTTCATAAAT
** *
18743296 CATATCACTGGGTTGAAGGCTTTTCATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
18743327 CATAT
1 CATAT
18743332 GTGACAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTTCATAAAT
Found at i:18744836 original size:29 final size:29
Alignment explanation
Indices: 18744801--18744874 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
18744791 GTTGTGAGAT
* *
18744801 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18744830 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18744859 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18744875 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18754562 original size:29 final size:29
Alignment explanation
Indices: 18754527--18754600 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
18754517 GTTGTGAGAT
* *
18754527 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18754556 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18754585 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18754601 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18756936 original size:27 final size:26
Alignment explanation
Indices: 18756877--18757021 Score: 128
Period size: 27 Copynumber: 5.4 Consensus size: 26
18756867 TTAGAAAGTC
* ***
18756877 AAGGGTATTTTTGTAATTTTGTGAAT
1 AAGGGTATTTTGGTAATTTTACAAAT
*
18756903 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAA-T
* * * *
18756931 GAGGGTATTTCGGTAATTTCACAAAC
1 AAGGGTATTTTGGTAATTTTACAAAT
*
18756957 CAGTGGTATTTTGGTAATTTTACAAAAT
1 AAG-GGTATTTTGGTAATTTTAC-AAAT
* **
18756985 AAGGGTATTTTGGTAATTCTACCCTAT
1 AAGGGTATTTTGGTAATTTTA-CAAAT
18757012 AAGGGTATTT
1 AAGGGTATTT
18757022 CAATAATTTC
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
26 2 0.02
27 87 0.91
28 7 0.07
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
AAGGGTATTTTGGTAATTTTACAAAT
Found at i:18757070 original size:27 final size:27
Alignment explanation
Indices: 18757034--18757125 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
18757024 ATAATTTCAC
* *
18757034 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
18757061 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * * * *
18757088 CATCAAGGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
18757115 AATCGAGGGTA
1 AATCGAGGGTA
18757126 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:18761588 original size:27 final size:27
Alignment explanation
Indices: 18761571--18761749 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
18761561 ATATTAAGTC
18761571 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
18761598 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
18761626 CGCACACTTACTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
18761653 CGCACACTTAGTGCTACGTAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
18761681 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
18761708 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
18761735 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
18761750 GCACAATTTA
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.64
28 51 0.36
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:18761655 original size:55 final size:55
Alignment explanation
Indices: 18761571--18761749 Score: 288
Period size: 55 Copynumber: 3.3 Consensus size: 55
18761561 ATATTAAGTC
* * * *
18761571 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* *
18761626 CGCACACTTACTGCTACATAGTCAACTCGCACACTTAGTGCTACGTAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
18761681 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
18761735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18761750 GCACAATTTA
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 18 0.16
55 97 0.84
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:18761712 original size:82 final size:82
Alignment explanation
Indices: 18761571--18761749 Score: 279
Period size: 82 Copynumber: 2.2 Consensus size: 82
18761561 ATATTAAGTC
* *
18761571 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
18761636 CTGCTACATAGTCAACT
66 CTGCTACATAGTCAACT
* * *
18761653 CGCACACTTAGTGCTACGTAGTCAAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
18761717 AGTGCTACATAGTCAATT
65 ACTGCTACATAGTCAACT
18761735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18761750 GCACAATTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
82 63 0.71
83 26 0.29
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
CTGCTACATAGTCAACT
Found at i:18763735 original size:51 final size:51
Alignment explanation
Indices: 18763659--18763758 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
18763649 GCCCTTACGG
*
18763659 CCAAACCTGAGTACCTTTTTCCAAGGCGAAACTTTAAGGAACACTTTATTT
1 CCAAACCTGAGTACCTTTTTCCAAGGCAAAACTTTAAGGAACACTTTATTT
* *
18763710 CCAAACCTGAGTACGTTTTTCCAAGGCAAAACTTTAAGGAATACTTTAT
1 CCAAACCTGAGTACCTTTTTCCAAGGCAAAACTTTAAGGAACACTTTAT
18763759 CTCCCACCTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (51 bp):
CCAAACCTGAGTACCTTTTTCCAAGGCAAAACTTTAAGGAACACTTTATTT
Found at i:18764442 original size:164 final size:164
Alignment explanation
Indices: 18764208--18764535 Score: 566
Period size: 164 Copynumber: 2.0 Consensus size: 164
18764198 ATCCGACACG
* ** *
18764208 ATAGAAATAGGTACTCCATGTAATCTCACAATCTGAGAAACATACAATTCGGCTAGTTTATCCAA
1 ATAGAAATAGGTACCCCATGTAATCTCACAATCTGAGAAACATACAATTCAACTAGTCTATCCAA
* * *
18764273 TGAAAAATCCGTACGCACGGGGATAAAGTGAGCCGACTTAGTCAGTCTATCAACAACAACCCAAA
66 TGAAAAATCCATACACACGGGGATAAAGTGAGCCGACTTACTCAGTCTATCAACAACAACCCAAA
*
18764338 TCGCATCCTTCTTACTTGTTGACAATGGTAGTCC
131 TCGCATCCTTCTTACTTGTTGACAATGGCAGTCC
* *
18764372 ATAGAAATAGGTACCCCGTGTAATCTCACAATCTGAGAAACGTACAATTCAACTAGTCTATCCAA
1 ATAGAAATAGGTACCCCATGTAATCTCACAATCTGAGAAACATACAATTCAACTAGTCTATCCAA
18764437 TGAAAAATCCATACACACGGGGATAAAGTGAGCCGACTTACTCAGTCTATCAACAACAACCCAAA
66 TGAAAAATCCATACACACGGGGATAAAGTGAGCCGACTTACTCAGTCTATCAACAACAACCCAAA
18764502 TCGCATCCTTCTTACTTGTTGACAATGGCAGTCC
131 TCGCATCCTTCTTACTTGTTGACAATGGCAGTCC
18764536 GGACACAAAG
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 154 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (164 bp):
ATAGAAATAGGTACCCCATGTAATCTCACAATCTGAGAAACATACAATTCAACTAGTCTATCCAA
TGAAAAATCCATACACACGGGGATAAAGTGAGCCGACTTACTCAGTCTATCAACAACAACCCAAA
TCGCATCCTTCTTACTTGTTGACAATGGCAGTCC
Found at i:18764935 original size:111 final size:111
Alignment explanation
Indices: 18764741--18764959 Score: 357
Period size: 111 Copynumber: 2.0 Consensus size: 111
18764731 CGGGTGGATA
* *
18764741 GACATTCGGCCACTATGAGCCTCATTCAAAATCATCGAAATAAGTTCCGAATTCCTTGGAACACA
1 GACATTCGGCCACAATGAGCCTCATTCAAAATCATCGAAATAAGTTCCGAACTCCTTGGAACACA
*
18764806 CAAACGACTTCTGAACCTCAAACAATCATCATCATCCATTTGACTT
66 CAAACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGACTT
* * * * * *
18764852 GACATTCGGCTACAATGGGCTTCATTCAGAATCATCGAAATGAGTTCCGAACTCCTTGGAATACA
1 GACATTCGGCCACAATGAGCCTCATTCAAAATCATCGAAATAAGTTCCGAACTCCTTGGAACACA
18764917 CAAACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGA
66 CAAACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGA
18764960 AACTCCGATT
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (111 bp):
GACATTCGGCCACAATGAGCCTCATTCAAAATCATCGAAATAAGTTCCGAACTCCTTGGAACACA
CAAACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGACTT
Found at i:18764996 original size:27 final size:27
Alignment explanation
Indices: 18764964--18765019 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
18764954 ATTTGAAACT
*
18764964 CCGATTCCTTGTTCGGAGCACACTCAG
1 CCGATTCCTTGTTCGGAACACACTCAG
18764991 CCGATTCCTTGTTCGGAACACACTCAG
1 CCGATTCCTTGTTCGGAACACACTCAG
18765018 CC
1 CC
18765020 CGTTTTGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.25
Consensus pattern (27 bp):
CCGATTCCTTGTTCGGAACACACTCAG
Found at i:18774371 original size:22 final size:21
Alignment explanation
Indices: 18774345--18774385 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18774335 CAACTGTACA
18774345 AAATATATTAATGTAATCAATG
1 AAATATATTAAT-TAATCAATG
* *
18774367 AAATATTTTTATTAATCAA
1 AAATATATTAATTAATCAA
18774386 CCCATTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
AAATATATTAATTAATCAATG
Found at i:18780105 original size:40 final size:40
Alignment explanation
Indices: 18780013--18780110 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
18780003 AACCCAAGTA
*
18780013 CCTTCGGGAT-TTAGCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATG
18780052 CCTTCGGGA-CTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGATCTTAG-CCGGATATAG-CAACTAGCACAAATG
18780092 CCTTC-GGATCTTAGTCCGG
1 CCTTCGGGATCTTAG-CCGG
18780111 TTATCATCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
39 16 0.30
40 36 0.68
41 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATG
Found at i:18781529 original size:13 final size:13
Alignment explanation
Indices: 18781513--18781540 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18781503 TTTATTATTT
18781513 TTAACACAAAATA
1 TTAACACAAAATA
18781526 TTAACACAAAATA
1 TTAACACAAAATA
18781539 TT
1 TT
18781541 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:18784956 original size:49 final size:49
Alignment explanation
Indices: 18784883--18785070 Score: 227
Period size: 49 Copynumber: 3.8 Consensus size: 49
18784873 TACCCGAAGC
*
18784883 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
18784932 AATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* *
18784983 TTTC-GAGTA-AGCATAGTAGCCTGCACTTAGTAGTACACATGCGACCAAT
1 TATCTG-GTACA-CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* ** *
18785032 TATCCGGTACATGTAGTAGCCTGCAGTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
18785071 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 73 0.62
50 6 0.05
51 38 0.32
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:18785006 original size:100 final size:100
Alignment explanation
Indices: 18784893--18785075 Score: 312
Period size: 100 Copynumber: 1.8 Consensus size: 100
18784883 TATCTGGTAC
*
18784893 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACATAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCCTGCAC
18784958 TTAGTACTACACACGTGATCACAGTTTTCGAGTAA
66 TTAGTACTACACACGTGATCACAGTTTTCGAGTAA
* * ** *
18784993 GCATAGTAGCCTGCACTTAGTAGTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCAG
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCCTGCAC
18785058 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
18785076 CCTCACAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCCTGCAC
TTAGTACTACACACGTGATCACAGTTTTCGAGTAA
Found at i:18796763 original size:25 final size:25
Alignment explanation
Indices: 18796724--18796817 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
18796714 TCATGTACAT
18796724 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGTGAATCG
* *
18796749 GTATGCTCACT-CGAGCTGTGGATTG
1 GTATGCTCA-TACGAGCTGTGAATCG
* * * *
18796774 GTATACT-TTAACGAGCTATAAATCG
1 GTATGCTCAT-ACGAGCTGTGAATCG
* * *
18796799 GTATACTCACATGAGCTGT
1 GTATGCTCATACGAGCTGT
18796818 AGGTCTGAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTGAATCG
Found at i:18800700 original size:11 final size:11
Alignment explanation
Indices: 18800684--18800724 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
18800674 ATCATTCAAC
18800684 CATTCCAAACA
1 CATTCCAAACA
18800695 CATTCC-AA-A
1 CATTCCAAACA
18800704 CATTACCAAACA
1 CATT-CCAAACA
*
18800716 CATACCAAA
1 CATTCCAAA
18800725 ATATATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 13 0.50
12 4 0.15
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (11 bp):
CATTCCAAACA
Found at i:18800713 original size:21 final size:20
Alignment explanation
Indices: 18800684--18800724 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
18800674 ATCATTCAAC
18800684 CATTCCAAACACATTCCAAA
1 CATTCCAAACACATTCCAAA
*
18800704 CATTACCAAACACATACCAAA
1 CATT-CCAAACACATTCCAAA
18800725 ATATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (20 bp):
CATTCCAAACACATTCCAAA
Found at i:18802742 original size:25 final size:25
Alignment explanation
Indices: 18802703--18802796 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
18802693 TCATGTACAT
*
18802703 GTATGCTCA-TACGAGCTGTGAATCA
1 GTATGCTCACT-CGAGCTGTGAATCG
* *
18802728 GTATGCTCACTCGAGCTGTGGATTG
1 GTATGCTCACTCGAGCTGTGAATCG
* * *
18802753 GTATGCTCTCAT-GAGCTATAAATCG
1 GTATGCTCAC-TCGAGCTGTGAATCG
* *
18802778 GTATACTCACACGAGCTGT
1 GTATGCTCACTCGAGCTGT
18802797 AGGTCTGAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 52 0.96
26 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTGTGAATCG
Found at i:18805468 original size:11 final size:11
Alignment explanation
Indices: 18805452--18805492 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
18805442 ATCATTCAAC
18805452 CATTCCAAACA
1 CATTCCAAACA
18805463 CATTCC-AA-A
1 CATTCCAAACA
18805472 CATTACCAAACA
1 CATT-CCAAACA
*
18805484 CATACCAAA
1 CATTCCAAA
18805493 ATATATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 13 0.50
12 4 0.15
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (11 bp):
CATTCCAAACA
Found at i:18805481 original size:21 final size:20
Alignment explanation
Indices: 18805452--18805492 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
18805442 ATCATTCAAC
18805452 CATTCCAAACACATTCCAAA
1 CATTCCAAACACATTCCAAA
*
18805472 CATTACCAAACACATACCAAA
1 CATT-CCAAACACATTCCAAA
18805493 ATATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (20 bp):
CATTCCAAACACATTCCAAA
Found at i:18813334 original size:365 final size:365
Alignment explanation
Indices: 18812651--18813386 Score: 1330
Period size: 365 Copynumber: 2.0 Consensus size: 365
18812641 GGTTCCATGT
*
18812651 TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTGGAGTCCTCCATA
1 TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGAGTCCTCCATA
*
18812716 ATGATCAATTAATCGAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
66 ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
*
18812781 TTTCAAGCACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
131 TTTCAAACACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
* *
18812846 ACCCCTTCTAGTAGCTTCTCATTCGGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTTAAGAAA
196 ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
*
18812911 TTGTTAGGAAATTTCCTAAAGCTTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGACT
261 TTGTTAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGACT
* *
18812976 ATTCAGCTAGCTATAGTTTAGGTTATAAATATGGCTTTTA
326 ATTCAGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
* * *
18813016 TTTCACCCACAAGGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGATTCCTCCATA
1 TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGAGTCCTCCATA
18813081 ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
66 ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
* *
18813146 TTTCAAACACCTTGGCCGGATGTGGACTAGTCCATAAAGCTTCTCATTAATGGCTAGCTGAATCA
131 TTTCAAACACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
18813211 ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
196 ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
18813276 TT-TCTAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGAC
261 TTGT-TAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGAC
*
18813340 TATTCGGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
325 TATTCAGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
18813381 TTTCAC
1 TTTCAC
18813387 TTGTTGAAGG
Statistics
Matches: 356, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
364 1 0.00
365 355 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (365 bp):
TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGAGTCCTCCATA
ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
TTTCAAACACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
TTGTTAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGACT
ATTCAGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
Found at i:18826364 original size:35 final size:35
Alignment explanation
Indices: 18826325--18826437 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 35
18826315 CACTCAGTTA
* * *
18826325 ACCATTCAACATACCAGATACTCATAAGAGTCAGT
1 ACCATCCAACATACCAGATGCTCATAAGAGCCAGT
* *
18826360 ACCATCCAACATACCAGTTGTTCATAAGAGCCAGT
1 ACCATCCAACATACCAGATGCTCATAAGAGCCAGT
* *
18826395 ACCATCCAGCACACCA-ATTGCTCATAAGAGCCAGT
1 ACCATCCAACATACCAGA-TGCTCATAAGAGCCAGT
18826430 ACCATCCA
1 ACCATCCA
18826438 GCACACCAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.20
Consensus pattern (35 bp):
ACCATCCAACATACCAGATGCTCATAAGAGCCAGT
Found at i:18826438 original size:35 final size:35
Alignment explanation
Indices: 18826345--18826448 Score: 163
Period size: 35 Copynumber: 3.0 Consensus size: 35
18826335 ATACCAGATA
* * * *
18826345 CTCATAAGAGTCAGTACCATCCAACATACCAGTTG
1 CTCATAAGAGCCAGTACCATCCAGCACACCAATTG
*
18826380 TTCATAAGAGCCAGTACCATCCAGCACACCAATTG
1 CTCATAAGAGCCAGTACCATCCAGCACACCAATTG
18826415 CTCATAAGAGCCAGTACCATCCAGCACACCAATT
1 CTCATAAGAGCCAGTACCATCCAGCACACCAATT
18826449 AACACTGTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.20
Consensus pattern (35 bp):
CTCATAAGAGCCAGTACCATCCAGCACACCAATTG
Found at i:18827864 original size:15 final size:16
Alignment explanation
Indices: 18827829--18827864 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18827819 ACAATTGGTC
18827829 CTTCAATTAAATTAAA
1 CTTCAATTAAATTAAA
*
18827845 TTTCAATTAAA-TAAA
1 CTTCAATTAAATTAAA
18827860 CTTCA
1 CTTCA
18827865 TTACAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (16 bp):
CTTCAATTAAATTAAA
Found at i:18828874 original size:72 final size:72
Alignment explanation
Indices: 18828700--18828866 Score: 221
Period size: 72 Copynumber: 2.3 Consensus size: 72
18828690 TAAAGCCATC
* * *
18828700 CGGATGGAGAGCAAAATGTCCTAGTAGTTGAGTTATATCAAAACGCCATTCGGATGGCGAATATT
1 CGGATGGAGAGCAAACTGTCCTAGTAGTTGAGTTATATCAAAACGCCATTCAGATGACGAATATT
18828765 AGTCATT
66 AGTCATT
* * * * *
18828772 CGGATGGAGAGCAAACTTTCCTAGTAGTTGAGTTATA-CTAAAACGTCATTCAGATGATGGATGT
1 CGGATGGAGAGCAAACTGTCCTAGTAGTTGAGTTATATC-AAAACGCCATTCAGATGACGAATAT
18828836 TA-TCTATT
65 TAGTC-ATT
*
18828844 CGGATGGAGAGCAAGCTGTCCTA
1 CGGATGGAGAGCAAACTGTCCTA
18828867 AAAGTTGAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 3 0.04
72 80 0.96
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (72 bp):
CGGATGGAGAGCAAACTGTCCTAGTAGTTGAGTTATATCAAAACGCCATTCAGATGACGAATATT
AGTCATT
Found at i:18833653 original size:38 final size:38
Alignment explanation
Indices: 18833610--18833686 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
18833600 ATAGTATAAT
* *
18833610 GGTAAGTTGACATGACACGTTAAATTATCATTTCAAAC
1 GGTAAGCTGACATGACACGTTAAATCATCATTTCAAAC
*
18833648 GGTAAGCTGACGTGACACGTTAAATCATCATTTCAAAC
1 GGTAAGCTGACATGACACGTTAAATCATCATTTCAAAC
18833686 G
1 G
18833687 AAAATTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (38 bp):
GGTAAGCTGACATGACACGTTAAATCATCATTTCAAAC
Found at i:18834015 original size:18 final size:19
Alignment explanation
Indices: 18833979--18834016 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18833969 AAAAACAAAT
*
18833979 AAAAACAAAATAAAGTTAA
1 AAAAACAAAATAAAATTAA
*
18833998 AAAAATAAAA-AAAATTAA
1 AAAAACAAAATAAAATTAA
18834016 A
1 A
18834017 TTGCTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAAACAAAATAAAATTAA
Done.