Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 120 of 344
Found at i:40646025 original size:40 final size:40
Alignment explanation
Indices: 40645964--40646210 Score: 309
Period size: 40 Copynumber: 6.2 Consensus size: 40
40645954 CGGAAATTAG
* * * *
40645964 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
40646004 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
** * *
40646044 CCGGAT-TTATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
*
40646084 CCAGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
40646124 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
40646164 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
40646204 CCGGATA
1 CCGGATA
40646211 TCATTCAAAT
Statistics
Matches: 184, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 179 0.97
41 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:40653356 original size:79 final size:80
Alignment explanation
Indices: 40653225--40653372 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
40653215 TATTCGGATG
* *
40653225 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
40653289 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
40653304 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
40653368 ATTTG
65 ATTTG
40653373 AGCAAGTAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.03
79 47 0.75
80 14 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:40653386 original size:40 final size:40
Alignment explanation
Indices: 40653225--40653372 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
40653215 TATTCGGATG
* *
40653225 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40653265 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40653304 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40653344 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
40653373 AGCAAGTAGC
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 34 0.34
40 65 0.66
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40653394 original size:79 final size:79
Alignment explanation
Indices: 40653232--40653405 Score: 219
Period size: 79 Copynumber: 2.2 Consensus size: 79
40653222 ATGATAACCG
* * * *
40653232 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGCA
*
40653297 AGTTACTATAACTG
66 AGTTACTATAACTC
*
40653311 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAG
*
40653375 CAAG-TAGCTATATC-C
64 CAAGTTA-CTATAACTC
* *
40653390 GGCTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
40653406 TACTTGGTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 57 0.69
80 24 0.29
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGCA
AGTTACTATAACTC
Found at i:40653405 original size:39 final size:39
Alignment explanation
Indices: 40653225--40653405 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 39
40653215 TATTCGGATG
* *
40653225 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40653265 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40653304 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAAC-CGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
40653344 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
40653384 ATATCCGGCTAAATTCCGAAGG
1 ATAACCGGCTAAGTCCCGAAGG
40653406 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
39 49 0.40
40 75 0.60
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40655691 original size:22 final size:23
Alignment explanation
Indices: 40655666--40655708 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
40655656 AAAGCCGAGG
40655666 AGCTCAGTAT-GGAG-AAAGGAAA
1 AGCTCA-TATGGGAGCAAAGGAAA
*
40655688 AGCTGATATGGGAGCAAAGGA
1 AGCTCATATGGGAGCAAAGGA
40655709 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.42, C:0.09, G:0.35, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAGGAAA
Found at i:40661373 original size:79 final size:80
Alignment explanation
Indices: 40661242--40661389 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 80
40661232 TATTCGGATG
* * *
40661242 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCTGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
40661306 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
40661321 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCTGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
40661385 ATTTG
65 ATTTG
40661390 AGCAAGTAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 2 0.03
79 47 0.76
80 13 0.21
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:40661403 original size:40 final size:40
Alignment explanation
Indices: 40661242--40661389 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
40661232 TATTCGGATG
* *
40661242 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
40661282 A-ATTCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40661321 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40661361 ATAACCTGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
40661390 AGCAAGTAGC
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
39 34 0.35
40 64 0.65
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40661411 original size:79 final size:79
Alignment explanation
Indices: 40661242--40661412 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 79
40661232 TATTCGGATG
* * *
40661242 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCTGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* *
40661307 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
* *
40661321 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCTGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
40661385 ATTTGAGCAAG-TAGCT
64 ATTTGAGCAAGTTA-CT
*
40661401 ATATCC-GGCTAA
1 ATAACCGGGCTAA
40661413 ATTTCGAAGG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 55 0.68
80 24 0.30
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACT
Found at i:40661422 original size:39 final size:40
Alignment explanation
Indices: 40661242--40661414 Score: 147
Period size: 40 Copynumber: 4.4 Consensus size: 40
40661232 TATTCGGATG
* * * * *
40661242 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCTGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
* * * * * *
40661282 A-ATTCCGGGCT-AAGCCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCTGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
* * * *
40661321 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCTGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
*
40661361 ATAACCTGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCTGGCTAAATCCCGAAGGCATTTGAGCAAGTTA-CT
*
40661401 ATATCC-GGCTAAAT
1 ATAACCTGGCTAAAT
40661415 TTCGAAGGTA
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
39 41 0.36
40 73 0.64
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCTGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
Found at i:40669134 original size:27 final size:29
Alignment explanation
Indices: 40669084--40669137 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
40669074 ATCCAACCCA
40669084 AACACACCCAGAATATATAAATCCTCCAT
1 AACACACCCAGAATATATAAATCCTCCAT
* *
40669113 AACACA-CCAGTATA-ATATATCCTCC
1 AACACACCCAGAATATATAAATCCTCC
40669138 CAAAACATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 7 0.30
29 6 0.26
ACGTcount: A:0.43, C:0.31, G:0.04, T:0.22
Consensus pattern (29 bp):
AACACACCCAGAATATATAAATCCTCCAT
Found at i:40684601 original size:68 final size:65
Alignment explanation
Indices: 40684491--40684743 Score: 214
Period size: 68 Copynumber: 3.8 Consensus size: 65
40684481 ATACAAATGG
** * * *
40684491 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAGA-
40684554 ATTA
63 A-TA
* * *
40684558 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAACTACG-GGAT
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGAAT
40684622 A
65 A
* * * * * *
40684623 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGA-A
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
40684687 ATA
63 ATA
* * *
40684690 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
40684744 CAAAATTATG
Statistics
Matches: 151, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 24 0.16
65 3 0.02
66 22 0.15
67 32 0.21
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGAATA
Found at i:40687304 original size:46 final size:46
Alignment explanation
Indices: 40687248--40687420 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
40687238 TGGTTGAGCA
*
40687248 TCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
40687294 TCCGAACTCGTTCAGTTGAGTCCGAGTTC-GTTA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
40687339 CATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40687387 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40687421 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 58 0.56
47 27 0.26
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40687404 original size:93 final size:93
Alignment explanation
Indices: 40687245--40687415 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
40687235 GGATGGTTGA
* * * *
40687245 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTCAGT
1 GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
40687310 TGAGTCCGAGTTCGTTAAATGTAACTAG
66 TGAGTCCGAGTTCGTTAAATGTAACTAG
* *
40687338 GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
40687403 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40687416 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
TGAGTCCGAGTTCGTTAAATGTAACTAG
Found at i:40690410 original size:15 final size:15
Alignment explanation
Indices: 40690390--40690445 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
40690380 GTATCTTGGG
40690390 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
40690405 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
40690420 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
40690435 TTTCTTTATTC
1 TTTCTTTATTC
40690446 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:40692902 original size:46 final size:45
Alignment explanation
Indices: 40692849--40693019 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
40692839 TGAGCATCCA
*
40692849 AACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCCG
* * * * *
40692895 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA-AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TCCG
* *
40692942 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCCG
40692987 AAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTAGG
40693020 GGCGGGTTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 9 0.09
46 52 0.51
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTCCG
Found at i:40693001 original size:93 final size:93
Alignment explanation
Indices: 40692842--40693012 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
40692832 GGATGGTTGA
* **
40692842 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCCAACTCGTTGAGT
*
40692907 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
40692935 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCCAA-CTCGTTGAG
40692999 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
40693013 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:40700904 original size:32 final size:32
Alignment explanation
Indices: 40700868--40700932 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
40700858 CGTAGATTTA
* *
40700868 ACTAATTAAACTATGTAAAAGAAACAGAGTGT
1 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
40700900 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
1 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
40700932 A
1 A
40700933 AATTGATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (32 bp):
ACTAATTAAACTATGCAAAAGAAACAAAGTGT
Found at i:40702506 original size:28 final size:28
Alignment explanation
Indices: 40702471--40702524 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
40702461 GTAAGGTTTT
40702471 AAAACATTGTATTTAAAGGGGAATGTCA
1 AAAACATTGTATTTAAAGGGGAATGTCA
40702499 AAAACATTGTATTTAAAGGGGAATGT
1 AAAACATTGTATTTAAAGGGGAATGT
40702525 TAACACACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.30
Consensus pattern (28 bp):
AAAACATTGTATTTAAAGGGGAATGTCA
Found at i:40702831 original size:15 final size:15
Alignment explanation
Indices: 40702807--40702839 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
40702797 AAGTGATCTT
40702807 TAGATGT-AAAACTA
1 TAGATGTAAAAACTA
40702821 TAGATTGTAAAAACTA
1 TAGA-TGTAAAAACTA
40702837 TAG
1 TAG
40702840 TAAACTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 3 0.18
16 10 0.59
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (15 bp):
TAGATGTAAAAACTA
Found at i:40705639 original size:15 final size:16
Alignment explanation
Indices: 40705596--40705651 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
40705586 TGTCTACTTC
*
40705596 TATTTAAATTATGATTA
1 TATTT-AATTATGATTT
*
40705613 TATGAATAATTAT-ATTT
1 TAT--TTAATTATGATTT
*
40705630 TATTTAATTATGTTTT
1 TATTTAATTATGATTT
40705646 TATTTA
1 TATTTA
40705652 TTTGTAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 7 0.22
16 9 0.28
17 9 0.28
18 6 0.19
19 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TATTTAATTATGATTT
Found at i:40707727 original size:56 final size:56
Alignment explanation
Indices: 40707655--40707771 Score: 234
Period size: 56 Copynumber: 2.1 Consensus size: 56
40707645 TGTGTGAAGA
40707655 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
1 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
40707711 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
1 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
40707767 CCTCT
1 CCTCT
40707772 TGTAATAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (56 bp):
CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
Found at i:40709776 original size:27 final size:27
Alignment explanation
Indices: 40709640--40709807 Score: 119
Period size: 27 Copynumber: 6.3 Consensus size: 27
40709630 TTAGTTTACC
* * *
40709640 AAATTACTGAAATATCCTC-AGTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
** * *
40709666 AAATTA-CAAAAGTACCCTCGGTTTATA
1 AAATTATTGAAA-TACCCTCGATTTGTA
*** *
40709693 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
* *
40709720 AAATTATCGAAATACCCTC-AGTTTGCA
1 AAATTATTGAAATACCCTCGA-TTTGTA
**
40709747 AAATTATTGAAATACCCTCGACATGTA
1 AAATTATTGAAATACCCTCGATTTGTA
* **
40709774 AAATTA-TCAAAGTACCCTCGATTTACA
1 AAATTATTGAAA-TACCCTCGATTTGTA
40709801 AAATTAT
1 AAATTAT
40709808 CATTTTACCC
Statistics
Matches: 112, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
25 3 0.03
26 17 0.15
27 87 0.78
28 5 0.04
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCGATTTGTA
Found at i:40709807 original size:54 final size:55
Alignment explanation
Indices: 40709634--40709806 Score: 194
Period size: 54 Copynumber: 3.2 Consensus size: 55
40709624 AATACTTTAG
* * *
40709634 TTTACCAAATTACTGAAATATCCTC-AGTTGTAAAATTA-CAAAAGTACCCTCGG
1 TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTATCAAAAGTACCCTCGA
* ** * *
40709687 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC-A
1 TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTATCAAAAGTACCCTCGA
* * * *
40709740 GTTTGCAAAATTATTGAAATACCCTCGACATGTAAAATTATC-AAAGTACCCTCGA
1 -TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTATCAAAAGTACCCTCGA
40709795 TTTACAAAATTA
1 TTTACAAAATTA
40709807 TCATTTTACC
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
53 24 0.24
54 70 0.71
55 5 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (55 bp):
TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTATCAAAAGTACCCTCGA
Found at i:40709808 original size:27 final size:26
Alignment explanation
Indices: 40709665--40709898 Score: 123
Period size: 27 Copynumber: 8.7 Consensus size: 26
40709655 CCTCAGTTGT
* *
40709665 AAAATTA-CAAAAGTACCCTCGGTTTAT
1 AAAATTATC-AAA-TACCCTCGATTTAC
* * **
40709692 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTA-TCAAATACCCTCGATTTAC
*
40709719 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATC-AAATACCCTCGA-TTTAC
* ** **
40709746 AAAATTATTGAAATACCCTCGACATGT
1 AAAATTA-TCAAATACCCTCGATTTAC
40709773 AAAATTATCAAAGTACCCTCGATTTAC
1 AAAATTATCAAA-TACCCTCGATTTAC
**
40709800 AAAATTATCATTTTACCCTCGATTTAC
1 AAAATTATCA-AATACCCTCGATTTAC
* ** *
40709827 AGAATTA-CTATTTTACCCTCGATTTAG
1 AAAATTATC-A-AATACCCTCGATTTAC
* * ** *
40709854 AGAATTACCATTTTACCCTCGATTTAG
1 AAAATTATCA-AATACCCTCGATTTAC
*
40709881 AAAATTACTAAAATACCC
1 AAAATTA-TCAAATACCC
40709899 CTGGTTTGTA
Statistics
Matches: 172, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.04
27 157 0.91
28 7 0.04
29 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (26 bp):
AAAATTATCAAATACCCTCGATTTAC
Found at i:40709915 original size:54 final size:54
Alignment explanation
Indices: 40709773--40709898 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
40709763 CTCGACATGT
* * *
40709773 AAAATTA-TCAAAGTACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTAC
1 AAAATTACT-AAAATACCCTCGATTTAGAAAATTACCATTTTACCCTCGATTTAC
* *** * *
40709827 AGAATTACTATTTTACCCTCGATTTAGAGAATTACCATTTTACCCTCGATTTAG
1 AAAATTACTAAAATACCCTCGATTTAGAAAATTACCATTTTACCCTCGATTTAC
40709881 AAAATTACTAAAATACCC
1 AAAATTACTAAAATACCC
40709899 CTGGTTTGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCGATTTAGAAAATTACCATTTTACCCTCGATTTAC
Found at i:40709940 original size:27 final size:27
Alignment explanation
Indices: 40709883--40710264 Score: 450
Period size: 27 Copynumber: 14.2 Consensus size: 27
40709873 CGATTTAGAA
* ** *
40709883 AATTACTAAAATACCCCTGGT-TTGTAA
1 AATTACTGAAATACCCCT-GTAGGGTAG
* * *
40709910 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
40709937 AATTACTG-AATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
40709963 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
40709990 AATTACTGAAATATCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
40710017 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
40710044 AATTA-TCGAAATACCCCTATAAGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
40710071 AATTACCGAAATACCCCTGTAGGGTAT
1 AATTACTGAAATACCCCTGTAGGGTAG
*
40710098 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
40710125 AATTACCGAAATAACCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
40710152 AATTA-TCGCAATACCCCTATAGGTTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
40710179 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
40710206 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
40710233 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
40710259 AATTAC
1 AATTAC
40710265 CATTTTGCCC
Statistics
Matches: 305, Mismatches: 44, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
26 40 0.13
27 265 0.87
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:40710497 original size:27 final size:26
Alignment explanation
Indices: 40710459--40710538 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
40710449 CGGAGGAAGC
40710459 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
40710486 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
40710512 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
40710539 ATTGACCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:40710874 original size:27 final size:27
Alignment explanation
Indices: 40710852--40710925 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
40710842 TAGGTGGGTT
*
40710852 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
40710879 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
40710906 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
40710926 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:40711077 original size:19 final size:19
Alignment explanation
Indices: 40711071--40711225 Score: 97
Period size: 19 Copynumber: 7.9 Consensus size: 19
40711061 TTACCTGATA
40711071 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
40711090 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
*
40711108 CTGATTCTAATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
40711128 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
40711152 CTAATTCTAATTCTAGTT-C
1 CTGATTCTGATTCT-GTTAC
* *
40711171 C-GATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
* *
40711189 TTGATTTTGATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
*
40711207 CTGACTCTGATTCTAGTTA
1 CTGATTCTGATTCT-GTTA
40711226 TGATAATGTT
Statistics
Matches: 106, Mismatches: 15, Indels: 30
0.70 0.10 0.20
Matches are distributed among these distances:
17 5 0.05
18 35 0.33
19 41 0.39
20 7 0.07
24 1 0.01
25 17 0.16
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:40711080 original size:6 final size:6
Alignment explanation
Indices: 40711043--40711220 Score: 89
Period size: 6 Copynumber: 28.8 Consensus size: 6
40711033 TTGCATTCAC
* * * *
40711043 ATTCTG ATTATC ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
40711093 ATTCTG ATTCTG GTTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
40711142 ATTCTG -TTACCTA ATTCTA ATTCT- AGTTCCG ATTTTG ATTCTG -TCACTTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG A-TTCTG ATTCTG ATTCTG AT-TC-TG
* *
40711192 ATTTTG ATTCTG ATTCTG ACTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
40711221 AGTTATGATA
Statistics
Matches: 130, Mismatches: 25, Indels: 34
0.69 0.13 0.18
Matches are distributed among these distances:
5 10 0.08
6 100 0.77
7 13 0.10
8 7 0.05
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:40711102 original size:25 final size:25
Alignment explanation
Indices: 40711043--40711122 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
40711033 TTGCATTCAC
* * *
40711043 ATTCTGATTATCATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
*
40711068 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
*
40711093 ATTCTGATTCTGGTTCTGATT--CTA
1 ATTCTGATTCTGATTCTG-TTACCTA
40711117 ATTCTG
1 ATTCTG
40711123 TTACCTGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 9 0.19
25 37 0.77
26 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:40711112 original size:37 final size:37
Alignment explanation
Indices: 40711065--40711147 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
40711055 ATTCTGTTAC
* * *
40711065 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTAATTCTGTTACCTAATACTGATT
* *
40711102 CTGGTTCTGATTCTAATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTAATTCTGTTACCTAATACTGATT
40711139 CTGATTCTG
1 CTGATTCTG
40711148 TTACCTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTAATTCTGTTACCTAATACTGATT
Found at i:40711141 original size:62 final size:62
Alignment explanation
Indices: 40711044--40711209 Score: 233
Period size: 62 Copynumber: 2.7 Consensus size: 62
40711034 TGCATTCACA
* * *
40711044 TTCTGATTATCATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTATAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTAG
*
40711106 TTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTAG
1 TTCTGATTATAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTAG
* * * * * **
40711168 TTCCGATTTTGATTCTGTCACTTGATTTTGATTCTGATTCTG
1 TTCTGATTATAATTCTGTTACCTGATACTGATTCTGATTCTG
40711210 ACTCTGATTC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
TTCTGATTATAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTAG
Found at i:40711164 original size:25 final size:25
Alignment explanation
Indices: 40711106--40711166 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
40711096 CTGATTCTGG
*
40711106 TTCTGATTCTAATTCTGTTACCTGA
1 TTCTGATTCTAATTCTGTTACCTAA
* *
40711131 TACTGATTCTGATTCTGTTACCTAA
1 TTCTGATTCTAATTCTGTTACCTAA
*
40711156 TTCTAATTCTA
1 TTCTGATTCTA
40711167 GTTCCGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.48
Consensus pattern (25 bp):
TTCTGATTCTAATTCTGTTACCTAA
Found at i:40715596 original size:40 final size:40
Alignment explanation
Indices: 40715544--40715816 Score: 420
Period size: 40 Copynumber: 6.8 Consensus size: 40
40715534 ATTACCACAA
* * ** *
40715544 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
40715584 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40715624 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
**
40715666 GCACAAATGCCCGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40715706 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
40715746 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40715786 GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
40715817 AAATTCAAAT
Statistics
Matches: 215, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 179 0.83
42 36 0.17
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:40715761 original size:122 final size:120
Alignment explanation
Indices: 40715557--40715816 Score: 403
Period size: 122 Copynumber: 2.1 Consensus size: 120
40715547 CAATTGCCTT
* ** * *
40715557 CGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 CGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAAC
* *
40715622 TTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCCG
66 TCGCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCACAAATGCCCG
*
40715679 CGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAAC
1 CGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAAC
**
40715744 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTT
66 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCCG
*
40715799 CGGGACTTAGCCCGGATA
1 CGGGTCTTAGCCCGGATA
40715817 AAATTCAAAT
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
120 40 0.31
122 87 0.69
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (120 bp):
CGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAAC
TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCCG
Found at i:40724233 original size:40 final size:40
Alignment explanation
Indices: 40724181--40724532 Score: 562
Period size: 40 Copynumber: 8.8 Consensus size: 40
40724171 ATTACCACAA
* * ** *
40724181 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
40724221 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40724261 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
40724303 GCACAAATGCCTGCGGGT-TTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40724342 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40724382 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40724422 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
40724462 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
40724502 GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
40724533 AAATTCAAAT
Statistics
Matches: 295, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
39 30 0.10
40 229 0.78
41 9 0.03
42 27 0.09
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:40729764 original size:27 final size:27
Alignment explanation
Indices: 40729734--40729911 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40729724 ATATTGAGTC
* * * *
40729734 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
40729761 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
40729788 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
40729816 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
40729843 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
40729870 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
40729897 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40729912 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:40729873 original size:82 final size:81
Alignment explanation
Indices: 40729755--40729910 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40729745 TGCTATATAA
* *
40729755 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
40729820 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
40729837 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
40729901 CACTTAGTGC
65 CACTTAGTGC
40729911 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:40744878 original size:56 final size:56
Alignment explanation
Indices: 40744759--40744881 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 56
40744749 CCATGGCATC
* * * *
40744759 AATATATG-GTACGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATATT
1 AATATATGTGTGCGGGTAAAACCACATTTAATACATTGGCATCGATATGTGATATT
** *
40744814 GGTATATGTGTGCGGGTAAAACCACATTTAATACGTTGGCATCGATATGTGAT-TT
1 AATATATGTGTGCGGGTAAAACCACATTTAATACATTGGCATCGATATGTGATATT
*
40744869 CAATTTATGTGTG
1 -AATATATGTGTG
40744882 TGAGTAAGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
55 8 0.14
56 48 0.86
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (56 bp):
AATATATGTGTGCGGGTAAAACCACATTTAATACATTGGCATCGATATGTGATATT
Found at i:40744966 original size:56 final size:57
Alignment explanation
Indices: 40744848--40744966 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 57
40744838 CATTTAATAC
* * *
40744848 GTTGGCATCGATATGTGATTTCAATTTATGTGTGTGAGTAAGACCCTGTCAGGCATA
1 GTTGGCACCGATATGTGATTTCAATTCATGTGTGCGAGTAAGACCCTGTCAGGCATA
* * * *
40744905 G-TGGCACCGATATGTGA-TTCTGATTCATGTGTGCGAGTAAGACCTTGTTAGGGAT-
1 GTTGGCACCGATATGTGATTTC-AATTCATGTGTGCGAGTAAGACCCTGTCAGGCATA
40744960 GTTGGCA
1 GTTGGCA
40744967 TTGTACAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
55 4 0.08
56 48 0.91
57 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (57 bp):
GTTGGCACCGATATGTGATTTCAATTCATGTGTGCGAGTAAGACCCTGTCAGGCATA
Found at i:40745750 original size:23 final size:24
Alignment explanation
Indices: 40745724--40745772 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
40745714 TAATATGCTA
*
40745724 TGGATATGTTTAGTTGG-TGATTT
1 TGGATATGTGTAGTTGGTTGATTT
* *
40745747 TGGATGTGTGTATTTGGTTGATTT
1 TGGATATGTGTAGTTGGTTGATTT
40745771 TG
1 TG
40745773 CTATGGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (24 bp):
TGGATATGTGTAGTTGGTTGATTT
Found at i:40774458 original size:46 final size:46
Alignment explanation
Indices: 40774388--40774560 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
40774378 TTGGGCATTT
*
40774388 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCC
*
40774434 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGAT--ATGT-AACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--GC--CC
* * * * * * *
40774481 GAAATCTTTGAGTTAAGTCCAATTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCC
* * *
40774527 GAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40774561 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 54 0.54
47 24 0.24
48 5 0.05
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCC
Found at i:40782385 original size:19 final size:19
Alignment explanation
Indices: 40782361--40782399 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
40782351 TCTTCAGCCT
40782361 TAAGTCAAAACTTGTACTA
1 TAAGTCAAAACTTGTACTA
40782380 TAAGTCAAAACTTGTACTA
1 TAAGTCAAAACTTGTACTA
40782399 T
1 T
40782400 CTATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
TAAGTCAAAACTTGTACTA
Found at i:40784713 original size:54 final size:54
Alignment explanation
Indices: 40784631--40784762 Score: 255
Period size: 54 Copynumber: 2.4 Consensus size: 54
40784621 TCGCTGTAAA
40784631 GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
1 GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
*
40784685 GGATTTAGCCTGGATTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
1 GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
40784739 GGATTTAGCCTGGACTGGTAATCC
1 GGATTTAGCCTGGACTGGTAATCC
40784763 TGCCATATAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (54 bp):
GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
Found at i:40798588 original size:27 final size:27
Alignment explanation
Indices: 40798554--40798731 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
40798544 TAAATTGTAC
40798554 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40798581 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
40798607 ATGCACTAAGTGTGTGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40798635 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40798663 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40798690 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40798717 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40798732 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40798722 original size:82 final size:81
Alignment explanation
Indices: 40798551--40798731 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
40798541 AATTAAATTG
* *
40798551 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
40798616 GTGTGTGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40798632 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40798696 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40798714 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40798732 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40806836 original size:8 final size:8
Alignment explanation
Indices: 40806819--40806861 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
40806809 GCAAAAGCGA
40806819 AAATGCCG
1 AAATGCCG
*
40806827 AAATGTCG
1 AAATGCCG
* *
40806835 AAAAGCTG
1 AAATGCCG
40806843 AAATGCCG
1 AAATGCCG
*
40806851 AAATACCG
1 AAATGCCG
40806859 AAA
1 AAA
40806862 GTTTGGCTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:40806860 original size:24 final size:24
Alignment explanation
Indices: 40806811--40806861 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
40806801 ATGAATCGGC
**
40806811 AAAAGCGAAAATGCCGAAATGTCG
1 AAAAGCGAAAATGCCGAAATACCG
40806835 AAAAGCTG-AAATGCCGAAATACCG
1 AAAAGC-GAAAATGCCGAAATACCG
40806859 AAA
1 AAA
40806862 GTTTGGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.12
Consensus pattern (24 bp):
AAAAGCGAAAATGCCGAAATACCG
Found at i:40807111 original size:28 final size:28
Alignment explanation
Indices: 40807070--40807144 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
40807060 GTGAGCATGA
*
40807070 ATATGAATGTGACTGGGCCTAACAGGCC
1 ATATGAATATGACTGGGCCTAACAGGCC
* * **
40807098 ATATTAATATGACTTTGGCCTAATGGGCC
1 ATATGAATATGAC-TGGGCCTAACAGGCC
*
40807127 ATATGAATATGATTGGGC
1 ATATGAATATGACTGGGC
40807145 TTAATGGGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (28 bp):
ATATGAATATGACTGGGCCTAACAGGCC
Found at i:40807126 original size:29 final size:28
Alignment explanation
Indices: 40807070--40807156 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
40807060 GTGAGCATGA
* * **
40807070 ATATGAATGTGACTGGGCCTAACAGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
* *
40807098 ATATTAATATGACTTTGGCCTAATGGGCC
1 ATATGAATATGA-TTGGGCCTAATGGGCC
*
40807127 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
40807155 AT
1 AT
40807157 CGCATATGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.53
29 23 0.47
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (28 bp):
ATATGAATATGATTGGGCCTAATGGGCC
Found at i:40811303 original size:31 final size:31
Alignment explanation
Indices: 40811260--40811385 Score: 218
Period size: 31 Copynumber: 4.1 Consensus size: 31
40811250 TTTATCTTGA
40811260 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
40811290 TATATCACTGGGCCGAAGCCATTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
40811321 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
40811352 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
40811383 CAT
1 CAT
40811386 TCGGCCTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 4 0.04
31 85 0.96
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:40811342 original size:62 final size:62
Alignment explanation
Indices: 40811260--40811512 Score: 317
Period size: 62 Copynumber: 4.4 Consensus size: 62
40811250 TTTATCTTGA
* *
40811260 CATAT-ACTGGGCCGAAGCCTTTTCATAAATTATATCACTGGGCCGAAGCCATTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
*
40811321 CATATCACTAGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
40811383 C--AT---T----CG--GCCTTTTCATAAATCATATCACT------AGGCCTTTTCGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
*
40811428 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
*
40811490 CATATCACTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
40811513 ACTGTAAATG
Statistics
Matches: 167, Mismatches: 7, Indels: 35
0.80 0.03 0.17
Matches are distributed among these distances:
45 15 0.09
47 2 0.01
50 1 0.01
51 23 0.14
53 2 0.01
54 2 0.01
56 23 0.14
57 1 0.01
60 2 0.01
61 5 0.03
62 91 0.54
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (62 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:40811416 original size:25 final size:24
Alignment explanation
Indices: 40811369--40811438 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 24
40811359 CTGGGCCGAA
40811369 GCCTTTTCATAAATCAT-T--C-G
1 GCCTTTTCATAAATCATATCACTG
40811389 GCCTTTTCATAAATCATATCACTAG
1 GCCTTTTCATAAATCATATCACT-G
*
40811414 GCCTTTTCGTAAATCATATCACTG
1 GCCTTTTCATAAATCATATCACTG
40811438 G
1 G
40811439 GCCGAAGCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 17 0.39
21 1 0.02
23 1 0.02
24 2 0.05
25 23 0.52
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.37
Consensus pattern (24 bp):
GCCTTTTCATAAATCATATCACTG
Found at i:40811443 original size:76 final size:78
Alignment explanation
Indices: 40811311--40811461 Score: 243
Period size: 76 Copynumber: 1.9 Consensus size: 78
40811301 GCCGAAGCCA
40811311 TTTCATAAATCATATCACTAGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTT
1 TTTCATAAATCATATCACTA---CG-AGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTT
40811376 CATAAATCATTCGGCCT
62 CATAAATCATTCGGCCT
*
40811393 TTTCATAAATCATATCACTA-G-GCCTTTTCGTAAATCATATCACTGGGCCGAAGCCTTTTCATA
1 TTTCATAAATCATATCACTACGAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATA
40811456 AATCAT
66 AATCAT
40811462 ATCACTGGGC
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
76 47 0.69
78 1 0.01
82 20 0.29
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (78 bp):
TTTCATAAATCATATCACTACGAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATA
AATCATTCGGCCT
Found at i:40811449 original size:31 final size:31
Alignment explanation
Indices: 40811414--40811521 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
40811404 ATATCACTAG
40811414 GCCTTTTCGTAAATCATATCACTGGGCCGAA
1 GCCTTTTCGTAAATCATATCACTGGGCCGAA
*
40811445 GCCTTTTCATAAATCATATCACTGGGCCGAA
1 GCCTTTTCGTAAATCATATCACTGGGCCGAA
*
40811476 GCCTTTTCGTAAATCATATCACTGGGTCGAA
1 GCCTTTTCGTAAATCATATCACTGGGCCGAA
*
40811507 GCCTTTACTGTAAAT
1 GCCTTTTC-GTAAAT
40811522 GGTATGGCCC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 66 0.92
32 6 0.08
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (31 bp):
GCCTTTTCGTAAATCATATCACTGGGCCGAA
Found at i:40811583 original size:42 final size:42
Alignment explanation
Indices: 40811536--40811627 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
40811526 TGGCCCTTAG
40811536 GCCCATTTCAACATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAACATCACATGTAATGTCAATGAATGTATGCAA
* *
40811578 GCCCATTTCAATATCACATGTAATGTTAATGAATGTATGCAA
1 GCCCATTTCAACATCACATGTAATGTCAATGAATGTATGCAA
40811620 GCCCATTT
1 GCCCATTT
40811628 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAACATCACATGTAATGTCAATGAATGTATGCAA
Found at i:40811803 original size:25 final size:25
Alignment explanation
Indices: 40811775--40811844 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
40811765 CTCTTTTAAT
40811775 AACTGGGGCAAAGCCCTTTAT-GATA
1 AACTGGGGCAAAGCCCTTT-TCGATA
* *
40811800 AACTGGGGCAAAGCCATTTTCGCTA
1 AACTGGGGCAAAGCCCTTTTCGATA
**
40811825 AACTGGGGCGGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
40811845 AGCACTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:40812804 original size:27 final size:27
Alignment explanation
Indices: 40812774--40812825 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
40812764 GTAAATCTAC
40812774 AAACCAA-GGCTATTTC-AGTAATTTTGT
1 AAACCAATGG-TATTTCTA-TAATTTTGT
40812801 AAACCAATGGTATTTCTATAATTTT
1 AAACCAATGGTATTTCTATAATTTT
40812826 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAATGGTATTTCTATAATTTTGT
Found at i:40812948 original size:26 final size:26
Alignment explanation
Indices: 40812837--40812959 Score: 147
Period size: 27 Copynumber: 4.6 Consensus size: 26
40812827 AGAAAGTCAA
* **
40812837 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAAT-AG
*
40812864 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAATAG
* *
40812890 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAA-TAG
* *
40812918 TGGTATTTTGGTAATTTTACAACTAG
1 GGGTATTTTGGTAATTTTACAAATAG
40812944 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
40812960 CTACCCTATA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 19 0.23
27 61 0.74
28 2 0.02
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAG
Found at i:40812974 original size:80 final size:81
Alignment explanation
Indices: 40812838--40812988 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 81
40812828 GAAAGTCAAG
* ** * * *
40812838 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATTAAGGGTATTTCAGT
40812903 AATTTCACAAACTAGT
66 AATTTCACAAACTAGT
* **
40812919 GGTATTTTGGTAATTTTACAACT-AGGGGTATTTTGGTAATTCTAC-CCTATAAGGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAAT-TAAGGGTATTTCAG
40812982 TAATTTC
65 TAATTTC
40812989 TTAGTCGAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
79 1 0.02
80 40 0.67
81 19 0.32
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATTAAGGGTATTTCAGT
AATTTCACAAACTAGT
Found at i:40813027 original size:27 final size:27
Alignment explanation
Indices: 40812993--40813082 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
40812983 AATTTCTTAG
*
40812993 TCGAGGGTAAAA-AGTTAATTTTGTAAA
1 TCGAGGGTAAAACAG-TAATTCTGTAAA
*
40813020 TCGAGGGTAAAACAGCAATTCTGTAAA
1 TCGAGGGTAAAACAGTAATTCTGTAAA
* *
40813047 TC-ATGTGTAAAACAGTAATTCTATAAA
1 TCGA-GGGTAAAACAGTAATTCTGTAAA
40813074 TCGAGGGTA
1 TCGAGGGTA
40813083 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 50 0.93
28 3 0.06
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (27 bp):
TCGAGGGTAAAACAGTAATTCTGTAAA
Found at i:40817354 original size:22 final size:22
Alignment explanation
Indices: 40817328--40817372 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
40817318 AATGCAAGGG
40817328 TATGAGGCTAATGCCGAAATCT
1 TATGAGGCTAATGCCGAAATCT
*
40817350 TATGAGGTTAATGCCGAAATCT
1 TATGAGGCTAATGCCGAAATCT
40817372 T
1 T
40817373 TTTCTCACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (22 bp):
TATGAGGCTAATGCCGAAATCT
Found at i:40818105 original size:16 final size:16
Alignment explanation
Indices: 40818079--40818122 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
40818069 TATGAATCGA
*
40818079 CAAAA-GCCGAAACGC
1 CAAAATGCCGAAACAC
* *
40818094 CGAAATGCCGAAACAT
1 CAAAATGCCGAAACAC
40818110 CAAAATGCCGAAA
1 CAAAATGCCGAAA
40818123 AGTCAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.48, C:0.27, G:0.18, T:0.07
Consensus pattern (16 bp):
CAAAATGCCGAAACAC
Found at i:40818128 original size:16 final size:16
Alignment explanation
Indices: 40818096--40818133 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
40818086 CGAAACGCCG
40818096 AAATGCCGAAACATCA
1 AAATGCCGAAACATCA
40818112 AAATGCCGAAA-AGTCA
1 AAATGCCGAAACA-TCA
40818128 AAATGC
1 AAATGC
40818134 AGGAATGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (16 bp):
AAATGCCGAAACATCA
Found at i:40818467 original size:28 final size:29
Alignment explanation
Indices: 40818360--40818471 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
40818350 AGCATGAATC
*
40818360 TGAATGTGAC-TGGGCATAATGGGCCATA
1 TGAATGTGACTTGGGCCTAATGGGCCATA
*
40818388 TAAATGTGACTTGGGCCTAATGGGCCATA
1 TGAATGTGACTTGGGCCTAATGGGCCATA
** * * *
40818417 TTCAGGTGATTTGGGCCTAATGGGCCACA
1 TGAATGTGACTTGGGCCTAATGGGCCATA
* *
40818446 TGAATATGA-TTGGGCTTAATGGGCCA
1 TGAATGTGACTTGGGCCTAATGGGCCA
40818472 GATACATGCA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 25 0.35
29 46 0.65
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TGAATGTGACTTGGGCCTAATGGGCCATA
Found at i:40818918 original size:14 final size:15
Alignment explanation
Indices: 40818899--40818928 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
40818889 GTTTATTATA
40818899 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
40818913 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
40818928 T
1 T
40818929 AGCATTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:40818954 original size:22 final size:22
Alignment explanation
Indices: 40818928--40818983 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
40818918 AAGTATCATG
40818928 TAGCATTCATTCTCATACATCA
1 TAGCATTCATTCTCATACATCA
40818950 TAGCATTCATTCTCATACATCA
1 TAGCATTCATTCTCATACATCA
40818972 TAGCATTCATTC
1 TAGCATTCATTC
40818984 GGGACCCGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.38
Consensus pattern (22 bp):
TAGCATTCATTCTCATACATCA
Found at i:40821226 original size:43 final size:42
Alignment explanation
Indices: 40821171--40821300 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
40821161 ATATTAGGTT
* *
40821171 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATATCTGGGACA-TGGC
* * * * * *
40821214 ATC-ATATTGTGATTTCTTTTAAGACCTTATTTGTGACAGTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATATCTGGGACA-TGGC
** * *
40821257 ATCGATATGTGACAAAATGTAAGACCATATCTGGGATATGGC
1 ATCGATATGTGATTACATGTAAGACCATATCTGGGACATGGC
40821299 AT
1 AT
40821301 TTTATGAGCT
Statistics
Matches: 66, Mismatches: 19, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
42 8 0.12
43 55 0.83
44 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (42 bp):
ATCGATATGTGATTACATGTAAGACCATATCTGGGACATGGC
Found at i:40830715 original size:27 final size:27
Alignment explanation
Indices: 40830685--40830862 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
40830675 ATATTGAGTC
* **
40830685 CGCACACTCAGTGCTTTATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
40830712 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
40830739 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
40830767 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
40830794 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
40830821 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
40830848 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40830863 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40830824 original size:82 final size:81
Alignment explanation
Indices: 40830706--40830861 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
40830696 TGCTTTATAA
*
40830706 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
40830771 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
40830788 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
40830852 CACTTAGTGC
65 CACTTAGTGC
40830862 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:40837007 original size:33 final size:33
Alignment explanation
Indices: 40836970--40837073 Score: 85
Period size: 33 Copynumber: 3.3 Consensus size: 33
40836960 TACATGACTG
40836970 CACTGTACTGATACTGAATTGGGCTTAGGCCCA
1 CACTGTACTGATACTGAATTGGGCTTAGGCCCA
* *
40837003 CACTGTTCT-ACA-TG-A-T--GCTTAGGCCCA
1 CACTGTACTGATACTGAATTGGGCTTAGGCCCA
* * * **
40837030 GACTGTACTAATACTGAATAGGGCCCAGGCCCA
1 CACTGTACTGATACTGAATTGGGCTTAGGCCCA
*
40837063 GACTGTTACTG
1 CACTG-TACTG
40837074 CATGCATTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
27 18 0.33
28 2 0.04
29 3 0.05
30 2 0.04
31 2 0.04
32 2 0.04
33 22 0.40
34 4 0.07
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (33 bp):
CACTGTACTGATACTGAATTGGGCTTAGGCCCA
Found at i:40838090 original size:392 final size:392
Alignment explanation
Indices: 40837366--40838140 Score: 1419
Period size: 392 Copynumber: 2.0 Consensus size: 392
40837356 ACCAATTATT
40837366 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
1 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
40837431 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
66 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
*
40837496 TGAACACAAACTGAGACTTTATACAAGCTTTAAATAGTAAAAAGGGTTTTGAATGAAAACACAAT
131 TGAAAACAAACTGAGACTTTATACAAGCTTTAAATAGTAAAAAGGGTTTTGAATGAAAACACAAT
* * *
40837561 TTCTAAAAACACTTTGATGTGACAGGTCAGATTCGGCCATAAGGTGTAGGCGGGGTTTAGAGTGT
196 TTCTAAAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGGCCGGGTTTAGAGTGT
*
40837626 TGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAATTTTGA
261 TGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTTGA
40837691 TTTTTAAGCATTGTGATTGGAAATGTAGCACACGGAGTCTCC-GACACCAAATCTGTAACTGAAA
326 TTTTTAAGCATTGTGATTGGAAATGTAGCACACGGAGTCTCCAG-CACCAAATCTGTAACTGAAA
40837755 GAG
390 GAG
*
40837758 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCGCAACTGAAAGAGATTT
1 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
*
40837823 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTTAGTGCACCACA-TTTAAAATTAAA
66 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
*
40837887 TGAAAACAAGCTGAGACTTTATACAAGCTTTAAATAGTAAAAAAGGGTTTTGAATGAAAACACAA
131 TGAAAACAAACTGAGACTTTATACAAGCTTTAAATAGT-AAAAAGGGTTTTGAATGAAAACACAA
*
40837952 TTTCTAGAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGGCCGGGTTTAGAGTG
195 TTTCTAAAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGGCCGGGTTTAGAGTG
*
40838017 TTGCATTTAGTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTTG
260 TTGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTTG
*
40838082 ATTTTTAAGCATTGTGATTGGAAATGTGGCACACGGAGTCTCCAGCACCAAATCTGTAA
325 ATTTTTAAGCATTGTGATTGGAAATGTAGCACACGGAGTCTCCAGCACCAAATCTGTAA
40838141 GTTTTTTGAA
Statistics
Matches: 370, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
391 48 0.13
392 321 0.87
393 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (392 bp):
ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
TGAAAACAAACTGAGACTTTATACAAGCTTTAAATAGTAAAAAGGGTTTTGAATGAAAACACAAT
TTCTAAAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGGCCGGGTTTAGAGTGT
TGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTTGA
TTTTTAAGCATTGTGATTGGAAATGTAGCACACGGAGTCTCCAGCACCAAATCTGTAACTGAAAG
AG
Found at i:40841331 original size:40 final size:40
Alignment explanation
Indices: 40841283--40841549 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
40841273 GCAAACACAT
* *
40841283 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40841323 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40841363 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40841403 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
40841443 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40841483 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40841523 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
40841550 ATCCAATGCT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:40850139 original size:40 final size:40
Alignment explanation
Indices: 40849945--40850238 Score: 481
Period size: 40 Copynumber: 7.7 Consensus size: 40
40849935 GCAAACACAT
*
40849945 TTGCCTTCGGGTCTTA----GGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40849981 TTGCCTTCGGGTCTTAGCCCGGATATATC-ACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40850020 TTGCCTTCGGGTC-TAGCCCGG--ATAT-AACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40850056 TTGCCTTCGGGT-TTAGCCCGGATATATC-ACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40850094 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40850134 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40850174 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
40850214 TTGCCTTC-GGTC-TAG-CCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
40850239 TCCAATGCTC
Statistics
Matches: 246, Mismatches: 1, Indels: 21
0.92 0.00 0.08
Matches are distributed among these distances:
36 50 0.20
37 10 0.04
38 37 0.15
39 43 0.17
40 106 0.43
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:40864813 original size:16 final size:16
Alignment explanation
Indices: 40864792--40864823 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
40864782 GTGATGCATC
40864792 CTTAAATGGATTGGGT
1 CTTAAATGGATTGGGT
40864808 CTTAAATGGATTGGGT
1 CTTAAATGGATTGGGT
40864824 TGTGTACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
CTTAAATGGATTGGGT
Found at i:40866757 original size:46 final size:46
Alignment explanation
Indices: 40866704--40866826 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
40866694 TTGAGCATCT
* *
40866704 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
40866750 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
* *
40866796 GAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40866827 GGGGCGAGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
Found at i:40867864 original size:40 final size:40
Alignment explanation
Indices: 40867770--40867994 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
40867760 TATTCGAATG
* * * *
40867770 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACT
* * * * * *
40867811 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGACT
* *
40867851 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
40867891 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
40867931 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
40867971 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
40867995 CTTGCGCAAG
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 28 0.18
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:40867941 original size:80 final size:80
Alignment explanation
Indices: 40867770--40868030 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
40867760 TATTCGAATG
* * * * *
40867770 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
40867835 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * * *
40867851 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
40867916 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
40867931 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
40867996 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
40868010 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40868031 ATTTCTTGAG
Statistics
Matches: 151, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.09
80 94 0.62
81 30 0.20
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:40867984 original size:120 final size:121
Alignment explanation
Indices: 40867770--40867994 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
40867760 TATTCGAATG
** * *
40867770 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
40867835 ATTCGTGCGAGTTGCTATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * *
40867891 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
40867954 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
40867995 CTTGCGCAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 56 0.63
121 30 0.34
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:40876724 original size:46 final size:46
Alignment explanation
Indices: 40876657--40876828 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
40876647 AACCCGCCCC
*
40876657 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
* *
40876703 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCATCCA
* * ***
40876751 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
*
40876796 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
40876829 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 1 0.01
46 59 0.57
47 27 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
Found at i:40876821 original size:93 final size:93
Alignment explanation
Indices: 40876662--40876832 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
40876652 GCCCCTAAGT
***
40876662 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
40876727 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
40876755 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
40876820 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40876833 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40877286 original size:30 final size:30
Alignment explanation
Indices: 40877252--40877311 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
40877242 ATTTAATACG
40877252 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
40877282 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
40877312 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:40889282 original size:27 final size:27
Alignment explanation
Indices: 40889251--40889428 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
40889241 TAAATTGTAC
40889251 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
40889278 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
40889304 ATGCACTAAATGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40889332 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40889360 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40889387 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40889414 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40889429 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40889419 original size:82 final size:81
Alignment explanation
Indices: 40889248--40889428 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
40889238 GATTAAATTG
* *
40889248 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
40889313 ATGTGCGAATTGACCA
66 ATGTGCGAATTGACCA
* * *** *
40889329 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* * **
40889393 AAGTGTGCGAGTTGATTA
64 AAATGTGCGAATTGACCA
* *
40889411 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40889429 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
ATGTGCGAATTGACCA
Found at i:40893286 original size:40 final size:40
Alignment explanation
Indices: 40893249--40893472 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
40893239 GCTACTCGTT
* *
40893249 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
40893289 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40893329 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
40893368 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
40893407 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40893448 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40893473 CATCATTCAA
Statistics
Matches: 161, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 71 0.44
40 75 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40893360 original size:79 final size:78
Alignment explanation
Indices: 40893249--40893472 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
40893239 GCTACTCGTT
* * * *
40893249 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
40893314 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
40893329 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGG
*
40893392 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
40893407 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
40893472 A
64 A
40893473 CATCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 35 0.29
79 56 0.46
80 31 0.25
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:40893366 original size:39 final size:40
Alignment explanation
Indices: 40893249--40893472 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
40893239 GCTACTCGTT
* * *
40893249 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
40893289 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
40893329 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
40893368 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
40893407 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
40893448 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40893473 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 73 0.45
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:40901268 original size:38 final size:37
Alignment explanation
Indices: 40901224--40901428 Score: 181
Period size: 38 Copynumber: 5.5 Consensus size: 37
40901214 TCGTTCAAAC
*
40901224 GCCTTCGGGACATAGCCCGGTTATAGTAACTGCACAAT
1 GCCTTCGGGACTTAGCCCGGTT-TAGTAACTGCACAAT
*
40901262 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGG-TTTAGTAACT-GCAC-AAT
*
40901302 GCCTTCGGG-CTTAGCCCGGATTAGT-ACTGCACAAT
1 GCCTTCGGGACTTAGCCCGGTTTAGTAACTGCACAAT
**
40901337 GCCTTC-GG-CTTAG-CCGAATTAGT-ACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGTTTAGTAACT-GCAC-AAT
* * * * *
40901372 GCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-T-GCACAAT
40901412 GCCTTCGGGACTTAGCC
1 GCCTTCGGGACTTAGCC
40901429 TGGACATCAT
Statistics
Matches: 143, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
33 12 0.08
34 11 0.08
35 20 0.14
36 4 0.03
37 8 0.06
38 34 0.24
39 18 0.13
40 28 0.20
41 8 0.06
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (37 bp):
GCCTTCGGGACTTAGCCCGGTTTAGTAACTGCACAAT
Found at i:40901409 original size:75 final size:74
Alignment explanation
Indices: 40901219--40901428 Score: 230
Period size: 75 Copynumber: 2.8 Consensus size: 74
40901209 GCTACTCGTT
* * * * *
40901219 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTGCACAATGCCTTCGGGACTTAACCCGGAT
1 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGT-ACTGCACAATGCCTTCGGGACTT-AGCCGGAA
40901284 TTAGTAACTCGCA
62 TTAGTAACTCGCA
40901297 CAAATGCCTTCGGGCTTAGCCCGGATTAGTACTGCACAATGCCTTC-GG-CTTAGCC-GAATTAG
1 CAAATGCCTTCGGGCTTAGCCCGGATTAGTACTGCACAATGCCTTCGGGACTTAGCCGGAATTAG
40901359 T-ACTCGCA
66 TAACTCGCA
* * * *
40901367 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGAT-TAGT-AC-T-GCACAATGCCTTCGGGACTTAGCC
40901429 TGGACATCAT
Statistics
Matches: 116, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
70 20 0.17
71 18 0.16
72 6 0.05
73 5 0.04
74 3 0.03
75 28 0.24
76 6 0.05
77 17 0.15
78 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (74 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTAGTACTGCACAATGCCTTCGGGACTTAGCCGGAATTAG
TAACTCGCA
Found at i:40918342 original size:82 final size:80
Alignment explanation
Indices: 40918203--40918357 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 80
40918193 NNNNNNNNNA
* *
40918203 GCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGTG
1 GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGTG
40918268 CGAATTGACCATGCG
66 CGAATTGACCATGCG
**
40918283 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
40918346 TGTGCGAGTTGA
62 TGTGCGAATTGA
40918358 TTATATAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 15 0.23
82 47 0.71
83 1 0.02
84 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:40918358 original size:27 final size:27
Alignment explanation
Indices: 40918202--40918378 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
40918192 NNNNNNNNNN
40918202 AGCACTAAGTGTGCG-ATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
40918228 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
40918253 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGAATTGACTATGT
* *
40918282 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
40918310 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
40918337 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
40918364 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40918379 GACTCAATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.03
26 14 0.11
27 85 0.66
28 23 0.18
29 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:40918369 original size:82 final size:80
Alignment explanation
Indices: 40918202--40918378 Score: 205
Period size: 82 Copynumber: 2.2 Consensus size: 80
40918192 NNNNNNNNNN
* *
40918202 AGCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
*
40918267 GCGAATTGACCATGC
66 GCGAATTGACCATAC
* **
40918282 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAA
1 AGCACTAAGTGTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAA
* ** *
40918345 GTGTGCGAGTTGATTATAT
62 GTGTGCGAATTGACCATAC
*
40918364 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40918379 GACTCAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 15 0.19
82 62 0.77
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (80 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATAC
Found at i:40922989 original size:12 final size:14
Alignment explanation
Indices: 40922972--40923007 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
40922962 CATAAATCAC
40922972 TTTTTTTTTC-G-A
1 TTTTTTTTTCGGAA
40922984 TTTTTTTTTCGGAA
1 TTTTTTTTTCGGAA
40922998 TTTTTTTTTC
1 TTTTTTTTTC
40923008 AAACTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 11 0.50
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.75
Consensus pattern (14 bp):
TTTTTTTTTCGGAA
Found at i:40927965 original size:33 final size:33
Alignment explanation
Indices: 40927927--40927989 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
40927917 GATTACTCAC
40927927 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
40927960 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
40927990 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:40928016 original size:21 final size:21
Alignment explanation
Indices: 40927987--40928042 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
40927977 CAAGCTCTCT
*
40927987 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
40928008 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
40928029 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
40928043 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:40928035 original size:14 final size:14
Alignment explanation
Indices: 40927986--40928042 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
40927976 TCAAGCTCTC
40927986 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
40927999 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
40928013 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
40928027 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
40928041 TT
1 TT
40928043 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:40928102 original size:18 final size:18
Alignment explanation
Indices: 40928004--40928142 Score: 88
Period size: 18 Copynumber: 7.7 Consensus size: 18
40927994 TCTTTTTTCG
40928004 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
40928023 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
40928043 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
40928061 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
40928079 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
40928097 CTTTTT-GTTTTC--TTT
1 CTTTTTCTTTTTCATTTT
** * *
40928112 CAATTTCTTTTTCAATCT
1 CTTTTTCTTTTTCATTTT
*
40928130 CTTTTTCCTTTTC
1 CTTTTTCTTTTTC
40928143 TCGCTCAATG
Statistics
Matches: 91, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
15 7 0.08
16 5 0.05
17 6 0.07
18 54 0.59
19 3 0.03
20 8 0.09
21 8 0.09
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:40928124 original size:6 final size:6
Alignment explanation
Indices: 40928004--40928111 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
40927994 TCTTTTTTCG
* * * **
40928004 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
40928055 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
40928103 -GTTTT CTTT
1 CTTTTT CTTT
40928112 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:40932604 original size:18 final size:18
Alignment explanation
Indices: 40932581--40932616 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
40932571 AAATTGATTG
40932581 ACTAGTTATTCTGGCTCT
1 ACTAGTTATTCTGGCTCT
40932599 ACTAGTTATTCTGGCTCT
1 ACTAGTTATTCTGGCTCT
40932617 GAATCGGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (18 bp):
ACTAGTTATTCTGGCTCT
Found at i:40933339 original size:13 final size:13
Alignment explanation
Indices: 40933321--40933351 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
40933311 TGGCAGGGAA
40933321 ACGCCTGTGGCAC
1 ACGCCTGTGGCAC
40933334 ACGCCTGTGGCAC
1 ACGCCTGTGGCAC
40933347 ACGCC
1 ACGCC
40933352 CGTGTTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.42, G:0.29, T:0.13
Consensus pattern (13 bp):
ACGCCTGTGGCAC
Found at i:40937243 original size:11 final size:11
Alignment explanation
Indices: 40937229--40937263 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
40937219 ATTTAAAAAT
40937229 TATTTTATGTG
1 TATTTTATGTG
40937240 TATTTTATGTG
1 TATTTTATGTG
*
40937251 AATTTGTATGTG
1 TATTT-TATGTG
40937263 T
1 T
40937264 GAAATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (11 bp):
TATTTTATGTG
Found at i:40966875 original size:27 final size:27
Alignment explanation
Indices: 40966844--40967021 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40966834 TAAATTGTAC
40966844 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40966871 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40966897 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40966925 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40966953 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40966980 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40967007 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40967022 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40966958 original size:82 final size:81
Alignment explanation
Indices: 40966845--40967000 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40966835 AAATTGTACA
* *
40966845 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40966909 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40966926 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40966991 TGCGAGTTGA
65 TGCGAATTGA
40967001 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40967012 original size:82 final size:81
Alignment explanation
Indices: 40966841--40967021 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40966831 GATTAAATTG
* *
40966841 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40966906 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40966922 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40966986 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40967004 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40967022 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40970526 original size:42 final size:42
Alignment explanation
Indices: 40970467--40970572 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
40970457 CATTTAAGCC
40970467 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
40970509 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
40970551 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
40970573 TATTTAATGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:40970574 original size:14 final size:14
Alignment explanation
Indices: 40970555--40970599 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
40970545 AACTCATCTT
*
40970555 AGTTTAATTAAATG
1 AGTTTAATTTAATG
40970569 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
40970582 AATTTAATTTAATG
1 AGTTTAATTTAATG
40970596 AGTT
1 AGTT
40970600 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:40971605 original size:29 final size:29
Alignment explanation
Indices: 40971572--40971631 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
40971562 ATAACCAAAC
*
40971572 CTACA-AAAACTTTATATCCATAAACCCAT
1 CTACATAAAA-TTCATATCCATAAACCCAT
40971601 CTACATAAAATTCATATCCATAAACCCAT
1 CTACATAAAATTCATATCCATAAACCCAT
40971630 CT
1 CT
40971632 TTGAATTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACATAAAATTCATATCCATAAACCCAT
Found at i:40972976 original size:18 final size:18
Alignment explanation
Indices: 40972953--40973005 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
40972943 GAAAGAAAAA
40972953 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGATTGAGAGT
* * *
40972971 GAAAAAGAAAATGAGATT
1 GAAAAAGAGATTGAGAGT
*
40972989 GAAAAAGAGTTTGAGAG
1 GAAAAAGAGATTGAGAG
40973006 AGAGAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (18 bp):
GAAAAAGAGATTGAGAGT
Found at i:40973056 original size:146 final size:147
Alignment explanation
Indices: 40972895--40973198 Score: 592
Period size: 146 Copynumber: 2.1 Consensus size: 147
40972885 AGATTATGAG
40972895 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
1 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
40972960 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
66 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
40973025 GAAAAAAGAGTGG-AAA
131 GAAAAAAGAGTGGAAAA
40973041 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
1 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
40973106 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
66 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
40973171 GAAAAAAGAGTGGAAAA
131 GAAAAAAGAGTGGAAAA
*
40973188 AGAAATTGAGA
1 AGAAAATGAGA
40973199 TAAAAGAAAC
Statistics
Matches: 156, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
146 143 0.92
147 13 0.08
ACGTcount: A:0.59, C:0.03, G:0.25, T:0.13
Consensus pattern (147 bp):
AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
GAAAAAAGAGTGGAAAA
Found at i:40973122 original size:18 final size:18
Alignment explanation
Indices: 40973099--40973151 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
40973089 GAAAGAAAAA
40973099 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGATTGAGAGT
* * *
40973117 GAAAAAGAAAATGAGATT
1 GAAAAAGAGATTGAGAGT
*
40973135 GAAAAAGAGTTTGAGAG
1 GAAAAAGAGATTGAGAG
40973152 AGAGAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (18 bp):
GAAAAAGAGATTGAGAGT
Found at i:40975997 original size:22 final size:23
Alignment explanation
Indices: 40975972--40976031 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
40975962 TGGACTGAAT
40975972 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
40975994 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
40976016 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
40976032 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:40975999 original size:4 final size:4
Alignment explanation
Indices: 40975981--40976014 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
40975971 TATAAAAATT
40975981 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
40976015 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:40976627 original size:42 final size:42
Alignment explanation
Indices: 40976568--40976673 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
40976558 CATTTAAGCC
40976568 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
* *
40976610 TCTTAATTTAATAAATGAGTTGCTGGTCATTAATACAACTTA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
40976652 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
40976674 TATTTAATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 50 0.83
43 10 0.17
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:40976675 original size:14 final size:14
Alignment explanation
Indices: 40976656--40976700 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
40976646 AACTTATCTT
*
40976656 AGTTTAATTAAATG
1 AGTTTAATTTAATG
40976670 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
40976683 AATTTAATTTAATG
1 AGTTTAATTTAATG
40976697 AGTT
1 AGTT
40976701 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:40979293 original size:29 final size:29
Alignment explanation
Indices: 40979260--40979319 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
40979250 ATAACCAAAC
*
40979260 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
40979289 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
40979318 CT
1 CT
40979320 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:40979312 original size:15 final size:15
Alignment explanation
Indices: 40979266--40979313 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
40979256 AAACCTACAA
*
40979266 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
40979281 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
40979295 AAACTTCATATCCAT
1 AAACTTCATATCCAT
40979310 AAAC
1 AAAC
40979314 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:40980039 original size:14 final size:14
Alignment explanation
Indices: 40979992--40980039 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
40979982 GTACGAATGG
* *
40979992 AATGGTAAGAACGA
1 AATGGTAGGAACAA
*
40980006 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
40980020 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
40980034 ATTGGT
1 AATGGT
40980040 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:40988177 original size:40 final size:40
Alignment explanation
Indices: 40988128--40988342 Score: 360
Period size: 40 Copynumber: 5.4 Consensus size: 40
40988118 ATAGCAACTC
* *
40988128 GCACGAATGCCTTCGGGACTTAGCCCGGACATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
* *
40988168 GCACAAATGCCTTCAGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
* *
40988208 GCACAAATGCCTTTGAGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
40988248 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
40988288 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCGGATATAATCACTA
40988328 GCACAAATGCCTTCG
1 GCACAAATGCCTTCG
40988343 AATCTTAGTC
Statistics
Matches: 163, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 3 0.02
40 160 0.98
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
Done.