Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 65 of 214
Found at i:18653986 original size:3 final size:3
Alignment explanation
Indices: 18653978--18654029 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
18653968 ACATGGACTC
18653978 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18654026 TAT T
1 TAT T
18654030 TTAAATGTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18656472 original size:5 final size:5
Alignment explanation
Indices: 18656462--18656498 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
18656452 AAAGATTAGA
18656462 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GG
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GG
18656499 ACTTAAGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.19, G:0.62, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:18658320 original size:36 final size:36
Alignment explanation
Indices: 18658280--18658370 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 36
18658270 TGTTCAAGAT
***
18658280 CTTGGGATTGAGAAGACCTGATATTTTGTTCAGAAG
1 CTTGGGATTGAGAAGACCTGATATCGAGTTCAGAAG
* *
18658316 CTT--G---G-GAAGACTTGATATCGAGTTCAGGAG
1 CTTGGGATTGAGAAGACCTGATATCGAGTTCAGAAG
18658346 CTTGGGATTGAGAAGACCTGATATC
1 CTTGGGATTGAGAAGACCTGATATC
18658371 TCGTCCAGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
30 23 0.53
31 1 0.02
32 1 0.02
34 1 0.02
35 1 0.02
36 16 0.37
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (36 bp):
CTTGGGATTGAGAAGACCTGATATCGAGTTCAGAAG
Found at i:18658334 original size:66 final size:66
Alignment explanation
Indices: 18658224--18658391 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 66
18658214 CAAGAACTTA
* * * * ** *
18658224 AGAAGACCCGATATCTTGTTTAGGAGCTTTGGAAGACTCAATATCTTGTTCAAGATCTTGGGATT
1 AGAAGACCTGATATCTTGTTCAGAAGCTTGGGAAGACTCAATATCGAGTTCAAGAGCTTGGGATT
18658289 G
66 G
* ** *
18658290 AGAAGACCTGATATTTTGTTCAGAAGCTTGGGAAGACTTGATATCGAGTTCAGGAGCTTGGGATT
1 AGAAGACCTGATATCTTGTTCAGAAGCTTGGGAAGACTCAATATCGAGTTCAAGAGCTTGGGATT
18658355 G
66 G
* * * *
18658356 AGAAGACCTGATATCTCGTCCAGGAGTTTGGGAAGA
1 AGAAGACCTGATATCTTGTTCAGAAGCTTGGGAAGA
18658392 TCTGATATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 86 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (66 bp):
AGAAGACCTGATATCTTGTTCAGAAGCTTGGGAAGACTCAATATCGAGTTCAAGAGCTTGGGATT
G
Found at i:18658380 original size:36 final size:36
Alignment explanation
Indices: 18658264--18658388 Score: 109
Period size: 36 Copynumber: 3.6 Consensus size: 36
18658254 GGAAGACTCA
* * *
18658264 ATATCTTGTTCAAGATCTTGGGATTGAGAAGACCTG
1 ATATCTAGTTCAGGAGCTTGGGATTGAGAAGACCTG
* * * *
18658300 ATATTTTGTTCAGAAGCTT--G---G-GAAGACTTG
1 ATATCTAGTTCAGGAGCTTGGGATTGAGAAGACCTG
*
18658330 ATATCGAGTTCAGGAGCTTGGGATTGAGAAGACCTG
1 ATATCTAGTTCAGGAGCTTGGGATTGAGAAGACCTG
* * *
18658366 ATATCTCGTCCAGGAGTTTGGGA
1 ATATCTAGTTCAGGAGCTTGGGA
18658389 AGATCTGATA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
30 23 0.33
31 1 0.01
32 1 0.01
34 1 0.01
35 1 0.01
36 42 0.61
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (36 bp):
ATATCTAGTTCAGGAGCTTGGGATTGAGAAGACCTG
Found at i:18660234 original size:31 final size:31
Alignment explanation
Indices: 18660199--18660267 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
18660189 CTTAACAACC
*
18660199 CAGTGACTTAAACAAAAACTTTTAAAT-GTTT
1 CAGTGACTTAAACAAAAACTTTCAAATAG-TT
* * **
18660230 CAGTGATTTAGATGAAAACTTTCAAATAGTT
1 CAGTGACTTAAACAAAAACTTTCAAATAGTT
18660261 CAGTGAC
1 CAGTGAC
18660268 CAATTCTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (31 bp):
CAGTGACTTAAACAAAAACTTTCAAATAGTT
Found at i:18664324 original size:5 final size:5
Alignment explanation
Indices: 18664280--18664305 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18664270 AACAAAGAGT
18664280 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
18664306 ATATAAGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:18665234 original size:23 final size:22
Alignment explanation
Indices: 18665191--18665248 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
18665181 AAATGGTATC
* *
18665191 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
18665212 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
18665235 TGCATATCATATCT
1 TACAAATCATATCT
18665249 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:18666411 original size:5 final size:5
Alignment explanation
Indices: 18666401--18666443 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
18666391 AAAACTCATA
18666401 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
18666444 CTAGTCATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:18676353 original size:53 final size:52
Alignment explanation
Indices: 18676215--18676373 Score: 151
Period size: 53 Copynumber: 3.0 Consensus size: 52
18676205 TAAATTTGGG
* * * ** *
18676215 AAAAAAGTTTTGGGGGTTTTAGGATGAAGTACAAGTTTTGGAGGAAAGCAAAAGA
1 AAAAAAGTTTT-GGGG-TTTGGGA-GAAGTAAAATTTTTAAAGGAAAGTAAAAGA
* * * *
18676270 AAAAAAGTTTTGGGGTTTGGGGGAAGTAAAATTTTTGAAGGGGAAGTAAAAGC
1 AAAAAAGTTTTGGGGTTTGGGAGAAGTAAAATTTTT-AAAGGAAAGTAAAAGA
*
18676323 AAAAAGGTTTTGGGGTTT-GGAGATTA-TAAAATTTTTAAAGGAAAGTAAAAG
1 AAAAAAGTTTTGGGGTTTGGGAGA--AGTAAAATTTTTAAAGGAAAGTAAAAG
18676374 TTTTAGGGGG
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
52 29 0.33
53 42 0.48
54 5 0.06
55 11 0.13
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (52 bp):
AAAAAAGTTTTGGGGTTTGGGAGAAGTAAAATTTTTAAAGGAAAGTAAAAGA
Found at i:18676377 original size:19 final size:20
Alignment explanation
Indices: 18676349--18676393 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
18676339 TTGGAGATTA
*
18676349 TAAAATTTTTA-AAGGAAAG
1 TAAAAGTTTTAGAAGGAAAG
**
18676368 TAAAAGTTTTAGGGGGAAAG
1 TAAAAGTTTTAGAAGGAAAG
18676388 TAAAAG
1 TAAAAG
18676394 GAAAAAAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (20 bp):
TAAAAGTTTTAGAAGGAAAG
Found at i:18676426 original size:73 final size:73
Alignment explanation
Indices: 18676293--18676487 Score: 247
Period size: 73 Copynumber: 2.7 Consensus size: 73
18676283 GGTTTGGGGG
* * * * *
18676293 AAGTAAAATTTTTGAAGGGG-AAGTAAAA-GCAAAAAGGTTTTGGGGTTTGGAGATTATAAAAT-
1 AAGTAAAAGTTTT-AGGGGGAAAGTAAAAGGAAAAAAGGTTTTAGGGTTTGGAGAATATAAAATA
18676355 TTTTAAAGGA
65 TTTT-AAGGA
*
18676365 AAGTAAAAGTTTTAGGGGGAAAGTAAAAGGAAAAAAGGTTTTAGGGTTTAGG-GAATGTAAAATA
1 AAGTAAAAGTTTTAGGGGGAAAGTAAAAGGAAAAAAGGTTTTAGGGTTT-GGAGAATATAAAATA
*
18676429 TTTTAAGGG
65 TTTTAAGGA
* *
18676438 AAGTAAAAGTTTAAGGGGGAAAGTAAAAGGAAAAAA-GTTTTAAGGTTTGG
1 AAGTAAAAGTTTTAGGGGGAAAGTAAAAGGAAAAAAGGTTTTAGGGTTTGG
18676488 GGGAACTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
71 7 0.06
72 31 0.28
73 66 0.60
74 6 0.05
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.28
Consensus pattern (73 bp):
AAGTAAAAGTTTTAGGGGGAAAGTAAAAGGAAAAAAGGTTTTAGGGTTTGGAGAATATAAAATAT
TTTAAGGA
Found at i:18679280 original size:26 final size:26
Alignment explanation
Indices: 18679195--18679283 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
18679185 ATTTTGTCAA
*
18679195 TAAATTATGGATATAGTTAAATATAT
1 TAAATAATGGATATAGTTAAATATAT
** * * * ** *
18679221 TACTTAATGAAAATTCAATTATTTATCAA
1 TAAATAATGGATA-T-AGTTAAATAT-AT
18679250 TAAATAATGGATATAGTTAAATATAT
1 TAAATAATGGATATAGTTAAATATAT
18679276 TAAATAAT
1 TAAATAAT
18679284 TAGAATTTTA
Statistics
Matches: 43, Mismatches: 17, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
26 17 0.40
27 8 0.19
28 8 0.19
29 10 0.23
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (26 bp):
TAAATAATGGATATAGTTAAATATAT
Found at i:18683700 original size:22 final size:23
Alignment explanation
Indices: 18683669--18683711 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
18683659 ACTGAGAGTC
* *
18683669 AAATACTCAATGTTGAGACATTT
1 AAATACTCAAGGTTGAAACATTT
18683692 AAAT-CTCAAGGTTGAAACAT
1 AAATACTCAAGGTTGAAACAT
18683712 GGAAGCGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (23 bp):
AAATACTCAAGGTTGAAACATTT
Found at i:18685819 original size:51 final size:50
Alignment explanation
Indices: 18685691--18685831 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 50
18685681 GTTAAAGTGA
* * *
18685691 AAGTGATGGTCACGTGTGTAGTACTATGTACAGGCTACTACGCGTACCAG
1 AAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACACGTACCAG
* ** * * *
18685741 AA-AGATAGGTTGCATGTGTAGTACTATGTGCAGGCTACTACATGTATCGG
1 AAGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACACGTACCAG
*
18685791 ATAGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 A-AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
18685832 TGTGAACCGG
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.04
50 38 0.51
51 31 0.41
52 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (50 bp):
AAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACACGTACCAG
Found at i:18685928 original size:46 final size:43
Alignment explanation
Indices: 18685837--18685935 Score: 101
Period size: 46 Copynumber: 2.2 Consensus size: 43
18685827 TACTATGTGA
* *
18685837 ACCGGTATCATTAATTATAAGGTGGTTACTATGTGCTGGTCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTACTATGTGCTGATCCC
* * *
18685880 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAAT-CC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTACTATGTGCTG-ATCCC
18685926 ACCGTGTATC
1 ACCG-GTATC
18685936 TGTTATTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.24
45 2 0.04
46 26 0.57
47 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTACTATGTGCTGATCCC
Found at i:18686078 original size:38 final size:37
Alignment explanation
Indices: 18686036--18686108 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
18686026 ATGTGTGGAA
*
18686036 TTGAATTGAATATTGACTTGAAAAT-AGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TTGAAAATGA-AAAAGTGAATT
*
18686074 TTGAATTGAATAGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTGAAAATGAAAAAGTGAA
18686109 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 16 0.50
38 16 0.50
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTGAAAATGAAAAAGTGAATT
Found at i:18708584 original size:43 final size:42
Alignment explanation
Indices: 18708496--18708722 Score: 239
Period size: 43 Copynumber: 5.4 Consensus size: 42
18708486 CTCGGTGGAT
**
18708496 TCAGCACTTAGCAACCACC-TTA-AATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAAAGATACGGGGAA
*
18708537 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAAAGATACGG-GGAA
* * **
18708580 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAAAGATACGGGGAA
* * *
18708622 TCAGCACATAGCAACC-CCTTTCACAATCAAATATACGGTTGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAAAGATACGG-GGAA
* * **
18708665 TCAACACTTAGCAACCACCTTTAGAATCAATA-ATTTGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAA-AGATACGGGGAA
18708707 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
18708723 TCTCGGAGAA
Statistics
Matches: 155, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.01
41 22 0.14
42 59 0.38
43 61 0.39
44 11 0.07
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAAAGATACGGGGAA
Found at i:18708631 original size:85 final size:85
Alignment explanation
Indices: 18708488--18708722 Score: 357
Period size: 85 Copynumber: 2.8 Consensus size: 85
18708478 ATCCGTTACT
*
18708488 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
18708552 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
*
18708572 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
*
18708637 CCCTTTCACAATCAAATATA
66 CCCTTTCACAATCAAAGATA
* * * * ** *
18708657 CGGTTGAATCAACACTTAGCAACCACCTTTAGAA-TCAATAATTTGGGGAATCAGCACTTAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAA
18708721 CC
65 CC
18708723 TCTCGGAGAA
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
84 26 0.19
85 111 0.80
86 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:18708634 original size:42 final size:42
Alignment explanation
Indices: 18708496--18708722 Score: 248
Period size: 42 Copynumber: 5.4 Consensus size: 42
18708486 CTCGGTGGAT
*
18708496 TCAGCACTTAGCAACCACC-TTA-AATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACGGGGAA
* *
18708537 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GGAA
* * *
18708580 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* *
18708622 TCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACGGTTGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATC-AATGATACGG-GGAA
* * * **
18708665 TCAACACTTAGCAACCACCTTTAGAATCAATAATTTGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
18708707 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
18708723 TCTCGGAGAA
Statistics
Matches: 156, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.01
41 22 0.14
42 61 0.39
43 61 0.39
44 10 0.06
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:18712913 original size:7 final size:7
Alignment explanation
Indices: 18712898--18712934 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
18712888 TATGTGTATC
18712898 CATTTAA
1 CATTTAA
*
18712905 CAATTAA
1 CATTTAA
18712912 CATTTAA
1 CATTTAA
18712919 CATTTAA
1 CATTTAA
18712926 CATTTAA
1 CATTTAA
18712933 CA
1 CA
18712935 ATTTTCATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (7 bp):
CATTTAA
Found at i:18722294 original size:27 final size:27
Alignment explanation
Indices: 18722264--18722315 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
18722254 GGAGTCTGTC
*
18722264 GGGACACTAAACACAAGGTAGTCCACT
1 GGGACACTAAAAACAAGGTAGTCCACT
* **
18722291 GGGACATTAAAAACGGGGTAGTCCA
1 GGGACACTAAAAACAAGGTAGTCCA
18722316 TCAGGACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.15
Consensus pattern (27 bp):
GGGACACTAAAAACAAGGTAGTCCACT
Found at i:18722322 original size:27 final size:27
Alignment explanation
Indices: 18722280--18722349 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
18722270 CTAAACACAA
**
18722280 GGTAGTCCACTGGGACATTAAAAACGG
1 GGTAGTCCACCAGGACATTAAAAACGG
* *
18722307 GGTAGTCCATCAGGACATTAAAAATGG
1 GGTAGTCCACCAGGACATTAAAAACGG
18722334 GGTAGTCCACCAGGAC
1 GGTAGTCCACCAGGAC
18722350 GTGAAACATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.19
Consensus pattern (27 bp):
GGTAGTCCACCAGGACATTAAAAACGG
Found at i:18722360 original size:27 final size:27
Alignment explanation
Indices: 18722280--18722361 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
18722270 CTAAACACAA
** * *
18722280 GGTAGTCCACTGGGACATTAAAAACGG
1 GGTAGTCCACCAGGACATGAAAAATGG
* *
18722307 GGTAGTCCATCAGGACATTAAAAATGG
1 GGTAGTCCACCAGGACATGAAAAATGG
* *
18722334 GGTAGTCCACCAGGACGTGAAACATGG
1 GGTAGTCCACCAGGACATGAAAAATGG
18722361 G
1 G
18722362 ATCATGTTGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.18
Consensus pattern (27 bp):
GGTAGTCCACCAGGACATGAAAAATGG
Found at i:18723601 original size:45 final size:45
Alignment explanation
Indices: 18723509--18723609 Score: 125
Period size: 45 Copynumber: 2.2 Consensus size: 45
18723499 GTAACGGTAG
* *
18723509 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATGTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATGTGCAA
* * *
18723554 CAGTAACGGTAATAGTATTCGACACACAAAGTG-TCAAATCG-GCAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCT-AAAT-GTGCAA
18723599 CAGTAACAGTA
1 CAGTAACAGTA
18723610 GTCGGCATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 1 0.02
45 46 0.96
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATGTGCAA
Found at i:18725016 original size:25 final size:23
Alignment explanation
Indices: 18724972--18725032 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
18724962 ATTTTGATTT
*
18724972 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
18724996 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
18725020 ATATAAATTATAT
1 AT-TTAATTATAT
18725033 TTAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:18725035 original size:35 final size:35
Alignment explanation
Indices: 18724980--18725059 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
18724970 TTATTTAATA
* *
18724980 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
* *
18725014 CATATAATATAAATTAT-ATTTAAATATTATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
18725049 ATATAAT-TAAA
1 ATATAATATAAA
18725060 ACAAATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:18726247 original size:22 final size:22
Alignment explanation
Indices: 18726230--18726284 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
18726220 ATAGCACCGT
18726230 AGTGCTAAACAGAGAGCACAAA
1 AGTGCTAAACAGAGAGCACAAA
* * *
18726252 AGTGCTAAGCAGAGAGTACCAA
1 AGTGCTAAACAGAGAGCACAAA
*
18726274 AGTACTAAACA
1 AGTGCTAAACA
18726285 TGACACATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (22 bp):
AGTGCTAAACAGAGAGCACAAA
Found at i:18728220 original size:22 final size:22
Alignment explanation
Indices: 18728195--18728237 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18728185 AAAAAATTAT
18728195 ATTTATA-AATATAAAAGTTTTC
1 ATTTATATAAT-TAAAAGTTTTC
* *
18728217 ATTTTTATAATTTAAAGTTTT
1 ATTTATATAATTAAAAGTTTT
18728238 AAAATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTATATAATTAAAAGTTTTC
Found at i:18728284 original size:6 final size:6
Alignment explanation
Indices: 18728273--18728306 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
18728263 TGTGATATGA
18728273 AATATT AATATT AATATT AATATT AATATT AATA
1 AATATT AATATT AATATT AATATT AATATT AATA
18728307 GGTTACTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AATATT
Found at i:18728442 original size:29 final size:29
Alignment explanation
Indices: 18728400--18728457 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
18728390 TTAGATGTTA
18728400 GTAAAAAAAATTACATACTTGGTAAATGT
1 GTAAAAAAAATTACATACTTGGTAAATGT
*
18728429 GTAAAAATAATTACATACTTGGTAAATGT
1 GTAAAAAAAATTACATACTTGGTAAATGT
18728458 CAATTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (29 bp):
GTAAAAAAAATTACATACTTGGTAAATGT
Found at i:18729558 original size:60 final size:60
Alignment explanation
Indices: 18729494--18729609 Score: 205
Period size: 60 Copynumber: 1.9 Consensus size: 60
18729484 AATTTTTTTT
* *
18729494 TTGAGAGAGCCTTCAAGATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTTAAAA
1 TTGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTTAAAA
*
18729554 TTGAGAGAGCCATCAAAATGAGAGTGTTTTGTAGTGTATCATCAAATGAGTTTTTT
1 TTGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTT
18729610 GTAATGGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (60 bp):
TTGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTTAAAA
Found at i:18729980 original size:7 final size:7
Alignment explanation
Indices: 18729968--18729992 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18729958 TAATGTAGTC
18729968 GTTTAAG
1 GTTTAAG
18729975 GTTTAAG
1 GTTTAAG
18729982 GTTTAAG
1 GTTTAAG
18729989 GTTT
1 GTTT
18729993 CATTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:18730198 original size:88 final size:90
Alignment explanation
Indices: 18730049--18730261 Score: 306
Period size: 88 Copynumber: 2.4 Consensus size: 90
18730039 TTTGTATCTG
*
18730049 TAAATTTAATTTAGTTCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTTCGTATTATA-GTAGTTTGAATTTAAAATTTTCGTGCATTAATTTTACCC
* *
18730114 ATCTGTTTGTAG-TTTGTTGGGTGTT
65 ATCTGTCTATAGTTTTGTTGGGTGTT
* * *
18730139 TAAATTTAATTTTGTAT-GTATTATA-TAGTTTGAATTTAAAATTTTTGTGCGTTAATTTTACCC
1 TAAATTTAATTTAGT-TCGTATTATAGTAGTTTGAATTTAAAATTTTCGTGCATTAATTTTACCC
18730202 ATCTGTCTATAGTTTTGTTGGGTGTT
65 ATCTGTCTATAGTTTTGTTGGGTGTT
* *
18730228 TAAATTTAATTTAGTCCGTACTATATGTAGTTTG
1 TAAATTTAATTTAGTTCGTATTATA-GTAGTTTG
18730262 TGTTAGAGTA
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
88 45 0.41
89 34 0.31
90 22 0.20
91 8 0.07
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (90 bp):
TAAATTTAATTTAGTTCGTATTATAGTAGTTTGAATTTAAAATTTTCGTGCATTAATTTTACCCA
TCTGTCTATAGTTTTGTTGGGTGTT
Found at i:18738470 original size:22 final size:20
Alignment explanation
Indices: 18738445--18738494 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
18738435 TTATTCAAAC
*
18738445 AAATAATTATTTTAGAAAAATT
1 AAATAATTATATTA-AAAAA-T
18738467 AAAT--TTATATTAAAAAAT
1 AAATAATTATATTAAAAAAT
18738485 AGAATAATTA
1 A-AATAATTA
18738495 CAAAATAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.08
19 8 0.33
20 7 0.29
21 3 0.12
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
AAATAATTATATTAAAAAAT
Found at i:18740982 original size:5 final size:5
Alignment explanation
Indices: 18740972--18741021 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
18740962 TTTTTATTAT
* * *
18740972 TTTCA TTTCA TTTCA TTTCCT TTTCCA TTTCC TTCCA TTTCA TTTCA TTT
1 TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTTCA TTTCA TTT
18741022 AAATTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 29 0.76
6 9 0.24
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:18741000 original size:22 final size:21
Alignment explanation
Indices: 18740971--18741021 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
18740961 TTTTTTATTA
*
18740971 TTTTCATTTCATTTCATTTCC
1 TTTTCATTTCATTCCATTTCC
*
18740992 TTTTCCATTTCCTTCCATTT-C
1 TTTT-CATTTCATTCCATTTCC
*
18741013 ATTTCATTT
1 TTTTCATTT
18741022 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 8 0.31
22 13 0.50
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTCATTTCATTCCATTTCC
Found at i:18741032 original size:15 final size:15
Alignment explanation
Indices: 18741014--18741042 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18741004 TTCCATTTCA
18741014 TTTCATTTAAATTTT
1 TTTCATTTAAATTTT
18741029 TTTCATTTAAATTT
1 TTTCATTTAAATTT
18741043 AATTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCATTTAAATTTT
Found at i:18741032 original size:20 final size:19
Alignment explanation
Indices: 18741009--18741071 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
18740999 TTTCCTTCCA
18741009 TTTCATTTCATTTAAATTTT
1 TTTCATTTCATTT-AATTTT
*
18741029 TTTCATTTAAATTTAATTTT
1 TTTCATTT-CATTTAATTTT
18741049 TTTC---TCATTTCAATTTT
1 TTTCATTTCATTT-AATTTT
18741066 TTTCAT
1 TTTCAT
18741072 ATTAATAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 4 0.11
17 11 0.30
20 18 0.49
21 4 0.11
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTCATTTCATTTAATTTT
Found at i:18741056 original size:22 final size:21
Alignment explanation
Indices: 18741009--18741064 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
18740999 TTTCCTTCCA
*
18741009 TTTCATTT-CATTTAAATTTT
1 TTTCATTTAAATTTAAATTTT
*
18741029 TTTCATTTAAATTTAATTTTT
1 TTTCATTTAAATTTAAATTTT
*
18741050 TTCTCATTTCAATTT
1 TT-TCATTTAAATTT
18741065 TTTTCATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 8 0.26
21 12 0.39
22 11 0.35
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCATTTAAATTTAAATTTT
Found at i:18741151 original size:17 final size:17
Alignment explanation
Indices: 18741121--18741229 Score: 62
Period size: 17 Copynumber: 6.8 Consensus size: 17
18741111 CAGTTTTTGT
18741121 TTTCATTTCAATTTATAA
1 TTTCATTTC-ATTTATAA
18741139 TTT-ATTTTCATTTA-AA
1 TTTCA-TTTCATTTATAA
18741155 CTTTCATTTCATTTCATAA
1 -TTTCATTTCATTT-ATAA
*
18741174 --TCATTACA---A-AA
1 TTTCATTTCATTTATAA
*
18741185 -TTCATTTCA-TT-TCA
1 TTTCATTTCATTTATAA
18741199 TTTCATATTCATTTA-ACA
1 TTTCAT-TTCATTTATA-A
18741217 TTTCATTTCATTT
1 TTTCATTTCATTT
18741230 GAATATTCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 29
0.69 0.04 0.27
Matches are distributed among these distances:
11 2 0.03
12 8 0.11
14 1 0.01
15 5 0.07
16 13 0.18
17 26 0.36
18 16 0.22
19 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTCATTTCATTTATAA
Found at i:18741166 original size:5 final size:5
Alignment explanation
Indices: 18741156--18741285 Score: 80
Period size: 5 Copynumber: 23.4 Consensus size: 5
18741146 TCATTTAAAC
* * *
18741156 TTTCA TTTCA TTTCA TAATCA TTACAAA ATTCA TTTCA TTTCA TTTCA
1 TTTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA TTTCA
* * * *
18741204 TATTCA TTTAACA TTTCA TTTCA TTTGAA TATTCA TTACAAA TTACA TTACA
1 T-TTCA TTT--CA TTTCA TTTCA TTT-CA T-TTCA TTTC--A TTTCA TTTCA
18741256 TTTCA TATTCA TTTAACA TTTCA TTTCA TT
1 TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
18741286 AGTTTTTTTT
Statistics
Matches: 102, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
5 64 0.63
6 18 0.18
7 20 0.20
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.50
Consensus pattern (5 bp):
TTTCA
Found at i:18741178 original size:28 final size:29
Alignment explanation
Indices: 18741145--18741285 Score: 148
Period size: 28 Copynumber: 4.8 Consensus size: 29
18741135 ATAATTTATT
18741145 TTCATTTAAAC-TTTCATTTCATTTCATA
1 TTCATTTAAACATTTCATTTCATTTCATA
* *
18741173 ATCATTACAAAATTCATTTCATTTCATTTCATA
1 TTCATT--TAAA--CATTTCATTTCATTTCATA
*
18741206 TTCATTT-AACATTTCATTTCATTTGAATA
1 TTCATTTAAACATTTCATTTCATTT-CATA
* *
18741235 TTCA-TTACAA-ATTACATTACATTTCATA
1 TTCATTTA-AACATTTCATTTCATTTCATA
18741263 TTCATTT-AACATTTCATTTCATT
1 TTCATTTAAACATTTCATTTCATT
18741286 AGTTTTTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
27 2 0.02
28 40 0.43
29 21 0.23
30 7 0.08
32 1 0.01
33 22 0.24
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.50
Consensus pattern (29 bp):
TTCATTTAAACATTTCATTTCATTTCATA
Found at i:18741198 original size:33 final size:32
Alignment explanation
Indices: 18741156--18741267 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
18741146 TCATTTAAAC
*
18741156 TTTCATTTCATTTCATAATCATTACAAAATTCA
1 TTTCATTTCATTTCATATTCATTAC-AAATTCA
*
18741189 TTTCATTTCATTTCATATTCATT--TAA--CA
1 TTTCATTTCATTTCATATTCATTACAAATTCA
*
18741217 TTTCATTTCATTTGAATATTCATTACAAATTACA
1 TTTCATTTCATTT-CATATTCATTACAAATT-CA
*
18741251 TTACATTTCATATTCAT
1 TTTCATTTCAT-TTCAT
18741268 TTAACATTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
28 15 0.23
29 9 0.14
30 2 0.03
31 2 0.03
33 22 0.33
34 14 0.21
35 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.49
Consensus pattern (32 bp):
TTTCATTTCATTTCATATTCATTACAAATTCA
Found at i:18741222 original size:23 final size:21
Alignment explanation
Indices: 18741161--18741284 Score: 65
Period size: 23 Copynumber: 5.5 Consensus size: 21
18741151 TAAACTTTCA
* *
18741161 TTTCATTTCATAATCATTACAAA
1 TTTCATTTCATATTCATTTC--A
*
18741184 ATTCATTTCAT-TTCATTTCA
1 TTTCATTTCATATTCATTTCA
18741204 TATTCATTTAACAT-TTCATTTCA
1 T-TTCATTT--CATATTCATTTCA
* * *
18741227 TTTGAATATTCAT-TACAAATTACA
1 TTT-CAT-TTCATATTC--ATTTCA
*
18741251 TTACATTTCATATTCATTTAACA
1 TTTCATTTCATATTCATTT--CA
18741274 TTTCATTTCAT
1 TTTCATTTCAT
18741285 TAGTTTTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
20 1 0.01
21 10 0.13
22 18 0.23
23 41 0.52
24 9 0.11
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.49
Consensus pattern (21 bp):
TTTCATTTCATATTCATTTCA
Found at i:18741223 original size:12 final size:10
Alignment explanation
Indices: 18741156--18741285 Score: 80
Period size: 12 Copynumber: 11.7 Consensus size: 10
18741146 TCATTTAAAC
18741156 TTTCATTTCA
1 TTTCATTTCA
*
18741166 TTTCATAATCA
1 TTTCAT-TTCA
* *
18741177 TTACAAAATTCA
1 TTTC--ATTTCA
18741189 TTTCATTTCA
1 TTTCATTTCA
18741199 TTTCATATTCA
1 TTTCAT-TTCA
18741210 TTTAACATTTCA
1 TTT--CATTTCA
*
18741222 TTTCATTTGAA
1 TTTCATTT-CA
*
18741233 TATTCATTACAAA
1 T-TTCATTTC--A
* *
18741246 TTACATTACA
1 TTTCATTTCA
18741256 TTTCATATTCA
1 TTTCAT-TTCA
18741267 TTTAACATTTCA
1 TTT--CATTTCA
18741279 TTTCATT
1 TTTCATT
18741286 AGTTTTTTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
10 32 0.34
11 21 0.22
12 33 0.35
13 9 0.09
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.50
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:18741275 original size:57 final size:59
Alignment explanation
Indices: 18741145--18741285 Score: 191
Period size: 57 Copynumber: 2.4 Consensus size: 59
18741135 ATAATTTATT
* *
18741145 TTCATTTAA-ACTTTCATTTCATTTCATAATCATTACAAAATTCATTTCATTTCATTTCATA
1 TTCATTTAACA-TTTCATTTCATTTAATAATCATTACAAAATTCA--TCATTACATTTCATA
*
18741206 TTCATTTAACATTTCATTTCATTTGAATATTCATTAC-AAATT-A-CATTACATTTCATA
1 TTCATTTAACATTTCATTTCATTT-AATAATCATTACAAAATTCATCATTACATTTCATA
18741263 TTCATTTAACATTTCATTTCATT
1 TTCATTTAACATTTCATTTCATT
18741286 AGTTTTTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
57 36 0.48
60 1 0.01
61 27 0.36
62 11 0.15
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.50
Consensus pattern (59 bp):
TTCATTTAACATTTCATTTCATTTAATAATCATTACAAAATTCATCATTACATTTCATA
Found at i:18741388 original size:15 final size:15
Alignment explanation
Indices: 18741359--18741397 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
18741349 AGTAGTCTCA
*
18741359 TTTCAATT-TATTTT
1 TTTCAATTCAATTTT
18741373 TTTCAATTCAATTTT
1 TTTCAATTCAATTTT
*
18741388 TTTCATTTCA
1 TTTCAATTCA
18741398 TTTCATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTCAATTCAATTTT
Found at i:18741486 original size:20 final size:21
Alignment explanation
Indices: 18741440--18741485 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18741430 TCTCAATTAC
*
18741440 ATTTTATTTAAATTTTTTCAT
1 ATTTTATTTAAATTTTCTCAT
18741461 ATTTTATTTAAACTTTTCTCA-
1 ATTTTATTTAAA-TTTTCTCAT
18741482 ATTT
1 ATTT
18741486 AAATATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTATTTAAATTTTCTCAT
Found at i:18741781 original size:23 final size:23
Alignment explanation
Indices: 18741732--18741781 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
18741722 TTTAATTTTC
* **
18741732 ATTTCTAAATTCATTTCATTTCC
1 ATTTCTAAATTCATTTCATCTAA
* *
18741755 ATTTCTCATTTCATTTCATCTAA
1 ATTTCTAAATTCATTTCATCTAA
18741778 ATTT
1 ATTT
18741782 GTTTTTTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTTCTAAATTCATTTCATCTAA
Found at i:18741939 original size:18 final size:18
Alignment explanation
Indices: 18741918--18741956 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18741908 TTTTAGTTTC
18741918 ATTTCAAATTCATTTCAT
1 ATTTCAAATTCATTTCAT
* **
18741936 ATTTTATTTTCATTTCAT
1 ATTTCAAATTCATTTCAT
18741954 ATT
1 ATT
18741957 CATTTCACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTCAAATTCATTTCAT
Found at i:18741950 original size:11 final size:11
Alignment explanation
Indices: 18741915--18741963 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
18741905 ATATTTTAGT
*
18741915 TTCATTTCAAA
1 TTCATTTCATA
18741926 TTCATTTCATA
1 TTCATTTCATA
*
18741937 -T--TTT-ATT
1 TTCATTTCATA
18741944 TTCATTTCATA
1 TTCATTTCATA
18741955 TTCATTTCA
1 TTCATTTCA
18741964 CTTTATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
7 2 0.06
8 4 0.13
10 4 0.13
11 21 0.68
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (11 bp):
TTCATTTCATA
Found at i:18741962 original size:29 final size:29
Alignment explanation
Indices: 18741861--18741963 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 29
18741851 ATGGTAATTG
*
18741861 ATTTCAT-TTCAATTT-ATACTTTATTTTC
1 ATTTCATATTC-ATTTCATATTTTATTTTC
* * *
18741889 ATTTCACATTCATTTAATATTTTAGTTTC
1 ATTTCATATTCATTTCATATTTTATTTTC
*
18741918 ATTTCAAATTCATTTCATATTTTATTTTC
1 ATTTCATATTCATTTCATATTTTATTTTC
18741947 ATTTCATATTCATTTCA
1 ATTTCATATTCATTTCA
18741964 CTTTATTCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
28 10 0.15
29 56 0.85
ACGTcount: A:0.27, C:0.15, G:0.01, T:0.57
Consensus pattern (29 bp):
ATTTCATATTCATTTCATATTTTATTTTC
Found at i:18744951 original size:19 final size:19
Alignment explanation
Indices: 18744906--18744953 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
18744896 AAAACGAAAA
18744906 TTTTGAAACACGAGATGTT
1 TTTTGAAACACGAGATGTT
* *
18744925 TTTGGAAACACGA-ATTTT
1 TTTTGAAACACGAGATGTT
18744943 CTTTTGAAACA
1 -TTTTGAAACA
18744954 TGAAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (19 bp):
TTTTGAAACACGAGATGTT
Found at i:18745019 original size:20 final size:19
Alignment explanation
Indices: 18744998--18745230 Score: 87
Period size: 17 Copynumber: 13.0 Consensus size: 19
18744988 ACACGAGGAT
18744998 TTTTTTTGAAACACGAAAA
1 TTTTTTTGAAACACGAAAA
* **
18745017 --TTTATGAAACACGGTCAA
1 TTTTTTTGAAACAC-GAAAA
18745035 TTTTTTTGAAAACACGAAAA
1 TTTTTTTG-AAACACGAAAA
* *
18745055 ---TTTTGAAAGACG-GAA
1 TTTTTTTGAAACACGAAAA
*
18745070 -TTTTTTGAAAACACGGAAA
1 TTTTTTTG-AAACACGAAAA
* **
18745089 --TTTATGAAACACGGTCAA
1 TTTTTTTGAAACAC-GAAAA
18745107 TTTTTTTGAAAACACGAAAA
1 TTTTTTTG-AAACACGAAAA
*
18745127 ---TTTTGAAGACA-G--GA
1 TTTTTTTGAA-ACACGAAAA
*
18745141 -TTTTTTGAAAACACGGAAA
1 TTTTTTTG-AAACACGAAAA
* *
18745160 --TTTATGAAACAC-AGAA
1 TTTTTTTGAAACACGAAAA
*
18745176 TTTTTTTGAAAACAAGAAAA
1 TTTTTTTG-AAACACGAAAA
* * *
18745196 --TTTTCGAAATACGAGAA
1 TTTTTTTGAAACACGAAAA
18745213 TTTTTTT-AAACACGAAAA
1 TTTTTTTGAAACACGAAAA
18745231 CATGAAAATT
Statistics
Matches: 158, Mismatches: 31, Indels: 51
0.66 0.13 0.21
Matches are distributed among these distances:
14 1 0.01
15 2 0.01
16 19 0.12
17 52 0.33
18 41 0.26
19 12 0.08
20 19 0.12
21 12 0.08
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (19 bp):
TTTTTTTGAAACACGAAAA
Found at i:18745026 original size:17 final size:17
Alignment explanation
Indices: 18745000--18745230 Score: 119
Period size: 18 Copynumber: 13.0 Consensus size: 17
18744990 ACGAGGATTT
18745000 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
18745017 TTTATGAAACACGGTCAATT
1 TTTTTGAAACAC-G--AAAA
18745037 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * *
18745055 -TTTTGAAAGACGGAAT
1 TTTTTGAAACACGAAAA
*
18745071 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* **
18745089 TTTATGAAACACGGTCAATT
1 TTTTTGAAACAC-G--AAAA
18745109 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* *
18745127 -TTTTGAAGACA-G-GAT
1 TTTTTGAA-ACACGAAAA
*
18745142 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* **
18745160 TTTATGAAACACAGAATT
1 TTTTTGAAACAC-GAAAA
*
18745178 TTTTTGAAAACAAGAAAA
1 TTTTTG-AAACACGAAAA
* * *
18745196 TTTTCGAAATACGAGAAT
1 TTTTTGAAACACGA-AAA
*
18745214 TTTTTTAAACACGAAAA
1 TTTTTGAAACACGAAAA
18745231 CATGAAAATT
Statistics
Matches: 158, Mismatches: 38, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
15 1 0.01
16 19 0.12
17 52 0.33
18 54 0.34
19 5 0.03
20 15 0.09
21 12 0.08
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:18745144 original size:71 final size:72
Alignment explanation
Indices: 18744999--18745226 Score: 342
Period size: 72 Copynumber: 3.2 Consensus size: 72
18744989 CACGAGGATT
*
18744999 TTTTTTG-AAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTGAAA
1 TTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTGAAA
18745063 GACGGAA
66 GACGGAA
18745070 TTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTG-AA
1 TTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTGAAA
18745134 GACAGG-A
66 GAC-GGAA
* *
18745141 TTTTTTGAAAACACGGAAATTTATGAAACACAG--AATTTTTTTGAAAACAAGAAAATTTTCGAA
1 TTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTT-GAA
*
18745204 ATACGAGAA
65 AGACG-GAA
*
18745213 TTTTTT-TAAACACG
1 TTTTTTGAAAACACG
18745227 AAAACATGAA
Statistics
Matches: 146, Mismatches: 5, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
69 25 0.17
70 2 0.01
71 57 0.39
72 62 0.42
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (72 bp):
TTTTTTGAAAACACGGAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTGAAA
GACGGAA
Found at i:18745218 original size:19 final size:18
Alignment explanation
Indices: 18745166--18745218 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
18745156 GAAATTTATG
*
18745166 AAACACAGAATTTTTTTGA
1 AAACA-AGAATTTTTTCGA
**
18745185 AAACAAGAAAATTTTCGA
1 AAACAAGAATTTTTTCGA
*
18745203 AATACGAGAATTTTTT
1 AA-ACAAGAATTTTTT
18745219 TAAACACGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (18 bp):
AAACAAGAATTTTTTCGA
Found at i:18745276 original size:43 final size:43
Alignment explanation
Indices: 18745183--18745281 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
18745173 GAATTTTTTT
* * **
18745183 GAAAACAAGAAAATTTTCGAAATACGAGAATTTTTTTAAACAC
1 GAAAACATGAAAATTTTCGAAACACGAGAATTTTTGAAAACAC
18745226 GAAAACATGAAAATTTGTC-AAACACGAGAATTTTTGAAAACAC
1 GAAAACATGAAAATTT-TCGAAACACGAGAATTTTTGAAAACAC
* *
18745269 GATAACATCAAAA
1 GAAAACATGAAAA
18745282 AAATATTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.51, C:0.13, G:0.12, T:0.24
Consensus pattern (43 bp):
GAAAACATGAAAATTTTCGAAACACGAGAATTTTTGAAAACAC
Found at i:18745351 original size:15 final size:16
Alignment explanation
Indices: 18745331--18745360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18745321 GAAAACACGA
18745331 AAACAC-GAAATTTTC
1 AAACACGGAAATTTTC
18745346 AAACACGGAAATTTT
1 AAACACGGAAATTTT
18745361 TGAAAACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (16 bp):
AAACACGGAAATTTTC
Found at i:18745411 original size:17 final size:16
Alignment explanation
Indices: 18745389--18745489 Score: 59
Period size: 17 Copynumber: 6.2 Consensus size: 16
18745379 AAAAAATATT
18745389 CACGAGAGTTTTTGAAA
1 CACGAGA-TTTTTGAAA
18745406 CACGAGAATTTTTTGAAA
1 CACGAG-A-TTTTTGAAA
*
18745424 -AC---ATTTTTCAAA
1 CACGAGATTTTTGAAA
* *
18745436 CACGGGAATTTTGAAAA
1 CACGAGATTTTTG-AAA
* **
18745453 CACGAAAATTTTT-ATT
1 CACG-AGATTTTTGAAA
18745469 CACGAGAATTTTTGAAA
1 CACGAG-ATTTTTGAAA
18745486 CACG
1 CACG
18745490 GAATTTTTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
12 8 0.13
13 3 0.05
15 1 0.02
16 16 0.25
17 20 0.32
18 15 0.24
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (16 bp):
CACGAGATTTTTGAAA
Found at i:18745414 original size:100 final size:103
Alignment explanation
Indices: 18745196--18745426 Score: 359
Period size: 101 Copynumber: 2.3 Consensus size: 103
18745186 AACAAGAAAA
* * *
18745196 TTTTCGAAATACGAGAATTTTTTT--AAACACGAAAACATGAAAATTTGTCAAACACGAGAATTT
1 TTTTTGAAACACGAGAATTTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGAGAATTT
18745259 TTGAAAACACGATAACATCAAAAAAATATTCACGAGAG
66 TTGAAAACACGATAACATCAAAAAAATATTCACGAGAG
*
18745297 TTTTTGAAACACAAGAATTTTTTTGAAAACACGAAAACACG-AAATTT-TCAAACACG-GAAATT
1 TTTTTGAAACACGAGAATTTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGAG-AATT
*
18745359 TTTGAAAACACGATAACGTC-AAAAAATATTCACGAGAG
65 TTTGAAAACACGATAACATCAAAAAAATATTCACGAGAG
18745397 TTTTTGAAACACGAGAA-TTTTTTGAAAACA
1 TTTTTGAAACACGAGAATTTTTTTGAAAACA
18745427 TTTTTCAAAC
Statistics
Matches: 121, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
99 13 0.11
100 35 0.29
101 53 0.44
102 6 0.05
103 14 0.12
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (103 bp):
TTTTTGAAACACGAGAATTTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGAGAATTT
TTGAAAACACGATAACATCAAAAAAATATTCACGAGAG
Found at i:18745437 original size:30 final size:28
Alignment explanation
Indices: 18745397--18745454 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
18745387 TTCACGAGAG
*
18745397 TTTTTGAAACACGAGAATTTTTTGAAAACA
1 TTTTTCAAACACGAGAA--TTTTGAAAACA
*
18745427 TTTTTCAAACACGGGAATTTTGAAAACA
1 TTTTTCAAACACGAGAATTTTGAAAACA
18745455 CGAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 11 0.42
30 15 0.58
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (28 bp):
TTTTTCAAACACGAGAATTTTGAAAACA
Found at i:18745479 original size:33 final size:33
Alignment explanation
Indices: 18745436--18745498 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
18745426 ATTTTTCAAA
*
18745436 CACGGGAA-TTTTGAAAACACGAAAATTTTTATT
1 CACGAGAATTTTTG-AAACACGAAAATTTTTATT
* *
18745469 CACGAGAATTTTTGAAACACGGAATTTTTT
1 CACGAGAATTTTTGAAACACGAAAATTTTT
18745499 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 21 0.81
34 5 0.19
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (33 bp):
CACGAGAATTTTTGAAACACGAAAATTTTTATT
Found at i:18745493 original size:16 final size:17
Alignment explanation
Indices: 18745389--18745497 Score: 90
Period size: 16 Copynumber: 6.8 Consensus size: 17
18745379 AAAAAATATT
*
18745389 CACGAGAGTTTTTGAAA
1 CACGAGAATTTTTGAAA
18745406 CACGAGAATTTTTTGAAA
1 CACGAGAA-TTTTTGAAA
*
18745424 -AC----ATTTTTCAAA
1 CACGAGAATTTTTGAAA
*
18745436 CACGGGAA-TTTTGAAAA
1 CACGAGAATTTTTG-AAA
* **
18745453 CACGAAAATTTTT-ATT
1 CACGAGAATTTTTGAAA
18745469 CACGAGAATTTTTGAAA
1 CACGAGAATTTTTGAAA
18745486 CACG-GAATTTTT
1 CACGAGAATTTTT
18745498 TTTTTTTAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 19
0.72 0.10 0.19
Matches are distributed among these distances:
12 8 0.11
13 3 0.04
16 25 0.34
17 24 0.33
18 13 0.18
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (17 bp):
CACGAGAATTTTTGAAA
Found at i:18745602 original size:16 final size:17
Alignment explanation
Indices: 18745559--18745606 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
18745549 TATTATTATT
18745559 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAGAA
*
18745576 ATTTTGAAAACATGA-AA
1 ATTTTG-AAACACGAGAA
18745593 ATTTTGAAACACGA
1 ATTTTGAAACACGA
18745607 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 7 0.25
17 14 0.50
18 7 0.25
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (17 bp):
ATTTTGAAACACGAGAA
Found at i:18746361 original size:26 final size:27
Alignment explanation
Indices: 18746332--18746398 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
18746322 TTTTTTTGTA
18746332 TTTTTTTTTCTTTTTCTTTTTTATC-T
1 TTTTTTTTTCTTTTTCTTTTTTATCTT
* *
18746358 TTTTTTTTTCTTTCTCTTTTTTCTCTT
1 TTTTTTTTTCTTTTTCTTTTTTATCTT
18746385 TTTTTTTTTCTTTT
1 TTTTTTTTTCTTTT
18746399 CTCTCTCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.85
Consensus pattern (27 bp):
TTTTTTTTTCTTTTTCTTTTTTATCTT
Found at i:18747249 original size:77 final size:76
Alignment explanation
Indices: 18746952--18747809 Score: 476
Period size: 74 Copynumber: 11.1 Consensus size: 76
18746942 TATTATCGTT
* * * * * *
18746952 TTTTTTTGAAAAATAGAAATTG-AAAGTACCTC-AACATGA-TCCGAGTCTCAACTCACCTCTCG
1 TTTTTTTGAAAAACAGAAATTGAAAAATACCTCGGATATGACT-CAAGGCTCAACTCACCTCTCG
*
18747014 CATTATGAGTTG
65 CAATATGAGTTG
* * * * * * * *
18747026 -ATTTTGGAGAAACGGAAATTTTAAAGAAATACCTC-GATATGTGACCCGAGGTTCAACTCACCT
1 TTTTTTTGAAAAACAGAAA--TTGAA-AAATACCTCGGATA--TGACTCAAGGCTCAACTCACCT
*
18747089 CTGGCAATATGAGTTG
61 CTCGCAATATGAGTTG
* * * * * *
18747105 ATTTTTTTGAAAAGCAGAAATTTAAAAGAAATACATCGGTATATGACCCGAGACTCAACTCACCT
1 -TTTTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCGG-ATATGACTCAAGGCTCAACTCACCT
*
18747170 CTCGCAATATGA-TCCG
61 CTCGCAATATGAGT-TG
* *
18747186 TTTTTTTGAAAAATAGAAATTGAAAAATACCTCAGGATATGACTTAAGGCTCAACTCACCTCTCG
1 TTTTTTTGAAAAACAGAAATTGAAAAATACCTC-GGATATGACTCAAGGCTCAACTCACCTCTCG
18747251 CAATATGAGTTG
65 CAATATGAGTTG
* * * * **
18747263 ATTTTGTGAAAACCAAAAATTGAAAAATACCTC-GACGTGACTCAAGGCTCAACTCACCTCTCGC
1 TTTTTTTGAAAAACAGAAATTGAAAAATACCTCGGATATGACTCAAGGCTCAACTCACCTCTCGC
18747327 AATATGAGTTAATTTTTG
66 AATATGAG-------TTG
* *
18747345 ATTTTTTTTTG-AAAACACGAAAATTGAAAAATACCTCAGG--ATGACCCGAGGCTCAACTCACC
1 ---TTTTTTTGAAAAACA-G-AAATTGAAAAATACCTC-GGATATGACTCAAGGCTCAACTCACC
18747407 TCTCGCAATATGAGTTG
60 TCTCGCAATATGAGTTG
* * * * * * *
18747424 -ATTTTTGAAAAAAACGAAAATTTAAAAGAAATACCTTGG-CATGACCCGAGGCTCAACTCACCT
1 TTTTTTTGAAAAACA-G-AAA-TT-GAA-AAATACCTCGGATATGACTCAAGGCTCAACTCACCT
* *
18747487 CT-GTATTATGAGTTG
61 CTCGCAATATGAGTTG
* ** * * *
18747502 -ATTTTT-AAAATGA-AAATTTGAAAGAAATACCTCGG-CATGACCCGAGGCTCAACTCACCTCT
1 TTTTTTTGAAAAACAGAAA-TTG-AA-AAATACCTCGGATATGACTCAAGGCTCAACTCACCTCT
* *
18747563 -GTATTATGAGTTG
63 CGCAATATGAGTTG
* * * *
18747576 -ATTTTTGAAAAAC-GAAAATTTAAAAGAAATACCTCGG-CATGACTCGAGGCTCAACTCACCTC
1 TTTTTTTGAAAAACAG-AAA-TT-GAA-AAATACCTCGGATATGACTCAAGGCTCAACTCACCTC
* * *
18747638 T-GTATTATGAGTTTA
62 TCGCAATATGAG-TTG
* * * *
18747653 TTTTTTTGAAAAA-AGGAAATTTAAAAGAAATACCTCGG-CATGACCCGAGGCTCAACTCACCTC
1 TTTTTTTGAAAAACA-GAAA-TT-GAA-AAATACCTCGGATATGACTCAAGGCTCAACTCACCTC
* *
18747716 T-GTATTATGAGTTG
62 TCGCAATATGAGTTG
* * * * * *
18747730 -ATTTTTGAAAAACGGAAATTTAAAAAATACCTC-GACATGACCCGAGGCTCAACTCACCTCT-G
1 TTTTTTTGAAAAACAGAAA-TTGAAAAATACCTCGGATATGACTCAAGGCTCAACTCACCTCTCG
* *
18747792 TATTATGAGTTG
65 CAATATGAGTTG
*
18747804 ATTTTT
1 TTTTTT
18747810 AAAAAAAATA
Statistics
Matches: 669, Mismatches: 69, Indels: 91
0.81 0.08 0.11
Matches are distributed among these distances:
73 14 0.02
74 112 0.17
75 55 0.08
76 85 0.13
77 91 0.14
78 94 0.14
79 71 0.11
80 21 0.03
81 57 0.09
82 4 0.01
83 3 0.00
84 5 0.01
85 6 0.01
86 50 0.07
88 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (76 bp):
TTTTTTTGAAAAACAGAAATTGAAAAATACCTCGGATATGACTCAAGGCTCAACTCACCTCTCGC
AATATGAGTTG
Found at i:18747373 original size:86 final size:85
Alignment explanation
Indices: 18747264--18747431 Score: 257
Period size: 86 Copynumber: 2.0 Consensus size: 85
18747254 TATGAGTTGA
*
18747264 TTTTGTGAAAACCAAAAATTGAAAAATACCTCGACG-TGACTCAAGGCTCAACTCACCTCTCGCA
1 TTTTGTGAAAACCAAAAATTGAAAAATACCTC-ACGATGACCCAAGGCTCAACTCACCTCTCGCA
18747328 ATATGAGTTAATTTTTGATTT
65 ATATGAGTTAATTTTTGATTT
* * * *
18747349 TTTTTTGAAAACACGAAAATTGAAAAATACCTCAGGATGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTTGTGAAAAC-CAAAAATTGAAAAATACCTCACGATGACCCAAGGCTCAACTCACCTCTCGCA
*
18747414 ATATGAGTTGATTTTTGA
65 ATATGAGTTAATTTTTGA
18747432 AAAAAACGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 13 0.17
86 62 0.83
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (85 bp):
TTTTGTGAAAACCAAAAATTGAAAAATACCTCACGATGACCCAAGGCTCAACTCACCTCTCGCAA
TATGAGTTAATTTTTGATTT
Found at i:18747637 original size:76 final size:76
Alignment explanation
Indices: 18747350--18747915 Score: 725
Period size: 74 Copynumber: 7.3 Consensus size: 76
18747340 TTTTGATTTT
*
18747350 TTTTTGAAAACACGAAAA-TT-GAA-AAATACCTCAGG-ATGACCCGAGGCTCAACTCACCTCTC
1 TTTTTGAAAA-ACGAAAATTTAAAAGAAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCT-
* *
18747411 GCAATATGAGTTGA
63 GTATTATGAGTTGA
*
18747425 TTTTTGAAAAAAACGAAAATTTAAAAGAAATACCTTGGCATGACCCGAGGCTCAACTCACCTCTG
1 TTTTTG--AAAAACGAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTG
18747490 TATTATGAGTTGA
64 TATTATGAGTTGA
* *
18747503 TTTTT--AAAATGAAAATTTGAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
1 TTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
18747566 TTATGAGTTGA
66 TTATGAGTTGA
*
18747577 TTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGCATGACTCGAGGCTCAACTCACCTCTGTA
1 TTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
*
18747642 TTATGAGTTTA
66 TTATGAGTTGA
* *
18747653 TTTTTTTGAAAAAAGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTG
1 --TTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTG
18747718 TATTATGAGTTGA
64 TATTATGAGTTGA
* *
18747731 TTTTTGAAAAACGGAAATTT-AAA-AAATACCTCGACATGACCCGAGGCTCAACTCACCTCTGTA
1 TTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
18747794 TTATGAGTTGA
66 TTATGAGTTGA
* ** ** * * *
18747805 TTTTTAAAAAAAATAAAAAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCA
1 TTTTT----GAAA-AACGAAA-ATTTAAA--AGAAATACCTCGGCATGACCCGAGGCTCAACTCA
18747870 CCTCTGTATTATGAGTTGA
58 CCTCTGTATTATGAGTTGA
*
18747889 TTTTTTGAAAAAAGCAGAAATTTAAAA
1 -TTTTTGAAAAACG-A-AAATTTAAAA
18747916 TATAATTCTT
Statistics
Matches: 438, Mismatches: 30, Indels: 42
0.86 0.06 0.08
Matches are distributed among these distances:
74 126 0.29
75 9 0.02
76 91 0.21
77 6 0.01
78 96 0.22
79 38 0.09
80 5 0.01
81 11 0.03
82 2 0.00
83 1 0.00
84 48 0.11
85 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (76 bp):
TTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
TTATGAGTTGA
Found at i:18747771 original size:228 final size:225
Alignment explanation
Indices: 18747350--18747915 Score: 755
Period size: 228 Copynumber: 2.4 Consensus size: 225
18747340 TTTTGATTTT
* *
18747350 TTTTTGAAAACACGAAAATT-GAAAAATACCTCAGG-ATGACCCGAGGCTCAACTCACCTCTCGC
1 TTTTTGAAAA-ACGAAAATTAAAAAAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCT-GT
* * *
18747413 AATATGAGTTGA-TTTTTGAAAAAAACGAAAATTTAAAAGAAATACCTTGGCATGACCCGAGGCT
63 ATTATGAGTTGATTTTTTG-AAAAAA-GGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCT
* *
18747477 CAACTCACCTCTGTATTATGAGTTGATTTTTAAAATGAAAATTTGAAAGAAATACCTCGGCATGA
126 CAACTCACCTCTGTATTATGAGTTGATTTTTAAAACGAAAATTTGAAAGAAATACCTCGACATGA
18747542 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
191 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
*
18747577 TTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGCATGACTCGAGGCTCAACTCACCTCTGTA
1 TTTTTGAAAAACGAAAA-TTAAAA-AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
*
18747642 TTATGAGTTTATTTTTTTGAAAAAAGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCA
64 TTATGAGTTGA-TTTTTTGAAAAAAGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCA
*
18747707 ACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGGAAATTT-AAA-AAATACCTCGACATGA
128 ACTCACCTCTGTATTATGAGTTGATTTTT--AAAACGAAAATTTGAAAGAAATACCTCGACATGA
18747770 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
191 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
* ** * * *
18747805 TTTTTAAAAAAAATAAAAAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCA
1 TTTTT-----GAA-AAACGAA-A-ATTAA--AAAAATACCTCGGCATGACCCGAGGCTCAACTCA
18747870 CCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTTAAAA
56 CCTCTGTATTATGAGTTGATTTTTTGAAAAAAG--GAAATTTAAAA
18747916 TATAATTCTT
Statistics
Matches: 301, Mismatches: 18, Indels: 30
0.86 0.05 0.09
Matches are distributed among these distances:
226 7 0.02
227 12 0.04
228 137 0.46
229 42 0.14
230 17 0.06
233 2 0.01
234 5 0.02
235 18 0.06
236 48 0.16
237 13 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (225 bp):
TTTTTGAAAAACGAAAATTAAAAAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATT
ATGAGTTGATTTTTTGAAAAAAGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACT
CACCTCTGTATTATGAGTTGATTTTTAAAACGAAAATTTGAAAGAAATACCTCGACATGACCCGA
GGCTCAACTCACCTCTGTATTATGAGTTGA
Found at i:18758550 original size:27 final size:27
Alignment explanation
Indices: 18758496--18758550 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
18758486 ACAATAATAT
*
18758496 AATTATAAAATAATTAAATTGTACTTA
1 AATTATAAAATAATTAAATTGTAATTA
* *
18758523 AATTATTAAAAT-ATTGAATTTTAATTA
1 AATTA-TAAAATAATTAAATTGTAATTA
18758550 A
1 A
18758551 TTTTATAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
AATTATAAAATAATTAAATTGTAATTA
Found at i:18761700 original size:29 final size:29
Alignment explanation
Indices: 18761637--18761704 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
18761627 TAATCAACCG
18761637 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
18761666 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
18761695 CGCACACTTA
1 CGCACACTTA
18761705 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:18761816 original size:174 final size:174
Alignment explanation
Indices: 18761526--18761853 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
18761516 AACTCAAGGT
* *
18761526 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
18761591 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
18761656 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
18761700 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
18761765 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
18761830 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
18761854 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:18761845 original size:29 final size:30
Alignment explanation
Indices: 18761806--18761884 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
18761796 CTTAATAATC
18761806 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
18761836 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
18761865 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
18761885 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:18769137 original size:29 final size:29
Alignment explanation
Indices: 18769074--18769141 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
18769064 TAATCAACCG
18769074 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
18769103 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
18769132 CGCACACTTA
1 CGCACACTTA
18769142 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:18769253 original size:174 final size:174
Alignment explanation
Indices: 18768963--18769290 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
18768953 AACTCAAGGT
* *
18768963 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
18769028 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
18769093 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
18769137 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
18769202 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
18769267 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
18769291 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:18769282 original size:29 final size:30
Alignment explanation
Indices: 18769243--18769321 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
18769233 CTTAATAATC
18769243 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
18769273 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
18769302 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
18769322 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:18776649 original size:173 final size:173
Alignment explanation
Indices: 18776360--18776686 Score: 618
Period size: 173 Copynumber: 1.9 Consensus size: 173
18776350 AACTCAAGGT
* *
18776360 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
18776425 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
18776490 ACTTTAAACTCACACACTTAGTGCCATGCATTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTCAAGTTCGCAC
18776533 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
18776598 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
18776663 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
18776687 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTCAAGTTCGCAC
Found at i:18776678 original size:29 final size:30
Alignment explanation
Indices: 18776639--18776717 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
18776629 CTTAATAATC
18776639 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
18776669 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
18776698 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
18776718 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:18783879 original size:29 final size:29
Alignment explanation
Indices: 18783816--18783883 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
18783806 TAATCAACCG
18783816 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
18783845 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
18783874 CGCACACTTA
1 CGCACACTTA
18783884 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:18783995 original size:174 final size:172
Alignment explanation
Indices: 18783705--18784030 Score: 598
Period size: 174 Copynumber: 1.9 Consensus size: 172
18783695 AACTCAAGGT
* *
18783705 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
18783770 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAT-C
18783835 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
130 ACTTT-AACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
18783879 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
18783944 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATTA
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATCA
*
18784009 CTTTAACTCGCACACTTAGTGC
131 CTTTAACTCACACACTTAGTGC
18784031 TGTACAATTT
Statistics
Matches: 148, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
172 17 0.11
173 5 0.03
174 126 0.85
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (172 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATCA
CTTTAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:18784024 original size:27 final size:30
Alignment explanation
Indices: 18783985--18784061 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
18783975 CTTAATAATC
18783985 AACCGCGCACACTTAGTGCCAT-TAC-TTT-
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
18784013 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
18784042 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
18784062 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
25 1 0.02
26 4 0.10
27 13 0.32
28 6 0.15
29 16 0.39
30 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:18791235 original size:29 final size:29
Alignment explanation
Indices: 18791172--18791239 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
18791162 TAATCAACCG
18791172 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
18791201 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
18791230 CGCACACTTA
1 CGCACACTTA
18791240 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:18791351 original size:174 final size:174
Alignment explanation
Indices: 18791061--18791388 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
18791051 AACTCAAGGT
* *
18791061 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
18791126 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
18791191 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
18791235 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
18791300 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
18791365 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
18791389 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:18791380 original size:29 final size:30
Alignment explanation
Indices: 18791341--18791419 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
18791331 CTTAATAATC
18791341 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
18791371 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
18791400 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
18791420 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:18797325 original size:38 final size:38
Alignment explanation
Indices: 18797266--18797533 Score: 256
Period size: 38 Copynumber: 7.0 Consensus size: 38
18797256 ATACTTTGTA
* *
18797266 TTTGTCGTTTC-AGTTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTTTCGA-TTGAATCAGCTCTTATGAGCTTCTG
* *
18797304 TTTGGCGTTTCGATTCAATCAGCTCTTATGAGCTTCTA
1 TTTGGCGTTTCGATTGAATCAGCTCTTATGAGCTTCTG
* * *
18797342 TTTGGCGTTTCGGTTTAATCAGCTATTATGAGCTTCTG
1 TTTGGCGTTTCGATTGAATCAGCTCTTATGAGCTTCTG
* * *
18797380 TTTGGTGTTTC-AGTTGGATCAGCTCTTATGCGCTTCTG
1 TTTGGCGTTTCGA-TTGAATCAGCTCTTATGAGCTTCTG
* * * * *
18797418 TTTGGCGATTCG-GTAAGATCAGATCTTATGAGCTTCTA
1 TTTGGCGTTTCGATTGA-ATCAGCTCTTATGAGCTTCTG
* * * *
18797456 TTTGGAGATTC-AGTTGGATCAGCTCTTATGAGCTTTTG
1 TTTGGCGTTTCGA-TTGAATCAGCTCTTATGAGCTTCTG
* * * *
18797494 TTTGGTGTTTCCGATTGGATTAGCTCTTATGAGTTTCTG
1 TTTGGCGTTT-CGATTGAATCAGCTCTTATGAGCTTCTG
18797533 T
1 T
18797534 CTGATGTGTT
Statistics
Matches: 188, Mismatches: 34, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 160 0.85
39 26 0.14
40 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (38 bp):
TTTGGCGTTTCGATTGAATCAGCTCTTATGAGCTTCTG
Found at i:18797390 original size:76 final size:76
Alignment explanation
Indices: 18797264--18797533 Score: 283
Period size: 76 Copynumber: 3.5 Consensus size: 76
18797254 TTATACTTTG
* * ** * **
18797264 TATTTGTCGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTTTC-GATTCAATCAGCT
1 TATTTGGCGTTTCGGTTAAATCAGCTCTTATGAGCTTCTGTTTGGAGTTTCAG-TTGGATCAGCT
18797328 CTTATGAGCTTC
65 CTTATGAGCTTC
* * *
18797340 TATTTGGCGTTTCGGTTTAATCAGCTATTATGAGCTTCTGTTTGGTGTTTCAGTTGGATCAGCTC
1 TATTTGGCGTTTCGGTTAAATCAGCTCTTATGAGCTTCTGTTTGGAGTTTCAGTTGGATCAGCTC
*
18797405 TTATGCGCTTC
66 TTATGAGCTTC
* * * * *
18797416 TGTTTGGCGATTCGG-TAAGATCAGATCTTATGAGCTTCTATTTGGAGATTCAGTTGGATCAGCT
1 TATTTGGCGTTTCGGTTAA-ATCAGCTCTTATGAGCTTCTGTTTGGAGTTTCAGTTGGATCAGCT
*
18797480 CTTATGAGCTTT
65 CTTATGAGCTTC
* * * ** * *
18797492 TGTTTGGTGTTTCCGATTGGATTAGCTCTTATGAGTTTCTGT
1 TATTTGGCGTTT-CGGTTAAATCAGCTCTTATGAGCTTCTGT
18797534 CTGATGTGTT
Statistics
Matches: 162, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
75 2 0.01
76 138 0.85
77 21 0.13
78 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (76 bp):
TATTTGGCGTTTCGGTTAAATCAGCTCTTATGAGCTTCTGTTTGGAGTTTCAGTTGGATCAGCTC
TTATGAGCTTC
Found at i:18797477 original size:114 final size:114
Alignment explanation
Indices: 18797272--18797533 Score: 364
Period size: 114 Copynumber: 2.3 Consensus size: 114
18797262 TGTATTTGTC
* * * *
18797272 GTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTTTCGATTCAATCAGCTCTTATGAGC
1 GTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGCGATTCGAGTAAATCAGATCTTATGAGC
* * * *
18797337 TTCTATTTGGCGTTTCGGTTTAATCAGCTATTATGAGCTTCTGTTTGGT
66 TTCTATTTGGAGATTCAGTTGAATCAGCTATTATGAGCTTCTGTTTGGT
*
18797386 GTTTCAGTTGGATCAGCTCTTATGCGCTTCTGTTTGGCGATTCG-GTAAGATCAGATCTTATGAG
1 GTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGCGATTCGAGTAA-ATCAGATCTTATGAG
* * *
18797450 CTTCTATTTGGAGATTCAGTTGGATCAGCTCTTATGAGCTTTTGTTTGGT
65 CTTCTATTTGGAGATTCAGTTGAATCAGCTATTATGAGCTTCTGTTTGGT
* * *
18797500 GTTTCCGATTGGATTAGCTCTTATGAGTTTCTGT
1 GTTTCAG-TTGGATCAGCTCTTATGAGCTTCTGT
18797534 CTGATGTGTT
Statistics
Matches: 130, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
113 2 0.02
114 105 0.81
115 23 0.18
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (114 bp):
GTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGCGATTCGAGTAAATCAGATCTTATGAGC
TTCTATTTGGAGATTCAGTTGAATCAGCTATTATGAGCTTCTGTTTGGT
Found at i:18798043 original size:15 final size:17
Alignment explanation
Indices: 18798015--18798046 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
18798005 TTCATTATTG
18798015 AAATGTGATATGATGAA
1 AAATGTGATATGATGAA
18798032 AAATG-GAT-TGATGAA
1 AAATGTGATATGATGAA
18798047 TTGAATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (17 bp):
AAATGTGATATGATGAA
Found at i:18802273 original size:17 final size:17
Alignment explanation
Indices: 18802201--18802286 Score: 59
Period size: 17 Copynumber: 4.8 Consensus size: 17
18802191 ATATTATTTA
18802201 TTTTATATATTTTTAAA-
1 TTTTATATA-TTTTAAAT
*
18802218 TTTTATATATTTT-ATT
1 TTTTATATATTTTAAAT
* * *
18802234 TCTTGTCTACAATATTTATAT
1 T-TT-TATA-TAT-TTTAAAT
18802255 TTTTATATATTTTAAAT
1 TTTTATATATTTTAAAT
18802272 TTATTATTATATTTT
1 TT-TTA-TATATTTT
18802287 TTGGATTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
15 1 0.02
16 5 0.09
17 19 0.36
18 8 0.15
19 13 0.25
20 5 0.09
21 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (17 bp):
TTTTATATATTTTAAAT
Found at i:18802281 original size:21 final size:21
Alignment explanation
Indices: 18802252--18802308 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
18802242 ACAATATTTA
*
18802252 TATTTTTATATATTTTAAATT
1 TATTATTATATATTTTAAATT
* **
18802273 TATTATTATATTTTTTGGATT
1 TATTATTATATATTTTAAATT
18802294 TATGTATTTATATAT
1 TAT-TA-TTATATAT
18802309 ATTTTTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 20 0.69
22 2 0.07
23 7 0.24
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TATTATTATATATTTTAAATT
Found at i:18809016 original size:27 final size:27
Alignment explanation
Indices: 18808986--18809041 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18808976 ACCTTTTAAT
18808986 TTACAAAAATTGAGAAGATAGTCATTA
1 TTACAAAAATTGAGAAGATAGTCATTA
18809013 TTACAAAAATTGAGAAGATAGTCATTA
1 TTACAAAAATTGAGAAGATAGTCATTA
18809040 TT
1 TT
18809042 TGGTTATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.32
Consensus pattern (27 bp):
TTACAAAAATTGAGAAGATAGTCATTA
Found at i:18818178 original size:79 final size:81
Alignment explanation
Indices: 18818043--18818226 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
18818033 TGAATGATGT
* *
18818043 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
18818107 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
18818123 CTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
18818185 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
18818202 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18818227 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:18818233 original size:40 final size:40
Alignment explanation
Indices: 18818042--18818226 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
18818032 TTGAATGATG
* * * *
18818042 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18818082 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18818122 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18818161 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18818202 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18818227 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18818248 original size:79 final size:79
Alignment explanation
Indices: 18818095--18818259 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
18818085 GGACTAAGAT
* * * **
18818095 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18818160 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18818174 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
** *
18818237 TTTATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18818253 CCGAAGG
1 CCGAAGG
18818260 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18826051 original size:40 final size:39
Alignment explanation
Indices: 18825967--18826151 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
18825957 TTGAATGATG
* * * * *
18825967 TCCGGGCTAAGTCCTGGAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAA
* * *
18826007 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
18826047 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18826086 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
**
18826127 -CCGGGCTATCTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
18826152 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 35 0.29
40 75 0.61
41 12 0.10
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18826173 original size:79 final size:79
Alignment explanation
Indices: 18826020--18826184 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
18826010 GGACTAAGAT
* * **
18826020 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18826085 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* **
18826099 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATCTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTA-AGCCCGAAGGCATTTGAACGAGTTA-C
* *
18826162 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18826178 CCGAAGG
1 CCGAAGG
18826185 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18836721 original size:11 final size:11
Alignment explanation
Indices: 18836705--18836747 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
18836695 TCGGTATTGT
18836705 AAAAAAAAT-A
1 AAAAAAAATGA
18836715 AAAAAAAATTGA
1 AAAAAAAA-TGA
*
18836727 AAAAAAATTCGA
1 AAAAAAAAT-GA
18836739 AAAAAAAAT
1 AAAAAAAAT
18836748 TCAAAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 18 0.64
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:18836730 original size:13 final size:12
Alignment explanation
Indices: 18836700--18836756 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 12
18836690 CATTTTCGGT
*
18836700 ATTGTAAAAAAA
1 ATTGAAAAAAAA
18836712 A-T-AAAAAAAA
1 ATTGAAAAAAAA
18836722 ATTG-AAAAAAA
1 ATTGAAAAAAAA
18836733 ATTCGAAAAAAAA
1 ATT-GAAAAAAAA
*
18836746 ATTCAAAAAAA
1 ATTGAAAAAAA
18836757 CGAGGGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 8 0.21
11 12 0.31
12 9 0.23
13 10 0.26
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.18
Consensus pattern (12 bp):
ATTGAAAAAAAA
Found at i:18844596 original size:23 final size:23
Alignment explanation
Indices: 18844566--18844614 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18844556 TGTGATGCTT
18844566 TATTCTTGTAAAATTATTATCAA
1 TATTCTTGTAAAATTATTATCAA
18844589 TATTCTTGTAAAATTATTATCAA
1 TATTCTTGTAAAATTATTATCAA
18844612 TAT
1 TAT
18844615 GTTTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (23 bp):
TATTCTTGTAAAATTATTATCAA
Found at i:18848546 original size:19 final size:18
Alignment explanation
Indices: 18848522--18848567 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
18848512 CGCTCCTTTT
* *
18848522 TGCATTCATTTCATGCATC
1 TGCATTCATATCAT-CATA
18848541 TGCATTACATATCATCATA
1 TGCATT-CATATCATCATA
18848560 TGCATTCA
1 TGCATTCA
18848568 AGATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (18 bp):
TGCATTCATATCATCATA
Found at i:18856608 original size:39 final size:40
Alignment explanation
Indices: 18856513--18856735 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
18856503 TTGAATGATG
* *
18856513 TCCGGGCTAAGTCCCGAAGGC-TCT-TGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
18856551 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
18856592 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
18856631 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
18856670 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
18856709 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18856736 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 61 0.37
41 8 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:18856654 original size:78 final size:80
Alignment explanation
Indices: 18856513--18856735 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
18856503 TTGAATGATG
* * * * * *
18856513 TCCGGGCTAAGTCCCGAAGGC-TCT-TGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
18856575 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
18856592 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
18856653 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
18856670 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
18856735 G
66 G
18856736 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
78 46 0.37
79 59 0.47
80 19 0.15
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:18856757 original size:79 final size:79
Alignment explanation
Indices: 18856565--18856768 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
18856555 GGACTAAGAT
** * *
18856565 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
18856628 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
18856643 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
18856707 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
18856723 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
18856769 TACGTGATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 47 0.43
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:18873037 original size:16 final size:16
Alignment explanation
Indices: 18873016--18873046 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18873006 CTTTTAGCTT
*
18873016 TGTTTCTTTTGTTTTA
1 TGTTTCTTTTCTTTTA
18873032 TGTTTCTTTTCTTTT
1 TGTTTCTTTTCTTTT
18873047 TATTCATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.10, G:0.10, T:0.77
Consensus pattern (16 bp):
TGTTTCTTTTCTTTTA
Found at i:18873367 original size:25 final size:23
Alignment explanation
Indices: 18873323--18873383 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
18873313 ATTTTGATTT
*
18873323 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
18873347 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
18873371 ATATAAATTATAT
1 AT-TTAATTATAT
18873384 TTAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:18873386 original size:35 final size:35
Alignment explanation
Indices: 18873331--18873410 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
18873321 TTATTTAATA
* *
18873331 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
* *
18873365 CATATAATATAAATTAT-ATTTAAATATTATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
18873400 ATATAAT-TAAA
1 ATATAATATAAA
18873411 ACAAATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:18877349 original size:17 final size:16
Alignment explanation
Indices: 18877312--18877343 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18877302 CGGTACTAAG
18877312 TATT-AAAAAATTAGT
1 TATTAAAAAAATTAGT
18877327 TATTAAAAAAATTAGT
1 TATTAAAAAAATTAGT
18877343 T
1 T
18877344 TCTTAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
TATTAAAAAAATTAGT
Found at i:18877513 original size:56 final size:57
Alignment explanation
Indices: 18877437--18877546 Score: 186
Period size: 56 Copynumber: 1.9 Consensus size: 57
18877427 AATTTTTTTT
* *
18877437 TGAGAGAGCCTTCAAGATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTAAA
1 TGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTAAA
*
18877494 TGAG-GAGCCATCAAAATGAGAGTGTTTTGTAGTGTATCATCAAATGAGTTTTT
1 TGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTT
18877547 TGTAATGGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
56 46 0.92
57 4 0.08
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (57 bp):
TGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTAAA
Found at i:18877547 original size:26 final size:26
Alignment explanation
Indices: 18877457--18877550 Score: 77
Period size: 26 Copynumber: 3.5 Consensus size: 26
18877447 TTCAAGATGA
*
18877457 GAGTATTTTGTAGTGTATCATCAAAT
1 GAGTTTTTTGTAGTGTATCATCAAAT
*
18877483 GAGTTTTTAAATG-AG-G-AGCCATCAAAAT
1 GAGTTTTT---TGTAGTGTA-TCATC-AAAT
*
18877511 GAGAGTGTTTTGTAGTGTATCATCAAAT
1 --GAGTTTTTTGTAGTGTATCATCAAAT
18877539 GAGTTTTTTGTA
1 GAGTTTTTTGTA
18877551 ATGGATTGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
26 19 0.36
27 7 0.13
28 12 0.23
29 7 0.13
30 8 0.15
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (26 bp):
GAGTTTTTTGTAGTGTATCATCAAAT
Found at i:18877912 original size:7 final size:7
Alignment explanation
Indices: 18877900--18877924 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18877890 TAATGTAGTC
18877900 GTTTAAG
1 GTTTAAG
18877907 GTTTAAG
1 GTTTAAG
18877914 GTTTAAG
1 GTTTAAG
18877921 GTTT
1 GTTT
18877925 CATTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:18886294 original size:22 final size:20
Alignment explanation
Indices: 18886269--18886318 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
18886259 TTATTCAAAC
*
18886269 AAATAATTATTTTAGAAAAATT
1 AAATAATTATATTA-AAAAA-T
18886291 AAAT--TTATATTAAAAAAT
1 AAATAATTATATTAAAAAAT
18886309 AGAATAATTA
1 A-AATAATTA
18886319 CAAAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.08
19 8 0.33
20 7 0.29
21 3 0.12
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
AAATAATTATATTAAAAAAT
Found at i:18888801 original size:5 final size:5
Alignment explanation
Indices: 18888791--18888840 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
18888781 TTTTTATTAT
* * *
18888791 TTTCA TTTCA TTTCA TTTCCT TTTCCA TTTCC TTCCA TTTCA TTTCA TTT
1 TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTTCA TTTCA TTT
18888841 AAATTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 29 0.76
6 9 0.24
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:18888819 original size:22 final size:21
Alignment explanation
Indices: 18888790--18888840 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
18888780 TTTTTTATTA
*
18888790 TTTTCATTTCATTTCATTTCC
1 TTTTCATTTCATTCCATTTCC
*
18888811 TTTTCCATTTCCTTCCATTT-C
1 TTTT-CATTTCATTCCATTTCC
*
18888832 ATTTCATTT
1 TTTTCATTT
18888841 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 8 0.31
22 13 0.50
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTCATTTCATTCCATTTCC
Found at i:18888846 original size:16 final size:16
Alignment explanation
Indices: 18888827--18888867 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
18888817 ATTTCCTTCC
*
18888827 ATTTCATTTCATTTAA
1 ATTTAATTTCATTTAA
**
18888843 ATTTTTTTTCATTTAA
1 ATTTAATTTCATTTAA
18888859 ATTTAATTT
1 ATTTAATTT
18888868 TTTTTCTCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTAATTTCATTTAA
Found at i:18888877 original size:23 final size:22
Alignment explanation
Indices: 18888828--18888885 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
18888818 TTTCCTTCCA
*
18888828 TTTCATTT-CATTTAAATTTTT
1 TTTCATTTAAATTTAAATTTTT
*
18888849 TTTCATTTAAATTTAATTTTTT
1 TTTCATTTAAATTTAAATTTTT
*
18888871 TTCTCATTTCAATTT
1 TT-TCATTTAAATTT
18888886 TTTTCATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 8 0.25
22 13 0.41
23 11 0.34
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTCATTTAAATTTAAATTTTT
Found at i:18888973 original size:17 final size:17
Alignment explanation
Indices: 18888943--18889051 Score: 62
Period size: 17 Copynumber: 6.8 Consensus size: 17
18888933 CAGTTTTTGT
18888943 TTTCATTTCAATTTATAA
1 TTTCATTTC-ATTTATAA
18888961 TTT-ATTTTCATTTA-AA
1 TTTCA-TTTCATTTATAA
18888977 CTTTCATTTCATTTCATAA
1 -TTTCATTTCATTT-ATAA
*
18888996 --TCATTACA---A-AA
1 TTTCATTTCATTTATAA
*
18889007 -TTCATTTCA-TT-TCA
1 TTTCATTTCATTTATAA
18889021 TTTCATATTCATTTA-ACA
1 TTTCAT-TTCATTTATA-A
18889039 TTTCATTTCATTT
1 TTTCATTTCATTT
18889052 GAATATTCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 29
0.69 0.04 0.27
Matches are distributed among these distances:
11 2 0.03
12 8 0.11
14 1 0.01
15 5 0.07
16 13 0.18
17 26 0.36
18 16 0.22
19 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTCATTTCATTTATAA
Found at i:18888988 original size:5 final size:5
Alignment explanation
Indices: 18888978--18889107 Score: 80
Period size: 5 Copynumber: 23.4 Consensus size: 5
18888968 TCATTTAAAC
* * *
18888978 TTTCA TTTCA TTTCA TAATCA TTACAAA ATTCA TTTCA TTTCA TTTCA
1 TTTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA TTTCA
* * * *
18889026 TATTCA TTTAACA TTTCA TTTCA TTTGAA TATTCA TTACAAA TTACA TTACA
1 T-TTCA TTT--CA TTTCA TTTCA TTT-CA T-TTCA TTTC--A TTTCA TTTCA
18889078 TTTCA TATTCA TTTAACA TTTCA TTTCA TT
1 TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
18889108 AGTTTTTTTT
Statistics
Matches: 102, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
5 64 0.63
6 18 0.18
7 20 0.20
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.50
Consensus pattern (5 bp):
TTTCA
Found at i:18889000 original size:28 final size:29
Alignment explanation
Indices: 18888967--18889107 Score: 148
Period size: 28 Copynumber: 4.8 Consensus size: 29
18888957 ATAATTTATT
18888967 TTCATTTAAAC-TTTCATTTCATTTCATA
1 TTCATTTAAACATTTCATTTCATTTCATA
* *
18888995 ATCATTACAAAATTCATTTCATTTCATTTCATA
1 TTCATT--TAAA--CATTTCATTTCATTTCATA
*
18889028 TTCATTT-AACATTTCATTTCATTTGAATA
1 TTCATTTAAACATTTCATTTCATTT-CATA
* *
18889057 TTCA-TTACAA-ATTACATTACATTTCATA
1 TTCATTTA-AACATTTCATTTCATTTCATA
18889085 TTCATTT-AACATTTCATTTCATT
1 TTCATTTAAACATTTCATTTCATT
18889108 AGTTTTTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
27 2 0.02
28 40 0.43
29 21 0.23
30 7 0.08
32 1 0.01
33 22 0.24
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.50
Consensus pattern (29 bp):
TTCATTTAAACATTTCATTTCATTTCATA
Done.