Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
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: 4603428
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 19
Found at i:604875 original size:22 final size:20
Alignment explanation
Indices: 604850--604890 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
604840 AGAAAAAGGA
604850 AAAAAAGAATAATGAATAAAAC
1 AAAAAAGAATAA-G-ATAAAAC
*
604872 AAAATAGAATAAGATAAAA
1 AAAAAAGAATAAGATAAAA
604891 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAAAAGAATAAGATAAAAC
Found at i:605014 original size:4 final size:4
Alignment explanation
Indices: 605007--605037 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
604997 TAAATAAAAT
605007 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
605038 ACAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:605613 original size:2 final size:2
Alignment explanation
Indices: 605606--605656 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
605596 GGCGCCGTTG
605606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
605647 AT AT AT AT AT
1 AT AT AT AT AT
605657 TGCTTTTCGA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:613334 original size:45 final size:46
Alignment explanation
Indices: 613278--613385 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
613268 TGCACCAATC
613278 CATGCATCGATGCACCATGA-ATTAAATTG-AACATCGAATGCATTT
1 CATGCATCGATGCACCATGAGATTAAA-TGAAACATCGAATGCATTT
**
613323 CATGCATCGATGCA-C-TGAGGATTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACCATGA-GATTAAATG-AAACATCGAATGCATTT
* *
613369 GATGCATCAATGCACCA
1 CATGCATCGATGCACCA
613386 GCCATGCATC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
43 3 0.06
44 3 0.06
45 18 0.34
46 28 0.53
47 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGCATCGATGCACCATGAGATTAAATGAAACATCGAATGCATTT
Found at i:613438 original size:64 final size:65
Alignment explanation
Indices: 613323--613447 Score: 173
Period size: 64 Copynumber: 1.9 Consensus size: 65
613313 GAATGCATTT
* * *
613323 CATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCAATGCACCAGC
1 CATGCATCGATGCACTCAGGATTTTATGAAAACATCAAATGCACTTGATGCATCAATGCACCAGC
* * *
613388 CATGCATCGATGCACTCTGGCTATTT-TG-AAACATCAAATGCACTTGATGCATCGATGCAC
1 CATGCATCGATGCACTCAGGAT-TTTATGAAAACATCAAATGCACTTGATGCATCAATGCAC
613448 TCTTAGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 29 0.55
65 21 0.40
66 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACTCAGGATTTTATGAAAACATCAAATGCACTTGATGCATCAATGCACCAGC
Found at i:613447 original size:17 final size:19
Alignment explanation
Indices: 613425--613467 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
613415 GAAACATCAA
*
613425 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
613442 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
613461 ATGCACT
1 ATGCACT
613468 AAGAGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:619287 original size:21 final size:21
Alignment explanation
Indices: 619222--619316 Score: 77
Period size: 23 Copynumber: 4.4 Consensus size: 21
619212 TTGTGCTTCA
*
619222 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
* *
619242 TGCATTGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
619264 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
619285 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
619308 TGCATCGAT
1 TGCATCGAT
619317 GCACAAGGCC
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 10 0.17
21 17 0.29
22 12 0.21
23 19 0.33
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:619310 original size:23 final size:23
Alignment explanation
Indices: 619241--619321 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 23
619231 ACACCTAACA
* *
619241 GTGCATTGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
619263 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
619284 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
619307 GTGCATCGATGCACA
1 GTGCATCGATGCACA
619322 AGGCCATGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 9 0.20
23 21 0.46
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:619312 original size:44 final size:42
Alignment explanation
Indices: 619222--619316 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 42
619212 TTGTGCTTCA
** *
619222 TGCATCGATACACCTAACAGTGCATTGATGCATCCTTGAATG
1 TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
*
619264 TGCATCGATACACCATGAA-GGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACC-T-AACAGTGCACCGATGCA-GCCTTGAATG
619308 TGCATCGAT
1 TGCATCGAT
619317 GCACAAGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 14 0.30
43 12 0.26
44 20 0.43
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
Found at i:619337 original size:43 final size:42
Alignment explanation
Indices: 619240--619339 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 42
619230 TACACCTAAC
* * * *
619240 AGTGCATTGATGCATCCTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
* * *
619282 AGGTGCACCGATGCACGCCTTGAATGTGCATCGATGCACAAGGCC
1 A-GTGCATCGATGCA-GCCTTGAATGTGCATCGATACACAAGG-A
619327 A-TGCATCGATGCA
1 AGTGCATCGATGCA
619340 TCCATCGGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
42 1 0.02
43 22 0.47
44 23 0.49
45 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (42 bp):
AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
Found at i:621279 original size:2 final size:2
Alignment explanation
Indices: 621272--621349 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
621262 TTTGAACTTA
621272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
621314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
621350 GGTTTGGTTG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:622088 original size:65 final size:64
Alignment explanation
Indices: 621967--622177 Score: 239
Period size: 65 Copynumber: 3.3 Consensus size: 64
621957 TTTATCAAAG
* * * * ** *
621967 TGATGCACCGATGCACCAATCCATGCATCGATGCACTATGAATTAAATTG-AACATCGAATTCAT
1 TGATGCATCGATGCA-CTAGCCATGCATCGATGCACTATGGATTTTA-TGAAACATCGAATGCAT
622031 T
64 T
* * *
622032 TCATGCATCAATGCACATA-CCATGCATCGATGCACTAAGGATTTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCAC-TAGCCATGCATCGATGCACTATGGATTTTATG-AAACATCGAATGCAT
622096 T
64 T
* * *
622097 TGATGCATCGATGCACTAGCCATGCATCGATGCACTTTGGCTATTT-TGAAACATCGAATGCACT
1 TGATGCATCGATGCACTAGCCATGCATCGATGCACTATGGAT-TTTATGAAACATCGAATGCATT
622161 TGATGCATCGATGCACT
1 TGATGCATCGATGCACT
622178 CTTAGTGCAC
Statistics
Matches: 126, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
63 2 0.02
64 58 0.46
65 63 0.50
66 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
TGATGCATCGATGCACTAGCCATGCATCGATGCACTATGGATTTTATGAAACATCGAATGCATT
Found at i:622176 original size:17 final size:19
Alignment explanation
Indices: 622148--622196 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
622138 TATTTTGAAA
622148 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
622166 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
622185 CACCGATGCACT
1 CATCGATGCACT
622197 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:622192 original size:129 final size:130
Alignment explanation
Indices: 621967--622200 Score: 287
Period size: 129 Copynumber: 1.8 Consensus size: 130
621957 TTTATCAAAG
* * * *
621967 TGATGCACCGATGCACCAATCCATGCATCGATGCACTATGAATTAAATTGAACATCGAATTCATT
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCACTATGAACTAAATTGAACATCGAATGCACT
*
622032 TCATGCATCAATGCACATACCATGCATCGATGCACTAAGGATTTTATGAAAACATCGAATGCATT
66 TCATGCATCAATGCACATACCATGCACCGATGCACTAAGGATTTTATGAAAACATCGAATGCATT
* * * * **
622097 TGATGCATCGATGCA-CTAGCCATGCATCGATGCACTTTG-GCTATTTTGAAACATCGAATGCAC
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCACTATGAACTAAATTG-AACATCGAATGCAC
* * *
622160 TTGATGCATCGATGCAC-T-CTTAGTGCACCGATGCACTAAGG
65 TTCATGCATCAATGCACATAC-CA-TGCACCGATGCACTAAGG
622201 GTCCAACGAT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
127 1 0.01
128 7 0.08
129 65 0.75
130 14 0.16
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (130 bp):
TGATGCACCGATGCACCAAGCCATGCATCGATGCACTATGAACTAAATTGAACATCGAATGCACT
TCATGCATCAATGCACATACCATGCACCGATGCACTAAGGATTTTATGAAAACATCGAATGCATT
Found at i:624445 original size:21 final size:21
Alignment explanation
Indices: 624421--624510 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 21
624411 AGAGGTTAAG
624421 ACCTTTT-AGTGAAAGGACTTA
1 ACCTTTTGA-TGAAAGGACTTA
* * *
624442 ACCTTTTGATTAAAAGACTTC
1 ACCTTTTGATGAAAGGACTTA
** *
624463 TGCTTTTGATGAAAGGGCTTA
1 ACCTTTTGATGAAAGGACTTA
*
624484 ACCTTTTCATGAAAGGA-TTA
1 ACCTTTTGATGAAAGGACTTA
*
624504 ATCTTTT
1 ACCTTTT
624511 TCATGAAGAG
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 9 0.17
21 44 0.81
22 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (21 bp):
ACCTTTTGATGAAAGGACTTA
Found at i:624509 original size:20 final size:21
Alignment explanation
Indices: 624465--624517 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
624455 AAGACTTCTG
* *
624465 CTTTTGATGAAAGGGCTTAAC
1 CTTTTCATGAAAGGGATTAAC
624486 CTTTTCATGAAA-GGATTAATC
1 CTTTTCATGAAAGGGATTAA-C
*
624507 TTTTTCATGAA
1 CTTTTCATGAA
624518 GAGAATTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (21 bp):
CTTTTCATGAAAGGGATTAAC
Found at i:627808 original size:21 final size:21
Alignment explanation
Indices: 627782--627858 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
627772 AGAGGTTAAG
627782 ACCTTTCGATGAAAGGACTTC
1 ACCTTTCGATGAAAGGACTTC
* * **
627803 ACCTTTTGATTAAAAAACTTC
1 ACCTTTCGATGAAAGGACTTC
* * * *
627824 TCCTTTTGATGAAAGGGCTTA
1 ACCTTTCGATGAAAGGACTTC
627845 ACCTTTTC-ATGAAA
1 ACC-TTTCGATGAAA
627859 TGATTTAATC
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 40 0.93
22 3 0.07
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ACCTTTCGATGAAAGGACTTC
Found at i:629412 original size:53 final size:52
Alignment explanation
Indices: 629333--629434 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 52
629323 TCTAATAATT
*
629333 TCAAGGACTACATGGAAGATATGAACTTCAGAAGCTCCCATGAAACTTCATG
1 TCAAGGACTACATGGAAGATATGAACTTCAGAAGCTCCCATAAAACTTCATG
629385 TCAAGGGACTACATGGAAGATATGAACTTCAGAAGCTCCCATAAAACTTC
1 TCAA-GGACTACATGGAAGATATGAACTTCAGAAGCTCCCATAAAACTTC
629435 GAAGACTTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 4 0.08
53 44 0.92
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (52 bp):
TCAAGGACTACATGGAAGATATGAACTTCAGAAGCTCCCATAAAACTTCATG
Found at i:631854 original size:16 final size:16
Alignment explanation
Indices: 631826--631870 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
631816 AACAATTACT
631826 AATTAGCAT-TTAGAAA
1 AATTAGC-TGTTAGAAA
* *
631842 GATTAGTTGTTAGAAA
1 AATTAGCTGTTAGAAA
631858 AATTAGCTGTTAG
1 AATTAGCTGTTAG
631871 TAGAGTCTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (16 bp):
AATTAGCTGTTAGAAA
Found at i:632042 original size:127 final size:126
Alignment explanation
Indices: 631856--632264 Score: 459
Period size: 138 Copynumber: 3.1 Consensus size: 126
631846 AGTTGTTAGA
* * *
631856 AAAATTAGCT-GTTAGTAGAG-TCTGAACCATAAT-ATGCGGATCATACCCAAGATCGGGTCACC
1 AAAATTAG-TAGTTAGCAGAGTTC-GAACCATAATAATGCGGATCATACCC-GGATCAGGTCACC
* * * *
631918 ACAAGCTCGAATCAAAT-AATAGAAAT-AATAAATAAATAAACAATGTTTAGAATGCAATAATAT
63 ACAAGGTCGAATCAAATAAATAAAAATAAATAAATAAATAAACAATGATTA-AATGCAATAAAAT
631981 AAAAGTTAGTAGTTAGCAGAGTTCGAACCATAATAATGCGGATCATACTCCGGATCAGGTCACCA
1 AAAA-TTAGTAGTTAGCAGAGTTCGAACCATAATAATGCGGATCATAC-CCGGATCAGGTCACCA
*
632046 CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAAATAAATAACAATGATTAAAGTGC
64 CAAGGTCGAATC-AA-A-T--AAATAA-AAATAAATAAATAAAT--A-AACAATGATTAAA-TGC
632111 AATAAAAT
119 AATAAAAT
* * *
632119 AAAAATTAGTAGTTAGCAAAGTCCGAACCATAATAATGCGGATCATACCCCGGATCTGGTCACCA
1 -AAAATTAGTAGTTAGCAGAGTTCGAACCATAATAATGCGGATCATA-CCCGGATCAGGTCACCA
* * *
632184 AAAGGTCGAATCGAATAATATAAACAATAAATAAATAAATAAACAATGGTTAAAATGCAATAAAA
64 CAAGGTCGAATCAAATAA-ATAAA-AATAAATAAATAAATAAACAATGATT-AAATGCAATAAAA
632249 T
126 T
632250 AAAATTCAGTAGTTA
1 AAAATT-AGTAGTTA
632265 ATATGTAATA
Statistics
Matches: 246, Mismatches: 15, Indels: 40
0.82 0.05 0.13
Matches are distributed among these distances:
125 5 0.02
126 23 0.09
127 38 0.15
128 4 0.02
129 1 0.00
130 7 0.03
131 28 0.11
132 4 0.02
133 6 0.02
134 22 0.09
135 12 0.05
136 1 0.00
137 4 0.02
138 86 0.35
139 5 0.02
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (126 bp):
AAAATTAGTAGTTAGCAGAGTTCGAACCATAATAATGCGGATCATACCCGGATCAGGTCACCACA
AGGTCGAATCAAATAAATAAAAATAAATAAATAAATAAACAATGATTAAATGCAATAAAAT
Found at i:632080 original size:4 final size:4
Alignment explanation
Indices: 632071--632095 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
632061 TATTAGAAAC
632071 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
632096 CAATGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:632264 original size:29 final size:29
Alignment explanation
Indices: 632232--632298 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
632222 ATAAACAATG
632232 GTTAAAATGCAATAAAATAAAA-TTCAGTA
1 GTTAAAATGCAATAAAATAAAAGTT-AGTA
* *
632261 GTTAATATGTAATAAAATAAAAGTTAGTA
1 GTTAAAATGCAATAAAATAAAAGTTAGTA
632290 GTTAGAAAT
1 GTTA-AAAT
632299 AAATAACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 28 0.85
30 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.31
Consensus pattern (29 bp):
GTTAAAATGCAATAAAATAAAAGTTAGTA
Found at i:632303 original size:29 final size:29
Alignment explanation
Indices: 632232--632309 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
632222 ATAAACAATG
*
632232 GTTAAAATGCAATAAAATAAAATTCAGTA
1 GTTAAAATGAAATAAAATAAAATTCAGTA
* *
632261 GTTAATATGTAATAAAATAAAAGTT-AGTA
1 GTTAAAATGAAATAAAATAAAA-TTCAGTA
*
632290 GTTAGAAAT-AAATAACATAA
1 GTTA-AAATGAAATAAAATAA
632310 CAGAATAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 37 0.88
30 5 0.12
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (29 bp):
GTTAAAATGAAATAAAATAAAATTCAGTA
Found at i:633331 original size:25 final size:25
Alignment explanation
Indices: 633297--633355 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
633287 GATAATTTGG
633297 TGTTGAAGACGACACTGCTCATCCA
1 TGTTGAAGACGACACTGCTCATCCA
633322 TGTTGAAGACGACACTGCTCATCCA
1 TGTTGAAGACGACACTGCTCATCCA
633347 TGTTGAAGA
1 TGTTGAAGA
633356 GTTCTGGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
TGTTGAAGACGACACTGCTCATCCA
Found at i:633862 original size:137 final size:137
Alignment explanation
Indices: 633503--634191 Score: 795
Period size: 137 Copynumber: 5.0 Consensus size: 137
633493 TAGGTAAATT
* * * ** * *
633503 TGGAGATAACACGATTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGTTGCTCTTATG
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTATGGCTATCTAAGGATGACGCGGCTCCTACG
* * ** ** * *
633568 TGATGAGGAGATCTGTTCGGTGGATGACATTGTTCCTACATGATGAGGATGTCTAGCCTTCTTTA
66 TGATGAGGAGATATGGTCGGTGGATGACACGGTTCCTATGTGATGAGGAAGTCTAGCCATCTTTA
633633 GGGATAA
131 GGGATAA
* * * * * * *
633640 TTTGGGAGACAACACAATTCCTATGTGATGAGAAAGTTTGGCTATCTAAGGATGGCGCGGCTCCT
1 --T-GGAGATAACACGATTCCTACGCGATGAGGAAGTATGGCTATCTAAGGATGACGCGGCTCCT
* *
633705 ACGTGATGAGGAGATATGGTCAGTGGATGACACGGTTCCTACGTGATGAGGAAGTCTAGCCATCT
63 ACGTGATGAGGAGATATGGTCGGTGGATGACACGGTTCCTATGTGATGAGGAAGTCTAGCCATCT
*
633770 TTAGGGAGAA
128 TTAGGGATAA
* *
633780 TGGAGATAACACGATTCCTACGCGATGAGGAAGTATGGTTATCTAAGGATGACGCGACTCCTACG
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTATGGCTATCTAAGGATGACGCGGCTCCTACG
* * * * * *
633845 TGATGAGGAAATTTGGTCGGTGGATGACATGGTTACTATGTGATGAGGACGTCTAGCCATATTTA
66 TGATGAGGAGATATGGTCGGTGGATGACACGGTTCCTATGTGATGAGGAAGTCTAGCCATCTTTA
* *
633910 AGCATAA
131 GGGATAA
* * * * * * * *
633917 TGGAGATAACATGGTTCCTACGCTATAAGGAAGTATGGCTATATAAGGATGACACGGTTCCTATG
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTATGGCTATCTAAGGATGACGCGGCTCCTACG
* * * * * *
633982 TGATGAGGATATATGGTCAGTGGATGACACGGTTCCTATGTGATGAAGATGTTTGGCCATCTTTA
66 TGATGAGGAGATATGGTCGGTGGATGACACGGTTCCTATGTGATGAGGAAGTCTAGCCATCTTTA
634047 GGGATAA
131 GGGATAA
* ** * * * **
634054 TGGAGATAACATGATTCCTATTCGATGAGGAAGTCTGACTATCTAAGGATGCCATGGCTCCTACG
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTATGGCTATCTAAGGATGACGCGGCTCCTACG
* * *
634119 TGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTATGTGATGAGGACA-TCTGGCTATCTTT
66 TGATGAGGAGATATGGTCGGTGGATGACACGGTTCCTATGTGATGAGGA-AGTCTAGCCATCTTT
634183 AGGGATAA
130 AGGGATAA
634191 T
1 T
634192 TTGTTTCAAA
Statistics
Matches: 467, Mismatches: 81, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
137 349 0.75
138 1 0.00
139 1 0.00
140 116 0.25
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (137 bp):
TGGAGATAACACGATTCCTACGCGATGAGGAAGTATGGCTATCTAAGGATGACGCGGCTCCTACG
TGATGAGGAGATATGGTCGGTGGATGACACGGTTCCTATGTGATGAGGAAGTCTAGCCATCTTTA
GGGATAA
Found at i:634301 original size:67 final size:66
Alignment explanation
Indices: 634193--634385 Score: 280
Period size: 67 Copynumber: 2.9 Consensus size: 66
634183 AGGGATAATT
*
634193 TGTTTCAAAAAAAATTGTCTGAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATGTTTT
1 TGTTTCAAAAAAAA-TGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATGTTTT
634258 TA
65 TA
* * *
634260 TGTTTCAAAATAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGTGAAAGAATCTCAATGTTTT
1 TGTTTCAAAA-AAAATGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATGTTTT
634325 TA
65 TA
* * *
634327 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTGTTTC-AGGAGAAACAATCTCAA
1 TGTTTCAA-AAAAAATGTCTCAAGCGAGACAAAATTTGTTTCAAGG-GAAACAATCTCAA
634386 AGGTTTATCA
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
66 2 0.02
67 106 0.94
68 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (66 bp):
TGTTTCAAAAAAAATGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATGTTTTT
A
Found at i:634818 original size:36 final size:36
Alignment explanation
Indices: 634722--634832 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 36
634712 TCTCACAGGA
* * * *
634722 AAAATGTCTCAAGTGAGACGAAATCTGTTTTGAGAG
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
* *
634758 AAATTCTCTCAAGCGAGACAAAATTTGTTTTTAGAG
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
*
634794 AAAATGTCTCAAGCGAGACAAAATTAGTTTTTA-AG
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
634829 AAAA
1 AAAA
634833 ATTGTCTCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 6 0.09
36 60 0.91
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
AAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
Found at i:634848 original size:37 final size:36
Alignment explanation
Indices: 634720--634848 Score: 140
Period size: 36 Copynumber: 3.6 Consensus size: 36
634710 TATCTCACAG
* * *
634720 GAAAAA-TGTCTCAAGTGAGACGAAATCT-GTTTTGA
1 GAAAAATTGTCTCAAGCGAGACAAAAT-TAGTTTTTA
* * *
634755 GAGAAATTCTCTCAAGCGAGACAAAATTTGTTTTTA
1 GAAAAATTGTCTCAAGCGAGACAAAATTAGTTTTTA
634791 GAGAAAA-TGTCTCAAGCGAGACAAAATTAGTTTTTAA
1 GA-AAAATTGTCTCAAGCGAGACAAAATTAGTTTTT-A
634828 GAAAAATTGTCTCCAA-CGAGA
1 GAAAAATTGTCT-CAAGCGAGA
634849 TGACACTTTG
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
35 6 0.08
36 55 0.69
37 16 0.20
38 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
GAAAAATTGTCTCAAGCGAGACAAAATTAGTTTTTA
Found at i:637370 original size:16 final size:16
Alignment explanation
Indices: 637349--637382 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
637339 GATCTCGGTT
637349 TTTGACACAAAAGGTA
1 TTTGACACAAAAGGTA
*
637365 TTTGACACAAACGGTA
1 TTTGACACAAAAGGTA
637381 TT
1 TT
637383 AGAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (16 bp):
TTTGACACAAAAGGTA
Found at i:638383 original size:21 final size:21
Alignment explanation
Indices: 638354--638432 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 21
638344 AGAACTCCAT
*
638354 GGGGTATCGATTCCCATGT-AG
1 GGGGAATCGATTCCCAT-TAAG
* *
638375 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGATTCCCATT--AAG
* *
638398 GGGGAATCGATTCCC-TCATG
1 GGGGAATCGATTCCCATTAAG
*
638418 GGGGTATCGATTCCC
1 GGGGAATCGATTCCC
638433 TCTGCACCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
20 17 0.35
21 14 0.29
22 1 0.02
23 16 0.33
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.25
Consensus pattern (21 bp):
GGGGAATCGATTCCCATTAAG
Found at i:638426 original size:20 final size:20
Alignment explanation
Indices: 638374--638434 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
638364 TTCCCATGTA
* *
638374 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TC-AT
638397 GGGGGAATCGATTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
638417 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
638435 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:642275 original size:22 final size:21
Alignment explanation
Indices: 642233--642272 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
642223 GAGTTTATGT
*
642233 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
642254 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
642273 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:646005 original size:23 final size:23
Alignment explanation
Indices: 645944--646010 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
645934 CTTTTATTTT
645944 CAAAATTTTGAAAAATATCAATTAAA
1 CAAAATTTTGAAAAATAT---TTAAA
*
645970 -AGAATTTTGAAAAATATTTAAA
1 CAAAATTTTGAAAAATATTTAAA
*
645992 CAAAAATTTGAAAAATATT
1 CAAAATTTTGAAAAATATT
646011 ACCCCTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
25 16 0.43
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (23 bp):
CAAAATTTTGAAAAATATTTAAA
Found at i:646850 original size:15 final size:16
Alignment explanation
Indices: 646830--646863 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
646820 TCTTCTTTTA
646830 TTTCTTT-TTTTTATC
1 TTTCTTTGTTTTTATC
*
646845 TTTCTTTGTTTTTGTC
1 TTTCTTTGTTTTTATC
646861 TTT
1 TTT
646864 TCTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTCTTTGTTTTTATC
Found at i:646909 original size:18 final size:18
Alignment explanation
Indices: 646863--646911 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
646853 TTTTTGTCTT
* *
646863 TTCT-TATTTTCTCTTTG
1 TTCTCTATTTTTTTTTTG
*
646880 CTCTCTATTTTTTTTTTG
1 TTCTCTATTTTTTTTTTG
646898 TTCTCTATTTTTTT
1 TTCTCTATTTTTTT
646912 CTTTTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.73
Consensus pattern (18 bp):
TTCTCTATTTTTTTTTTG
Found at i:646916 original size:20 final size:19
Alignment explanation
Indices: 646869--646916 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
646859 TCTTTTCTTA
646869 TTTTCTCTTTGCTCTCTATT
1 TTTTCT-TTTGCTCTCTATT
*
646889 TTTT-TTTTGTTCTCTATTT
1 TTTTCTTTTGCTCTCTA-TT
646908 TTTTCTTTT
1 TTTTCTTTT
646917 TTATTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 7 0.28
20 8 0.32
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTGCTCTCTATT
Found at i:649830 original size:17 final size:18
Alignment explanation
Indices: 649803--649837 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
649793 ATAACCATTT
649803 TTTAGAAAAACAATTATG
1 TTTAGAAAAACAATTATG
649821 TTTA-AAAAACAATTATG
1 TTTAGAAAAACAATTATG
649838 ACTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (18 bp):
TTTAGAAAAACAATTATG
Found at i:649965 original size:16 final size:17
Alignment explanation
Indices: 649944--649980 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
649934 AATTTCTTTT
649944 AAAACAATTTTAAGA-A
1 AAAACAATTTTAAGACA
649960 AAAACAATTTTAAGACA
1 AAAACAATTTTAAGACA
649977 AAAA
1 AAAA
649981 TTGGTCTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAACAATTTTAAGACA
Found at i:651053 original size:16 final size:16
Alignment explanation
Indices: 651010--651053 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
651000 AACAATTAGT
651010 AATTAGCGGTTAGAAA
1 AATTAGCGGTTAGAAA
* **
651026 GATTAGTTGTTAGAAA
1 AATTAGCGGTTAGAAA
651042 AATTAGCGGTTA
1 AATTAGCGGTTA
651054 ACAGAGTTCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (16 bp):
AATTAGCGGTTAGAAA
Found at i:651330 original size:126 final size:126
Alignment explanation
Indices: 651133--651426 Score: 385
Period size: 126 Copynumber: 2.3 Consensus size: 126
651123 AGAAATAATA
* * *
651133 AATATATAAATAAACAATGGTTAGAATGCAATAAAATAAAAGTTAGTAGTTAACATAGTATGAAC
1 AATAAATAAATAAACAAT-GTTAGAATGCAATAAAATAAAAATTAGTAGTTAACAGAGTATGAAC
* * * *** * *
651198 CATAATAATGCGGATCATACCTCGGATCGAGTCACCACAAGGTTTTATTGAATATTAAAAAC
65 CATAATAATACGGATCATACCCCAGATCGAGTCACCACAAGGTCAAATAGAATAATAAAAAC
* * *
651260 AATAAATAAAT-AACAATGATTA-AAGTGCAATAAACTAAAAATTAGTAGTTAGCAGAGTTTGAA
1 AATAAATAAATAAACAATG-TTAGAA-TGCAATAAAATAAAAATTAGTAGTTAACAGAGTATGAA
* * *
651323 CCATAATAATACGGATCATACCCCAGATCTAGTCATCACAAGGTCAAATAGAATAATATAAAC
64 CCATAATAATACGGATCATACCCCAGATCGAGTCACCACAAGGTCAAATAGAATAATAAAAAC
651386 AATAAATAAATAAACAATTGTTAGAATGCAATAAAATAAAA
1 AATAAATAAATAAACAA-TGTTAGAATGCAATAAAATAAAA
651427 GGTTGTTGTT
Statistics
Matches: 144, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
125 3 0.02
126 105 0.73
127 32 0.22
128 4 0.03
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.26
Consensus pattern (126 bp):
AATAAATAAATAAACAATGTTAGAATGCAATAAAATAAAAATTAGTAGTTAACAGAGTATGAACC
ATAATAATACGGATCATACCCCAGATCGAGTCACCACAAGGTCAAATAGAATAATAAAAAC
Found at i:651400 original size:15 final size:17
Alignment explanation
Indices: 651369--651403 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
651359 CACAAGGTCA
651369 AATAGAATAATATAAAC
1 AATAGAATAATATAAAC
651386 AATA-AATAA-ATAAAC
1 AATAGAATAATATAAAC
651401 AAT
1 AAT
651404 TGTTAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAGAATAATATAAAC
Found at i:652333 original size:21 final size:21
Alignment explanation
Indices: 652304--652344 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
652294 GACTATCACA
*
652304 TTGCGATTTTCCAAATTCGCG
1 TTGCAATTTTCCAAATTCGCG
* *
652325 TTGCAATTTTTCTAATTCGC
1 TTGCAATTTTCCAAATTCGC
652345 AATGTGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (21 bp):
TTGCAATTTTCCAAATTCGCG
Found at i:652366 original size:20 final size:20
Alignment explanation
Indices: 652341--652393 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
652331 TTTTTCTAAT
*
652341 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
652361 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
652381 TCGCAACGCGAAT
1 TCGCAATGCGAAT
652394 CTGACTATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:652403 original size:20 final size:20
Alignment explanation
Indices: 652380--652466 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
652370 GAATACGTAA
* *
652380 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
652400 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
652420 ATCGCAATGAGATTCTAACT
1 ATCGCAACGAGATTCTGACT
*
652440 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
652460 ATCGCAA
1 ATCGCAA
652467 TACTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:655816 original size:20 final size:20
Alignment explanation
Indices: 655791--655899 Score: 166
Period size: 20 Copynumber: 5.5 Consensus size: 20
655781 CAACACGGAA
*
655791 ATCGCAACAC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
** *
655811 ATCGCAACATGGAATTGACT
1 ATCGCAACGCGGAAATGACT
655831 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
655851 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
655871 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
655891 ATCGCAACG
1 ATCGCAACG
655900 AGAGAATCGC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 80 0.96
21 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:657526 original size:21 final size:21
Alignment explanation
Indices: 657496--657593 Score: 90
Period size: 21 Copynumber: 4.7 Consensus size: 21
657486 TGGGAGGGAT
* * *
657496 CTCTTCAACGATGATAGTGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
657517 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGATGAGAGGGGC
** *
657538 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
657559 CTCTTGAACGAT-AGGAGAGGC
1 CTCTTGAACGATGA-GAGGGGC
657580 CTCTTGAACGATGA
1 CTCTTGAACGATGA
657594 CAGGTGAGTA
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
20 1 0.02
21 57 0.97
22 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:657593 original size:42 final size:42
Alignment explanation
Indices: 657488--657593 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
657478 TAGAATGTTG
* * * *
657488 GGAG-GGATCTCTTCAACGATGATAGTGGCCTCTTGAACGGTG
1 GGAGAGGA-CTCTTGAACGATGATAGGGGCCTCTTGAACGATA
* **
657530 GGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATA
1 GGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGATA
*
657572 GGAGAGGCCTCTTGAACGATGA
1 GGAGAGGACTCTTGAACGATGA
657594 CAGGTGAGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 50 0.94
43 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.23
Consensus pattern (42 bp):
GGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGATA
Found at i:658103 original size:20 final size:20
Alignment explanation
Indices: 658078--658166 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
658068 GAAACTTAAA
*
658078 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCGAAAATGACT
658098 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
658118 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* **
658138 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
658158 ATCGCAACG
1 ATCGCAACG
658167 AGAGAATCGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:658236 original size:20 final size:20
Alignment explanation
Indices: 658189--658276 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
658179 TGCAATTTTC
658189 ATTTCGCATTGCGAT--TC-
1 ATTTCGCATTGCGATAGTCA
658206 -TTTCG--TTGCGATAGTCAA
1 ATTTCGCATTGCGATAGTC-A
658224 ATTT-GCATTGCGATAGTC-
1 ATTTCGCATTGCGATAGTCA
658242 ATTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
* *
658262 TTTTCGCGTTGCGAT
1 ATTTCGCATTGCGAT
658277 TTTGTTGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.12
16 7 0.12
18 5 0.08
19 17 0.28
20 24 0.40
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTTCGCATTGCGATAGTCA
Found at i:658245 original size:53 final size:52
Alignment explanation
Indices: 658187--658363 Score: 143
Period size: 53 Copynumber: 3.3 Consensus size: 52
658177 AATGCAATTT
658187 TCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTTGCATTGCGATAG
1 TCATTTCGCATTGCGATTCTTTCGTTGCGATAGTC-AATTTGCATTGCGATAG
* **
658240 TCATTTCGCATTGCGATAGTCATTTTCGCGTTGCGAT--T--TTGTTG--TTGCGATTT
1 TCATTTCGCATTGCGAT--TC--TTT--CGTTGCGATAGTCAAT-TTGCATTGCGATAG
* * *
658293 TCATTTCGCATTGCGATTCTCTCGTTGCGACAGTC-ATTTTCACGTTGCGATAG
1 TCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAATTTGCA--TTGCGATAG
*
658346 TTATTTTCGCATTGCGAT
1 TCA-TTTCGCATTGCGAT
658364 AGTAAACTAT
Statistics
Matches: 99, Mismatches: 10, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
47 8 0.08
49 5 0.05
50 1 0.01
51 2 0.02
53 50 0.51
54 15 0.15
55 5 0.05
57 4 0.04
59 9 0.09
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (52 bp):
TCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAATTTGCATTGCGATAG
Found at i:658360 original size:20 final size:20
Alignment explanation
Indices: 658317--658366 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
658307 GATTCTCTCG
* *
658317 TTGCGACAGTCATTTTCACG
1 TTGCGATAGTCATTTTCACA
* *
658337 TTGCGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCACA
658357 TTGCGATAGT
1 TTGCGATAGT
658367 AAACTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCACA
Found at i:660276 original size:20 final size:20
Alignment explanation
Indices: 660253--660308 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
660243 TCTGAAACTT
660253 AAAATCACAACACGAAAATG
1 AAAATCACAACACGAAAATG
*
660273 AAAATCGCAACACGAAAATG
1 AAAATCACAACACGAAAATG
** *
660293 ACTATCACAACGCGAA
1 AAAATCACAACACGAA
660309 TTTGACTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (20 bp):
AAAATCACAACACGAAAATG
Found at i:660314 original size:20 final size:20
Alignment explanation
Indices: 660276--660348 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
660266 GAAAATGAAA
* **
660276 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
*
660296 ATCACAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
660316 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
660336 ATCGCAACGCGAA
1 ATCGCAACGCGAA
660349 ATTAAAATCG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:660761 original size:22 final size:22
Alignment explanation
Indices: 660699--660764 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
660689 TGACCGTGAA
* *
660699 TGATTTTGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
660721 TGATATCGTTGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
660743 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
660765 GGATGTCGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.21, C:0.11, G:0.39, T:0.29
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:660988 original size:40 final size:40
Alignment explanation
Indices: 660944--661118 Score: 300
Period size: 40 Copynumber: 4.4 Consensus size: 40
660934 GCTATGTAAA
* *
660944 TCGCATTGCGATAGTTA-G-ATTTGCGTTGCGATTTACGTAT
1 TCGCATTGCGAT--TTACGTATTCGCATTGCGATTTACGTAT
660984 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
661024 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
661064 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
661104 TCGCATTGCGATTTA
1 TCGCATTGCGATTTA
661119 GGAAAATCGC
Statistics
Matches: 131, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
38 3 0.02
39 1 0.01
40 127 0.97
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (40 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
Found at i:660992 original size:20 final size:20
Alignment explanation
Indices: 660969--661118 Score: 300
Period size: 20 Copynumber: 7.5 Consensus size: 20
660959 TAGATTTGCG
660969 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
660989 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
661009 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
661029 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
661049 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
661069 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
661089 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
661109 TTGCGATTTA
1 TTGCGATTTA
661119 GGAAAATCGC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 130 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:661011 original size:60 final size:60
Alignment explanation
Indices: 660944--661118 Score: 300
Period size: 60 Copynumber: 2.9 Consensus size: 60
660934 GCTATGTAAA
* *
660944 TCGCATTGCGATAGTTA-G-ATTTGCGTTGCGATTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGAT--TTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
661004 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
661064 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTA
661119 GGAAAATCGC
Statistics
Matches: 111, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
58 3 0.03
59 1 0.01
60 107 0.96
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (60 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
Found at i:661135 original size:21 final size:20
Alignment explanation
Indices: 661111--661157 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
661101 TATTCGCATT
661111 GCGATTTAGGAAAATCGCAAC
1 GCGATTT-GGAAAATCGCAAC
*
661132 GCGAATTTGGAAAATCGCAAT
1 GCG-ATTTGGAAAATCGCAAC
661153 GCGAT
1 GCGAT
661158 AGTCAGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 2 0.08
21 18 0.75
22 4 0.17
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (20 bp):
GCGATTTGGAAAATCGCAAC
Found at i:672439 original size:40 final size:41
Alignment explanation
Indices: 672389--672508 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 41
672379 TGCCATCAGT
*
672389 AAGTCTTTCGAGCATGATGATGAAATTCTTCGGGTCA-TCA
1 AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTCA
**
672429 AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTTGT
1 AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCA-TTCA
* * * *
672471 AAGTCTTTCGAGCATGGTGAT-AAGTCCTCCGGGCCATT
1 AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATT
672509 TTAAGCCTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
40 38 0.54
41 12 0.17
42 21 0.30
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (41 bp):
AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTCA
Found at i:672610 original size:42 final size:42
Alignment explanation
Indices: 672387--672611 Score: 174
Period size: 42 Copynumber: 5.5 Consensus size: 42
672377 AGTGCCATCA
*
672387 GTAAGTCTTTCGAGCATGATGATGAAATTCTTCGGGTCA--T
1 GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
**
672427 CAAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
1 GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
* * * *
672469 GTAAGTCTTTCGAGCATGGTGAT-AAGTCCTCCGGGCCATTT
1 GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
* * * *
672510 -TAAGCCTTCACCGAAG-A-GTAGTGAAGCAAA---TTC--ATCA---
1 GTAAGTCTT--TCG-AGCATG-A-TGATG-AAATCCTTCGGGTCATTT
*
672547 GTAAGTCTTTCGAGCACGATGATGAAATCCTTCGGGTCATTT
1 GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
672589 GTAAGTCTTTCGAGCGA-GATGAT
1 GTAAGTCTTTCGAGC-ATGATGAT
672612 AAGTCCTCTG
Statistics
Matches: 143, Mismatches: 21, Indels: 40
0.70 0.10 0.20
Matches are distributed among these distances:
34 3 0.02
35 6 0.04
36 4 0.03
37 4 0.03
38 7 0.05
39 3 0.02
40 45 0.31
41 16 0.11
42 47 0.33
43 6 0.04
45 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
Found at i:672658 original size:120 final size:120
Alignment explanation
Indices: 672429--672648 Score: 379
Period size: 120 Copynumber: 1.8 Consensus size: 120
672419 CGGGTCATCA
* *
672429 AAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTTGTAAGTCTTTCGAGCATGGTGATAA
1 AAGTCTTTCGAGCACGATGATGAAATCCTTCGGGTCATTTGTAAGTCTTTCGAGCATGATGATAA
*
672494 GTCCTCCGGGCCATTTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATTCATCAGT
66 GTCCTCCGGGCCATTTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATTCATCAGT
672549 AAGTCTTTCGAGCACGATGATGAAATCCTTCGGGTCATTTGTAAGTCTTTCGAGCGA-GATGATA
1 AAGTCTTTCGAGCACGATGATGAAATCCTTCGGGTCATTTGTAAGTCTTTCGAGC-ATGATGATA
* *
672613 AGTCCTCTGGGCCATTTTAAGCCTTCTCAGAAGAGT
65 AGTCCTCCGGGCCATTTTAAGCCTTCACAGAAGAGT
672649 GTTGGAGCAA
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 93 0.99
121 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (120 bp):
AAGTCTTTCGAGCACGATGATGAAATCCTTCGGGTCATTTGTAAGTCTTTCGAGCATGATGATAA
GTCCTCCGGGCCATTTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATTCATCAGT
Found at i:673088 original size:53 final size:53
Alignment explanation
Indices: 672885--673074 Score: 292
Period size: 53 Copynumber: 3.6 Consensus size: 53
672875 ATCACACCAT
672885 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
* ** * * *
672938 AAGATTATTTGATTTCTACTCCCTGAAGTAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
*
672991 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTTAGTC-G
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGACAG
*
673044 AAGATTGTTCGAGTTCTACTCCCTGAAGCAA
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAA
673075 TAGAGAGTAA
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
53 119 0.97
54 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAG
Found at i:680402 original size:10 final size:10
Alignment explanation
Indices: 680387--680420 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
680377 CCCCGGTAAA
680387 CTCCTCACAT
1 CTCCTCACAT
680397 CTCCTCACAT
1 CTCCTCACAT
680407 CTCCTCACAT
1 CTCCTCACAT
680417 CTCC
1 CTCC
680421 CCTCTCAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (10 bp):
CTCCTCACAT
Found at i:680730 original size:16 final size:16
Alignment explanation
Indices: 680705--680745 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
680695 ATTATTTACG
680705 TTTA-TGTGTAAAAAA
1 TTTATTGTGTAAAAAA
680720 TTTATTGTGTAAAAAA
1 TTTATTGTGTAAAAAA
680736 TTTATTGTGT
1 TTTATTGTGT
680746 TATATTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (16 bp):
TTTATTGTGTAAAAAA
Found at i:682386 original size:203 final size:200
Alignment explanation
Indices: 682041--682443 Score: 754
Period size: 203 Copynumber: 2.0 Consensus size: 200
682031 TCCTCACACA
682041 TGTGCTGGAGGGGTCAACCAAGATCATCAACTTGGACTCTGAAGTGATTGCCAAGCCATCATGCC
1 TGTGCTGGAGGGGTCAACCAAGATCATCAACTTGGACTCTGAAGTGATTGCCAAGCCATCATGCC
682106 ATGGTAAAAGCAAGCTCTCATATAGCTGTTGCAGTGTTGATTTCAGCTATACAATCGCAGTATGG
66 ATGGTAAAAGCAAGCTCTCATATAGCTGTTGCAGTGTTGATTTCAGCTATACAATCGCAGTATGG
*
682171 GTACACTGTCTCCTATAAAAAAGCTTGGTTGGCAAAA-ACAATGCTATTGTCAAACTTCATGGCG
131 GTACACTGTCTCCTATAAAAAAGCTTGGTTGGCAAAACAAAATGCTATTGTCAAACTTCATGGCG
682235 AATGG
196 AATGG
682240 TGTGCTGGAGGGGTCAACCAAGATCATCCCAACTTGGACTCTGAAGTGATATGCCAAGCCATCAT
1 TGTGCTGGAGGGGTCAACCAAGATCAT--CAACTTGGACTCTGAAGTGAT-TGCCAAGCCATCAT
682305 GCCCATGGTAAAAGCAAGCTCTCATATAGCTGTTGCAGTGTTGATTTCAGCTATACAATCGCAGT
63 G-CCATGGTAAAAGCAAGCTCTCATATAGCTGTTGCAGTGTTGATTTCAGCTATACAATCGCAGT
682370 ATGGGTACACTGTCTCCTATAAAAAAGCTTGGTTGGCAAAACAAAATGCTATTGTCAAACTTCAT
127 ATGGGTACACTGTCTCCTATAAAAAAGCTTGGTTGGCAAAACAAAATGCTATTGTCAAACTTCAT
682435 GGCGAATGG
192 GGCGAATGG
682444 GATGCATCTT
Statistics
Matches: 198, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
199 27 0.14
201 21 0.11
202 15 0.08
203 104 0.53
204 31 0.16
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (200 bp):
TGTGCTGGAGGGGTCAACCAAGATCATCAACTTGGACTCTGAAGTGATTGCCAAGCCATCATGCC
ATGGTAAAAGCAAGCTCTCATATAGCTGTTGCAGTGTTGATTTCAGCTATACAATCGCAGTATGG
GTACACTGTCTCCTATAAAAAAGCTTGGTTGGCAAAACAAAATGCTATTGTCAAACTTCATGGCG
AATGG
Found at i:686495 original size:9 final size:9
Alignment explanation
Indices: 686483--686515 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
686473 AAATACAATA
686483 TTAAATAAT
1 TTAAATAAT
*
686492 TTAAAT-AC
1 TTAAATAAT
686500 TTAAATAAT
1 TTAAATAAT
686509 TTAAATA
1 TTAAATA
686516 TAAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
TTAAATAAT
Found at i:686505 original size:17 final size:16
Alignment explanation
Indices: 686479--686522 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
686469 AATTAAATAC
686479 AATATTAAATAATTTA
1 AATATTAAATAATTTA
686495 AATACTTAAATAATTTA
1 AATA-TTAAATAATTTA
*
686512 AATATAAAATA
1 AATATTAAATA
686523 TAATAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATTAAATAATTTA
Found at i:686583 original size:20 final size:20
Alignment explanation
Indices: 686558--686601 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
686548 ATATATAAGT
*
686558 ATTTGAGAGATGTTGAGAGA
1 ATTTGAGAGAAGTTGAGAGA
*
686578 ATTTGAGAGAAGTTGAGAGG
1 ATTTGAGAGAAGTTGAGAGA
686598 ATTT
1 ATTT
686602 TGTGTGATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTTGAGAGAAGTTGAGAGA
Found at i:699441 original size:15 final size:15
Alignment explanation
Indices: 699421--699454 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
699411 ATAGAGAGAA
*
699421 AAAATAAAATAACAT
1 AAAATAAAAAAACAT
*
699436 AAAATAAAAAAAGAT
1 AAAATAAAAAAACAT
699451 AAAA
1 AAAA
699455 AGTGGCTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAATAAAAAAACAT
Found at i:699553 original size:16 final size:15
Alignment explanation
Indices: 699532--699569 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
699522 AATGCAAAGT
*
699532 AAAAGAAAATAATTA
1 AAAAGAAAATAAATA
699547 AATAAGAAAATAAATA
1 AA-AAGAAAATAAATA
699563 AAAAGAA
1 AAAAGAA
699570 TTATTCCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (15 bp):
AAAAGAAAATAAATA
Found at i:707534 original size:20 final size:20
Alignment explanation
Indices: 707509--707554 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
707499 CCTGCACATT
*
707509 AAGTTTCTAAACTTTAGA-GA
1 AAGTTTC-AAAATTTAGATGA
*
707529 AAGTTTCAAAATTTTGATGA
1 AAGTTTCAAAATTTAGATGA
707549 AAGTTT
1 AAGTTT
707555 TGAGATTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (20 bp):
AAGTTTCAAAATTTAGATGA
Found at i:707862 original size:2 final size:2
Alignment explanation
Indices: 707855--707947 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
707845 AAAATATTTC
707855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
707897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
707939 AT AT AT AT A
1 AT AT AT AT A
707948 ACAATTAAGA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:711452 original size:20 final size:20
Alignment explanation
Indices: 711427--711473 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
711417 GTGTTTTCAT
711427 ATTTTAAAAGCTTTAAACAC
1 ATTTTAAAAGCTTTAAACAC
* *
711447 ATTTTAAACGCTTTAAACAT
1 ATTTTAAAAGCTTTAAACAC
711467 ATTTTAA
1 ATTTTAA
711474 GTAGCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (20 bp):
ATTTTAAAAGCTTTAAACAC
Found at i:713667 original size:37 final size:36
Alignment explanation
Indices: 713637--713776 Score: 140
Period size: 37 Copynumber: 3.8 Consensus size: 36
713627 TTAAAAAGTG
713637 AATATATTATTACAAATTTATATTAGATTAAAATAGA
1 AATATATTATTACAAATTTATATTAGATTAAAATA-A
* *
713674 AATATATTATCTATAAATTTATATTTGATT-AAATAAA
1 AATATATTAT-TACAAATTTATATTAGATTAAAAT-AA
* ** *
713711 AATATAGTATTATGAATTTATATTCA-ATTAAAATATG
1 AATATATTATTACAAATTTATATT-AGATTAAAATA-A
* * *
713748 AATATATTATTACGAATCTATATTCGATT
1 AATATATTATTACAAATTTATATTAGATT
713777 GGAATACAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
36 17 0.20
37 52 0.60
38 18 0.21
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
AATATATTATTACAAATTTATATTAGATTAAAATAA
Found at i:717072 original size:102 final size:103
Alignment explanation
Indices: 716948--717134 Score: 279
Period size: 102 Copynumber: 1.8 Consensus size: 103
716938 ATTCACAAAG
* * * *
716948 TCATTATGAATACCATTCATGCAGACATGGTGCTGAAAGTACACAAAGGT-TGATACGAAAATGC
1 TCATTATGAACACCATTCATGCACACATAGTGCTGAAAGTACACAAAGGTATCATACGAAAATGC
*
717012 AACATATGCATTAAACAAAATCGATCGATAACAAGTGC
66 AACAAATGCATTAAACAAAATCGATCGATAACAAGTGC
*
717050 TCATTATGAACACCA-TCAATGCACACATAGTGCTGAAAGTACACAAGGGTACTCATACGAAAAT
1 TCATTATGAACACCATTC-ATGCACACATAGTGCTGAAAGTACACAAAGGTA-TCATACGAAAAT
*
717114 GCAACAAATGCATTATACAAA
64 GCAACAAATGCATTAAACAAA
717135 TTTGATTGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
101 2 0.03
102 43 0.57
104 30 0.40
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.22
Consensus pattern (103 bp):
TCATTATGAACACCATTCATGCACACATAGTGCTGAAAGTACACAAAGGTATCATACGAAAATGC
AACAAATGCATTAAACAAAATCGATCGATAACAAGTGC
Found at i:717350 original size:101 final size:101
Alignment explanation
Indices: 717175--717376 Score: 377
Period size: 101 Copynumber: 2.0 Consensus size: 101
717165 GTCAAAATGC
*
717175 ACCTATGACTCTCAATGCACATACAATAAGCCTTTAAATCAAATTCGCAGATTAAACATTTATTA
1 ACCTATGACTCTCAATGCACATACAATAAGCCCTTAAATCAAATTCGCAGATTAAACATTTATTA
717240 TGAAACATCGATAGTTGTTAAAATAATATAAAAGTT
66 TGAAACATCGATAGTTGTTAAAATAATATAAAAGTT
* *
717276 ACCTATGACTCTCAATGCACATACAATAGGCCCTTAAATCAAATTCGTAGATTAAACATTTATTA
1 ACCTATGACTCTCAATGCACATACAATAAGCCCTTAAATCAAATTCGCAGATTAAACATTTATTA
717341 TGAAACATCGATAGTTGTTAAAATAATATAAAAGTT
66 TGAAACATCGATAGTTGTTAAAATAATATAAAAGTT
717377 CATCCATCTA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (101 bp):
ACCTATGACTCTCAATGCACATACAATAAGCCCTTAAATCAAATTCGCAGATTAAACATTTATTA
TGAAACATCGATAGTTGTTAAAATAATATAAAAGTT
Found at i:720744 original size:116 final size:116
Alignment explanation
Indices: 720534--720766 Score: 430
Period size: 116 Copynumber: 2.0 Consensus size: 116
720524 AATCAACCCA
720534 ACCATAATGCGGAGACAACCAACACATTCCCAATATGATTTTAAACTCGTCAAATGATAATTCTA
1 ACCATAATGCGGAGACAACCAACACATTCCCAATATGATTTTAAACTCGTCAAATGATAATTCTA
* * *
720599 TTAGATTCACCGAGAACATTGCCCCTTGAATCTTTATCGGTCATTTACTAC
66 TTAGATTCACCAAGAACATAGCCCCTTGAATCTTTATCGGACATTTACTAC
720650 ACCATAATGCGGAGACAACCAACACATTCCCAATATGATTTTAAACTCGTCAAATGATAATTCTA
1 ACCATAATGCGGAGACAACCAACACATTCCCAATATGATTTTAAACTCGTCAAATGATAATTCTA
*
720715 TTAGATTCACCAAGAACATAGCCCTTTGAATCTTTATCGGACATTTACTAC
66 TTAGATTCACCAAGAACATAGCCCCTTGAATCTTTATCGGACATTTACTAC
720766 A
1 A
720767 TGTCTGAATC
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.30
Consensus pattern (116 bp):
ACCATAATGCGGAGACAACCAACACATTCCCAATATGATTTTAAACTCGTCAAATGATAATTCTA
TTAGATTCACCAAGAACATAGCCCCTTGAATCTTTATCGGACATTTACTAC
Found at i:729528 original size:53 final size:52
Alignment explanation
Indices: 729465--729570 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 52
729455 CTATCAAATT
* * * *
729465 AAATGGTCAATTAGTACTCACGATCAATACGAATAACATGGGTTGGTTCGAAA
1 AAATGGTCAATTAATACTCACGATCAATACGAACAACATAGGTCGGTTC-AAA
*
729518 AAATTGTCAATTAATACTCACGATCAATACGAACAACATAGGTCGGTTCAAA
1 AAATGGTCAATTAATACTCACGATCAATACGAACAACATAGGTCGGTTCAAA
729570 A
1 A
729571 TTAACAAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 4 0.08
53 44 0.92
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (52 bp):
AAATGGTCAATTAATACTCACGATCAATACGAACAACATAGGTCGGTTCAAA
Found at i:737311 original size:20 final size:20
Alignment explanation
Indices: 737286--737328 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
737276 TTTCTCCTCC
*
737286 ATTTTTCTTCTTTTATTTCG
1 ATTTTTCTTCTTTCATTTCG
737306 ATTTTTCTTCTTTCATTTCG
1 ATTTTTCTTCTTTCATTTCG
737326 ATT
1 ATT
737329 AATAACAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.16, G:0.05, T:0.67
Consensus pattern (20 bp):
ATTTTTCTTCTTTCATTTCG
Found at i:744836 original size:10 final size:10
Alignment explanation
Indices: 744821--744850 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
744811 TTTTACCTAT
744821 GAAAAAAAAA
1 GAAAAAAAAA
744831 GAAAAAAAAA
1 GAAAAAAAAA
*
744841 CAAAAAAAAA
1 GAAAAAAAAA
744851 AACAAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:744853 original size:12 final size:12
Alignment explanation
Indices: 744822--744856 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
744812 TTTACCTATG
*
744822 AAAAAAAA-AGA
1 AAAAAAAACAAA
744833 AAAAAAAACAAA
1 AAAAAAAACAAA
744845 AAAAAAAACAAA
1 AAAAAAAACAAA
744857 TAAGTGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:746274 original size:16 final size:17
Alignment explanation
Indices: 746253--746292 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
746243 GAATCTTTCT
*
746253 AACTAAATCATTG-CCA
1 AACTAAAACATTGACCA
*
746269 AACTAAAACGTTGACCA
1 AACTAAAACATTGACCA
746286 AACTAAA
1 AACTAAA
746293 CCGTATCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (17 bp):
AACTAAAACATTGACCA
Found at i:747329 original size:12 final size:12
Alignment explanation
Indices: 747314--747355 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
747304 CAAACTAGTC
747314 CCCAAAACAAGA
1 CCCAAAACAAGA
747326 CCC-AAAC-AGA
1 CCCAAAACAAGA
*
747336 CCCAAAATAAGA
1 CCCAAAACAAGA
747348 CCCAAAAC
1 CCCAAAAC
747356 TTGACCCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 6 0.23
11 7 0.27
12 13 0.50
ACGTcount: A:0.55, C:0.36, G:0.07, T:0.02
Consensus pattern (12 bp):
CCCAAAACAAGA
Found at i:752515 original size:3 final size:3
Alignment explanation
Indices: 752507--752532 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
752497 CAAAAGGTTA
752507 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
752533 AGACTATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:753171 original size:3 final size:3
Alignment explanation
Indices: 753163--753188 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
753153 CAAAAGGTTA
753163 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
753189 AGACTATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:753521 original size:656 final size:656
Alignment explanation
Indices: 752268--753581 Score: 2520
Period size: 656 Copynumber: 2.0 Consensus size: 656
752258 GCAGATAACA
752268 TGGGGCATCTCTTGTGTTTGACATTGCAAAAATGCCTAGACTACACTTCTGTTGAAGACGTTCAA
1 TGGGGCATCTCTTGTGTTTGACATTGCAAAAATGCCTAGACTACACTTCTGTTGAAGACGTTCAA
* *
752333 TTATGATACTAATCTTTGTAAATGGAATGGTTGAGTAGACGAATTTTGTTTAGGACAATATTTTG
66 TTATGATACTAATCTTTGCAAATAGAATGGTTGAGTAGACGAATTTTGTTTAGGACAATATTTTG
*
752398 GGAACATAATTCTAAATGTGGGGTTTCCTGACCATCAAAGACACCTACATTATAATAGGTTCTTC
131 GGAACATAACTCTAAATGTGGGGTTTCCTGACCATCAAAGACACCTACATTATAATAGGTTCTTC
752463 TCGATTAGCTTAAGAAATCCTAAATCTGAATACTCAAAAGGTTAATTATTATTATTATTATTATT
196 TCGATTAGCTTAAGAAATCCTAAATCTGAATACTCAAAAGGTTAATTATTATTATTATTATTATT
*
752528 ATTATAGACTATACAATAAAGCTGAGTTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCATA
261 ATTATAGACTATACAATAAAGCTGAGTTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCAGA
* *
752593 AGCCCTGATTTTATGAATAGATGGCATTCAAACCATGACATTGCTCGGATATTCGGTAGCTTGAT
326 AGCCCTGACTTTATGAATAGATGGCATTCAAACCATGACATTGCTCGGATACTCGGTAGCTTGAT
* *
752658 GTTTGCTCCACTGTGATTATCAAATCGAAGATTTGTGATGAGACGAACCATTCAGTTAGTCCAAT
391 GTTTGCTCCACTGTGATTATCAAATCAAAGATTTATGATGAGACGAACCATTCAGTTAGTCCAAT
*
752723 GAAGGTGATTACAATAAAGCTGAATTCAGTTAGCCAAACAATGGCAAATTAAATCAAGTTTATCT
456 GAAGGTGATTACAATAAAGCTGAATTCAGCTAGCCAAACAATGGCAAATTAAATCAAGTTTATCT
752788 AATAACGAGTTTTCAGTAAAATGTACTAAGGGAGTTGATGAGCACCTGTTATAGTCGACTTCACA
521 AATAACGAGTTTTCAGTAAAATGTACTAAGGGAGTTGATGAGCACCTGTTATAGTCGACTTCACA
752853 CAATTACTTAGGAACTTTATATTTAGACTGATGTCCCTACACTACCTCTGTTAAAGGAAGTCTAT
586 CAATTACTTAGGAACTTTATATTTAGACTGATGTCCCTACACTACCTCTGTTAAAGGAAGTCTAT
752918 GAAGGT
651 GAAGGT
752924 TGGGGCATCTCTTGTGTTTGACATTGCAAAAATGCCTAGACTACACTTCTGTTGAAGACGTTCAA
1 TGGGGCATCTCTTGTGTTTGACATTGCAAAAATGCCTAGACTACACTTCTGTTGAAGACGTTCAA
* *
752989 TTATGATACTAATCTTTGCAAATAGAATGGTTGAGTAGATGAATTTTGTTTAGGACAATTTTTTG
66 TTATGATACTAATCTTTGCAAATAGAATGGTTGAGTAGACGAATTTTGTTTAGGACAATATTTTG
753054 GGAACATAACTCTAAATGTGGGGTTTCCTGACCATCAAAGACACCTACATTATAATAGGTTCTTC
131 GGAACATAACTCTAAATGTGGGGTTTCCTGACCATCAAAGACACCTACATTATAATAGGTTCTTC
753119 TCGATTAGCTTAAGAAATCCTAAATCTGAATACTCAAAAGGTTAATTATTATTATTATTATTATT
196 TCGATTAGCTTAAGAAATCCTAAATCTGAATACTCAAAAGGTTAATTATTATTATTATTATTATT
753184 ATTATAGACTATACAATAAAGCTGAGTTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCAGA
261 ATTATAGACTATACAATAAAGCTGAGTTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCAGA
753249 AGCCCTGACTTTATGAATAGATGGCATTCAAACCATGACATTGCTCGGATACTCGGTAGCTTGAT
326 AGCCCTGACTTTATGAATAGATGGCATTCAAACCATGACATTGCTCGGATACTCGGTAGCTTGAT
753314 GTTTGCTCCACTGTGATTATCAAATCAAAGATTTATGATGAGACGAACCATTCAGTTAGTCCAAT
391 GTTTGCTCCACTGTGATTATCAAATCAAAGATTTATGATGAGACGAACCATTCAGTTAGTCCAAT
753379 GAAGGTGATTACAATAAAGCTGAATTCAGCTAGCCAAACAATGGCAAATTAAATCAAGTTTATCT
456 GAAGGTGATTACAATAAAGCTGAATTCAGCTAGCCAAACAATGGCAAATTAAATCAAGTTTATCT
*
753444 AATAACGAGTTTTTAGTAAAATGTACTAAGGGAGTTGATGAGCACCTGTTATAGTCGACTTCACA
521 AATAACGAGTTTTCAGTAAAATGTACTAAGGGAGTTGATGAGCACCTGTTATAGTCGACTTCACA
753509 CAATTACTTAGGAACTTTATATTTAGACTGATGTCCCTACACTACCTCTGTTAAAGGAAGTCTAT
586 CAATTACTTAGGAACTTTATATTTAGACTGATGTCCCTACACTACCTCTGTTAAAGGAAGTCTAT
753574 GAAGGT
651 GAAGGT
753580 TG
1 TG
753582 AACAAATAAA
Statistics
Matches: 646, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
656 646 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (656 bp):
TGGGGCATCTCTTGTGTTTGACATTGCAAAAATGCCTAGACTACACTTCTGTTGAAGACGTTCAA
TTATGATACTAATCTTTGCAAATAGAATGGTTGAGTAGACGAATTTTGTTTAGGACAATATTTTG
GGAACATAACTCTAAATGTGGGGTTTCCTGACCATCAAAGACACCTACATTATAATAGGTTCTTC
TCGATTAGCTTAAGAAATCCTAAATCTGAATACTCAAAAGGTTAATTATTATTATTATTATTATT
ATTATAGACTATACAATAAAGCTGAGTTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCAGA
AGCCCTGACTTTATGAATAGATGGCATTCAAACCATGACATTGCTCGGATACTCGGTAGCTTGAT
GTTTGCTCCACTGTGATTATCAAATCAAAGATTTATGATGAGACGAACCATTCAGTTAGTCCAAT
GAAGGTGATTACAATAAAGCTGAATTCAGCTAGCCAAACAATGGCAAATTAAATCAAGTTTATCT
AATAACGAGTTTTCAGTAAAATGTACTAAGGGAGTTGATGAGCACCTGTTATAGTCGACTTCACA
CAATTACTTAGGAACTTTATATTTAGACTGATGTCCCTACACTACCTCTGTTAAAGGAAGTCTAT
GAAGGT
Found at i:754715 original size:38 final size:37
Alignment explanation
Indices: 754664--755055 Score: 224
Period size: 38 Copynumber: 10.4 Consensus size: 37
754654 AAGATTCATT
* *
754664 TCGCTTGACATAGTTTCACTCGAAGCAAAAAATTTATC
1 TCGCTTGAGATAGTTTCACTCGAA-CAAAAATTTTATC
754702 TCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATC
1 TCGCTTGAGATAGTTTCACTCG-AACAAAAATTTTATC
* * * ** **
754740 TCACTTGAAATTGTTT-TTTTTAA-AACAAATTTTATC
1 TCGCTTGAGATAGTTTCACTCGAACAA-AAATTTTATC
* * *
754776 TCCCTTGAGATAGTCTCACTCGAGACAGAAATTTTATC
1 TCGCTTGAGATAGTTTCACTCGA-ACAAAAATTTTATC
* * ** * * *
754814 TTGCTTGAGATTGTTTTTCT-TAA-AACAAATTTCATA
1 TCGCTTGAGATAGTTTCACTCGAACAA-AAATTTTATC
* * *
754850 TCGCTTAAGATAGTTGCACTCGAAACAAGAAATTTTTTC
1 TCGCTTGAGATAGTTTCACTCG-AACAA-AAATTTTATC
* * * ** * * **
754889 TCACATGAGATTGTTTTTCT-TAA-AACAAACTTCGTC
1 TCGCTTGAGATAGTTTCACTCGAACAA-AAATTTTATC
*
754925 TCGCTTGAGACAGTTTTCACTCGAAACAAAAATTTTATC
1 TCGCTTGAGATAG-TTTCACTCG-AACAAAAATTTTATC
* * * * * **
754964 TCACTTGAGATAGTCTT-TCT-TAAAAACAAACTTCGTC
1 TCGCTTGAGATAGT-TTCACTCGAACAA-AAATTTTATC
*
755001 TCGCTTGAGATAGTTTTCACTCGAAACATAAATTTTATC
1 TCGCTTGAGATAG-TTTCACTCG-AACAAAAATTTTATC
* *
755040 TCACTTGAGATTGTTT
1 TCGCTTGAGATAGTTT
755056 TTCTTAAAAT
Statistics
Matches: 256, Mismatches: 79, Indels: 38
0.69 0.21 0.10
Matches are distributed among these distances:
35 3 0.01
36 69 0.27
37 32 0.12
38 82 0.32
39 65 0.25
40 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (37 bp):
TCGCTTGAGATAGTTTCACTCGAACAAAAATTTTATC
Found at i:754783 original size:112 final size:112
Alignment explanation
Indices: 754480--754823 Score: 407
Period size: 109 Copynumber: 3.1 Consensus size: 112
754470 ACAAAACTTC
* *
754480 TCTCGCTTGAGACAGTCTCATTTAATACAAAAA-TTCATATCACTTGAGATTGTTTTTCTTAAAA
1 TCTCGCTTGAGACAGTCTCATTTAATACAAAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAA
* * *
754544 CAAGATTTATGTCGCTTGAGATAGTTTCACTCGAA-CCAAAAA-TTG
66 CAAGATTTATCTCGCTTGAGATAGTTTCACTCGAAGCAAAAAATTTA
* *
754589 TCTCGCTTG-GAACAATCTCATTTAATAC-AAAATTTTATCTCACCTGAGATTGTTTTTCTTAAA
1 TCTCGCTTGAG-ACAGTCTCATTTAATACAAAAATTTTATCTCACTTGAGATTGTTTTTCTTAAA
* * *
754652 ACAAGATTCATTTCGCTTGACATAGTTTCACTCGAAGCAAAAAATTTA
65 ACAAGATTTATCTCGCTTGAGATAGTTTCACTCGAAGCAAAAAATTTA
* * ** * *
754700 TCTCGCTTGAGATAGTTTCACTCGAA-ACAAAAATTTTATCTCACTTGAAATTGTTTTTTTTAAA
1 TCTCGCTTGAGACAGTCTCA-TTTAATACAAAAATTTTATCTCACTTGAGATTGTTTTTCTTAAA
* * * *
754764 ACAA-ATTTTATCTCCCTTGAGATAGTCTCACTCG-AGACAGAAATTTTA
65 ACAAGA-TTTATCTCGCTTGAGATAGTTTCACTCGAAG-CAAAAAATTTA
*
754812 TCTTGCTTGAGA
1 TCTCGCTTGAGA
754824 TTGTTTTTCT
Statistics
Matches: 201, Mismatches: 25, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
108 5 0.02
109 85 0.42
110 6 0.03
111 22 0.11
112 83 0.41
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (112 bp):
TCTCGCTTGAGACAGTCTCATTTAATACAAAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAA
CAAGATTTATCTCGCTTGAGATAGTTTCACTCGAAGCAAAAAATTTA
Found at i:754824 original size:112 final size:112
Alignment explanation
Indices: 754480--754829 Score: 304
Period size: 112 Copynumber: 3.2 Consensus size: 112
754470 ACAAAACTTC
* * ** * * * *
754480 TCTCGCTTGAGACAGTCTCA-TTTAATACAAAAA-TTCATATCACTTGAGATTGTTTTTCTTAAA
1 TCTCGCTTGAGATAGTTTCACTCGAA-ACAAAAATTTTATCTCACCTGAAATTGTTTTTCTTAAA
* * * * * * *
754543 ACAAGATTTATGTCGCTTGAGATAGTTTCACTCGAA-CCAAAAA-TTG
65 ACAAGATTCATCTCCCTTGACATAGTCTCACTCGAAGCAAAAAATTTA
* * * ** *
754589 TCTCGCTTG-GAACAATCTCA-TTTAATAC-AAAATTTTATCTCACCTGAGATTGTTTTTCTTAA
1 TCTCGCTTGAG-ATAGTTTCACTCGAA-ACAAAAATTTTATCTCACCTGAAATTGTTTTTCTTAA
* * *
754651 AACAAGATTCATTTCGCTTGACATAGTTTCACTCGAAGCAAAAAATTTA
64 AACAAGATTCATCTCCCTTGACATAGTCTCACTCGAAGCAAAAAATTTA
* *
754700 TCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAAATTGTTTTTTTTAAAA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACCTGAAATTGTTTTTCTTAAAA
* * * *
754765 CAA-ATTTTATCTCCCTTGAGATAGTCTCACTCG-AGACAGAAATTTTA
66 CAAGA-TTCATCTCCCTTGACATAGTCTCACTCGAAG-CAAAAAATTTA
* *
754812 TCTTGCTTGAGATTGTTT
1 TCTCGCTTGAGATAGTTT
754830 TTCTTAAAAC
Statistics
Matches: 206, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
108 5 0.02
109 85 0.41
110 6 0.03
111 22 0.11
112 88 0.43
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (112 bp):
TCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACCTGAAATTGTTTTTCTTAAAA
CAAGATTCATCTCCCTTGACATAGTCTCACTCGAAGCAAAAAATTTA
Found at i:754911 original size:75 final size:75
Alignment explanation
Indices: 754693--755158 Score: 548
Period size: 76 Copynumber: 6.2 Consensus size: 75
754683 TCGAAGCAAA
*
754693 AAATTT-ATCTCGCTTGAGATAGTTTCACTCGAAACAA-AAATTTTATCTCACTTGAAATTGTTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTGAGATTGTTT
*
754756 TTTTTAAAAC
66 TTCTTAAAAC
* * * * **
754766 AAATTTTATCTCCCTTGAGATAGTCTCACTCGAGAC-AGAAATTTTATCTTGCTTGAGATTGTTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTGAGATTGTTT
754830 TTCTTAAAAC
66 TTCTTAAAAC
* * * * *
754840 AAATTTCATATCGCTTAAGATAGTTGCACTCGAAACAAGAAATTTTTTCTCACATGAGATTGTTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTGAGATTGTTT
754905 TTCTTAAAAC
66 TTCTTAAAAC
* * * * *
754915 AAACTTCGTCTCGCTTGAGACAGTTTTCACTCGAAACAA-AAATTTTATCTCACTTGAGATAGTC
1 AAATTTCATCTCGCTTGAGATAG-TTTCACTCGAAACAAGAAATTTTATCTCACTTGAGATTGTT
754979 TTTCTTAAAAAC
65 TTTCTT-AAAAC
* * *
754991 AAACTTCGTCTCGCTTGAGATAGTTTTCACTCGAAAC-ATAAATTTTATCTCACTTGAGATTGTT
1 AAATTTCATCTCGCTTGAGATAG-TTTCACTCGAAACAAGAAATTTTATCTCACTTGAGATTGTT
*
755055 TTTCTTAAAAT
65 TTTCTTAAAAC
* * * ** * * ***
755066 AAACTTT-GTCTCGCTTGAGACAATTTTTGCTCGAAACAAGAAATTTCATTTCACACAAGATTGT
1 AAA-TTTCATCTCGCTTGAGA-TAGTTTCACTCGAAACAAGAAATTTTATCTCACTTGAGATTGT
755130 TTTTCTTAAAAC
64 TTTTCTTAAAAC
*
755142 AAATTTAATCTCGCTTG
1 AAATTTCATCTCGCTTG
755159 CAAAAGTTTC
Statistics
Matches: 338, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
73 7 0.02
74 87 0.26
75 114 0.34
76 130 0.38
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (75 bp):
AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTGAGATTGTTT
TTCTTAAAAC
Found at i:755049 original size:151 final size:149
Alignment explanation
Indices: 754699--755158 Score: 562
Period size: 151 Copynumber: 3.1 Consensus size: 149
754689 CAAAAAATTT
* *
754699 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAAATTGTTTTTTTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTTTCTTAAA
* * * * * * * ** *
754764 ACAAATTTTATCTCCCTTGAGATAG-TCTCACTCGAGACAGAAATTTTATCTTGCTTGAGATTGT
66 ACAAACTTTGTCTCGCTTGAGACAGTTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATAGT
* *
754828 TTTTCTTAAAACAAATTTC
131 CTTTCTTAAAACAAACTTC
* * * * *
754847 ATATCGCTTAAGATAGTTGCACTCGAAACAAGAAATTTTTTCTCACATGAGATTGTTTTTCTTAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAA-AAATTTTATCTCACTTGAGATTGTTTTTCTTAA
*
754912 AACAAACTTCGTCTCGCTTGAGACAGTTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATAG
65 AACAAACTTTGTCTCGCTTGAGACAGTTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATAG
754977 TCTTTCTTAAAAACAAACTTC
130 TCTTTCTT-AAAACAAACTTC
* *
754998 GTCTCGCTTGAGATAGTTTTCACTCGAAACATAAATTTTATCTCACTTGAGATTGTTTTTCTTAA
1 ATCTCGCTTGAGATAG-TTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTTTCTTAA
* * ** * * *** *
755063 AATAAACTTTGTCTCGCTTGAGACAATTTTTGCTCGAAACAAGAAATTTCATTTCACACAAGATT
65 AACAAACTTTGTCTCGCTTGAGACAGTTTTCACTCGAAACAA-AAATTTTATCTCACTTGAGATA
* * *
755128 GTTTTTCTTAAAACAAATTTA
129 GTCTTTCTTAAAACAAACTTC
755149 ATCTCGCTTG
1 ATCTCGCTTG
755159 CAAAAGTTTC
Statistics
Matches: 265, Mismatches: 42, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
148 28 0.11
149 50 0.19
150 39 0.15
151 111 0.42
152 37 0.14
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (149 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTTTCTTAAA
ACAAACTTTGTCTCGCTTGAGACAGTTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATAGT
CTTTCTTAAAACAAACTTC
Found at i:755689 original size:93 final size:93
Alignment explanation
Indices: 755528--755699 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 93
755518 AAGAAGTTCG
* * * * *
755528 TAATGAAGAACTTGTTTAGCCTTTCCTCGATTCACGACATTTCAAATCAATGACGCTTCACTTAA
1 TAATGAAGAACTTGTTCAACATTTCCTCGATTCACGACATTTCAAATCAATGACGCCTCACTCAA
*
755593 GGGATTAACATTTCCAGTATAGAACTCA
66 GGGATCAACATTTCCAGTATAGAACTCA
* * *
755621 TAATGAAGAACTTGTTCAATATTTGCTCGATTCATGACATTTCAAATC-A-GCAGCGCCTCACTC
1 TAATGAAGAACTTGTTCAACATTTCCTCGATTCACGACATTTCAAATCAATG-A-CGCCTCACTC
*
755684 GAGGGATCAACATTTC
64 AAGGGATCAACATTTC
755700 AAATGGAAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 1 0.01
92 2 0.03
93 64 0.96
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (93 bp):
TAATGAAGAACTTGTTCAACATTTCCTCGATTCACGACATTTCAAATCAATGACGCCTCACTCAA
GGGATCAACATTTCCAGTATAGAACTCA
Found at i:758184 original size:2 final size:2
Alignment explanation
Indices: 758177--758208 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
758167 TAGTGTAGAC
758177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
758209 TAGACCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:760196 original size:15 final size:17
Alignment explanation
Indices: 760164--760210 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
760154 TATACTACAT
* *
760164 TTTTTAATTATTTTTTA
1 TTTTAAATTATTTTATA
760181 TATTTAAA-TATTTTATA
1 T-TTTAAATTATTTTATA
760198 TTTTAAATTATTT
1 TTTTAAATTATTT
760211 ATTAACATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 15 0.58
18 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAAATTATTTTATA
Found at i:760212 original size:16 final size:15
Alignment explanation
Indices: 760176--760210 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
760166 TTTAATTATT
760176 TTTTATATTTAAATA
1 TTTTATATTTAAATA
760191 TTTTATATTTTAAATTA
1 TTTTATA-TTTAAA-TA
760208 TTT
1 TTT
760211 ATTAACATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 6 0.33
17 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTATATTTAAATA
Found at i:764733 original size:186 final size:184
Alignment explanation
Indices: 764419--764787 Score: 650
Period size: 186 Copynumber: 2.0 Consensus size: 184
764409 TTTTAAATTT
764419 TAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAG
1 TAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAG
764484 ATCCAATAACCTTTACACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATTT
66 ATCCAATAACCTTTACACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATTT
*
764549 TATAATTATATATTATTTAAATTAATTGTAAACTATTTTTCTAAATTAAAAAATAC
131 TATAATTATATATTATTTAAATTAATTATAAACTATTTTT-T-AATTAAAAAATAC
764605 TAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAG
1 TAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAG
* * **
764670 ATCCAATAACTTTTA-AGCCTAAATCAATATTAATTAATTAAAAATTTTATATAATTTTTTTATT
66 ATCCAATAACCTTTACA-CCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATT
*
764734 TTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTAATTATAAAATA
130 TTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTAATTAAAAAATA
764788 TTTAATTTTT
Statistics
Matches: 176, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
184 11 0.06
185 2 0.01
186 163 0.93
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (184 bp):
TAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAG
ATCCAATAACCTTTACACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATTT
TATAATTATATATTATTTAAATTAATTATAAACTATTTTTTAATTAAAAAATAC
Found at i:764750 original size:18 final size:18
Alignment explanation
Indices: 764729--764790 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
764719 TATAATTTTT
*
764729 TTATTTTATAATTATATA
1 TTATTTTATAATTATAAA
*
764747 TTATTTAAATTAATTATAAA
1 TTATTT-TA-TAATTATAAA
* *
764767 CTATTTTTTAATTATAAA
1 TTATTTTATAATTATAAA
*
764785 ATATTT
1 TTATTT
764791 AATTTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 21 0.58
19 1 0.03
20 14 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTTTATAATTATAAA
Found at i:768643 original size:13 final size:13
Alignment explanation
Indices: 768626--768689 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
768616 ATTGACCGGC
*
768626 GTTGACTTTGACC
1 GTTGACTTTGACA
*
768639 GTTGACTTTGATA
1 GTTGACTTTGACA
768652 GTTGACTTTGACA
1 GTTGACTTTGACA
768665 GTTGACTTTGACA
1 GTTGACTTTGACA
*
768678 ATTGACTTTGAC
1 GTTGACTTTGAC
768690 CAATTGAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (13 bp):
GTTGACTTTGACA
Found at i:780650 original size:29 final size:29
Alignment explanation
Indices: 780608--780665 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
780598 CAAAGATGTG
780608 TGATCAGTACATGCCCCTATACTACAATC
1 TGATCAGTACATGCCCCTATACTACAATC
780637 TGATCAGTACATGCCCCTATACTACAATC
1 TGATCAGTACATGCCCCTATACTACAATC
780666 ATACTTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (29 bp):
TGATCAGTACATGCCCCTATACTACAATC
Found at i:786227 original size:134 final size:133
Alignment explanation
Indices: 785999--786712 Score: 925
Period size: 134 Copynumber: 5.3 Consensus size: 133
785989 TCTGAAAGAA
* * * * * * *
785999 TACTCTTTAAGGGAGATAAGACTGGAGAAAATTTTGATCCATTTCACTACTCTTCAGAGAAGATT
1 TACTCTTTAGGGGAGATCAGACTCGAG-AAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATT
* * * * * *
786064 GAATCATAATCGATTTTCTTCACTGCTCTTCAGAAAGACCAAATATGAAAGAAGAAGAATCTGGT
65 GAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCT
786129 CCAC
130 CCAC
* * * * *
786133 TACTCTTTAGGGGATATCAAACTCGAGGAAATTTTGATCCACTTCACTGTTCTTTAGGGAAGATT
1 TACTCTTTAGGGGAGATCAGACTCGA-GAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATT
* * * * *
786198 GAATC-GAATGTGATTTGGTTCGCTGCTCTTTAAGAAGACCAAATATGAAAGAAGAAGAATCTGC
65 GAATCAGAAT-TGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGC
786262 TCCAC
129 TCCAC
* * *
786267 TACTATTTAAGGGAGATCAGACTCGAGAAAAC-TTGATTCACTTCACTGCTCTTCAGGGAAGATT
1 TACTCTTTAGGGGAGATCAGACTCGAG-AAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATT
* * * * *
786331 GAATCAAAATTGATTTGCTTAACTGCTCTTCTGGAATACCAAATCTGAAAGAAGAAGAATTTGCT
65 GAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCT
786396 CCAC
130 CCAC
* *
786400 TACTCTTTTAGAGGAGATCAGATTCGAGAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATT
1 TACTC-TTTAGGGGAGATCAGACTCGAGAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATT
* * * *
786465 GAATCAGAA-CGATTTGCTTCACTACTCTACAGGAAGACCAAATCTGAAAGAAGAAAAATCTGCT
65 GAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCT
786529 CCAC
130 CCAC
* *
786533 TACTCTTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGAA
1 TACTC-TTTAGGGGAGATCAGACTCGAG-AAACTTTGATCCACTTCACTGCTCTTCAGGGAAGAT
* *
786598 TGGATCAGAATTGATTTGCTTCACTGCTC-TCTAGGAAGACCAAATCTGAAAGAAGAAGAATTTG
64 TGAATCAGAATTGATTTGCTTCACTGCTCTTC-AGGAAGACCAAATCTGAAAGAAGAAGAATCTG
786662 CTCCAC
128 CTCCAC
* * *
786668 TACTCTTTAGGGGAGATCAGACTCTATAAA-TTTGATTCACTTCAC
1 TACTCTTTAGGGGAGATCAGACTCGAGAAACTTTGATCCACTTCAC
786713 CATTCTTTGG
Statistics
Matches: 507, Mismatches: 64, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
132 14 0.03
133 176 0.35
134 259 0.51
135 58 0.11
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (133 bp):
TACTCTTTAGGGGAGATCAGACTCGAGAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATTG
AATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTC
CAC
Found at i:786550 original size:267 final size:264
Alignment explanation
Indices: 785999--786712 Score: 955
Period size: 267 Copynumber: 2.7 Consensus size: 264
785989 TCTGAAAGAA
* * * * * *
785999 TACTCTTTAAGGGAGATAAGACTGGAGAAAATTTTGATCCATTTCACTACTCTTCAGAGAAGATT
1 TACTCTTTAAGGGAGATCAGACTCGAGAAAA-CTTGATCCACTTCACTGCTCTTCAGGGAAGATT
* * * * * * * *
786064 GAATCATAATCGATTTTCTTCACTGCTCTTCAGAAAGACCAAATATGAAAGAAGAAGAATCTGGT
65 GAATCAAAATTGATTTGCTTCACTGCTCTTCTGGAAGACCAAATCTGAAAGAAGAAGAATTTGCT
* * * *
786129 CCACTACTCTTTAGGGGATATCAAACTCGAGGAAATTTTGATCCACTTCACTGTTCTTTAGGGAA
130 CCACTACTCTTTAGGGGAGATCAGACTCGA-GAAA-TTTGATCCACTTCACTGCTCTTCAGGGAA
* * * * ** *
786194 GATTGAATCGAATGTGATTTGGTTCGCTGCTCTTTAAGAAGACCAAATATGAAAGAAGAAGAATC
193 GATTGAATCGAA-GCGATTTGCTTCACTACTCTACAAGAAGACCAAATATGAAAGAAGAAAAATC
786259 TGCTCCAC
257 TGCTCCAC
* *
786267 TACTATTTAAGGGAGATCAGACTCGAGAAAACTTGATTCACTTCACTGCTCTTCAGGGAAGATTG
1 TACTCTTTAAGGGAGATCAGACTCGAGAAAACTTGATCCACTTCACTGCTCTTCAGGGAAGATTG
* *
786332 AATCAAAATTGATTTGCTTAACTGCTCTTCTGGAATACCAAATCTGAAAGAAGAAGAATTTGCTC
66 AATCAAAATTGATTTGCTTCACTGCTCTTCTGGAAGACCAAATCTGAAAGAAGAAGAATTTGCTC
* *
786397 CACTACTCTTTTAGAGGAGATCAGATTCGAGAAACTTTGATCCACTTCACTGCTCTTCAGGGAAG
131 CACTACTC-TTTAGGGGAGATCAGACTCGAGAAA-TTTGATCCACTTCACTGCTCTTCAGGGAAG
* *
786462 ATTGAATCAGAA-CGATTTGCTTCACTACTCTACAGGAAGACCAAATCTGAAAGAAGAAAAATCT
194 ATTGAATC-GAAGCGATTTGCTTCACTACTCTACAAGAAGACCAAATATGAAAGAAGAAAAATCT
786526 GCTCCAC
258 GCTCCAC
* * *
786533 TACTCTTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGAA
1 TACTC-TTTAAGGGAGATCAGACTCGAGAAAAC-TTGATCCACTTCACTGCTCTTCAGGGAAGAT
* *
786598 TGGATCAGAATTGATTTGCTTCACTGCTC-TCTAGGAAGACCAAATCTGAAAGAAGAAGAATTTG
64 TGAATCAAAATTGATTTGCTTCACTGCTCTTCT-GGAAGACCAAATCTGAAAGAAGAAGAATTTG
* * *
786662 CTCCACTACTCTTTAGGGGAGATCAGACTCTATAAATTTGATTCACTTCAC
128 CTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAATTTGATCCACTTCAC
786713 CATTCTTTGG
Statistics
Matches: 393, Mismatches: 48, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
266 68 0.17
267 182 0.46
268 143 0.36
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (264 bp):
TACTCTTTAAGGGAGATCAGACTCGAGAAAACTTGATCCACTTCACTGCTCTTCAGGGAAGATTG
AATCAAAATTGATTTGCTTCACTGCTCTTCTGGAAGACCAAATCTGAAAGAAGAAGAATTTGCTC
CACTACTCTTTAGGGGAGATCAGACTCGAGAAATTTGATCCACTTCACTGCTCTTCAGGGAAGAT
TGAATCGAAGCGATTTGCTTCACTACTCTACAAGAAGACCAAATATGAAAGAAGAAAAATCTGCT
CCAC
Found at i:787411 original size:44 final size:45
Alignment explanation
Indices: 787348--787434 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 45
787338 ATTCAAGTTG
* *
787348 AGAATAACATCAATAAAAGGTTGACACCTATTC-CGAGAAAGTCA
1 AGAATAACACCAATAAAAGGATGACACCTATTCACGAGAAAGTCA
* ** *
787392 AGAATAACACCACTAAAAGGATGACTTCTCTTCACGAGAAAGT
1 AGAATAACACCAATAAAAGGATGACACCTATTCACGAGAAAGT
787435 TAAGTAGGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 27 0.75
45 9 0.25
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.21
Consensus pattern (45 bp):
AGAATAACACCAATAAAAGGATGACACCTATTCACGAGAAAGTCA
Found at i:787571 original size:38 final size:38
Alignment explanation
Indices: 787497--787880 Score: 461
Period size: 38 Copynumber: 10.0 Consensus size: 38
787487 AACAATACCG
* * *
787497 AAAGATTTACTTCTCTT-ACAAGAAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
787534 AAAGATGGACTTCTCTTCACGAGGAAGTCAATAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
787572 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
787610 AAAGATTGACTTCTCTTCACGAAGAAGTCAGGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
787648 AAAGATT-AATTCTTCTTCACGAGGAAATTAAGAATAAC
1 AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAAC
* *
787686 ATAA-ATTGACTTCACTTCACGAGAAAGTCAAGAATAAC
1 A-AAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* ** * *
787724 AACGATT-AGCTTCTCTTCTTGAGGGAGTCAGGAATAAC
1 AAAGATTGA-CTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
787762 ATTGAAAGATTGACTTTTCTTCATGAGGAAGTCAAGAATAAC
1 ----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
787804 AAATATTGACTTCTCTTTATGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
787842 AAAGATTGACTTCTCTTCACGAGGAAGTCAAAAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
787880 A
1 A
787881 TTGAAAATTT
Statistics
Matches: 297, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
37 21 0.07
38 238 0.80
39 6 0.02
42 31 0.10
43 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:787915 original size:118 final size:116
Alignment explanation
Indices: 787497--787907 Score: 444
Period size: 118 Copynumber: 3.6 Consensus size: 116
787487 AACAATACCG
* * * * * *
787497 AAAGATTTACTTCTCTT-ACAAGAAAGTCAAGAATAACA---AAGATGGACT-TCTCTTCACGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAGGAATAACATTGAAAATTGACTCT-TCTTCACGAG
* *
787557 GAAGTCAATAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
65 GAAGTCAAGAATAACAAA-ATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * *
787610 AAAGATTGACTTCTCTTCACGAAGAAGTCAGGAATAACA---AAGATTAATTCTTCTTCACGAGG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAGGAATAACATTGAAAATTGACTCTTCTTCACGAGG
* * * *
787672 AAATTAAGAATAACATAAATTGACTTCACTTCACGAGAAAGTCAAGAATAAC
66 AAGTCAAGAATAACA-AAATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* ** * * *
787724 AACGATT-AGCTTCTCTTCTTGAGGGAGTCAGGAATAACATTGAAAGATTGACTTTTCTTCATGA
1 AAAGATTGA-CTTCTCTTCACGAGGAAGTCAGGAATAACATTGAAA-ATTGACTCTTCTTCACGA
* *
787788 GGAAGTCAAGAATAACAAATATTGACTTCTCTTTATGAGGAAGTCAAGAATAAC
64 GGAAGTCAAGAATAACAAA-ATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
** **
787842 AAAGATTGACTTCTCTTCACGAGGAAGTCAAAAATAACATTGAAAATTTGACTCCCCTTCACGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAGGAATAACATTGAAAA-TTGACTCTTCTTCACGAG
787907 G
65 G
787908 GGGTCAAGTT
Statistics
Matches: 247, Mismatches: 40, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
113 17 0.07
114 110 0.45
115 3 0.01
117 5 0.02
118 111 0.45
119 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (116 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAGGAATAACATTGAAAATTGACTCTTCTTCACGAGG
AAGTCAAGAATAACAAAATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:789866 original size:9 final size:10
Alignment explanation
Indices: 789843--789867 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
789833 CTTAATTTAT
789843 TTTTTTCTCA
1 TTTTTTCTCA
789853 TTTTTTCTCA
1 TTTTTTCTCA
789863 TTTTT
1 TTTTT
789868 GCTTTTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTCTCA
Found at i:789903 original size:21 final size:22
Alignment explanation
Indices: 789879--789952 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
789869 CTTTTTAGGA
789879 TTTTTCTTTTTCTCTCTT-T-TC
1 TTTTTCTTTTTCTCT-TTCTATC
789900 TTTTTCTTTTTCTCTTTCTATC
1 TTTTTCTTTTTCTCTTTCTATC
*
789922 TTTTCTCTTTTT-TTTTTCT-T-
1 TTTT-TCTTTTTCTCTTTCTATC
789942 TTTTTCTTTTT
1 TTTTTCTTTTT
789953 TTTCTTTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
19 7 0.14
20 6 0.12
21 17 0.35
22 12 0.24
23 7 0.14
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTTTCTCTTTCTATC
Found at i:789909 original size:27 final size:26
Alignment explanation
Indices: 789879--789961 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
789869 CTTTTTAGGA
789879 TTTTTCTTTTTCTCTCTTTTCTTTTTC
1 TTTTTCTTTTTCT-TCTTTTCTTTTTC
* *
789906 TTTTTCTCTTTCTATCTTTTCTCTTTTT
1 TTTTTCTTTTTCT-TCTTTTCT-TTTTC
789934 TTTTTCTTTTT-TTC-TTT-TTTTTC
1 TTTTTCTTTTTCTTCTTTTCTTTTTC
789957 TTTTT
1 TTTTT
789962 TCCTTATTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
23 9 0.18
24 1 0.02
25 3 0.06
26 2 0.04
27 21 0.42
28 14 0.28
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTCTTTTTCTTCTTTTCTTTTTC
Found at i:789933 original size:8 final size:8
Alignment explanation
Indices: 789879--789961 Score: 58
Period size: 7 Copynumber: 11.5 Consensus size: 8
789869 CTTTTTAGGA
789879 TTTT-TCT
1 TTTTCTCT
789886 TTTTCTCT
1 TTTTCTCT
*
789894 CTTT-TC-
1 TTTTCTCT
789900 TTTT-TCT
1 TTTTCTCT
789907 TTTTCTCT
1 TTTTCTCT
* *
789915 TTCTATC-
1 TTTTCTCT
789922 TTTTCTC-
1 TTTTCTCT
789929 TTTT-T-T
1 TTTTCTCT
*
789935 TTTTCTTT
1 TTTTCTCT
789943 TTTTCT-T
1 TTTTCTCT
*
789950 TTTTTTCT
1 TTTTCTCT
789958 TTTT
1 TTTT
789962 TCCTTATTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
6 10 0.16
7 26 0.42
8 26 0.42
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCTCT
Found at i:789962 original size:8 final size:8
Alignment explanation
Indices: 789879--789962 Score: 66
Period size: 8 Copynumber: 10.5 Consensus size: 8
789869 CTTTTTAGGA
789879 TTTTTCTT
1 TTTTTCTT
*
789887 TTTCTC-T
1 TTTTTCTT
*
789894 CTTTTC--
1 TTTTTCTT
789900 TTTTTCTT
1 TTTTTCTT
*
789908 TTTCTCTT
1 TTTTTCTT
* *
789916 TCTATCTT
1 TTTTTCTT
*
789924 TTCTCTTTTT
1 TT-T-TTCTT
789934 TTTTTCTT
1 TTTTTCTT
789942 TTTTTCTTT
1 TTTTTC-TT
789951 TTTTTCTT
1 TTTTTCTT
789959 TTTT
1 TTTT
789963 CCTTATTTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
6 5 0.08
7 5 0.08
8 35 0.58
9 10 0.17
10 5 0.08
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:789962 original size:27 final size:26
Alignment explanation
Indices: 789879--789962 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
789869 CTTTTTAGGA
*
789879 TTTTTCTTTTTCTCTCTTTTCTTTTTCTT
1 TTTTTCTTTTT-T-TCTTTT-TTTTTTTT
* * * * *
789908 TTTCTCTTTCTATCTTTTCTCTTTTT
1 TTTTTCTTTTTTTCTTTTTTTTTTTT
*
789934 TTTTTCTTTTTTTCTTTTTTTTCTTT
1 TTTTTCTTTTTTTCTTTTTTTTTTTT
789960 TTT
1 TTT
789963 CCTTATTTCT
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
26 28 0.65
27 6 0.14
29 9 0.21
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTCTTTTTTTCTTTTTTTTTTTT
Found at i:798003 original size:19 final size:19
Alignment explanation
Indices: 797960--798004 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
797950 TTGAAATCAA
*
797960 GATTATCTTTTATTTTTAG
1 GATTAACTTTTATTTTTAG
797979 GAATTAACTTTTATTTTTAG
1 G-ATTAACTTTTATTTTTAG
797999 GATTAA
1 GATTAA
798005 GTCTGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (19 bp):
GATTAACTTTTATTTTTAG
Found at i:799845 original size:18 final size:19
Alignment explanation
Indices: 799805--799846 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
799795 GGTTGTAATC
799805 ATCTACAATAGTGAGAAAGA
1 ATCTACAATAGTGAG-AAGA
799825 ATCTACAATAGTGAG-AGA
1 ATCTACAATAGTGAGAAGA
799843 ATCT
1 ATCT
799847 GTGACTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCTACAATAGTGAGAAGA
Found at i:813803 original size:19 final size:20
Alignment explanation
Indices: 813759--813803 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
813749 ATTTGTTTCT
*
813759 AATAAATTTTTATATATGAA
1 AATAAATTTTTATATATCAA
* *
813779 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATATATCAA
813798 AATAAA
1 AATAAA
813804 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATATATCAA
Found at i:814177 original size:18 final size:19
Alignment explanation
Indices: 814153--814200 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
814143 TTTATTATAG
814153 AAAATATTTTTGAAATATT
1 AAAATATTTTTGAAATATT
*
814172 AAATATGATTTTTGGAATATT
1 AAA-AT-ATTTTTGAAATATT
814193 -AAATATTT
1 AAAATATTT
814201 GTTTTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 4 0.15
21 13 0.50
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (19 bp):
AAAATATTTTTGAAATATT
Found at i:814205 original size:21 final size:21
Alignment explanation
Indices: 814158--814198 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
814148 TATAGAAAAT
814158 ATTTTTGAAATATTAAATATG
1 ATTTTTGAAATATTAAATATG
*
814179 ATTTTTGGAATATTAAATAT
1 ATTTTTGAAATATTAAATAT
814199 TTGTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
ATTTTTGAAATATTAAATATG
Found at i:814278 original size:20 final size:17
Alignment explanation
Indices: 814233--814280 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
814223 TTTGAATTAG
814233 GTGACTAAATTAAATTT
1 GTGACTAAATTAAATTT
*
814250 -TGACAAAATTAGAATTTT
1 GTGACTAAATTA-AA-TTT
814268 AGTGACTAAATTA
1 -GTGACTAAATTA
814281 TAAATGGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 10 0.40
17 2 0.08
18 3 0.12
20 10 0.40
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (17 bp):
GTGACTAAATTAAATTT
Found at i:826753 original size:21 final size:20
Alignment explanation
Indices: 826727--826765 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
826717 TAAGGCATTA
826727 AACATCATAAACAAAACAAAT
1 AACATCATAAA-AAAACAAAT
*
826748 AACATCATACAAAAACAA
1 AACATCATAAAAAAACAA
826766 CCATTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.13
Consensus pattern (20 bp):
AACATCATAAAAAAACAAAT
Found at i:835791 original size:24 final size:24
Alignment explanation
Indices: 835753--835799 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
835743 TGTTTAACCC
* * *
835753 GACCTGGCCCGTTGACTTTGACCG
1 GACCTGACCCATTGAATTTGACCG
835777 GACCTGACCCATTGAATTTGACC
1 GACCTGACCCATTGAATTTGACC
835800 AGAGTTGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (24 bp):
GACCTGACCCATTGAATTTGACCG
Found at i:835812 original size:16 final size:16
Alignment explanation
Indices: 835788--835847 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
835778 ACCTGACCCA
*
835788 TTGAATTTGACCAGAG
1 TTGACTTTGACCAGAG
* *
835804 TTGACTTTGAGCATAG
1 TTGACTTTGACCAGAG
* * **
835820 TAGACTTCGATTAGAG
1 TTGACTTTGACCAGAG
835836 TTGACTTTGACC
1 TTGACTTTGACC
835848 CGAAAAGTTA
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (16 bp):
TTGACTTTGACCAGAG
Found at i:840019 original size:19 final size:19
Alignment explanation
Indices: 839995--840038 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
839985 ACCTGAACTG
*
839995 TTTGACCTGACCCGTTGAC
1 TTTGACCCGACCCGTTGAC
840014 TTTGACCCGACCCGTTGAC
1 TTTGACCCGACCCGTTGAC
840033 TTTGAC
1 TTTGAC
840039 TTGAGTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (19 bp):
TTTGACCCGACCCGTTGAC
Done.