Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 39
Found at i:6921081 original size:183 final size:183
Alignment explanation
Indices: 6920768--6921127 Score: 596
Period size: 183 Copynumber: 2.0 Consensus size: 183
6920758 GTAGCACTTT
* *
6920768 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATACATTTTTACAAAGTATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATACATTTTTACAAAATATCGA
* * *
6920833 CACTTTATAGACGCTATTACTTCTTCTGTTTTAAATTCCAAAAGTGTCGATATTTATTTAAATCT
66 CACTTTATAGACGCTATTACTTCTTCTATTTTAAATTCAAAAAGTGTCGATACTTATTTAAATCT
* ** *
6920898 AATCGATACTTTCAATATATTTGGTAGCGTTTTACCGGTTTTGTCATTTTGAG
131 AATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAG
* *
6920951 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATACATTTTTACAAAATATCGA
*
6921016 CACTTTATAGGC-CTATTACTTCTTCTATTTTAAATTTCAAAAAGTGTCGATACTTATTTAAATC
66 CACTTTATAGACGCTATTACTTCTTCTATTTTAAA-TTCAAAAAGTGTCGATACTTATTTAAATC
6921080 TAATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCAT
130 TAATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCAT
6921128 ATTTTTACCT
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 21 0.13
183 143 0.87
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (183 bp):
ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATACATTTTTACAAAATATCGA
CACTTTATAGACGCTATTACTTCTTCTATTTTAAATTCAAAAAGTGTCGATACTTATTTAAATCT
AATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAG
Found at i:6924676 original size:31 final size:33
Alignment explanation
Indices: 6924641--6924721 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
6924631 TATTATTCTG
6924641 TTATATATGCATAT-TACTTTCTATTAAT-TTA
1 TTATATATGCATATATACTTTCTATTAATGTTA
* ** * *
6924672 TTATATATGTATATATGTTTTTTATTAGTGTTA
1 TTATATATGCATATATACTTTCTATTAATGTTA
**
6924705 TTATATATATATATATA
1 TTATATATGCATATATA
6924722 TATATATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 13 0.32
32 10 0.24
33 18 0.44
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (33 bp):
TTATATATGCATATATACTTTCTATTAATGTTA
Found at i:6924749 original size:2 final size:2
Alignment explanation
Indices: 6924706--6924730 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6924696 TTAGTGTTAT
6924706 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6924731 TCTATTTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6924854 original size:16 final size:18
Alignment explanation
Indices: 6924833--6924867 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
6924823 TTTACTCATT
6924833 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
6924849 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
6924867 T
1 T
6924868 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:6926904 original size:20 final size:20
Alignment explanation
Indices: 6926879--6926925 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
6926869 TGCATTCTTG
6926879 CATTTTTGCATCTTCATCTA
1 CATTTTTGCATCTTCATCTA
6926899 CATTTTTGCATCTTCATCTA
1 CATTTTTGCATCTTCATCTA
6926919 CATTTTT
1 CATTTTT
6926926 AAGCATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.23, G:0.04, T:0.53
Consensus pattern (20 bp):
CATTTTTGCATCTTCATCTA
Found at i:6928100 original size:22 final size:22
Alignment explanation
Indices: 6928077--6928138 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
6928067 CAAAAAGGGC
6928077 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
6928100 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
6928121 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
6928139 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:6928129 original size:20 final size:20
Alignment explanation
Indices: 6928077--6928146 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
6928067 CAAAAAGGGC
*
6928077 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
6928100 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
6928121 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
6928141 AAAAAG
1 AAAAAG
6928147 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:6928828 original size:22 final size:22
Alignment explanation
Indices: 6928754--6928830 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
6928744 GCTACCCCAT
*
6928754 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
6928776 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
6928798 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
6928820 CAAACCTTTGA
1 CAAACCTTTGA
6928831 CCAAACATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:6929846 original size:105 final size:104
Alignment explanation
Indices: 6929657--6930576 Score: 1353
Period size: 105 Copynumber: 8.9 Consensus size: 104
6929647 GCCACCCACG
* * *
6929657 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCAA
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAA-CTTCCCAA-TTCAGAGCCAA
*
6929722 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
6929764 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCAATT
*
6929829 TCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCA
65 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
6929869 AGTTTAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCAATT
6929934 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
65 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
6929974 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCAATTT
* *
6930035 CAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCA
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
6930074 AGTTCAACTTCACGACGAAGGGACCACTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCAATT
*
6930139 TCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCA
65 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
6930179 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-A-AA-TT-TC-ATTCAGAGCCAATTT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCAATTT
* *
6930239 CAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCA
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* * * *
6930278 AGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCGACAACAACTTCCCAATCCCAGAGCTAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCAATT
*
6930343 TCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCA
65 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* **
6930383 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGATTCAATTT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCAATTT
* *
6930444 CAACTTCACAACGAAGGATATTGGACTCGAGACAACACA
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* * * * **
6930483 AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCCAAT
* *
6930548 TTCAACTTCACGACGGAGGATATTGGACT
64 TTCAACTTCACAACGAAGGATATTGGACT
6930577 TGGAACAATG
Statistics
Matches: 746, Mismatches: 49, Indels: 37
0.90 0.06 0.04
Matches are distributed among these distances:
99 85 0.11
100 172 0.23
101 11 0.01
102 10 0.01
103 10 0.01
104 11 0.01
105 370 0.50
106 40 0.05
107 37 0.05
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (104 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
Found at i:6930114 original size:205 final size:205
Alignment explanation
Indices: 6929657--6930576 Score: 1459
Period size: 205 Copynumber: 4.5 Consensus size: 205
6929647 GCCACCCACG
* * * *
6929657 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCAA
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTT-CCAATCTCAGAGCCAA
*
6929722 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
64 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* *
6929787 CCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
129 CCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATT
6929852 GGACTCCAGACAATGCA
189 GGACTCCAGACAATGCA
*
6929869 AGTTTAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
6929934 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
66 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
*
6929999 GCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
131 GCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
6930064 AGACAATGCA
196 AGACAATGCA
*
6930074 AGTTCAACTTCACGACGAAGGGACCACTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
*
6930139 TCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
66 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
*
6930204 GCTGCTTGTCAAC-AAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
131 GCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
6930268 AGACAATGCA
196 AGACAATGCA
* * * * *
6930278 AGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCGACAACAACTTCCCAATCCCAGAGCTAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
*
6930343 TCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
66 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
** *
6930408 GCTGCTTGTCAACAAAATTTCATTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGACTCG
131 GCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
**
6930473 AGACAACACA
196 AGACAATGCA
* * * **
6930483 AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCCCGGT-TCCAGAGCCA
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTT-CCAATCT-CAGAGCCA
* *
6930546 ATTTCAACTTCACGACGGAGGATATTGGACT
63 ATTTCAACTTCACAACGAAGGATATTGGACT
6930577 TGGAACAATG
Statistics
Matches: 666, Mismatches: 38, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
204 196 0.29
205 282 0.42
206 45 0.07
207 1 0.00
208 2 0.00
209 2 0.00
210 95 0.14
211 8 0.01
212 35 0.05
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (205 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATT
TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
GCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
AGACAATGCA
Found at i:6930487 original size:409 final size:414
Alignment explanation
Indices: 6929657--6930576 Score: 1485
Period size: 409 Copynumber: 2.2 Consensus size: 414
6929647 GCCACCCACG
*
6929657 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCAA
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAA-TTTCCCAA-TTCAGAGCCAA
*
6929722 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
63 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
*
6929787 CCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
128 CCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* *
6929852 GGACTCCAGACAATGCAAGTTTAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
193 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCC
* *
6929917 CAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
258 CAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAAC
*
6929982 TTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGC
323 TTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAAC
**
6930047 GAAGGATATTGGACTCCAGACAATGCA
388 GAAGGATATTGGACTCCAGACAACACA
* *
6930074 AGTTCAACTTCACGACGAAGGGACCACTGCTTGTCAACAACAACTTT-CCAATCTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA-TTTCCCAAT-TCAGAGCCAAT
*
6930138 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
64 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
6930203 CGCTGCTTGTCAAC-A-AA-TT-TC-AT-TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
129 CGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
6930262 GACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCGACAACAACTTCCC
194 GACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCC
*
6930327 AATCCCAGAGCTAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACT
259 AATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACT
**
6930392 TCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAGATTCAATTTCAACTTCACAACG
324 TCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACG
*
6930457 AAGGATATTGGACTCGAGACAACACA
389 AAGGATATTGGACTCCAGACAACACA
* * **
6930483 AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAATTTCCCAATT-CAGAGCCAAT
* *
6930548 TTCAACTTCACGACGGAGGATATTGGACT
64 TTCAACTTCACAACGAAGGATATTGGACT
6930577 TGGAACAATG
Statistics
Matches: 468, Mismatches: 31, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
409 281 0.60
410 46 0.10
411 1 0.00
412 2 0.00
413 2 0.00
414 2 0.00
415 91 0.19
416 8 0.02
417 35 0.07
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (414 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAATTTCCCAATTCAGAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
CTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAA
TCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAA
GGATATTGGACTCCAGACAACACA
Found at i:6931687 original size:2 final size:2
Alignment explanation
Indices: 6931622--6931668 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
6931612 TTAGTGTTAT
6931622 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6931664 TA TA T
1 TA TA T
6931669 TCTATTTTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6931748 original size:20 final size:20
Alignment explanation
Indices: 6931725--6931762 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6931715 ATTATTATTA
6931725 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
6931745 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
6931763 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:6931794 original size:16 final size:18
Alignment explanation
Indices: 6931773--6931807 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
6931763 TTTACTCATT
6931773 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
6931789 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
6931807 T
1 T
6931808 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:6932719 original size:31 final size:30
Alignment explanation
Indices: 6932654--6932728 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
6932644 ACCCCTAGAT
* * * *
6932654 TTTAGACAGAATATTAAATTCATCATAAAT
1 TTTAGATAAAATATTAAATTAATCATAAAC
* *
6932684 TTTAGATGAAATATTAATTTAATCTATAAAC
1 TTTAGATAAAATATTAAATTAATC-ATAAAC
6932715 TTTAGATAAAATAT
1 TTTAGATAAAATAT
6932729 CAACATGATC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTAGATAAAATATTAAATTAATCATAAAC
Found at i:6935837 original size:3 final size:3
Alignment explanation
Indices: 6935824--6935896 Score: 51
Period size: 3 Copynumber: 23.7 Consensus size: 3
6935814 CGAAAAAATG
* * * *
6935824 AAT AAT AAAT AAT AAT AA- AAA AAT AAA AAT AAT AAT AAC ATAT AAA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
*
6935870 AAT AAAT AAT ATT AAT -AT AAT ATAT AA
1 AAT -AAT AAT AAT AAT AAT AAT A-AT AA
6935897 AAAAATCATT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
2 4 0.07
3 40 0.73
4 11 0.20
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6935843 original size:23 final size:22
Alignment explanation
Indices: 6935817--6935897 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
6935807 CCTAAAACGA
6935817 AAAAATGAATAATAAATAATAAT
1 AAAAAT-AATAATAAATAATAAT
6935840 AAAAA-AATAA-AAATAATAAT
1 AAAAATAATAATAAATAATAAT
* *
6935860 AACATATAAAAATAAATAAT-AT
1 AA-AAATAATAATAAATAATAAT
* *
6935882 TAATATAATATATAAA
1 AAAAATAATA-ATAAA
6935898 AAAATCATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
20 12 0.24
21 14 0.28
22 12 0.24
23 12 0.24
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (22 bp):
AAAAATAATAATAAATAATAAT
Found at i:6935855 original size:20 final size:20
Alignment explanation
Indices: 6935824--6935880 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
6935814 CGAAAAAATG
6935824 AATAATAAATAATAATAAAAA
1 AATAA-AAATAATAATAAAAA
*
6935845 AATAAAAATAATAAT-AACA
1 AATAAAAATAATAATAAAAA
*
6935864 TATAAAAATAAATAATA
1 AATAAAAAT-AATAATA
6935881 TTAATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.34
20 16 0.50
21 5 0.16
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AATAAAAATAATAATAAAAA
Found at i:6935860 original size:26 final size:28
Alignment explanation
Indices: 6935832--6935902 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 28
6935822 TGAATAATAA
6935832 ATAATAATAAAAAAATAAA-AATAAT-A
1 ATAATAATAAAAAAATAAATAATAATAA
* * *
6935858 ATAA-CATATAAAAATAAATAATATTAA
1 ATAATAATAAAAAAATAAATAATAATAA
6935885 TATAATATATAAAAAAAT
1 -ATAATA-ATAAAAAAAT
6935903 CATTTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 12 0.34
26 9 0.26
27 1 0.03
28 4 0.11
30 9 0.26
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (28 bp):
ATAATAATAAAAAAATAAATAATAATAA
Found at i:6936021 original size:37 final size:36
Alignment explanation
Indices: 6935905--6936191 Score: 291
Period size: 37 Copynumber: 7.8 Consensus size: 36
6935895 AAAAAAATCA
** *
6935905 TTTTTAAAACTATATATTATATACCTTTTCAAAAATA
1 TTTTTAAAACTATATATTATATATGTTTTC-AAAATG
* *
6935942 TTTTCAAAAACTATATA-T-TAT-T-TTTTGAAAA-G
1 TTTT-TAAAACTATATATTATATATGTTTTCAAAATG
*
6935974 TTTTCAAAAACTATATATTATATATGTTTTCCAAAATG
1 TTTT-TAAAACTATATATTATATATGTTTT-CAAAATG
*
6936012 TTTTTAAAACTATATATTATATAAGTTTTCAAAAATG
1 TTTTTAAAACTATATATTATATATGTTTTC-AAAATG
*
6936049 TTTTCAAAACTATATATTATA-A-GTTTTCAAAATG
1 TTTTTAAAACTATATATTATATATGTTTTCAAAATG
* *
6936083 TTTTTTAAAAACTATATAATATATAAGTTTTCAAAATG
1 -TTTTT-AAAACTATATATTATATATGTTTTCAAAATG
* *
6936121 TTTTCAAAAACTATATTATATATATATATATATTCAAAATG
1 TTTT-TAAAACTATA-TAT-TATATATGT-T-TTCAAAATG
*
6936162 TTTTTAAAAACTATATATTATATATATTTT
1 TTTTT-AAAACTATATATTATATATGTTTT
6936192 TTCAAGAACC
Statistics
Matches: 217, Mismatches: 15, Indels: 36
0.81 0.06 0.13
Matches are distributed among these distances:
32 17 0.08
33 5 0.02
34 13 0.06
35 11 0.05
36 24 0.11
37 74 0.34
38 31 0.14
39 16 0.07
40 4 0.02
41 22 0.10
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTTTAAAACTATATATTATATATGTTTTCAAAATG
Found at i:6936105 original size:71 final size:73
Alignment explanation
Indices: 6935910--6936185 Score: 334
Period size: 73 Copynumber: 3.7 Consensus size: 73
6935900 AATCATTTTT
** * * * *
6935910 AAAACTATATATTATATACCTTTTCAAAAATATTTTCAAAAACTATATAT-TAT--TTTTTGAAA
1 AAAACTATATATTATATATGTTTTC-AAAATGTTTTTAAAAACTATATATATATAAGTTTTCAAA
6935972 A-GTTTTCA
65 ATGTTTTCA
6935980 AAAACTATATATTATATATGTTTTCCAAAATGTTTTT-AAAACTATATATTATATAAGTTTTCAA
1 AAAACTATATATTATATATGTTTT-CAAAATGTTTTTAAAAACTATATA-TATATAAGTTTTC-A
6936044 AAATGTTTTC-
63 AAATGTTTTCA
6936054 AAAACTATATATTATA-A-GTTTTCAAAATGTTTTTTAAAAACTATATAATATATAAGTTTTCAA
1 AAAACTATATATTATATATGTTTTCAAAATG-TTTTTAAAAACTATAT-ATATATAAGTTTTCAA
6936117 AATGTTTTCA
64 AATGTTTTCA
*
6936127 AAAACTATATTATATATATATATATATTCAAAATGTTTTTAAAAACTATATATTATATA
1 AAAACTATA-TAT-TATATATGT-T-TTCAAAATGTTTTTAAAAACTATATA-TATATA
6936186 TATTTTTTCA
Statistics
Matches: 181, Mismatches: 7, Indels: 28
0.84 0.03 0.13
Matches are distributed among these distances:
69 11 0.06
70 32 0.18
71 11 0.06
72 21 0.12
73 37 0.20
74 24 0.13
75 10 0.06
76 1 0.01
77 2 0.01
78 23 0.13
79 9 0.05
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (73 bp):
AAAACTATATATTATATATGTTTTCAAAATGTTTTTAAAAACTATATATATATAAGTTTTCAAAA
TGTTTTCA
Found at i:6936436 original size:23 final size:23
Alignment explanation
Indices: 6936410--6936454 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6936400 AATTTAAATT
*
6936410 ATTATGA-TTATAATATAGATTTG
1 ATTATGATTTAAAAT-TAGATTTG
6936433 ATTATGATTTAAAATTAGATTT
1 ATTATGATTTAAAATTAGATTT
6936455 TTGGTGTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTATGATTTAAAATTAGATTTG
Found at i:6937221 original size:20 final size:20
Alignment explanation
Indices: 6937196--6937233 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6937186 ATAACAGGTT
*
6937196 GTTAGGGATGTTAGAAATCA
1 GTTAGGGAAGTTAGAAATCA
6937216 GTTAGGGAAGTTAGAAAT
1 GTTAGGGAAGTTAGAAAT
6937234 TGTTAGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (20 bp):
GTTAGGGAAGTTAGAAATCA
Found at i:6937413 original size:15 final size:16
Alignment explanation
Indices: 6937387--6937417 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6937377 TGGCTCCTGC
6937387 TTTTGCCTCTTTTTCG
1 TTTTGCCTCTTTTTCG
6937403 TTTTG-CTCTTTTTCG
1 TTTTGCCTCTTTTTCG
6937418 CCTGATTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.00, C:0.23, G:0.13, T:0.65
Consensus pattern (16 bp):
TTTTGCCTCTTTTTCG
Found at i:6940302 original size:63 final size:63
Alignment explanation
Indices: 6940207--6940348 Score: 203
Period size: 63 Copynumber: 2.2 Consensus size: 63
6940197 ACATTCAATA
** *
6940207 TGCATCGATGCACTCTGATAAAATAAAAACATCGAATGCCATTAGTGCATCGATGCATAAGGAG
1 TGCATCGATGCAC-CCCATAAAATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAG
* ** * *
6940271 TGCATCGATGCACCCCATTAAATAAAAACATCGAATGTGATTCGTGCACCGATGCATAAGTAG
1 TGCATCGATGCACCCCATAAAATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAG
6940334 TGCATCGATGCACCC
1 TGCATCGATGCACCC
6940349 GTTAAGGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
63 57 0.81
64 13 0.19
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (63 bp):
TGCATCGATGCACCCCATAAAATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAG
Found at i:6940915 original size:18 final size:18
Alignment explanation
Indices: 6940892--6940951 Score: 84
Period size: 18 Copynumber: 3.2 Consensus size: 18
6940882 AGGGATAATC
6940892 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
6940910 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
6940929 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
6940948 AGTG
1 AGTG
6940952 ATCTTTCGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 18 0.50
19 4 0.11
20 14 0.39
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:6940959 original size:18 final size:18
Alignment explanation
Indices: 6940892--6940964 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
6940882 AGGGATAATC
*
6940892 AGTGGTCCTTCGGGACAT
1 AGTGGTCTTTCGGGACAT
*
6940910 AGTGGT-TCTTCGGAACAAT
1 AGTGGTCT-TTCGGGAC-AT
*
6940929 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCTTTCGGGACAT
* *
6940948 AGTGATCTTTCGAGACA
1 AGTGGTCTTTCGGGACA
6940965 AATACTGAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
18 27 0.61
19 4 0.09
20 13 0.30
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCTTTCGGGACAT
Found at i:6943324 original size:7 final size:7
Alignment explanation
Indices: 6943312--6943349 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
6943302 GTCAAAGAAA
6943312 GTCAACG
1 GTCAACG
6943319 GTCAACG
1 GTCAACG
6943326 GTCAACG
1 GTCAACG
6943333 GTCAACG
1 GTCAACG
6943340 GTCAACG
1 GTCAACG
6943347 GTC
1 GTC
6943350 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:6943356 original size:5 final size:5
Alignment explanation
Indices: 6943346--6943403 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
6943336 AACGGTCAAC
* *
6943346 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
6943395 GGTCG GGTC
1 GGTCG GGTC
6943404 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:6943367 original size:22 final size:22
Alignment explanation
Indices: 6943339--6943403 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
6943329 AACGGTCAAC
6943339 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
6943361 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
6943383 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
6943404 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:6943418 original size:9 final size:9
Alignment explanation
Indices: 6943400--6943497 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
6943390 GGTCGGGTCG
*
6943400 GGTCAGACC
1 GGTCAAACC
6943409 GGTCAAACC
1 GGTCAAACC
*
6943418 GAGTCAGA-C
1 G-GTCAAACC
6943427 GGTCAAACC
1 GGTCAAACC
*
6943436 GGTTCGAACC
1 GG-TCAAACC
*
6943446 GGTTGAAACC
1 GG-TCAAACC
6943456 GGTCAAACC
1 GGTCAAACC
6943465 GGTCAGAACC
1 GGTCA-AACC
*
6943475 GGTTGAAAACC
1 GG-T-CAAACC
*
6943486 GGTTAAACC
1 GGTCAAACC
6943495 GGT
1 GGT
6943498 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
8 5 0.07
9 33 0.45
10 28 0.38
11 7 0.09
12 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.29, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:6943423 original size:19 final size:18
Alignment explanation
Indices: 6943400--6943477 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 18
6943390 GGTCGGGTCG
6943400 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
6943418 GAGTCAGA-CGGTCAAACC
1 G-GTCAGACCGGTCAAACC
*
6943436 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
6943456 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
6943475 GGT
1 GGT
6943478 TGAAAACCGG
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
17 2 0.04
18 17 0.34
19 23 0.46
20 8 0.16
ACGTcount: A:0.28, C:0.28, G:0.29, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:6943460 original size:29 final size:31
Alignment explanation
Indices: 6943426--6943498 Score: 116
Period size: 29 Copynumber: 2.5 Consensus size: 31
6943416 CCGAGTCAGA
6943426 CGGTCAAACCGGTTC-GAACCGGTTG-AAAC
1 CGGTCAAACCGGTTCAGAACCGGTTGAAAAC
6943455 CGGTCAAACCGG-TCAGAACCGGTTGAAAAC
1 CGGTCAAACCGGTTCAGAACCGGTTGAAAAC
*
6943485 CGGTTAAACCGGTT
1 CGGTCAAACCGGTT
6943499 TCCAGCAGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 22 0.55
30 15 0.38
31 1 0.03
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.18
Consensus pattern (31 bp):
CGGTCAAACCGGTTCAGAACCGGTTGAAAAC
Found at i:6950673 original size:7 final size:7
Alignment explanation
Indices: 6950661--6950698 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
6950651 GTCAAAGAAA
6950661 GTCAACG
1 GTCAACG
6950668 GTCAACG
1 GTCAACG
6950675 GTCAACG
1 GTCAACG
6950682 GTCAACG
1 GTCAACG
6950689 GTCAACG
1 GTCAACG
6950696 GTC
1 GTC
6950699 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:6950705 original size:5 final size:5
Alignment explanation
Indices: 6950695--6950752 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
6950685 AACGGTCAAC
* *
6950695 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
6950744 GGTCG GGTC
1 GGTCG GGTC
6950753 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:6950716 original size:22 final size:22
Alignment explanation
Indices: 6950688--6950752 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
6950678 AACGGTCAAC
6950688 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
6950710 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
6950732 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
6950753 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:6950772 original size:19 final size:18
Alignment explanation
Indices: 6950749--6950827 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 18
6950739 GGTCGGGTCG
6950749 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
6950767 GAGTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
*
6950786 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
6950806 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
6950825 GGT
1 GGT
6950828 TGAAAACCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
18 5 0.10
19 39 0.75
20 8 0.15
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:6950832 original size:29 final size:27
Alignment explanation
Indices: 6950750--6950827 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 27
6950740 GTCGGGTCGG
*
6950750 GTCAGACCGGTCAAACCGAGTCAG-ACCG
1 GTCAAACCGGTCAAACCG-GT-AGAACCG
* *
6950778 GTCAAACCGGTTCGAACCGGTTGAAACCG
1 GTCAAACCGG-TCAAACCGGTAG-AACCG
6950807 GTCAAACCGGTCAGAACCGGT
1 GTCAAACCGGTCA-AACCGGT
6950828 TGAAAACCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.02
28 13 0.31
29 28 0.67
ACGTcount: A:0.28, C:0.29, G:0.28, T:0.14
Consensus pattern (27 bp):
GTCAAACCGGTCAAACCGGTAGAACCG
Found at i:6953737 original size:20 final size:20
Alignment explanation
Indices: 6953712--6953749 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6953702 ATAAAAGGTT
* *
6953712 GTTAGGGATGTTAGAAATCA
1 GTTAGGGAAGTTAAAAATCA
6953732 GTTAGGGAAGTTAAAAAT
1 GTTAGGGAAGTTAAAAAT
6953750 TGTTAGAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTAGGGAAGTTAAAAATCA
Found at i:6971191 original size:23 final size:23
Alignment explanation
Indices: 6971165--6971225 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
6971155 CTCGTATAAA
*
6971165 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
*
6971188 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
6971211 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
6971226 TATAATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:6978831 original size:15 final size:15
Alignment explanation
Indices: 6978811--6978847 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6978801 CATCACTACC
*
6978811 ATCATCTCCATTATA
1 ATCATCTCCATCATA
*
6978826 ATCATCTCCATCATC
1 ATCATCTCCATCATA
6978841 ATCATCT
1 ATCATCT
6978848 ATACCACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (15 bp):
ATCATCTCCATCATA
Found at i:6981554 original size:23 final size:23
Alignment explanation
Indices: 6981528--6981572 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6981518 GAAGGACCGT
6981528 GTAGAAATGCACCGAAGTGCCAC
1 GTAGAAATGCACCGAAGTGCCAC
* * *
6981551 GTAGAATTGCATCGTAGTGCCA
1 GTAGAAATGCACCGAAGTGCCA
6981573 TATAATATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (23 bp):
GTAGAAATGCACCGAAGTGCCAC
Found at i:6991597 original size:21 final size:21
Alignment explanation
Indices: 6991566--6991617 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
6991556 AACAATTCTC
*
6991566 TTCATGAAAAGATTAAACCAT
1 TTCATAAAAAGATTAAACCAT
* * **
6991587 TTTATAAAAAGGTTAAGTCAT
1 TTCATAAAAAGATTAAACCAT
6991608 TTCATAAAAA
1 TTCATAAAAA
6991618 ATATAAGTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
TTCATAAAAAGATTAAACCAT
Found at i:6991645 original size:21 final size:20
Alignment explanation
Indices: 6991593--6991652 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
6991583 CCATTTTATA
*
6991593 AAAAGGTTAAGTCATTTCAT
1 AAAAGGTTAAGTCATTTAAT
** *
6991613 AAAAAATATAAGTCCTTTAAT
1 AAAAGGT-TAAGTCATTTAAT
*
6991634 CAAAAGGTTAAGTTATTTA
1 -AAAAGGTTAAGTCATTTA
6991653 GTCAAAATGT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (20 bp):
AAAAGGTTAAGTCATTTAAT
Found at i:7007049 original size:2 final size:2
Alignment explanation
Indices: 7007042--7007082 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7007032 ACAAAGCAAT
7007042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7007083 GTTCTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7008350 original size:35 final size:34
Alignment explanation
Indices: 7008286--7008383 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 34
7008276 ATTTTATCTT
* *
7008286 TTGATTTA-TTAT-TTTTTTTTACATT-TTTTCCA
1 TTGATTTATTTATATATTTTTTA-TTTATTTTCCA
*
7008318 TTGATTTATTTGATATATTTTTTATTTATTTTCCT
1 TTGATTTATTT-ATATATTTTTTATTTATTTTCCA
* * *
7008353 TTGATTTATTTTTTTATTTTTTTTTTATTTT
1 TTGATTTATTTATATATTTTTTATTTATTTT
7008384 TTCTCCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
32 8 0.14
33 2 0.04
34 21 0.38
35 25 0.45
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.73
Consensus pattern (34 bp):
TTGATTTATTTATATATTTTTTATTTATTTTCCA
Found at i:7008355 original size:26 final size:27
Alignment explanation
Indices: 7008326--7008376 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7008316 CATTGATTTA
7008326 TTTGATATA-TTTTTTATTTATTTTCC
1 TTTGATATATTTTTTTATTTATTTTCC
* *
7008352 TTTGATTTATTTTTTTATTTTTTTT
1 TTTGATATATTTTTTTATTTATTTT
7008377 TTATTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (27 bp):
TTTGATATATTTTTTTATTTATTTTCC
Found at i:7008377 original size:38 final size:40
Alignment explanation
Indices: 7008335--7008410 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
7008325 ATTTGATATA
*
7008335 TTTTTTATTTATTT-TCC-TTTGATTTATT-TTTTTATTTT
1 TTTTTTATTT-TTTCTCCTTTTGATTTATTATTATTATTTT
7008373 TTTTTTATTTTTTCTCCTTTTGATTTATTATTATTATT
1 TTTTTTATTTTTTCTCCTTTTGATTTATTATTATTATT
7008411 AGTTTTACGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 3 0.09
38 13 0.38
39 11 0.32
40 7 0.21
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (40 bp):
TTTTTTATTTTTTCTCCTTTTGATTTATTATTATTATTTT
Found at i:7008383 original size:11 final size:11
Alignment explanation
Indices: 7008333--7008385 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
7008323 TTATTTGATA
*
7008333 TATTTTTTATT
1 TATTTTTTTTT
**
7008344 TATTTTCCTTT
1 TATTTTTTTTT
*
7008355 GATTTATTTTTT
1 TATTT-TTTTTT
7008367 TATTTTTTTTT
1 TATTTTTTTTT
7008378 TATTTTTT
1 TATTTTTT
7008386 CTCCTTTTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:7008393 original size:19 final size:18
Alignment explanation
Indices: 7008335--7008393 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
7008325 ATTTGATATA
7008335 TTTTTTATTTATTTTCCTT
1 TTTTTTATTT-TTTTCCTT
** **
7008354 TGATTTATTTTTTTATTTT
1 TTTTTTATTTTTTT-CCTT
7008373 TTTTTTATTTTTTCTCCTT
1 TTTTTTATTTTTT-TCCTT
7008392 TT
1 TT
7008394 GATTTATTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
18 4 0.13
19 25 0.83
20 1 0.03
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTTATTTTTTTCCTT
Found at i:7008417 original size:38 final size:37
Alignment explanation
Indices: 7008290--7008445 Score: 96
Period size: 35 Copynumber: 4.3 Consensus size: 37
7008280 TATCTTTTGA
** * *
7008290 TTTATTATTTTTTTTTACATTTTT-TCCATTGATTTAT
1 TTTATTATTTAGTTTTA-TTTTTTCTCCTTTGATTTAT
*
7008327 TTGA-TATATT--TTTTATTTATTT-TCCTTTGATTTAT
1 TTTATTAT-TTAGTTTTATTT-TTTCTCCTTTGATTTAT
* **
7008362 TTTTTTATTTTTTTTTTATTTTTTCTCCTTTTGATTTAT
1 TTTATTA-TTTAGTTTTATTTTTTCTCC-TTTGATTTAT
**
7008401 TATTATTA-TTAGTTTTACGTTTT-T-CTTTGATTTA-
1 T-TTATTATTTAGTTTTATTTTTTCTCCTTTGATTTAT
*
7008435 TTTAATATTTA
1 TTTATTATTTA
7008446 TGTATTTTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 23
0.74 0.08 0.17
Matches are distributed among these distances:
33 5 0.05
34 6 0.06
35 31 0.32
36 8 0.08
37 10 0.10
38 22 0.22
39 11 0.11
40 5 0.05
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (37 bp):
TTTATTATTTAGTTTTATTTTTTCTCCTTTGATTTAT
Found at i:7009005 original size:20 final size:20
Alignment explanation
Indices: 7008980--7009017 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7008970 TTTATGAAGG
7008980 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
*
7009000 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
7009018 CCATTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:7009150 original size:64 final size:65
Alignment explanation
Indices: 7009036--7009159 Score: 216
Period size: 64 Copynumber: 1.9 Consensus size: 65
7009026 AATGCATTTT
*
7009036 ATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAGACC
1 ATGCATCAATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAGACC
7009101 ATGCATCAATGCACTCAGGCTTTTT-TG-AAACATCGAATGCATTTTATGCATCGATGCAC
1 ATGCATCAATGCACTCAGG-TTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCAC
7009160 CCTTAGTGCA
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
64 32 0.56
65 20 0.35
66 5 0.09
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
ATGCATCAATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAGACC
Found at i:7009408 original size:11 final size:11
Alignment explanation
Indices: 7009392--7009426 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
7009382 AAGAAACAAG
7009392 AATCAAGAGAA
1 AATCAAGAGAA
*
7009403 AATCAAGAGAG
1 AATCAAGAGAA
7009414 AATCAAAGAGAA
1 AATC-AAGAGAA
7009426 A
1 A
7009427 GCATCAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.63, C:0.09, G:0.20, T:0.09
Consensus pattern (11 bp):
AATCAAGAGAA
Found at i:7016186 original size:27 final size:27
Alignment explanation
Indices: 7016133--7016187 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
7016123 ACTCCGGAAG
*
7016133 CTAGTTCTTCACGAGCTCCTCCTGCAC
1 CTAGTTCTTCACGAGCTCCTCCAGCAC
* *
7016160 CTAGTTCTTCTCGTGCT-CTACCAGCAC
1 CTAGTTCTTCACGAGCTCCT-CCAGCAC
7016187 C
1 C
7016188 AGCTGCGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.15, C:0.40, G:0.15, T:0.31
Consensus pattern (27 bp):
CTAGTTCTTCACGAGCTCCTCCAGCAC
Found at i:7019031 original size:21 final size:20
Alignment explanation
Indices: 7018926--7019047 Score: 142
Period size: 19 Copynumber: 6.1 Consensus size: 20
7018916 CCGTTAGACA
*
7018926 GGGGAGAATCGGTA-CCCCT
1 GGGGGGAATCGGTACCCCCT
* *
7018945 GGGGGGAATCTGTTCCCCCT
1 GGGGGGAATCGGTACCCCCT
*
7018965 -GGGGGAATCGATACCCCCT
1 GGGGGGAATCGGTACCCCCT
7018984 GGGGGGAATCGGTA-CCCCT
1 GGGGGGAATCGGTACCCCCT
7019003 GCAGGGGGAATCGGTACCCCCT
1 G--GGGGGAATCGGTACCCCCT
**
7019025 GGGGGGGAATATGTACCCCCT
1 -GGGGGGAATCGGTACCCCCT
7019046 GG
1 GG
7019048 ACAATCTGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
19 33 0.38
20 19 0.22
21 30 0.34
22 5 0.06
23 1 0.01
ACGTcount: A:0.17, C:0.28, G:0.38, T:0.17
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:7021412 original size:34 final size:33
Alignment explanation
Indices: 7021358--7021428 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
7021348 CCTTACAAAC
* * *
7021358 TCCCTAGTTTTTTCCGGGCTAAACTAGAACTTT
1 TCCCTAGCTTTTACCGGGCTAAACTAGAACCTT
*
7021391 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTAC-CGGGCTAAACTAGAACCTT
7021425 TCCC
1 TCCC
7021429 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 12 0.36
34 21 0.64
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (33 bp):
TCCCTAGCTTTTACCGGGCTAAACTAGAACCTT
Found at i:7021819 original size:22 final size:21
Alignment explanation
Indices: 7021771--7021853 Score: 107
Period size: 20 Copynumber: 4.0 Consensus size: 21
7021761 ACCGTTAGAC
7021771 AGGGGGAATCGGTACCCCCT-
1 AGGGGGAATCGGTACCCCCTG
*
7021791 AGGGGGAATCGGTACTCCCTG
1 AGGGGGAATCGGTACCCCCTG
*
7021812 CAGGGGGAATCTGTACCCCCTG
1 -AGGGGGAATCGGTACCCCCTG
**
7021834 -GGGGGAATATGTACCCCCTG
1 AGGGGGAATCGGTACCCCCTG
7021854 GACAATCTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
20 38 0.67
22 19 0.33
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.18
Consensus pattern (21 bp):
AGGGGGAATCGGTACCCCCTG
Found at i:7021853 original size:42 final size:42
Alignment explanation
Indices: 7021770--7021853 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
7021760 GACCGTTAGA
* *
7021770 CAGGGGGAATCGGTACCCCCTAGGGGGAATCGGTACTCCCTG
1 CAGGGGGAATCGGTACCCCCTAGGGGGAATAGGTACCCCCTG
* * *
7021812 CAGGGGGAATCTGTACCCCCTGGGGGGAATATGTACCCCCTG
1 CAGGGGGAATCGGTACCCCCTAGGGGGAATAGGTACCCCCTG
7021854 GACAATCTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.35, T:0.18
Consensus pattern (42 bp):
CAGGGGGAATCGGTACCCCCTAGGGGGAATAGGTACCCCCTG
Found at i:7024247 original size:92 final size:91
Alignment explanation
Indices: 7024139--7024308 Score: 270
Period size: 92 Copynumber: 1.9 Consensus size: 91
7024129 TATAATATTA
* *
7024139 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTAG-CTTTATGG
1 TATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCC-AGACTTTATGG
*
7024203 ATAATATTCAGCTAGCTGAAATGTGAT
65 ATAAGATTCAGCTAGCTGAAATGTGAT
*
7024230 TATACTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGG
1 TATA-TATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCAGACTTTATGG
*
7024295 ATAAGATTTAGCTA
65 ATAAGATTCAGCTA
7024309 ACTTGATAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 5 0.07
92 67 0.93
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (91 bp):
TATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCAGACTTTATGGA
TAAGATTCAGCTAGCTGAAATGTGAT
Found at i:7025806 original size:21 final size:21
Alignment explanation
Indices: 7025780--7025883 Score: 70
Period size: 21 Copynumber: 5.5 Consensus size: 21
7025770 TCTTAAGACA
7025780 GTTTCTCTTGAAACAAATTTT
1 GTTTCTCTTGAAACAAATTTT
*
7025801 GTTTCTCTTGAGAC--A----
1 GTTTCTCTTGAAACAAATTTT
*
7025816 GTTTCCCTTGAAACAAATTTT
1 GTTTCTCTTGAAACAAATTTT
* *
7025837 GTCTCTCTTGAGAC--A----
1 GTTTCTCTTGAAACAAATTTT
*
7025852 GTTTCCCTTGAAACAAATTTT
1 GTTTCTCTTGAAACAAATTTT
*
7025873 GTCTCTCTTGA
1 GTTTCTCTTGA
7025884 GACAGTTTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 24
0.63 0.12 0.25
Matches are distributed among these distances:
15 23 0.38
17 2 0.03
19 2 0.03
21 33 0.55
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (21 bp):
GTTTCTCTTGAAACAAATTTT
Found at i:7025939 original size:35 final size:35
Alignment explanation
Indices: 7025711--7025939 Score: 325
Period size: 36 Copynumber: 6.4 Consensus size: 35
7025701 TTGAATATGT
* *
7025711 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
7025746 -TTCTTTGGAACTAAGTTTTGTCTCTCTTAAGACAG
1 TTTCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
7025781 TTTCTCTTGAAACAAATTTTGTTTCTCTTGAGACAG
1 TTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAG
7025817 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTT-CCTTGAAACAAATTTTGTCTCTCTTGAGACAG
7025853 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTT-CCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
7025889 TTTCCCTTGAAACAAATTTTGTCTATCTTGAGATAG
1 TTT-CCTTGAAACAAATTTTGTCTCTCTTGAGACAG
7025925 TTTCCTTGAAACAAA
1 TTTCCTTGAAACAAA
7025940 ATCTTTGAAT
Statistics
Matches: 176, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
34 9 0.05
35 31 0.18
36 129 0.73
37 7 0.04
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (35 bp):
TTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:7026038 original size:99 final size:99
Alignment explanation
Indices: 7025765--7026038 Score: 275
Period size: 108 Copynumber: 2.7 Consensus size: 99
7025755 ACTAAGTTTT
* * * * *
7025765 GTCTCTCTTAAGACAGTTTCTCTTGAAACAAATTTTGTTTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGA-AGTTT-CCTTGAAAC
* * *
7025830 AAATTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAATTTT
64 AAA------ATCT-TTGA-ATATGTTTCCCTTGAAACAAATTTC
*
7025873 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGATAGTTTCCTTGAAACA
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGA-AGTTTCCTTGAAACA
*
7025938 AAATCTTTGAATATGTTTTCCTTGAAACAAA-TTC
65 AAATCTTTGAATATGTTTCCCTTGAAACAAATTTC
** * * *
7025972 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAG-AGTTTCTCTTGAAAC
1 GTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTATCTTGAGAAGTTTC-CTTGAAAC
7026036 AAA
64 AAA
7026039 TTTTGTCTCT
Statistics
Matches: 148, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
98 6 0.04
99 40 0.27
100 37 0.25
101 3 0.02
107 12 0.08
108 50 0.34
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (99 bp):
GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGAAGTTTCCTTGAAACAA
AATCTTTGAATATGTTTCCCTTGAAACAAATTTC
Found at i:7026048 original size:34 final size:35
Alignment explanation
Indices: 7025954--7026071 Score: 143
Period size: 35 Copynumber: 3.4 Consensus size: 35
7025944 TTGAATATGT
* *
7025954 TTTC-CTTGAAACAAA-TTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-AG
* * *
7025988 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAG-AG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGAAG
*
7026023 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGTAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAAG
7026058 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
7026072 CCAATCTTTG
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
34 22 0.31
35 35 0.49
36 2 0.03
37 13 0.18
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (35 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAAG
Found at i:7026105 original size:135 final size:135
Alignment explanation
Indices: 7025821--7026139 Score: 448
Period size: 136 Copynumber: 2.4 Consensus size: 135
7025811 AGACAGTTTC
* *
7025821 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGA
1 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
7025886 CAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGATAGTTTCCTTGAAACAAAATCTTTGAATA
66 -AGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGATAGTTTCCTTGAAACAAAATCTTTGAATA
*
7025951 TGTTTT
130 TGTTCT
* * * *
7025957 CCTTGAAACAAA-TTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAG
1 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAG
* * *
7026021 -AGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG-TAGTTTCTCTTGAAACACCAATCTTTGAA
65 AAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGATAGTTTC-CTTGAAACA-AAATCTTTGAA
7026084 TATGCTTCT
128 TATG-TTCT
* * *
7026093 -CTTGAAACAAATTTTGCCTCCCTGGAGATAGTTTCTCTTGAAACAAA
1 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAA
7026140 AAACCTTTGA
Statistics
Matches: 161, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
133 7 0.04
134 41 0.25
135 54 0.34
136 59 0.37
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (135 bp):
CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
AGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGATAGTTTCCTTGAAACAAAATCTTTGAATAT
GTTCT
Found at i:7026210 original size:33 final size:31
Alignment explanation
Indices: 7026123--7026264 Score: 180
Period size: 33 Copynumber: 4.4 Consensus size: 31
7026113 CCTGGAGATA
*
7026123 GTTTCTCTTGAAACAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAAAAAAAAACCTTTGAAATC
* *
7026154 GTTTCTCTTG-AAAAAAAACCCTTTGAAATT
1 GTTTCTCTTGAAAAAAAAAACCTTTGAAATC
7026184 GTTTCTCTTGACACAAAAAAAACCTTTGAAATC
1 GTTTCTCTTGA-A-AAAAAAAACCTTTGAAATC
7026217 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT-
1 GTTTCTCTTG--A-A-AAAAAAAACCTTTG-AAATC
7026252 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
7026265 CGCAAAGACC
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
30 27 0.27
31 11 0.11
32 2 0.02
33 28 0.28
35 28 0.28
36 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (31 bp):
GTTTCTCTTGAAAAAAAAAACCTTTGAAATC
Found at i:7026218 original size:63 final size:63
Alignment explanation
Indices: 7026123--7026264 Score: 198
Period size: 63 Copynumber: 2.2 Consensus size: 63
7026113 CCTGGAGATA
* * *
7026123 GTTTCTCTTGAAACAAAAAACCTTTGAAATCGTTTCTCTTG-A-AAAAAAACCCTTTGAAATT
1 GTTTCTCTTGAAAAAAAAAACCTTTGAAATCGTTTCTCTTGAACAAAAAAAACCTTTGAAAAT
7026184 GTTTCTCTTGACACAAAAAAAACCTTTGAAATCGTTTCTCTTGAAACACAAAAAAAACCTTTGAA
1 GTTTCTCTTGA-A-AAAAAAAACCTTTGAAATCGTTTCTCTTG--A-ACAAAAAAAACCTTTGAA
7026249 AAT
61 AAT
7026252 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
7026265 CGCAAAGACC
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
61 11 0.15
62 1 0.01
63 28 0.39
66 1 0.01
67 2 0.03
68 28 0.39
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (63 bp):
GTTTCTCTTGAAAAAAAAAACCTTTGAAATCGTTTCTCTTGAACAAAAAAAACCTTTGAAAAT
Found at i:7026265 original size:35 final size:34
Alignment explanation
Indices: 7026123--7026263 Score: 183
Period size: 35 Copynumber: 4.4 Consensus size: 34
7026113 CCTGGAGATA
7026123 GTTTCTCTTGAA-AC--AAAAAACCTTTGAAATC
1 GTTTCTCTTGAACACAAAAAAAACCTTTGAAATC
* *
7026154 GTTTCTCTTG---A-AAAAAAACCCTTTGAAATT
1 GTTTCTCTTGAACACAAAAAAAACCTTTGAAATC
7026184 GTTTCTCTTG-ACACAAAAAAAACCTTTGAAATC
1 GTTTCTCTTGAACACAAAAAAAACCTTTGAAATC
7026217 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT-
1 GTTTCTCTTG-AACACAAAAAAAACCTTTG-AAATC
7026252 GTTTCTCTTGAA
1 GTTTCTCTTGAA
7026264 ACGCAAAGAC
Statistics
Matches: 98, Mismatches: 4, Indels: 13
0.85 0.03 0.11
Matches are distributed among these distances:
29 1 0.01
30 25 0.26
31 10 0.10
32 1 0.01
33 27 0.28
34 2 0.02
35 28 0.29
36 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (34 bp):
GTTTCTCTTGAACACAAAAAAAACCTTTGAAATC
Found at i:7027918 original size:5 final size:5
Alignment explanation
Indices: 7027910--7028069 Score: 52
Period size: 5 Copynumber: 32.4 Consensus size: 5
7027900 TTGATTCATA
* * * **
7027910 TTATT TTATT TTATT TCATT TT-TT TCTCTT TGATT TT-TT TCCTT TT-TT
1 TTATT TTATT TTATT TTATT TTATT T-TATT TTATT TTATT TTATT TTATT
* ** *
7027958 TTATT TTATC TT-TT TTATT ATTATT TT-TT ACATT TT-TCCAT TGA-T
1 TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTAT---T TTATT
* * ** *
7028003 TTA-T TTAAT ATATTT TTATT TTA-T TTATT TTATT TTCCT TGATT ATT-TT
1 TTATT TTATT TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT -TTATT
7028052 TTATTT TTATT TTATT TT
1 TTA-TT TTATT TTATT TT
7028070 TTCTCTTTTG
Statistics
Matches: 114, Mismatches: 24, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
4 29 0.25
5 66 0.58
6 17 0.15
7 2 0.02
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:7027964 original size:16 final size:17
Alignment explanation
Indices: 7027908--7027979 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 17
7027898 CTTTGATTCA
7027908 TATTATTTTAT-TTTATT
1 TATTATTTTATCTTT-TT
*
7027925 TCATT-TTTT-TCTCTTT
1 T-ATTATTTTATCTTTTT
*
7027941 GATT-TTTT-TCCTTTTT
1 TATTATTTTAT-CTTTTT
7027957 T-TTATTTTATCTTTTT
1 TATTATTTTATCTTTTT
7027973 TATTATT
1 TATTATT
7027980 ATTTTTTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
15 10 0.22
16 19 0.42
17 13 0.29
18 3 0.07
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.76
Consensus pattern (17 bp):
TATTATTTTATCTTTTT
Found at i:7027981 original size:15 final size:13
Alignment explanation
Indices: 7027953--7028071 Score: 69
Period size: 14 Copynumber: 8.5 Consensus size: 13
7027943 TTTTTTTCCT
7027953 TTTTTTTATTTTA
1 TTTTTTTATTTTA
7027966 TCTTTTTTATTATTA
1 T-TTTTTTATT-TTA
*
7027981 TTTTTTACATTTTTCCA
1 TTTTTT-TA-TTTT--A
**
7027998 TTGATTTATTTAATA
1 TTTTTTTATTT--TA
*
7028013 TATTTTTATTTTA
1 TTTTTTTATTTTA
*
7028026 TTTATTTTATTTTC
1 TTT-TTTTATTTTA
* **
7028040 CTTGATTATTTT-
1 TTTTTTTATTTTA
7028052 TTATTTTTATTTTA
1 TT-TTTTTATTTTA
7028066 TTTTTT
1 TTTTTT
7028072 CTCTTTTGTC
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
12 1 0.01
13 24 0.30
14 27 0.34
15 19 0.24
16 3 0.04
17 6 0.08
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:7027994 original size:38 final size:38
Alignment explanation
Indices: 7027912--7027994 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 38
7027902 GATTCATATT
* *
7027912 ATTTTATTTTATTTCATTTTTTTCTCTTTGATTTTTTTC
1 ATTTT-TTTTATTTCATTTTTTTATCTTTGATTTTTTAC
* *
7027951 CTTTTTTTTATTTTATCTTTTTTAT-TATT-ATTTTTTAC
1 ATTTTTTTTATTTCAT-TTTTTTATCT-TTGATTTTTTAC
7027989 ATTTTT
1 ATTTTT
7027995 CCATTGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
38 24 0.65
39 13 0.35
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.76
Consensus pattern (38 bp):
ATTTTTTTTATTTCATTTTTTTATCTTTGATTTTTTAC
Found at i:7028006 original size:45 final size:41
Alignment explanation
Indices: 7027957--7028072 Score: 130
Period size: 45 Copynumber: 2.7 Consensus size: 41
7027947 TTTCCTTTTT
7027957 TTTATTTTATCT-TTTTTATTATTATTTTTTACATTTTTCCATTGA
1 TTTATTTTAT-TATTTTTATT-TTATTTTTT-CA-TTTTCC-TTGA
* *
7028002 TTTATTTAATATATTTTTATTTTATTTATTTTATTTTCCTTGA
1 TTTATTTTAT-TATTTTTATTTTATTT-TTTCATTTTCCTTGA
7028045 -TTATTTT-TTATTTTTATTTTATTTTTTC
1 TTTATTTTATTATTTTTATTTTATTTTTTC
7028073 TCTTTTGTCT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
39 3 0.05
40 16 0.25
41 1 0.02
42 6 0.09
43 4 0.06
44 6 0.09
45 17 0.27
46 11 0.17
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (41 bp):
TTTATTTTATTATTTTTATTTTATTTTTTCATTTTCCTTGA
Found at i:7028027 original size:20 final size:19
Alignment explanation
Indices: 7028002--7028068 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
7027992 TTTCCATTGA
*
7028002 TTTATTTAATATATTTTTAT
1 TTTATTT-ATTTATTTTTAT
**
7028022 TTTATTTATTTTATTTTCCT
1 TTTATTTA-TTTATTTTTAT
7028042 TGATTATTT-TTTATTTTTAT
1 T--TTATTTATTTATTTTTAT
7028062 TTTATTT
1 TTTATTT
7028069 TTTCTCTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.15
19 1 0.03
20 26 0.67
22 6 0.15
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (19 bp):
TTTATTTATTTATTTTTAT
Found at i:7029370 original size:50 final size:49
Alignment explanation
Indices: 7029310--7029434 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 49
7029300 GTAGCTGTAA
7029310 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCACCACATGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCACCA-ATGGGTAT
** * * * *
7029360 AGCGCGCCCCCTGCCCCGCGATATACGGTGATTTGGCGCCAGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCACCAATGGGTAT
* *
7029409 AACGCGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCGCTATAC
7029435 CTGGGTATCT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 29 0.45
50 36 0.55
ACGTcount: A:0.18, C:0.36, G:0.27, T:0.19
Consensus pattern (49 bp):
AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCACCAATGGGTAT
Found at i:7029676 original size:17 final size:18
Alignment explanation
Indices: 7029639--7029679 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7029629 CTATTATGTA
*
7029639 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
7029657 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
7029674 TTTACT
1 TTTACT
7029680 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:7029929 original size:108 final size:106
Alignment explanation
Indices: 7029740--7030012 Score: 393
Period size: 108 Copynumber: 2.6 Consensus size: 106
7029730 TGGAAATCAT
*
7029740 ATATCTCTACACTTTGCTGATACAGTAACATTTTAACG-TTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATAC-GTAACA-TTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
7029804 TATTTAGTTGATTATTTAATGCATGATTATTATATTAGAATTAA
64 TAATTAGTTGATTATTTAATGCATGATTATTAT-TAAGAATTAA
*
7029848 ATATCTCGACACTTTGCTGATACGGTAACATTTAATGTTTTAATTTAATTTAAATTATTAGTAAT
1 ATATCTCGACACTTTGCTGATAC-GTAACATTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
7029913 AATTAGTTGATTATTTAATGCATGATTATTATTAAGAATTAA
65 AATTAGTTGATTATTTAATGCATGATTATTATTAAGAATTAA
* *
7029955 ATA--TCGACAC-TTGCTGATACG--A-TTTTAACATTTTAA-TTAA-TTAAATTATTAGTAATA
1 ATATCTCGACACTTTGCTGATACGTAACATTTAACGTTTTAATTTAATTTAAATTATTAGTAATA
7030012 A
66 A
7030013 ATTATTTAAT
Statistics
Matches: 156, Mismatches: 8, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
98 18 0.12
99 4 0.03
100 11 0.07
101 1 0.01
103 1 0.01
104 10 0.06
105 7 0.04
107 18 0.12
108 86 0.55
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (106 bp):
ATATCTCGACACTTTGCTGATACGTAACATTTAACGTTTTAATTTAATTTAAATTATTAGTAATA
ATTAGTTGATTATTTAATGCATGATTATTATTAAGAATTAA
Found at i:7031840 original size:9 final size:9
Alignment explanation
Indices: 7031828--7031877 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
7031818 ACCTACTCAG
*
7031828 GACGACGAC
1 GACGACGAT
7031837 GACGACGAT
1 GACGACGAT
*
7031846 GACGAGGAT
1 GACGACGAT
* *
7031855 GACGATGGT
1 GACGACGAT
*
7031864 GACGACGAC
1 GACGACGAT
7031873 GACGA
1 GACGA
7031878 TGATTATGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.38, T:0.08
Consensus pattern (9 bp):
GACGACGAT
Found at i:7038685 original size:25 final size:25
Alignment explanation
Indices: 7038637--7038685 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7038627 AAATTTATAA
**
7038637 AATTTTATAGAAAATAAACTTAAAG
1 AATTTTATAGAAAATAAAAATAAAG
7038662 AATTTTATAGAAAA-AGAAAATAAA
1 AATTTTATAGAAAATA-AAAATAAA
7038686 TTATCTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
AATTTTATAGAAAATAAAAATAAAG
Found at i:7039742 original size:2 final size:2
Alignment explanation
Indices: 7039735--7039763 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7039725 ATTATATTGT
7039735 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7039764 TAATGATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7041205 original size:2 final size:2
Alignment explanation
Indices: 7041198--7041224 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7041188 TTTATTAATT
7041198 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7041225 TTGCTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7041240 original size:4 final size:4
Alignment explanation
Indices: 7041233--7041339 Score: 58
Period size: 4 Copynumber: 25.8 Consensus size: 4
7041223 ATTTGCTATT
* * * *
7041233 TTTA TTTA TTTA -TTA TATA TATA TATTA TTTTA CTTG TTTA TTGT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA -TTTA TTTA TTTA TT-TA TTTA
* * * *
7041282 TTTA TTTA TTTA TTTTA TTTA TATT- TTTT TCTTC TTTT TTTA TTTTT
1 TTTA TTTA TTTA -TTTA TTTA T-TTA TTTA T-TTA TTTA TTTA -TTTA
7041329 TTTA TTTA TTT
1 TTTA TTTA TTT
7041340 TACTTACTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
3 6 0.07
4 57 0.70
5 18 0.22
6 1 0.01
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:7041287 original size:12 final size:12
Alignment explanation
Indices: 7041233--7041339 Score: 58
Period size: 13 Copynumber: 8.6 Consensus size: 12
7041223 ATTTGCTATT
7041233 TTTATTTATTTA
1 TTTATTTATTTA
* *
7041245 -TTATATATATA
1 TTTATTTATTTA
* *
7041256 TATTATTTTACTTG
1 T-TTA-TTTATTTA
7041270 TTTATTGT-TTTA
1 TTTATT-TATTTA
7041282 TTTATTTATTTA
1 TTTATTTATTTA
7041294 TTTTATTTATATT-
1 -TTTATTTAT-TTA
* * *
7041307 TTTTTCTTCTTTT
1 TTTAT-TTATTTA
*
7041320 TTTATTTTTTTTA
1 TTTA-TTTATTTA
7041333 TTTATTT
1 TTTATTT
7041340 TACTTACTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
11 10 0.14
12 23 0.32
13 31 0.43
14 8 0.11
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTATTTATTTA
Found at i:7041353 original size:30 final size:30
Alignment explanation
Indices: 7041290--7041388 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 30
7041280 TATTTATTTA
*
7041290 TTTATTTTATTTATATTT-TTTTCTTCTTTT
1 TTTATTTTATTT-TATTTATTTTCTTCTTAT
7041320 TTTATTTT-TTTTATTTATTTTACTTAC-TAT
1 TTTATTTTATTTTATTTATTTT-CTT-CTTAT
* *
7041350 TTTATCTTTGTTTTCTTTATCTTATCTT-TTAT
1 TTTAT-TTTATTTTATTTAT-TT-TCTTCTTAT
*
7041382 TTAATTT
1 TTTATTT
7041389 GTTTTTTTCT
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
28 5 0.09
29 7 0.12
30 18 0.31
31 6 0.10
32 16 0.28
33 5 0.09
34 1 0.02
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.75
Consensus pattern (30 bp):
TTTATTTTATTTTATTTATTTTCTTCTTAT
Found at i:7044510 original size:12 final size:12
Alignment explanation
Indices: 7044479--7044520 Score: 66
Period size: 12 Copynumber: 3.3 Consensus size: 12
7044469 CAATCAGAAC
7044479 AAAAAGAGAAAA
1 AAAAAGAGAAAA
7044491 AAGTAAAGAGAAAA
1 AA--AAAGAGAAAA
7044505 AAAAAGAGAAAA
1 AAAAAGAGAAAA
7044517 AAAA
1 AAAA
7044521 GGAAAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 16 0.57
14 12 0.43
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:7044525 original size:10 final size:11
Alignment explanation
Indices: 7044474--7044526 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 11
7044464 AGATTCAATC
*
7044474 AGAACAAAAAG
1 AGAAAAAAAAG
7044485 AGAAAAAAGTAAAG
1 AG-AAAAA--AAAG
7044499 AGAAAAAAAAAG
1 AG-AAAAAAAAG
7044511 AGAAAAAAAAG
1 AGAAAAAAAAG
7044522 -GAAAA
1 AGAAAA
7044527 TTGAAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 5 0.13
11 11 0.29
12 10 0.26
14 12 0.32
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:7044526 original size:17 final size:18
Alignment explanation
Indices: 7044506--7044543 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7044496 AAGAGAAAAA
7044506 AAAAGAGAA-AAAAAAGG
1 AAAAGAGAAGAAAAAAGG
**
7044523 AAAATTGAAGAAAAAAGG
1 AAAAGAGAAGAAAAAAGG
7044541 AAA
1 AAA
7044544 CAAGATGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (18 bp):
AAAAGAGAAGAAAAAAGG
Found at i:7044717 original size:69 final size:69
Alignment explanation
Indices: 7044602--7044736 Score: 209
Period size: 69 Copynumber: 2.0 Consensus size: 69
7044592 TCAAACTATG
* *
7044602 AGATTGATCAAGCACAATCATTTCCGAATCACTAAGCCACTTCACTCGAAGATCATAGAGTATCA
1 AGATTGATCAAGCACAATCATTTCCGAATCACTAAGCCACTCCACTCGAAGATCATAGAGCATCA
7044667 AATA
66 AATA
* * *
7044671 AGATTGATCAAGCACAATCATTTCTGAATTACTGAA-TCACTCCACTCGAAGATCATAGAGCATC
1 AGATTGATCAAGCACAATCATTTCCGAATCACT-AAGCCACTCCACTCGAAGATCATAGAGCATC
7044735 AA
65 AA
7044737 GAGATACACA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 58 0.97
70 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (69 bp):
AGATTGATCAAGCACAATCATTTCCGAATCACTAAGCCACTCCACTCGAAGATCATAGAGCATCA
AATA
Found at i:7046246 original size:37 final size:38
Alignment explanation
Indices: 7046191--7046265 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
7046181 GAAGATTTTA
* * *
7046191 TCTCGCTTGAGATAGTTTCCCTTGAAACA-AAATATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
*
7046228 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
7046266 AAACATTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 26 0.79
38 7 0.21
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
Found at i:7046338 original size:37 final size:37
Alignment explanation
Indices: 7046263--7046357 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
7046253 AACATAAACA
* * * *
7046263 TTGAAACA-TTTCCCTTGAAAC-GAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATTTTATCTCCC
*
7046298 TTGAGATAGTTTCCCTTGAAACAAAATTTTATCTCCC
1 TTGAGACAGTTTCCCTTGAAACAAAATTTTATCTCCC
*
7046335 TTGAGACAGTTTCTCTTGAAACA
1 TTGAGACAGTTTCCCTTGAAACA
7046358 TAAACATTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 6 0.12
36 13 0.25
37 32 0.63
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATTTTATCTCCC
Found at i:7046360 original size:101 final size:102
Alignment explanation
Indices: 7046185--7046456 Score: 440
Period size: 101 Copynumber: 2.7 Consensus size: 102
7046175 TAAAAAGAAG
* * *
7046185 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
7046250 TGAAACATAAACATTG-AAACATTTCCCTTGAAACGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
*
7046286 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
7046351 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* * * *
7046388 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
7046452 TGAAA
66 TGAAA
7046457 TAAATTATTT
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
101 109 0.69
102 50 0.31
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
Found at i:7046420 original size:36 final size:36
Alignment explanation
Indices: 7046373--7046462 Score: 162
Period size: 36 Copynumber: 2.5 Consensus size: 36
7046363 ATTGAAAACA
7046373 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
* *
7046409 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
7046445 TTTCCCTTGAAATAAATT
1 TTTCCCTTGAAATAAATT
7046463 ATTTGAATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
Found at i:7046469 original size:101 final size:102
Alignment explanation
Indices: 7046191--7046541 Score: 431
Period size: 101 Copynumber: 3.5 Consensus size: 102
7046181 GAAGATTTTA
* * *
7046191 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* *
7046256 ATAAACATTG-AAACATTTCCCTTGAAACGAATTTTG
66 ATAAACATTGAAAACATTTCCCTTGAAACAAATTTCG
* *
7046292 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
*
7046357 ATAAACATTGAAAACATTTCCCTTGAAATAAATTTCG
66 ATAAACATTGAAAACATTTCCCTTGAAACAAATTTCG
* *
7046394 TCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG-AA-
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* * ** *** *
7046456 ATAAATTATTTGAATATGTTTTATTTGAAACAAATTTCA
66 ATAAA-CA-TTGAAAACATTTCCCTTGAAACAAATTTCG
* ** * * * *
7046495 TCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGA
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGA
7046542 AACAAATTTC
Statistics
Matches: 222, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
99 5 0.02
100 3 0.01
101 147 0.66
102 67 0.30
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (102 bp):
TCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
ATAAACATTGAAAACATTTCCCTTGAAACAAATTTCG
Found at i:7046545 original size:123 final size:123
Alignment explanation
Indices: 7046414--7046637 Score: 331
Period size: 123 Copynumber: 1.8 Consensus size: 123
7046404 GACAGTTTCC
* * * * *
7046414 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTATTTGAATATGTTTTA
1 CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCA
** *
7046479 TTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
66 CCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
* * *
7046537 CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCC
1 CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCA
**
7046602 CCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
66 CCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCT
7046638 CTTGAAACAC
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
123 88 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (123 bp):
CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCA
CCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
Found at i:7046645 original size:65 final size:65
Alignment explanation
Indices: 7046541--7046714 Score: 233
Period size: 65 Copynumber: 2.6 Consensus size: 65
7046531 GTCTCTCTTG
* * * **
7046541 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
*
7046606 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
7046671 TA
64 TA
* * *
7046673 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACAA
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
7046715 CATATATTTT
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
65 37 0.38
66 4 0.04
67 32 0.33
68 24 0.25
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:7046711 original size:67 final size:67
Alignment explanation
Indices: 7046541--7046713 Score: 226
Period size: 67 Copynumber: 2.6 Consensus size: 67
7046531 GTCTCTCTTG
* * * * **
7046541 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
7046604 TA
66 TA
* *
7046606 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
7046671 TA
66 TA
* *
7046673 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACA
7046714 ACATATATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 33 0.34
66 2 0.02
67 37 0.39
68 24 0.25
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:7047688 original size:106 final size:107
Alignment explanation
Indices: 7047423--7047689 Score: 317
Period size: 110 Copynumber: 2.5 Consensus size: 107
7047413 ACGAAGGGGC
* * * *
7047423 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCT
* * *
7047488 CAACTTCATAACGAAGGGGCGACTGATTGTCAACAAACAACT
66 CAACTTCACAACGAAGGGGAGACTGACTGTCAACAAACAACT
** *
7047530 TT-TTAGTCTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACA
1 TTCCCAGT-TC---CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACA
* * * *
7047594 AGCTCAACTTCACAGCGAAGGGGA-AGTTGGCTGTCAACAAATAA-T
62 AGCTCAACTTCACAACGAAGGGGAGA-CTGACTGTCAACAAACAACT
*
7047639 TTCCCAGTTCCAGAGCCAATTTCAACTTCAC-GACAAAGGATATTGAACTCG
1 TTCCCAGTTCCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGAACTCG
7047690 GAACAATACT
Statistics
Matches: 135, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
105 1 0.01
106 40 0.30
107 3 0.02
109 6 0.04
110 85 0.63
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (107 bp):
TTCCCAGTTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCT
CAACTTCACAACGAAGGGGAGACTGACTGTCAACAAACAACT
Found at i:7048970 original size:26 final size:28
Alignment explanation
Indices: 7048927--7048986 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
7048917 ATGCATTTTC
* * *
7048927 TTTTTTTACTTTAGTATAT-ATTTTTAT
1 TTTTTTTACATTAGTATATAAATATTAT
*
7048954 TTTTTTTAGATTA-TATATAAATATTAT
1 TTTTTTTACATTAGTATATAAATATTAT
7048981 TTTTTT
1 TTTTTT
7048987 ATTATCAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (28 bp):
TTTTTTTACATTAGTATATAAATATTAT
Found at i:7049013 original size:2 final size:2
Alignment explanation
Indices: 7049006--7049056 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
7048996 TTTATTAATT
*
7049006 TA TA TA TA TA TA TA TA TA TA T- TA T- TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7049046 TA TA TA TA TA T
1 TA TA TA TA TA T
7049057 TATTACTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:7049027 original size:26 final size:26
Alignment explanation
Indices: 7048998--7049052 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
7048988 TTATCAATTT
7048998 TATTAATTTATATATATATATATATA
1 TATTAATTTATATATATATATATATA
*
7049024 TATTATTTTATATATATATATATATA
1 TATTAATTTATATATATATATATATA
7049050 TAT
1 TAT
7049053 ATATTATTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTAATTTATATATATATATATATA
Found at i:7049080 original size:27 final size:28
Alignment explanation
Indices: 7049050--7049105 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
7049040 TATATATATA
7049050 TATATATTATTACTTATTTGT-TTTATT
1 TATATATTATTACTTATTTGTCTTTATT
* * * *
7049077 TATATTTTTTTTCTTATTTTTCTTTATT
1 TATATATTATTACTTATTTGTCTTTATT
7049105 T
1 T
7049106 TTCTTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (28 bp):
TATATATTATTACTTATTTGTCTTTATT
Found at i:7049103 original size:10 final size:10
Alignment explanation
Indices: 7049071--7049117 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
7049061 ACTTATTTGT
* *
7049071 TTTATTTATA
1 TTTATTTTTC
7049081 TTT-TTTTTC
1 TTTATTTTTC
7049090 -TTATTTTTC
1 TTTATTTTTC
7049099 TTTATTTTTC
1 TTTATTTTTC
7049109 TTTATTTTT
1 TTTATTTTT
7049118 TTATATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 2 0.06
9 10 0.30
10 21 0.64
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:7049116 original size:28 final size:27
Alignment explanation
Indices: 7049048--7049121 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 27
7049038 TATATATATA
*
7049048 TATATATATTATTACTTATTTGTTTTATT
1 TATATTTATT-TT-CTTATTTGTTTTATT
* *
7049077 TATATTTTTTTTCTTATTTTTCTTTATT
1 TATATTTATTTTCTTATTTGT-TTTATT
* * *
7049105 TTTCTTTATTTTTTTAT
1 TATATTTATTTTCTTAT
7049122 ATTTATTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 8 0.22
28 21 0.57
29 8 0.22
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (27 bp):
TATATTTATTTTCTTATTTGTTTTATT
Found at i:7049125 original size:20 final size:19
Alignment explanation
Indices: 7049063--7049117 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
7049053 ATATTATTAC
* *
7049063 TTATTTGTT-TTATTTATAT
1 TTATTT-TTCTTATTTTTCT
7049082 TT-TTTTTCTTATTTTTCT
1 TTATTTTTCTTATTTTTCT
7049100 TTATTTTTCTTTATTTTT
1 TTATTTTTC-TTATTTTT
7049118 TTATATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 2 0.06
18 13 0.42
19 8 0.26
20 8 0.26
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (19 bp):
TTATTTTTCTTATTTTTCT
Found at i:7049126 original size:24 final size:22
Alignment explanation
Indices: 7049063--7049130 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 22
7049053 ATATTATTAC
7049063 TTATTTGTTTTATTTATATTTTTT
1 TTATTT-TTTTATTT-TATTTTTT
* *
7049087 TTCTTATTTTT-CTTTATTTTTCT
1 TTATT-TTTTTATTTTATTTTT-T
7049110 TTATTTTTTTATATTTATTTT
1 TTATTTTTTTAT-TTTATTTT
7049131 ACTTACTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
22 12 0.33
23 7 0.19
24 16 0.44
25 1 0.03
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (22 bp):
TTATTTTTTTATTTTATTTTTT
Found at i:7049221 original size:27 final size:27
Alignment explanation
Indices: 7049155--7049221 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
7049145 CTTTGCTTTC
* * *
7049155 TTTATCTTATCTTTTATTTAATTTGTTTT
1 TTTAT-TTAT-TTTAATTTAATTTATTTA
* * *
7049184 TTTCTTCATTTTAATTTTATTTATTTA
1 TTTATTTATTTTAATTTAATTTATTTA
7049211 TTTATTTATTT
1 TTTATTTATTT
7049222 CTTACCTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 23 0.77
28 3 0.10
29 4 0.13
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (27 bp):
TTTATTTATTTTAATTTAATTTATTTA
Found at i:7050668 original size:21 final size:21
Alignment explanation
Indices: 7050652--7050702 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
7050642 TAATTTTTTT
7050652 AAAATATTTATTTATTTTTAA
1 AAAATATTTATTTATTTTTAA
*
7050673 AAAATATTTATTTAATTTTAA
1 AAAATATTTATTTATTTTTAA
*
7050694 ATAAT-TTTA
1 AAAATATTTA
7050703 ATCTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAAATATTTATTTATTTTTAA
Found at i:7050675 original size:20 final size:20
Alignment explanation
Indices: 7050646--7050694 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
7050636 AGAATATAAT
*
7050646 TTTTTTAAAATATTTATTTA
1 TTTTTAAAAATATTTATTTA
7050666 TTTTTAAAAAATATTTATTTA
1 TTTTT-AAAAATATTTATTTA
*
7050687 ATTTTAAA
1 TTTTTAAA
7050695 TAATTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAAATATTTATTTA
Found at i:7053630 original size:13 final size:13
Alignment explanation
Indices: 7053612--7053647 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
7053602 AATCATATGA
7053612 TGACATGTGTCAT
1 TGACATGTGTCAT
7053625 TGACATGTGTCAT
1 TGACATGTGTCAT
*
7053638 GGACATGTGT
1 TGACATGTGT
7053648 AATTTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (13 bp):
TGACATGTGTCAT
Found at i:7057325 original size:21 final size:24
Alignment explanation
Indices: 7057286--7057328 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
7057276 TACTGACATG
7057286 TCATTATAAGATAATATCATGTTA
1 TCATTATAAGATAATATCATGTTA
7057310 TCATTA-AAGA-AA-ATCATGT
1 TCATTATAAGATAATATCATGT
7057329 CAGTAGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 4 0.21
24 6 0.32
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (24 bp):
TCATTATAAGATAATATCATGTTA
Found at i:7062597 original size:13 final size:13
Alignment explanation
Indices: 7062579--7062605 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7062569 CATAGTTGAA
7062579 CAGTCTTCATATG
1 CAGTCTTCATATG
7062592 CAGTCTTCATATG
1 CAGTCTTCATATG
7062605 C
1 C
7062606 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:7069304 original size:15 final size:15
Alignment explanation
Indices: 7069284--7069314 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7069274 CAACAAATAA
7069284 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
7069299 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
7069314 A
1 A
7069315 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:7073939 original size:105 final size:105
Alignment explanation
Indices: 7073757--7074071 Score: 549
Period size: 105 Copynumber: 3.0 Consensus size: 105
7073747 GGAACATGCT
*
7073757 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTGGAGCAAGGCTGCTCCTTGGTG
1 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
*
7073822 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCATCC
66 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
* * * *
7073862 CATGCATCTCTTGGACAAAGGCCTCATCAATCTTTCCTGAGGTAGAACAAGGCTGCTCCTTGGTG
1 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
7073927 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
66 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
* * *
7073967 CATGCGTCCCTTGAACAAAGGCCACGTCAATCTTTCCTGAGGTAGAGTAAGGCTGCTCCTTGGTG
1 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
7074032 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
66 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
7074072 GAATCCGGAT
Statistics
Matches: 197, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 197 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (105 bp):
CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
Found at i:7074498 original size:9 final size:9
Alignment explanation
Indices: 7074462--7074544 Score: 57
Period size: 9 Copynumber: 9.1 Consensus size: 9
7074452 GGGCATTGTC
7074462 TCTT-TCTT
1 TCTTCTCTT
7074470 TCTTCTCCCGTT
1 TCTTCT--C-TT
*
7074482 TTTTCTCTT
1 TCTTCTCTT
7074491 TCTTCTCTT
1 TCTTCTCTT
*
7074500 TCTTTTCTT
1 TCTTCTCTT
7074509 TCTTC-CTT
1 TCTTCTCTT
*
7074517 TCCTTCT-TGG
1 T-CTTCTCT-T
*
7074527 CCTTCTC-T
1 TCTTCTCTT
7074535 TCTTCTCTT
1 TCTTCTCTT
7074544 T
1 T
7074545 TAATCTACAA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
8 14 0.24
9 35 0.60
10 1 0.02
11 1 0.02
12 7 0.12
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.64
Consensus pattern (9 bp):
TCTTCTCTT
Found at i:7077280 original size:16 final size:16
Alignment explanation
Indices: 7077259--7077291 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7077249 TAATAAATAA
7077259 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
7077275 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
7077291 A
1 A
7077292 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:7077371 original size:16 final size:16
Alignment explanation
Indices: 7077346--7077388 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
7077336 TCATGTTCAA
7077346 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
7077362 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
7077378 ATAAACGAACA
1 ATAAACGAACA
7077389 TAAATGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:7078156 original size:15 final size:14
Alignment explanation
Indices: 7078136--7078167 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
7078126 AATGAACATA
7078136 AACGAACATAAATCG
1 AACGAACATAAA-CG
7078151 AACGAACATAAACG
1 AACGAACATAAACG
7078165 AAC
1 AAC
7078168 ATAACCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.56, C:0.22, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:7078177 original size:14 final size:14
Alignment explanation
Indices: 7078160--7078192 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7078150 GAACGAACAT
7078160 AAACGAACATAACC
1 AAACGAACATAACC
7078174 AAACGAACATAACC
1 AAACGAACATAACC
*
7078188 GAACG
1 AAACG
7078193 TTCACGAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.27, G:0.12, T:0.06
Consensus pattern (14 bp):
AAACGAACATAACC
Found at i:7078202 original size:24 final size:24
Alignment explanation
Indices: 7078129--7078191 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
7078119 ATAAATGAAT
*
7078129 GAACATAAACGAACATAAATCGAAC
1 GAACATAAACGAACAT-AACCGAAC
*
7078154 GAACATAAACGAACATAACCAAAC
1 GAACATAAACGAACATAACCGAAC
*
7078178 GAACATAACCGAAC
1 GAACATAAACGAAC
7078192 GTTCACGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.56, C:0.24, G:0.11, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:7079564 original size:24 final size:24
Alignment explanation
Indices: 7079537--7079583 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7079527 AAAACTGCCG
*
7079537 CGTAGAATTTACACCGAAGTGTCA
1 CGTAGAATATACACCGAAGTGTCA
*
7079561 CGTAGAATATGCACCGAAGTGTC
1 CGTAGAATATACACCGAAGTGTC
7079584 GCATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (24 bp):
CGTAGAATATACACCGAAGTGTCA
Done.