Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 26 of 195
Found at i:6044943 original size:23 final size:22
Alignment explanation
Indices: 6044908--6044969 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
6044898 ATAATTTATT
* * *
6044908 AATAAATAAATATTAATTTTTAA
1 AATAATTATATATTAA-TATTAA
6044931 AATAATTATATA-TAA-ATTAA
1 AATAATTATATATTAATATTAA
*
6044951 AATAATTATTTATTAATAT
1 AATAATTATATATTAATAT
6044970 AATAAATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 15 0.45
21 3 0.09
22 5 0.15
23 10 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATTATATATTAATATTAA
Found at i:6052676 original size:3 final size:3
Alignment explanation
Indices: 6052668--6052707 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6052658 TCTTAGCGAT
*
6052668 AAG AAG AAG CAG AAG AAG AAG AAG -AG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
6052708 AGCTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.65, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6055789 original size:16 final size:16
Alignment explanation
Indices: 6055768--6055834 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
6055758 GAAGAGTTTA
6055768 TAATATTGTTGATTTG
1 TAATATTGTTGATTTG
* * *
6055784 TAATATTATTAATTAG
1 TAATATTGTTGATTTG
*
6055800 T-ATA-TGCTT-ATAT-
1 TAATATTG-TTGATTTG
6055813 TAATATTGTTGATTTG
1 TAATATTGTTGATTTG
*
6055829 TGATAT
1 TAATAT
6055835 ATTAATGCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
13 1 0.03
14 8 0.21
15 10 0.26
16 19 0.50
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (16 bp):
TAATATTGTTGATTTG
Found at i:6062546 original size:3 final size:3
Alignment explanation
Indices: 6062538--6062562 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6062528 AAATGCTTAG
6062538 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
6062563 TTGTATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:6063174 original size:40 final size:40
Alignment explanation
Indices: 6063125--6063207 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
6063115 GGATGTTTAC
6063125 AAAGTCACATTGATCTTATTATTATACTATGTAAATGTTT
1 AAAGTCACATTGATCTTATTATTATACTATGTAAATGTTT
6063165 AAAGTCACATTGATCTTATTATTATACTATGTAAATGTTT
1 AAAGTCACATTGATCTTATTATTATACTATGTAAATGTTT
6063205 AAA
1 AAA
6063208 TGAAGTCTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (40 bp):
AAAGTCACATTGATCTTATTATTATACTATGTAAATGTTT
Found at i:6064514 original size:14 final size:14
Alignment explanation
Indices: 6064494--6064522 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6064484 CCTTCCAATA
6064494 ATTTTTTTTT-TAG
1 ATTTTTTTTTATAG
6064507 ATTTTTTTTTATAG
1 ATTTTTTTTTATAG
6064521 AT
1 AT
6064523 CAATTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
ATTTTTTTTTATAG
Found at i:6064542 original size:2 final size:2
Alignment explanation
Indices: 6064535--6064567 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6064525 ATTCTCTTAT
6064535 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6064568 TGTTGGATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6066940 original size:18 final size:20
Alignment explanation
Indices: 6066917--6066955 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6066907 AGATGGCATG
6066917 AACTGG-AA-AAATGATAGT
1 AACTGGCAACAAATGATAGT
6066935 AACTGGCAACGAAATGATAGT
1 AACTGGCAAC-AAATGATAGT
6066956 GAAAAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
21 10 0.56
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (20 bp):
AACTGGCAACAAATGATAGT
Found at i:6080092 original size:33 final size:29
Alignment explanation
Indices: 6080055--6080133 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
6080045 ACAAGTGATC
*
6080055 AAATTATATCCAGACAATAAAAAATAAATAATT
1 AAATTATATCC--A-AATAAAAAATAAA-AATA
* *
6080088 AAATTATATTCAAATAATAAATAAAAATA
1 AAATTATATCCAAATAAAAAATAAAAATA
*
6080117 AAATTATATTCAAATAA
1 AAATTATATCCAAATAA
6080134 TGAAACAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 20 0.47
30 12 0.28
31 1 0.02
33 10 0.23
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.30
Consensus pattern (29 bp):
AAATTATATCCAAATAAAAAATAAAAATA
Found at i:6080128 original size:29 final size:29
Alignment explanation
Indices: 6080070--6080148 Score: 104
Period size: 30 Copynumber: 2.7 Consensus size: 29
6080060 ATATCCAGAC
* *
6080070 AATAAAAAATAAATAATTAAATTATATTCA
1 AATAATAAATAAA-AATAAAATTATATTCA
6080100 AATAATAAATAAAAATAAAATTATATTCA
1 AATAATAAATAAAAATAAAATTATATTCA
* *
6080129 AATAATGAAACAATAATAAA
1 AATAAT-AAATAAAAATAAA
6080149 GTAGTGGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 21 0.48
30 23 0.52
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
AATAATAAATAAAAATAAAATTATATTCA
Found at i:6080925 original size:52 final size:53
Alignment explanation
Indices: 6080868--6080973 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
6080858 CTATTTGAGG
** * * *
6080868 TTTGCCAAAAGTGCTGAAAAGC-TTAGTAAAAAAAATGGGGCTTTTATTTCAT
1 TTTGCCAAAAGTGCTGAAAAGCACCAGCAAAAAAAACGGGGCTTCTATTTCAT
* *
6080920 TTTGCCAAAGGTGCTGAAAAGCACCAGCAAAGAAAACGGGGCTTCTATTTCAT
1 TTTGCCAAAAGTGCTGAAAAGCACCAGCAAAAAAAACGGGGCTTCTATTTCAT
6080973 T
1 T
6080974 CAATTTGACC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 21 0.46
53 25 0.54
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (53 bp):
TTTGCCAAAAGTGCTGAAAAGCACCAGCAAAAAAAACGGGGCTTCTATTTCAT
Found at i:6082310 original size:17 final size:17
Alignment explanation
Indices: 6082285--6082319 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6082275 GTATTTTAAT
* *
6082285 ATTTTTATATAATAAAA
1 ATTTATATATAACAAAA
6082302 ATTTATATATAACAAAA
1 ATTTATATATAACAAAA
6082319 A
1 A
6082320 ATTTCAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTATATATAACAAAA
Found at i:6085480 original size:44 final size:44
Alignment explanation
Indices: 6085431--6085522 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
6085421 GATAACTGAA
* * * * *
6085431 AAATAAATAATAACTTACTAGTTAATTATTAATAACTTAGTAAT
1 AAATAAATAATAACCTAATAGTAAATTAGTAATAACTTAATAAT
* * *
6085475 AAATAAATGATAACCTAATAGTAAATTAGTGATAATTTAATAAT
1 AAATAAATAATAACCTAATAGTAAATTAGTAATAACTTAATAAT
6085519 AAAT
1 AAAT
6085523 CAACTTCAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (44 bp):
AAATAAATAATAACCTAATAGTAAATTAGTAATAACTTAATAAT
Found at i:6085487 original size:22 final size:22
Alignment explanation
Indices: 6085462--6085522 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
6085452 TTAATTATTA
*
6085462 ATAACTTAGTAATAAATAAATG
1 ATAACTTAATAATAAATAAATG
* * * *
6085484 ATAACCTAATAGTAAATTAGTG
1 ATAACTTAATAATAAATAAATG
*
6085506 ATAATTTAATAATAAAT
1 ATAACTTAATAATAAAT
6085523 CAACTTCAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAATAAATAAATG
Found at i:6085784 original size:22 final size:21
Alignment explanation
Indices: 6085759--6085860 Score: 87
Period size: 22 Copynumber: 4.7 Consensus size: 21
6085749 AATTATAGAT
*
6085759 AATTTAGTAGTACATAATGAAA
1 AATTTAGTAGTAAATAAT-AAA
* *
6085781 AATTAAGTAGTAAATTAATAAT
1 AATTTAGTAGTAAA-TAATAAA
**
6085803 AACATAGTAGTAAATATATAAA
1 AATTTAGTAGTAAATA-ATAAA
* * *
6085825 AATTTAATAGTAAATCATTAAT
1 AATTTAGTAGTAAAT-AATAAA
*
6085847 AATTTAATAGTAAA
1 AATTTAGTAGTAAA
6085861 ATGATAACTT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
21 2 0.03
22 58 0.89
23 5 0.08
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (21 bp):
AATTTAGTAGTAAATAATAAA
Found at i:6085858 original size:44 final size:44
Alignment explanation
Indices: 6085757--6085889 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 44
6085747 TGAATTATAG
* *
6085757 ATAATTTAGTAGTACATAATGAAAAATTAAGTAGTAAATTAATA
1 ATAATTTAGTAGTAAATAATGAAAAATTAAGTAGTAAATCAATA
** *
6085801 ATAACATAGTAGTAAATATAT-AAAAATTTAA-TAGTAAATCATTA
1 ATAATTTAGTAGTAAATA-ATGAAAAA-TTAAGTAGTAAATCAATA
* * * * *
6085845 ATAATTTAATAGT-AA-AATGATAACTT-AGTACTAAATCACTA
1 ATAATTTAGTAGTAAATAATGAAAAATTAAGTAGTAAATCAATA
6085886 ATAA
1 ATAA
6085890 CGTAATAGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 19 0.26
42 4 0.05
43 2 0.03
44 41 0.56
45 6 0.08
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (44 bp):
ATAATTTAGTAGTAAATAATGAAAAATTAAGTAGTAAATCAATA
Found at i:6085889 original size:22 final size:22
Alignment explanation
Indices: 6085828--6085926 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 22
6085818 ATATAAAAAT
* * *
6085828 TTAATAGTAAATCATTAATAAT
1 TTAATACTAAATCACTAATAAC
* *
6085850 TTAATAGTAAA--A-TGATAAC
1 TTAATACTAAATCACTAATAAC
*
6085869 TTAGTACTAAATCACTAATAAC
1 TTAATACTAAATCACTAATAAC
* * *
6085891 GTAATAGTAAATTACTAATAAC
1 TTAATACTAAATCACTAATAAC
6085913 TTAATTA-TAAATCA
1 TTAA-TACTAAATCA
6085927 GTGCTAATTT
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
19 14 0.23
20 1 0.02
21 1 0.02
22 44 0.71
23 2 0.03
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (22 bp):
TTAATACTAAATCACTAATAAC
Found at i:6085935 original size:85 final size:88
Alignment explanation
Indices: 6085757--6085937 Score: 192
Period size: 85 Copynumber: 2.1 Consensus size: 88
6085747 TGAATTATAG
* * * *
6085757 ATAATTTAGTAGTACATAATGAAAAATTAAGTAGTAAATTAATAATAACATAGTAGTAAATATAT
1 ATAATTTAATAGTACATAATGAAAAATTAAGTACTAAATCAATAATAACATAATAGTAAATATAT
* *
6085822 AAAAATTTAATAGTAAATCATTA
66 AAAAACTTAATAGTAAATCAGTA
* * * *
6085845 ATAATTTAATAGTA-A-AATGATAACTT-AGTACTAAATCACTAATAACGTAATAGTAAAT-TAC
1 ATAATTTAATAGTACATAATGAAAAATTAAGTACTAAATCAATAATAACATAATAGTAAATATA-
* *
6085906 TAATAACTTAATTA-TAAATCAGTG
65 TAAAAACTTAA-TAGTAAATCAGTA
*
6085930 CTAATTTA
1 ATAATTTA
6085938 GTAATAAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
84 2 0.03
85 51 0.65
86 11 0.14
87 1 0.01
88 13 0.17
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (88 bp):
ATAATTTAATAGTACATAATGAAAAATTAAGTACTAAATCAATAATAACATAATAGTAAATATAT
AAAAACTTAATAGTAAATCAGTA
Found at i:6086316 original size:11 final size:11
Alignment explanation
Indices: 6086295--6086336 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 11
6086285 GATTGTAAAA
6086295 ATTTTTA-TTC
1 ATTTTTATTTC
6086305 ATTTTTATTTC
1 ATTTTTATTTC
6086316 ATATTTTTATTTC
1 --ATTTTTATTTC
*
6086329 ATATTTAT
1 ATTTTTAT
6086337 CATTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 7 0.25
11 10 0.36
13 11 0.39
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTTTTATTTC
Found at i:6086323 original size:13 final size:13
Alignment explanation
Indices: 6086305--6086334 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6086295 ATTTTTATTC
6086305 ATTTTTATTTCAT
1 ATTTTTATTTCAT
6086318 ATTTTTATTTCAT
1 ATTTTTATTTCAT
6086331 ATTT
1 ATTT
6086335 ATCATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTCAT
Found at i:6087094 original size:80 final size:80
Alignment explanation
Indices: 6086961--6087134 Score: 294
Period size: 80 Copynumber: 2.2 Consensus size: 80
6086951 GATGCTAGGG
* * *
6086961 CCAGCCTTGGCACCAAGTTCAGGTACGTCATCTCAGAAATAATAGAGATTTTGGGTCTGCCCAAT
1 CCAGCCCTGGCACCAAGTTCAGGCACGTCATCTCAGAAATAATAGAGACTTTGGGTCTGCCCAAT
6087026 ATTTCTGATTTTCTC
66 ATTTCTGATTTTCTC
* * *
6087041 CCAGCCGTGGCACCAAGTTCAGGCACGTCATCTCAGAAGTAATAGAGACTTTGGGTCTGCCTAAT
1 CCAGCCCTGGCACCAAGTTCAGGCACGTCATCTCAGAAATAATAGAGACTTTGGGTCTGCCCAAT
6087106 ATTTCTGATTTTCTC
66 ATTTCTGATTTTCTC
6087121 CCAGCCCTGGCACC
1 CCAGCCCTGGCACC
6087135 GCAACGCCAC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 88 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (80 bp):
CCAGCCCTGGCACCAAGTTCAGGCACGTCATCTCAGAAATAATAGAGACTTTGGGTCTGCCCAAT
ATTTCTGATTTTCTC
Found at i:6088977 original size:56 final size:56
Alignment explanation
Indices: 6088897--6089093 Score: 234
Period size: 56 Copynumber: 3.4 Consensus size: 56
6088887 TTTTTTTTTT
* *
6088897 AGAAAAATTTGAAAGTGTCAAATTTTTAAAAAATAAATTTTCAAAAAAAGTTTTTTGA
1 AGAAAAA-TTGAAAGTATC-AATTTTTTAAAAATAAATTTTCAAAAAAAGTTTTTTGA
* * *
6088955 AGAAAAATTAAAAGTATCAATTTTTCTTAAAATAAATTTTC-AAAAAAGATTTTTGA
1 AGAAAAATTGAAAGTATCAATTTTT-TAAAAATAAATTTTCAAAAAAAGTTTTTTGA
* * ** *
6089011 AGAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAGCTTTCAAAAAAAATATTTTTGA
1 AGAAAAATTGAAAGTATCAA-TTTTTTAAAAATAAATTTTCAAAAAAAGT-TTTTTGA
* *
6089069 GGAAAAGTTGAAAGTATCAATTTTT
1 AGAAAAATTGAAAGTATCAATTTTT
6089094 CCTGTACAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
56 51 0.42
57 38 0.31
58 33 0.27
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (56 bp):
AGAAAAATTGAAAGTATCAATTTTTTAAAAATAAATTTTCAAAAAAAGTTTTTTGA
Found at i:6089036 original size:29 final size:29
Alignment explanation
Indices: 6089004--6089093 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
6088994 TCAAAAAAGA
6089004 TTTTTGAAGAAAAGTTGAAAGTATCAATT
1 TTTTTGAAGAAAAGTTGAAAGTATCAATT
* ** *
6089033 TTTTTGAA-AATAAGCTTTCAAA--AAAAATA
1 TTTTTGAAGAA-AAG--TTGAAAGTATCAATT
*
6089062 TTTTTGAGGAAAAGTTGAAAGTATCAATT
1 TTTTTGAAGAAAAGTTGAAAGTATCAATT
6089091 TTT
1 TTT
6089094 CCTGTACAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
27 5 0.11
28 2 0.04
29 32 0.70
30 2 0.04
31 5 0.11
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.39
Consensus pattern (29 bp):
TTTTTGAAGAAAAGTTGAAAGTATCAATT
Found at i:6090281 original size:14 final size:15
Alignment explanation
Indices: 6090257--6090291 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6090247 AAAAAAAGTG
6090257 ATAACTTAATAGC-TA
1 ATAA-TTAATAGCTTA
6090272 ATAATTAATAGCTTA
1 ATAATTAATAGCTTA
6090287 ATAAT
1 ATAAT
6090292 AAAACAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (15 bp):
ATAATTAATAGCTTA
Found at i:6090308 original size:22 final size:22
Alignment explanation
Indices: 6090224--6090343 Score: 93
Period size: 22 Copynumber: 5.5 Consensus size: 22
6090214 AATAATATAT
* **
6090224 TAATAAATCAATGATAGGTTAA
1 TAATAAAACAATGATAACTTAA
*
6090246 TAA-AAAA-AGTGATAACTTAA
1 TAATAAAACAATGATAACTTAA
* * * * *
6090266 TAGCTAATA-ATTAATAGCTTAA
1 TA-ATAAAACAATGATAACTTAA
6090288 TAATAAAACAATGATAACTTAA
1 TAATAAAACAATGATAACTTAA
**
6090310 TAATAAATTAATGATAACTTAA
1 TAATAAAACAATGATAACTTAA
* *
6090332 TAGTAAATCAAT
1 TAATAAAACAAT
6090344 TTTAGTTTAA
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
20 12 0.16
21 7 0.09
22 58 0.75
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (22 bp):
TAATAAAACAATGATAACTTAA
Found at i:6090315 original size:11 final size:11
Alignment explanation
Indices: 6090277--6090333 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
6090267 AGCTAATAAT
*
6090277 TAATAGCTTAA
1 TAATAACTTAA
***
6090288 TAATAAAACAA
1 TAATAACTTAA
*
6090299 TGATAACTTAA
1 TAATAACTTAA
*
6090310 TAATAAATTAA
1 TAATAACTTAA
*
6090321 TGATAACTTAA
1 TAATAACTTAA
6090332 TA
1 TA
6090334 GTAAATCAAT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (11 bp):
TAATAACTTAA
Found at i:6090331 original size:44 final size:44
Alignment explanation
Indices: 6090224--6090343 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
6090214 AATAATATAT
* * *
6090224 TAATAAATCAATGATAGGTTAATAA-AAAA-AGTGATAACTTAA
1 TAATAAATTAATGATAGCTTAATAATAAAACAATGATAACTTAA
* *
6090266 TAGCT-AA-TAATTAATAGCTTAATAATAAAACAATGATAACTTAA
1 TA-ATAAATTAA-TGATAGCTTAATAATAAAACAATGATAACTTAA
* * *
6090310 TAATAAATTAATGATAACTTAATAGTAAATCAAT
1 TAATAAATTAATGATAGCTTAATAATAAAACAAT
6090344 TTTAGTTTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.03
42 16 0.26
43 6 0.10
44 35 0.56
45 3 0.05
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (44 bp):
TAATAAATTAATGATAGCTTAATAATAAAACAATGATAACTTAA
Found at i:6090707 original size:22 final size:22
Alignment explanation
Indices: 6090637--6090715 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
6090627 ATAACCTAGA
*
6090637 AGTAAATGCA-TAATAACATAAT
1 AGTAAAT-CATTAATAACTTAAT
* * * *
6090659 AATATATCATTGATAATTTACAT
1 AGTAAATCATTAATAACTTA-AT
*
6090682 -GTAAATTATTAATAACTTAAT
1 AGTAAATCATTAATAACTTAAT
6090703 AGTAAATCATTAA
1 AGTAAATCATTAA
6090716 AAATTTAGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
21 4 0.09
22 37 0.86
23 2 0.05
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (22 bp):
AGTAAATCATTAATAACTTAAT
Found at i:6090729 original size:22 final size:22
Alignment explanation
Indices: 6090681--6090731 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6090671 ATAATTTACA
* *
6090681 TGTAAATTATTAATAACTTAAT
1 TGTAAATCATTAAAAACTTAAT
* * *
6090703 AGTAAATCATTAAAAATTTAGT
1 TGTAAATCATTAAAAACTTAAT
6090725 TGTAAAT
1 TGTAAAT
6090732 TATCAGTAGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (22 bp):
TGTAAATCATTAAAAACTTAAT
Found at i:6090732 original size:44 final size:44
Alignment explanation
Indices: 6090647--6090734 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
6090637 AGTAAATGCA
* * *
6090647 TAATAACATAATAATATATCATTGATAATTTACATGTAAATTAT
1 TAATAACATAATAATAAATCATTAAAAATTTACATGTAAATTAT
* * **
6090691 TAATAACTTAATAGTAAATCATTAAAAATTTAGTTGTAAATTAT
1 TAATAACATAATAATAAATCATTAAAAATTTACATGTAAATTAT
6090735 CAGTAGTGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (44 bp):
TAATAACATAATAATAAATCATTAAAAATTTACATGTAAATTAT
Found at i:6090934 original size:22 final size:22
Alignment explanation
Indices: 6090760--6090997 Score: 144
Period size: 22 Copynumber: 10.8 Consensus size: 22
6090750 AGTAGTGAAA
* *
6090760 TAGTTAATTATTGATAACTTTA-
1 TAGTAAATCATTGATAA-TTTAG
* *
6090782 TAGTAAATCATCGATAAATTAG
1 TAGTAAATCATTGATAATTTAG
*
6090804 TAATAAATCAATT-ATAACTTTA-
1 TAGTAAATC-ATTGATAA-TTTAG
* * *
6090826 TAATAAATCA-TCAGTAACTTAG
1 TAGTAAATCATTGA-TAATTTAG
* ** * *
6090848 TAATAAATCATCAACAATTTAA
1 TAGTAAATCATTGATAATTTAG
* *
6090870 TAGTAAATCATTCATGAA-TTAA
1 TAGTAAATCATTGAT-AATTTAG
* * * *
6090892 TTGTACATCAATGTTAATTTAG
1 TAGTAAATCATTGATAATTTAG
*
6090914 TAGTAAATCTTTGATAATTTAG
1 TAGTAAATCATTGATAATTTAG
* *
6090936 TAGTATATCATTAATAATTTAG
1 TAGTAAATCATTGATAATTTAG
* *
6090958 TAGTAAAATCAATGATAATTTAA
1 TAGT-AAATCATTGATAATTTAG
* * *
6090981 TTGTCAATCTTTGATAA
1 TAGTAAATCATTGATAA
6090998 ATTTTTCATA
Statistics
Matches: 167, Mismatches: 39, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.01
21 10 0.06
22 131 0.78
23 25 0.15
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (22 bp):
TAGTAAATCATTGATAATTTAG
Found at i:6091410 original size:21 final size:21
Alignment explanation
Indices: 6091386--6091441 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
6091376 AACTAATATT
*
6091386 AAAAGTTAGCAAAATTGTATC
1 AAAAGTTATCAAAATTGTATC
* * *
6091407 AAAAGTTATTAAAATTTTATT
1 AAAAGTTATCAAAATTGTATC
6091428 AAAAGTTATCAAAA
1 AAAAGTTATCAAAA
6091442 ATCAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAGTTATCAAAATTGTATC
Found at i:6091436 original size:10 final size:10
Alignment explanation
Indices: 6091386--6091467 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
6091376 AACTAATATT
*
6091386 AAAAGTTAGC
1 AAAAGTTATC
*
6091396 AAAATTGTATC
1 AAAAGT-TATC
*
6091407 AAAAGTTATT
1 AAAAGTTATC
* *
6091417 AAAATTTTATT
1 AAAA-GTTATC
6091428 AAAAGTTATC
1 AAAAGTTATC
6091438 AAAA---ATC
1 AAAAGTTATC
*
6091445 AAAA-TTATAT
1 AAAAGTTAT-C
6091455 AAAAGTTATC
1 AAAAGTTATC
6091465 AAA
1 AAA
6091468 TTTTACTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 7 0.12
9 2 0.04
10 27 0.47
11 21 0.37
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (10 bp):
AAAAGTTATC
Found at i:6091523 original size:22 final size:22
Alignment explanation
Indices: 6091496--6091537 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6091486 AAATTTAAAT
* *
6091496 TAAATTAGTGATAATTTAGTTG
1 TAAATTAGCGAGAATTTAGTTG
6091518 TAAATTAGCGAGAATTTAGT
1 TAAATTAGCGAGAATTTAGT
6091538 AGTGAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (22 bp):
TAAATTAGCGAGAATTTAGTTG
Found at i:6091582 original size:22 final size:22
Alignment explanation
Indices: 6091557--6091640 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 22
6091547 GTTAATTATT
*
6091557 GATAACTTTATAGTAAATCATC
1 GATAACTTTATAATAAATCATC
*
6091579 GATAA-ATTAGTAATAAATCAGT-
1 GATAACTTTA-TAATAAATCA-TC
* *
6091601 TATAATTTTATAATAAATCATC
1 GATAACTTTATAATAAATCATC
*
6091623 AATAAC-TTAGTAATAAAT
1 GATAACTTTA-TAATAAAT
6091641 TATAAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.14
22 40 0.78
23 4 0.08
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (22 bp):
GATAACTTTATAATAAATCATC
Found at i:6091602 original size:52 final size:52
Alignment explanation
Indices: 6091498--6091602 Score: 115
Period size: 52 Copynumber: 2.0 Consensus size: 52
6091488 ATTTAAATTA
* * * *
6091498 AATTAGTGATAATTTAGTTGTAAATTAGCGAGAATTTAGTAGTGAAATAGTT
1 AATTAGTGATAATTTAGTAGTAAATCAGCGAGAAATTAGTAATGAAATAGTT
* * *
6091550 AATTATTGATAACTTTA-TAGTAAATCATCGATAAATTAGTAAT-AAATCAGTT
1 AATTAGTGATAA-TTTAGTAGTAAATCAGCGAGAAATTAGTAATGAAAT-AGTT
6091602 A
1 A
6091603 TAATTTTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
51 4 0.09
52 36 0.82
53 4 0.09
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (52 bp):
AATTAGTGATAATTTAGTAGTAAATCAGCGAGAAATTAGTAATGAAATAGTT
Found at i:6091698 original size:22 final size:22
Alignment explanation
Indices: 6091567--6091771 Score: 123
Period size: 22 Copynumber: 9.3 Consensus size: 22
6091557 GATAACTTTA
**
6091567 TAGTAAATCATCGATAAATTAG
1 TAGTAAATCATTAATAAATTAG
* *
6091589 TAATAAATCAGTT-ATAATTTTA-
1 TAGTAAATCA-TTAATAA-ATTAG
* * *
6091611 TAATAAATCATCAATAACTTAG
1 TAGTAAATCATTAATAAATTAG
* * * *
6091633 TAATAAATTA-TAAAAAATTTAA
1 TAGTAAATCATTAATAAA-TTAG
*
6091655 TAGTAAATCATTTAA-AACTTAG
1 TAGTAAATCA-TTAATAAATTAG
*
6091677 TAGTAAATCATTCATAAATTAG
1 TAGTAAATCATTAATAAATTAG
* * * ** *
6091699 TTGTACATCAATGTTAATTTAG
1 TAGTAAATCATTAATAAATTAG
*
6091721 TAGTAAATCTTTAAT-AATATAG
1 TAGTAAATCATTAATAAAT-TAG
* * *
6091743 AAGTATATCATTAATAATTTAG
1 TAGTAAATCATTAATAAATTAG
6091765 TAGTAAA
1 TAGTAAA
6091772 ATTAATGATA
Statistics
Matches: 138, Mismatches: 35, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
21 13 0.09
22 114 0.83
23 8 0.06
24 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (22 bp):
TAGTAAATCATTAATAAATTAG
Found at i:6092205 original size:21 final size:20
Alignment explanation
Indices: 6092181--6092226 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6092171 TATACATTAC
6092181 CAAACTGATATTGAAAGTTAT
1 CAAACTG-TATTGAAAGTTAT
* *
6092202 CAAAATTGTATTGAAAGTTTT
1 C-AAACTGTATTGAAAGTTAT
6092223 CAAA
1 CAAA
6092227 ATTTTAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 14 0.64
22 5 0.23
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (20 bp):
CAAACTGTATTGAAAGTTAT
Found at i:6092227 original size:21 final size:21
Alignment explanation
Indices: 6092189--6092229 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6092179 ACCAAACTGA
6092189 TATTGAAAGTTATCAAAATTG
1 TATTGAAAGTTATCAAAATTG
*
6092210 TATTGAAAGTTTTCAAAATT
1 TATTGAAAGTTATCAAAATT
6092230 TTAGCAAAGA
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:0.05, G:0.12, T:0.41
Consensus pattern (21 bp):
TATTGAAAGTTATCAAAATTG
Found at i:6092311 original size:40 final size:39
Alignment explanation
Indices: 6092266--6092397 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 39
6092256 TATGTAAAAA
* *
6092266 AAATTATCAAAATTTACTTATAATATAAAAAATTTAAATT
1 AAATTATTAAAATTTACTTATAATA-AAAAAATATAAATT
* *
6092306 AAATTATTAATATTTATCATTATAATAAAAAATATATCAA--
1 AAATTATTAAAATTTA-C-TTATAATAAAAAA-ATATAAATT
*
6092346 AAATTATTAAAATTTACTTATATTAGACCAAAAATCA-AAATT
1 AAATTATTAAAATTTACTTATAATA-A--AAAAAT-ATAAATT
6092388 AAATTATTAA
1 AAATTATTAA
6092398 TATATATCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
38 7 0.09
39 2 0.03
40 33 0.43
41 11 0.14
42 23 0.30
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.39
Consensus pattern (39 bp):
AAATTATTAAAATTTACTTATAATAAAAAAATATAAATT
Found at i:6092429 original size:80 final size:78
Alignment explanation
Indices: 6092263--6092433 Score: 209
Period size: 80 Copynumber: 2.1 Consensus size: 78
6092253 AATTATGTAA
* * ** *
6092263 AAAAAATTATCAAAATTTACTTATAATATAAAAAATTTAAATTAAATTATTAATATTTATCATTA
1 AAAAAATTATTAAAATTTACTTATAATAGAAAAAATCAAAATTAAATTATTAATATATATCATTA
6092328 TAATAAAAAATAT
66 TAATAAAAAATAT
*
6092341 ATCAAAAATTATTAAAATTTACTTATATTAGACCAAAAATCAAAATTAAATTATTAATATATATC
1 A--AAAAATTATTAAAATTTACTTATAATAGA--AAAAATCAAAATTAAATTATTAATATATATC
* * *
6092406 ATTATTAT-CATAATAT
62 ATTATAATAAAAAATAT
6092422 CAAAAAATTATT
1 -AAAAAATTATT
6092434 TACTAAAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
80 36 0.46
81 6 0.08
82 36 0.46
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (78 bp):
AAAAAATTATTAAAATTTACTTATAATAGAAAAAATCAAAATTAAATTATTAATATATATCATTA
TAATAAAAAATAT
Found at i:6093894 original size:29 final size:30
Alignment explanation
Indices: 6093838--6093907 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
6093828 AGCAATTTTT
*
6093838 TAAAAATTATACAACAATTCAAACAAA-TA
1 TAAAAATTATACAACAATTCAAAAAAATTA
* *
6093867 TAAAAATTTTA-AACAGTTCTAAAAAAATTA
1 TAAAAATTATACAACAATTC-AAAAAAATTA
6093897 TAAAAATTATA
1 TAAAAATTATA
6093908 TAAATATAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.20
29 16 0.46
30 12 0.34
ACGTcount: A:0.60, C:0.09, G:0.01, T:0.30
Consensus pattern (30 bp):
TAAAAATTATACAACAATTCAAAAAAATTA
Found at i:6094547 original size:7 final size:7
Alignment explanation
Indices: 6094535--6094563 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6094525 AAAATCAAAA
6094535 TTTTCTT
1 TTTTCTT
6094542 TTTTCTT
1 TTTTCTT
6094549 TTTTCTT
1 TTTTCTT
6094556 TTTT-TT
1 TTTTCTT
6094562 TT
1 TT
6094564 GTTGAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTCTT
Found at i:6097709 original size:13 final size:13
Alignment explanation
Indices: 6097686--6097727 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
6097676 CGATCGTAAG
*
6097686 TTTTT-ATTTTTT
1 TTTTTAATTTTAT
6097698 TATTTTAATTTTAT
1 T-TTTTAATTTTAT
*
6097712 TTTTTGATTTTAT
1 TTTTTAATTTTAT
6097725 TTT
1 TTT
6097728 ATTTCTAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.69
14 7 0.27
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTAATTTTAT
Found at i:6097711 original size:19 final size:18
Alignment explanation
Indices: 6097687--6097731 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
6097677 GATCGTAAGT
*
6097687 TTTTATTTTTTTATTTTAA
1 TTTTATTTTTTGATTTT-A
6097706 TTTTATTTTTTGATTTTA
1 TTTTATTTTTTGATTTTA
6097724 TTTTATTT
1 TTTTATTT
6097732 CTAACCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTGATTTTA
Found at i:6109143 original size:123 final size:119
Alignment explanation
Indices: 6108904--6109211 Score: 347
Period size: 123 Copynumber: 2.6 Consensus size: 119
6108894 ATCTCACTTG
* * * *
6108904 CTTGATCTT-GCTTAATCCAGATCATTGCTTATGATTCGTGGTTCCATCTCGATTATTTATTCTC
1 CTTGATCTTAGCTCAATCCAGATCATTTCTTATGATTCGTGGTTCCATCCCGATTATATATTCTC
* * * *
6108968 GACCTTGACTTGGTCCTGATCATTTTATTTTGACCTATGGTTTCACTTCGATCA
66 GACATCGACTTGATCCTGATCATGTTATTTTGACCTATGGTTTCACTTCGATCA
* *
6109022 CTTGATCTTAGCTCAATCCAGATTATTTCTTATGATTTGTGGTTTCCATCCCGATCATATATATT
1 CTTGATCTTAGCTCAATCCAGATCATTTCTTATGATTCGTGG-TTCCATCCCGAT--TATATATT
* * * * *
6109087 CTTGACATCGACTTGATCTTAGTTGCA-GTTATTTTGACTTGTGGTTTCA-TCTCGATCA
63 CTCGACATCGACTTGATCCT-GAT-CATGTTATTTTGACCTATGGTTTCACT-TCGATCA
* * * *
6109145 CTTGATCTTAGCTCAGTCCAGATCATTTCTTATGATTCATGATT-CAGTCCCGATCAT-TATTCT
1 CTTGATCTTAGCTCAATCCAGATCATTTCTTATGATTCGTGGTTCCA-TCCCGATTATATATTCT
6109208 CGAC
65 CGAC
6109212 CTTGACTCAG
Statistics
Matches: 160, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
118 9 0.06
119 37 0.23
120 13 0.08
121 2 0.01
122 32 0.20
123 65 0.41
124 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (119 bp):
CTTGATCTTAGCTCAATCCAGATCATTTCTTATGATTCGTGGTTCCATCCCGATTATATATTCTC
GACATCGACTTGATCCTGATCATGTTATTTTGACCTATGGTTTCACTTCGATCA
Found at i:6109696 original size:3 final size:3
Alignment explanation
Indices: 6109688--6109743 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
6109678 ATTAAACATT
6109688 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6109736 TTA TTA TT
1 TTA TTA TT
6109744 TTTTTCTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6110221 original size:21 final size:20
Alignment explanation
Indices: 6110185--6110223 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6110175 ACGACGTAGG
6110185 AATTTTTTTGGATTTTTTAA
1 AATTTTTTTGGATTTTTTAA
*
6110205 AATTTTTTATGGGTTTTTT
1 AATTTTTT-TGGATTTTTT
6110224 TTTTAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (20 bp):
AATTTTTTTGGATTTTTTAA
Found at i:6112321 original size:2 final size:2
Alignment explanation
Indices: 6112314--6112339 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6112304 ATAAATATTT
6112314 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
6112340 AGAAATATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6117848 original size:23 final size:23
Alignment explanation
Indices: 6117805--6117848 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
6117795 TTAATAAATG
* *
6117805 ATCACAAATGCACTAATTATTGA
1 ATCACAAATACACTAAATATTGA
6117828 ATCATCAAATACAC-AAATATT
1 ATCA-CAAATACACTAAATATT
6117849 ATTTTAGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.30
Consensus pattern (23 bp):
ATCACAAATACACTAAATATTGA
Found at i:6120282 original size:52 final size:52
Alignment explanation
Indices: 6120203--6120348 Score: 186
Period size: 52 Copynumber: 2.8 Consensus size: 52
6120193 AAACTTGTCC
* * * * *
6120203 ATTAAGAATCTCTCTCCTCTTATAATTCTTCTCTTGTAAGTCAAACTTGCTT
1 ATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
* *
6120255 ATTAAGAATCTCTTTCCTTTTAGAATTCTTTTCTTGCAAGTCAAACTTACCT
1 ATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
* * *
6120307 ATTAAGAATCTTCATT-CTCTTAGAATTCTTCTTTTACAAGTC
1 ATTAAGAATC-TCTTTCCTCTTAGAATTCTTCTCTTGCAAGTC
6120349 TTCTTGTCCA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 77 0.95
53 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.45
Consensus pattern (52 bp):
ATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
Found at i:6120514 original size:18 final size:19
Alignment explanation
Indices: 6120479--6120531 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
6120469 TGTTTTATTT
* **
6120479 TAATTTTATATATTTATA-
1 TAATTTTTTATAAATATAC
6120497 TAATTTTTTATAAATATAC
1 TAATTTTTTATAAATATAC
6120516 TAATATTTTT-TAAATA
1 TAAT-TTTTTATAAATA
6120532 AAAATATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 15 0.50
19 10 0.33
20 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTTTTTATAAATATAC
Found at i:6120718 original size:5 final size:5
Alignment explanation
Indices: 6120708--6120745 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
6120698 TACTCATCCC
6120708 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
6120746 TTATCTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:6123310 original size:14 final size:14
Alignment explanation
Indices: 6123293--6123319 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6123283 TCCAATCGTC
6123293 AAAATTTTTTAAAT
1 AAAATTTTTTAAAT
6123307 AAAATTTTTTAAA
1 AAAATTTTTTAAA
6123320 ATATTCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATTTTTTAAAT
Found at i:6125905 original size:21 final size:21
Alignment explanation
Indices: 6125879--6125925 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6125869 ATCATTAATT
* *
6125879 TTAATC-TCACTATTATAGTAC
1 TTAATCTTC-CTATTATAATAA
6125900 TTAATCTTCCTATTATAATAA
1 TTAATCTTCCTATTATAATAA
6125921 TTAAT
1 TTAAT
6125926 TTCAGTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAATCTTCCTATTATAATAA
Found at i:6129352 original size:124 final size:125
Alignment explanation
Indices: 6129079--6129352 Score: 310
Period size: 126 Copynumber: 2.2 Consensus size: 125
6129069 CTTTTAATTA
* * * * * *
6129079 AAAGAGATTATTCAAGGTGTTTTAAGCTAGAAACGCCTTGAATTACCCCATTCAATTTTTTATAA
1 AAAGGGATTATTGAAGGTGTTTT-TGCTAAAAACACCTTGAATAACCCCATTCAATTTTTTATAA
* * * *
6129144 GAGATTATTCAAGGCATTTTTTTGTCATAAAACACCTTAAATAATTCCTTCAAAAAAATAG
65 CAGATTATTCAAGGCATTTTTCTGACATAAAACACCTTAAATAATTCCTTCAAAAAAAAAG
*
6129205 AAAGGGATTATTGAAGGTATTTTTGTCTAAAAACACCTTGAATAACCCCATTCAACTTTTTGTA-
1 AAAGGGATTATTGAAGGTGTTTTTG-CTAAAAACACCTTGAATAACCCCATTCAA-TTTTT-TAT
* *
6129269 AACA-ATTATTCAAGGC-TTTTTCTGAC-TAAAACGCCTTGAATAA-T-C-TCAAAAAAAAAATG
63 AACAGATTATTCAAGGCATTTTTCTGACATAAAACACCTTAAATAATTCCTTC-AAAAAAAAA-G
*
6129328 AGAGAGGATTATTGAAGGTGTTTTT
1 AAAG-GGATTATTGAAGGTGTTTTT
6129353 AATATAAAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
121 2 0.02
122 9 0.07
123 5 0.04
124 34 0.27
125 9 0.07
126 58 0.46
127 8 0.06
128 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (125 bp):
AAAGGGATTATTGAAGGTGTTTTTGCTAAAAACACCTTGAATAACCCCATTCAATTTTTTATAAC
AGATTATTCAAGGCATTTTTCTGACATAAAACACCTTAAATAATTCCTTCAAAAAAAAAG
Found at i:6129472 original size:62 final size:62
Alignment explanation
Indices: 6129392--6129557 Score: 201
Period size: 62 Copynumber: 2.7 Consensus size: 62
6129382 AAATGGAAGA
* * *
6129392 AGATTATTCAAAGCATTTTTTGCTAGAAATGCCTTGAATAACCTC-ATTCAATTTTTTGTAAG
1 AGATTATTCAAAGTATTTTTTGCCAGAAATACCTTGAATAACC-CAATTCAATTTTTTGTAAG
* * *
6129454 AGATTATTTAAGGTATTTTTTGCCAGAAATACGTTGAATAACCCAATTCAATTTTTTGTAAG
1 AGATTATTCAAAGTATTTTTTGCCAGAAATACCTTGAATAACCCAATTCAATTTTTTGTAAG
** * *
6129516 -GTATTATTCAAAGTATTTTCTAACCAAAAACACCTTGAATAA
1 AG-ATTATTCAAAGTATTTT-TTGCCAGAAATACCTTGAATAA
6129558 TCTTAAAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
61 2 0.02
62 69 0.78
63 17 0.19
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (62 bp):
AGATTATTCAAAGTATTTTTTGCCAGAAATACCTTGAATAACCCAATTCAATTTTTTGTAAG
Found at i:6129924 original size:34 final size:34
Alignment explanation
Indices: 6129886--6129955 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
6129876 TTCTTACATT
*
6129886 TTGGGTCAAATC-CTTAAA-TTCTTTATCTGATTTG
1 TTGGGTCAAATCTC-CAAACTTC-TTATCTGATTTG
*
6129920 TTGGGTTAAATCTCCAAACTTCTTATCTGATTTG
1 TTGGGTCAAATCTCCAAACTTCTTATCTGATTTG
6129954 TT
1 TT
6129956 ACGTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (34 bp):
TTGGGTCAAATCTCCAAACTTCTTATCTGATTTG
Found at i:6131264 original size:34 final size:34
Alignment explanation
Indices: 6131193--6131268 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
6131183 CTTAAATGTT
* * *
6131193 ACTAAATTTAGTGACATTTTCTACTATAAACATC
1 ACTAAATTTAGTGACATTTTATACTAAAAACACC
* *
6131227 ACTAAATTTAGTGGCATTTTATGA-TAAAAATACC
1 ACTAAATTTAGTGACATTTTAT-ACTAAAAACACC
6131261 ACTAAATT
1 ACTAAATT
6131269 GTGGTATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (34 bp):
ACTAAATTTAGTGACATTTTATACTAAAAACACC
Found at i:6131732 original size:62 final size:62
Alignment explanation
Indices: 6131620--6131741 Score: 147
Period size: 62 Copynumber: 2.0 Consensus size: 62
6131610 GGTTAAGCCC
* **
6131620 AATTAAGTTCGCATAAGATGATAGTTTTAAGCCCAATCTAAATTGCACAAAGTTTGAAGCAT
1 AATTAAATTCGCATAAGATGATAGTTTTAAGCCCAATCTAAATAACACAAAGTTTGAAGCAT
* * ** * *
6131682 AATTAAATTGGCATGAA-ATGATAGTTTTAAGCCTAATCTAGCTAATACAAAGTTTTAAGC
1 AATTAAATTCGCAT-AAGATGATAGTTTTAAGCCCAATCTAAATAACACAAAGTTTGAAGC
6131742 CTAGTCAAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 48 0.96
63 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (62 bp):
AATTAAATTCGCATAAGATGATAGTTTTAAGCCCAATCTAAATAACACAAAGTTTGAAGCAT
Found at i:6131759 original size:28 final size:28
Alignment explanation
Indices: 6131704--6131760 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
6131694 ATGAAATGAT
* *
6131704 AGTTTTAAGCCTAATCTAGCTAATACAA
1 AGTTTTAAGCCTAATCAAGCTAACACAA
* * *
6131732 AGTTTTAAGCCTAGTCAAGTTAGCACAA
1 AGTTTTAAGCCTAATCAAGCTAACACAA
6131760 A
1 A
6131761 ATGATATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (28 bp):
AGTTTTAAGCCTAATCAAGCTAACACAA
Found at i:6133357 original size:18 final size:17
Alignment explanation
Indices: 6133309--6133353 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
6133299 TATTGGTTTA
* *
6133309 ATTTTTTTTATTTCTTT
1 ATTTTTTTTATTTATAT
*
6133326 ATTTACTTTTATTTATAT
1 ATTT-TTTTTATTTATAT
6133344 ATTTTTTTTA
1 ATTTTTTTTA
6133354 ATTTTTTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTTTATTTATAT
Found at i:6134263 original size:14 final size:14
Alignment explanation
Indices: 6134246--6134315 Score: 63
Period size: 14 Copynumber: 4.9 Consensus size: 14
6134236 TAAATTGCTC
*
6134246 AATAAAAATGAATA
1 AATAAAAATAAATA
*
6134260 AATAATAA-AAATA
1 AATAAAAATAAATA
6134273 AA-ATAAAATAAATA
1 AATA-AAAATAAATA
*
6134287 ACTCAAAATATAAAATA
1 AAT-AAAA-AT-AAATA
6134304 AATAAAAATAAA
1 AATAAAAATAAA
6134316 ATCAAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 1 0.02
13 9 0.20
14 16 0.36
15 5 0.11
16 7 0.16
17 7 0.16
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (14 bp):
AATAAAAATAAATA
Found at i:6134283 original size:19 final size:19
Alignment explanation
Indices: 6134246--6134350 Score: 85
Period size: 19 Copynumber: 5.5 Consensus size: 19
6134236 TAAATTGCTC
*
6134246 AATAAAAAT-GAAT-AAAT
1 AATAAAAATAAAATAAAAT
6134263 AATAAAAATAAAATAAAAT
1 AATAAAAATAAAATAAAAT
* *
6134282 AAATAACTCAA-AATATAAAAT
1 -AATAA--AAATAAAATAAAAT
6134303 AAATAAAAATAAAATCAAAA-
1 -AATAAAAATAAAAT-AAAAT
6134323 AATAAAAATAAAATCAAAA-
1 AATAAAAATAAAAT-AAAAT
*
6134342 AATGAAAAT
1 AATAAAAAT
6134351 CTACGATCGA
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
17 9 0.12
18 3 0.04
19 33 0.44
20 9 0.12
21 19 0.25
22 2 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AATAAAAATAAAATAAAAT
Found at i:6134304 original size:17 final size:15
Alignment explanation
Indices: 6134250--6134334 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 15
6134240 TTGCTCAATA
*
6134250 AAAATGAATAAATAAT
1 AAAATAAATAAA-AAT
6134266 AAAAATAAA-ATAAAAT
1 -AAAATAAATA-AAAAT
*
6134282 -AAATAACTCAAAATAT
1 AAAATAAAT-AAAA-AT
6134298 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
*
6134313 AAAAT-CA-AAAAAT
1 AAAATAAATAAAAAT
6134326 AAAAATAAA
1 -AAAATAAA
6134335 ATCAAAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
13 6 0.11
14 12 0.21
15 11 0.20
16 11 0.20
17 16 0.29
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:6134342 original size:7 final size:6
Alignment explanation
Indices: 6134256--6134335 Score: 62
Period size: 6 Copynumber: 13.2 Consensus size: 6
6134246 AATAAAAATG
*
6134256 AATAAA TAATAAA AAT-AA AAT-AA AATAAA TAACTCAA AATATAA AAT--A
1 AATAAA -AATAAA AATAAA AATAAA AATAAA -AA-TAAA AATA-AA AATAAA
6134304 AATAAA AAT-AA AATCAAAA AATAAA AATAAA A
1 AATAAA AATAAA AAT--AAA AATAAA AATAAA A
6134336 TCAAAAAATG
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
4 4 0.06
5 15 0.24
6 20 0.32
7 15 0.24
8 8 0.13
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:6134351 original size:14 final size:13
Alignment explanation
Indices: 6134266--6134329 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
6134256 AATAAATAAT
*
6134266 AAAAATAAAATAA
1 AAAAATAAAATCA
*
6134279 AATAAAT-AACTCA
1 AA-AAATAAAATCA
* *
6134292 AAATATAAAATAAA
1 AAAAATAAAAT-CA
6134306 TAAAAATAAAATCA
1 -AAAAATAAAATCA
6134320 AAAAATAAAA
1 AAAAATAAAA
6134330 ATAAAATCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 3 0.08
13 21 0.52
14 6 0.15
15 10 0.25
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATAAAATCA
Found at i:6135176 original size:3 final size:3
Alignment explanation
Indices: 6135162--6135324 Score: 89
Period size: 3 Copynumber: 58.0 Consensus size: 3
6135152 AAGGAAAGAG
* * * *
6135162 AAT AAA AAT AAT AAT AAT AAT AA- AAT CAT -AT ACT -AT ACT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
6135206 AAT AAT AAT -AT AAT AAT -AT AAC AAT -AT AAT -GT AA- CAT ACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
6135248 ACT -AT GAT CAT AGT AAT AAT AAC AAT AA- AAT AAT AACA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* *
6135292 AAT ACT AAT AAT AAA AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6135325 TGACCCTGAT
Statistics
Matches: 118, Mismatches: 29, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
2 18 0.15
3 98 0.83
4 2 0.02
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6135790 original size:55 final size:55
Alignment explanation
Indices: 6135694--6135816 Score: 133
Period size: 55 Copynumber: 2.2 Consensus size: 55
6135684 AATGACTGGA
* * * *
6135694 ATTGAACTACAAGTCTAGAAAATGATCTAGACTGAGCCGAAATTAAACAATCGAG
1 ATTGAACTACAAGTCTAAAAAATGATCTAGACTGAGCCGAAATCAAAAAATCAAG
* * *
6135749 ATTGAACTCCAAGTCTAAAAAATTGAT-TGGA-TCGAGTCGAAATCAAAAAATCAAG
1 ATTGAACTACAAGTCTAAAAAA-TGATCTAGACT-GAGCCGAAATCAAAAAATCAAG
* *
6135804 ATTAAACTGCAAG
1 ATTGAACTACAAG
6135817 ATTGGCAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 1 0.02
55 52 0.91
56 4 0.07
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (55 bp):
ATTGAACTACAAGTCTAAAAAATGATCTAGACTGAGCCGAAATCAAAAAATCAAG
Found at i:6136009 original size:56 final size:56
Alignment explanation
Indices: 6135897--6136011 Score: 144
Period size: 56 Copynumber: 2.1 Consensus size: 56
6135887 AGACTAAGCT
* * *
6135897 AAGATCAAACGACTAAGATTGAATCACAAGTCTAGAAAGACGATCTAAATCGAGTC
1 AAGATCAAACGACTAAGATTGAATCACAAGTCTAGAAAGACGACCTAAACCAAGTC
* * *
6135953 AAGATCGAACGA-TCAAGATTGAATCTCAAGTCTAGAAAG-CTGACCTAGACCAAGTC
1 AAGATCAAACGACT-AAGATTGAATCACAAGTCTAGAAAGAC-GACCTAAACCAAGTC
6136009 AAG
1 AAG
6136012 GTTGAAGCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
55 2 0.04
56 49 0.96
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (56 bp):
AAGATCAAACGACTAAGATTGAATCACAAGTCTAGAAAGACGACCTAAACCAAGTC
Found at i:6136231 original size:115 final size:116
Alignment explanation
Indices: 6135954--6136241 Score: 289
Period size: 115 Copynumber: 2.5 Consensus size: 116
6135944 AATCGAGTCA
* * * * *
6135954 AGATCGAACGATCAAGATTGAATCT-CAAGTCTAGAAAG-CTGACCTAGACCAAGTCAAGGTTGA
1 AGATCAAACGATCAAGATTGAA-CTATAAGTCTGGAAAGACTGACCTGGACCAAGTCAAGGTCGA
* * * * ** * * *
6136017 AGCTAGATGACCGTGGTCGAACCATGGTAAAAAAATGATTTGGATAGAGCTG
65 AGCTACACGACCGTGGTCAAACCATGGTAAAAAAATAACCTAGACAGAGCCG
* * * * *
6136069 AGATCAAATGATCAAAATTGAACCATAAGT-TGAGAAA-ATTGACCTGGACCAAGTCGAGGTCGA
1 AGATCAAACGATCAAGATTGAACTATAAGTCTG-GAAAGACTGACCTGGACCAAGTCAAGGTCGA
* * *
6136132 AGCTACACGATCGTGGTCAAACCATGGTCAAAAGATAACCTAGACAGAGCCG
65 AGCTACACGACCGTGGTCAAACCATGGTAAAAAAATAACCTAGACAGAGCCG
* * **
6136184 AGATCAAACGATCAGGATTGAACTATAAGTCTGGAAAGACT-ATCTGGACTGAGTCAAG
1 AGATCAAACGATCAAGATTGAACTATAAGTCTGGAAAGACTGACCTGGACCAAGTCAAG
6136242 AACGAAACAA
Statistics
Matches: 137, Mismatches: 31, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
114 2 0.01
115 131 0.96
116 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (116 bp):
AGATCAAACGATCAAGATTGAACTATAAGTCTGGAAAGACTGACCTGGACCAAGTCAAGGTCGAA
GCTACACGACCGTGGTCAAACCATGGTAAAAAAATAACCTAGACAGAGCCG
Found at i:6137075 original size:56 final size:55
Alignment explanation
Indices: 6137006--6137114 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 55
6136996 CAACTTGAAC
*
6137006 TTTTTTTTAACTTAAGCCACATTTTTGGGTTTTTAACTTGAACTCATTTTTTTTCT
1 TTTTTTTTAACTTAAGCCACATTTTTGGGTTTTCAACTTGAACT-ATTTTTTTTCT
* ** * *
6137062 TTTTTTTTTACTTAAGCTGCCTTTTTGGGTTTTCAACTTGAACTTTTTTTTTT
1 TTTTTTTTAACTTAAGCCACATTTTTGGGTTTTCAACTTGAACTATTTTTTTT
6137115 AAGCTCAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 8 0.17
56 39 0.83
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.60
Consensus pattern (55 bp):
TTTTTTTTAACTTAAGCCACATTTTTGGGTTTTCAACTTGAACTATTTTTTTTCT
Found at i:6145645 original size:44 final size:43
Alignment explanation
Indices: 6145579--6145683 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 43
6145569 TTTAAAAGAA
* * * *
6145579 CTTTTAGATTTTCAAAAGTCGTTAA-CCTCTACTTATAGGAGC
1 CTTTTAAATTTTCAAAAATCGTTAAGCCTCTACTTAGAGAAGC
6145621 CTTTTTAAATTTTTCAAAAATCGTTAAGCCTCTACTTAGAGAAGC
1 C-TTTTAAA-TTTTCAAAAATCGTTAAGCCTCTACTTAGAGAAGC
*
6145666 CTTTTAAATTCTCAAAAA
1 CTTTTAAATTTTCAAAAA
6145684 AAAAAAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 15 0.27
44 23 0.42
45 16 0.29
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (43 bp):
CTTTTAAATTTTCAAAAATCGTTAAGCCTCTACTTAGAGAAGC
Found at i:6145845 original size:3 final size:3
Alignment explanation
Indices: 6145837--6145899 Score: 117
Period size: 3 Copynumber: 20.7 Consensus size: 3
6145827 GTAATTTTGC
6145837 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6145885 TTA TTA TTA GTTA TT
1 TTA TTA TTA -TTA TT
6145900 CTTTCTTTCT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6146431 original size:10 final size:10
Alignment explanation
Indices: 6146416--6146441 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6146406 TCAAGAGGAA
6146416 TTTTTTAGAT
1 TTTTTTAGAT
6146426 TTTTTTAGAT
1 TTTTTTAGAT
6146436 TTTTTT
1 TTTTTT
6146442 GTCATAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (10 bp):
TTTTTTAGAT
Found at i:6147032 original size:18 final size:19
Alignment explanation
Indices: 6147009--6147048 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
6146999 GCATGAATAA
6147009 AAATAAA-TAATGA-AAAAT
1 AAATAAAGT-ATGATAAAAT
6147027 AAATAAAGTATGATAAAAT
1 AAATAAAGTATGATAAAAT
6147046 AAA
1 AAA
6147049 AATAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAAAGTATGATAAAAT
Found at i:6151605 original size:19 final size:20
Alignment explanation
Indices: 6151580--6151624 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6151570 AAAATATAAA
*
6151580 AAAAAAACTACAAATATTGT
1 AAAAAAACTACAAATATTAT
* *
6151600 AAAAAAATTACAAATGTTAT
1 AAAAAAACTACAAATATTAT
6151620 AAAAA
1 AAAAA
6151625 TGCAACAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAAAAACTACAAATATTAT
Found at i:6152190 original size:25 final size:25
Alignment explanation
Indices: 6152144--6152199 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
6152134 AAATAGATTT
* * *
6152144 AAAATATATATTAGATATAAATAT-A
1 AAAATAAATATAAGATAAAAAT-TCA
*
6152169 AAAATAAATATAATATAAAAATTCA
1 AAAATAAATATAAGATAAAAATTCA
6152194 AAAATA
1 AAAATA
6152200 TGAATGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAATAAATATAAGATAAAAATTCA
Found at i:6152583 original size:19 final size:19
Alignment explanation
Indices: 6152559--6152595 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6152549 TTAATTTTTT
* *
6152559 ATTATTTATTAATAAAATG
1 ATTATTTAATAAGAAAATG
6152578 ATTATTTAATAAGAAAAT
1 ATTATTTAATAAGAAAAT
6152596 AATTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
ATTATTTAATAAGAAAATG
Found at i:6153538 original size:30 final size:30
Alignment explanation
Indices: 6153485--6153600 Score: 85
Period size: 30 Copynumber: 3.9 Consensus size: 30
6153475 AATAAGTTCA
* *
6153485 TAACTTTTAATTTATACCA-AAATAAACTCT
1 TAACTTTTAATTTGTA-TATAAATAAACTCT
*
6153515 TAACTTTTAATTTGTATATAAATAAA-TATT
1 TAACTTTTAATTTGTATATAAATAAACT-CT
* * ** *
6153545 TAA-TGCTTAATTTGTATTTAAACCAGCTCT
1 TAACT-TTTAATTTGTATATAAATAAACTCT
* * *
6153575 TAACATTTAATTTTTATCTAAATAAA
1 TAACTTTTAATTTGTATATAAATAAA
6153601 TCCTTTACAT
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
29 3 0.05
30 61 0.94
31 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (30 bp):
TAACTTTTAATTTGTATATAAATAAACTCT
Found at i:6153809 original size:20 final size:20
Alignment explanation
Indices: 6153759--6153842 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
6153749 AGAAATATTT
* * *
6153759 AAAATATTATAAAGACTATA
1 AAAACATTACAAAGATTATA
6153779 AAAACCA--ACAAAGATTATA
1 AAAA-CATTACAAAGATTATA
6153798 AAAACATTACAAA-AGTTATAA
1 AAAACATTACAAAGA-TTAT-A
* *
6153819 AAAATATTACAAAAATTATA
1 AAAACATTACAAAGATTATA
6153839 AAAA
1 AAAA
6153843 TACTACAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
20 18 0.33
21 18 0.33
22 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAACATTACAAAGATTATA
Found at i:6153821 original size:21 final size:21
Alignment explanation
Indices: 6153788--6153842 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
6153778 AAAAACCAAC
6153788 AAAGATTAT-AAAAACATTACA
1 AAAG-TTATAAAAAACATTACA
*
6153809 AAAGTTATAAAAAATATTACA
1 AAAGTTATAAAAAACATTACA
*
6153830 AAAATTATAAAAA
1 AAAGTTATAAAAA
6153843 TACTACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAGTTATAAAAAACATTACA
Found at i:6153843 original size:20 final size:20
Alignment explanation
Indices: 6153786--6153851 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
6153776 ATAAAAACCA
* *
6153786 ACAAAGATTATAAAAACATT
1 ACAAAAATTATAAAAATATT
*
6153806 ACAAAAGTTATAAAAAATATT
1 ACAAAAATTAT-AAAAATATT
*
6153827 ACAAAAATTATAAAAATACT
1 ACAAAAATTATAAAAATATT
6153847 ACAAA
1 ACAAA
6153852 TCTATTACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 22 0.55
21 18 0.45
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.24
Consensus pattern (20 bp):
ACAAAAATTATAAAAATATT
Found at i:6154005 original size:18 final size:19
Alignment explanation
Indices: 6153969--6154004 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6153959 CTTTCTCTTT
6153969 TTTTATAAAATTAATAAAA
1 TTTTATAAAATTAATAAAA
6153988 TTTT-TAAAATT-ATAAAA
1 TTTTATAAAATTAATAAAA
6154005 AATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTATAAAATTAATAAAA
Found at i:6154091 original size:17 final size:17
Alignment explanation
Indices: 6154064--6154100 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
6154054 TCAAATTTTC
6154064 TTTTTTGC-TTTTCATT
1 TTTTTTGCTTTTTCATT
6154080 TTTTTTGTCTTTTTCATT
1 TTTTTTG-CTTTTTCATT
6154098 TTT
1 TTT
6154101 CTTAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTGCTTTTTCATT
Found at i:6155741 original size:12 final size:12
Alignment explanation
Indices: 6155724--6155748 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6155714 AATAATAAAA
6155724 TATTGAAGGCAT
1 TATTGAAGGCAT
6155736 TATTGAAGGCAT
1 TATTGAAGGCAT
6155748 T
1 T
6155749 TTTTTGACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TATTGAAGGCAT
Found at i:6155812 original size:20 final size:21
Alignment explanation
Indices: 6155786--6155835 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
6155776 TCAATTAAAT
* *
6155786 TTTTTTTTTGATTATTCAATA
1 TTTTTTTTGGATTATTCAAGA
6155807 TTTTTTTTGGATTATTCAAGA
1 TTTTTTTTGGATTATTCAAGA
6155828 TTTTTTTT
1 TTTTTTTT
6155836 ACAAAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.68
Consensus pattern (21 bp):
TTTTTTTTGGATTATTCAAGA
Found at i:6155984 original size:126 final size:124
Alignment explanation
Indices: 6155806--6156760 Score: 564
Period size: 126 Copynumber: 7.7 Consensus size: 124
6155796 ATTATTCAAT
* * ** * * *
6155806 ATTTTTTTTGGATTATTCAAGATTTTTTTTA-CAAAAAACATCTTGAATAATCACGTCATAAAAT
1 ATTTTTTTAGGATTATTCAATACATTTTTTATCAAAAAATACCTTGAGTAATCACGTCATAAAAT
* * * * *
6155870 TTTATGAGGGAAATATTGAATGTGTTTTTGGTTAGAGATGCCTTTAATAACCCAATTAAA
66 TTTATGAGGGAATTATTGAAAGTGTTTTTAGTCAGAAATGCCTTTAATAACCC-ATTAAA
* * *
6155930 ATTTTTTTCAGGATTATTCAATATATTTTTTATCAAAAAATGCCTTGAGTAATCACATCATAAAA
1 ATTTTTTT-AGGATTATTCAATACATTTTTTATCAAAAAATACCTTGAGTAATCACGTCATAAAA
* * * * ** *
6155995 ATTTATGA-GAAGATTATTGAAGGTATTTTTAACCAGAAACGCCTTTAATAACCCCATT--A
65 TTTTATGAGGGA-ATTATTGAAAGTGTTTTTAGTCAGAAATGCCTTTAATAA-CCCATTAAA
* * *
6156054 ATTTTTTT--TATTATT-AA-A-AGTGTTTTTATCAAAAAATACCTTAAGTAATTAAC-TCATAA
1 ATTTTTTTAGGATTATTCAATACA-T-TTTTTATCAAAAAATACCTTGAGTAA-TCACGTCATAA
* * * *
6156113 AATTTTATGAGGGAATTATTGAAACTGTTTTTAGTAAAAAAT-ACTTTCAATAAACCCATTAAAA
63 AATTTTATGAGGGAATTATTGAAAGTGTTTTTAGTCAGAAATGCCTTT-AAT-AACCCATT-AAA
* * * * * *
6156177 ATTTATTTTTGGACTATTCAATACGTTTTTT-TGCAAAAAATACCTTGAGTAATTATGTTATAAA
1 ATTT-TTTTAGGATTATTCAATACATTTTTTAT-CAAAAAATACCTTGAGTAATCACGTCATAAA
* * * * * * *
6156241 AATTTATGAAAGG-ATTATTGAAGGTATTTTTTG-CTAGAAATGCCTTCAATATCTCCATTAAA
64 ATTTTATG-AGGGAATTATTGAAAGTGTTTTTAGTC-AGAAATGCCTTTAATAAC-CCATTAAA
** * ** * * * *
6156303 ATTTTTTTCAAAATTATTAAAGGCA-TTTTTATCCAAAAATACCTTAAGTAATCACATTATAAAA
1 ATTTTTTT-AGGATTATTCAATACATTTTTTATCAAAAAATACCTTGAGTAATCACGTCAT-AAA
* * * * *
6156367 ATTTTATGATGTG-ATTATTGAAGAG-GTTTTTGGTCATAAACGCCTTTAATAACCTAATTAAA
64 ATTTTATGA-GGGAATTATTGAA-AGTGTTTTTAGTCAGAAATGCCTTTAATAACC-CATTAAA
* * ** ** *
6156429 ATTTTTTT-GGATTATTC-TTGGCATTTTTGGT--AAAAACGCATTGAGTAATCACGAT-ATAAA
1 ATTTTTTTAGGATTATTCAAT-ACATTTTTTATCAAAAAATACCTTGAGTAATCACG-TCATAAA
* * * * * * *
6156489 ATTTTATGA-GTAGATTATTGAATGTATTTTTGGTCAGAAATGTCTTCAATAATCCTATTAAA
64 ATTTTATGAGGGA-ATTATTGAAAGTGTTTTTAGTCAGAAATGCCTTTAATAA-CCCATTAAA
* ** * * * * * * *
6156551 TTTTTTTTAGGATTATTCAAGGCA-TTTTTGTCTAAAAATGCATTAAGTAATCACCTTATAAAA-
1 ATTTTTTTAGGATTATTCAATACATTTTTTATCAAAAAATACCTTGAGTAATCACGTCATAAAAT
* ** * * *
6156614 ATTATGAATTG-ATTATTTAAAGCGTTTTTAGTCA-ATAATGCCTTCAATAACCCTATTAAA
66 TTTATG-AGGGAATTATTGAAAGTGTTTTTAGTCAGA-AATGCCTTTAATAACCC-ATTAAA
* * * * * * * *
6156674 ATTTTTTTTCAAGATTATTCAATGCGTTTTTTA-CGAAAAATGCTTTGACTAATCATGTCATAAA
1 A-TTTTTTT-AGGATTATTCAATACATTTTTTATCAAAAAATACCTTGAGTAATCACGTCAT-AA
* *
6156738 AAATTTATGA-TGAGATTATTGAA
63 AATTTTATGAGGGA-ATTATTGAA
6156761 GGCGTTTCGC
Statistics
Matches: 648, Mismatches: 128, Indels: 107
0.73 0.14 0.12
Matches are distributed among these distances:
118 1 0.00
119 6 0.01
120 70 0.11
121 14 0.02
122 65 0.10
123 81 0.12
124 64 0.10
125 97 0.15
126 157 0.24
127 85 0.13
128 8 0.01
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (124 bp):
ATTTTTTTAGGATTATTCAATACATTTTTTATCAAAAAATACCTTGAGTAATCACGTCATAAAAT
TTTATGAGGGAATTATTGAAAGTGTTTTTAGTCAGAAATGCCTTTAATAACCCATTAAA
Found at i:6156244 original size:247 final size:248
Alignment explanation
Indices: 6155831--6156762 Score: 661
Period size: 247 Copynumber: 3.8 Consensus size: 248
6155821 TTCAAGATTT
* * * * * **
6155831 TTTTTA-CAAAAAACATCTTGAA-TAATCACGTCATAAAATTTTATGAGGGAAATATTGAATGTG
1 TTTTTATCAAAAAATACCTT-AAGTAATAACATCATAAAATTTTATGAGGGAATTATTGAAACTG
* * * * * * *
6155894 TTTTTGGTTAGAGATGCCTTTAATAACCCAATTAAAATTTTTTTCAGGATTATTCAATATATTTT
65 TTTTTAGTAAAAAATGACTTTAATAACCCAATTAAAATTTTTTTCAGGACTATTCAATACATTTT
*
6155959 TTATCAAAAAATGCCTTGAGTAATCACATCATAAAAATTTATGAGAA-GATTATTGAAGGTATTT
130 TTATCAAAAAATACCTTGAGTAATCACATCATAAAAATTTATGA-AAGGATTATTGAAGGTATTT
* * **
6156023 TTAACCAGAAACGCCTTTAATAACCCCATT-AATTTTTTT-TATTATTAAAAGTG
194 TTAACCAGAAACGCCTTCAATAACCCCATTAAATTTTTTTAAATTATTAAAAGCA
6156076 TTTTTATCAAAAAATACCTTAAGTAATTAAC-TCATAAAATTTTATGAGGGAATTATTGAAACTG
1 TTTTTATCAAAAAATACCTTAAGTAA-TAACATCATAAAATTTTATGAGGGAATTATTGAAACTG
* *
6156140 TTTTTAGTAAAAAAT-ACTTTCAATAAACCC-ATTAAAAATTTATTTT-TGGACTATTCAATACG
65 TTTTTAGTAAAAAATGACTTT-AAT-AACCCAATT-AAAATTT-TTTTCAGGACTATTCAATACA
* ** *
6156202 TTTTTT-TGCAAAAAATACCTTGAGTAATTATGTTATAAAAATTTATGAAAGGATTATTGAAGGT
126 TTTTTTAT-CAAAAAATACCTTGAGTAATCACATCATAAAAATTTATGAAAGGATTATTGAAGGT
** * * * * *
6156266 ATTTTTTGCTAGAAATGCCTTCAATATCTCCATTAAAATTTTTTTCAAAATTATTAAAGGCA
190 ATTTTTAACCAGAAACGCCTTCAATAACCCCATT-AAATTTTTTT--AAATTATTAAAAGCA
* * * *
6156328 TTTTTATCCAAAAATACCTTAAGTAATCACATTATAAAAATTTTATGATGTG-ATTATTGAAGA-
1 TTTTTATCAAAAAATACCTTAAGTAATAACATCAT-AAAATTTTATGA-GGGAATTATTGAA-AC
* * * * * * * * * *
6156391 GGTTTTTGGTCATAAACGCCTTTAATAACCTAATTAAAATTTTTTT--GGATTATTC-TTGGCAT
63 TGTTTTTAGTAAAAAATGACTTTAATAACCCAATTAAAATTTTTTTCAGGACTATTCAAT-ACAT
** ** * * * *
6156453 TTTTGGT--AAAAACGCATTGAGTAATCACGAT-ATAAAATTTTATGAGTA-GATTATTGAATGT
127 TTTTTATCAAAAAATACCTTGAGTAATCAC-ATCATAAAAATTTATGA-AAGGATTATTGAAGGT
*** * * * * * * *
6156514 ATTTTTGGTCAGAAATGTCTTCAATAATCCTATTAAATTTTTTTTAGGATTATTCAAGGCA
190 ATTTTTAACCAGAAACGCCTTCAATAACCCCATTAAA-TTTTTTTA-AATTATTAAAAGCA
* * * * * * * * ** *
6156575 TTTTTGTCTAAAAATGCATTAAGTAATCACCTTATAAAA-ATTATGAATTG-ATTATTTAAAGC-
1 TTTTTATCAAAAAATACCTTAAGTAATAACATCATAAAATTTTATG-AGGGAATTATTGAAA-CT
* * * * * * * * *
6156637 GTTTTTAGTCAATAATGCCTTCAATAACCCTATTAAAATTTTTTTTCAAGATTATTCAATGCGTT
64 GTTTTTAGTAAAAAATGACTTTAATAACCCAATTAAAA-TTTTTTTCAGGACTATTCAATACATT
* * * * ** *
6156702 TTTTA-CGAAAAATGCTTTGACTAATCATGTCATAAAAAATTTATG-ATGAGATTATTGAAGG
128 TTTTATCAAAAAATACCTTGAGTAATCACATCAT-AAAAATTTATGAAAG-GATTATTGAAGG
6156763 CGTTTCGCCA
Statistics
Matches: 553, Mismatches: 95, Indels: 73
0.77 0.13 0.10
Matches are distributed among these distances:
244 1 0.00
245 58 0.10
246 77 0.14
247 153 0.28
248 94 0.17
249 32 0.06
250 35 0.06
251 8 0.01
252 49 0.09
253 39 0.07
254 7 0.01
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (248 bp):
TTTTTATCAAAAAATACCTTAAGTAATAACATCATAAAATTTTATGAGGGAATTATTGAAACTGT
TTTTAGTAAAAAATGACTTTAATAACCCAATTAAAATTTTTTTCAGGACTATTCAATACATTTTT
TATCAAAAAATACCTTGAGTAATCACATCATAAAAATTTATGAAAGGATTATTGAAGGTATTTTT
AACCAGAAACGCCTTCAATAACCCCATTAAATTTTTTTAAATTATTAAAAGCA
Found at i:6156602 original size:60 final size:61
Alignment explanation
Indices: 6156423--6156604 Score: 151
Period size: 60 Copynumber: 3.0 Consensus size: 61
6156413 TAATAACCTA
** * * *
6156423 ATTAAAATTTTTTT-GGATTATTCTTGGCATTTTTG-GTAAAAACGCATTGAGTAATCACG
1 ATTAAAATTTTTTTAGGATTATTCAAGGCATTTTTGTCTAAAAATGCATTAAGTAATCACG
* * * * * *
6156482 ATATAAAATTTTATGAGTAGATTATTGAATGTATTTTTGGTC-AGAAATGTC-TTCAA-TAATC-
1 AT-TAAAATTTTTTTAG--GATTATTCAAGGCATTTTT-GTCTAAAAATG-CATT-AAGTAATCA
*
6156543 CT
60 CG
*
6156545 ATTAAATTTTTTTTAGGATTATTCAAGGCATTTTTGTCTAAAAATGCATTAAGTAATCAC
1 ATTAAAATTTTTTTAGGATTATTCAAGGCATTTTTGTCTAAAAATGCATTAAGTAATCAC
6156605 CTTATAAAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
59 8 0.09
60 39 0.42
61 2 0.02
62 11 0.12
63 17 0.18
64 13 0.14
65 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (61 bp):
ATTAAAATTTTTTTAGGATTATTCAAGGCATTTTTGTCTAAAAATGCATTAAGTAATCACG
Found at i:6161365 original size:2 final size:2
Alignment explanation
Indices: 6161358--6161384 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6161348 AGATTGGTTG
6161358 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6161385 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6161389 original size:2 final size:2
Alignment explanation
Indices: 6161384--6161423 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6161374 ATATATATAT
6161384 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6161424 GGATAAACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6161634 original size:2 final size:2
Alignment explanation
Indices: 6161627--6161654 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6161617 ATCCCTTCTC
6161627 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
6161655 TATTTCACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6163016 original size:15 final size:15
Alignment explanation
Indices: 6162993--6163022 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6162983 TGCGAAGTGG
*
6162993 AAATTGCTATGGGAA
1 AAATGGCTATGGGAA
6163008 AAATGGCTATGGGAA
1 AAATGGCTATGGGAA
6163023 CCAATCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (15 bp):
AAATGGCTATGGGAA
Found at i:6165117 original size:21 final size:21
Alignment explanation
Indices: 6165088--6165127 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6165078 TGTATTATAC
*
6165088 CTGATAGTTTAAAATAAATAT
1 CTGACAGTTTAAAATAAATAT
6165109 CTGACAGTTTAAAATAAAT
1 CTGACAGTTTAAAATAAAT
6165128 GATTACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (21 bp):
CTGACAGTTTAAAATAAATAT
Found at i:6173057 original size:2 final size:2
Alignment explanation
Indices: 6173050--6173100 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
6173040 AGTACATGTA
* * *
6173050 AT AT AT AT AT AT AT GT AT AT -T AT AT AT AT AT AT AA AC AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6173090 AT -T AT AT AT AT
1 AT AT AT AT AT AT
6173101 TTGTTTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6173896 original size:8 final size:8
Alignment explanation
Indices: 6173876--6173922 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
6173866 ATATTATTTT
6173876 TAAA-ATA
1 TAAATATA
*
6173883 TAAATATT
1 TAAATATA
6173891 TAAATATA
1 TAAATATA
*
6173899 TAATTATA
1 TAAATATA
6173907 TAAATGTATA
1 TAAA--TATA
6173917 TAAATA
1 TAAATA
6173923 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
7 4 0.12
8 21 0.64
10 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:6174921 original size:6 final size:6
Alignment explanation
Indices: 6174904--6174957 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
6174894 AAAATATATC
* * *
6174904 ATACAT ACACAT ATACAT AT--AT ATATAT ATACAT ATACAT ATATAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
*
6174950 ATATAT AT
1 ATACAT AT
6174958 GCACATGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.10
6 38 0.90
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (6 bp):
ATACAT
Found at i:6174927 original size:2 final size:2
Alignment explanation
Indices: 6174914--6174957 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
6174904 ATACATACAC
* * *
6174914 AT AT AC AT AT AT AT AT AT AT AC AT AT AC 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
6174956 AT
1 AT
6174958 GCACATGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:6181131 original size:27 final size:27
Alignment explanation
Indices: 6181101--6181156 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
6181091 AATAAGAATT
*
6181101 CTTAGTTTTAAAATATTTCTTAATTCC
1 CTTAGTTTCAAAATATTTCTTAATTCC
6181128 CTTAGTTTCAAAATATTTCTTAATTCC
1 CTTAGTTTCAAAATATTTCTTAATTCC
6181155 CT
1 CT
6181157 AATATGTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.50
Consensus pattern (27 bp):
CTTAGTTTCAAAATATTTCTTAATTCC
Found at i:6182966 original size:40 final size:40
Alignment explanation
Indices: 6182916--6182995 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
6182906 TTTTATCATT
6182916 TAAAGATAGAAATCATAGACTCAAGAAAATAGAGCTTAAA
1 TAAAGATAGAAATCATAGACTCAAGAAAATAGAGCTTAAA
* *
6182956 TAAAGATAGAAATCATGGATTCAAGAAAATAGAGCTTAAA
1 TAAAGATAGAAATCATAGACTCAAGAAAATAGAGCTTAAA
6182996 CCCTTAAGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (40 bp):
TAAAGATAGAAATCATAGACTCAAGAAAATAGAGCTTAAA
Found at i:6183906 original size:22 final size:23
Alignment explanation
Indices: 6183881--6183924 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
6183871 ATGCATGATG
*
6183881 GGCTATGTTT-GGCTTTTAATTA
1 GGCTATGTTTAGGCCTTTAATTA
6183903 GGCTATGTTTAGGCCTTTAATT
1 GGCTATGTTTAGGCCTTTAATT
6183925 GGGTTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.48
Consensus pattern (23 bp):
GGCTATGTTTAGGCCTTTAATTA
Found at i:6187505 original size:35 final size:36
Alignment explanation
Indices: 6187417--6187515 Score: 132
Period size: 35 Copynumber: 2.8 Consensus size: 36
6187407 AACAACTTTT
*
6187417 AGAATGTTT-CCTTAAAAATATGAGAATAAGTAATG
1 AGAATGTTTCCCTAAAAAATATGAGAATAAGTAATG
* * *
6187452 GGAATATTTCCCTAAAAAATATGAGAA-AAGTAGTG
1 AGAATGTTTCCCTAAAAAATATGAGAATAAGTAATG
6187487 AGAATGTTTCCCTAAAAAATA-GAAGAATA
1 AGAATGTTTCCCTAAAAAATATG-AGAATA
6187516 GTTAAAAGGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
34 1 0.02
35 37 0.67
36 17 0.31
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.27
Consensus pattern (36 bp):
AGAATGTTTCCCTAAAAAATATGAGAATAAGTAATG
Found at i:6187604 original size:98 final size:96
Alignment explanation
Indices: 6187491--6187680 Score: 269
Period size: 98 Copynumber: 2.0 Consensus size: 96
6187481 GTAGTGAGAA
*
6187491 TGTTTCCCTAAAAAATA-GAAGAA-TAGTTAAAAGGAATAGGTAATGGGAGTGTTTCCCTAAAAA
1 TGTTTCCCTAAAAAATAGGAA-AATTA-TTAAAAGGAATAGGTAAT-AGAGTGTTTCCCT-AAAA
*
6187554 AATA-AGAAAATTATTAAAATGAATAGGTAATTGAG
62 AATAGA-AAAATTATTAAAAGGAATAGGTAATTGAG
* * *
6187589 TGTTTCTCTAAAAAATAGGAAAATTATTAAAATGAATAGGTAATAGAGTGTTTCCCTTAAAAATA
1 TGTTTCCCTAAAAAATAGGAAAATTATTAAAAGGAATAGGTAATAGAGTGTTTCCCTAAAAAATA
6187654 GAAAAATTATTAAAAGGAATAGGTAAT
66 GAAAAATTATTAAAAGGAATAGGTAAT
6187681 GTAATATTTT
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
96 31 0.37
97 13 0.15
98 35 0.42
99 5 0.06
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.29
Consensus pattern (96 bp):
TGTTTCCCTAAAAAATAGGAAAATTATTAAAAGGAATAGGTAATAGAGTGTTTCCCTAAAAAATA
GAAAAATTATTAAAAGGAATAGGTAATTGAG
Found at i:6187620 original size:48 final size:48
Alignment explanation
Indices: 6187491--6187680 Score: 258
Period size: 48 Copynumber: 3.9 Consensus size: 48
6187481 GTAGTGAGAA
*
6187491 TGTTTCCCTAAAAAATA-GAAGAA-TAGTTAAAAGGAATAGGTAATGGGAG
1 TGTTTCCCTAAAAAATAGGAA-AATTA-TTAAAAGGAATAGGTAAT-AGAG
* * *
6187540 TGTTTCCCTAAAAAAATAAGAAAATTATTAAAATGAATAGGTAATTGAG
1 TGTTTCCCT-AAAAAATAGGAAAATTATTAAAAGGAATAGGTAATAGAG
* *
6187589 TGTTTCTCTAAAAAATAGGAAAATTATTAAAATGAATAGGTAATAGAG
1 TGTTTCCCTAAAAAATAGGAAAATTATTAAAAGGAATAGGTAATAGAG
* *
6187637 TGTTTCCCTTAAAAATAGAAAAATTATTAAAAGGAATAGGTAAT
1 TGTTTCCCTAAAAAATAGGAAAATTATTAAAAGGAATAGGTAAT
6187681 GTAATATTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
48 77 0.60
49 20 0.16
50 27 0.21
51 5 0.04
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.29
Consensus pattern (48 bp):
TGTTTCCCTAAAAAATAGGAAAATTATTAAAAGGAATAGGTAATAGAG
Found at i:6187876 original size:36 final size:36
Alignment explanation
Indices: 6187828--6187941 Score: 117
Period size: 38 Copynumber: 3.1 Consensus size: 36
6187818 CTCTCCTAAG
6187828 AAAATAGGAAAATAAGTAATGAAAGTTTTCTTTAAAA
1 AAAATA-GAAAATAAGTAATGAAAGTTTTCTTTAAAA
*
6187865 AAAAGTA-AAAATAAGTAATGAAAATGTTTTC-CTAAAA
1 AAAA-TAGAAAATAAGTAATG-AAA-GTTTTCTTTAAAA
* *
6187902 AAAATAGAAGAATAAGTCATGAGAA-TACTTCTTTAAAA
1 AAAATAGAA-AATAAGTAATGA-AAGT-TTTCTTTAAAA
6187940 AA
1 AA
6187942 TATGAGGACA
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
36 16 0.25
37 22 0.34
38 27 0.42
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.27
Consensus pattern (36 bp):
AAAATAGAAAATAAGTAATGAAAGTTTTCTTTAAAA
Found at i:6187939 original size:38 final size:36
Alignment explanation
Indices: 6187836--6187941 Score: 108
Period size: 36 Copynumber: 2.9 Consensus size: 36
6187826 AGAAAATAGG
* *
6187836 AAAATAAGTAATGAAAGTTTTCTTTAAAAAAAAGTA
1 AAAATAAGTAATGAAAATCTTCTTTAAAAAAAAGTA
*
6187872 AAAATAAGTAATGAAAATGTT-TTCCTAAAAAAAA-TA
1 AAAATAAGTAATGAAAATCTTCTT--TAAAAAAAAGTA
* *
6187908 GAAGAATAAGTCATGAGAATACTTCTTTAAAAAA
1 -AA-AATAAGTAATGAAAAT-CTTCTTTAAAAAA
6187942 TATGAGGACA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
35 2 0.03
36 21 0.36
37 11 0.19
38 21 0.36
39 2 0.03
40 2 0.03
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (36 bp):
AAAATAAGTAATGAAAATCTTCTTTAAAAAAAAGTA
Found at i:6188925 original size:64 final size:64
Alignment explanation
Indices: 6188607--6188925 Score: 288
Period size: 65 Copynumber: 5.0 Consensus size: 64
6188597 ACATAAAAAA
* * ** * *
6188607 ACTTGTATATGGGAGTGACAGAAGTGGTGCATGAGATCACAACAAT-AACTTATCCATTGGAAG
1 ACTTGTATATGAGAGTGACAGAAGTGGTGCATGAGACCACAATGATCAACTTCTCTATTGGAAG
* * * * * *
6188670 ACTTGTATACGAGAGTGATAGAAGTGTTGCAGGAG-CCACAATGATCGA--TCTCTATTGAAAG
1 ACTTGTATATGAGAGTGACAGAAGTGGTGCATGAGACCACAATGATCAACTTCTCTATTGGAAG
* ** * * * * * *
6188731 AAATTGTATAAAAGAGTGA-TGAAAGTGGTGTATGAGACCATAATGACCAATTTCTTTATTGGAA
1 -ACTTGTATATGAGAGTGACAG-AAGTGGTGCATGAGACCACAATGATCAACTTCTCTATTGGAA
6188795 G
64 G
* * * ** * *
6188796 AAATTGTATGTGAGAGTAACAGAAGTGGTGCATGAGACCACAACAATCAACTTTTCTATTAGAAG
1 -ACTTGTATATGAGAGTGACAGAAGTGGTGCATGAGACCACAATGATCAACTTCTCTATTGGAAG
* * * *
6188861 ACTTATATATGAGAGTGACGGAAGTGGTGCATGAGACCACAATGATCGACTTCTATATTGGAAG
1 ACTTGTATATGAGAGTGACAGAAGTGGTGCATGAGACCACAATGATCAACTTCTCTATTGGAAG
6188925 A
1 A
6188926 AATTTCGTAT
Statistics
Matches: 200, Mismatches: 49, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
61 11 0.05
62 33 0.17
63 41 0.20
64 54 0.27
65 60 0.30
66 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (64 bp):
ACTTGTATATGAGAGTGACAGAAGTGGTGCATGAGACCACAATGATCAACTTCTCTATTGGAAG
Found at i:6188969 original size:194 final size:190
Alignment explanation
Indices: 6188609--6188984 Score: 461
Period size: 194 Copynumber: 2.0 Consensus size: 190
6188599 ATAAAAAAAC
* * * *
6188609 TTGTATATGGGAGTGACAGAAGTGGTGCATGAGATCACAACAATAACTTATCCATTGGAAGACTT
1 TTGTATATGAGAGTAACAGAAGTGGTGCATGAGACCACAACAATAACTTATCCATTAGAAGACTT
* * * *
6188674 GTATACGAGAGTGATAGAAGTGTTGCAGGAGCCACAATGATCGATCTCTATTGAAAGAAATTGTA
66 ATATACGAGAGTGACAGAAGTGGTGCAGGAGCCACAATGATCGATCTATATTGAAAGAAATTGTA
* * **
6188739 TAAAAGAGTGATGAAAGTGGTGTATGAGACCATAATGACCAATTTCT-TTATTGGAAGAAA
131 T-AAAGAGTGATAAAAGTGGTGCAAAAGACCATAATGACCAATTTCTCTTATTGGAAGAAA
* * *
6188799 TTGTATGTGAGAGTAACAGAAGTGGTGCATGAGACCACAACAATCAACTTTTCTATTAGAAGACT
1 TTGTATATGAGAGTAACAGAAGTGGTGCATGAGACCACAACAAT-AACTTATCCATTAGAAGACT
* * * *
6188864 TATATATGAGAGTGACGGAAGTGGTGCATGAGACCACAATGATCGACTTCTATATTGGAAGAAAT
65 TATATACGAGAGTGACAGAAGTGGTGCAGGAG-CCACAATGATCGA--TCTATATTGAAAGAAA-
* * *
6188929 TTCGTAT-GAGTA-TGATAAAAGTGGTGCAAAAGACCATAATGATCGATTTCTCTTAT
126 TT-GTATAAAG-AGTGATAAAAGTGGTGCAAAAGACCATAATGACCAATTTCTCTTAT
6188985 AAGAATAACA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
190 40 0.26
191 43 0.28
192 13 0.08
194 49 0.31
195 7 0.04
196 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (190 bp):
TTGTATATGAGAGTAACAGAAGTGGTGCATGAGACCACAACAATAACTTATCCATTAGAAGACTT
ATATACGAGAGTGACAGAAGTGGTGCAGGAGCCACAATGATCGATCTATATTGAAAGAAATTGTA
TAAAGAGTGATAAAAGTGGTGCAAAAGACCATAATGACCAATTTCTCTTATTGGAAGAAA
Found at i:6192958 original size:37 final size:39
Alignment explanation
Indices: 6192895--6192969 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 39
6192885 CAGCTTTTAC
*
6192895 TAGATAGTTGGATGTCAGCTACACTAGAGC-AGCAATAG
1 TAGATAGTTGGATGACAGCTACACTAGAGCAAGCAATAG
*
6192933 TAGATAGTT-GATGACTGCTACACTAGAGCAAGCAATA
1 TAGATAGTTGGATGACAGCTACACTAGAGCAAGCAATA
6192970 CAAGTATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 18 0.53
38 16 0.47
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (39 bp):
TAGATAGTTGGATGACAGCTACACTAGAGCAAGCAATAG
Found at i:6193068 original size:14 final size:15
Alignment explanation
Indices: 6193040--6193068 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6193030 TGGGAGCGAG
6193040 TTCGAGGTAGAAAAT
1 TTCGAGGTAGAAAAT
6193055 TTCGAGGT-GAAAAT
1 TTCGAGGTAGAAAAT
6193069 CGTCGGTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (15 bp):
TTCGAGGTAGAAAAT
Found at i:6195367 original size:117 final size:117
Alignment explanation
Indices: 6195161--6195394 Score: 468
Period size: 117 Copynumber: 2.0 Consensus size: 117
6195151 AGTGTCGTAT
6195161 TCTTTCCACCTGCTAAAGACAAAAATTGGTATGAGAAATGAACAAGCAAACAGTTCAGAAGTACT
1 TCTTTCCACCTGCTAAAGACAAAAATTGGTATGAGAAATGAACAAGCAAACAGTTCAGAAGTACT
6195226 GAAGGCTAATCACTCTATAGAACTCAACTTCAAAATAACCTTCTTAAACTAC
66 GAAGGCTAATCACTCTATAGAACTCAACTTCAAAATAACCTTCTTAAACTAC
6195278 TCTTTCCACCTGCTAAAGACAAAAATTGGTATGAGAAATGAACAAGCAAACAGTTCAGAAGTACT
1 TCTTTCCACCTGCTAAAGACAAAAATTGGTATGAGAAATGAACAAGCAAACAGTTCAGAAGTACT
6195343 GAAGGCTAATCACTCTATAGAACTCAACTTCAAAATAACCTTCTTAAACTAC
66 GAAGGCTAATCACTCTATAGAACTCAACTTCAAAATAACCTTCTTAAACTAC
6195395 GCTATTTAAA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (117 bp):
TCTTTCCACCTGCTAAAGACAAAAATTGGTATGAGAAATGAACAAGCAAACAGTTCAGAAGTACT
GAAGGCTAATCACTCTATAGAACTCAACTTCAAAATAACCTTCTTAAACTAC
Found at i:6196457 original size:7 final size:7
Alignment explanation
Indices: 6196424--6196457 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
6196414 CCACGGGTTG
6196424 AAGAAGA
1 AAGAAGA
*
6196431 AAGAACA
1 AAGAAGA
*
6196438 AAGAACA
1 AAGAAGA
6196445 AAGAAGA
1 AAGAAGA
6196452 AAGAAG
1 AAGAAG
6196458 TGGGACCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.71, C:0.06, G:0.24, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:6196917 original size:12 final size:14
Alignment explanation
Indices: 6196884--6196923 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
6196874 AAAAATAGTC
6196884 ATTAAAATTTATAA
1 ATTAAAATTTATAA
6196898 ATTAAAATTTAT-A
1 ATTAAAATTTATAA
6196911 A-TAAAATTT-TAA
1 ATTAAAATTTATAA
6196923 A
1 A
6196924 CTATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 10 0.40
13 2 0.08
14 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTAAAATTTATAA
Found at i:6197096 original size:7 final size:7
Alignment explanation
Indices: 6197083--6197167 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
6197073 AATAATGTTA
6197083 AAAATAT
1 AAAATAT
*
6197090 GAAATAT
1 AAAATAT
6197097 AAAATAT
1 AAAATAT
*
6197104 AAAAAAT
1 AAAATAT
*
6197111 AAATTAATT
1 AAAAT-A-T
*
6197120 TAAATAT
1 AAAATAT
6197127 AAAATA-
1 AAAATAT
*
6197133 AAAAAATT
1 AAAATA-T
6197141 AAGAAT-T
1 AA-AATAT
6197148 AAAA-AT
1 AAAATAT
*
6197154 AAAAAAT
1 AAAATAT
*
6197161 AAGATAT
1 AAAATAT
6197168 TACGATAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
6 12 0.20
7 37 0.63
8 4 0.07
9 6 0.10
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (7 bp):
AAAATAT
Found at i:6197160 original size:21 final size:22
Alignment explanation
Indices: 6197127--6197169 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6197117 ATTTAAATAT
6197127 AAAATAAAAAAATTAAGA-ATTA
1 AAAATAAAAAAA-TAAGATATTA
6197149 AAAAT-AAAAAATAAGATATTA
1 AAAATAAAAAAATAAGATATTA
6197170 CGATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAAATAAAAAAATAAGATATTA
Found at i:6199040 original size:21 final size:22
Alignment explanation
Indices: 6199016--6199059 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6199006 TTATTTTTTA
*
6199016 TTTATGATATTAATA-AATAAT
1 TTTATGATATTAAAATAATAAT
*
6199037 TTTATTATATTAAAATAATAAT
1 TTTATGATATTAAAATAATAAT
6199059 T
1 T
6199060 AATATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTATGATATTAAAATAATAAT
Found at i:6199090 original size:27 final size:27
Alignment explanation
Indices: 6199043--6199097 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
6199033 TAATTTTATT
* *
6199043 ATATTAAAATAATAATTAATATTTTAA
1 ATATTAAAATAATAATAAATACTTTAA
*
6199070 ATATTAAAAATTATAA-AAATACTTTAA
1 ATATT-AAAATAATAATAAATACTTTAA
6199097 A
1 A
6199098 ATGTTTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
ATATTAAAATAATAATAAATACTTTAA
Found at i:6199234 original size:20 final size:20
Alignment explanation
Indices: 6199211--6199252 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6199201 GATTTAAATA
*
6199211 TAAATATAAAAATTAAGA-AT
1 TAAAAATAAAAA-TAAGATAT
6199231 TAAAAATAAAAATAAGATAT
1 TAAAAATAAAAATAAGATAT
6199251 TA
1 TA
6199253 TGGTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAAATAAAAATAAGATAT
Found at i:6199523 original size:21 final size:21
Alignment explanation
Indices: 6199479--6199523 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6199469 ATAAAAATGT
* *
6199479 GATTAATTATTATAGTAGTGA
1 GATTAAATATTATAGTAGTAA
6199500 GATTAAATATTATAGT-GATAA
1 GATTAAATATTATAGTAG-TAA
6199521 GAT
1 GAT
6199524 ATGTTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (21 bp):
GATTAAATATTATAGTAGTAA
Done.