Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 67 of 325
Found at i:17951662 original size:21 final size:21
Alignment explanation
Indices: 17951630--17951687 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
17951620 AATATATATA
17951630 TTTGAA-ATTATTTTTTAAAT
1 TTTGAATATTATTTTTTAAAT
17951650 TTTGAATATTATTTTTTAAAT
1 TTTGAATATTATTTTTTAAAT
* *
17951671 ATTAAATATATATTTTT
1 TTTGAATAT-TATTTTT
17951688 AATAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.18
21 21 0.62
22 7 0.21
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTGAATATTATTTTTTAAAT
Found at i:17951681 original size:23 final size:23
Alignment explanation
Indices: 17951636--17951702 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 23
17951626 TATATTTGAA
**
17951636 ATTATTTTTTAAAT-TTTGA-AT
1 ATTATTTTTTAAATATTAAATAT
17951657 ATTATTTTTTAAATATTAAATAT
1 ATTATTTTTTAAATATTAAATAT
* *
17951680 A-TATTTTTAATAATATAAAATAT
1 ATTATTTTTTA-AATATTAAATAT
17951703 TTAAATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.36
22 11 0.28
23 14 0.36
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
ATTATTTTTTAAATATTAAATAT
Found at i:17951702 original size:21 final size:21
Alignment explanation
Indices: 17951654--17951702 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
17951644 TTAAATTTTG
*
17951654 AATATTATTTTTTAAATATTAA
1 AATA-TATTTTTAAAATATTAA
17951676 ATATATATTTTTAATAATA-TAA
1 A-ATATATTTTTAA-AATATTAA
17951698 AATAT
1 AATAT
17951703 TTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATATTTTTAAAATATTAA
Found at i:17952112 original size:19 final size:20
Alignment explanation
Indices: 17952076--17952133 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
17952066 TTTGAATTAA
* **
17952076 TTAAAAAATAAAAATATTTG
1 TTAAAAAATGAATTTATTTG
*
17952096 TTAAAAAA-GGATTTATTTG
1 TTAAAAAATGAATTTATTTG
17952115 TTAAAAAATGAATTTATTT
1 TTAAAAAATGAATTTATTT
17952134 AAATATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (20 bp):
TTAAAAAATGAATTTATTTG
Found at i:17952121 original size:20 final size:19
Alignment explanation
Indices: 17952090--17952133 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17952080 AAAATAAAAA
*
17952090 TATTTGTTAAAAAAGGATT
1 TATTTGTTAAAAAAGAATT
17952109 TATTTGTTAAAAAATGAATT
1 TATTTGTTAAAAAA-GAATT
17952129 TATTT
1 TATTT
17952134 AAATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
TATTTGTTAAAAAAGAATT
Found at i:17952203 original size:20 final size:20
Alignment explanation
Indices: 17952150--17952204 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
17952140 ATATATATAT
* *
17952150 ATATATATTAAAAAGTAAAA
1 ATATAAATTAAAAATTAAAA
*
17952170 ATTTAAATTAAAAATTAAAA
1 ATATAAATTAAAAATTAAAA
* *
17952190 ATATACATTTAAAAT
1 ATATAAATTAAAAAT
17952205 ATTATAAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATAAATTAAAAATTAAAA
Found at i:17952313 original size:13 final size:14
Alignment explanation
Indices: 17952281--17952317 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
17952271 AAAATATATT
17952281 TAATATTTAAAAAG
1 TAATATTTAAAAAG
17952295 T-A-ATTTAAAAA-
1 TAATATTTAAAAAG
17952306 TAATATTTAAAA
1 TAATATTTAAAA
17952318 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.05
12 10 0.48
13 9 0.43
14 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TAATATTTAAAAAG
Found at i:17952374 original size:161 final size:161
Alignment explanation
Indices: 17952188--17952614 Score: 768
Period size: 161 Copynumber: 2.7 Consensus size: 161
17952178 TAAAAATTAA
* * *
17952188 AAATATACATTTAAAATATTATAAAACTATTAATAAATTTGAAAGTTCATATTTTTAAAATATTT
1 AAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGTTCATATCTTTAAAATATTT
*
17952253 AAATGTTTTATATTATTAAAAATATATTTAATATTTAAAAAGTAATTTAAAAATAATATTTAAAA
66 AAATGTTTTATATTATTAAAAATATATTTAATATTTAAAAAGTAATGTAAAAATAATATTTAAAA
17952318 TTTAAAAAATATATATATTATAAAACATTTC
131 TTTAAAAAATATATATATTATAAAACATTTC
*
17952349 AAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTTAAAATATTT
1 AAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGTTCATATCTTTAAAATATTT
* *
17952414 AAATATTTTGTATTATTAAAAATATATTTAATATTTAAAAAGTAATGTAAAAATAATATTTAAAA
66 AAATGTTTTATATTATTAAAAATATATTTAATATTTAAAAAGTAATGTAAAAATAATATTTAAAA
17952479 TTTAAAAAATATATATATTATAAAACATTTC
131 TTTAAAAAATATATATATTATAAAACATTTC
17952510 AAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAA-TGTCATATCTTTAAAATATT
1 AAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGT-TCATATCTTTAAAATATT
17952574 TAAATG-TTTATATTATTAAAAATATATTTAATATTTAAAAA
65 TAAATGTTTTATATTATTAAAAATATATTTAATATTTAAAAA
17952615 ATGATATTTA
Statistics
Matches: 255, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
160 34 0.13
161 221 0.87
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (161 bp):
AAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGTTCATATCTTTAAAATATTT
AAATGTTTTATATTATTAAAAATATATTTAATATTTAAAAAGTAATGTAAAAATAATATTTAAAA
TTTAAAAAATATATATATTATAAAACATTTC
Found at i:17952608 original size:18 final size:21
Alignment explanation
Indices: 17952591--17952645 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
17952581 TTATATTATT
17952591 AAAAAT-ATATTTAATATTTA
1 AAAAATGATATTTAATATTTA
*
17952611 AAAAATGATATTTAAAATTTTA
1 AAAAATGATATTTAATA-TTTA
17952633 AAAAAT-A-ATTTAA
1 AAAAATGATATTTAA
17952646 AAATAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 12 0.38
21 10 0.31
22 10 0.31
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAATGATATTTAATATTTA
Found at i:17952614 original size:20 final size:21
Alignment explanation
Indices: 17952591--17952715 Score: 87
Period size: 21 Copynumber: 5.8 Consensus size: 21
17952581 TTATATTATT
*
17952591 AAAAATATATTTAATA-TTTA
1 AAAAATATATTTAAAATTTTA
17952611 AAAAATGATATTTAAAATTTTA
1 AAAAAT-ATATTTAAAATTTTA
17952633 AAAAATA-ATTTAAAAATAATATT-
1 AAAAATATATTT-AAAAT--T-TTA
* * ** *
17952656 TAAAATTTA-GAAAAATAATTTC
1 AAAAATATATTTAAAAT--TTTA
17952678 AAAAATATATTTAAAATTTTA
1 AAAAATATATTTAAAATTTTA
*
17952699 AAATATATATTATAAAA
1 AAAAATATATT-TAAAA
17952716 CATTTCAAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
20 10 0.12
21 30 0.36
22 30 0.36
23 11 0.13
24 3 0.04
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAATATATTTAAAATTTTA
Found at i:17952648 original size:33 final size:33
Alignment explanation
Indices: 17952606--17952715 Score: 143
Period size: 33 Copynumber: 3.2 Consensus size: 33
17952596 TATATTTAAT
17952606 ATTTAAAAAATGATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAAT-ATATTTAAAATTTTAAAAAATA
17952640 ATTT-AAAAATAATATTTAAAA-TTTAGAAAAATA
1 ATTTAAAAAAT-ATATTTAAAATTTTA-AAAAATA
* *
17952673 ATTTCAAAAATATATTTAAAATTTTAAAATATA
1 ATTTAAAAAATATATTTAAAATTTTAAAAAATA
17952706 TATTATAAAA
1 -ATT-TAAAA
17952716 CATTTCAAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
32 4 0.06
33 43 0.63
34 17 0.25
35 4 0.06
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (33 bp):
ATTTAAAAAATATATTTAAAATTTTAAAAAATA
Found at i:17952708 original size:21 final size:21
Alignment explanation
Indices: 17952589--17952733 Score: 75
Period size: 21 Copynumber: 6.7 Consensus size: 21
17952579 GTTTATATTA
*
17952589 TTAAAA-ATATATTTAATA-T
1 TTAAAATATATATTTAAAATT
*
17952608 TTAAAAAATGATATTTAAAATT
1 TTAAAATAT-ATATTTAAAATT
*
17952630 TTAAAAAATA-ATTTAAAAATAATAT
1 TTAAAATATATATTT---AA-AAT-T
* * **
17952655 TTAAAATTTAGA-AAAATAATT
1 TTAAAATATATATTTAA-AATT
*
17952676 TCAAAA-ATATATTTAAAATT
1 TTAAAATATATATTTAAAATT
*
17952696 TTAAAATATATATTATAAAACAT
1 TTAAAATATATATT-TAAAA-TT
* *
17952719 TTCAAATATACATTT
1 TTAAAATATATATTT
17952734 CAAGTTTTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
19 6 0.06
20 18 0.18
21 25 0.25
22 22 0.22
23 15 0.15
24 3 0.03
25 9 0.09
26 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (21 bp):
TTAAAATATATATTTAAAATT
Found at i:17952788 original size:16 final size:15
Alignment explanation
Indices: 17952760--17952789 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
17952750 TAATAATAAA
17952760 AAATAAAATAAAGAT
1 AAATAAAATAAAGAT
17952775 AAATAAAGATAAAGA
1 AAATAAA-ATAAAGA
17952790 CAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (15 bp):
AAATAAAATAAAGAT
Found at i:17966569 original size:53 final size:52
Alignment explanation
Indices: 17966475--17966577 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 52
17966465 GACGGAAAAT
*
17966475 ATGTGATATGTACTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
1 ATGTGATATGTACTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
* **
17966527 ATGTGATAATGTGA-TTCCGTATAAGACTATATTTGGGATATGGCATCGGTA
1 ATGTGAT-ATGT-ACTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTA
17966578 TGATATGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
52 7 0.16
53 37 0.82
54 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (52 bp):
ATGTGATATGTACTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
Found at i:17966599 original size:46 final size:50
Alignment explanation
Indices: 17966488--17966616 Score: 140
Period size: 53 Copynumber: 2.6 Consensus size: 50
17966478 TGATATGTAC
*
17966488 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGA
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGGT--AA-GTGATAATGTGA
* **
17966541 TTCCGTATAAGACTATATTTGGGATATGGCATCGGT-A-TGAT-ATGTGA
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAAGTGATAATGTGA
* * *
17966588 -TCCGTATAAGACCATGGCAGGGCTATGGC
1 TTCCGTATAAGACCATAGCTGGGATATGGC
17966617 TTTAGTGTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
46 23 0.35
47 6 0.09
48 4 0.06
50 1 0.02
53 32 0.48
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (50 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAAGTGATAATGTGA
Found at i:17969483 original size:93 final size:93
Alignment explanation
Indices: 17969324--17969496 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
17969314 GGGATATTTG
* * ** * *
17969324 GGCATCCGAACTAGTTGATTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
17969389 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
17969417 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
17969482 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
17969497 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:17969489 original size:46 final size:46
Alignment explanation
Indices: 17969337--17969503 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
17969327 ATCCGAACTA
* * ** * * *
17969337 GTTGATTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTC
* * * * *
17969383 GTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-AC-TAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAACGC--CCGAGCTC
17969430 GTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTC
*
17969476 GTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GTTGAGTTGAGTCCGAGTTCACTTATGG
17969504 GCGGGTTACA
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.03
46 57 0.59
47 33 0.34
48 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
GTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTC
Found at i:17972480 original size:15 final size:15
Alignment explanation
Indices: 17972439--17972490 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
17972429 TATCGTATCT
*
17972439 TGGGTTTCTTTATCC
1 TGGGTTTCTTTATTC
* *
17972454 TGGATCAT-TTTATTC
1 TGGGT-TTCTTTATTC
17972469 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
17972484 TGGGTTT
1 TGGGTTT
17972491 TTCTATCTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.56
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:17974968 original size:46 final size:46
Alignment explanation
Indices: 17974918--17975093 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
17974908 TATTTGGGCA
*
17974918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * *
17974964 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
* * * *
17975011 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * *
17975057 CCCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17975094 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.67
47 33 0.31
48 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:17975073 original size:93 final size:93
Alignment explanation
Indices: 17974914--17975086 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
17974904 GGGATATTTG
*** *
17974914 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAG
17974979 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
17975007 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACACCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAG
*
17975072 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
17975087 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:17986884 original size:28 final size:28
Alignment explanation
Indices: 17986843--17986902 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
17986833 ATGCCATTGA
* *
17986843 ATACTCAATGTCTCGCACACTAAGTGCC
1 ATACTCAATATCTCACACACTAAGTGCC
* **
17986871 ATACTCTATATCTCACACTTTAAGTGCC
1 ATACTCAATATCTCACACACTAAGTGCC
17986899 ATAC
1 ATAC
17986903 ATAGCCGACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGCC
Found at i:17986969 original size:42 final size:42
Alignment explanation
Indices: 17986891--17987030 Score: 196
Period size: 42 Copynumber: 3.4 Consensus size: 42
17986881 TCTCACACTT
* * *
17986891 TAAGTGCCATACATAGCCGACGCTATCTC-AA-ATCGCACAC
1 TAAGTGCCATATATAGCCGAAGCTATCTCGAATCTCGCACAC
* *
17986931 TAAGTGCCATATATAGCCGAAGCTATGTCGAATCTCGCACAT
1 TAAGTGCCATATATAGCCGAAGCTATCTCGAATCTCGCACAC
*
17986973 TAAGTGCCATATATAGCCGAAGCTATCTCG-ATCTCACACAC
1 TAAGTGCCATATATAGCCGAAGCTATCTCGAATCTCGCACAC
*
17987014 TAAGTGCCACATATAGC
1 TAAGTGCCATATATAGC
17987031 TGATTCATCA
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 26 0.29
41 27 0.30
42 36 0.40
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
TAAGTGCCATATATAGCCGAAGCTATCTCGAATCTCGCACAC
Found at i:17992061 original size:43 final size:43
Alignment explanation
Indices: 17991976--17992064 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
17991966 GATAACATGC
* * *
17991976 AAGACCATGTCTGGGACATTGGCATTGTATTGAGATTATGTGT
1 AAGACCATGTCTGGGAAATTGGCATCGTAATGAGATTATGTGT
* *
17992019 AAGACCATGTCTGGGAAATTGGCATCGTTAAT-CGATTTTGTGT
1 AAGACCATGTCTGGGAAATTGGCATCG-TAATGAGATTATGTGT
17992062 AAG
1 AAG
17992065 TAAGACCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 37 0.93
44 3 0.08
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (43 bp):
AAGACCATGTCTGGGAAATTGGCATCGTAATGAGATTATGTGT
Found at i:17997856 original size:40 final size:40
Alignment explanation
Indices: 17997811--17997940 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
17997801 CGGAATACAA
17997811 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
17997851 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
17997891 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*
17997931 CCAGATATAA
1 CCGGATATAA
17997941 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:18000408 original size:2 final size:2
Alignment explanation
Indices: 18000397--18000437 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
18000387 CACATGCATG
18000397 TA TA TA -A 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
18000438 AGCTTACGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18003022 original size:25 final size:25
Alignment explanation
Indices: 18002980--18003069 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
18002970 ATATTATCCG
* * *
18002980 GAAAACCTTTGTGACATGTTATCTA
1 GAAAGCCTGTGTGGCATGTTATCTA
* *
18003005 GATAGCCTGTGTTGCATGTTATCTA
1 GAAAGCCTGTGTGGCATGTTATCTA
* * *
18003030 GAAAGCTTTTGTGGCATGTTATCTG
1 GAAAGCCTGTGTGGCATGTTATCTA
*
18003055 GAAAGCCTGTATGGC
1 GAAAGCCTGTGTGGC
18003070 GAATCCCATA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (25 bp):
GAAAGCCTGTGTGGCATGTTATCTA
Found at i:18003920 original size:4 final size:4
Alignment explanation
Indices: 18003911--18003944 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
18003901 TTGACTTAGA
18003911 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
18003945 GAGGTATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:18009589 original size:28 final size:28
Alignment explanation
Indices: 18009541--18009608 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
18009531 TTTAAAACTC
* * *
18009541 TAGGGGT-ATATCGGTAATTTTGTTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
18009568 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
18009596 TAGGGGTAATTTC
1 TAGGGGTAATTTC
18009609 GTGATCTACG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.19
28 30 0.81
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCAGTAATTTTGCTCTT
Found at i:18011827 original size:61 final size:61
Alignment explanation
Indices: 18011732--18011853 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
18011722 CGTTGAACCG
18011732 TGCGGAATCAAATAGGATACACGGATAGCTCAGAAAGCTTGTACAATGCCAAAGTCCCAGA
1 TGCGGAATCAAATAGGATACACGGATAGCTCAGAAAGCTTGTACAATGCCAAAGTCCCAGA
*
18011793 TGCGGAATCAAATAGGATACGCGGATAGCTCAGAAAGCTTGTACAATGCCAAAGTCCCAGA
1 TGCGGAATCAAATAGGATACACGGATAGCTCAGAAAGCTTGTACAATGCCAAAGTCCCAGA
18011854 CGTGGTCTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (61 bp):
TGCGGAATCAAATAGGATACACGGATAGCTCAGAAAGCTTGTACAATGCCAAAGTCCCAGA
Found at i:18011904 original size:43 final size:42
Alignment explanation
Indices: 18011857--18012007 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 42
18011847 TCCCAGACGT
* * ** * *
18011857 GGTCTTACATGTAATCAAATATCGATGCCTCTGTCCCCGACAG
1 GGTCTTACAAGAAATCAAATAT-GATGCCGATGTCCCAGAAAG
*
18011900 GGTCTTACAAGAAATCAAATATGATGCCGATGTCCCAGAAAT
1 GGTCTTACAAGAAATCAAATATGATGCCGATGTCCCAGAAAG
* * * * * *
18011942 GGTCTTACACATAAATCTCAAAT-TTATGCCAACGTCCCAGACAT
1 GGTCTTACA-AGAAA--TCAAATATGATGCCGATGTCCCAGAAAG
* *
18011986 GGTCTTACACGAAATCACATAT
1 GGTCTTACAAGAAATCAAATAT
18012008 CGAAAATCCT
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 5 0.06
42 25 0.28
43 27 0.30
44 26 0.29
45 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
GGTCTTACAAGAAATCAAATATGATGCCGATGTCCCAGAAAG
Found at i:18015299 original size:14 final size:15
Alignment explanation
Indices: 18015280--18015309 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18015270 AAAATGAAAG
18015280 AAGGAGGA-GAAGAA
1 AAGGAGGAGGAAGAA
18015294 AAGGAGGAGGAAGAA
1 AAGGAGGAGGAAGAA
18015309 A
1 A
18015310 CACTGTGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
AAGGAGGAGGAAGAA
Found at i:18015483 original size:22 final size:22
Alignment explanation
Indices: 18015441--18015483 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18015431 GATAAGTACA
*
18015441 CATTTTCATTGCATTTTCATTG
1 CATTTTCATTGCATTTACATTG
*
18015463 CATTTTTATTGTCA-TTACATT
1 CATTTTCATTG-CATTTACATT
18015484 TTCATGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (22 bp):
CATTTTCATTGCATTTACATTG
Found at i:18015488 original size:11 final size:11
Alignment explanation
Indices: 18015441--18015478 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
18015431 GATAAGTACA
18015441 CATTTTCATTG
1 CATTTTCATTG
18015452 CATTTTCATTG
1 CATTTTCATTG
*
18015463 CATTTTTATTG
1 CATTTTCATTG
18015474 TCATT
1 -CATT
18015479 ACATTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (11 bp):
CATTTTCATTG
Found at i:18029112 original size:20 final size:20
Alignment explanation
Indices: 18029087--18029129 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18029077 TTATTTCAAG
18029087 TATGCCAACTAGCAGTTTAA
1 TATGCCAACTAGCAGTTTAA
18029107 TATGCCAACTAGCAGTTTAA
1 TATGCCAACTAGCAGTTTAA
18029127 TAT
1 TAT
18029130 ATTCGTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
TATGCCAACTAGCAGTTTAA
Found at i:18031937 original size:43 final size:42
Alignment explanation
Indices: 18031889--18032033 Score: 113
Period size: 43 Copynumber: 3.4 Consensus size: 42
18031879 CAATTCAAAC
18031889 GTCCCAAACGTGGTCTTACATGCTATCACATATCGATGCCACT
1 GTCCCAAACGTGGTCTTACA-GCTATCACATATCGATGCCACT
* * *
18031932 GTCCCAGATA-G-GGTCTTACA-CGAATCAAATA-CGATGCCAAT
1 GTCCCA-A-ACGTGGTCTTACAGC-TATCACATATCGATGCCACT
* * *
18031973 GTCCCAGACATGGTCTTACA-CATAATCACATATCGATGCAAAC-
1 GTCCCAAACGTGGTCTTACAGC-T-ATCACATATCGATGC-CACT
* *
18032016 GTTCCAGACGTGGTCTTA
1 GTCCCAAACGTGGTCTTA
18032034 TACAAGAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
39 1 0.01
41 26 0.32
42 14 0.17
43 37 0.45
44 3 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAAACGTGGTCTTACAGCTATCACATATCGATGCCACT
Found at i:18031978 original size:41 final size:43
Alignment explanation
Indices: 18031913--18032049 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
18031903 CTTACATGCT
* *
18031913 ATCACATATCGATGCCACTGTCCCAGATAGGGTCTTACAC-GA
1 ATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACACAGA
* * *
18031955 ATCAAATA-CGATGCCAATGTCCCAGACATGGTCTTACACATA
1 ATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACACAGA
* * * *
18031997 ATCACATATCGATGCAAACGTTCCAGAC-GTGGTCTTATACAAGA
1 ATCACATATCGATGCCAATGTCCCAGACAG-GGTCTTACAC-AGA
18032041 AT-ACATATC
1 ATCACATATC
18032050 AAAAATCCTA
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
41 28 0.35
42 15 0.19
43 32 0.41
44 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACACAGA
Found at i:18034957 original size:6 final size:6
Alignment explanation
Indices: 18034946--18034985 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
18034936 TTCTAACATT
18034946 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAA-AG AAAGA
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGA
18034986 AAGTTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:18037048 original size:40 final size:40
Alignment explanation
Indices: 18037003--18037169 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
18036993 CGGAATATAA
18037003 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
18037043 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
18037083 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
18037123 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
18037162 CCGGATAT
1 CCGGATAT
18037170 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18037153 original size:80 final size:79
Alignment explanation
Indices: 18037019--18037169 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
18037009 ATAATCACGT
*
18037019 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
18037084 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
18037099 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
18037162 CCGGATAT
64 CCGGATAT
18037170 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:18038015 original size:17 final size:19
Alignment explanation
Indices: 18037992--18038037 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
18037982 AAGAAGCATG
18037992 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
18038010 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
18038028 AATCATGCTC
1 AATCATGCTC
18038038 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:18045113 original size:40 final size:40
Alignment explanation
Indices: 18044987--18045152 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
18044977 CGGAATATAA
* *
18044987 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
* * * *
18045026 CCGGATAGAATAACTCGCACGAA-TGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCAC-AATTGCCTTCGGGTCTTAGC
* *
18045066 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
** * * *
18045106 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
18045145 CCGGATAT
1 CCGGATAT
18045153 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 27 0.25
40 78 0.73
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:18045998 original size:17 final size:19
Alignment explanation
Indices: 18045975--18046020 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
18045965 AAGAAGCATG
18045975 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
18045993 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
18046011 AATCATGCTC
1 AATCATGCTC
18046021 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:18052499 original size:21 final size:21
Alignment explanation
Indices: 18052474--18052523 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
18052464 ATAGAAACCG
*
18052474 ATAGAATTCT-TATTCCAGAAA
1 ATAGAATTCTGTATT-CAAAAA
18052495 ATAGAATT-TGTATTCAAAAA
1 ATAGAATTCTGTATTCAAAAA
18052515 ATA-AATTCT
1 ATAGAATTCT
18052524 CACTATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (21 bp):
ATAGAATTCTGTATTCAAAAA
Found at i:18065713 original size:28 final size:28
Alignment explanation
Indices: 18065644--18065744 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
18065634 GACAAGATTG
* * * *
18065644 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
18065674 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
18065702 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
18065731 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
18065745 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:18068787 original size:37 final size:37
Alignment explanation
Indices: 18068746--18068878 Score: 128
Period size: 37 Copynumber: 3.6 Consensus size: 37
18068736 AACACATATC
18068746 AGGTTACCCGTCCGAGCTAAACTTTTAAAACAACATT
1 AGGTTACCCGTCCGAGCTAAACTTTTAAAACAACATT
* * **
18068783 AGGTTACTCGTTCGAGCT-AA-TAATATAAAC-ACATAT
1 AGGTTACCCGTCCGAGCTAAACTTTTA-AAACAACAT-T
* * * *
18068819 CAAGTTACCTGTCTGAGCTAAAATTTTAAAACAACATT
1 -AGGTTACCCGTCCGAGCTAAACTTTTAAAACAACATT
* *
18068857 AGGTTACTCGTTCGAGCTAAAC
1 AGGTTACCCGTCCGAGCTAAAC
18068879 CTATGTCCTA
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
35 7 0.10
36 7 0.10
37 45 0.62
38 7 0.10
39 7 0.10
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (37 bp):
AGGTTACCCGTCCGAGCTAAACTTTTAAAACAACATT
Found at i:18068839 original size:74 final size:74
Alignment explanation
Indices: 18068718--18068876 Score: 282
Period size: 74 Copynumber: 2.1 Consensus size: 74
18068708 CCAATTGCTT
* *
18068718 GTTCGAGCTAATAATATAAACACATATCAGGTTACCCGTCCGAGCTAAACTTTTAAAACAACATT
1 GTTCGAGCTAATAATATAAACACATATCAAGTTACCCGTCCGAGCTAAAATTTTAAAACAACATT
18068783 AGGTTACTC
66 AGGTTACTC
* *
18068792 GTTCGAGCTAATAATATAAACACATATCAAGTTACCTGTCTGAGCTAAAATTTTAAAACAACATT
1 GTTCGAGCTAATAATATAAACACATATCAAGTTACCCGTCCGAGCTAAAATTTTAAAACAACATT
18068857 AGGTTACTC
66 AGGTTACTC
18068866 GTTCGAGCTAA
1 GTTCGAGCTAA
18068877 ACCTATGTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (74 bp):
GTTCGAGCTAATAATATAAACACATATCAAGTTACCCGTCCGAGCTAAAATTTTAAAACAACATT
AGGTTACTC
Found at i:18074475 original size:13 final size:13
Alignment explanation
Indices: 18074457--18074481 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18074447 TAGATTTGAT
18074457 TTGATTATGTAAA
1 TTGATTATGTAAA
18074470 TTGATTATGTAA
1 TTGATTATGTAA
18074482 TCTTTTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:18079071 original size:40 final size:39
Alignment explanation
Indices: 18078962--18079062 Score: 157
Period size: 40 Copynumber: 2.6 Consensus size: 39
18078952 CTTTTAGTGG
*
18078962 CTTTATCGGCGCTTTTTAAAAACGCCGCTATAGGTACAC
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACAC
* *
18079001 CTTTAGTGGCGCTTTTTTAAAAACGACGCTATAGGTACAC
1 CTTTAGCGGCGC-TTTTTAAAAACGCCGCTATAGGTACAC
*
18079041 CTTTAGCGGCGCTTATTAAAAA
1 CTTTAGCGGCGCTTTTTAAAAA
18079063 ATTCCGCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 19 0.34
40 37 0.66
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACAC
Found at i:18079218 original size:195 final size:194
Alignment explanation
Indices: 18078848--18079218 Score: 557
Period size: 195 Copynumber: 1.9 Consensus size: 194
18078838 AAAACAGGTT
* * * * * *
18078848 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCAGAAAGCGCA
1 TTTAGCGGCGCTTATTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTCAGAAAACACA
*
18078913 ACAAAAGAGTTTTGTAAAACGACGTCATTTTGTATTGACCTTTTAGTGGCTTTATCGGCGCTTTT
66 ACAAAAGAGTTTTGTAAAACGACGTCATTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTTT
* *
18078978 TAAAAACGCCGCTATAGGTACACCTTTAGTGGCGCTTTTTTAAAAACGACGCTATAGGTACACC
131 TAAAAACGCCGCTATAGGTACACCTTTAGTGACGCTTTATTAAAAACGACGCTATAGGTACACC
** *
18079042 TTTAGCGGCGCTTATTAAAAAATTCCGCTAATGCTCGATCTTTAGCAGCGTTTTTTTA-AAAACA
1 TTTAGCGGCGCTTATTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCG--TTTTCAGAAAACA
** * *
18079106 CCGCAAAAGATTTTTGTAAAACGACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTT
64 CAACAAAAGAGTTTTGTAAAACGACGTCATTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGC-T
18079171 TTTTAAAAACGCCGCTATAGGTACACCTTTAGTGACGC-TTATTAAAAA
128 TTTTAAAAACGCCGCTATAGGTACACCTTTAGTGACGCTTTATTAAAAA
18079219 GAATTTTGCA
Statistics
Matches: 158, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
194 44 0.28
195 71 0.45
196 43 0.27
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (194 bp):
TTTAGCGGCGCTTATTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTCAGAAAACACA
ACAAAAGAGTTTTGTAAAACGACGTCATTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTTT
TAAAAACGCCGCTATAGGTACACCTTTAGTGACGCTTTATTAAAAACGACGCTATAGGTACACC
Found at i:18079226 original size:105 final size:104
Alignment explanation
Indices: 18079110--18079306 Score: 304
Period size: 105 Copynumber: 1.9 Consensus size: 104
18079100 AAAACACCGC
* * *
18079110 AAAAGATTTTTGTAAAACGACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTTTTT
1 AAAAGAATTTTGCAAAACGACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCAGCGC-TTTTT
*
18079175 AAAAACGCCGCTATAGGTACACCTTTAGTGACGCTTATTA
65 AAAAACGACGCTATAGGTACACCTTTAGTGACGCTTATTA
* * * * *
18079215 AAAAGAATTTTGCAAAATGGCTTCGTTTTGTATTGAGCTTTTAGTGGCTTTAGCAGTGCTTTTTA
1 AAAAGAATTTTGCAAAACGACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCAGCGCTTTTTA
18079280 AAAACGACGCTATAGGTACACCTTTAG
66 AAAACGACGCTATAGGTACACCTTTAG
18079307 CAGCGCTTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 32 0.39
105 51 0.61
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (104 bp):
AAAAGAATTTTGCAAAACGACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCAGCGCTTTTTA
AAAACGACGCTATAGGTACACCTTTAGTGACGCTTATTA
Found at i:18079345 original size:40 final size:38
Alignment explanation
Indices: 18079262--18079361 Score: 98
Period size: 40 Copynumber: 2.6 Consensus size: 38
18079252 CTTTTAGTGG
*
18079262 CTTTAGCAGTGCTTTTTAAAAACGACGCTATAGGTACAC
1 CTTTAGCAG-GCTTTTTAAAAACGACGCTATAGCTACAC
* *
18079301 CTTTAGCAGCGCTTTTTTAAAAACGCCGCTA-ATGCT-CAAT
1 CTTTAGCAG-GC-TTTTTAAAAACGACGCTATA-GCTAC-AC
18079341 CTTTAGC-GGCATTTTTAAAAA
1 CTTTAGCAGGC-TTTTTAAAAA
18079362 AGTGCCACAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 12 0.23
39 14 0.26
40 27 0.51
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (38 bp):
CTTTAGCAGGCTTTTTAAAAACGACGCTATAGCTACAC
Found at i:18080081 original size:15 final size:15
Alignment explanation
Indices: 18080061--18080108 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
18080051 ACTATTTTAA
18080061 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
18080076 GGTTTAGGGATTATG
1 GGTTTATGGATTATG
* *
18080091 GG-TTATGGTTTAAG
1 GGTTTATGGATTATG
18080105 GGTT
1 GGTT
18080109 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:18080081 original size:22 final size:21
Alignment explanation
Indices: 18080056--18080105 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
18080046 GAGTTACTAT
*
18080056 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
18080078 TTTAGGGATTATGGGTTATGG
1 TTTAAGGATTATGGATTATGG
18080099 TTTAAGG
1 TTTAAGG
18080106 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:18083548 original size:23 final size:23
Alignment explanation
Indices: 18083515--18084651 Score: 851
Period size: 23 Copynumber: 49.7 Consensus size: 23
18083505 AAATATTGTT
* *
18083515 AATTGAGGTG-TTAAACTGTTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* * *
18083538 AACTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
18083561 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
18083584 AATTGAAATGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18083607 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
18083630 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
18083653 TATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
18083675 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
18083698 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* * *
18083721 AATTGAAGTGCTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGCA
18083744 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
18083767 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18083790 AATTGAACTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18083813 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** * *
18083836 AATTGAAGTGTTTAGTTGTTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
18083859 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * **
18083881 AATTGAGGTGTATAAATGCTGTT
1 AATTGAAGTGTTTAAATGCTGCA
* *
18083904 AATTG-AGATG-CTAAAGTGCTACA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
18083927 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
18083950 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
18083973 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
** *
18083996 TGTTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
18084019 AATTGATGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18084042 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
18084065 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
18084088 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
18084110 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
18084133 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* * *
18084156 AATTGAAGTGCTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
18084179 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
18084202 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
18084225 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18084248 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18084271 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
18084294 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18084317 CATTG-AGATGTTT-TAT-C-GCTA
1 AATTGAAG-TGTTTAAATGCTGC-A
* * **
18084338 TAATTGAGGTGTTTAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
18084362 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
*
18084385 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
18084408 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
18084431 AATTGAAATGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* **
18084454 AATTGAAGTGTTTAAGTATTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
18084477 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18084500 CATTG-AGATGTTT-TAT-C-GCTA
1 AATTGAAG-TGTTTAAATGCTGC-A
* * **
18084521 TAATTGAGGTGTTTAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
18084545 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
*
18084568 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18084591 AATTGAAGTGTTTAAATGCAGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
18084614 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
18084637 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
18084652 GTACTTATTT
Statistics
Matches: 883, Mismatches: 175, Indels: 112
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.00
21 4 0.00
22 107 0.12
23 722 0.82
24 46 0.05
25 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGCA
Found at i:18083795 original size:137 final size:137
Alignment explanation
Indices: 18083725--18084650 Score: 160
Period size: 137 Copynumber: 6.7 Consensus size: 137
18083715 GCTGCAAATT
* * * * * *
18083725 GAAGTGCTTAAATGTTGTAAATTGA-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGT
1 GAAGTGCTTAAATGTTGTTAATTGAGA-TGTTAAA-TGCTGCAAATTGAAATGCTTAAATGTTGC
* * * * * * * * **
18083789 AAATTGAACTGTTTAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAGTT
64 AAATTGAAGTG-TTAAAGTACTGCAAATTGAAGTGTTTAGATGCTGGAAATTGAACTGTTTAAAT
* * *
18083853 GTTGGACATT
128 GCTGTAAATT
** * * ** * *
18083863 G-AGATG-TTTTATCGCTG-TAATTGAGGTGTATAAATGCTGTTAATTGAGATGC-TAAAGTGCT
1 GAAG-TGCTTAAAT-GTTGTTAATTGAGATGT-TAAATGCTGCAAATTGAAATGCTTAAA-TGTT
* * * * * * *
18083924 ACAAATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTG
62 GCAAATTGAAGTG-TTAAAGTACTGCAAATTGAAGTGTTTAGA-TGCTGGAAATTGAACTGTTTA
**
18083987 AATGCTGTATGTT
125 AATGCTGTAAATT
* * * * * * * **
18084000 GAAGTGTTTAAATGCTGTAAATTGATG-TGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGC
1 GAAGTGCTTAAATGTTGTTAATTGA-GATG-TTAAATGCTGCAAATTGAAATGCTTAAATGTTGC
* * * * * * ** *
18084064 AAATTGAAGTGTT-TAGTTGCTGGACATTG-AGATGTTT-TATCGCT-GTAATTGAGGTGTATAA
64 AAATTGAAGTGTTAAAG-TACTGCAAATTGAAG-TGTTTAGAT-GCTGGAAATTGAACTGTTTAA
* *
18084125 ATGTTGTTAATT
126 ATGCTGTAAATT
* * ** * * * *
18084137 G-AGATG-TAAAAGTGCTGCAAATTGA-AGTGCTTGAATGCTGTAAATTGAAGTG-TTAAAGTGC
1 GAAG-TGCTTAAA-TGTTGTTAATTGAGA-TG-TTAAATGCTGCAAATTGAAATGCTTAAA-TGT
* * * * * *
18084198 TGCAAATTGAAGTGTTTGAA-TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTA
61 TGCAAATTGAAGTG-TTAAAGTACTGCAAATTGAAGTGTTTAGATGCTGGAAATTGAACTGTTTA
* *
18084262 AATGTTGCAAATT
125 AATGCTGTAAATT
* * ** ** ** * * * * * *
18084275 GAAGTGTTTAAGTACTGCAAATTGA-AGTGTTTAGTTGCTGGACATTGAGATG-TT--TTATCGC
1 GAAGTGCTTAAATGTTGTTAATTGAGA-TG-TTAAATGCTGCAAATTGAAATGCTTAAATGTTGC
* ** * * *
18084336 TATAATTGAGGTGTTTAAATGT--TGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTT
64 -A-AATTGAAGTG-TTAAA-GTACTGCAAATTGAAG-TGTTTAGA-TGCTGGAAATTGAACTGTT
* *
18084397 TGAATGCTGCAAATT
123 TAAATGCTGTAAATT
* * * * * * * * *
18084412 GAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAAGTATTGCA
1 GAAGTGCTTAAATGTTGTTAATTGAGATG-TTAAATGCTGCAAATTGAAATGCTTAAATGTTGCA
* * * * * **
18084477 AATTGAAGTGTT-TAGTTGCTGGACATTG-AGATGTTT-TATCGCT--ATAATTGAGGTGTTTAA
65 AATTGAAGTGTTAAAG-TACTGCAAATTGAAG-TGTTTAGAT-GCTGGA-AATTGAACTGTTTAA
* *
18084537 ATGTTGTTAATT
126 ATGCTGTAAATT
* ** * * * **
18084549 G-AGATG-TTAAAGTGCTGCAAATTGA-AGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCA
1 GAAG-TGCTTAAA-TGTTGTTAATTGAGA-TG-TTAAATGCTGCAAATTGAAATGCTTAAATGTT
*
18084611 GTAAATTGAAGTGCTTAAATGT--TGCAAATTGAAGTGTTTA
62 GCAAATTGAAGTG-TTAAA-GTACTGCAAATTGAAGTGTTTA
18084651 AGTACTTATT
Statistics
Matches: 610, Mismatches: 125, Indels: 106
0.73 0.15 0.13
Matches are distributed among these distances:
135 4 0.01
136 38 0.06
137 377 0.62
138 166 0.27
139 19 0.03
140 6 0.01
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (137 bp):
GAAGTGCTTAAATGTTGTTAATTGAGATGTTAAATGCTGCAAATTGAAATGCTTAAATGTTGCAA
ATTGAAGTGTTAAAGTACTGCAAATTGAAGTGTTTAGATGCTGGAAATTGAACTGTTTAAATGCT
GTAAATT
Found at i:18083955 original size:229 final size:227
Alignment explanation
Indices: 18083515--18084486 Score: 1179
Period size: 229 Copynumber: 4.2 Consensus size: 227
18083505 AAATATTGTT
* * * * *
18083515 AATTGAGGTG-TTAAACTGTTGCAAACTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATG
1 AATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATG
* * ** * * *
18083579 CTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAAG-TACTGCAAATTGA-A-GTGT
65 CTGCAAATTGAAGTGCTTAAATACTGCAAATTGAAGTGTTT-AGTTGCTGGACATTGAGATGT-T
* * * ** * * * **
18083641 TTAGTTGCTGGATATTGAGATGT-TTTATCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTG-
128 TTA-TCGCTGTA-ATTGAGGTGTATAAAT-GCTGTTAATTGAGATGTA-AAGTGCTGCAAATTGA
*
18083703 AGATG-TTAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGTA
189 AG-TGCTTAAA-TGCTGCAAATTGAAGTG-TTAAATGCTGTA
* * *
18083744 AATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAACTGTTTAAATG
1 AATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATG
* ** *
18083808 CTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAGTTGTTGGACATTGAGATGTTTT
65 CTGCAAATTGAAGTGCTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTT
*
18083873 ATCGCTGTAATTGAGGTGTATAAATGCTGTTAATTGAGATGCTAAAGTGCTACAAATTGAAGTGC
130 ATCGCTGTAATTGAGGTGTATAAATGCTGTTAATTGAGATG-TAAAGTGCTGCAAATTGAAGTGC
* *
18083938 TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
194 TTAAATGCTGCAAATTGAAGTGTTAAA-TGCTGTA
* * ** * *
18083973 AATTGAAGTGTTTGAATGCTGTATGTTGAAGTGTTTAAATGCTGTAAATTGATGTGCTTAAATGT
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGC
* *
18084038 TGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTA
66 TGCAAATTGAAGTGCTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTA
*
18084103 TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
131 TCGCTGTAATTGAGGTGTATAAATGCTGTTAATTGAGATGT-AAAGTGCTGCAAATTGAAGTGCT
* * *
18084168 TGAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
195 TAAATGCTGCAAATTGAAGTGTTAAA-TGCTGTA
* *
18084202 AATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGT
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGC
* *
18084267 TGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTA
66 TGCAAATTGAAGTGCTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTA
* * * *
18084332 TCGCTATAATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTT
131 TCGCTGTAATTGAGGTGTATAAATGCTGTTAATTGAGATG-TAAAGTGCTGCAAATTGAAGTGCT
*
18084397 TGAATGCTGCAAATTGAAGTGTTTAAATGCTGTA
195 TAAATGCTGCAAATTGAAGTG-TTAAATGCTGTA
* * * * ** *
18084431 AATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAAGTATTGCAAATTGAAGTG
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG
18084487 TTTAGTTGCT
Statistics
Matches: 671, Mismatches: 59, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
228 21 0.03
229 624 0.93
230 24 0.04
231 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (227 bp):
AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGC
TGCAAATTGAAGTGCTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTA
TCGCTGTAATTGAGGTGTATAAATGCTGTTAATTGAGATGTAAAGTGCTGCAAATTGAAGTGCTT
AAATGCTGCAAATTGAAGTGTTAAATGCTGTA
Found at i:18084376 original size:183 final size:183
Alignment explanation
Indices: 18084156--18084656 Score: 914
Period size: 183 Copynumber: 2.7 Consensus size: 183
18084146 AAGTGCTGCA
* * * * *
18084156 AATTGAAGTGCTTGAATGCTGTAAATTGA-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATG
1 AATTGAGGTGTTTAAATGTTGTTAATTGAGA-TGTTAAAGTGCTGCAAATTGAAGTGTTTGAATG
18084220 CTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTA
65 CTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTA
18084285 AGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
130 AGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
18084339 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
1 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
*
18084404 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAA
66 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
*
18084469 GTATTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
131 GTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
18084522 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
1 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
*
18084587 TGCAAATTGAAGTGTTTAAATGCAGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
66 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
18084652 GTACT
131 GTACT
18084657 TATTTTAGGT
Statistics
Matches: 307, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 306 1.00
184 1 0.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.38
Consensus pattern (183 bp):
AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
GTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
Found at i:18084619 original size:114 final size:114
Alignment explanation
Indices: 18084179--18084619 Score: 289
Period size: 114 Copynumber: 3.9 Consensus size: 114
18084169 GAATGCTGTA
* * * * * *
18084179 AATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATG
1 AATTGAAGTGTTTAAA-TGCTGTAAATTGAAATGCTTAAATGCTGCAAATTGAAGTGTTTAAGTA
* * ** * *
18084243 CTGTAAATTGAAGTGCTTAAATGTTGCAAATTGA-AGTGTTTAAGTACTGC-A-
65 CTGCAAATTGAAGTGTTTAAATGCAGGAAATTGAGA-TGTTTTA-T-C-GCTAT
** * * * ** * *
18084294 AATTGAAGTGTTTAGTTGCTGGACATTGAGATG-TTTTAT-C-GCTATAATTGAGGTGTTTAAAT
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGCTGC-A-AATTGAAGTGTTTAAGT
** ** * * *
18084356 GTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGA-AGTGTTTGAAT-GCTGCA-
64 ACTGCAAATTGAAG-TGTTTAAA-TGCAGGAAATTGAGA-TGTTT-TATCGCT--AT
* *
18084408 AATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAAGTAT
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGCTGCAAATTGAAGTGTTTAAGTAC
** * *
18084473 TGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
66 TGCAAATTGAAGTGTTTAAATGCAGGAAATTGAGATGTTTTATCGCTAT
* * * *
18084522 AATTGAGGTGTTTAAATGTTGTTAATTGAGATG-TTAAAGTGCTGCAAATTGAAGTGTTTGAA-T
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAA-TGCTGCAAATTGAAGTGTTT-AAGT
* *
18084585 GCTGCAAATTGAAGTGTTTAAATGCAGTAAATTGA
64 ACTGCAAATTGAAGTGTTTAAATGCAGGAAATTGA
18084620 AGTGCTTAAA
Statistics
Matches: 265, Mismatches: 42, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
111 2 0.01
112 2 0.01
113 15 0.06
114 159 0.60
115 75 0.28
116 10 0.04
117 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.38
Consensus pattern (114 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGCTGCAAATTGAAGTGTTTAAGTAC
TGCAAATTGAAGTGTTTAAATGCAGGAAATTGAGATGTTTTATCGCTAT
Found at i:18085438 original size:43 final size:42
Alignment explanation
Indices: 18085390--18085501 Score: 138
Period size: 42 Copynumber: 2.6 Consensus size: 42
18085380 TAAATTTTTT
18085390 TAAAGGTTATATTCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGC
1 TAAAGGTTATATT-TTTAGCGGCGTTTGTAG-GAAAAGCGCCGC
* * *
18085433 TAAAGGTCTAT-TTTATAGCGGCGTTTGTAGGAAAAGTGCTGC
1 TAAAGGT-TATATTTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
*
18085475 TAAAGGTTATGACTTTTAGCGGCGTTT
1 TAAAGGTTAT-ATTTTTAGCGGCGTTT
18085502 TTGCCACAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 3 0.05
42 31 0.52
43 23 0.38
44 3 0.05
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (42 bp):
TAAAGGTTATATTTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
Found at i:18085520 original size:43 final size:43
Alignment explanation
Indices: 18085483--18085674 Score: 262
Period size: 43 Copynumber: 4.5 Consensus size: 43
18085473 GCTAAAGGTT
* *
18085483 ATGACTTTTAGCGGCGTTTTTGCC-ACAAACGCCGCTAAAAGTC
1 ATGACTTTTAGCGGCG-TTTTCCCAACAAACGCCGCTAAAAGCC
* ** *
18085526 ATGACTTTTAACGTTGCTTTCCCAACAAACGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGTTTTCCCAACAAACGCCGCTAAAAGCC
* *
18085569 ATCACTTTTAGCGGCGCTTTCCCAACAAACGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGTTTTCCCAACAAACGCCGCTAAAAGCC
*
18085612 ATGACTTTTAGCGGCGCTTTTCCC-ACAAACGCCACTAAAAGCC
1 ATGACTTTTAGCGGCG-TTTTCCCAACAAACGCCGCTAAAAGCC
*
18085655 ATGACTTTTCGCGGCGTTTT
1 ATGACTTTTAGCGGCGTTTT
18085675 TTTGAATAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
42 9 0.07
43 118 0.89
44 6 0.05
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGACTTTTAGCGGCGTTTTCCCAACAAACGCCGCTAAAAGCC
Found at i:18085892 original size:27 final size:27
Alignment explanation
Indices: 18085832--18085901 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
18085822 TGTCTGCCAG
* *
18085832 GACAGTAAACACGGGGTAGTCTATCGA
1 GACAGTAAACACAGGGTAGTCCATCGA
* *
18085859 GACAGTAAACACAGGGTAGTCCGTCGG
1 GACAGTAAACACAGGGTAGTCCATCGA
* *
18085886 GATAGTAAACATAGGG
1 GACAGTAAACACAGGG
18085902 ATACATTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (27 bp):
GACAGTAAACACAGGGTAGTCCATCGA
Found at i:18086808 original size:8 final size:8
Alignment explanation
Indices: 18086791--18086824 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
18086781 AAACCAAAAC
18086791 AAAA-AAT
1 AAAATAAT
18086798 AAAATAAT
1 AAAATAAT
18086806 -AAATAAT
1 AAAATAAT
18086813 AAAATAAT
1 AAAATAAT
18086821 AAAA
1 AAAA
18086825 CCAAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:18086815 original size:15 final size:15
Alignment explanation
Indices: 18086795--18086823 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18086785 CAAAACAAAA
18086795 AATAAAATAATAAAT
1 AATAAAATAATAAAT
18086810 AATAAAATAATAAA
1 AATAAAATAATAAA
18086824 ACCAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAAATAATAAAT
Found at i:18092421 original size:12 final size:12
Alignment explanation
Indices: 18092395--18092443 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 12
18092385 TGAGACTTTT
18092395 TAAAAAAATCAAAA
1 TAAAAAAA--AAAA
*
18092409 TAAAAAAAGAAA
1 TAAAAAAAAAAA
18092421 TAAAAATAAAAAA
1 TAAAAA-AAAAAA
18092434 TCAAAAAAAA
1 T-AAAAAAAA
18092444 GAAGAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 9 0.29
13 9 0.29
14 13 0.42
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:18092426 original size:18 final size:17
Alignment explanation
Indices: 18092396--18092433 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
18092386 GAGACTTTTT
*
18092396 AAAAAAATCAAAATAAA
1 AAAAAAATAAAAATAAA
18092413 AAAAGAAATAAAAATAAA
1 AAAA-AAATAAAAATAAA
18092431 AAA
1 AAA
18092434 TCAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAATAAA
Found at i:18092442 original size:17 final size:18
Alignment explanation
Indices: 18092396--18092443 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
18092386 GAGACTTTTT
*
18092396 AAAA-AAATCAAAATAAA
1 AAAACAAATAAAAATAAA
*
18092413 AAAAGAAATAAAAATAAA
1 AAAACAAATAAAAATAAA
*
18092431 AAATCAAA-AAAAA
1 AAAACAAATAAAAA
18092444 GAAGAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.10
Consensus pattern (18 bp):
AAAACAAATAAAAATAAA
Found at i:18093656 original size:64 final size:64
Alignment explanation
Indices: 18093581--18093772 Score: 330
Period size: 64 Copynumber: 3.0 Consensus size: 64
18093571 TCATTCATAA
* **
18093581 CACATCCAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
*
18093645 CACATCTAGTTAGGCGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
18093709 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
18093773 GATACATGAA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 121 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:18094158 original size:44 final size:45
Alignment explanation
Indices: 18094086--18094185 Score: 139
Period size: 44 Copynumber: 2.2 Consensus size: 45
18094076 AGTCACCAGC
* * *
18094086 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAATATACAAG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATACAAGAT
* **
18094130 CTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGATTGAAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATACAAGAT
18094175 CTTATCTCCCT
1 CTTATCTCCCT
18094186 AAGCAGTAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
44 37 0.76
45 12 0.24
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATACAAGAT
Found at i:18094345 original size:44 final size:44
Alignment explanation
Indices: 18094262--18094345 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
18094252 TACCACTGGC
** **
18094262 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGGCAATTGTAGT
1 CTTATCTCTCTAAGGTAGCAAGAGAGCAGACTGAAAATTGTAGT
18094306 CTTATCT-TCCTAAGGTAGCAAG-GAAGCAGACTGAAAATTG
1 CTTATCTCT-CTAAGGTAGCAAGAG-AGCAGACTGAAAATTG
18094346 AAAATTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTATCTCTCTAAGGTAGCAAGAGAGCAGACTGAAAATTGTAGT
Found at i:18094366 original size:176 final size:176
Alignment explanation
Indices: 18093950--18094603 Score: 667
Period size: 176 Copynumber: 3.7 Consensus size: 176
18093940 GATCATAACA
* * * * * * * *
18093950 AGTCTTATCTCCCTGAGGTTGC-AGTGGAGTAGACTGAAGATTGCAGGTCTTATTTCCCTAAGCA
1 AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAAATTGAAGATCTTATCTCCCTAAGCA
* * * * * * * * ** * * *
18094014 GTAGTGGAACAGACCAAAGACGACGAGTCTTATCTCTATGTACCGGCAATGGAGCAAATTTAAGT
65 GTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTA-C
* * * * * * **
18094079 CAC-CAGCCTTATCTCCCTGAAGTTGC-AGTGGAGCAGGCT--CAATATACA
129 CACTGA-CCTTACCTCTCTGAAGTAGCAAG-AGAGCAGGTTGGCAAT-T-GT
* * *
18094127 AGTCTTATCTCCCTGAGGTTGC-AGTGGAGCAGACT-AAAGATTGAAGATCTTATCTCCCTAAGC
1 AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAA-ATTGAAGATCTTATCTCCCTAAGC
18094190 AGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTAC
64 AGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTAC
* *
18094255 CACTGGCCTTATCTCTCT-AAGGTAGCAAGAGAGCAGGTTGGCAATTGT
129 CACTGACCTTACCTCTCTGAA-GTAGCAAGAGAGCAGGTTGGCAATTGT
* * * * *
18094303 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTGAAAATTTTATATCTCTAAGCAG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATCTTATCTCCCTAAGCAG
* * * * ** *
18094368 TAGGGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGAAAATGGAGTAGATTTTACCA
66 TAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTACCA
*
18094433 CTGACCTTACCTCTCTGAAGTAGCAAGAGAGCAGGTTGGCGATTGT
131 CTGACCTTACCTCTCTGAAGTAGCAAGAGAGCAGGTTGGCAATTGT
* * * * *
18094479 AGTCTTATATTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAGGTAG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATCTTATCTCCCTAAGCAG
* * * *
18094544 TTGCGGAGCAGATTGAGGATGGCGAATCTTATCTCCATGTATTGGCAATGGGGCAGATTT
66 TAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTT
18094604 AAGTCACCAG
Statistics
Matches: 403, Mismatches: 65, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
175 2 0.00
176 280 0.69
177 117 0.29
178 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (176 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATCTTATCTCCCTAAGCAG
TAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTACCA
CTGACCTTACCTCTCTGAAGTAGCAAGAGAGCAGGTTGGCAATTGT
Found at i:18094764 original size:6 final size:6
Alignment explanation
Indices: 18094753--18094777 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18094743 CCGGGCTTAT
18094753 ACCAAA ACCAAA ACCAAA ACCAAA A
1 ACCAAA ACCAAA ACCAAA ACCAAA A
18094778 AATAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:18094813 original size:22 final size:22
Alignment explanation
Indices: 18094774--18094817 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18094764 AACCAAAACC
18094774 AAAAAATAAAACAAAAAATAAT
1 AAAAAATAAAACAAAAAATAAT
*
18094796 AAAATAATAAAAC-CAAAATAAT
1 AAAA-AATAAAACAAAAAATAAT
18094818 TTAAAAGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAAAATAAAACAAAAAATAAT
Found at i:18096454 original size:16 final size:17
Alignment explanation
Indices: 18096420--18096454 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18096410 TTGTTTAATT
*
18096420 ATTTTGTATTATCATAA
1 ATTTCGTATTATCATAA
18096437 ATTTCGTATTAT-ATAA
1 ATTTCGTATTATCATAA
18096453 AT
1 AT
18096455 AGTAGTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTTCGTATTATCATAA
Found at i:18103060 original size:21 final size:21
Alignment explanation
Indices: 18103036--18103091 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
18103026 ATGTCACTCG
* * * *
18103036 ATTTGACTCGACTTAAATTTC
1 ATTTCACTCAACTCAAACTTC
18103057 ATTTCACTCAACTCAAACTTC
1 ATTTCACTCAACTCAAACTTC
*
18103078 ATTTTACTCAACTC
1 ATTTCACTCAACTC
18103092 GATTTGAAAA
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:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (21 bp):
ATTTCACTCAACTCAAACTTC
Found at i:18103700 original size:36 final size:36
Alignment explanation
Indices: 18103623--18103698 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
18103613 AAATTTTAAT
* *
18103623 AAAAATAAAAAATTAAAATTTTTTATAAAAATCGTA
1 AAAAATAAAAAATTAAAATATTTTATAAAAATCATA
18103659 AAAAATAAAAAATTATAAA-ATTTTAT-AAAATCATA
1 AAAAATAAAAAATTA-AAATATTTTATAAAAATCATA
18103694 AAAAA
1 AAAAA
18103699 ATTAATGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 13 0.35
36 21 0.57
37 3 0.08
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (36 bp):
AAAAATAAAAAATTAAAATATTTTATAAAAATCATA
Found at i:18103906 original size:21 final size:20
Alignment explanation
Indices: 18103869--18103908 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18103859 TTATATTTAT
* *
18103869 TTACATTTTGTATAATTTTC
1 TTACATTTTATAAAATTTTC
18103889 TTACGATTTTATAAAATTTT
1 TTAC-ATTTTATAAAATTTT
18103909 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (20 bp):
TTACATTTTATAAAATTTTC
Found at i:18103912 original size:29 final size:29
Alignment explanation
Indices: 18103879--18103967 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 29
18103869 TTACATTTTG
*
18103879 TATAATTTTCTTACGATTTTATAAAATTT
1 TATAATTTTTTTACGATTTTATAAAATTT
* *
18103908 TATAATTTTTTTTA-TATTTCTAT-ATATTT
1 TATAA-TTTTTTTACGATTT-TATAAAATTT
18103937 TAT-ATTTTTTTACGATTTTTATAAAATTT
1 TATAATTTTTTTACGA-TTTTATAAAATTT
18103966 TA
1 TA
18103968 CAAATTTATA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
27 8 0.16
28 5 0.10
29 27 0.54
30 10 0.20
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (29 bp):
TATAATTTTTTTACGATTTTATAAAATTT
Found at i:18103982 original size:58 final size:57
Alignment explanation
Indices: 18103883--18104005 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 57
18103873 ATTTTGTATA
* * * * * *
18103883 ATTTTCTTACGATTTTATAAAATTTTATAATTTTTTTTATAT-TTCTATATA-TTTTAT
1 ATTTTTTTACGATTTTATAAAATTTTACAAATTTATATATATATT-TA-AGAGTTTTAT
18103940 ATTTTTTTACGATTTTTATAAAATTTTACAAATTTATATATATATTTAAGAGTTTTAT
1 ATTTTTTTACGA-TTTTATAAAATTTTACAAATTTATATATATATTTAAGAGTTTTAT
18103998 ATTTTTTT
1 ATTTTTTT
18104006 CTAAATTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 13 0.23
58 42 0.74
59 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (57 bp):
ATTTTTTTACGATTTTATAAAATTTTACAAATTTATATATATATTTAAGAGTTTTAT
Found at i:18104015 original size:58 final size:58
Alignment explanation
Indices: 18103894--18104026 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 58
18103884 TTTTCTTACG
* * * * * *
18103894 ATTTTATAAAATTTTATAATTTTTTTTATATTTCTATATATTTTATATTTTTTTACGA
1 ATTTTATAAAATTTTACAAATTTATATATATTTCTATAGATTTTATATTTTTTTACAA
*
18103952 TTTTTATAAAATTTTACAAATTTATATATATATT-TA-AGAGTTTTATATTTTTTT-CTAA
1 ATTTTATAAAATTTTACAAATTTATATATAT-TTCTATAGA-TTTTATATTTTTTTAC-AA
*
18104010 ATTTTAATAAATTTTTA
1 ATTTT-ATAAAATTTTA
18104027 ATATTTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.05
58 47 0.76
59 12 0.19
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (58 bp):
ATTTTATAAAATTTTACAAATTTATATATATTTCTATAGATTTTATATTTTTTTACAA
Found at i:18113897 original size:33 final size:33
Alignment explanation
Indices: 18113860--18113982 Score: 117
Period size: 33 Copynumber: 3.8 Consensus size: 33
18113850 TACCCAAGTG
* * *
18113860 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
* * * *
18113893 GTA-CAGTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
* * *
18113925 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTACACTTTGTGT
*
18113958 GTACCACTTGAAAAGG-AATGTACAC
1 GTACCACTTGAAAAGGTAAGGTACAC
18113983 CTCAATTGTA
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
32 34 0.45
33 40 0.53
34 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:18115206 original size:36 final size:36
Alignment explanation
Indices: 18115164--18115238 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
18115154 TCAAAAACCC
18115164 AAAGATAAATAATAAAGCAGCCTTATTACATAGTAA
1 AAAGATAAATAATAAAGCAGCCTTATTACATAGTAA
*
18115200 AAAGATAAATAATAAAGCGGCCTTATTACATAGTAA
1 AAAGATAAATAATAAAGCAGCCTTATTACATAGTAA
18115236 AAA
1 AAA
18115239 CCAAAAATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.24
Consensus pattern (36 bp):
AAAGATAAATAATAAAGCAGCCTTATTACATAGTAA
Found at i:18116253 original size:38 final size:38
Alignment explanation
Indices: 18116194--18116356 Score: 250
Period size: 38 Copynumber: 4.4 Consensus size: 38
18116184 TCAATCATGC
*
18116194 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
18116233 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
18116271 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
18116302 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
18116340 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
18116357 ACTGTAAACG
Statistics
Matches: 115, Mismatches: 2, Indels: 15
0.87 0.02 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 70 0.61
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:18116255 original size:31 final size:31
Alignment explanation
Indices: 18116217--18116330 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
18116207 CCTTTTCATA
18116217 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
18116254 ATTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
18116286 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
18116317 TTTCATGTTTCATA
1 TTTCATATTTCATA
18116331 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:18116328 original size:69 final size:69
Alignment explanation
Indices: 18116217--18116356 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
18116207 CCTTTTCATA
18116217 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAATACTGGGCCGAA
18116282 GCCT
66 GCCT
* *
18116286 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAATACTGGGCCGAA
18116351 GCCT
66 GCCT
18116355 TT
1 TT
18116357 ACTGTAAACG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:18116594 original size:24 final size:24
Alignment explanation
Indices: 18116548--18116642 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
18116538 GCTTTATCAT
*
18116548 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
18116573 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
18116597 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
18116620 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18116643 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18116627 original size:47 final size:49
Alignment explanation
Indices: 18116548--18116641 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
18116538 GCTTTATCAT
*
18116548 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
18116597 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
18116642 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:18116718 original size:20 final size:20
Alignment explanation
Indices: 18116693--18116752 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
18116683 TATGATTACC
18116693 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
18116713 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
18116733 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
18116753 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:18116827 original size:25 final size:25
Alignment explanation
Indices: 18116795--18116844 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
18116785 ATACATAAAC
* * *
18116795 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18116820 CCTAGGGGCAAAACGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18116845 TTATAAGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18124600 original size:38 final size:37
Alignment explanation
Indices: 18124541--18124702 Score: 228
Period size: 38 Copynumber: 4.5 Consensus size: 37
18124531 TCAATCATGC
*
18124541 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCAT-AT
*
18124580 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCAT-AT
18124618 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT-T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAT
*
18124649 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAT
18124686 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
18124703 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
37 18 0.16
38 50 0.44
39 11 0.10
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (37 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAT
Found at i:18124606 original size:31 final size:31
Alignment explanation
Indices: 18124564--18124677 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
18124554 CCTTTTCATA
18124564 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
18124601 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
18124633 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
18124664 TTTCATGTTTCATA
1 TTTCATATTTCATA
18124678 TTTCATATAC
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:18124675 original size:69 final size:68
Alignment explanation
Indices: 18124564--18124702 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 68
18124554 CCTTTTCATA
18124564 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCAT-ATACTGGGCCGAA
18124629 GCCT
65 GCCT
*
18124633 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATATACTGGGCCGAAG
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATATACTGGGCCGAAG
18124698 CCT
66 CCT
18124701 TT
1 TT
18124703 ACTGTAAACG
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 19 0.28
69 50 0.72
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (68 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATATACTGGGCCGAAG
CCT
Found at i:18124940 original size:24 final size:24
Alignment explanation
Indices: 18124894--18124988 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
18124884 GCTTTATCAT
*
18124894 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
18124919 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
18124943 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
18124966 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18124989 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18124973 original size:47 final size:49
Alignment explanation
Indices: 18124894--18124987 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
18124884 GCTTTATCAT
*
18124894 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
18124943 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
18124988 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:18125064 original size:20 final size:20
Alignment explanation
Indices: 18125039--18125098 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
18125029 TATGATTACC
18125039 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
18125059 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
18125079 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
18125099 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:18125173 original size:25 final size:25
Alignment explanation
Indices: 18125141--18125188 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18125131 ATACATAAAC
* * *
18125141 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18125166 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18125189 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18129735 original size:80 final size:80
Alignment explanation
Indices: 18129588--18129792 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
18129578 ATTGAATGAT
* * ** * * *
18129588 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATA-CCGGGTTAAGACCCGAAGGCCAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
*
18129652 TGTGCTAGT-GACCAC
66 TGTGCAAGTCGACC-C
* * *
18129667 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG-CAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA-
** *
18129731 TTGTGCAAGTCGTTCT
65 TTGTGCAAGTCGACCC
* *
18129747 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
18129793 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.33
80 69 0.65
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
TGTGCAAGTCGACCC
Found at i:18129790 original size:40 final size:40
Alignment explanation
Indices: 18129586--18129792 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
18129576 CAATTGAATG
* * ** **
18129586 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* ***
18129626 ATA-CCGGGTTAAGACCCGAAGGCCATT-GTGC-TAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAT-GTGGTT
* * *
18129665 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
18129705 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
18129745 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
18129785 ATATCCGG
1 ATATCCGG
18129793 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
39 30 0.22
40 108 0.78
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:18137781 original size:80 final size:80
Alignment explanation
Indices: 18137634--18137838 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
18137624 ATTGAATGAT
* * ** * * *
18137634 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATA-CCGGGTTAAGACCCGAAGGCCAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
*
18137698 TGTGCTAGT-GACCAC
66 TGTGCAAGTCGACC-C
* * *
18137713 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG-CAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA-
** *
18137777 TTGTGCAAGTCGTTCT
65 TTGTGCAAGTCGACCC
* *
18137793 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
18137839 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.33
80 69 0.65
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
TGTGCAAGTCGACCC
Found at i:18137836 original size:40 final size:40
Alignment explanation
Indices: 18137632--18137838 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
18137622 CAATTGAATG
* * ** **
18137632 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* ***
18137672 ATA-CCGGGTTAAGACCCGAAGGCCATT-GTGC-TAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAT-GTGGTT
* * *
18137711 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
18137751 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
18137791 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
18137831 ATATCCGG
1 ATATCCGG
18137839 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
39 30 0.22
40 108 0.78
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:18140944 original size:23 final size:23
Alignment explanation
Indices: 18140918--18140969 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
18140908 TTCCACCCGT
18140918 GATATGCTGTATCTCGAAGCAAA
1 GATATGCTGTATCTCGAAGCAAA
*
18140941 GATATGTTGTATCTCGAAGCAAA
1 GATATGCTGTATCTCGAAGCAAA
18140964 GATATG
1 GATATG
18140970 GCACACTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (23 bp):
GATATGCTGTATCTCGAAGCAAA
Found at i:18141602 original size:2 final size:2
Alignment explanation
Indices: 18141595--18141625 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18141585 ATATTTATTA
18141595 AT AT 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 AT AT A
18141626 ACTCAAGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18149493 original size:22 final size:22
Alignment explanation
Indices: 18149435--18149516 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
18149425 CCCGAGATGA
*
18149435 TAAACAGTAAGCTCTATTGAGC
1 TAAATAGTAAGCTCTATTGAGC
*
18149457 TGAAACTGGTAAGCTCTATTGAGC
1 T-AAA-TAGTAAGCTCTATTGAGC
* *
18149481 TAAATAGTAAGCTC-ATCGAGT
1 TAAATAGTAAGCTCTATTGAGC
*
18149502 TGAATCAGTAAGCTC
1 TAAAT-AGTAAGCTC
18149517 ATACGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.18
22 19 0.37
23 6 0.12
24 17 0.33
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (22 bp):
TAAATAGTAAGCTCTATTGAGC
Found at i:18153038 original size:29 final size:27
Alignment explanation
Indices: 18153004--18153106 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
18152994 TACTCAATCA
*
18153004 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
18153033 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
18153062 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
18153091 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
18153107 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:18161046 original size:29 final size:27
Alignment explanation
Indices: 18161012--18161114 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
18161002 TACTCAATCA
*
18161012 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
18161041 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
18161070 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
18161099 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
18161115 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:18169852 original size:28 final size:26
Alignment explanation
Indices: 18169760--18169871 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
18169750 AGGAAGCGTC
* * *
18169760 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGTT
* * *
18169787 CTGGTGGCTCTGGCACATATTTCTGTT
1 CTGGTGACTCTGCCACAT-TATCTGTT
*
18169814 CTAGTGACTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTGT-T
* *
18169842 CTGGTGACTCTGTCATATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
18169868 CTGG
1 CTGG
18169872 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:18177638 original size:27 final size:27
Alignment explanation
Indices: 18177600--18177709 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
18177590 GGAAGCGTCC
*
18177600 GGTGGCTATGCCACAATTATCTGATCT
1 GGTGGCTCTGCCACAATTATCTGATCT
*
18177627 GGTGGCTCTGCCACATATT-TCTGTTCT
1 GGTGGCTCTGCCACA-ATTATCTGATCT
*
18177654 GGTGGCTCTGCCACGATTATCTGTATCT
1 GGTGGCTCTGCCACAATTATCTG-ATCT
* * *
18177682 GGTGACTCTGTCAC-ATTATCTGTTCT
1 GGTGGCTCTGCCACAATTATCTGATCT
18177708 GG
1 GG
18177710 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATTATCTGATCT
Found at i:18177704 original size:54 final size:54
Alignment explanation
Indices: 18177600--18177709 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
18177590 GGAAGCGTCC
* *
18177600 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCT
* * *
18177654 GGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCT
18177708 GG
1 GG
18177710 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (54 bp):
GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCT
Found at i:18178601 original size:15 final size:16
Alignment explanation
Indices: 18178570--18178602 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18178560 GGCTTGAATG
18178570 GATTTACAAAAATAAA
1 GATTTACAAAAATAAA
*
18178586 GATTTTCAAAAA-AAA
1 GATTTACAAAAATAAA
18178601 GA
1 GA
18178603 GAAAAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (16 bp):
GATTTACAAAAATAAA
Found at i:18185403 original size:27 final size:27
Alignment explanation
Indices: 18185360--18185463 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
18185350 AGGAAGCGTC
*
18185360 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
18185387 CTGGTGGCTCTGGCACATATT-TCTG-T
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
18185413 CTGGTGGCTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
18185441 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
18185464 ATTCTAACAG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
25 3 0.05
26 19 0.29
27 26 0.40
28 17 0.26
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:18192247 original size:23 final size:23
Alignment explanation
Indices: 18192191--18192237 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
18192181 AAATGGGAAG
18192191 AAAGTACCTTTAGTTCGAGTTTA
1 AAAGTACCTTTAGTTCGAGTTTA
18192214 AAAGTACCTTTAGTTCGAGTTTA
1 AAAGTACCTTTAGTTCGAGTTTA
18192237 A
1 A
18192238 GTGGTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (23 bp):
AAAGTACCTTTAGTTCGAGTTTA
Found at i:18195504 original size:46 final size:45
Alignment explanation
Indices: 18195283--18195505 Score: 174
Period size: 46 Copynumber: 4.8 Consensus size: 45
18195273 GTCACTTGTG
* * *
18195283 TGAG-CTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-AATTA
1 TGAGTCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GA
* *
18195327 TGAAAG-CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGA
1 TG--AGTCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGA
* *
18195375 GGAGTGCTAGTGTAAGACATGTCTGGGACATGCGA-CAGCCT-CGAGACA
1 TGAGT-CTAGTGTAAGACATGTCTGGGACATGC-ATC-GGCTACGAG--A
* *
18195423 TAAG-CTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
1 TGAGTCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
* *
18195467 TGTGTC-AGTGTAAGACCATGTATGGGACATGGCATCGGC
1 TGAGTCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
18195506 AAAGGTATAC
Statistics
Matches: 146, Mismatches: 15, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
44 14 0.10
45 17 0.12
46 59 0.40
47 32 0.22
48 23 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
TGAGTCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
Found at i:18197835 original size:39 final size:39
Alignment explanation
Indices: 18197781--18197959 Score: 263
Period size: 39 Copynumber: 4.5 Consensus size: 39
18197771 TAATGGAGAA
18197781 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
18197820 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
18197859 TTATATCCGGGCTAAG-CCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCC-CGAAGGCATTCGTGCTGGTG
* * *
18197898 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
18197937 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
18197960 CATGCTTTGT
Statistics
Matches: 130, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 108 0.83
40 19 0.15
41 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:18204267 original size:19 final size:18
Alignment explanation
Indices: 18204243--18204291 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 18
18204233 TAGTGTTATG
18204243 TTAATTAAGTTTA-AAGTAA
1 TTAATTAAGTTTACAA-T-A
18204262 TTAATTAAAGTTTACAATA
1 TTAATT-AAGTTTACAATA
18204281 TTAATTAAGTT
1 TTAATTAAGTT
18204292 ATATAAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.18
19 13 0.46
20 8 0.29
21 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (18 bp):
TTAATTAAGTTTACAATA
Found at i:18204604 original size:307 final size:307
Alignment explanation
Indices: 18204044--18204655 Score: 958
Period size: 307 Copynumber: 2.0 Consensus size: 307
18204034 GTGTTGTACT
* *
18204044 AAATTTTGATCTGAAAATTTATTGAAATGATAGTTAATTAAGGTGCAAGATTTAAAGCGTAAAAG
1 AAATTTTGATCTGAAAATTTATTGAAATGATAGTTAATTAAGGTGCAAGATCTAAAGCATAAAAG
* * *
18204109 TGGTAAAAGATTAACCACTACAGATTATTAGTTTTCTAAGGGATCAATATGGCAAATTACCCTTT
66 TGGTAAAAGATTAACCACTACAGATTATTAGTTTGCTAAGGGATAAATATGGAAAATTACCCTTT
18204174 TTATATGGAATTTTGGTGGTAGAGGAAAACATTCCCCACTTATGTTAATTAATTAAGCTTAGTGT
131 TTATATGGAATTTTGGTGGTAGAGGAAAACATTCCCCACTTATGTTAATTAATTAAGCTTAGTGT
* * * * *
18204239 TATGTTAATTAAGTTTAAAGTAATTAATTAAAGTTTACAATATTAATTAAGTTATATAAGGAATT
196 TAAGTTAATCAAGTTTAAAGTAATTAATTAAAATTTAAAATATTAATTAAGGTATATAAGGAATT
* *
18204304 TTAAAGGAAAAGATGAGATATTTTCCCATCATCTTCATTATTTCTAA
261 TAAAAGGAAAAAATGAGATATTTTCCCATCATCTTCATTATTTCTAA
*
18204351 AAATTTTGATCTGAAAATTTATTGAATTGATAGTTAATTAAGGTGCAAGGA-CTAAAGCATAAAA
1 AAATTTTGATCTGAAAATTTATTGAAATGATAGTTAATTAAGGTGCAA-GATCTAAAGCATAAAA
** * * * *
18204415 GTGGTAAAATTTTAACCATTATAGATTTTTAGTTTGCTAAGGGTTAAATATGGAAAATTTA-CCT
65 GTGGTAAAAGATTAACCACTACAGATTATTAGTTTGCTAAGGGATAAATATGGAAAA-TTACCCT
* * * **
18204479 TTTTATATGGAATTTTGGTGGTAGATGACAACATTCTCCACTTATGTTGCTTAATTAAGCTTAGT
129 TTTTATATGGAATTTTGGTGGTAGAGGAAAACATTCCCCACTTATGTTAATTAATTAAGCTTAGT
18204544 GTTAAGTTAATCAAGTTTAAAGTAATTAATTAAAATTTAAAATATTAATTAAGGTATATAAGGAA
194 GTTAAGTTAATCAAGTTTAAAGTAATTAATTAAAATTTAAAATATTAATTAAGGTATATAAGGAA
* *
18204609 TTTAAAAGGAAAAAATGAGATATTTTCTCATCATCTTCATTCTTTCT
259 TTTAAAAGGAAAAAATGAGATATTTTCCCATCATCTTCATTATTTCT
18204656 CACGGATAAG
Statistics
Matches: 277, Mismatches: 26, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
307 272 0.98
308 5 0.02
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (307 bp):
AAATTTTGATCTGAAAATTTATTGAAATGATAGTTAATTAAGGTGCAAGATCTAAAGCATAAAAG
TGGTAAAAGATTAACCACTACAGATTATTAGTTTGCTAAGGGATAAATATGGAAAATTACCCTTT
TTATATGGAATTTTGGTGGTAGAGGAAAACATTCCCCACTTATGTTAATTAATTAAGCTTAGTGT
TAAGTTAATCAAGTTTAAAGTAATTAATTAAAATTTAAAATATTAATTAAGGTATATAAGGAATT
TAAAAGGAAAAAATGAGATATTTTCCCATCATCTTCATTATTTCTAA
Found at i:18210313 original size:25 final size:25
Alignment explanation
Indices: 18210284--18210331 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18210274 TTATAATTTG
* * *
18210284 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18210309 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18210332 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18210397 original size:20 final size:20
Alignment explanation
Indices: 18210374--18210414 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18210364 ATAAACATTG
18210374 TATGGATGATATGCACATGA
1 TATGGATGATATGCACATGA
*
18210394 TATGTATGATATGCACATGA
1 TATGGATGATATGCACATGA
18210414 T
1 T
18210415 GTATTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
TATGGATGATATGCACATGA
Found at i:18210533 original size:46 final size:47
Alignment explanation
Indices: 18210465--18210560 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
18210455 AGGAAGTGAA
18210465 AAAGGGCTTATGCCCCAATTATT-AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAATTATT
* * *
18210511 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAATTATT
18210558 AAA
1 AAA
18210561 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 22 0.48
47 24 0.52
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAATTATT
Found at i:18210543 original size:24 final size:24
Alignment explanation
Indices: 18210464--18210567 Score: 158
Period size: 23 Copynumber: 4.4 Consensus size: 24
18210454 GAGGAAGTGA
18210464 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAATTATT
18210488 -AAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAATTATT
*
18210511 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAATTATT
* *
18210534 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAATTATT
18210558 AAAAGAGGCT
1 AAAAG-GGCT
18210568 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
23 45 0.59
24 27 0.36
25 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAATTATT
Found at i:18210829 original size:31 final size:31
Alignment explanation
Indices: 18210775--18210838 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
18210765 CGTTTACAGT
*
18210775 AAAGGCTTCGGCCCAATAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* * **
18210806 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
18210837 AA
1 AA
18210839 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:18215703 original size:22 final size:21
Alignment explanation
Indices: 18215536--18215703 Score: 72
Period size: 22 Copynumber: 7.2 Consensus size: 21
18215526 ATGCATATAC
*
18215536 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGG-TGAATGGCCAAT
* *
18215558 GTGATGAATGTGAACTTG-CATATGT
1 GTGAT-AAGGTGAA-TGGCCA-A--T
18215583 GTGATAAGGTCGAATGGCCAAT
1 GTGATAAGGT-GAATGGCCAAT
* *
18215605 GTGATGAATGTGAACAT-GCATATAT
1 GTGAT-AAGGTG-A-ATGGC-CA-AT
*
18215630 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGG-TGAATGGCCAAT
* *
18215652 GTGATGAATGTGAACAT-GCATATAT
1 GTGAT-AAGGTG-A-ATGGC-CA-AT
18215677 GTGATAAGGTAGAATGGCCAAT
1 GTGATAAGGT-GAATGGCCAAT
18215699 GTGAT
1 GTGAT
18215704 GAACGTGGAA
Statistics
Matches: 110, Mismatches: 15, Indels: 42
0.66 0.09 0.25
Matches are distributed among these distances:
22 32 0.29
23 25 0.23
24 26 0.24
25 27 0.25
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (21 bp):
GTGATAAGGTGAATGGCCAAT
Done.