Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 140 of 163
Found at i:45864178 original size:3 final size:3
Alignment explanation
Indices: 45864170--45864212 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
45864160 TTTGATTTTC
45864170 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
45864213 CATTGCTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:45869890 original size:6 final size:6
Alignment explanation
Indices: 45869879--45869904 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
45869869 ATTGAGATTC
45869879 GGTGTA GGTGTA GGTGTA GGTGTA GG
1 GGTGTA GGTGTA GGTGTA GGTGTA GG
45869905 GTTTTTCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (6 bp):
GGTGTA
Found at i:45878442 original size:68 final size:69
Alignment explanation
Indices: 45878311--45878449 Score: 217
Period size: 68 Copynumber: 2.0 Consensus size: 69
45878301 GACTTGCAAA
* * *
45878311 ATTGTGAAAAACTAGATAGGCAAAATAAGTACAAGCAATAATGCAAATTAGGTTTCCCAAGATAT
1 ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
45878376 AGAC
66 AGAC
* **
45878380 ATTGTGAAAAACTAGATAGGAAAAAT-AGTAAAAGCAATGATACAAATTAGGTTTCCTGAGATAT
1 ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
45878444 AGAC
66 AGAC
45878448 AT
1 AT
45878450 GAAGAAAGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
68 39 0.61
69 25 0.39
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (69 bp):
ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
AGAC
Found at i:45880619 original size:15 final size:15
Alignment explanation
Indices: 45880599--45880627 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45880589 TGGAACCAAA
45880599 TAATCATAAATTATG
1 TAATCATAAATTATG
45880614 TAATCATAAATTAT
1 TAATCATAAATTAT
45880628 CTAAAATTCA
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:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATCATAAATTATG
Found at i:45883761 original size:2 final size:2
Alignment explanation
Indices: 45883754--45883787 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
45883744 TTCAGGTGTT
45883754 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45883788 GTCTCTCGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:45887305 original size:17 final size:18
Alignment explanation
Indices: 45887266--45887305 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
45887256 CTGCAATTTT
*
45887266 TTTTTTACTTTTTTGCTA
1 TTTTTTACTTTTTTACTA
45887284 TTTTTTA-TTTTTTCACTA
1 TTTTTTACTTTTTT-ACTA
45887302 TTTT
1 TTTT
45887306 GCTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.12, C:0.10, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTTACTTTTTTACTA
Found at i:45900464 original size:9 final size:9
Alignment explanation
Indices: 45900450--45900526 Score: 75
Period size: 9 Copynumber: 8.4 Consensus size: 9
45900440 TTTGGTTAAA
45900450 AATTACCCG
1 AATTACCCG
*
45900459 AATTACCCA
1 AATTACCCG
**
45900468 AATTAATCG
1 AATTACCCG
*
45900477 AATTAACCG
1 AATTACCCG
*
45900486 AATTAACCG
1 AATTACCCG
45900495 AATTA-CCG
1 AATTACCCG
*
45900503 AAAAATACCCG
1 --AATTACCCG
45900514 AATTACCCG
1 AATTACCCG
45900523 AATT
1 AATT
45900527 TTTTTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.05
9 48 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:45900622 original size:6 final size:6
Alignment explanation
Indices: 45900611--45900639 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
45900601 TTGGGTTGTC
45900611 TTTTAG TTTTAG TTTTAG TTTTAG TTTTA
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTA
45900640 AAAATTCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTTTAG
Found at i:45907907 original size:31 final size:31
Alignment explanation
Indices: 45907867--45907930 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
45907857 AAAAAAAACC
*
45907867 CAATGACTTAAATAAAAACTTTCGAATAGTT
1 CAATAACTTAAATAAAAACTTTCGAATAGTT
* *
45907898 CAATAACTTAAGTGAAAACTTTCGAATAGTT
1 CAATAACTTAAATAAAAACTTTCGAATAGTT
45907929 CA
1 CA
45907931 GTGGCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTCGAATAGTT
Found at i:45908828 original size:6 final size:7
Alignment explanation
Indices: 45908813--45908845 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
45908803 TTTGTCTCTT
45908813 AAAACAA
1 AAAACAA
45908820 AAAACAA
1 AAAACAA
45908827 AAAACAA
1 AAAACAA
*
45908834 AAAACAG
1 AAAACAA
45908841 AAAAC
1 AAAAC
45908846 GCAATCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:45915490 original size:16 final size:16
Alignment explanation
Indices: 45915462--45915503 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
45915452 TTAAAACTTC
45915462 AAAA-AAAAA-AAAAA
1 AAAAGAAAAAGAAAAA
* *
45915476 AAAAGAAGAAGAAAAG
1 AAAAGAAAAAGAAAAA
45915492 AAAAGAAAAAGA
1 AAAAGAAAAAGA
45915504 GGCTAGTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 15 0.65
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAA
Found at i:45920881 original size:39 final size:40
Alignment explanation
Indices: 45920832--45920910 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
45920822 TTAAGTTGCA
45920832 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
*
45920872 TTTAT-TTAGTATTATTTAGGTGAAATTATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
45920911 ATTTTTGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 33 0.87
40 5 0.13
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.57
Consensus pattern (40 bp):
TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
Found at i:45921137 original size:39 final size:40
Alignment explanation
Indices: 45921088--45921166 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
45921078 TTAAGTTGCA
45921088 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
*
45921128 TTTAT-TTAGTATTATTTAGGTGAAATTATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
45921167 ATTTTTGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 33 0.87
40 5 0.13
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.57
Consensus pattern (40 bp):
TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
Found at i:45921195 original size:256 final size:257
Alignment explanation
Indices: 45920740--45921252 Score: 1019
Period size: 256 Copynumber: 2.0 Consensus size: 257
45920730 TTTTTTGTTA
45920740 TTTTTACTATTGTTATTGTTTGGATATTGTATAACACTTTTTTTATTGTTAATTTTGTTATTATT
1 TTTTTACTATTGTTATTGTTTGGATATTGTATAACACTTTTTTTATTGTTAATTTTGTTATTATT
45920805 TTAGAGATATTTTCTTGTTAAGTTGCATTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTA
66 TTAGAGATATTTTCTTGTTAAGTTGCATTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTA
45920870 ATTTTATTTAGTATTATTTAGGTGAAATTATTTATTTTAATATTTTTGATGTATTATATATATTT
131 ATTTTATTTAGTATTATTTAGGTGAAATTATTTATTTTAATATTTTTGATGTATTATATATATTT
45920935 AAAAGTTATGTAAAAAATAATATAATATAAAAAATTTTAAAATAGGTGGA-CAGGTCGGGTC
196 AAAAGTTATGTAAAAAATAATATAATATAAAAAATTTTAAAATAGGTGGACCAGGTCGGGTC
45920996 TTTTTACTATTGTTATTGTTTGGATATTGTATAACACTTTTTTTATTGTTAATTTTGTTATTATT
1 TTTTTACTATTGTTATTGTTTGGATATTGTATAACACTTTTTTTATTGTTAATTTTGTTATTATT
45921061 TTAGAGATATTTTCTTGTTAAGTTGCATTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTA
66 TTAGAGATATTTTCTTGTTAAGTTGCATTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTA
45921126 ATTTTATTTAGTATTATTTAGGTGAAATTATTTATTTTAATATTTTTGATGTATTATATATATTT
131 ATTTTATTTAGTATTATTTAGGTGAAATTATTTATTTTAATATTTTTGATGTATTATATATATTT
45921191 AAAAGTTATGTAAAAAATAATATAATATAAAAAATTTTAAAATAGGTGGACCAGGTCGGGTC
196 AAAAGTTATGTAAAAAATAATATAATATAAAAAATTTTAAAATAGGTGGACCAGGTCGGGTC
45921253 CATGTTTTAA
Statistics
Matches: 256, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
256 245 0.96
257 11 0.04
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (257 bp):
TTTTTACTATTGTTATTGTTTGGATATTGTATAACACTTTTTTTATTGTTAATTTTGTTATTATT
TTAGAGATATTTTCTTGTTAAGTTGCATTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTA
ATTTTATTTAGTATTATTTAGGTGAAATTATTTATTTTAATATTTTTGATGTATTATATATATTT
AAAAGTTATGTAAAAAATAATATAATATAAAAAATTTTAAAATAGGTGGACCAGGTCGGGTC
Found at i:45929612 original size:46 final size:47
Alignment explanation
Indices: 45929532--45929627 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 47
45929522 TTTGCCAAGG
45929532 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
1 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
*
45929579 AGTACGTATGGTACTGG-TAACTAGGAATAGGAAAGCTGCTTTGTAC
1 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
45929625 AGT
1 AGT
45929628 TATTCTTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 31 0.65
47 17 0.35
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (47 bp):
AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
Found at i:45930003 original size:12 final size:12
Alignment explanation
Indices: 45929983--45930013 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
45929973 ATTGAGTGCA
45929983 TGCATGTGTATG
1 TGCATGTGTATG
*
45929995 TGTATGTGTATG
1 TGCATGTGTATG
45930007 TGCATGT
1 TGCATGT
45930014 ATACAGCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.06, G:0.32, T:0.45
Consensus pattern (12 bp):
TGCATGTGTATG
Found at i:45939774 original size:22 final size:21
Alignment explanation
Indices: 45939749--45939801 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
45939739 ATGTAGAATT
45939749 TTTAATTAAATAAAAAAATAAA
1 TTTAATTAAAT-AAAAAATAAA
*
45939771 TTTAATATTAAATAAAAATTAAA
1 TTT-A-ATTAAATAAAAAATAAA
*
45939794 TTAAATTA
1 TTTAATTA
45939802 TCATTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 12 0.44
24 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAATTAAATAAAAAATAAA
Found at i:45939785 original size:16 final size:16
Alignment explanation
Indices: 45939752--45939799 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
45939742 TAGAATTTTT
* *
45939752 AATTAAATAAAAAAATA
1 AATTAAATTAAATAA-A
45939769 AATTTAATATTAAATAAA
1 AA-TTAA-ATTAAATAAA
45939787 AATTAAATTAAAT
1 AATTAAATTAAAT
45939800 TATCATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 7 0.26
19 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAATTAAATAAA
Found at i:45940640 original size:29 final size:28
Alignment explanation
Indices: 45940596--45940657 Score: 97
Period size: 29 Copynumber: 2.2 Consensus size: 28
45940586 TTAAATTTAT
45940596 TTAATTTTTTAATAATATAAAGGCTAAA
1 TTAATTTTTTAATAATATAAAGGCTAAA
* *
45940624 TTAATTTATTTAATAATATAGAGGCTAAT
1 TTAATTT-TTTAATAATATAAAGGCTAAA
45940653 TTAAT
1 TTAAT
45940658 CTAGTCACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (28 bp):
TTAATTTTTTAATAATATAAAGGCTAAA
Found at i:45944064 original size:12 final size:13
Alignment explanation
Indices: 45944038--45944071 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
45944028 ATGCATCCAG
45944038 ATAATTAATAAAT
1 ATAATTAATAAAT
45944051 ATAATTAA-AAAT
1 ATAATTAATAAAT
45944063 ATAATTAAT
1 ATAATTAAT
45944072 TTGACTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTAATAAAT
Found at i:45944106 original size:26 final size:27
Alignment explanation
Indices: 45944052--45944104 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
45944042 TTAATAAATA
*
45944052 TAATTAAAAATATAATTAATTTGACTT
1 TAATTAAAAATATAATTAATTAGACTT
45944079 TAATTAAAAA-ATAATT-ATTAGACTT
1 TAATTAAAAATATAATTAATTAGACTT
45944104 T
1 T
45944105 TACTGTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 6 0.24
27 10 0.40
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (27 bp):
TAATTAAAAATATAATTAATTAGACTT
Found at i:45944186 original size:29 final size:28
Alignment explanation
Indices: 45944154--45944214 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
45944144 AAAAGCCGTC
*
45944154 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTGTCAAAATTTACCGAAATGGGCC-A
* ** *
45944183 TTTTGTGATTATTTACCGGAATGGGCCA
1 TTTTGTCAAAATTTACCGAAATGGGCCA
45944211 TTTT
1 TTTT
45944215 CCGGGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (28 bp):
TTTTGTCAAAATTTACCGAAATGGGCCA
Found at i:45955557 original size:25 final size:24
Alignment explanation
Indices: 45955504--45955549 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45955494 GTTTTTCATT
*
45955504 CTGTTTTTGCTTGCTTTGCTGTTAA
1 CTGTTTTTGCTTGC-TTGCTGCTAA
45955529 -TGTTTTTGCTTGC-TGCTGCTA
1 CTGTTTTTGCTTGCTTGCTGCTA
45955550 CCACTGTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.07, C:0.17, G:0.22, T:0.54
Consensus pattern (24 bp):
CTGTTTTTGCTTGCTTGCTGCTAA
Found at i:45956844 original size:35 final size:35
Alignment explanation
Indices: 45956804--45956871 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
45956794 ATACAGAGAA
*
45956804 CAAAGGAGGAAGAAACAAAGAATAATTTACTTAGG
1 CAAAGGAGGAAGAAACAAAGAACAATTTACTTAGG
45956839 CAAAGGAGGAAGAAACAAAGAACAATTTACTTA
1 CAAAGGAGGAAGAAACAAAGAACAATTTACTTA
45956872 AGCCTCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.16
Consensus pattern (35 bp):
CAAAGGAGGAAGAAACAAAGAACAATTTACTTAGG
Found at i:45957553 original size:21 final size:21
Alignment explanation
Indices: 45957529--45957580 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
45957519 CATTGTTTCT
* *
45957529 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
45957550 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
45957571 AATCTCACCG
1 AATCTCACCG
45957581 TCACCGCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:45964363 original size:2 final size:2
Alignment explanation
Indices: 45964356--45964380 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45964346 AACAAATCTA
45964356 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
45964381 GGAGAAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:45972336 original size:15 final size:16
Alignment explanation
Indices: 45972316--45972350 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45972306 GGAACTATAA
*
45972316 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45972331 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45972347 ATTT
1 ATTT
45972351 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45972489 original size:15 final size:16
Alignment explanation
Indices: 45972471--45972505 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45972461 ATTATTAAGA
*
45972471 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45972486 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45972502 ATTT
1 ATTT
45972506 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45972597 original size:155 final size:155
Alignment explanation
Indices: 45972315--45973849 Score: 3052
Period size: 155 Copynumber: 9.9 Consensus size: 155
45972305 TGGAACTATA
45972315 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45972380 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45972445 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45972470 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45972535 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45972600 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45972625 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45972690 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45972755 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45972780 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45972845 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45972910 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45972935 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45973000 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45973065 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45973090 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45973155 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45973220 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45973245 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45973310 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45973375 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45973400 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45973465 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45973530 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45973555 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
45973620 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
45973685 AAATAAATTTCTGCTAATTATTAAG
131 AAATAAATTTCTGCTAATTATTAAG
45973710 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
1 AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
*
45973775 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCA
66 TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
*
45973840 AAACAAATTT
131 AAATAAATTT
45973850 ATGTTAAGGG
Statistics
Matches: 1378, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 1378 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (155 bp):
AATTTTATTAAATTATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAA
TTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCA
AAATAAATTTCTGCTAATTATTAAG
Found at i:45972644 original size:15 final size:16
Alignment explanation
Indices: 45972626--45972660 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45972616 ATTATTAAGA
*
45972626 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45972641 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45972657 ATTT
1 ATTT
45972661 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45972799 original size:15 final size:16
Alignment explanation
Indices: 45972781--45972815 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45972771 ATTATTAAGA
*
45972781 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45972796 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45972812 ATTT
1 ATTT
45972816 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45972954 original size:15 final size:16
Alignment explanation
Indices: 45972936--45972970 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45972926 ATTATTAAGA
*
45972936 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45972951 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45972967 ATTT
1 ATTT
45972971 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45973109 original size:15 final size:16
Alignment explanation
Indices: 45973091--45973125 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45973081 ATTATTAAGA
*
45973091 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45973106 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45973122 ATTT
1 ATTT
45973126 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45973264 original size:15 final size:16
Alignment explanation
Indices: 45973246--45973280 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45973236 ATTATTAAGA
*
45973246 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45973261 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45973277 ATTT
1 ATTT
45973281 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45973419 original size:15 final size:16
Alignment explanation
Indices: 45973401--45973435 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45973391 ATTATTAAGA
*
45973401 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45973416 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45973432 ATTT
1 ATTT
45973436 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45973574 original size:15 final size:16
Alignment explanation
Indices: 45973556--45973590 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45973546 ATTATTAAGA
*
45973556 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45973571 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45973587 ATTT
1 ATTT
45973591 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45973729 original size:15 final size:16
Alignment explanation
Indices: 45973711--45973745 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45973701 ATTATTAAGA
*
45973711 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
45973726 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45973742 ATTT
1 ATTT
45973746 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45973987 original size:45 final size:43
Alignment explanation
Indices: 45973889--45973998 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
45973879 TTTTCCATTA
45973889 TGCTATTACACCTCTATTCCA-T---TTAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTAACCAAACACAAGAT
* * ***
45973928 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATT-AACCAAACACAAGA-T
45973973 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
45973999 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 19 0.33
40 1 0.02
43 2 0.03
44 11 0.19
45 25 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATTACATTAACCAAACACAAGAT
Found at i:45973998 original size:16 final size:16
Alignment explanation
Indices: 45973979--45974030 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
45973969 GATTTGCTAT
* *
45973979 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
45973995 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45974011 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45974027 TACA
1 TACA
45974031 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45983013 original size:24 final size:24
Alignment explanation
Indices: 45982977--45983023 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
45982967 TGATTTTACA
*
45982977 AATAATTTTAAAATAAAATAAACC
1 AATAATTTAAAAATAAAATAAACC
*
45983001 AATAATTTAAAAATAAGATAAAC
1 AATAATTTAAAAATAAAATAAAC
45983024 TGTATTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (24 bp):
AATAATTTAAAAATAAAATAAACC
Found at i:45983232 original size:40 final size:39
Alignment explanation
Indices: 45983169--45983294 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 39
45983159 TTGGATAATT
*
45983169 TTTTAAAAGTAATTTTTAAAATAAATTGTGATAATTTTCA
1 TTTTAAAAGTAA-TTTTAAAATAAATTGAGATAATTTTCA
* * *
45983209 TTTTAACAA-TAATTTATACAATAATTTGGGATAACTTTTGC-
1 TTTTAA-AAGTAATTT-TAAAATAAATTGAGATAA-TTTT-CA
** *
45983250 TTTTAAAAGTAATTTT-TTA-AAATTCAGATAATTTTCA
1 TTTTAAAAGTAATTTTAAAATAAATTGAGATAATTTTCA
45983287 TTTTAAAA
1 TTTTAAAA
45983295 ATAAACTGAG
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
36 1 0.01
37 12 0.17
38 9 0.12
39 4 0.06
40 27 0.38
41 18 0.25
42 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (39 bp):
TTTTAAAAGTAATTTTAAAATAAATTGAGATAATTTTCA
Found at i:45993885 original size:22 final size:21
Alignment explanation
Indices: 45993847--45993911 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
45993837 AAAAATTCAG
45993847 AAAAATA-TAAAAATATTTTT
1 AAAAATATTAAAAATATTTTT
*
45993867 AAAAATCATTAAAATTA-TTTT
1 AAAAAT-ATTAAAAATATTTTT
45993888 AAAAATATTAAAAAATATTTTT
1 AAAAATATT-AAAAATATTTTT
45993910 AA
1 AA
45993912 TACTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.23
21 17 0.44
22 13 0.33
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATATTAAAAATATTTTT
Found at i:45995350 original size:6 final size:6
Alignment explanation
Indices: 45995341--45995373 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
45995331 TAAGATAAAG
45995341 AAACTT AAACTT AAACTT AAACTT AAACTT AAA
1 AAACTT AAACTT AAACTT AAACTT AAACTT AAA
45995374 AAAAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAACTT
Found at i:46007843 original size:200 final size:200
Alignment explanation
Indices: 46007500--46007895 Score: 792
Period size: 200 Copynumber: 2.0 Consensus size: 200
46007490 AGAAAACAAG
46007500 GTAGCAGCTAGAGGTGTCCACGGGTCGGGCTGGGTTCAGGTCAGGCCCAAAAATTTTTTTTGGCC
1 GTAGCAGCTAGAGGTGTCCACGGGTCGGGCTGGGTTCAGGTCAGGCCCAAAAATTTTTTTTGGCC
46007565 CGCCTCCTAGGCTCGGGCTCAGCCCGGCCCGAAATATGGGCCTAAAATTTTATCCAGGCCCAGCC
66 CGCCTCCTAGGCTCGGGCTCAGCCCGGCCCGAAATATGGGCCTAAAATTTTATCCAGGCCCAGCC
46007630 CGGGAATAAAATTCTAAGTCCGAGCCCGGCCTTGCCCGGCCCATTTTTAATAAACACTAAAAAAT
131 CGGGAATAAAATTCTAAGTCCGAGCCCGGCCTTGCCCGGCCCATTTTTAATAAACACTAAAAAAT
46007695 ATAGC
196 ATAGC
46007700 GTAGCAGCTAGAGGTGTCCACGGGTCGGGCTGGGTTCAGGTCAGGCCCAAAAATTTTTTTTGGCC
1 GTAGCAGCTAGAGGTGTCCACGGGTCGGGCTGGGTTCAGGTCAGGCCCAAAAATTTTTTTTGGCC
46007765 CGCCTCCTAGGCTCGGGCTCAGCCCGGCCCGAAATATGGGCCTAAAATTTTATCCAGGCCCAGCC
66 CGCCTCCTAGGCTCGGGCTCAGCCCGGCCCGAAATATGGGCCTAAAATTTTATCCAGGCCCAGCC
46007830 CGGGAATAAAATTCTAAGTCCGAGCCCGGCCTTGCCCGGCCCATTTTTAATAAACACTAAAAAAT
131 CGGGAATAAAATTCTAAGTCCGAGCCCGGCCTTGCCCGGCCCATTTTTAATAAACACTAAAAAAT
46007895 A
196 A
46007896 ATTTTAAAAA
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 196 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (200 bp):
GTAGCAGCTAGAGGTGTCCACGGGTCGGGCTGGGTTCAGGTCAGGCCCAAAAATTTTTTTTGGCC
CGCCTCCTAGGCTCGGGCTCAGCCCGGCCCGAAATATGGGCCTAAAATTTTATCCAGGCCCAGCC
CGGGAATAAAATTCTAAGTCCGAGCCCGGCCTTGCCCGGCCCATTTTTAATAAACACTAAAAAAT
ATAGC
Found at i:46007977 original size:25 final size:25
Alignment explanation
Indices: 46007949--46007999 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
46007939 TCCATTTTCT
*
46007949 AAACGGGCCTCATTTTTTTACCCAA
1 AAACAGGCCTCATTTTTTTACCCAA
46007974 AAACAGGCCTCATTTTTTTACCCAA
1 AAACAGGCCTCATTTTTTTACCCAA
46007999 A
1 A
46008000 CCCATATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (25 bp):
AAACAGGCCTCATTTTTTTACCCAA
Found at i:46011761 original size:18 final size:19
Alignment explanation
Indices: 46011714--46011764 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
46011704 TAGTTTTTGA
* *
46011714 TTTTTATATTATTTTTAAT
1 TTTTTATAATATATTTAAT
* *
46011733 TATTTAAAATATATTT-AT
1 TTTTTATAATATATTTAAT
46011751 TTTTTATAATATAT
1 TTTTTATAATATAT
46011765 AATAAATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTATAATATATTTAAT
Found at i:46011768 original size:25 final size:24
Alignment explanation
Indices: 46011718--46011768 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
46011708 TTTTGATTTT
* *
46011718 TATATTATTTTTAATTATTTAAAA
1 TATATTATTTTTAATAATATAAAA
* *
46011742 TATATTTATTTTTTATAATATATAA
1 TATA-TTATTTTTAATAATATAAAA
46011767 TA
1 TA
46011769 AATATATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATTATTTTTAATAATATAAAA
Found at i:46012075 original size:3 final size:3
Alignment explanation
Indices: 46012062--46012091 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46012052 TATTAAAAAT
*
46012062 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46012092 GAGTGCTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46013340 original size:127 final size:127
Alignment explanation
Indices: 46013114--46013681 Score: 1136
Period size: 127 Copynumber: 4.5 Consensus size: 127
46013104 GTGTTTGTTC
46013114 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
1 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
46013179 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
66 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
46013241 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
1 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
46013306 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
66 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
46013368 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
1 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
46013433 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
66 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
46013495 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
1 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
46013560 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
66 GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
46013622 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATAT
1 ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATAT
46013682 AATTATATTT
Statistics
Matches: 441, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 441 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (127 bp):
ATCTAAACACATTTTGTACTATTAACATTTTAACAATTTAACCGTTAAATTTATAGATATTATAA
GATCGTGTTATATCATCACTTGAATTTTTTATAAAATAATATATATATATATATATTAAAAA
Found at i:46015924 original size:21 final size:21
Alignment explanation
Indices: 46015872--46015924 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
46015862 TTTAACTTTC
* *
46015872 TTTATATTTTTTTAGAATTTT
1 TTTATATATATTTAGAATTTT
46015893 TTT-TGGA-ATATTTAGAATTTT
1 TTTAT--ATATATTTAGAATTTT
46015914 TTTATATATAT
1 TTTATATATAT
46015925 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTATATATATTTAGAATTTT
Found at i:46018322 original size:21 final size:21
Alignment explanation
Indices: 46018270--46018322 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
46018260 TTTAACTTTC
* *
46018270 TTTATATTTTTTTAGAATTTT
1 TTTATATATATTTAGAATTTT
46018291 TTT-TGGA-ATATTTAGAATTTT
1 TTTAT--ATATATTTAGAATTTT
46018312 TTTATATATAT
1 TTTATATATAT
46018323 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTATATATATTTAGAATTTT
Found at i:46045397 original size:26 final size:25
Alignment explanation
Indices: 46045363--46045423 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
46045353 TTTATAAAGA
*
46045363 TTAATTTAATCTATTTTA-AATTTTAT
1 TTAA-TTAATCTATTGTAGAATTTT-T
*
46045389 TTACATTAATTTATTGTAGAATTTTT
1 TTA-ATTAATCTATTGTAGAATTTTT
46045415 TTAATTAAT
1 TTAATTAAT
46045424 TGAATTACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 6 0.19
26 18 0.58
27 7 0.23
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (25 bp):
TTAATTAATCTATTGTAGAATTTTT
Found at i:46054669 original size:92 final size:91
Alignment explanation
Indices: 46054512--46054720 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
46054502 TTGATTTTAG
* * *
46054512 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
46054577 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
46054604 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
46054668 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
46054696 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
46054721 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:46054683 original size:24 final size:25
Alignment explanation
Indices: 46054648--46054695 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
46054638 TTATGAAATT
46054648 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
46054672 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
46054696 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:46054891 original size:16 final size:16
Alignment explanation
Indices: 46054870--46054911 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46054860 TTATTAAATT
*
46054870 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46054886 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46054901 AT-TATGTTTAA
1 ATATAT-TTTAA
46054912 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46054896 original size:15 final size:15
Alignment explanation
Indices: 46054861--46054902 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46054851 TTAAGAATTT
*
46054861 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46054875 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46054889 TATTTAATAATAAT
1 TATTTAATTATAAT
46054903 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46054927 original size:75 final size:75
Alignment explanation
Indices: 46054846--46055084 Score: 189
Period size: 79 Copynumber: 3.1 Consensus size: 75
46054836 TAAGAATATT
46054846 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
46054911 AATATGATTA
66 AATATGATTA
* ** * * * * **
46054921 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAA--ATAACA-ATAACAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTATAATATAT-TTAATAATAATT
**** * ** *
46054983 -TACCAAAACAAATTTTTGCT
59 AT-GTTTAA-ATATGATT--A
*
46055003 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
46055068 AATATGATTA
66 AATATGATTA
46055078 AATTATT
1 AATTATT
46055085 TATTATTGAT
Statistics
Matches: 114, Mismatches: 35, Indels: 30
0.64 0.20 0.17
Matches are distributed among these distances:
75 18 0.16
76 12 0.11
77 9 0.08
78 21 0.18
79 22 0.19
80 9 0.08
81 12 0.11
82 11 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:46055042 original size:18 final size:17
Alignment explanation
Indices: 46055014--46055048 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46055004 ATTATTAAGA
*
46055014 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46055031 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46055049 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46055152 original size:157 final size:157
Alignment explanation
Indices: 46054845--46055161 Score: 573
Period size: 157 Copynumber: 2.0 Consensus size: 157
46054835 ATAAGAATAT
*
46054845 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
46054910 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
*
46054975 TAATAATTTACCAAAACAAATTTTTGC
131 TAATAATTTACCAAAACAAATTTATGC
46055002 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
46055067 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
*
46055132 TAATCATTTAACC-AAACAAATTTATGC
131 TAATAATTT-ACCAAAACAAATTTATGC
46055159 TAA
1 TAA
46055162 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
157 151 0.98
158 3 0.02
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:46055298 original size:45 final size:44
Alignment explanation
Indices: 46055209--46055301 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
46055199 TTACACATCT
*
46055209 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
46055253 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
46055298 ATTA
1 ATTA
46055302 AACCTCTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.47
45 23 0.53
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:46055306 original size:16 final size:16
Alignment explanation
Indices: 46055282--46055351 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
46055272 TTGATTTGCT
46055282 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
46055298 ATTAAACCTCTATTCC
1 ATTACACCTCTATTCC
*
46055314 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
46055330 AATT-CACCTCTAATCC
1 -ATTACACCTCTATTCC
*
46055346 AATACA
1 ATTACA
46055352 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
15 2 0.04
16 43 0.90
17 3 0.06
ACGTcount: A:0.33, C:0.34, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:46055733 original size:115 final size:114
Alignment explanation
Indices: 46055530--46055744 Score: 270
Period size: 115 Copynumber: 1.9 Consensus size: 114
46055520 ATTCCATTAA
* * *
46055530 TTTGTGATGCTAATTTAATTTGATATTTTAATTTTTTTAATTAAATTGGGGTCTGATTAACTTGT
1 TTTGTGATGCTAATTTAATTTAATATTTTAATTTTTTTAATTAAATTAGGATCTGATTAACTTGT
* * * ** *
46055595 AATGTCAACTTTGTCAAGGGTTTAATATTAGTATTGATATTTTCATAAG
66 AATATCAACTCTATCAAAAGTTTAATATTAATATTGATATTTTCATAAG
* * * *
46055644 TTTGTGATGCTATTTTAATTTAAT-TTTTAATTTTTTATTAATTGATTTAGTATCTGATTAACTT
1 TTTGTGATGCTAATTTAATTTAATATTTTAA-TTTTT-TTAATTAAATTAGGATCTGATTAACTT
* *
46055708 GTGATATCAACTCTATTAAAAGTTTAATATTAATATT
64 GTAATATCAACTCTATCAAAAGTTTAATATTAATATT
46055745 CATGTAGATA
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
113 6 0.07
114 27 0.32
115 51 0.61
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (114 bp):
TTTGTGATGCTAATTTAATTTAATATTTTAATTTTTTTAATTAAATTAGGATCTGATTAACTTGT
AATATCAACTCTATCAAAAGTTTAATATTAATATTGATATTTTCATAAG
Found at i:46057771 original size:14 final size:15
Alignment explanation
Indices: 46057741--46057771 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46057731 TATAATCTTT
46057741 ATAATTTTAATAAAA
1 ATAATTTTAATAAAA
46057756 ATAATTTTAA-AAAA
1 ATAATTTTAATAAAA
46057770 AT
1 AT
46057772 TAGATTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATTTTAATAAAA
Found at i:46067778 original size:24 final size:24
Alignment explanation
Indices: 46067750--46067802 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
46067740 TTAGTTAGTC
* *
46067750 AAATAAACAATGCTAATAAATGCT
1 AAATAAACAATACTAATAAATACT
* * *
46067774 AAATATACTATATTAATAAATACT
1 AAATAAACAATACTAATAAATACT
46067798 AAATA
1 AAATA
46067803 TTCTAGAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATAAACAATACTAATAAATACT
Found at i:46069601 original size:3 final size:3
Alignment explanation
Indices: 46069593--46069619 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46069583 AAGAATCTCT
46069593 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
46069620 ATCATCGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:46070240 original size:25 final size:25
Alignment explanation
Indices: 46070206--46070288 Score: 157
Period size: 25 Copynumber: 3.3 Consensus size: 25
46070196 TTCTCTGTAA
46070206 TTTCTTTGATAACTGGGGCTTTAGT
1 TTTCTTTGATAACTGGGGCTTTAGT
46070231 TTTCTTTGATAACTGGGGCTTTAGT
1 TTTCTTTGATAACTGGGGCTTTAGT
46070256 TTTCTTTGATAACTGGGGCTTTAGT
1 TTTCTTTGATAACTGGGGCTTTAGT
46070281 TTTGCTTT
1 TTT-CTTT
46070289 TTTCGTTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 53 0.93
26 4 0.07
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.51
Consensus pattern (25 bp):
TTTCTTTGATAACTGGGGCTTTAGT
Found at i:46070606 original size:49 final size:47
Alignment explanation
Indices: 46070534--46070628 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 47
46070524 TGTATGGTAG
* *
46070534 TTGTTATAATTAGTTATTTCATTACTTTCTTTTTACAGATTATTCTTTA
1 TTGTTATAATTAGTTATTCCATTAC-TT-TTTTCACAGATTATTCTTTA
*
46070583 TTGTTATAATTAGTTATTCCATTACTTTTTTCCCAGATTATTCTTT
1 TTGTTATAATTAGTTATTCCATTACTTTTTTCACAGATTATTCTTT
46070629 CATATAGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 17 0.40
48 2 0.05
49 24 0.56
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.58
Consensus pattern (47 bp):
TTGTTATAATTAGTTATTCCATTACTTTTTTCACAGATTATTCTTTA
Found at i:46079587 original size:12 final size:12
Alignment explanation
Indices: 46079570--46079595 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46079560 GAACTTGGAT
46079570 GAGGATGAGGAA
1 GAGGATGAGGAA
46079582 GAGGATGAGGAA
1 GAGGATGAGGAA
46079594 GA
1 GA
46079596 TCCTTTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (12 bp):
GAGGATGAGGAA
Found at i:46091093 original size:4 final size:4
Alignment explanation
Indices: 46091084--46091126 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
46091074 GAACCTTTTC
46091084 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
46091127 ATCAAAGCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:46099169 original size:16 final size:18
Alignment explanation
Indices: 46099148--46099185 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
46099138 CCATCAAAAC
46099148 AAATT-GAAAAATT-TAA
1 AAATTGGAAAAATTATAA
*
46099164 AAATTGGGAAAATTATAA
1 AAATTGGAAAAATTATAA
46099182 AAAT
1 AAAT
46099186 ATATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AAATTGGAAAAATTATAA
Found at i:46099316 original size:18 final size:19
Alignment explanation
Indices: 46099288--46099326 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
46099278 TCTAGACATA
46099288 TATATTTTTTTAATAATTT
1 TATATTTTTTTAATAATTT
46099307 TATATTTTTTT-ATAATTT
1 TATATTTTTTTAATAATTT
46099325 TA
1 TA
46099327 AAAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATTTTTTTAATAATTT
Found at i:46102391 original size:22 final size:22
Alignment explanation
Indices: 46102356--46102417 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
46102346 AATAAAATGA
*
46102356 AATTTATTTAATTACTATATATT
1 AATTT-TTAAATTACTATATATT
* *
46102379 AATTTTTAAATTATTATATTTT
1 AATTTTTAAATTACTATATATT
* *
46102401 TATTTTTATAATGACTA
1 AATTTTTA-AATTACTA
46102418 AATTTATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTTTTAAATTACTATATATT
Found at i:46110492 original size:3 final size:3
Alignment explanation
Indices: 46110484--46110518 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
46110474 TTTTCTACAT
*
46110484 TTC TTC TTC TTC TTC TCC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
46110519 TTGACTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:46111198 original size:2 final size:2
Alignment explanation
Indices: 46111186--46111214 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
46111176 AGAATACGGG
46111186 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46111215 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46112236 original size:16 final size:16
Alignment explanation
Indices: 46112215--46112250 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
46112205 AGACCAGCTA
46112215 CAGCATGAAATTGCTC
1 CAGCATGAAATTGCTC
*
46112231 CAGCATGAAATTGGTC
1 CAGCATGAAATTGCTC
46112247 CAGC
1 CAGC
46112251 TGGAACCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (16 bp):
CAGCATGAAATTGCTC
Found at i:46117087 original size:23 final size:23
Alignment explanation
Indices: 46117061--46117136 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
46117051 ATAAGTGTCA
46117061 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46117084 CACTGAAATGTAGTC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
46117107 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
46117130 CACTGAT
1 CACTGAT
46117137 CAATAACACT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
22 2 0.04
23 43 0.93
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46120909 original size:21 final size:21
Alignment explanation
Indices: 46120868--46120911 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
46120858 AAATTTCAAA
**
46120868 GTTGGTATCGATATTTAATTG
1 GTTGGTATCGATACATAATTG
46120889 GTTGGTATCGATACCAT-ATTG
1 GTTGGTATCGATA-CATAATTG
46120910 GT
1 GT
46120912 ACTTTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (21 bp):
GTTGGTATCGATACATAATTG
Found at i:46123436 original size:24 final size:24
Alignment explanation
Indices: 46123409--46123463 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
46123399 CTATATGTTG
* *
46123409 CCTTAGTGGCGTATTGTGTTTGGC
1 CCTTAGTGGCGTACTCTGTTTGGC
*
46123433 CCTTA-TGGTGTACTCTGTTTGGC
1 CCTTAGTGGCGTACTCTGTTTGGC
46123456 CCTT-GTGG
1 CCTTAGTGG
46123464 TGAATTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.07, C:0.20, G:0.31, T:0.42
Consensus pattern (24 bp):
CCTTAGTGGCGTACTCTGTTTGGC
Found at i:46127290 original size:12 final size:12
Alignment explanation
Indices: 46127273--46127303 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46127263 CTCTAGTTTT
46127273 CACACGGCCTAG
1 CACACGGCCTAG
*
46127285 CACACGGCCTGG
1 CACACGGCCTAG
46127297 CACACGG
1 CACACGG
46127304 GCGTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:46129008 original size:23 final size:23
Alignment explanation
Indices: 46128981--46129102 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
46128971 AGTGTTATTG
*
46128981 ATCAGTGGTAGCTTCAGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
46129003 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
* *
46129027 ATCAGTGGTAGATTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
46129050 TTCAGTGGTAGCTGCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46129073 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46129096 ATCAGTG
1 ATCAGTG
46129103 TGGCACTTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
22 1 0.01
23 85 0.98
24 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:46131777 original size:25 final size:25
Alignment explanation
Indices: 46131732--46131810 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
46131722 GTCATTAGCA
* *
46131732 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
46131756 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * * *
46131781 TTACCGTTATTCAGCTCGGAAGAGC
1 TTACCGATACTCAGCTCGTATGAGC
46131806 TTACC
1 TTACC
46131811 ATTTATCGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 9 0.19
25 39 0.81
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:46132962 original size:12 final size:12
Alignment explanation
Indices: 46132947--46132979 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
46132937 CTCCAGTTTT
46132947 CACACGGCCTAG
1 CACACGGCCTAG
*
46132959 CACACGGCCTGG
1 CACACGGCCTAG
46132971 CACACGGCC
1 CACACGGCC
46132980 GTGTGAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.45, G:0.27, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:46134360 original size:18 final size:17
Alignment explanation
Indices: 46134309--46134361 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
46134299 TCGTACCTTA
46134309 GGTGAGCTCACATCTTT
1 GGTGAGCTCACATCTTT
*
46134326 GGTGAGCTCACAACTTT
1 GGTGAGCTCACATCTTT
*
46134343 GGATGAGCTCGCATCTTT
1 GG-TGAGCTCACATCTTT
46134361 G
1 G
46134362 CGATTTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (17 bp):
GGTGAGCTCACATCTTT
Found at i:46135272 original size:2 final size:2
Alignment explanation
Indices: 46135265--46135289 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46135255 TGAGTCAGGC
46135265 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 A
46135290 GGTTTGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46135807 original size:45 final size:46
Alignment explanation
Indices: 46135757--46135894 Score: 124
Period size: 45 Copynumber: 3.1 Consensus size: 46
46135747 CCCTGGGCAA
*
46135757 CAGTGGAATAGATTGAAGATTA-CAGATCTTATCTCCCTGAAGTTG
1 CAGTGGAGTAGATTGAAGATTACCAGATCTTATCTCCCTGAAGTTG
* ** * *
46135802 CAGTGGAGCAGACAGAAG-TATACCA-ATCCTATCTCCTTGAAGTTG
1 CAGTGGAGTAGATTGAAGAT-TACCAGATCTTATCTCCCTGAAGTTG
* * * * * *
46135847 CAATGGAGTGGATT-AA-AATAGCAGATCTCATCTCTCTGAAGTTG
1 CAGTGGAGTAGATTGAAGATTACCAGATCTTATCTCCCTGAAGTTG
46135891 CAGT
1 CAGT
46135895 AAAGCAGATC
Statistics
Matches: 71, Mismatches: 18, Indels: 9
0.72 0.18 0.09
Matches are distributed among these distances:
43 4 0.06
44 22 0.31
45 43 0.61
46 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (46 bp):
CAGTGGAGTAGATTGAAGATTACCAGATCTTATCTCCCTGAAGTTG
Found at i:46136893 original size:2 final size:2
Alignment explanation
Indices: 46136886--46136910 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46136876 TGAGTCAGGC
46136886 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 A
46136911 GGTTTGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46138453 original size:25 final size:24
Alignment explanation
Indices: 46138407--46138461 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
46138397 CTATATTTAA
46138407 ATATAAATTCAAAACCCAAAACTAG
1 ATATAAATTCAAAACCCAAAACT-G
* *
46138432 ATATAAA-TCATAAACTCGAAACTG
1 ATATAAATTCA-AAACCCAAAACTG
46138456 A-ATAAA
1 ATATAAA
46138462 AAATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 17 0.63
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.22
Consensus pattern (24 bp):
ATATAAATTCAAAACCCAAAACTG
Found at i:46142423 original size:23 final size:22
Alignment explanation
Indices: 46142352--46142442 Score: 66
Period size: 22 Copynumber: 4.0 Consensus size: 22
46142342 ATCAACTATT
46142352 AATATTTTAA-TAT-TAAATAT-
1 AATA-TTTAAGTATATAAATATG
*
46142372 -ATATTATAAGTTATATTAAATAATA
1 AATATT-TAAG-TATA-TAAAT-ATG
46142397 AATACTTTATAGTATA-AAATATG
1 AATA-TTTA-AGTATATAAATATG
*
46142420 AATATTTAATTATATAAATATG
1 AATATTTAAGTATATAAATATG
46142442 A
1 A
46142443 GTAAGGTAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
18 2 0.03
19 6 0.10
21 8 0.14
22 12 0.21
23 11 0.19
24 6 0.10
26 9 0.16
27 4 0.07
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (22 bp):
AATATTTAAGTATATAAATATG
Found at i:46148013 original size:23 final size:22
Alignment explanation
Indices: 46147942--46148032 Score: 66
Period size: 22 Copynumber: 4.0 Consensus size: 22
46147932 ATCAACTATT
46147942 AATATTTTAA-TAT-TAAATAT-
1 AATA-TTTAAGTATATAAATATG
*
46147962 -ATATTATAAGTTATATTAAATAATA
1 AATATT-TAAG-TATA-TAAAT-ATG
46147987 AATACTTTATAGTATA-AAATATG
1 AATA-TTTA-AGTATATAAATATG
*
46148010 AATATTTAATTATATAAATATG
1 AATATTTAAGTATATAAATATG
46148032 A
1 A
46148033 GTAAGGTAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
18 2 0.03
19 6 0.10
21 8 0.14
22 12 0.21
23 11 0.19
24 6 0.10
26 9 0.16
27 4 0.07
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (22 bp):
AATATTTAAGTATATAAATATG
Found at i:46149710 original size:27 final size:29
Alignment explanation
Indices: 46149680--46149735 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
46149670 ACAATTCAAA
*
46149680 ATACA-TTTTTTTA-TATTATACATATAT
1 ATACACTTTTTTTAGTATTATAAATATAT
46149707 ATACACGTTTTTTTAGTTATTATAAATAT
1 ATACAC-TTTTTTTAG-TATTATAAATAT
46149736 TTCTCTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
29 8 0.33
31 11 0.46
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.54
Consensus pattern (29 bp):
ATACACTTTTTTTAGTATTATAAATATAT
Found at i:46158626 original size:11 final size:11
Alignment explanation
Indices: 46158610--46158676 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
46158600 NNNNNNNNNA
46158610 TTTTAAAATAT
1 TTTTAAAATAT
46158621 TTTTAAAATACT
1 TTTTAAAATA-T
**
46158633 TTTTTTAAT-T
1 TTTTAAAATAT
*
46158643 TTTT----TAA
1 TTTTAAAATAT
46158650 TTTTAAAATAT
1 TTTTAAAATAT
46158661 TTTTAAAATACT
1 TTTTAAAATA-T
46158673 TTTT
1 TTTT
46158677 TTAATTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 5 0.11
11 22 0.49
12 13 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46158653 original size:30 final size:30
Alignment explanation
Indices: 46158619--46158731 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 30
46158609 ATTTTAAAAT
46158619 ATTTTTAAAATACTTTTTTTAATTTTTTTA
1 ATTTTTAAAATACTTTTTTTAATTTTTTTA
*
46158649 A-TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
1 ATTTTTAAAATA---CT----T--TTTT--TAATTTTTTTA
*
46158689 ATTTTAAAAATACTTTTTTTAATTTTTTTAA
1 ATTTTTAAAATACTTTTTTTAATTTTTTT-A
46158720 ATTTTTAAAATA
1 ATTTTTAAAATA
46158732 AAAATGGGCC
Statistics
Matches: 66, Mismatches: 4, Indels: 25
0.69 0.04 0.26
Matches are distributed among these distances:
29 10 0.15
30 11 0.17
31 12 0.18
32 5 0.08
34 1 0.02
36 1 0.02
38 5 0.08
40 12 0.18
41 9 0.14
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTTTAAAATACTTTTTTTAATTTTTTTA
Found at i:46158679 original size:31 final size:30
Alignment explanation
Indices: 46158641--46158731 Score: 128
Period size: 31 Copynumber: 3.0 Consensus size: 30
46158631 CTTTTTTTAA
**
46158641 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTTAA-ATTTTTAAAATAC
* *
46158672 TTTTTTTAATTTTTTTAATTTTAAAAATAC
1 TTTTTTTAATTTTTTAAATTTTTAAAATAC
46158702 TTTTTTTAATTTTTTTAAATTTTTAAAATA
1 TTTTTTTAA-TTTTTTAAATTTTTAAAATA
46158732 AAAATGGGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.40
31 32 0.60
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTTTAATTTTTTAAATTTTTAAAATAC
Found at i:46158699 original size:41 final size:40
Alignment explanation
Indices: 46158609--46158706 Score: 178
Period size: 40 Copynumber: 2.4 Consensus size: 40
46158599 NNNNNNNNNN
46158609 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
46158649 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
46158689 ATTTTAAAAATACTTTTT
1 ATTTT-AAAATA-TTTTT
46158707 TTAATTTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
40 45 0.80
41 6 0.11
42 5 0.09
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
Found at i:46158716 original size:40 final size:39
Alignment explanation
Indices: 46158609--46158725 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 39
46158599 NNNNNNNNNN
46158609 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
1 ATTTTAAAATATTTTTAAAATA-TTTTTTTAATTTTTTTA
46158649 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
1 ATTTTAAAATATTTTTAAAATA-TTTTTTTAATTTTTTTA
** *
46158689 ATTTTAAAAATACTTTTTTTAAT-TTTTTTAAATTTTT
1 ATTTT-AAAATA-TTTTTAAAATATTTTTTTAATTTTT
46158726 AAAATAAAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 58 0.81
41 6 0.08
42 8 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (39 bp):
ATTTTAAAATATTTTTAAAATATTTTTTTAATTTTTTTA
Found at i:46169095 original size:10 final size:10
Alignment explanation
Indices: 46169015--46169106 Score: 57
Period size: 10 Copynumber: 9.0 Consensus size: 10
46169005 TGGTCAATTA
46169015 AAAAATCATTT
1 AAAAAT-ATTT
46169026 AAAAA-ACTTGT
1 AAAAATA-TT-T
*
46169037 AAAAAT-TAT
1 AAAAATATTT
*
46169046 AAAAATA-GT
1 AAAAATATTT
46169055 AAAAATTATTT
1 AAAAA-TATTT
*
46169066 ACATAAT-TTT
1 A-AAAATATTT
**
46169076 AAATTTTATTT
1 AAA-AATATTT
46169087 AAAAATATTT
1 AAAAATATTT
46169097 AAAAATATTT
1 AAAAATATTT
46169107 TTCAATAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
9 15 0.24
10 25 0.40
11 20 0.32
12 3 0.05
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (10 bp):
AAAAATATTT
Found at i:46169097 original size:21 final size:21
Alignment explanation
Indices: 46169060--46169099 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46169050 ATAGTAAAAA
*
46169060 TTATTTACATAATTTTAAATT
1 TTATTTACAAAATTTTAAATT
46169081 TTATTTA-AAAATATTTAAA
1 TTATTTACAAAAT-TTTAAA
46169100 AATATTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTTACAAAATTTTAAATT
Found at i:46178441 original size:42 final size:42
Alignment explanation
Indices: 46178381--46178471 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
46178371 GTGTGTCACG
* * * *
46178381 CTGTGTAACTCTCTGACTTGATACACACGGCCGTGTTGCAGA
1 CTGTGTAACTCACAGACTTGATACACACAGCCGTGTCGCAGA
*
46178423 CTGTGTGACTCACAGACTTGATACACACAGCCGTGTCGCAGA
1 CTGTGTAACTCACAGACTTGATACACACAGCCGTGTCGCAGA
*
46178465 CCGTGTA
1 CTGTGTA
46178472 TGGCACACGG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (42 bp):
CTGTGTAACTCACAGACTTGATACACACAGCCGTGTCGCAGA
Found at i:46178479 original size:29 final size:29
Alignment explanation
Indices: 46178446--46178584 Score: 242
Period size: 29 Copynumber: 4.8 Consensus size: 29
46178436 AGACTTGATA
*
46178446 CACACAGCCGTGTCGCAGACCGTGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
46178475 CACACGGCCGTGTCGCAGACCGTGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
46178504 CACACGGCCGTGTCGCAGACCGTGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
*
46178533 CACACGACCGTGTCGCAGACCGTGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
* *
46178562 CACACGGCCGTGTGGCAGCCCGT
1 CACACGGCCGTGTCGCAGACCGT
46178585 CTCCCAGGCT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 105 1.00
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.17
Consensus pattern (29 bp):
CACACGGCCGTGTCGCAGACCGTGTATGG
Found at i:46178899 original size:14 final size:14
Alignment explanation
Indices: 46178880--46178910 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46178870 TGAATTGTTT
*
46178880 TAATCTAAATTTAC
1 TAATCTAAATTAAC
46178894 TAATCTAAATTAAC
1 TAATCTAAATTAAC
46178908 TAA
1 TAA
46178911 GAACACGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:46181218 original size:42 final size:43
Alignment explanation
Indices: 46181122--46181301 Score: 186
Period size: 43 Copynumber: 4.3 Consensus size: 43
46181112 AAACACATAT
* * * **
46181122 ATCACATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
* * *
46181163 ATCACATATCGATGCCACTGTCCCAGACAGGGTCTTATATGAA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
* ** * *
46181206 ATCATATA-CGATGTTAATGTCCCAGACATGGTCTTAAATGTA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
* * *
46181248 ATCTCATATCGATGCCAATGTCCCAGACATGATTTTACATGAA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
*
46181291 ATCACACATCG
1 ATCACATATCG
46181302 GGATTCCTAA
Statistics
Matches: 111, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 8 0.07
42 40 0.36
43 63 0.57
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
Found at i:46185866 original size:355 final size:354
Alignment explanation
Indices: 46185216--46185929 Score: 1322
Period size: 355 Copynumber: 2.0 Consensus size: 354
46185206 CGGTCGTGTG
46185216 AAACCTCTATCTGTCAATTCTTTCAACTAAGCTTTCAACTCTTTTAATACGGTCGGTGCCATTCT
1 AAACCTCTATCTGTCAATTCTTTCAACTAAGCTTTCAACTCTTTTAATACGGTCGGTGCCATTCT
* *
46185281 GTACGGAGCTATCGATATCAGTGTTGTTCCCGGCACTAACTTAATACCAATTTCAACTTCTCTAA
66 GTACGGAGCTATCGATATCAGTATTGTTCCCGGCACTAACTCAATACCAATTTCAACTTCTCTAA
46185346 TCGGTGGCAAACCCGGTAACTCTTTAGGAAACACATCTGGGTATTTACATACAACTGGTACTAAT
131 TCGGTGGCAAACCCGGTAACTCTTTAGGAAACACATCTGGGTATTTACATACAACTGGTACTAAT
46185411 TCAATCTTCTTTTCGGTCACTTTAGAGTCGAGTACATAGGCAAAGTAAGCTTCACAACCCTTTCT
196 TCAATCTTCTTTTCGGTCACTTTAGAGTCGAGTACATAGGCAAAGTAAGCTTCACAACCCTTTCT
46185476 CACATATTTTCGAGCTAACATCGAAGAAATCATTACTGGTAAACCATTCAAATCATCTGATTCAA
261 CACATATTTTCGAGCTAACATCGAAGAAATCATTACTGGTAAACCATTCAAATCATCTGATTCAA
*
46185541 TCTAGATAATCTTATTATTCTGACATTTC
326 TCCAGATAATCTTATTATTCTGACATTTC
*
46185570 AAACCTCTATCTGTCAATTCTTTCAACTAAGCTTTCCACTCTTTTAATACGGTCGGTGCCATTCT
1 AAACCTCTATCTGTCAATTCTTTCAACTAAGCTTTCAACTCTTTTAATACGGTCGGTGCCATTCT
*
46185635 GTACGGAGCTATCGATATCAGTATTGTTCCCGGCACTAACTCAATACCAATTTCAACTTCTCTGA
66 GTACGGAGCTATCGATATCAGTATTGTTCCCGGCACTAACTCAATACCAATTTCAACTTCTCTAA
* *
46185700 TCGGTGGCAAAACCTGGTAACTCTTTAGGAAACATAT-TCGGGTATTTACATACAACTGGTACTA
131 TCGGTGGC-AAACCCGGTAACTCTTTAGGAAACACATCT-GGGTATTTACATACAACTGGTACTA
* *
46185764 ATTTAATCTTCTTTTTGGTCACTTTAGAGTCGAGTACATAGGCAAAGTAAGCTTCACAACCCTTT
194 ATTCAATCTTCTTTTCGGTCACTTTAGAGTCGAGTACATAGGCAAAGTAAGCTTCACAACCCTTT
46185829 CTCACATATTTTCGAGCTAACATCGAAGAAATCATTACTGGTAAACCATTCAAATCATCTGATTC
259 CTCACATATTTTCGAGCTAACATCGAAGAAATCATTACTGGTAAACCATTCAAATCATCTGATTC
46185894 AATCCAGATAATCTTATTATTCTGACATTTC
324 AATCCAGATAATCTTATTATTCTGACATTTC
46185925 AAACC
1 AAACC
46185930 AATCGTCTTC
Statistics
Matches: 349, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
354 135 0.39
355 214 0.61
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (354 bp):
AAACCTCTATCTGTCAATTCTTTCAACTAAGCTTTCAACTCTTTTAATACGGTCGGTGCCATTCT
GTACGGAGCTATCGATATCAGTATTGTTCCCGGCACTAACTCAATACCAATTTCAACTTCTCTAA
TCGGTGGCAAACCCGGTAACTCTTTAGGAAACACATCTGGGTATTTACATACAACTGGTACTAAT
TCAATCTTCTTTTCGGTCACTTTAGAGTCGAGTACATAGGCAAAGTAAGCTTCACAACCCTTTCT
CACATATTTTCGAGCTAACATCGAAGAAATCATTACTGGTAAACCATTCAAATCATCTGATTCAA
TCCAGATAATCTTATTATTCTGACATTTC
Found at i:46193046 original size:28 final size:28
Alignment explanation
Indices: 46192997--46193051 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
46192987 AACTTTTCTG
46192997 AAAAAAATTCATTTCATCTCTTGCTTTTA
1 AAAAAAATTCATTTCATCTCTT-CTTTTA
*
46193026 AAAAAAACTTCCTTTC-T-TCTTCTTTT
1 AAAAAAA-TTCATTTCATCTCTTCTTTT
46193052 TTCTCTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 4 0.17
29 8 0.33
30 7 0.29
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (28 bp):
AAAAAAATTCATTTCATCTCTTCTTTTA
Found at i:46195437 original size:30 final size:30
Alignment explanation
Indices: 46195403--46195473 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
46195393 TAGCAAAATG
46195403 GGACCTGGTGGACCGGGAGGA-GGGCCG-GGA
1 GGACCTGGTGGACCGGGAGGATGGG--GAGGA
46195433 GGACCTGGTGGACCGGGAGGATGGGGAGGA
1 GGACCTGGTGGACCGGGAGGATGGGGAGGA
46195463 GGACCTGGTGG
1 GGACCTGGTGG
46195474 TTGGGGTCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
29 1 0.03
30 35 0.90
31 3 0.08
ACGTcount: A:0.17, C:0.17, G:0.56, T:0.10
Consensus pattern (30 bp):
GGACCTGGTGGACCGGGAGGATGGGGAGGA
Found at i:46195450 original size:18 final size:18
Alignment explanation
Indices: 46195403--46195453 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
46195393 TAGCAAAATG
46195403 GGACCTGGTGGACCGGGA
1 GGACCTGGTGGACCGGGA
46195421 GGA----G-GG-CCGGGA
1 GGACCTGGTGGACCGGGA
46195433 GGACCTGGTGGACCGGGA
1 GGACCTGGTGGACCGGGA
46195451 GGA
1 GGA
46195454 TGGGGAGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 1 0.04
16 1 0.04
17 2 0.07
18 12 0.44
ACGTcount: A:0.18, C:0.20, G:0.55, T:0.08
Consensus pattern (18 bp):
GGACCTGGTGGACCGGGA
Found at i:46195542 original size:27 final size:27
Alignment explanation
Indices: 46195511--46195575 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
46195501 CGGATTTGGG
46195511 CCTGGAGGTCCTGGTTGGGGTCCGGGA
1 CCTGGAGGTCCTGGTTGGGGTCCGGGA
46195538 CCTGGAGGTCCTGGTTGGGGTCCGGGA
1 CCTGGAGGTCCTGGTTGGGGTCCGGGA
46195565 CCTGGAGGTCC
1 CCTGGAGGTCC
46195576 CTGGGGCCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.08, C:0.25, G:0.46, T:0.22
Consensus pattern (27 bp):
CCTGGAGGTCCTGGTTGGGGTCCGGGA
Found at i:46202097 original size:190 final size:191
Alignment explanation
Indices: 46201774--46202155 Score: 757
Period size: 190 Copynumber: 2.0 Consensus size: 191
46201764 TCATGAATTT
46201774 TCTTAAGAACACCTTTCTAACACATACCCAAAAATAATCAGCTATTTTGACTAACTAAAAATAGA
1 TCTTAAGAACACCTTTCTAACACATACCCAAAAATAATCAGCTATTTTGACTAACTAAAAATAGA
46201839 AGAACCAAATTATGTCAAATTAAAGTATAAATATTAATTCTAAAATTTAAACATAGTATAAGAAC
66 AGAACCAAATTATGTCAAATTAAAGTATAAATATTAATTCTAAAATTTAAACATAGTATAAGAAC
46201904 CGTAATTATAATTTTTCATTTAATTTAATAAAAAAATTAACTTTTAT-AAAATATTTTTAA
131 CGTAATTATAATTTTTCATTTAATTTAATAAAAAAATTAACTTTTATAAAAATATTTTTAA
46201964 TCTTAAGAACACCTTTCTAACACATACCCAAAAATAATCAGCTATTTTGACTAACTAAAAATAGA
1 TCTTAAGAACACCTTTCTAACACATACCCAAAAATAATCAGCTATTTTGACTAACTAAAAATAGA
46202029 AGAACCAAATTATGTCAAATTAAAGTATAAATATTAATTCTAAAATTTAAACATAGTATAAGAAC
66 AGAACCAAATTATGTCAAATTAAAGTATAAATATTAATTCTAAAATTTAAACATAGTATAAGAAC
46202094 CGTAATTATAATTTTTCATTTAATTTAATAAAAAAATTAACTTTTATAAAAATATTTTTAA
131 CGTAATTATAATTTTTCATTTAATTTAATAAAAAAATTAACTTTTATAAAAATATTTTTAA
46202155 T
1 T
46202156 TAAAATAAAG
Statistics
Matches: 191, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
190 177 0.93
191 14 0.07
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (191 bp):
TCTTAAGAACACCTTTCTAACACATACCCAAAAATAATCAGCTATTTTGACTAACTAAAAATAGA
AGAACCAAATTATGTCAAATTAAAGTATAAATATTAATTCTAAAATTTAAACATAGTATAAGAAC
CGTAATTATAATTTTTCATTTAATTTAATAAAAAAATTAACTTTTATAAAAATATTTTTAA
Found at i:46209430 original size:51 final size:51
Alignment explanation
Indices: 46209339--46209595 Score: 233
Period size: 51 Copynumber: 5.4 Consensus size: 51
46209329 ACTTCTGATC
* *
46209339 AGTGACAAGTGATAAGTGGTAG-TTTAGCTACAGTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
46209389 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
** * * * * * * * *
46209440 AGTG-GTAGT-TTTAGCT-GCA-C-TTATCT-GA-TCA-GTGATAAGTGACA
1 AGTGACAAGTGATAAG-TGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
**
46209484 AGTG---A-T-A-AA-TGGTAGC-TTAGCTACACTTATCTGATTGGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
46209527 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
46209578 AGTGACAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
46209596 ATAAATGTGA
Statistics
Matches: 166, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 7 0.04
41 2 0.01
42 3 0.02
43 14 0.08
44 14 0.08
45 2 0.01
46 2 0.01
47 6 0.04
48 2 0.01
49 6 0.04
50 32 0.19
51 73 0.44
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:46209453 original size:37 final size:37
Alignment explanation
Indices: 46209396--46209481 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
46209386 ATAAGTGACA
46209396 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
* * *
46209433 AGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
46209470 AGTGATAAGTGA
1 AGTGATAAGTGA
46209482 CAAGTGATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (37 bp):
AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
Found at i:46209487 original size:88 final size:86
Alignment explanation
Indices: 46209346--46209518 Score: 292
Period size: 88 Copynumber: 2.0 Consensus size: 86
46209336 ATCAGTGACA
* *
46209346 AGTGATAAGTGGTAGTTTAGCTACAGTTATCTGATCAGTGATAAGTGACAAGTGATAAGTGATAG
1 AGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGATAG
46209411 CTTTAGCTACACTTATCTGATC
66 C-TTAGCTACACTTATCTGATC
* *
46209433 AGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGGTA
1 AGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGATA
46209498 GCTTAGCTACACTTATCTGAT
65 GCTTAGCTACACTTATCTGAT
46209519 TGGTGACAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 34 0.42
88 47 0.58
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.34
Consensus pattern (86 bp):
AGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGATAG
CTTAGCTACACTTATCTGATC
Found at i:46209583 original size:7 final size:7
Alignment explanation
Indices: 46209571--46209596 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46209561 TTATCTGATC
46209571 AGTGACA
1 AGTGACA
46209578 AGTGACA
1 AGTGACA
46209585 AGTGACA
1 AGTGACA
46209592 AGTGA
1 AGTGA
46209597 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:46209607 original size:138 final size:138
Alignment explanation
Indices: 46209334--46209593 Score: 367
Period size: 138 Copynumber: 1.9 Consensus size: 138
46209324 TGAGTACTTC
* * * * *
46209334 TGATCAGTGACAAGTGATAAGTGGTAGTTTAGCTACAGTTATCTGATCAGTGATAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAATGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
* ** *** *
46209399 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGGTAGTTTTAGCTGCACTTAT
66 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGCAAGTACAAGCTGCACTAAT
46209464 CTGATCAG
131 CTGATCAG
**
46209472 TGATAAGTGACAAGTGATAAATGGTAGCTTAGCTACACTTATCTGATTGGTGACAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAATGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
*
46209537 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACAAG
66 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG-CAAGT-ACAAG
46209594 TGATAAATGT
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
138 101 0.95
139 3 0.03
140 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (138 bp):
TGATAAGTGACAAGTGATAAATGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
GATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGCAAGTACAAGCTGCACTAAT
CTGATCAG
Found at i:46211261 original size:41 final size:40
Alignment explanation
Indices: 46211231--46211365 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 40
46211221 GTAGGTATAT
46211231 TGCCAGTGAATCAATTCAGGCTTAAAGCCTAGCAGGCTAAG
1 TGCCAGTGAATCAA-TCAGGCTTAAAGCCTAGCAGGCTAAG
* *
46211272 TGCCGGTGAACTGAATCAGGC-TATAAGCCTAGCAGGCTAAG
1 TGCCAGTGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAG
* *
46211313 TGCCGGTG-ATCTGAATCAGGCTTTAAGCCTAGCAGGCTAAG
1 TGCCAGTGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAAG
46211354 TGCCAGTGAATC
1 TGCCAGTGAATC
46211366 TGTCTTATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 72 0.87
42 7 0.08
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (40 bp):
TGCCAGTGAATCAATCAGGCTTAAAGCCTAGCAGGCTAAG
Found at i:46214346 original size:24 final size:24
Alignment explanation
Indices: 46214279--46214347 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
46214269 TACTACCGAT
* *
46214279 CAGGATGCTCACAGAACTATATAA
1 CAGGATGCTCAAAGAGCTATATAA
* *
46214303 CAGGAAGCTCAAGAGGGCTA-ATAA
1 CAGGATGCTCAA-AGAGCTATATAA
46214327 CAGGATGCTCATAAGAGCTAT
1 CAGGATGCTCA-AAGAGCTAT
46214348 GATGTATCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
24 30 0.83
25 6 0.17
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
CAGGATGCTCAAAGAGCTATATAA
Found at i:46229891 original size:20 final size:20
Alignment explanation
Indices: 46229862--46229901 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46229852 ATATTTTCCA
*
46229862 GTAAATCATTTTACAGAAAT
1 GTAAAACATTTTACAGAAAT
*
46229882 GTAAAACATTTTCCAGAAAT
1 GTAAAACATTTTACAGAAAT
46229902 CATTTTACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAT
Found at i:46229906 original size:34 final size:35
Alignment explanation
Indices: 46229849--46229914 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
46229839 CAAACATCAG
*
46229849 AAAATATTTTCCAGTAAATCATTTTACAGAAATGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAATGT
*
46229884 AAAACATTTTCCAG-AAATCATTTTACGGAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAA
46229915 ACATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAATGT
Found at i:46229907 original size:14 final size:14
Alignment explanation
Indices: 46229884--46229923 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46229874 ACAGAAATGT
*
46229884 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
46229898 AAATCATTTTACGG
1 AAAACATTTTACAG
46229912 AAAACATTTTAC
1 AAAACATTTTAC
46229924 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:46237621 original size:27 final size:27
Alignment explanation
Indices: 46237575--46237706 Score: 79
Period size: 27 Copynumber: 4.9 Consensus size: 27
46237565 ATAGTCCGAC
* *
46237575 AGGACGTTAAACACTAGATTTTTCAAT
1 AGGACGTTAAACACTAGATTGTCCAAT
* *
46237602 GGGACGTTAAACA-TGGGATTGTCCAAT
1 AGGACGTTAAACACT-AGATTGTCCAAT
* * * ** *
46237629 AGGACGTTAAATACGAGATAGTCTGAC
1 AGGACGTTAAACACTAGATTGTCCAAT
* * *
46237656 AGGACATTAAGCAC-GGAATTGTCCAAT
1 AGGACGTTAAACACTAG-ATTGTCCAAT
* * **
46237683 AGAAGGTTAAACACGGGATTGTCC
1 AGGACGTTAAACACTAGATTGTCC
46237707 GACGAGATGT
Statistics
Matches: 77, Mismatches: 24, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
26 2 0.03
27 73 0.95
28 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (27 bp):
AGGACGTTAAACACTAGATTGTCCAAT
Found at i:46237759 original size:27 final size:27
Alignment explanation
Indices: 46237688--46237767 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
46237678 CCAATAGAAG
* * * *
46237688 GTTAAACACGGGATTGTCCGACGAGAT
1 GTTAAACACGGGATAGTTCGATGGGAT
*
46237715 GTTAAACACAGGATAGTTCGATGGGAT
1 GTTAAACACGGGATAGTTCGATGGGAT
*
46237742 GTTAAATACGGGATAGTTCGATGGGA
1 GTTAAACACGGGATAGTTCGATGGGA
46237768 CTCTATACAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (27 bp):
GTTAAACACGGGATAGTTCGATGGGAT
Found at i:46242183 original size:1 final size:1
Alignment explanation
Indices: 46242177--46242211 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
46242167 AGTATCTATG
46242177 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46242212 GCGCTTGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.