Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 156 of 292
Found at i:46464821 original size:25 final size:25
Alignment explanation
Indices: 46464792--46464841 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
46464782 TTGTAACACA
46464792 TCTTATTATATAATTATCTATATTG
1 TCTTATTATATAATTATCTATATTG
46464817 TCTTATTATATAATTATCTATATTG
1 TCTTATTATATAATTATCTATATTG
46464842 AGGAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
TCTTATTATATAATTATCTATATTG
Found at i:46464849 original size:25 final size:25
Alignment explanation
Indices: 46464796--46464852 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
46464786 AACACATCTT
* **
46464796 ATTATATAATTATCTATATTGTCTT
1 ATTATATAATTATCTATATTGACGA
*
46464821 ATTATATAATTATCTATATTGAGGA
1 ATTATATAATTATCTATATTGACGA
46464846 ATTATAT
1 ATTATAT
46464853 TTAATTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (25 bp):
ATTATATAATTATCTATATTGACGA
Found at i:46469218 original size:7 final size:7
Alignment explanation
Indices: 46469208--46469243 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
46469198 AATATGGTAT
*
46469208 ATGGCAA
1 ATGGGAA
46469215 ATGGGAA
1 ATGGGAA
46469222 ATGGGAA
1 ATGGGAA
46469229 ATGGGAA
1 ATGGGAA
46469236 ATGGGAA
1 ATGGGAA
46469243 A
1 A
46469244 AATAATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.39, T:0.14
Consensus pattern (7 bp):
ATGGGAA
Found at i:46472642 original size:3 final size:3
Alignment explanation
Indices: 46472634--46472676 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
46472624 AATTGACATC
46472634 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
46472677 AAAATAAAGG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:46474977 original size:15 final size:15
Alignment explanation
Indices: 46474957--46475017 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 15
46474947 TTAAATTAAG
*
46474957 TACTTAAATTTTCAA
1 TACTTAATTTTTCAA
46474972 TACTTAATTTTTCAA
1 TACTTAATTTTTCAA
* * *
46474987 CACTTATTTTTTTAA
1 TACTTAATTTTTCAA
*
46475002 TACTTACTTTTTCAA
1 TACTTAATTTTTCAA
46475017 T
1 T
46475018 TTATCAAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (15 bp):
TACTTAATTTTTCAA
Found at i:46488844 original size:4 final size:4
Alignment explanation
Indices: 46488835--46488879 Score: 54
Period size: 4 Copynumber: 10.5 Consensus size: 4
46488825 ATATTAGGGT
*
46488835 AATA AATA AATA GATA TAATA AGATAA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA -AATA A-AT-A AATA AATA AATA AATA AA
46488880 ATATGTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 27 0.75
5 7 0.19
6 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:46488890 original size:17 final size:16
Alignment explanation
Indices: 46488834--46488893 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
46488824 AATATTAGGG
46488834 TAATAAAT-AAATAGAT
1 TAATAAATAAAATAG-T
*
46488850 ATAATAAGATAAAATAAAT
1 -TAATAA-ATAAAAT-AGT
*
46488869 AAATAAATAAAATATGT
1 TAATAAATAAAATA-GT
46488886 TAATAAAT
1 TAATAAAT
46488894 GATAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.03
17 21 0.60
18 7 0.20
19 5 0.14
20 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
TAATAAATAAAATAGT
Found at i:46489305 original size:37 final size:37
Alignment explanation
Indices: 46489255--46489328 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
46489245 AATCATAAAG
46489255 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
1 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
46489292 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
1 GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
46489329 CGAGGACAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (37 bp):
GACTAAATTAAAATGCAATGCAAAAGCTTAAGGACTC
Found at i:46490979 original size:44 final size:44
Alignment explanation
Indices: 46490778--46491118 Score: 260
Period size: 44 Copynumber: 7.6 Consensus size: 44
46490768 TCATTCTACA
* * * * *
46490778 CCACTACAACTTTAGGG-GCATAGGATTAGTAGC-TTCATCTTGTT
1 CCACTGCAACTTTAGGGAG-ATAAGATTTGTAGCTTTAATC-TGCT
* * *
46490822 CCACTGCAACTTTAGGGAGATAAGACTTATAGCTTCAATCTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * *
46490866 CCACTGCAACTTCACGGAGATAAGATTTATAGCTTTAATCTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
46490910 CCACTACAA-TTTCAGGAAGATAAGATTTGTAGCTTTAATTTGTT
1 CCACTGCAACTTT-AGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
46490954 CCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGATTCAATCCG-T
1 CCACTGCAACTTTAGGGAGATAAGATTTG-TA-GCT---TT-AATCTGCT
* * * * ** * * *
46491003 CCTACTACGACTTCAAGGGTG-TTGGATCTGTAGCTTAAATCTTCT
1 CC-ACTGCAACTT-TAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
46491048 CCACTGAAACTTCAAGGAGATAAAATTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
46491092 CCACTACAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTTAGGGAGATAAGATT
46491119 CGCTATGGTA
Statistics
Matches: 232, Mismatches: 51, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
43 6 0.03
44 178 0.77
45 14 0.06
46 2 0.01
48 2 0.01
49 7 0.03
50 18 0.08
51 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
Found at i:46498589 original size:4 final size:4
Alignment explanation
Indices: 46498580--46498628 Score: 55
Period size: 4 Copynumber: 11.5 Consensus size: 4
46498570 ATATTAGGTT
46498580 AATA AATA AA-A AGATA GAATA AGATAA AATA AATA AATA AATA AATA
1 AATA AATA AATA A-ATA -AATA A-AT-A AATA AATA AATA AATA AATA
46498627 AA
1 AA
46498629 CAAAAAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 2 0.05
4 27 0.68
5 8 0.20
6 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:46498635 original size:27 final size:27
Alignment explanation
Indices: 46498580--46498635 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
46498570 ATATTAGGTT
* *
46498580 AATAAATAAAAAGATAGAATAAGATAA
1 AATAAATAAAAAGATAGAATAACAAAA
46498607 AATAAATAAATAA-ATA-AATAAACAAAA
1 AATAAATAAA-AAGATAGAAT-AACAAAA
46498634 AA
1 AA
46498636 ACATGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.12
27 20 0.80
28 2 0.08
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (27 bp):
AATAAATAAAAAGATAGAATAACAAAA
Found at i:46499905 original size:2 final size:2
Alignment explanation
Indices: 46499898--46499931 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
46499888 TTGATTACAA
46499898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46499932 TGCTTTTCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46501051 original size:2 final size:2
Alignment explanation
Indices: 46501044--46501079 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
46501034 CAGCAAAACG
46501044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46501080 TCCACACACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46502113 original size:2 final size:2
Alignment explanation
Indices: 46502102--46502142 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
46502092 GTCATAATTG
46502102 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46502143 ACTTCCAATC
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:46502388 original size:20 final size:19
Alignment explanation
Indices: 46502365--46502474 Score: 68
Period size: 20 Copynumber: 5.7 Consensus size: 19
46502355 TATATATATT
46502365 TTTTTATAATTCTTTATAAA
1 TTTTTATAATT-TTTATAAA
* *
46502385 TTTTAATAATTTGTATGGAAA
1 TTTTTATAATTTTTAT--AAA
*
46502406 TGTTTTAATAA-TTTT-TAGA
1 T-TTTT-ATAATTTTTATAAA
* *
46502425 TTCTTT-TAA-TATTATATA
1 TT-TTTATAATTTTTATAAA
46502443 -TTTTATAATTCTTTATAAA
1 TTTTTATAATT-TTTATAAA
*
46502462 TTTTAATAATTTT
1 TTTTTATAATTTT
46502475 ATGGAAACGT
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.04
17 10 0.14
18 5 0.07
19 18 0.26
20 19 0.27
21 5 0.07
22 6 0.09
23 4 0.06
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAA
Found at i:46502470 original size:77 final size:79
Alignment explanation
Indices: 46502334--46502486 Score: 249
Period size: 77 Copynumber: 1.9 Consensus size: 79
46502324 GAAACTTTAG
46502334 ATTTTTAGATTCTTTTAATATTATATATATTTTTTTATAATTCTTTATAAATTTTAATAATTTGT
1 ATTTTTAGATTCTTTTAATATTATATATA--TTTTTATAATTCTTTATAAATTTTAATAATTT-T
*
46502399 ATGGAAATGTTTTAATA
63 ATGGAAACGTTTTAATA
46502416 ATTTTTAGATTCTTTTAATA-T-TATATA-TTTTATAATTCTTTATAAATTTTAATAATTTTATG
1 ATTTTTAGATTCTTTTAATATTATATATATTTTTATAATTCTTTATAAATTTTAATAATTTTATG
46502478 GAAACGTTT
66 GAAACGTTT
46502487 GTTAATATTG
Statistics
Matches: 70, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
76 12 0.17
77 31 0.44
80 6 0.09
81 1 0.01
82 20 0.29
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (79 bp):
ATTTTTAGATTCTTTTAATATTATATATATTTTTATAATTCTTTATAAATTTTAATAATTTTATG
GAAACGTTTTAATA
Found at i:46504646 original size:2 final size:2
Alignment explanation
Indices: 46504639--46504678 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
46504629 AATATGTAGT
46504639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46504679 CATTATGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:46507845 original size:2 final size:2
Alignment explanation
Indices: 46507831--46507880 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
46507821 TGGAAAAAAA
*
46507831 AT AT GT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46507872 AT AT AT AT A
1 AT AT AT AT A
46507881 AAGAATACAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46509000 original size:17 final size:17
Alignment explanation
Indices: 46508975--46509015 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46508965 TTACAATTTT
*
46508975 TTTTCTTTTTTGCTTGC
1 TTTTGTTTTTTGCTTGC
*
46508992 TTTTGTTTTTTGTTTGC
1 TTTTGTTTTTTGCTTGC
*
46509009 TATTGTT
1 TTTTGTT
46509016 CCTGCTGCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.02, C:0.10, G:0.15, T:0.73
Consensus pattern (17 bp):
TTTTGTTTTTTGCTTGC
Found at i:46509712 original size:44 final size:45
Alignment explanation
Indices: 46509612--46509758 Score: 142
Period size: 45 Copynumber: 3.3 Consensus size: 45
46509602 AATATGCCCC
* * * *
46509612 ACTGCAACTTCAGAGA-AATAAGA-TTCGCTATCTTCAATCTACTCC
1 ACTGCAACTTCAGAGAGAA-AAGATTTAG-TTTCTTCAATCTGCTCT
* *
46509657 ACTGCACCTTCAGAGAGAAAAGGTTTA-TAGTT-TT-AATCTGCTCT
1 ACTGCAACTTCAGAGAGAAAAGATTTAGT--TTCTTCAATCTGCTCT
* * *
46509701 ACTGCAACTTCAGAGAGATAAGATTTGGTTTCTTCAGTCTGCTCT
1 ACTGCAACTTCAGAGAGAAAAGATTTAGTTTCTTCAATCTGCTCT
46509746 ACTGCAACTTCAG
1 ACTGCAACTTCAG
46509759 GGAGGTAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.02
44 34 0.40
45 43 0.51
46 5 0.06
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (45 bp):
ACTGCAACTTCAGAGAGAAAAGATTTAGTTTCTTCAATCTGCTCT
Found at i:46509750 original size:89 final size:89
Alignment explanation
Indices: 46509590--46509836 Score: 268
Period size: 89 Copynumber: 2.8 Consensus size: 89
46509580 AGGATTTGTG
* * * *
46509590 ACTTATAGCTTTAATATGCCCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAATCTACT
1 ACTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACT
*
46509655 CCACTGCACCTTCAGAGA-G-AAA
66 CCACTGCAACTTCAGAGAGGTAAA
* * * * * * *
46509677 AGGTTTATAGTTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGGTTTCTTCAGTCTG
1 A--CTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTA
* *
46509742 CTCTACTGCAACTTCAGGGAGGTAAA
64 CTCCACTGCAACTTCAGAGAGGTAAA
** * * *
46509768 ACTCGTGGCTTTAATCTGCTCCACTGCAACTTCA-AGGAGATAAGATTTG-TAACTTTAATCTAC
1 ACTTATAGCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGCTATCTTCAATCTAC
46509831 TCCACT
65 TCCACT
46509837 AAGATCCAAA
Statistics
Matches: 129, Mismatches: 26, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
87 1 0.01
88 15 0.12
89 108 0.84
90 1 0.01
91 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (89 bp):
ACTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACT
CCACTGCAACTTCAGAGAGGTAAA
Found at i:46509824 original size:44 final size:44
Alignment explanation
Indices: 46509595--46509836 Score: 216
Period size: 44 Copynumber: 5.5 Consensus size: 44
46509585 TTGTGACTTA
* * * *
46509595 TAGCTTTAATATGCCCCACTGCAACTTCAGAGAAATAAGATTCG
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
* * * * * * *
46509639 CTATCTTCAATCTACTCCACTGCACCTTCAGAGAGAAAAGGTTTA
1 -TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
* *
46509684 TAGTTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGG
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-G
** * * * * * * * *
46509729 TTTCTTCAGTCTGCTCTACTGCAACTTCAGGGAGGTAAAACTCG
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
*
46509773 TGGCTTTAATCTGCTCCACTGCAACTTCA-AGGAGATAAGATTTG
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTG
* *
46509817 TAACTTTAATCTACTCCACT
1 TAGCTTTAATCTGCTCCACT
46509837 AAGATCCAAA
Statistics
Matches: 152, Mismatches: 43, Indels: 5
0.76 0.22 0.03
Matches are distributed among these distances:
44 86 0.57
45 66 0.43
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
Found at i:46520866 original size:20 final size:20
Alignment explanation
Indices: 46520843--46520904 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
46520833 TCCAAATCAA
46520843 ATAACCATTTTCCATTTCAT
1 ATAACCATTTTCCATTTCAT
* *
46520863 ATAACAACTTGT-CATTTCAT
1 ATAACCA-TTTTCCATTTCAT
* *
46520883 ACATCCA-TTTCCATTTCAT
1 ATAACCATTTTCCATTTCAT
46520902 ATA
1 ATA
46520905 TTCGGTTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.06
19 10 0.30
20 18 0.55
21 3 0.09
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAACCATTTTCCATTTCAT
Found at i:46531597 original size:20 final size:20
Alignment explanation
Indices: 46531574--46531625 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
46531564 AAATCCAAAT
46531574 TAAAATACTGAAATTCAAGA
1 TAAAATACTGAAATTCAAGA
* * *
46531594 TAAAATCCTAAAATTCAGGA
1 TAAAATACTGAAATTCAAGA
46531614 TAAGAATACTGA
1 TAA-AATACTGA
46531626 TGTGGTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAAGA
Found at i:46532435 original size:20 final size:18
Alignment explanation
Indices: 46532406--46532456 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
46532396 TATTTTGTAT
46532406 TTAATTTTAATTAATGTGA
1 TTAATTTTAATTAAT-TGA
* *
46532425 TTAATTTTTAAATACTTGA
1 TTAA-TTTTAATTAATTGA
46532444 TATAATTTTAATT
1 T-TAATTTTAATT
46532457 TATGACACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (18 bp):
TTAATTTTAATTAATTGA
Found at i:46534186 original size:59 final size:60
Alignment explanation
Indices: 46534095--46534221 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 60
46534085 CTTAAATATA
* * * * * *
46534095 AAAAAATTCAATAAATTTAGCACTCAATATTTA-AAAAAATTTCATTTAGTTATAATTCT
1 AAAAATTTCAATAAATTTAGCACTCAACATTTACAAAAAATGTCAATTAGTCATAACTCT
* * *
46534154 AAAAATTTCAATAAATTT-GACCCTCAACATTTACAAAATATGTCAATTAGTCCTAACTCT
1 AAAAATTTCAATAAATTTAG-CACTCAACATTTACAAAAAATGTCAATTAGTCATAACTCT
46534214 AAAAATTT
1 AAAAATTT
46534222 AAAAGAGAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.02
59 28 0.49
60 28 0.49
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (60 bp):
AAAAATTTCAATAAATTTAGCACTCAACATTTACAAAAAATGTCAATTAGTCATAACTCT
Found at i:46534677 original size:61 final size:61
Alignment explanation
Indices: 46534535--46534655 Score: 161
Period size: 61 Copynumber: 2.0 Consensus size: 61
46534525 AAACTTTTTT
* * * * ** * *
46534535 TTAAAATTTTTAGAGTTAGGACTAAATTGACAAATTTTGTAAATGTTGATGGCTAAATTTA
1 TTAAACTTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTTA
*
46534596 TTAAACTTTTTAGAATTAGAACTAAAATGACAATTTTTGTAAACATTAAGGGCTAAATTT
1 TTAAACTTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTT
46534656 GTTGAATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (61 bp):
TTAAACTTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTTA
Found at i:46536324 original size:22 final size:22
Alignment explanation
Indices: 46536299--46536343 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
46536289 TGTTTAATTA
46536299 TTTTTATTT-AATTAATTATATG
1 TTTTTATTTCAATTAATTA-ATG
*
46536321 TTTTTATTTCATTTAATTAATG
1 TTTTTATTTCAATTAATTAATG
46536343 T
1 T
46536344 GAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTTATTTCAATTAATTAATG
Found at i:46544115 original size:16 final size:17
Alignment explanation
Indices: 46544083--46544116 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46544073 TATATACTTA
46544083 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
46544100 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
46544116 T
1 T
46544117 TGAACCTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:46544574 original size:5 final size:5
Alignment explanation
Indices: 46544566--46544594 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
46544556 ATTACATAAT
46544566 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
46544595 AACATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:46545671 original size:24 final size:26
Alignment explanation
Indices: 46545616--46545673 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
46545606 GTTGTCTTTG
* *
46545616 TATAAAAGTAAAATGATTTATTACAT
1 TATAAAATTAAAATGATTTATTAAAT
*
46545642 T-CAAAATTAAAAT-ATTTA-TAAAT
1 TATAAAATTAAAATGATTTATTAAAT
46545665 TATAAAATT
1 TATAAAATT
46545674 CAAACTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 5 0.19
24 11 0.41
25 10 0.37
26 1 0.04
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (26 bp):
TATAAAATTAAAATGATTTATTAAAT
Found at i:46550586 original size:13 final size:13
Alignment explanation
Indices: 46550568--46550592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46550558 CCCATTCTTG
46550568 ACAAGTTTTTGTT
1 ACAAGTTTTTGTT
46550581 ACAAGTTTTTGT
1 ACAAGTTTTTGT
46550593 ATTTTTGCCG
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:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
ACAAGTTTTTGTT
Found at i:46557888 original size:221 final size:221
Alignment explanation
Indices: 46557426--46558092 Score: 1100
Period size: 221 Copynumber: 3.0 Consensus size: 221
46557416 CAACTAGCAG
* * * * * *
46557426 TCTAGTATACAGATGGCACATCACGAGGCACTATATGGTTATAAGTGTCACACTCCCTTATGCTA
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
* * *
46557491 GACTGAGTTTGGTGAACGACGTATTCTGGGTATGGAGTTGGTTTTTGAGACTGAGGACAAATGTC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGAC-AAGGTC
*
46557556 CTTTTGATTCGAGATCGGTTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCG
130 CTTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCG
*
46557621 TCGAGTGATAGAATATTCCGTGAGAGA
195 TCGAGAGATAGAATATTCCGTGAGAGA
46557648 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
46557713 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
*
46557778 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATACAGATTTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
*
46557843 CGAGAAATAGAATATTCCGTGAGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
* *
46557869 TCTAGTATACATATGGCACCTTACGAGGTACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
* * *
46557934 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTAGAGTTGGTTTCTGAGACTGAGGACAAGGTAC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
*** * *
46557999 TTTTGATTCGAGATCGGCTGAAAGTAACTTCTGATAATGAGAAGTCATATGCAGATCTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
* *
46558064 CGAGAGATAGAATATTCTGTGGGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
46558090 TCT
1 TCT
46558093 TGTTTTCCTT
Statistics
Matches: 418, Mismatches: 27, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
221 303 0.72
222 115 0.28
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (221 bp):
TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
CGAGAGATAGAATATTCCGTGAGAGA
Found at i:46561338 original size:16 final size:17
Alignment explanation
Indices: 46561307--46561339 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46561297 TTCATAACTA
46561307 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
46561324 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
46561340 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:46561695 original size:46 final size:47
Alignment explanation
Indices: 46561620--46561759 Score: 169
Period size: 46 Copynumber: 3.0 Consensus size: 47
46561610 TTATCTTTGA
* * * * * * *
46561620 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
46561666 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *
46561712 CAGGTTACCATGGTATCTTTCAACCATAGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
46561758 CA
1 CA
46561760 GAGAGCACAC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 4 0.05
46 79 0.95
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:46563726 original size:37 final size:38
Alignment explanation
Indices: 46563684--46563760 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 38
46563674 TTCTTCTTTC
46563684 TTTTCTCTTTTTCATTCTTTCCTT-CCCTGCTCTCTGT
1 TTTTCTCTTTTTCATTCTTTCCTTGCCCTGCTCTCTGT
46563721 TTTTCTCTTTTTCATTCTTTCCTTGCCCTGCTCTCTGT
1 TTTTCTCTTTTTCATTCTTTCCTTGCCCTGCTCTCTGT
46563759 TT
1 TT
46563761 CGTTTGCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
37 24 0.62
38 15 0.38
ACGTcount: A:0.03, C:0.31, G:0.06, T:0.60
Consensus pattern (38 bp):
TTTTCTCTTTTTCATTCTTTCCTTGCCCTGCTCTCTGT
Found at i:46564001 original size:18 final size:18
Alignment explanation
Indices: 46563953--46564001 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
46563943 ATAATATAAT
46563953 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
46563972 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
46563993 TATTTAATA
1 TATTTAATA
46564002 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:46565612 original size:26 final size:26
Alignment explanation
Indices: 46565581--46565636 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
46565571 AAATTTTTGA
* * *
46565581 ATTTTTTAAAAGTTTTTAACTTTTTTT
1 ATTTTTGAAAA-TTTGTAACTATTTTT
*
46565608 ATTTTTGTAAATTTGTAACTATTTTT
1 ATTTTTGAAAATTTGTAACTATTTTT
46565634 ATT
1 ATT
46565637 GGTTAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (26 bp):
ATTTTTGAAAATTTGTAACTATTTTT
Found at i:46580568 original size:6 final size:6
Alignment explanation
Indices: 46580557--46580588 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
46580547 TAGAAAGGGT
46580557 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GG
46580589 GGAGTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:46580984 original size:23 final size:23
Alignment explanation
Indices: 46580940--46580984 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46580930 TTATATTTTA
*
46580940 ATAATTAATTAAATAAATTATTT
1 ATAATTAATTAAATAAAATATTT
*
46580963 ATAATTGATT-AATAAAAATATT
1 ATAATTAATTAAAT-AAAATATT
46580985 AGACTGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
ATAATTAATTAAATAAAATATTT
Found at i:46584419 original size:43 final size:42
Alignment explanation
Indices: 46584361--46584511 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
46584351 CAATGCCAAA
**
46584361 GTCCCAGACTTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCCA-T
* * *
46584404 GTCCTAGACAGGGTCTTACATGAAATTAAATA-CGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCC-AT
* * * *
46584446 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC
1 GTCCCAGACAGGGTCTTACATGT-AATCA-AATATCGATGCC-AT
*
46584490 GTCCCAGA-TGCGGTCTTACATG
1 GTCCCAGACAG-GGTCTTACATG
46584512 AAAACACATA
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.31
43 32 0.37
44 28 0.32
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCCAT
Found at i:46588343 original size:49 final size:48
Alignment explanation
Indices: 46588245--46588552 Score: 176
Period size: 46 Copynumber: 6.5 Consensus size: 48
46588235 GATGCTGACA
* * * * * *
46588245 CCATGTCCCAGACATAGTCTTACACTGGTTTTCATATAGCGAGGCCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCG-GGTCGATG
46588295 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGG-GTCGATG
* * ** * * * *
46588344 CCATGTCCCAGACAGGTCTTACACTGACACAGAAC-A--AGCT-AATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGGTCGATG
* * * *
46588388 CCATATCCCAGACAGGTCTTACACTAGCT-T-ATATATCGCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTAT--CG-GGTCGATG
* * * * *
46588437 -TATGTCCCAGACATGTCTTACACTAGCTCTCGTCCCAAT---GTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCAT--CTATCGGGTCGATG
* * * *
46588483 -CATGTCCCAGACATGTCTTACACTGGCTCTGATACTGT-GGCT-GATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-CTATCGGGTCGATG
* *
46588529 -CATGTCCTAGACATGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
46588553 AGCACACATA
Statistics
Matches: 203, Mismatches: 41, Indels: 32
0.74 0.15 0.12
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 28 0.14
45 3 0.01
46 63 0.31
47 1 0.00
48 28 0.14
49 61 0.30
50 15 0.07
52 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGGTCGATG
Found at i:46588410 original size:93 final size:92
Alignment explanation
Indices: 46588292--46588460 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 92
46588282 AGCGAGGCCG
* * * * *
46588292 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-G-TGTCGATGCCATGTCCCAG
1 ATGCCATATCCCAGACAGGTCTTACACTAGCT-T-ATATATCGCGAGGCCGATG-CATGTCCCAG
46588355 ACAGGTCTTACACTGACACAGAACAAGCTA
63 ACAGGTCTTACACTGACACAGAACAAGCTA
*
46588385 ATGCCATATCCCAGACAGGTCTTACACTAGCTTATATATCGCGAGGCCGATGTATGTCCCAGACA
1 ATGCCATATCCCAGACAGGTCTTACACTAGCTTATATATCGCGAGGCCGATGCATGTCCCAGACA
*
46588450 TGTCTTACACT
66 GGTCTTACACT
46588461 AGCTCTCGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 7 0.10
92 24 0.36
93 36 0.54
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (92 bp):
ATGCCATATCCCAGACAGGTCTTACACTAGCTTATATATCGCGAGGCCGATGCATGTCCCAGACA
GGTCTTACACTGACACAGAACAAGCTA
Found at i:46590507 original size:75 final size:75
Alignment explanation
Indices: 46590428--46590630 Score: 237
Period size: 75 Copynumber: 2.7 Consensus size: 75
46590418 GTGCCCCGTG
* * * * *
46590428 CTAGTCAAATAAACCAACATATATAATGATATGCCCAGCATTGGTCAGATACACTGGCAAAAGTT
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
46590493 GTG-CTCAGCA
66 GTGCCT-AGCA
* * * * * *
46590503 CTAGTCAGATAAACCGATAAACATAATGATGTGCCCAACATTAGTCAGATAAACTGACGAAAGTT
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
*
46590568 GTGCCTAGCG
66 GTGCCTAGCA
** * * *
46590578 CTAGTCGTATAAACCAACAGATATAATGATGTGCCTAGCACTAGTCAGATAAA
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAA
46590631 TTAACGATAT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
75 104 0.98
76 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (75 bp):
CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
GTGCCTAGCA
Found at i:46590630 original size:40 final size:39
Alignment explanation
Indices: 46590499--46590630 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
46590489 AGTTGTGCTC
* * *
46590499 AGCACTAGTCAGATAAACCGATAAACATAATGATGTGCCC
1 AGCACTAGTCAGATAAACCGACAGA-ATAATGATGTGCCT
* * * *
46590539 AACATTAGTCAGATAAACTGAC-G-A-AA-GTTGTGCCT
1 AGCACTAGTCAGATAAACCGACAGAATAATGATGTGCCT
* *
46590574 AGCGCTAGTC-GTATAAACCAACAGATATAATGATGTGCCT
1 AGCACTAGTCAG-ATAAACCGACAGA-ATAATGATGTGCCT
46590614 AGCACTAGTCAGATAAA
1 AGCACTAGTCAGATAAA
46590631 TTAACGATAT
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
34 1 0.01
35 22 0.31
36 3 0.04
37 1 0.01
38 1 0.01
39 2 0.03
40 40 0.56
41 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (39 bp):
AGCACTAGTCAGATAAACCGACAGAATAATGATGTGCCT
Found at i:46592215 original size:48 final size:48
Alignment explanation
Indices: 46592134--46592314 Score: 209
Period size: 48 Copynumber: 3.8 Consensus size: 48
46592124 GGGTTATATG
46592134 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
* * * * * *
46592182 AGATTCCATCTAAGACCATGTCTTGAACATGGCATTGGCATCGATATG
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
* * * *
46592230 AGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATG
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
* ** * * * *
46592278 TGATTTCGTGTAACACCATGTCTGGGACCTGACATTG
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTG
46592315 ATATGAGACA
Statistics
Matches: 112, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
Found at i:46592314 original size:96 final size:96
Alignment explanation
Indices: 46592129--46592314 Score: 255
Period size: 96 Copynumber: 1.9 Consensus size: 96
46592119 CATTAGGGTT
*
46592129 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAAGATTCCATCTA
1 ATATGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATAAGATTCCATCTA
* * *
46592194 AGACCATGTCTTGAACATGGCATTGGCATCG
66 ACACCATGTCTGGAACATGACATTGGCATCG
* * ** * * *
46592225 ATATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGTGATTTCGTGTA
1 ATATGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATAAGATTCCATCTA
* *
46592290 ACACCATGTCTGGGACCTGACATTG
66 ACACCATGTCTGGAACATGACATTG
46592315 ATATGAGACA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (96 bp):
ATATGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGACATAAGATTCCATCTA
ACACCATGTCTGGAACATGACATTGGCATCG
Found at i:46594723 original size:2 final size:2
Alignment explanation
Indices: 46594716--46594777 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
46594706 TTATTGAAAG
46594716 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46594758 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
46594778 AAGGCTATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46594959 original size:32 final size:32
Alignment explanation
Indices: 46594898--46594986 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
46594888 ACTAAGTGTG
**
46594898 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
46594930 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
46594962 TATCTAGGTGTAGTTTGATATAGCC
1 TATATATGTGTAGTTGGATAAAGCC
46594987 TATTAAGATG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 41 0.89
33 3 0.07
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:46595170 original size:26 final size:27
Alignment explanation
Indices: 46595141--46595205 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
46595131 TTTGAGGGAT
*
46595141 GCACTAAGTGTGCGAGTTAGA-TT-TAA
1 GCACTAAGTGTGCGAATTA-ATTTCTAA
* *
46595167 GCACTATGTGTGTGAATTAATTTCTAA
1 GCACTAAGTGTGCGAATTAATTTCTAA
46595194 GCACTAAGTGTG
1 GCACTAAGTGTG
46595206 TTAAATCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.03
26 18 0.55
27 14 0.42
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAATTTCTAA
Found at i:46603611 original size:12 final size:12
Alignment explanation
Indices: 46603594--46603618 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46603584 AACATGACCA
46603594 AAACACATATTT
1 AAACACATATTT
46603606 AAACACATATTT
1 AAACACATATTT
46603618 A
1 A
46603619 GCAATATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
AAACACATATTT
Found at i:46604362 original size:7 final size:7
Alignment explanation
Indices: 46604352--46604383 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
46604342 GCACAATACA
46604352 CAATGAG
1 CAATGAG
46604359 CAATGAG
1 CAATGAG
46604366 CAATGAG
1 CAATGAG
*
46604373 CAATAAG
1 CAATGAG
46604380 CAAT
1 CAAT
46604384 TTTATTGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (7 bp):
CAATGAG
Found at i:46604984 original size:88 final size:88
Alignment explanation
Indices: 46604830--46605007 Score: 250
Period size: 88 Copynumber: 2.0 Consensus size: 88
46604820 ATCGGAAGTA
* ** *
46604830 ATCATTTCCACTTTCTCTACTAATTTTCAGTTTTTTGGAATATAAAAGATATTATTTGGGAGGTT
1 ATCATTTCCACTTTCTCTACCAATTTTCAGCCTTTTGGAATATAAAAGATATTATTTGAGAGGTT
* *
46604895 TTGTTTTCTATAGTTCAAAATCG
66 TTGTTGTCGATAGTTCAAAATCG
** * *
46604918 ATCATTTCCACTTTCTCTACCAATTTTTGGCCTTTTGGAATATGAAAGATATT-TTTTAGAGAGT
1 ATCATTTCCACTTTCTCTACCAATTTTCAGCCTTTTGGAATATAAAAGATATTATTTGAGAG-GT
46604982 TTTGTTGTCGATAGTTCAAAATCG
65 TTTGTTGTCGATAGTTCAAAATCG
46605006 AT
1 AT
46605008 TTTTATGAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 6 0.08
88 73 0.92
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (88 bp):
ATCATTTCCACTTTCTCTACCAATTTTCAGCCTTTTGGAATATAAAAGATATTATTTGAGAGGTT
TTGTTGTCGATAGTTCAAAATCG
Found at i:46608090 original size:39 final size:40
Alignment explanation
Indices: 46607997--46608203 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
46607987 CATTGGAATG
* * *
46607997 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * *
46608037 ATATCCGGGTTAAGACCCGAAGGC-ATTCTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * **
46608076 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * * *
46608116 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* ** * * * *
46608156 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
46608196 ATATCCGG
1 ATATCCGG
46608204 TTAAATTCCG
Statistics
Matches: 137, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 34 0.25
40 103 0.75
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
Found at i:46608217 original size:79 final size:79
Alignment explanation
Indices: 46608001--46608207 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 79
46607991 GGAATGATAT
* *
46608001 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCT
*** *
46608066 GCGAGTTGTTATAT
66 GCGAGTCACTATAA
* * ** * *
46608080 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGC-ATTC
46608145 TGCGAGTCACTATAA
65 TGCGAGTCACTATAA
** * * *
46608160 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAA
46608208 ATTCCGAAGG
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 59 0.56
80 47 0.44
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCT
GCGAGTCACTATAA
Found at i:46616075 original size:39 final size:40
Alignment explanation
Indices: 46615994--46616200 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
46615984 CATTGGAATG
* * *
46615994 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
*
46616034 ATATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTATT
* * **
46616073 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * * *
46616113 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* ** * * * *
46616153 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
46616193 ATATCCGG
1 ATATCCGG
46616201 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
38 3 0.02
39 32 0.23
40 102 0.73
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
Found at i:46616127 original size:79 final size:80
Alignment explanation
Indices: 46615994--46616181 Score: 227
Period size: 79 Copynumber: 2.4 Consensus size: 80
46615984 CATTGGAATG
* * ** *
46615994 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGA-CCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
***
46616057 ATTCGTGCGAGTTGTT
66 ATT-GTGCGAGTCACT
* * *
46616073 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
46616138 ATTGTGCGAGTCACT
66 ATTGTGCGAGTCACT
* **
46616153 ATAACCGGGCTTCGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
46616182 AGCGAGTCAT
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
79 47 0.51
80 42 0.46
81 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTCACT
Found at i:46619216 original size:40 final size:40
Alignment explanation
Indices: 46619157--46619364 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
46619147 CATTGGAATG
* * *
46619157 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
46619197 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
46619237 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
46619277 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
46619317 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
46619357 ATATCCGG
1 ATATCCGG
46619365 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:46627238 original size:40 final size:40
Alignment explanation
Indices: 46627180--46627386 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
46627170 CATTGGAATG
* * *
46627180 ATATCC-GGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
46627219 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
46627259 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
46627299 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
46627339 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
46627379 ATATCCGG
1 ATATCCGG
46627387 TTAAATTCTG
Statistics
Matches: 140, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 9 0.06
40 129 0.92
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:46629650 original size:5 final size:5
Alignment explanation
Indices: 46629640--46629664 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46629630 AGGGAAAAAT
46629640 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
46629665 ACTACACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:46633083 original size:31 final size:31
Alignment explanation
Indices: 46633042--46633105 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46633032 CCTTTTCATA
*
46633042 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
46633073 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
46633104 TT
1 TT
46633106 ACGGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:46633350 original size:24 final size:24
Alignment explanation
Indices: 46633299--46633441 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
46633289 GCTTTATCAT
*
46633299 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
46633324 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
46633348 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
46633371 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
46633395 ACAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
46633419 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46633442 TCACTTCCTA
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
23 22 0.20
24 74 0.69
25 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:46633373 original size:47 final size:48
Alignment explanation
Indices: 46633313--46633441 Score: 206
Period size: 47 Copynumber: 2.7 Consensus size: 48
46633303 CTGGAGGCCT
* *
46633313 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAACAACTAGGGCATA
*
46633362 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAACAACTAGGGCATA
*
46633409 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
46633442 TCACTTCCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
47 44 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAACAACTAGGGCATA
Found at i:46633402 original size:71 final size:72
Alignment explanation
Indices: 46633299--46633440 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 72
46633289 GCTTTATCAT
* *
46633299 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAACAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAG
46633364 CCCTTTA
66 CCCTTTA
* * *
46633371 ATAACTGG-GGCATAAGCC-CTTTTAACAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 ATAACTGGAGGCAT-AGCCTCTTTTAACAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAA
46633434 GCCCTTT
65 GCCCTTT
46633441 TTCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 52 0.81
72 12 0.19
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (72 bp):
ATAACTGGAGGCATAGCCTCTTTTAACAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAG
CCCTTTA
Found at i:46633522 original size:11 final size:11
Alignment explanation
Indices: 46633491--46633542 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
46633481 TTATGAATAC
46633491 ATCATGTGCAT
1 ATCATGTGCAT
*
46633502 ATCA--TACAT
1 ATCATGTGCAT
46633511 ATCATGTGCAT
1 ATCATGTGCAT
46633522 ATCA--T-CAT
1 ATCATGTGCAT
*
46633530 GTCATGTGCAT
1 ATCATGTGCAT
46633541 AT
1 AT
46633543 TATACATACC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
8 6 0.19
9 9 0.28
10 1 0.03
11 16 0.50
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:46633536 original size:19 final size:20
Alignment explanation
Indices: 46633491--46633556 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
46633481 TTATGAATAC
46633491 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46633511 ATCATGTGCATATCAT-CAT
1 ATCATGTGCATATCATACAT
* *
46633530 GTCATGTGCATATTATACAT
1 ATCATGTGCATATCATACAT
*
46633550 ACCATGT
1 ATCATGT
46633557 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 17 0.41
20 24 0.59
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46633625 original size:25 final size:25
Alignment explanation
Indices: 46633593--46633640 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46633583 ATACATAAAC
* * *
46633593 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46633618 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46633641 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:46640090 original size:22 final size:22
Alignment explanation
Indices: 46640065--46640113 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
46640055 TTTTCACTTG
46640065 TTTAAAAAAATGTTTTAATCAA
1 TTTAAAAAAATGTTTTAATCAA
* * *
46640087 TTT-AAAAATTGTTTTACTCGA
1 TTTAAAAAAATGTTTTAATCAA
46640108 TTTAAA
1 TTTAAA
46640114 CATTTTCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (22 bp):
TTTAAAAAAATGTTTTAATCAA
Found at i:46640132 original size:21 final size:22
Alignment explanation
Indices: 46640108--46640148 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46640098 TTTTACTCGA
46640108 TTTAAACAT-TTTCACTTGATT
1 TTTAAACATGTTTCACTTGATT
*
46640129 TTTAAACTTGTTTCACTTGA
1 TTTAAACATGTTTCACTTGA
46640149 GTTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTAAACATGTTTCACTTGATT
Found at i:46640299 original size:16 final size:17
Alignment explanation
Indices: 46640259--46640291 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46640249 CTTCATCGAT
*
46640259 TCTTTGTTCAAAAATAA
1 TCTTTATTCAAAAATAA
46640276 TCTTTATTCAAAAATA
1 TCTTTATTCAAAAATA
46640292 TTTTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
TCTTTATTCAAAAATAA
Found at i:46647480 original size:19 final size:18
Alignment explanation
Indices: 46647456--46647494 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46647446 TTGTTTGATA
46647456 AAAATAAATATTAATTTTT
1 AAAAT-AATATTAATTTTT
* *
46647475 AAAATAGTATTTATTTTT
1 AAAATAATATTAATTTTT
46647493 AA
1 AA
46647495 TTCTAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAAATAATATTAATTTTT
Found at i:46659193 original size:3 final size:3
Alignment explanation
Indices: 46659185--46659251 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
46659175 GGAAATAGTA
46659185 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46659233 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
46659252 TCTAATGACA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46660278 original size:17 final size:18
Alignment explanation
Indices: 46660258--46660295 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
46660248 TCTTTTTAAC
46660258 TTCG-TTATTTTTTTGTA
1 TTCGATTATTTTTTTGTA
*
46660275 TTCGATTTTTTTTTTTGTA
1 TTCGA-TTATTTTTTTGTA
46660294 TT
1 TT
46660296 ACAAGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.11, C:0.05, G:0.11, T:0.74
Consensus pattern (18 bp):
TTCGATTATTTTTTTGTA
Found at i:46661110 original size:138 final size:138
Alignment explanation
Indices: 46660862--46661116 Score: 377
Period size: 138 Copynumber: 1.8 Consensus size: 138
46660852 GTGTAATAGT
* * * *
46660862 TTCATCTTGCTCCATTGCAACTTTAAGGAGATAAGATTCACTATTGTAATTTCATTTCGACCCAT
1 TTCATCTTGCTCCACTGCAACTTTAAGGAGATAAGATTCACCATTGTAATTTCATTTCGAACCAC
*** *
46660927 TGTTACTTCAGGGGTATAGGAATTGTATCTTCAATCCGATCCACTGTAACTTTAAGGATATAGGA
66 TACAACTTCAGGGGTATAGGAATCGTATCTTCAATCCGATCCACTGTAACTTTAAGGATATAGGA
46660992 TTTGCAGC
131 TTTGCAGC
* * *
46661000 TTCATCTTGCTCCACTGCAACTTTAGGGGGATAAGATTCGCCATTGTAATTTCA-TTCTGAACCA
1 TTCATCTTGCTCCACTGCAACTTTAAGGAGATAAGATTCACCATTGTAATTTCATTTC-GAACCA
* *
46661064 CTACAACTTCAGGGGTATAGGAATCGTATCTTCAATTCGGTCCACTGTAACTT
65 CTACAACTTCAGGGGTATAGGAATCGTATCTTCAATCCGATCCACTGTAACTT
46661117 CAGAGAGATA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 3 0.03
138 100 0.97
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (138 bp):
TTCATCTTGCTCCACTGCAACTTTAAGGAGATAAGATTCACCATTGTAATTTCATTTCGAACCAC
TACAACTTCAGGGGTATAGGAATCGTATCTTCAATCCGATCCACTGTAACTTTAAGGATATAGGA
TTTGCAGC
Found at i:46661414 original size:44 final size:43
Alignment explanation
Indices: 46661343--46662188 Score: 124
Period size: 44 Copynumber: 18.6 Consensus size: 43
46661333 TCAATCCAAC
* * *
46661343 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTTAGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * *
46661387 CCACTGCAACTTTAGGTAGATAAGATTTGCTA--TTGTAACTTTGAT
1 CCACTGCAACTTTAGG-AGATAAGATTTG-TAGCTT-CATC-TTGCT
* * * *
46661432 CCAATCTACTACCTCTTTAGGAATATAATATTTGTAGCTTCATCTTGCT
1 CC-A-CTGC-A--ACTTTAGG-AGATAAGATTTGTAGCTTCATCTTGCT
* * * ***
46661481 CCATTGCAACTTCAGGAAGATAAGATTCGCTATGGTAACTTCAATCCAAC-
1 CCACTGCAACTTTAGG-AGATAAGA-T---T-T-GTAGCTTC-ATCTTGCT
* * * *
46661531 CCACTGTAACTTTAGGGGTATAGGATTTGTGGCTTCATCTTGCT
1 CCACTGCAACTTTAGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * * *
46661575 CCACTGTAACTTTAAGGAGATAAGA-TT-TA--TT-ATGGTAGATT
1 CCACTGCAACTTT-AGGAGATAAGATTTGTAGCTTCAT-CTTG-CT
* * * * *
46661616 CAATCT-AAACCTTTAGGGGTATAATATTTGTAGCTTCATCTTACT
1 CCA-CTGCAA-CTTTAGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * * * *
46661661 TCACAT-CAACTTCAGGGAGATAAGATTTGCCATTGTGGTTTGAT-TCTGAC-
1 CCAC-TGCAACTTTA-GGAGATAAGA--T----TTGTAGCTTCATCT-TG-CT
* * * * * * * *
46661711 CCACTGTAACTTAAGGAGTCTAAGAATTATAACTTTAATC-TGAT
1 CCACTGCAACTTTAGGAG-ATAAGATTTGTAGC-TTCATCTTGCT
* *
46661755 CCACTGCAACTTCAAGGATATAAGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTT-TAGGAGATAAGATTTGTAGCTTCATCTTGCT
* * *
46661799 CCACTGCAACTTCAGGAAGATAAGATTCCTTATTATAGTTTCAT-TTCGAC-
1 CCACTGCAACTTTAGG-AGATAAGA-----T-TTGTAGCTTCATCTT-G-CT
* * * *
46661849 CCACTGCAACTTCAGG-GATATATGATTTGTATCTTTAATC--GAT
1 CCACTGCAACTTTAGGAGATA-A-GATTTGTAGC-TTCATCTTGCT
* * ** * * *
46661892 CTAATAAAACTTCAAGGATATAAGATTAGTAGCTTCATCTTGCT
1 CCACTGCAACTT-TAGGAGATAAGATTTGTAGCTTCATCTTGCT
* * *
46661936 CCATTGCAACTTTAGGGAGATAAGATTTGCCATGGTAACTTTAATC-TGAC-
1 CCACTGCAACTTTA-GGAGATAAGA-TT----T-GTAGC-TTCATCTTG-CT
* * * * * * *
46661986 CCACTGTAACTTTAGGGGTATAAAAATTGTATCTTCAATC-CGAT
1 CCACTGCAACTTTAGGAG-ATAAGATTTGTAGCTTC-ATCTTGCT
* * *
46662030 CCACTGCATCTTCAGG-GATATAGGATTTGTAGATTCATCTTGCT
1 CCACTGCAACTTTAGGAGATA-A-GATTTGTAGCTTCATCTTGCT
* * *
46662074 CCACTACAACTTTAGAGAGATAAGATTTGCCATGGTAAT-ATC-TGAC-
1 CCACTGCAACTTTAG-GAGATAAGATTTG-TA-GCT--TCATCTTG-CT
* * * *
46662120 CCACTGCAGCTTCAAGG-GTATAAGGTTTGTAGCTTCATTTTGCT
1 CCACTGCAACTT-TAGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* *
46662164 GCACTGCAACTTCAGGGAGATAAGA
1 CCACTGCAACTTTA-GGAGATAAGA
46662189 CTCGCTATAG
Statistics
Matches: 568, Mismatches: 139, Indels: 190
0.63 0.15 0.21
Matches are distributed among these distances:
39 2 0.00
40 4 0.01
41 9 0.02
42 21 0.04
43 47 0.08
44 221 0.39
45 49 0.09
46 35 0.06
47 13 0.02
48 8 0.01
49 25 0.04
50 120 0.21
51 14 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (43 bp):
CCACTGCAACTTTAGGAGATAAGATTTGTAGCTTCATCTTGCT
Found at i:46661611 original size:94 final size:94
Alignment explanation
Indices: 46660955--46661601 Score: 590
Period size: 94 Copynumber: 6.9 Consensus size: 94
46660945 GGAATTGTAT
* * * * * * *
46660955 CTTCAATCCGATCCACTGTAACTTTAAGGATATAGGATTTGCAGCTTCATCTTGCTCCACTGCAA
1 CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
* * * *
46661020 CTTTAGGGGGATAAGATTCGCCATTGTAA
66 CTTTAAGGAGATAAGATTCGCTATGGTAA
* * * * * * * * * *
46661049 TTTCATTCTGAA-CCACTACAACTTCAGGGGTATAGGAATCGTATCTTCAAT-TCGGTCCACTGT
1 CTTCAATC-CAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTC-ATCTTGCTCCACTGC
* *
46661112 AAC-TTCAGAGAGATAAGATTCGTCGT-T-ATAA
64 AACTTTAAG-GAGATAAGATTCG-C-TATGGTAA
* * * * * * * * * *
46661143 TTTCATTCCGACCCATTACAACTACAAGGGTATAGGAATTGTAGCTTCATCTTGCTCTACTACAA
1 CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
* *
46661208 CTTCAGGGAGATAAGATTCGCTATGGTAA
66 CTTTAAGGAGATAAGATTCGCTATGGTAA
** * * * *
46661237 CTTTGATCCGACCCATTGCAACTTCAAGGGTATAGGATTTGTATCTTCATCTTGC-CCTACTGCA
1 CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCC-ACTGCA
* * *
46661301 ACTTCAAGAAGATAAGATTCTCTATGGTAA
65 ACTTTAAGGAGATAAGATTCGCTATGGTAA
46661331 CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
1 CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
* *
46661396 CTTT-AGGTAGATAAGATTTGCTATTGTAA
66 CTTTAAGG-AGATAAGATTCGCTATGGTAA
** * * * ** * ** ** *
46661425 CTTTGATCCAATCTACTACCTCTTTAGGAATATAATATTTGTAGCTTCATCTTGCTCCATTGCAA
1 CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
*
46661490 C-TTCAGGAAGATAAGATTCGCTATGGTAA
66 CTTTAAGG-AGATAAGATTCGCTATGGTAA
* * * *
46661519 CTTCAATCCAACCCACTGTAACTTTAGGGGTATAGGATTTGTGGCTTCATCTTGCTCCACTGTAA
1 CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
46661584 CTTTAAGGAGATAAGATT
66 CTTTAAGGAGATAAGATT
46661602 TATTATGGTA
Statistics
Matches: 445, Mismatches: 93, Indels: 30
0.78 0.16 0.05
Matches are distributed among these distances:
92 1 0.00
93 13 0.03
94 417 0.94
95 14 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (94 bp):
CTTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
CTTTAAGGAGATAAGATTCGCTATGGTAA
Found at i:46661809 original size:138 final size:135
Alignment explanation
Indices: 46661635--46662143 Score: 519
Period size: 138 Copynumber: 3.7 Consensus size: 135
46661625 CCTTTAGGGG
* * * *
46661635 TATAATATTTGTAGCTTCATCTTACTTCACAT-CAACTTCAGGGAGATAAGATTTGCCATTGTGG
1 TATAAGATTTGTAGCTTCATCTTGCTCCAC-TGCAACTTCAGGGAGATAAGATTTGCCATTGTAG
* * *
46661699 TTTGATTCTGACCCACTGTAACTTAAGGAGTCTAAGAATTATAACTTTAATCTGATCCACTGCAA
65 TTT-ATTCTGACCCACTGTAACTTAAGG-GTATAAGAATTGTATCTTTAATC-GATCCACTGCAA
46661764 CTTCAAGGA
127 CTTCAAGGA
* *
46661773 TATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGA-TT-CCTTATTATA
1 TATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCC--ATTGTA
* * * * * * **
46661836 GTTTCATT-TCGACCCACTGCAACTTCAGGGATATATGATTTGTATCTTTAATCGATCTAATAAA
64 GTTT-ATTCT-GACCCACTGTAACTTAAGGG-TATAAGAATTGTATCTTTAATCGATCCACTGCA
46661900 ACTTCAAGGA
126 ACTTCAAGGA
* * * * *
46661910 TATAAGATTAGTAGCTTCATCTTGCTCCATTGCAACTTTAGGGAGATAAGATTTGCCATGGTAAC
1 TATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGT-AG
* * * * *
46661975 TTTAATCTGACCCACTGTAACTTTAGGGGTATAAAAATTGTATCTTCAATCCGATCCACTGCATC
65 TTTATTCTGACCCACTGTAAC-TTAAGGGTATAAGAATTGTATCTTTAAT-CGATCCACTGCAAC
*
46662040 TTCAGGGA
128 TTCAAGGA
* * * * * *
46662048 TATAGGATTTGTAGATTCATCTTGCTCCACTACAACTTTAGAGAGATAAGATTTGCCATGGTA--
1 TATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGT
* * *
46662111 ATA-TCTGACCCACTGCAGCTTCAAGGGTATAAG
66 TTATTCTGACCCACTGTAACTT-AAGGGTATAAG
46662144 GTTTGTAGCT
Statistics
Matches: 309, Mismatches: 50, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
133 2 0.01
134 23 0.07
135 2 0.01
136 2 0.01
137 104 0.34
138 174 0.56
139 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (135 bp):
TATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGT
TTATTCTGACCCACTGTAACTTAAGGGTATAAGAATTGTATCTTTAATCGATCCACTGCAACTTC
AAGGA
Found at i:46668307 original size:93 final size:93
Alignment explanation
Indices: 46668194--46668365 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46668184 CGCCCATAAG
* *
46668194 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46668259 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
46668287 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46668352 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46668366 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:46668362 original size:46 final size:46
Alignment explanation
Indices: 46668187--46668362 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
46668177 TGTAACCCGC
* * *
46668187 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
46668233 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
46668283 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46668326 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
46668363 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46678627 original size:20 final size:20
Alignment explanation
Indices: 46678599--46678637 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46678589 TTTACCATAC
*
46678599 TATTTTTAA-AAAATATTAAA
1 TATTATTAAGAAAA-ATTAAA
46678619 TATTATTAAGAAAAATTAA
1 TATTATTAAGAAAAATTAA
46678638 GAACCTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TATTATTAAGAAAAATTAAA
Found at i:46678737 original size:26 final size:27
Alignment explanation
Indices: 46678688--46678747 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
46678678 AAAGAAATAC
*
46678688 TATT-TTTTTTATAATAACTATT-AAA
1 TATTATTTTTAATAATAACTATTAAAA
* *
46678713 TATTATTTTTAATAATAATTGTTAAAA
1 TATTATTTTTAATAATAACTATTAAAA
*
46678740 TACTATTT
1 TATTATTT
46678748 AATATTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.14
26 15 0.52
27 10 0.34
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTATTTTTAATAATAACTATTAAAA
Found at i:46682762 original size:44 final size:44
Alignment explanation
Indices: 46682672--46682789 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 44
46682662 ATCCAAACTT
* * **
46682672 GTTGAGTTGGTCGAAGTTCGTAATATATGCGAGGCATCCGAGCTC
1 GTTGAGTTGGTCG-AGTTCATTATGGATGCGAGGCATCCGAGCTC
46682717 GTTGAGTTGGTTCGAGTTCATTATGGATGC-AGGCATCCGAGCTC
1 GTTGAGTTGG-TCGAGTTCATTATGGATGCGAGGCATCCGAGCTC
* *
46682761 GTTGAGTTAGTCTGAGTTCACTATGGATG
1 GTTGAGTTGGTC-GAGTTCATTATGGATG
46682790 TCTACATGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
43 2 0.03
44 38 0.58
45 22 0.34
46 3 0.05
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.32
Consensus pattern (44 bp):
GTTGAGTTGGTCGAGTTCATTATGGATGCGAGGCATCCGAGCTC
Found at i:46686664 original size:26 final size:26
Alignment explanation
Indices: 46686635--46686689 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
46686625 TCACCATTTT
* *
46686635 TTTGAAAGTCATAAGTGTGGAAGACA
1 TTTGAAAGTCATAAGAGAGGAAGACA
*
46686661 TTTGAAAGTCATGAGAGAGGAAGACA
1 TTTGAAAGTCATAAGAGAGGAAGACA
46686687 TTT
1 TTT
46686690 AAGGAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.27
Consensus pattern (26 bp):
TTTGAAAGTCATAAGAGAGGAAGACA
Found at i:46688705 original size:43 final size:42
Alignment explanation
Indices: 46688599--46688737 Score: 111
Period size: 42 Copynumber: 3.3 Consensus size: 42
46688589 TGAGATTCCA
* ** *
46688599 TATAAGACCATATCTAAGATATGGCATT-GGCATGCA-ATTTCG
1 TATAAGACCATATCTGAGATATGGC-TTCGAAATG-AGACTTCG
* ** *
46688641 TGTAAGACCACGTCTGGGATATGGCTTCGAAAATGAGACTTCG
1 TATAAGACCATATCTGAGATATGGCTTCG-AAATGAGACTTCG
* * * * *
46688684 TATAAGACCATATCTGAGATATGACATCGATATGAGGCATCG
1 TATAAGACCATATCTGAGATATGGCTTCGAAATGAGACTTCG
*
46688726 TGTAAGACCATA
1 TATAAGACCATA
46688738 GCTGGGCTAT
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
41 2 0.03
42 43 0.57
43 31 0.41
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
TATAAGACCATATCTGAGATATGGCTTCGAAATGAGACTTCG
Found at i:46689005 original size:21 final size:21
Alignment explanation
Indices: 46688979--46689021 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
46688969 AAGAAGTGAA
46688979 TGAATGAATAATGATCATGAG
1 TGAATGAATAATGATCATGAG
*
46689000 TGAATGAATCATGATCATGAG
1 TGAATGAATAATGATCATGAG
46689021 T
1 T
46689022 TTTATTGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (21 bp):
TGAATGAATAATGATCATGAG
Found at i:46691301 original size:17 final size:18
Alignment explanation
Indices: 46691279--46691318 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
46691269 AGGCCAATTT
*
46691279 GGGCATGTGGGCC-ACAC
1 GGGCATGTAGGCCTACAC
*
46691296 GGGCATGTAGGCCTATAC
1 GGGCATGTAGGCCTACAC
46691314 GGGCA
1 GGGCA
46691319 AGACACACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (18 bp):
GGGCATGTAGGCCTACAC
Found at i:46694131 original size:2 final size:2
Alignment explanation
Indices: 46694083--46694113 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46694073 AATATATGCC
46694083 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46694114 GTTAAAGATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46694303 original size:25 final size:24
Alignment explanation
Indices: 46694269--46694344 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
46694259 ACAGTAAGAA
*
46694269 ATATACAATACATA-ACATTAAAAAT
1 ATATATAATA-ATATACA-TAAAAAT
*
46694294 ATATATAATAATATACATAAATAT
1 ATATATAATAATATACATAAAAAT
* *
46694318 ATAATATATATATTATA-ATAATAAT
1 AT-ATATA-ATAATATACATAAAAAT
46694343 AT
1 AT
46694345 GAAAAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.26
25 25 0.58
26 7 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATATAATAATATACATAAAAAT
Found at i:46694330 original size:31 final size:30
Alignment explanation
Indices: 46694276--46694337 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
46694266 GAAATATACA
46694276 ATACATAACATTAAAAATATATATAATAAT
1 ATACATAACATTAAAAATATATATAATAAT
* *
46694306 ATACATAA-ATATATAATATATATATTATAAT
1 ATACATAACAT-TA-AAAATATATATAATAAT
46694337 A
1 A
46694338 ATAATATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 10 0.36
31 16 0.57
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (30 bp):
ATACATAACATTAAAAATATATATAATAAT
Found at i:46694341 original size:20 final size:19
Alignment explanation
Indices: 46694292--46694344 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
46694282 AACATTAAAA
46694292 ATATAT-ATAATAATATAC
1 ATATATAATAATAATATAC
* *
46694310 ATAAAT-AT-ATAATATAT
1 ATATATAATAATAATATAC
46694327 ATATTATAATAATAATAT
1 ATA-TATAATAATAATAT
46694345 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 9 0.31
19 2 0.07
20 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATAATAATAATATAC
Found at i:46695140 original size:27 final size:28
Alignment explanation
Indices: 46695105--46695157 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
46695095 AAGGGGAAGA
46695105 AAAAAAAAGAAGAGA-GGAGAGGGAGAG
1 AAAAAAAAGAAGAGAGGGAGAGGGAGAG
* **
46695132 AAAAGAAAGGGGAGAGGGAGAGGGAG
1 AAAAAAAAGAAGAGAGGGAGAGGGAG
46695158 CTCCGGTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (28 bp):
AAAAAAAAGAAGAGAGGGAGAGGGAGAG
Found at i:46695152 original size:20 final size:23
Alignment explanation
Indices: 46695109--46695153 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
46695099 GGAAGAAAAA
46695109 AAAAGAAGAGAGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
*
46695132 AAAAGAA-AGGGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
46695154 GGAGCTCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (23 bp):
AAAAGAAGAGAGGAGAGGGAGAG
Found at i:46695271 original size:16 final size:17
Alignment explanation
Indices: 46695250--46695285 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
46695240 TAAAAATCTG
*
46695250 ATTTTTTTTATTTTT-T
1 ATTTTTATTATTTTTAT
46695266 ATTTTTATTATTTTTAT
1 ATTTTTATTATTTTTAT
46695283 ATT
1 ATT
46695286 CTAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTATTATTTTTAT
Found at i:46696563 original size:13 final size:13
Alignment explanation
Indices: 46696545--46696569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46696535 TTTGAAACAT
46696545 AGAAATTAAAAGC
1 AGAAATTAAAAGC
46696558 AGAAATTAAAAG
1 AGAAATTAAAAG
46696570 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:46696703 original size:67 final size:66
Alignment explanation
Indices: 46696501--46696757 Score: 297
Period size: 67 Copynumber: 3.8 Consensus size: 66
46696491 AGGTGAACTG
** * * * * *
46696501 AGGCTCAACTCATTTTTCGCAATATGGGTTGATTTTTGAAACATAGAAATT-AAAAGC-AGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAA-ATAGAATTTGAAAAACGA-AAAT
46696564 TAAA
64 T-AA
* * *
46696568 AGGCTCAACTCACCTCTCGCAATATGAGTTAATAATTTGAAAAGTAG-ATTTCGAAAAACGGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAA-TAGAATTT-GAAAAACGAAAA
46696632 TTAA
63 TTAA
*
46696636 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAACGAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA-TAGAATTTGAAAAACGAAAATT
46696701 AA
65 AA
* *
46696703 AGGCTCAACTCACCTCTCGCAATATGAATT-AACTTTTGAAAATAGAATTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATC-TTTGAAAATAGAATTTGAAAA
46696758 TACCTTAGCG
Statistics
Matches: 167, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
66 14 0.08
67 96 0.57
68 47 0.28
69 10 0.06
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (66 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAATAGAATTTGAAAAACGAAAATTA
A
Found at i:46696939 original size:71 final size:71
Alignment explanation
Indices: 46696703--46697243 Score: 624
Period size: 71 Copynumber: 7.5 Consensus size: 71
46696693 CGAAAATTAA
* * * * *
46696703 AGGCTCAACTCACCTCTCGCAATATGAATTAACTTTTGAAAATAGAATTTGAAAATACCTTAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA-TTGAAATTACCTCAGCG
* *
46696768 TGCCGCA
65 TGCCCCG
* * *
46696775 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
46696840 CGTGCCCCG
63 CGTGCCCCG
* * * *
46696849 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
46696913 TGTCTTG
65 TGCCCCG
* *
46696920 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
46696985 CGTG-CCCG
63 CGTGCCCCG
* * * *
46696993 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
46697057 TGTCTTG
65 TGCCCCG
* *
46697064 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
46697129 CGTGCCCCG
63 CGTGCCCCG
* * *
46697138 AGG-TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
46697201 TGTCTTG
65 TGCCCCG
46697208 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46697244 CTTGGAAAAC
Statistics
Matches: 400, Mismatches: 53, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
70 45 0.11
71 126 0.31
72 47 0.12
73 74 0.19
74 105 0.26
75 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGT
GCCCCG
Found at i:46697059 original size:144 final size:145
Alignment explanation
Indices: 46696707--46697334 Score: 920
Period size: 144 Copynumber: 4.2 Consensus size: 145
46696697 AATTAAAGGC
* * * * * * * * *
46696707 TCAACTCACCTCTCGCAATATGAATTAACTTTTGAAA-ATAGAATTTGAAAATACCTTAGCGTGC
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AA-TTGAAATTACCTCAACGTGT
*** *
46696771 CGCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACC
64 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACC
46696836 TCAGCGTGCCCCGAGGT
129 TCAGCGTGCCCCGAGGT
46696853 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
46696918 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
46696983 AGCGTG-CCCGAGGT
131 AGCGTGCCCCGAGGT
46696997 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
46697062 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
46697127 AGCGTGCCCCGAGG-
131 AGCGTGCCCCGAGGT
46697141 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
* *
46697206 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGGAAAACATGAATTAAAAAGTAGA
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-TT-------A-G-ATT--TAA-TAGG
* * *
46697271 AATTGAAAATACCTCAGCGTGCCCTGAGGC
116 AATTGAAATTACCTCAGCGTGCCCCGAGGT
46697301 TCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTG
46697335 GAAAAAACAA
Statistics
Matches: 447, Mismatches: 17, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
144 243 0.54
145 92 0.21
146 36 0.08
147 5 0.01
154 1 0.00
155 1 0.00
156 3 0.01
158 2 0.00
159 30 0.07
160 34 0.08
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (145 bp):
TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
AGCGTGCCCCGAGGT
Found at i:46707942 original size:2 final size:2
Alignment explanation
Indices: 46707900--46707924 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46707890 AATATATGCC
46707900 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
46707925 GTTAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46708120 original size:24 final size:22
Alignment explanation
Indices: 46708079--46708129 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
46708069 ACAGTAAGAA
46708079 ATATACAATACATAACATTAAAAT
1 ATATACAATACATAACA-T-AAAT
*
46708103 ATATATAATA-ATATACATAAAT
1 ATATACAATACATA-ACATAAAT
46708125 ATATA
1 ATATA
46708130 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 4 0.16
24 12 0.48
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATACAATACATAACATAAAT
Found at i:46708150 original size:20 final size:19
Alignment explanation
Indices: 46708101--46708153 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
46708091 TAACATTAAA
46708101 ATATAT-ATAATAATATAC
1 ATATATAATAATAATATAC
* *
46708119 ATAAAT-AT-ATAATATAT
1 ATATATAATAATAATATAC
46708136 ATATTATAATAATAATAT
1 ATA-TATAATAATAATAT
46708154 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 9 0.31
19 2 0.07
20 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATAATAATAATATAC
Found at i:46711009 original size:28 final size:28
Alignment explanation
Indices: 46710940--46711040 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46710930 GACAAGATTG
* * * *
46710940 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46710970 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46710998 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46711027 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46711041 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:46712761 original size:15 final size:15
Alignment explanation
Indices: 46712722--46712801 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
46712712 GTATCTTGGG
*
46712722 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
46712737 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
46712752 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
46712767 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
46712782 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
46712796 TTTCTT
1 TTTCTT
46712802 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46712791 original size:30 final size:30
Alignment explanation
Indices: 46712713--46712800 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
46712703 CATAGTATCG
* * *
46712713 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
46712743 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
46712773 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
46712801 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:46715226 original size:46 final size:46
Alignment explanation
Indices: 46715171--46715351 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
46715161 TAGGATGGTT
46715171 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
46715217 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
46715263 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
46715310 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46715352 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:46715332 original size:93 final size:93
Alignment explanation
Indices: 46715173--46715343 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
46715163 GGATGGTTGA
* *
46715173 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46715238 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46715266 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46715331 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46715344 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46716896 original size:28 final size:29
Alignment explanation
Indices: 46716865--46716923 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
46716855 TCATTTGAGA
46716865 AGGGGA-AGAAAAAAAAAGAAGAGA-GGAG
1 AGGGGAGAG-AAAAAAAAGAAGAGAGGGAG
* *
46716893 A-GGGAGAGAAAAGAAAGGAGAGAGGGAG
1 AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
46716921 AGG
1 AGG
46716924 AGCTCCGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
27 17 0.65
28 8 0.31
29 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (29 bp):
AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
Found at i:46717052 original size:16 final size:17
Alignment explanation
Indices: 46717031--46717066 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
46717021 GTAAAATCTG
*
46717031 ATTTTTTTTATTTTT-T
1 ATTTTTATTATTTTTAT
46717047 ATTTTTATTATTTTTAT
1 ATTTTTATTATTTTTAT
46717064 ATT
1 ATT
46717067 CTAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTATTATTTTTAT
Found at i:46733956 original size:60 final size:60
Alignment explanation
Indices: 46733892--46734010 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
46733882 TAAATATAAA
* * * * *
46733892 AAATT-AATAAATTTAACCTTC-ACTGTTTACAAAATTTGTCATTTTAGTT-TGAATTCTAAC
1 AAATTCAATAAAATTAACC-TCAAC-ATTTACAAAATTCGTCAATTTAATTCT-AATTCTAAC
46733952 AAATTCAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCTAA
1 AAATTCAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCTAA
46734011 AATTAAAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
60 36 0.71
61 15 0.29
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (60 bp):
AAATTCAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCTAAC
Found at i:46734245 original size:21 final size:21
Alignment explanation
Indices: 46734219--46734289 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
46734209 CATAACAATC
46734219 GATTTAAACATATAAGTAATT
1 GATTTAAACATATAAGTAATT
** *
46734240 GATTTAGTTTTCCAACATAA-TAATT
1 GATTTA----AAC-ATATAAGTAATT
46734265 GATTTAAACATATAAGTAATT
1 GATTTAAACATATAAGTAATT
46734286 GATT
1 GATT
46734290 CAAAAGAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 5 0.13
21 16 0.42
25 12 0.32
26 5 0.13
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (21 bp):
GATTTAAACATATAAGTAATT
Found at i:46736163 original size:27 final size:27
Alignment explanation
Indices: 46736111--46736196 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
46736101 GTGACGAAGT
46736111 CACCAGATACA-ATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
46736137 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
46736164 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
46736191 CACCAG
1 CACCAG
46736197 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
25 3 0.05
26 12 0.22
27 40 0.73
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:46737584 original size:16 final size:16
Alignment explanation
Indices: 46737563--46737595 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46737553 AACTTAAAAG
46737563 AAGTTCTAAGCAAATT
1 AAGTTCTAAGCAAATT
46737579 AAGTTCTAAGCAAATT
1 AAGTTCTAAGCAAATT
46737595 A
1 A
46737596 CTCAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (16 bp):
AAGTTCTAAGCAAATT
Found at i:46737951 original size:2 final size:2
Alignment explanation
Indices: 46737939--46737976 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
46737929 AATAAACCTA
46737939 AT AT A- AT 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 AT AT AT AT A
46737977 AAGAGATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:46738935 original size:12 final size:11
Alignment explanation
Indices: 46738906--46738935 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
46738896 TTGTAAACAA
46738906 AAATAAAAAAG
1 AAATAAAAAAG
46738917 AAATAAAAAAG
1 AAATAAAAAAG
46738928 AAACTAAA
1 AAA-TAAA
46738936 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:46739638 original size:44 final size:44
Alignment explanation
Indices: 46739580--46739759 Score: 218
Period size: 44 Copynumber: 4.1 Consensus size: 44
46739570 AAGAACACCG
* *
46739580 ATCTGTTATTTTTGATCTGCTCTCTGCAAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGCAAATACAGAGACGCCAA
* *
46739624 ATCTGTCATCTTTGATCTGCTCTCTTG-ACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTC-TGCA-AATACAGAGACGCCAA
* *** *
46739669 ATCCGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACTCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGCAAATACAGAGACGCCAA
* ***
46739713 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGCAAATACAGAGACGCCAA
46739757 ATC
1 ATC
46739760 ATCTTGGATT
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
44 81 0.68
45 39 0.32
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCTGCAAATACAGAGACGCCAA
Found at i:46739694 original size:89 final size:88
Alignment explanation
Indices: 46739584--46739759 Score: 235
Period size: 89 Copynumber: 2.0 Consensus size: 88
46739574 ACACCGATCT
* * *
46739584 GTTATTTTTGATCTGCTCTCTGCAAATACAGAGACGCCAAATCTGTCATCTTTGATCTGCTCTCT
1 GTTATCTTCGATCTGCTCTCTGCAAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTC-
*
46739649 TGACAATACAGAGACGCCAAATCC
65 CGACAATACAGAGACGCCAAATCC
*** * *
46739673 GTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACTCCAAATCTGTTATCTTCGATCTGCTCTCC
1 GTTATCTTCGATCTGCTCTCTGCAAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCC
* **
46739738 GCCGCTACAGAGACGCCAAATC
66 GACAATACAGAGACGCCAAATC
46739760 ATCTTGGATT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 19 0.25
89 56 0.75
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (88 bp):
GTTATCTTCGATCTGCTCTCTGCAAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCC
GACAATACAGAGACGCCAAATCC
Found at i:46739835 original size:88 final size:86
Alignment explanation
Indices: 46739721--46739910 Score: 292
Period size: 88 Copynumber: 2.2 Consensus size: 86
46739711 AAATCTGTTA
* *
46739721 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTC-CCGCCGATACAGAGACGCCAAATCATCTTGGATCTGCTTCAACGTAAACA
*
46739786 CGTGAAAGCCAAATTAGCTATG
65 CGTGAAAGCCAAATCAGCTATG
*
46739808 TCTTCGATCTGCTCCCTGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCC-GCC-GATACAGAGACGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
*
46739873 ACGTGAAAGTCAAATCAGCTATG
64 ACGTGAAAGCCAAATCAGCTATG
46739896 TC-TCTGATCTGCTCC
1 TCTTC-GATCTGCTCC
46739911 TTGTAAGCAC
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
86 2 0.02
87 19 0.20
88 74 0.78
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (86 bp):
TCTTCGATCTGCTCCCGCCGATACAGAGACGCCAAATCATCTTGGATCTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATG
Found at i:46740535 original size:138 final size:139
Alignment explanation
Indices: 46739927--46741779 Score: 1499
Period size: 138 Copynumber: 13.4 Consensus size: 139
46739917 GCACAAGGAG
* *
46739927 ATAAGACTTGTAACTTCGACTTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTAGCTT
1 ATAAGACTTGTAACTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGCTT
* * * *
46739992 CAATCTGTTCCACTGCAACTTCAG-GAAAATAAGATT-T-ACTATCTTCAATCTACTT-CACTGC
65 CAATCTGTTCTACTGCAACTTCAGAG-AGATAAGATTGTAACTAGCTTCAATCT-GTTCCACTGC
* *
46740053 AACTTCAAGGAG
128 AACTTCAGGGAA
* *
46740065 ATAAGACTTGTAACTTTGACCTGCTCTACTGTAACTTCAGAGAGATAAGA-TCTGTAATTTAGCT
1 ATAAGACTTGTAAC-TTCACCTGCTCTACTGCAACTTCAGAGAGATAAGACT-TGTAATTTAGCT
* * * * * * * *
46740129 TCAATTTGTTCTACTGCAACTTCAGGGAAATAAGATT-T-ACTATCTTCAGTCTGCTCCAGTGTA
64 TCAATCTGTTCTACTGCAACTTCAGAGAGATAAGATTGTAACTAGCTTCAATCTGTTCCACTGCA
*
46740192 ACTTCAGGGAG
129 ACTTCAGGGAA
*
46740203 ATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCT
1 ATAAGACTTGTAAC-TTCACCTGCTCTACTGCAACTTCAGAGAGATAAGACT-TGTAATTTAGCT
* * * * * * *
46740267 TCAATCCGTTCCACTGCAACTCCAG-GAAAATAAGATT-T-ACTATCTTCAGTCTGCTCCACTGC
64 TCAATCTGTTCTACTGCAACTTCAGAG-AGATAAGATTGTAACTAGCTTCAATCTGTTCCACTGC
*
46740329 AACTTCAGGGAG
128 AACTTCAGGGAA
*
46740341 ATAAGACTTGTAACTTCAACCTACTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCT
1 ATAAGACTTGTAACTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGACT-TGTAATTTAGCT
* * * * *
46740405 TCAATCTGTTCCACTGCAACTTCAG-GAAAATAAGATT-T-ACTATCTTCAGTCTGCTCCACTGC
64 TCAATCTGTTCTACTGCAACTTCAGAG-AGATAAGATTGTAACTAGCTTCAATCTGTTCCACTGC
*
46740467 AACTTCAGGGAG
128 AACTTCAGGGAA
*
46740479 ATAAGACTTATAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGT-A---A-CTT
1 ATAAGACTTGTAACTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGCTT
* * * *
46740539 CGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGC
65 CAATCTGTTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCACTGC
*
46740604 AACGTCAGGGAA
128 AACTTCAGGGAA
* * * * * *
46740616 ATATGATTTGCTATCTTCAGTCTACT-TCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-C
1 ATAAGACTTG-TAACTTCA-CCTGCTCT-ACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGC
* * ** * *
46740675 TTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCTACT
63 TTCAATCTGTTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCACT
46740740 GCAACTTCAGGGAA
126 GCAACTTCAGGGAA
* * * * * * *
46740754 ATAAGATTTACTATCTTCAGTCTGCTCCACTTCAACTTCAGGGAGATAAGACTTGT-A---A-CT
1 ATAAGACTT-GTAACTTCA-CCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGCT
* * * * *
46740814 TCGACCTGCTCTACT-CAACTTCAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTG
64 TCAATCTGTTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCACTG
*
46740878 CAACTTCAGGAAA
127 CAACTTCAGGGAA
* * * * * *
46740891 ATAAGATTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-CT
1 ATAAGACTT-GTAACTTCA-CCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGCT
* *
46740951 TCGA-CTTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAACTTAGCTTCAATCTGTTCCACT
64 TCAATC-TGTTCTACTGCAACTTCAGAGAGATAAGA-TTGTAAC-TAGCTTCAATCTGTTCCACT
46741015 GCAACTTCAGGGAA
126 GCAACTTCAGGGAA
* * * *
46741029 ATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCA-AGGAGATAAGACTTGTAACTTT-G
1 ATAAGACTTG-TAACTTCA-CCTGCTCTACTGCAACTTCAGA-GAGATAAGACTTGTAA-TTTAG
* *
46741092 -----ACCTGCTT-TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCA
62 CTTCAATCTG-TTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCA
46741151 CTGCAACTTCAGGGAA
124 CTGCAACTTCAGGGAA
* * * * *
46741167 ATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-CT
1 ATAAGACTTG-TAACTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGCT
* * * * *
46741227 TCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTG
64 TCAATCTGTTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCACTG
*
46741292 CAATTTCAGGGAA
127 CAACTTCAGGGAA
* * * * * *
46741305 ATATGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-CT
1 ATAAGACTTG-TAACTTCA-CCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGCT
* * ** * * * *
46741365 TCGACCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATTTAGTTTCAATCTGTTCAACTG
64 TCAATCTGTTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCACTG
46741430 CAACTTCAGGGAA
127 CAACTTCAGGGAA
* * *
46741443 ATAAGATTTGCTATA-TTCAGTCTGCTCCACTGCAACTTCA-AGGAGATAAGACTTGTAACTTT-
1 ATAAGACTTG-TA-ACTTCA-CCTGCTCTACTGCAACTTCAGA-GAGATAAGACTTGTAA-TTTA
* * * * *
46741505 G-----ACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTAATTTAGCTTCAATTTGTTCCA
61 GCTTCAATCTGTTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCA
* *
46741565 CTGCAACTTTAGGAAA
124 CTGCAACTTCAGGGAA
* * * *
46741581 ATAAGATTTGCTATA-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-C
1 ATAAGACTTG-TA-ACTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGC
* * * *
46741640 TTCGACCTGCTT-TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCAGTTCCAC
63 TTCAATCTG-TTCTACTGCAACTTCAGAGAGATAAGAT-TGTAA-CTAGCTTCAATCTGTTCCAC
46741704 TGCAACTTCAGGGAA
125 TGCAACTTCAGGGAA
* * * * * * * *
46741719 ATATGATTTGCTATCTTCAGTCTGCTCCACTGCACCTTCAGGGAGATAAAACTTGTGAATT
1 ATAAGACTTG-TAACTTCA-CCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGT-AATT
46741780 CACCGATTCT
Statistics
Matches: 1553, Mismatches: 96, Indels: 128
0.87 0.05 0.07
Matches are distributed among these distances:
133 31 0.02
134 3 0.00
135 1 0.00
136 2 0.00
137 181 0.12
138 1322 0.85
139 12 0.01
140 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (139 bp):
ATAAGACTTGTAACTTCACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTAGCTTC
AATCTGTTCTACTGCAACTTCAGAGAGATAAGATTGTAACTAGCTTCAATCTGTTCCACTGCAAC
TTCAGGGAA
Found at i:46740650 original size:276 final size:274
Alignment explanation
Indices: 46740138--46741774 Score: 2087
Period size: 276 Copynumber: 6.0 Consensus size: 274
46740128 TTCAATTTGT
* * * * * * *
46740138 TCTACTGCAACTTCAGGGAAATAAGAT-T-T-A-CTATCTTCAGTCTGCTCCAGTGTAACTTCAG
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCCACTGCAACTTCAG
* * * * * *
46740199 GGAGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTT
66 GGAAATAAGATTTCTAAC-TTCATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGT-A---
* * * * * * * * *
46740263 AGCTTCAATCC-GTTCCACTGCAACTCCAG-GAAAATAAGAT-T-T-A-CTATCTTCAGTCTGCT
125 A-CTTCGA-CCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATTTAGCTTCAATCTGTT
* * * ** * * *
46740322 CCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTACTCTACTGCAACTTCAGAGAGA
187 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * *
46740386 TAAGA-TCTGTAATTTAGCTTCAATCTGT
252 TAAGACT-TGT-A---A-CTTCGACCTGC
* * * * *
46740414 TCCACTGCAACTTCAG-GAAAATAAGAT-T-T-A-CTATCTTCAGTCTGCTCCACTGCAACTTCA
1 TCTACTGCAACTTCAGAG-AGATAAGATCTGTAATCTAGCTTCAATCTGTTCCACTGCAACTTCA
* * * * *
46740474 GGGAGATAAGACTTATAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAACTT
65 GGGAAATAAGATTTCTAACTTC-ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTT
46740539 CGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGC
129 CGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGC
* * * *
46740604 AACGTCAGGGAAATATGATTTGCTATCTTCAGTCTACTTCACTGCAACTTCAGGGAGATAAGACT
194 AACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
46740669 TGTAACTTCGACCTAC
259 TGTAACTTCGACCTGC
* *
46740685 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCTACTGCAACTTCAG
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCCACTGCAACTTCAG
* * *
46740750 GGAAATAAGATTTACTATCTTCAGTCTGCTCCACTTCAACTTCAGGGAGATAAGACTTGTAACTT
66 GGAAATAAGATTT-CTAACTTCA-TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTT
*
46740815 CGACCTGCTCTACT-CAACTTCAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTGC
129 CGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGC
* *
46740879 AACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
194 AACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
46740944 TGTAACTTCGACTTGC
259 TGTAACTTCGACCTGC
46740960 TCTACTGCAACTTCAGAGAGATAAGA-CTTGTAA-CTTAGCTTCAATCTGTTCCACTGCAACTTC
1 TCTACTGCAACTTCAGAGAGATAAGATC-TGTAATC-TAGCTTCAATCTGTTCCACTGCAACTTC
*
46741023 AGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCA-AGGAGATAAGACTTGTAA
64 AGGGAAATAAGATTT-CTAACTTCA-TCTGCTCCACTGCAACTTCAGA-GAGATAAGACTTGTAA
* *
46741087 CTTTGACCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCAC
126 CTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCAC
*
46741152 TGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
191 TGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
46741217 ACTTGTAACTTCGACCTGC
256 ACTTGTAACTTCGACCTGC
* * *
46741236 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTGCAATTTCAG
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCCACTGCAACTTCAG
* * *
46741301 GGAAATATGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTT
66 GGAAATAAGATTT-CTAACTTCA-TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTT
* * * *
46741366 CGACCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATTTAGTTTCAATCTGTTCAACTGC
129 CGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGC
* *
46741431 AACTTCAGGGAAATAAGATTTGCTATATTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
194 AACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
46741496 TGTAACTTTGACCTGC
259 TGTAACTTCGACCTGC
* * * *
46741512 TCTACTGCAACTTCAGAGTGATAAGATCTGTAATTTAGCTTCAATTTGTTCCACTGCAACTTTAG
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCCACTGCAACTTCAG
* *
46741577 GAAAATAAGATTTGCTATA-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACT
66 GGAAATAAGATTT-CTA-ACTTC-ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACT
* *
46741641 TCGACCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCAGTTCCACTG
128 TCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTG
* * *
46741706 CAACTTCAGGGAAATATGATTTGCTATCTTCAGTCTGCTCCACTGCACCTTCAGGGAGATAAAAC
193 CAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
46741771 TTGT
258 TTGT
46741775 GAATTCACCG
Statistics
Matches: 1236, Mismatches: 98, Indels: 54
0.89 0.07 0.04
Matches are distributed among these distances:
270 2 0.00
271 58 0.05
272 6 0.00
273 2 0.00
274 3 0.00
275 335 0.27
276 826 0.67
277 4 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (274 bp):
TCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCCACTGCAACTTCAG
GGAAATAAGATTTCTAACTTCATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCG
ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAA
CTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
TAACTTCGACCTGC
Found at i:46740792 original size:414 final size:413
Alignment explanation
Indices: 46739948--46741774 Score: 2051
Period size: 414 Copynumber: 4.4 Consensus size: 413
46739938 AACTTCGACT
* * * * *
46739948 TGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTAGCTTCAATCTGTTCCACTGCAACTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-CTTCAACCTGCTCCACTGCAACTT
* * * * * *
46740013 CAG-GAAAATAAGAT-T-T-A-CTATCTTCAATCTACTTCACTGCAACTTCAAGGAGATAAGACT
61 CAGAG-AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACT
* * * * * **
46740073 TGTAACTT-TGACCTGCTCTACTGTAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATTT
125 TATAACTTCAG-CCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGT-A---A-CTTCGACCT
* * * * * * * * *
46740136 GTTCTACTGCAACTTCAGGGAAATAAGAT-T-T-A-CTATCTTCAGTCTGCTCCAGTGTAACTTC
183 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTC
* * * * * *
46740197 AGGGAGATAAGACTTG-TAACTT-TGACCTGCTCTACTGCAACTTC-AGAGAGATAAGA-TCTGT
248 AGGGAAATAAGATTTGCTATCTTCAG-TCTGCTCCACTGCAACTTCAAG-GAGATAAGACT-TGT
* * * * * * * *
46740258 AATTTAGCTTCAATCC-GTTCCACTGCAACTCCAG-GAAAATAAGAT-T-T-A-CTATCTTCAGT
310 -A---A-CTTCGA-CCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATTTAGCTTCAAT
* * * * *
46740317 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACC
368 CTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATC
* * * * *
46740362 TACTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATCTGTTCCACTGCAACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT-TGT-A---A-CTTCAACCTGCTCCACTGCAACT
* * * *
46740426 TCAG-GAAAATAAGAT-T-T-A-CTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
60 TCAGAG-AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGAC
*
46740486 TTATAACTTC-GACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCT
124 TTATAACTTCAG-CCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCT
*
46740550 ACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACGTCAGGGA
188 ACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
* * * *
46740615 AATATGATTTGCTATCTTCAGTCTACTTCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGA
253 AATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCGA
* *
46740680 CCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCTACTGCAAC
318 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAAC
* *
46740745 TTCAGGGAAATAAGATTTACTATCTTCAGTC
383 TTCAGGGAAATAAGATTTGCTATCTTCAATC
* * *
46740776 TGCTCCACTTCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACT-CAACTTCAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGAG
* * * * * *
46740840 AGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTAT
66 AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTA-TAA
* * *
46740905 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACTTGCTCTACTGCAA
130 CTTCAGCCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAA
*
46740970 CTTCAGAGAGATAAGA-CTTGTAACTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAG
195 CTTCAGAGAGATAAGATC-TGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAG
*
46741034 ATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTGACCTGCT
259 ATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCGACCTGCT
*
46741099 TTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGG
324 CTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGG
46741164 GAAATAAGATTTGCTATCTTCAATC
389 GAAATAAGATTTGCTATCTTCAATC
* *
46741189 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGAG
* * * * * * * *
46741254 AGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTGCAATTTCAGGGAAATATGATTTGCTAT
66 AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTT-ATAA
* * * *
46741319 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTCTACTGTAA
130 CTTCAGCCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAA
* *
46741384 CTTCAGAGAGATAAGATCTGTAATTTAGTTTCAATCTGTTCAACTGCAACTTCAGGGAAATAAGA
195 CTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA
* *
46741449 TTTGCTATATTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTGACCTGCTC
260 TTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCGACCTGCTC
* * * *
46741514 TACTGCAACTTCAGAGTGATAAGATCTGTAATTTAGCTTCAATTTGTTCCACTGCAACTTTAGGA
325 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGG
*
46741579 AAATAAGATTTGCTATATTCAATC
390 AAATAAGATTTGCTATCTTCAATC
* **
46741603 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTTTACTGCAACTTCAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGAG
* * * * * * * * *
46741668 AGATAAGATCTGTAATTTAGCTTCAATCAGTTCCACTGCAACTTCAGGGAAATATGATTTGCTAT
66 AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTT-ATAA
* * * *
46741733 CTTCAGTCTGCTCCACTGCACCTTCAGGGAGATAAAACTTGT
130 CTTCAGCCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGT
46741775 GAATTCACCG
Statistics
Matches: 1278, Mismatches: 105, Indels: 60
0.89 0.07 0.04
Matches are distributed among these distances:
408 19 0.01
409 74 0.06
410 7 0.01
411 3 0.00
412 40 0.03
413 394 0.31
414 735 0.58
415 6 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (413 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGAG
AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTATAAC
TTCAGCCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAAC
TTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGAT
TTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCGACCTGCTCT
ACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
AATAAGATTTGCTATCTTCAATC
Found at i:46745726 original size:19 final size:19
Alignment explanation
Indices: 46745702--46745768 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
46745692 GGGAAAATCT
*
46745702 AATGCAAATGATGCAATAC
1 AATGCAAATGATGCAATGC
*
46745721 AATGCATATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
46745740 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
46745759 AATGCAAATG
1 AATGCAAATG
46745769 TATGGGATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Done.