Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 54 of 344
Found at i:17710505 original size:86 final size:86
Alignment explanation
Indices: 17710395--17710606 Score: 200
Period size: 90 Copynumber: 2.4 Consensus size: 86
17710385 TTAAGGGTGT
* **
17710395 AAAAA-GCCCTCAAACTGTTCCAAAAAA-AATTTATTCAACC-C-TTTTTTTTGCACTCAATTGA
1 AAAAAGGCCCTCAAACT-TTTCAAAAAACAA-TTAAGC-ACCGCTTTTTTTTTGCACTCAATTGA
17710456 GCACTTAAACTTTCAAAATGCATC-
63 GCACTTAAACTTTCAAAATGCA-CA
* *
17710480 AAAAAGGCCCTCAAACTTCTTCAAAAGAAGCAATTAAGCCCCTGCTTTTTTTTTTCACTCAATTG
1 AAAAAGGCCCTCAAACTT-TTCAAAA-AA-CAATTAAGCACC-GCTTTTTTTTTGCACTCAATTG
* * * *
17710545 GGTACTTGAACTTTCAAAATGTACA
62 AGCACTTAAACTTTCAAAATGCACA
* *
17710570 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAG
1 AAAAAGGCCCTC-AAACTTTTCAAAAAA-CAATTAAG
17710607 TCCATACACT
Statistics
Matches: 106, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
85 6 0.06
86 17 0.16
87 4 0.04
88 4 0.04
89 15 0.14
90 55 0.52
91 5 0.05
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (86 bp):
AAAAAGGCCCTCAAACTTTTCAAAAAACAATTAAGCACCGCTTTTTTTTTGCACTCAATTGAGCA
CTTAAACTTTCAAAATGCACA
Found at i:17710557 original size:90 final size:89
Alignment explanation
Indices: 17710436--17710606 Score: 245
Period size: 90 Copynumber: 1.9 Consensus size: 89
17710426 TATTCAACCC
* *
17710436 TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATC-AAAAAGGCCCTCAAACTTCT
1 TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCA-CAAAAAAGACCCTCAAAATTCT
17710500 TCAAAAGAAGCAATTAAGCCCCTGCT
65 TCAAAA-AAGCAATTAAGCCCCTGCT
* * * * * *
17710526 TTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGTACAAAAAAGACCCTCAAAATTTTT
1 TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCACAAAAAAGACCCTCAAAATTCTT
17710591 CAAAAAAGCAATTAAG
66 CAAAAAAGCAATTAAG
17710607 TCCATACACT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
89 12 0.17
90 60 0.83
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (89 bp):
TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCACAAAAAAGACCCTCAAAATTCTT
CAAAAAAGCAATTAAGCCCCTGCT
Found at i:17710671 original size:19 final size:19
Alignment explanation
Indices: 17710649--17710741 Score: 80
Period size: 19 Copynumber: 4.8 Consensus size: 19
17710639 AAAAAACAAT
*
17710649 AAATTTAATAAAAATTTTA
1 AAATTTAATAAAAATTGTA
* *
17710668 AAATTTATTAAAAATTAGAAAA
1 AAATTTAATAAAAATT-G--TA
*
17710690 AAAATT-ATAAAAATTGTA
1 AAATTTAATAAAAATTGTA
** *
17710708 AAAAATAAAAAAAATTGTA
1 AAATTTAATAAAAATTGTA
*
17710727 AAATTTTATAAAAAT
1 AAATTTAATAAAAAT
17710742 CATAAAAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
18 6 0.10
19 37 0.64
20 1 0.02
21 8 0.14
22 6 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATTTAATAAAAATTGTA
Found at i:17710700 original size:21 final size:21
Alignment explanation
Indices: 17710667--17710712 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17710657 TAAAAATTTT
*
17710667 AAAATTTATTAAAAATTAGAAA
1 AAAAATTATTAAAAATT-GAAA
*
17710689 AAAAATTA-TAAAAATTGTAA
1 AAAAATTATTAAAAATTGAAA
17710709 AAAA
1 AAAA
17710713 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAATTATTAAAAATTGAAA
Found at i:17710701 original size:9 final size:9
Alignment explanation
Indices: 17710620--17710749 Score: 66
Period size: 9 Copynumber: 13.7 Consensus size: 9
17710610 ATACACTTAT
17710620 TAAAAATTA
1 TAAAAATTA
*
17710629 GAAAAATTA
1 TAAAAATTA
17710638 TAAAAA--A
1 TAAAAATTA
*
17710645 CAATAAATTTAA
1 TAA-AAA-TT-A
*
17710657 TAAAAATTT
1 TAAAAATTA
*
17710666 TAAAATTTA
1 TAAAAATTA
17710675 TTAAAAATTAGAA
1 -TAAAAATT---A
*
17710688 AAAAAATTA
1 TAAAAATTA
*
17710697 TAAAAATTG
1 TAAAAATTA
*
17710706 TAAAAAATAA
1 T-AAAAATTA
* *
17710716 AAAAAATTG
1 TAAAAATTA
*
17710725 TAAAATTTTA
1 TAAAA-ATTA
*
17710735 TAAAAATCA
1 TAAAAATTA
17710744 TAAAAA
1 TAAAAA
17710750 AATTAACGAC
Statistics
Matches: 89, Mismatches: 21, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
7 3 0.03
8 3 0.03
9 47 0.53
10 22 0.25
11 3 0.03
12 10 0.11
13 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:17710717 original size:28 final size:29
Alignment explanation
Indices: 17710658--17710754 Score: 92
Period size: 28 Copynumber: 3.3 Consensus size: 29
17710648 TAAATTTAAT
* *
17710658 AAAAATTTTAAAATT-TATTAAAAATTAGAAA
1 AAAAATTATAAAATTGTA-TAAAAA-T-CAAA
17710689 AAAAATTATAAAAATTGTA-AAAAAT-AAA
1 AAAAATTAT-AAAATTGTATAAAAATCAAA
* *
17710717 AAAAATTGTAAAATTTTATAAAAATCATAA
1 AAAAATTATAAAATTGTATAAAAATCA-AA
17710747 AAAAATTA
1 AAAAATTA
17710755 ACGACTCCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
27 8 0.14
28 17 0.30
29 1 0.02
30 10 0.18
31 13 0.23
32 6 0.11
33 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAATTATAAAATTGTATAAAAATCAAA
Found at i:17710993 original size:59 final size:59
Alignment explanation
Indices: 17710907--17711048 Score: 146
Period size: 59 Copynumber: 2.4 Consensus size: 59
17710897 ATTTACGAAA
* * * * *
17710907 TTTATATTTCTTTACATTTTGTATAATTTCATTGCAACTTT-ATAAAATTTTATACTTTTTT
1 TTTATATTTCTATATA-TTT-TATAATTT-ATTACAACTTTGATAAAATTTTACAATTTTTT
* * *
17710968 TTTATATTTCTATATATTTTATAATTTTTTACGATTTTGATAAAATTTTACAATTTTTT
1 TTTATATTTCTATATATTTTATAATTTATTACAACTTTGATAAAATTTTACAATTTTTT
*
17711027 TTTAT-TTT-TACTATTTTTTATA
1 TTTATATTTCTA-TATATTTTATA
17711049 TTTTTTAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
57 2 0.03
58 20 0.29
59 31 0.44
60 3 0.04
61 14 0.20
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (59 bp):
TTTATATTTCTATATATTTTATAATTTATTACAACTTTGATAAAATTTTACAATTTTTT
Found at i:17711035 original size:19 final size:19
Alignment explanation
Indices: 17711013--17711066 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
17711003 TTTGATAAAA
17711013 TTTTACAATTTTTTTTTAT
1 TTTTACAATTTTTTTTTAT
* *
17711032 TTTTACTA-TTTTTTATAT
1 TTTTACAATTTTTTTTTAT
* *
17711050 TTTT-TAATATTTTTTTA
1 TTTTACAATTTTTTTTTA
17711067 ATATTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.04
18 20 0.71
19 7 0.25
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTACAATTTTTTTTTAT
Found at i:17711045 original size:11 final size:10
Alignment explanation
Indices: 17711031--17711072 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
17711021 TTTTTTTTTA
*
17711031 TTTTTACTAT
1 TTTTTAATAT
17711041 TTTTT-ATAT
1 TTTTTAATAT
17711050 TTTTTAATATT
1 TTTTTAATA-T
17711061 TTTTTAATAT
1 TTTTTAATAT
17711071 TT
1 TT
17711073 AATTTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 8 0.28
10 11 0.38
11 10 0.34
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:17711073 original size:18 final size:18
Alignment explanation
Indices: 17711022--17711085 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
17711012 ATTTTACAAT
* *
17711022 TTTTTTTTATTTTTACTA
1 TTTTTTTAATTTTTAATA
*
17711040 TTTTTTATATTTTTTAATA
1 TTTTTT-TAATTTTTAATA
*
17711059 TTTTTTTAATATTTAAT-
1 TTTTTTTAATTTTTAATA
17711076 TTTTTATTAA
1 TTTTT-TTAA
17711086 AATATAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 5 0.13
18 19 0.49
19 15 0.38
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTTAATTTTTAATA
Found at i:17711256 original size:90 final size:91
Alignment explanation
Indices: 17711152--17711354 Score: 223
Period size: 90 Copynumber: 2.2 Consensus size: 91
17711142 AGGCAGGGGC
* * * *
17711152 TTAATTGCTTTTTTTGAAAAAAAATTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGTACCCA
1 TTAATTGCATTTTTTGAAAAAAAATTGAAGGTCTTTTTTATGCATTTTAAAAGTTCAAATACCCA
* *
17711217 ATTGAGTGCAAAAAAAA-AGTA-AGGGA
66 AATAAGTG-AAAAAAAAGAGTAGA-GGA
* *** * *
17711243 TTAATTG-ATTTTTTTAAAAAGGTTTGAATGTCTTTTTTATGCATTTTAAAAGTTCAAATAGCCA
1 TTAATTGCATTTTTTGAAAAAAAATTGAAGGTCTTTTTTATGCATTTTAAAAGTTCAAATACCCA
* *
17711307 AATAAGTGAAAAAAAAGGGTAGAGGT
66 AATAAGTGAAAAAAAAGAGTAGAGGA
* *
17711333 TTAACTGTATTTTTTGAAAAAA
1 TTAATTGCATTTTTTGAAAAAA
17711355 TTTAAAAACT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
89 8 0.09
90 64 0.70
91 20 0.22
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (91 bp):
TTAATTGCATTTTTTGAAAAAAAATTGAAGGTCTTTTTTATGCATTTTAAAAGTTCAAATACCCA
AATAAGTGAAAAAAAAGAGTAGAGGA
Found at i:17712799 original size:3 final size:3
Alignment explanation
Indices: 17712791--17712888 Score: 76
Period size: 3 Copynumber: 33.0 Consensus size: 3
17712781 AGGATGAAAC
* * * * *
17712791 AAT AAT AAT AA- AAT GA- AAT AAA AAT AAC AAT ACATT AAT AAG AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
** * *
17712836 AAT AAT -AT AAT AAT AAT AGC AAT AAT AAT AAC AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17712883 AAT AAT
1 AAT AAT
17712889 TAATTTGAAA
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
2 5 0.07
3 63 0.88
4 2 0.03
5 2 0.03
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:17712831 original size:50 final size:50
Alignment explanation
Indices: 17712777--17712881 Score: 117
Period size: 49 Copynumber: 2.1 Consensus size: 50
17712767 ACGAAAATAA
*
17712777 AATAAGGATGAAACAATAATAATAA-AAT-GAAATAAAAATAACAAT-ACATT
1 AATAA-GA-GAAACAAT-ATAATAATAATAGAAATAAAAATAACAATAACAAT
* * * *
17712827 AATAAGAGTAATAATATAATAATAATAGCAATAATAATAACAATAACAAT
1 AATAAGAGAAACAATATAATAATAATAGAAATAAAAATAACAATAACAAT
17712877 AATAA
1 AATAA
17712882 TAATAATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
47 7 0.15
48 9 0.19
49 17 0.36
50 14 0.30
ACGTcount: A:0.64, C:0.06, G:0.07, T:0.24
Consensus pattern (50 bp):
AATAAGAGAAACAATATAATAATAATAGAAATAAAAATAACAATAACAAT
Found at i:17712842 original size:20 final size:20
Alignment explanation
Indices: 17712819--17712862 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
17712809 TAAAAATAAC
* *
17712819 AATACATTAATAAGAGTAAT
1 AATACAATAATAAGAGCAAT
* *
17712839 AATATAATAATAATAGCAAT
1 AATACAATAATAAGAGCAAT
17712859 AATA
1 AATA
17712863 ATAACAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
AATACAATAATAAGAGCAAT
Found at i:17713947 original size:26 final size:25
Alignment explanation
Indices: 17713917--17713980 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
17713907 GTTTGGGCCA
17713917 TTTGGGCTAGGGTAGTTAGGTTT-AAT
1 TTTGGGCTAGGGT--TTAGGTTTCAAT
* *
17713943 TTTGGGCCTTGGGTTTGGGTTTCAAT
1 TTTGGG-CTAGGGTTTAGGTTTCAAT
17713969 TGTTGGGCTAGG
1 T-TTGGGCTAGG
17713981 CTGAATTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 7 0.22
26 14 0.44
27 11 0.34
ACGTcount: A:0.12, C:0.08, G:0.38, T:0.42
Consensus pattern (25 bp):
TTTGGGCTAGGGTTTAGGTTTCAAT
Found at i:17714694 original size:44 final size:44
Alignment explanation
Indices: 17714402--17715008 Score: 292
Period size: 44 Copynumber: 13.8 Consensus size: 44
17714392 GTCGTCTTTG
* *
17714402 ATCTGCTCCACTGCTACTCAAGGG-GATAAAATCTACAATCTTCA
1 ATCTGCTCCACTGCTGCTC-AGGGAGATAAGATCTACAATCTTCA
** * **** *
17714446 GCCTGCTCCACTGCTGCTCAGGGAGATAAG-GCTAGTGGCTTAA
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
* * * * * * *
17714489 ATTTGCTCC-CTTGCTACCTTAGGAAGATAAGAT-TCGCCATCTTCG
1 ATCTGCTCCAC-TGCT-GCTCAGGGAGATAAGATCT-ACAATCTTCA
* * * * *
17714534 ATCTGCTCCATTGTTACCTCATGGAGATAAGATCTACAATTTTCA
1 ATCTGCTCCACTGCT-GCTCAGGGAGATAAGATCTACAATCTTCA
** * **** *
17714579 GCCTGCTCCACTACTGCTCAGGGAGATAAGA-CTAGTGGCTTAA
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
* * *
17714622 ATCTGCTCTC-CTGCTACCTC-GGGAAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTC-CACTGCT-GCTCAGGG-AGATAAGATCT-ACAATCTTCA
* * *
17714667 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
* *
17714711 ATCTGCTCCACTGTTGCTCAGGGAGATAGGATCTACAATCTTCA
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
** * **** *
17714755 GCCTGCTCCACTGCTGCTCAGGGAGATAAG-GCTATTGGCTTAA
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
* * ** ** *
17714798 ATCTGCTTCC-CTACTACCTC-GAAAAGATAAGAT-TCACCGTCTTCG
1 ATCTGC-TCCACTGCT-GCTCAG-GGAGATAAGATCT-ACAATCTTCA
* * * * *
17714843 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACCTTTA
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
** * * * **** *
17714887 GCCTGCTCCACTGCTACTTAGGGAGATAAG-GCTAGTGGCTTAA
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
* * * *
17714930 ATCTGCTCTCTTACTAC--CTCAGGGAGATAAGAT-TCGCCATCTTCG
1 ATCTGCTC-C--ACTGCTGCTCAGGGAGATAAGATCT-ACAATCTTCA
*
17714975 ATCTGCTCCACTACTGCTCAGGGAGATAAGATCT
1 ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCT
17715009 GTGATCTTCA
Statistics
Matches: 412, Mismatches: 120, Indels: 61
0.69 0.20 0.10
Matches are distributed among these distances:
42 6 0.01
43 69 0.17
44 238 0.58
45 94 0.23
46 5 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCA
Found at i:17714769 original size:133 final size:131
Alignment explanation
Indices: 17714337--17714741 Score: 510
Period size: 132 Copynumber: 3.1 Consensus size: 131
17714327 ATTTCAGCCT
* * * * *
17714337 AGATAAGG-CTAGTGGCTTAAATCTGCTCCCCTGTTACCTCAGGAAGATAAGATCCGTCGTCTTT
1 AGAT-AGGACTAGTGGCTTAAATCTGCT-CCCTGCTACCTCAGGAAGATAAGATTCGCCATCTTC
*
17714401 GATCTGCTCCACTGCTACTCAAGGG-GATAAAATCTACAATCTTCAGCCTGCTCCACTGCTGCTC
64 GATCTGCTCCACTGCTACT-AAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTC
17714465 AGGG
128 AGGG
* *
17714469 AGATAAGG-CTAGTGGCTTAAATTTGCTCCCTTGCTACCTTAGGAAGATAAGATTCGCCATCTTC
1 AGAT-AGGACTAGTGGCTTAAATCTGCTCCC-TGCTACCTCAGGAAGATAAGATTCGCCATCTTC
* * * * * *
17714533 GATCTGCTCCATTGTTACCTCATGGAGATAAGATCTACAATTTTCAGCCTGCTCCACTACTGCTC
64 GATCTGCTCCACTGCTA-CTAAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTC
17714598 AGGG
128 AGGG
* * *
17714602 AGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTCA
1 AGATAGGACTAGTGGCTTAAATCTGCTC-CCTGCTACCTCAGGAAGATAAGATTCGCCATCTTCG
* * * * ** *
17714667 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGCTCCACTGTTGCTCAG
65 ATCTGCTCCACTGCTACTAAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAG
17714732 GG
130 GG
17714734 AGATAGGA
1 AGATAGGA
17714742 TCTACAATCT
Statistics
Matches: 236, Mismatches: 32, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
131 3 0.01
132 124 0.53
133 107 0.45
134 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (131 bp):
AGATAGGACTAGTGGCTTAAATCTGCTCCCTGCTACCTCAGGAAGATAAGATTCGCCATCTTCGA
TCTGCTCCACTGCTACTAAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGG
G
Found at i:17714774 original size:176 final size:176
Alignment explanation
Indices: 17714527--17714916 Score: 548
Period size: 176 Copynumber: 2.2 Consensus size: 176
17714517 AAGATTCGCC
* * * *
17714527 ATCTTCGATCTGCTCCATTGTTACCTCATGGAGATAAGATCTACAATTTTCAGCCTGCTCCACTA
1 ATCTTCAATCTGCTCCACTGTTA-CTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTA
* **
17714592 CTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGC-TCTCCTGCTACCTCGGGAAGATAAGATT
65 CTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTC-CCTACTACCTCGAAAAGATAAGATT
* *
17714656 CGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
129 CACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACA
* * *
17714704 ATCTTCAATCTGCTCCACTGTTGCTCAGGGAGATAGGATCTACAATCTTCAGCCTGCTCCACTGC
1 ATCTTCAATCTGCTCCACTGTTACTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTAC
* *
17714769 TGCTCAGGGAGATAAGGCTATTGGCTTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCA
66 TGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCA
* * *
17714834 CCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACA
131 CCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACA
* * ** * *
17714880 ACCTTTAGCCTGCTCCACTGCTACTTAGGGAGATAAG
1 ATCTTCAATCTGCTCCACTGTTACTCAGGGAGATAAG
17714917 GCTAGTGGCT
Statistics
Matches: 187, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
176 165 0.88
177 22 0.12
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (176 bp):
ATCTTCAATCTGCTCCACTGTTACTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTAC
TGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCA
CCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACA
Found at i:17714826 original size:132 final size:132
Alignment explanation
Indices: 17714690--17715008 Score: 437
Period size: 132 Copynumber: 2.4 Consensus size: 132
17714680 CTGCTTAGGG
* * ** * *
17714690 AGATAAGA-TCTACAATCTTCAATCTGCTCCACTGTTGCTCAGGGAGATAGGATCTACAATCTTC
1 AGATAAGATTC-ACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAACCTTC
* *
17714754 AGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTATTGGCTTAAATCTGCT-TCCCTACTACCTC
65 AGCCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCT-CCTACTACCTC
17714818 -GAAA
129 AG-AA
* * * *
17714822 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACCTTTA
1 AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAACCTTCA
* *
17714887 GCCTGCTCCACTGCTACTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTCTTACTACCTCAG
66 GCCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTCCTACTACCTCAG
**
17714952 GG
131 AA
*
17714954 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCT
1 AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCT
17715009 GTGATCTTCA
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
132 160 0.98
133 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (132 bp):
AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAACCTTCA
GCCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTCCTACTACCTCAG
AA
Found at i:17714953 original size:176 final size:174
Alignment explanation
Indices: 17714580--17714961 Score: 446
Period size: 176 Copynumber: 2.2 Consensus size: 174
17714570 CAATTTTCAG
* **
17714580 CCTGCTCCACTACTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGG
1 CCTGCTCCACTAC-GCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTACTACCTCGAA
* * *
17714645 AAGATAAGATTCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
65 AAGATAAGATTCACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACAACCTTC
* * * * * *
17714710 AATCTGCTCCACTGTTGCTCAGGGAGATAGGATCTACAATCTTCAG
130 AACCTGCTCCACTGCTACTCAGGGAGATAGGA-CTACAAGCTTAAA
* * *
17714756 CCTGCTCCACTGCTGCTCAGGGAGATAAGGCTATTGGCTTAAATCTGCT-TCCCTACTACCTCGA
1 CCTGCTCCACTAC-GCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCT-CCTACTACCTCGA
* * *
17714820 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACCTT
64 AAAGATAAGATTCACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACAACCTT
* * * ***
17714885 TAGCCTGCTCCACTGCTACTTAGGGAGATAAGG-CTAGTGGCTTAAA
129 CAACCTGCTCCACTGCTACTCAGGGAGAT-AGGACTACAAGCTTAAA
*
17714931 TCTGCTCTCTTACTAC-CTCAGGGAGATAAGA
1 CCTGCTC-C--ACTACGCTCAGGGAGATAAGA
17714962 TTCGCCATCT
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
175 14 0.08
176 153 0.88
177 3 0.02
178 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (174 bp):
CCTGCTCCACTACGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTACTACCTCGAAA
AGATAAGATTCACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACAACCTTCA
ACCTGCTCCACTGCTACTCAGGGAGATAGGACTACAAGCTTAAA
Found at i:17717009 original size:37 final size:37
Alignment explanation
Indices: 17716959--17717033 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
17716949 TTTTTGAATT
17716959 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
1 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
17716996 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
1 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
17717033 T
1 T
17717034 ACCTTCACCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (37 bp):
TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
Found at i:17717776 original size:11 final size:11
Alignment explanation
Indices: 17717762--17717806 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
17717752 AGATAAATAT
17717762 TATTTTATTAA
1 TATTTTATTAA
*
17717773 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
17717786 TATTTTATTAT
1 TATTTTATTAA
17717797 TATTTTATTA
1 TATTTTATTA
17717807 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:17719704 original size:46 final size:46
Alignment explanation
Indices: 17719648--17719920 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
17719638 GCTCTCTGAT
* *
17719648 ATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
17719694 ATGAATTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
17719740 ATG-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
17719785 ATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
17719831 ATGAAATGAACAAGACAATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
17719877 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
17719921 TCAAAGATAA
Statistics
Matches: 201, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 42 0.21
46 159 0.79
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:17719807 original size:91 final size:92
Alignment explanation
Indices: 17719643--17719915 Score: 388
Period size: 91 Copynumber: 3.0 Consensus size: 92
17719633 AGTGTGCTCT
* * *
17719643 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGACATGAATTGTGTAAG
1 CTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAG
17719708 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * *
17719735 CTGATATG-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAG
*
17719799 ACCATGGTTAAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* ***
17719826 CTGACATGAAATGAACAAGACAATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAA
* * *
17719890 GACCATAGTTGAAAGACACTATGGCA
65 GACCATGGTTGAAAGATACCATGGCA
17719916 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
91 84 0.52
92 76 0.47
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:17719934 original size:137 final size:136
Alignment explanation
Indices: 17719658--17719938 Score: 350
Period size: 137 Copynumber: 2.1 Consensus size: 136
17719648 ATGAAATGTG
* * * *** *
17719658 TAAGACTATGGTTGAAAGATACCATGGCAACATGACATGAATTGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTAAAAGATACCATGGCAACATGACATGAAATGAACAAGACAATGGTTGAAAGA
* * * * * *
17719723 TACCATGGCAACCTGATATGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATG
66 TACCATGGCAACATGACATGAATGAGTAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-G
*
17719788 AAATGAA
130 AAATAAA
*
17719795 TAAGACCATGGTTAAAAGATACCATGGCAACCTGACATGAAATGAACAAGACAATGGTTGAAAGA
1 TAAGACCATGGTTAAAAGATACCATGGCAACATGACATGAAATGAACAAGACAATGGTTGAAAGA
* * *
17719860 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA
66 TACCATGGCAACATGACATG--AATGAGTAAGACCATAGTTGAAAGACACCATGGCAGCATGACA
17719924 -AAGATAAA
129 GAA-ATAAA
17719932 TAAGACC
1 TAAGACC
17719939 GTGGATGGGA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
136 3 0.02
137 84 0.68
138 36 0.29
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (136 bp):
TAAGACCATGGTTAAAAGATACCATGGCAACATGACATGAAATGAACAAGACAATGGTTGAAAGA
TACCATGGCAACATGACATGAATGAGTAAGACCATAGTTGAAAGACACCATGGCAGCATGACAGA
AATAAA
Found at i:17720221 original size:16 final size:17
Alignment explanation
Indices: 17720200--17720232 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17720190 ATGATGGAAC
17720200 ATGAAA-CATTGATATA
1 ATGAAATCATTGATATA
*
17720216 ATGAAATGATTGATATA
1 ATGAAATCATTGATATA
17720233 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATCATTGATATA
Found at i:17728610 original size:21 final size:21
Alignment explanation
Indices: 17728586--17728661 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
17728576 CTGTTTAACC
17728586 CTTATGGGTTTTTGTTCAGCT
1 CTTATGGGTTTTTGTTCAGCT
* * * * *
17728607 CTTACGAGCTTTTGTTCAACC
1 CTTATGGGTTTTTGTTCAGCT
*
17728628 CTTATGGGTTTCTGCTT-AGCT
1 CTTATGGGTTTTTG-TTCAGCT
*
17728649 CTCATGAGGTTTT
1 CTTATG-GGTTTT
17728662 ATTCAGCCCT
Statistics
Matches: 40, Mismatches: 13, Indels: 3
0.71 0.23 0.05
Matches are distributed among these distances:
21 33 0.82
22 7 0.17
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (21 bp):
CTTATGGGTTTTTGTTCAGCT
Found at i:17728616 original size:42 final size:42
Alignment explanation
Indices: 17728510--17728638 Score: 150
Period size: 42 Copynumber: 3.1 Consensus size: 42
17728500 TTGTGTTTAC
* * * * * *
17728510 TTTTCGTTTAGCTCTCATGAGCTTCTATTTAACTCATATGAG
1 TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
* *
17728552 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
1 TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
* * * *
17728594 TTTTTGTTCAGCTCTTACGAGCTTTTGTTCAACCCTTATGGG
1 TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
17728636 TTT
1 TTT
17728639 CTGCTTAGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
Found at i:17741629 original size:26 final size:25
Alignment explanation
Indices: 17741556--17741640 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
17741546 GGCTATATAA
* *
17741556 CAGGAAGCTCATAAGAGCC-ATAAT
1 CAGGAAGCTCAAAAGAGCCTTTAAT
* * *
17741580 CAGGAAGTTCATAAAGAACTTTTAAT
1 CAGGAAGCTCA-AAAGAGCCTTTAAT
*
17741606 AAGGAAGCTCACAAAGAGCCTTTAAT
1 CAGGAAGCTCA-AAAGAGCCTTTAAT
17741632 CA-GAAGCTC
1 CAGGAAGCTC
17741641 CGGATAGCCA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
24 10 0.21
25 12 0.25
26 26 0.54
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGGAAGCTCAAAAGAGCCTTTAAT
Found at i:17747483 original size:16 final size:15
Alignment explanation
Indices: 17747457--17747491 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
17747447 TGATGTGAAT
17747457 AATATAAAATATTAA
1 AATATAAAATATTAA
*
17747472 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
17747488 AATA
1 AATA
17747492 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:17747672 original size:24 final size:23
Alignment explanation
Indices: 17747643--17747761 Score: 96
Period size: 24 Copynumber: 4.8 Consensus size: 23
17747633 ACGTGATAAT
*
17747643 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
17747666 GTGTAAAAATACATACATAATATA
1 AT-TAAAAATATATACATAATATA
*
17747690 ATT-AAAATATATACATAAGATAA
1 ATTAAAAATATATACATAATAT-A
*
17747713 CATGTAAAATATATATATAAATAATATA
1 -AT-T-AAA-A-ATATATACATAATATA
*
17747741 GTATTAAAGATATATACATAA
1 --ATTAAAAATATATACATAA
17747762 AATAGTATAA
Statistics
Matches: 76, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
22 16 0.21
23 3 0.04
24 22 0.29
25 12 0.16
27 5 0.07
28 3 0.04
29 15 0.20
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:17747736 original size:29 final size:29
Alignment explanation
Indices: 17747696--17747762 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
17747686 TATAATTAAA
*
17747696 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
17747725 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
17747754 ATACATAAA
1 ATATATAAA
17747763 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:17747778 original size:25 final size:25
Alignment explanation
Indices: 17747650--17747780 Score: 97
Period size: 25 Copynumber: 5.2 Consensus size: 25
17747640 AATATTAAAA
* * *
17747650 ATATGTACATAATATAGTGTAA-AA
1 ATATATACATAATATAGTATAATAT
* * *
17747674 ATACATACATAATATAATTAAAATAT
1 ATATATACATAATAT-AGTATAATAT
* * * *
17747700 ATACATAAGATAACAT-GTAAAATAT
1 ATATAT-ACATAATATAGTATAATAT
* *
17747725 ATATATAAATAATATAGTATTAA-AG
1 ATATATACATAATATAGTA-TAATAT
*
17747750 ATATATACATAAAATAGTATAATAT
1 ATATATACATAATATAGTATAATAT
17747775 ATATAT
1 ATATAT
17747781 TTATATATAC
Statistics
Matches: 84, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
24 23 0.27
25 45 0.54
26 9 0.11
27 7 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (25 bp):
ATATATACATAATATAGTATAATAT
Found at i:17747842 original size:24 final size:23
Alignment explanation
Indices: 17747815--17747866 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
17747805 AGAATATACC
*
17747815 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
17747839 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
17747862 TAATA
1 TAATA
17747867 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:17748431 original size:18 final size:17
Alignment explanation
Indices: 17748376--17748431 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 17
17748366 GTGGAGTAAG
17748376 TAGTGGAGCAAGTATGGC
1 TAGTGGAGCAAGT-TGGC
17748394 TAGT-G-G--AGTTGG-
1 TAGTGGAGCAAGTTGGC
*
17748406 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGT-TGGC
17748424 TAGTGGAG
1 TAGTGGAG
17748432 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.21, C:0.07, G:0.46, T:0.25
Consensus pattern (17 bp):
TAGTGGAGCAAGTTGGC
Found at i:17748433 original size:30 final size:30
Alignment explanation
Indices: 17748356--17748441 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
17748346 GTGGTGGTGG
** *
17748356 AGTGTGGCTAGTGGAGTAAGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
*
17748386 AGTATGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
17748416 AGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTGGTGG
17748442 CAAAGGCTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.20, C:0.06, G:0.48, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:17753652 original size:20 final size:21
Alignment explanation
Indices: 17753619--17753657 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
17753609 GTGGGTAAAG
17753619 GGTGAAAAATAAAA-TTTTAA
1 GGTGAAAAATAAAAGTTTTAA
17753639 GGTG-AAAATAAAAAGTTTT
1 GGTGAAAAAT-AAAAGTTTT
17753658 GAGTTTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (21 bp):
GGTGAAAAATAAAAGTTTTAA
Found at i:17753819 original size:29 final size:30
Alignment explanation
Indices: 17753759--17753819 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
17753749 TGGGGGTTGG
* *
17753759 GGAGTAAAAGTTCTAGGGGAAAAGTGAGAA
1 GGAGTAAAAGTTCTAGGGGAAAAGTAAAAA
17753789 GGAGTAAAAGTGT-TA-GGGAAAAGTAAAAA
1 GGAGTAAAAGT-TCTAGGGGAAAAGTAAAAA
17753818 GG
1 GG
17753820 TTTAGGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 14 0.50
30 13 0.46
31 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.36, T:0.16
Consensus pattern (30 bp):
GGAGTAAAAGTTCTAGGGGAAAAGTAAAAA
Found at i:17758638 original size:12 final size:12
Alignment explanation
Indices: 17758621--17758645 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17758611 GGCAATCCAA
17758621 TTTTATTTTCTT
1 TTTTATTTTCTT
17758633 TTTTATTTTCTT
1 TTTTATTTTCTT
17758645 T
1 T
17758646 ATTTTCTTGC
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTCTT
Found at i:17762382 original size:11 final size:11
Alignment explanation
Indices: 17762359--17762395 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17762349 TTCTTTTATC
17762359 ATTTTCT-TTT
1 ATTTTCTATTT
17762369 ATTTTCTATTT
1 ATTTTCTATTT
17762380 ATTTT-TATTTT
1 ATTTTCTA-TTT
17762391 ATTTT
1 ATTTT
17762396 TTTCGCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTCTATTT
Found at i:17763297 original size:26 final size:26
Alignment explanation
Indices: 17763242--17763299 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17763232 CTTTATAAAA
* * * * *
17763242 TTTTATATATTTTTCATTTTAAATTT
1 TTTTATATAGTATTCATTTCAAACTG
17763268 TTTTATATAGTATTCATTTCAAACTG
1 TTTTATATAGTATTCATTTCAAACTG
17763294 TTTTAT
1 TTTTAT
17763300 TGTACATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATATAGTATTCATTTCAAACTG
Found at i:17763376 original size:26 final size:26
Alignment explanation
Indices: 17763347--17763582 Score: 103
Period size: 26 Copynumber: 9.1 Consensus size: 26
17763337 GATTTTTTGC
*
17763347 ATTATCTATTTTAAACTATTTTACAT
1 ATTATCTATTTTAAACTATTTTATAT
* *
17763373 ATTAT-TCATTTTGAATATTTTTTTATAT
1 ATTATCT-ATTTT-AA-ACTATTTTATAT
* * *
17763401 ATTATTTGTTTTAAACCATTTCATATATAT
1 ATTATCTATTTTAAACTA-TT--T-TATAT
* *
17763431 ATTATCTATTTT-AA-TTTTTTATTT
1 ATTATCTATTTTAAACTATTTTATAT
* * * * *
17763455 GTTATTTAGTTTATACTGTTTTATAT
1 ATTATCTATTTTAAACTATTTTATAT
* * * * * *
17763481 GTTAACTGTTTTAAA-T-TCTTCTTT
1 ATTATCTATTTTAAACTATTTTATAT
*
17763505 ATTATTTATTTTAAACTATTTTAT-T
1 ATTATCTATTTTAAACTATTTTATAT
* * * *
17763530 TTTATTTATTTT-AA-GATTTCATAT
1 ATTATCTATTTTAAACTATTTTATAT
* *
17763554 ATTATTTATATTT-AACTGTTTTATAT
1 ATTATCTAT-TTTAAACTATTTTATAT
17763580 ATT
1 ATT
17763583 TTTATATATA
Statistics
Matches: 156, Mismatches: 39, Indels: 30
0.69 0.17 0.13
Matches are distributed among these distances:
23 6 0.04
24 40 0.26
25 22 0.14
26 43 0.28
27 8 0.05
28 18 0.12
29 4 0.03
30 15 0.10
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (26 bp):
ATTATCTATTTTAAACTATTTTATAT
Found at i:17763592 original size:12 final size:13
Alignment explanation
Indices: 17763550--17763600 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
17763540 TTAAGATTTC
17763550 ATATATTATTTAT
1 ATATATTATTTAT
* * *
17763563 ATTTAACTGTTT-T
1 ATAT-ATTATTTAT
17763576 ATATATT-TTTAT
1 ATATATTATTTAT
17763588 ATATATTATTTAT
1 ATATATTATTTAT
17763601 TTTAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
11 3 0.10
12 10 0.33
13 12 0.40
14 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (13 bp):
ATATATTATTTAT
Found at i:17763702 original size:22 final size:24
Alignment explanation
Indices: 17763676--17763733 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
17763666 GTTTTTTATG
17763676 TATTATTTATTTAAAATTG-TCT-
1 TATTATTTATTTAAAATTGTTCTA
* * *
17763698 TATTATTAATTTTAAATTGTTTTA
1 TATTATTTATTTAAAATTGTTCTA
17763722 TATTATTTATTT
1 TATTATTTATTT
17763734 TATTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 17 0.57
23 2 0.07
24 11 0.37
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (24 bp):
TATTATTTATTTAAAATTGTTCTA
Found at i:17763733 original size:24 final size:24
Alignment explanation
Indices: 17763626--17763735 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 24
17763616 TTTCACATAC
* *
17763626 TATTTACTTTAAATTGCTTTTTA-
1 TATTTATTTTAAATTGTTTTTTAT
*
17763649 TAGTCTATTTTAAACTTGTTTTTTATGTAT
1 TA-TTTATTTTAAA-TTG--TTTT-T-TAT
* *
17763679 TATTTATTTAAAATTG--TCTTAT
1 TATTTATTTTAAATTGTTTTTTAT
* *
17763701 TATTAATTTTAAATTGTTTTATAT
1 TATTTATTTTAAATTGTTTTTTAT
17763725 TATTTATTTTA
1 TATTTATTTTA
17763736 TTTTTCTTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
22 17 0.25
23 3 0.04
24 24 0.36
25 3 0.04
27 3 0.04
28 4 0.06
29 11 0.16
30 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (24 bp):
TATTTATTTTAAATTGTTTTTTAT
Found at i:17767378 original size:19 final size:20
Alignment explanation
Indices: 17767335--17767379 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
17767325 CGCCTCTTTT
*
17767335 TGCATT-CATTTCATTCATC
1 TGCATTACATTTCATTCATA
*
17767354 TACATTACATTTCA-TCATA
1 TGCATTACATTTCATTCATA
17767373 TGCATTA
1 TGCATTA
17767380 AGTTTCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (20 bp):
TGCATTACATTTCATTCATA
Found at i:17771087 original size:37 final size:37
Alignment explanation
Indices: 17771045--17771116 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
17771035 TCTGAGCAAG
*
17771045 TATTCTTTTATTCTTT-TCATTTCATTCATAACCAAAA
1 TATTCTTTTATTCTTTCT-ATTTCATCCATAACCAAAA
17771082 TATTCTTTTATTCTTTCTATTTCATCCATAACCAA
1 TATTCTTTTATTCTTTCTATTTCATCCATAACCAA
17771117 TCATATGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (37 bp):
TATTCTTTTATTCTTTCTATTTCATCCATAACCAAAA
Found at i:17775628 original size:23 final size:24
Alignment explanation
Indices: 17775572--17775630 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
17775562 AAATAAATTA
* *
17775572 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
17775596 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
17775620 TTTTATTACAA
1 TTTTATTACAA
17775631 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:17775725 original size:7 final size:7
Alignment explanation
Indices: 17775713--17775740 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17775703 TTTACTAATG
17775713 ATAAATA
1 ATAAATA
17775720 ATAAATA
1 ATAAATA
17775727 ATAAATA
1 ATAAATA
17775734 ATAAATA
1 ATAAATA
17775741 TCTTATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:17778852 original size:44 final size:44
Alignment explanation
Indices: 17778751--17778958 Score: 204
Period size: 44 Copynumber: 4.7 Consensus size: 44
17778741 TCATCATGGT
* * * * **
17778751 AAATCTTATCTCCCTGAAGTTGTAGTGGAAC-AGATTAGAGCCAC
1 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAG-TTAAAGTTAC
* * * * *
17778795 AAACCTTACCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGTTAC
1 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGTTAC
* * * * *
17778839 TAGTCTCATCTCCCTGAAGTTGCAATGGAGCAAATTAAAGTCAC
1 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGTTAC
* * * *
17778883 AAACCTTATCCCCCTGAAGTTGC-GATGGAGCAAGTTGAAGTTAC
1 AAATCTCATCTCCCTGAAGTTGCAG-TGGAGCAAGTTAAAGTTAC
17778927 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCA
1 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCA
17778959 GATAGCAATT
Statistics
Matches: 130, Mismatches: 31, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
44 128 0.98
45 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (44 bp):
AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGTTAC
Found at i:17778884 original size:88 final size:88
Alignment explanation
Indices: 17778751--17778958 Score: 276
Period size: 88 Copynumber: 2.4 Consensus size: 88
17778741 TCATCATGGT
* * * * *
17778751 AAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAGAGCCACAAACCTTA-CCTCCCTAAAGT
1 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAACCTTATCC-CCCTAAAGT
*
17778815 TGC-AGTGGAGCAGGTTAAAGTTAC
65 TGCGA-TGGAGCAAGTTAAAGTTAC
* * * * *
17778839 TAGTCTCATCTCCCTGAAGTTGCAATGGAGCAAATTAAAGTCACAAACCTTATCCCCCTGAAGTT
1 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAACCTTATCCCCCTAAAGTT
*
17778904 GCGATGGAGCAAGTTGAAGTTAC
66 GCGATGGAGCAAGTTAAAGTTAC
17778927 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCA
1 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCA
17778959 GATAGCAATT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
88 100 0.97
89 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (88 bp):
AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAACCTTATCCCCCTAAAGTT
GCGATGGAGCAAGTTAAAGTTAC
Found at i:17779243 original size:51 final size:50
Alignment explanation
Indices: 17779153--17779250 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 50
17779143 ATTGAAGATA
*
17779153 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAACGCTACAAACC
1 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAG-AAATTAAAGCTACAAACC
* *
17779204 ACAAATCTTAT-TTTCCTGAAGTTGCAGT-GAAGAGGATTAAAGCTACA
1 ACAAATCTTATCTCT-CTGAAGTTGCAGTAG-AGA-AATTAAAGCTACA
17779251 GGTTTAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
50 4 0.10
51 37 0.90
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (50 bp):
ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAATTAAAGCTACAAACC
Found at i:17779944 original size:10 final size:10
Alignment explanation
Indices: 17779929--17779966 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
17779919 TTCTTTTATC
17779929 ATTTTCTTTT
1 ATTTTCTTTT
17779939 ATTTTCTTTT
1 ATTTTCTTTT
*
17779949 -TTTTATTTT
1 ATTTTCTTTT
17779958 ATTTT-TTTT
1 ATTTTCTTTT
17779967 GCAAATCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 12 0.46
10 14 0.54
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (10 bp):
ATTTTCTTTT
Found at i:17779954 original size:14 final size:14
Alignment explanation
Indices: 17779929--17779966 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
17779919 TTCTTTTATC
17779929 ATTTTCTTTTATTTT
1 ATTTT-TTTTATTTT
*
17779944 CTTTTTTTTATTTT
1 ATTTTTTTTATTTT
17779958 ATTTTTTTT
1 ATTTTTTTT
17779967 GCAAATCGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (14 bp):
ATTTTTTTTATTTT
Found at i:17779957 original size:19 final size:18
Alignment explanation
Indices: 17779930--17779966 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
17779920 TCTTTTATCA
*
17779930 TTTTCTTTTATTTTCTTTT
1 TTTTATTTTATTTT-TTTT
17779949 TTTTATTTTATTTTTTTT
1 TTTTATTTTATTTTTTTT
17779967 GCAAATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTATTTTATTTTTTTT
Found at i:17780944 original size:30 final size:28
Alignment explanation
Indices: 17780883--17780966 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 28
17780873 ATTGTTTTAC
* * *
17780883 ATATTATTTATTTTGAATATTTATTTAT
1 ATATTATTTATTTTAAACATTTATATAT
*
17780911 ATATTATTTGTTTTAAACCATTTCATATAT
1 ATATTATTTATTTTAAA-CATTT-ATATAT
* **
17780941 ATATTATCTATTTTAAATTTTTATAT
1 ATATTATTTATTTTAAACATTTATAT
17780967 GTTATTTAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 19 0.41
29 7 0.15
30 20 0.43
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
ATATTATTTATTTTAAACATTTATATAT
Found at i:17780971 original size:24 final size:25
Alignment explanation
Indices: 17780752--17781094 Score: 143
Period size: 24 Copynumber: 13.4 Consensus size: 25
17780742 CTTTATAAAC
*
17780752 TTTTATATATTATTCATTTTAAAATTG
1 TTTTATATATTATTTATTTT-AAA-TG
* * * * *
17780779 TATTATATAGTATTCATTTCAAACTA
1 TTTTATATATTATTTATTTTAAA-TG
* *
17780805 TTTTAT-T-GTACATTATTTT-AAT-
1 TTTTATATATTA-TTTATTTTAAATG
* *
17780827 TTATTTTATATT-TTTATTTTAAGT-
1 TT-TTATATATTATTTATTTTAAATG
* ** *
17780851 TTTTTTGCATTATCTATTTTAAATTG
1 TTTTATATATTATTTATTTTAAA-TG
* *
17780877 TTTTACATATTATTTATTTTGAATATT
1 TTTTATATATTATTTATTTT-AA-ATG
*
17780904 TATTTATATATTATTTGTTTTAAACCAT-
1 T-TTTATATATTATTTATTTT-AA--ATG
*
17780932 TTCATATATATATTATCTATTTTAAAT-
1 TT--T-TATATATTATTTATTTTAAATG
* * *
17780959 TTTTATATGTTATTTAGTTTATACTG
1 TTTTATATATTATTTATTTTA-AATG
* ** *
17780985 TTTTATATGTTAACTGTTTTAAAT-
1 TTTTATATATTATTTATTTTAAATG
* * * *
17781009 TCTTCTTTATTATTTATTTTAAACTA
1 TTTTATATATTATTTATTTTAAA-TG
*
17781035 TTTTAT-TTTTATTTATTTT-AA-G
1 TTTTATATATTATTTATTTTAAATG
* *
17781057 ATTTCATATATTATTTATATTTAACTG
1 -TTTTATATATTATTTAT-TTTAAATG
17781084 TTTTATATATT
1 TTTTATATATT
17781095 TTTTTATATA
Statistics
Matches: 239, Mismatches: 53, Indels: 49
0.70 0.16 0.14
Matches are distributed among these distances:
22 2 0.01
23 23 0.10
24 61 0.26
25 29 0.12
26 56 0.23
27 27 0.11
28 21 0.09
29 5 0.02
30 15 0.06
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTATATATTATTTATTTTAAATG
Found at i:17781245 original size:24 final size:24
Alignment explanation
Indices: 17781140--17781249 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 24
17781130 TTTCACATAC
* *
17781140 TATTTACTTTAAATTGCTTTTTA-
1 TATTTATTTTAAATTGTTTTTTAT
*
17781163 TAGTCTATTTTAAACTTGTTTTTTATGTAT
1 TA-TTTATTTTAAA-TTG--TTTT-T-TAT
* * *
17781193 TATTTATTTAAAATTG--TCTTGT
1 TATTTATTTTAAATTGTTTTTTAT
*
17781215 TATTTATTTTAAATTGTTTTATAT
1 TATTTATTTTAAATTGTTTTTTAT
17781239 TATTTATTTTA
1 TATTTATTTTA
17781250 TTTTTCTTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
22 17 0.25
23 3 0.04
24 24 0.36
25 3 0.04
27 3 0.04
28 4 0.06
29 11 0.16
30 2 0.03
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
TATTTATTTTAAATTGTTTTTTAT
Found at i:17786316 original size:16 final size:17
Alignment explanation
Indices: 17786297--17786334 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
17786287 CATCTTCTTA
17786297 TTTATATAA-TTAAT-AT
1 TTTA-ATAATTTAATGAT
17786313 TTTAATAATTTAATGAT
1 TTTAATAATTTAATGAT
17786330 TTTAA
1 TTTAA
17786335 AAGGGCAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAATAATTTAATGAT
Found at i:17789490 original size:65 final size:63
Alignment explanation
Indices: 17789388--17789512 Score: 169
Period size: 65 Copynumber: 2.0 Consensus size: 63
17789378 CCGATATGTT
* * * *
17789388 TTTAAATATTTTTCATATATATTTATAGTATACTTTTTAGTTTCTTGATAAATCATATATAAA
1 TTTAAATATTTTTCACATATATTTATAGTATACTTTTTAATTTATTAATAAATCATATATAAA
* * *
17789451 TTTAAATATTTTTCACGCATATATTTATAGTCTATTTTTTAATTTATTAATAAATTATATAT
1 TTTAAATATTTTTCA--CATATATTTATAGTATACTTTTTAATTTATTAATAAATCATATAT
17789513 TTTCTAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 15 0.28
65 38 0.72
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (63 bp):
TTTAAATATTTTTCACATATATTTATAGTATACTTTTTAATTTATTAATAAATCATATATAAA
Found at i:17795209 original size:63 final size:64
Alignment explanation
Indices: 17795088--17795216 Score: 154
Period size: 63 Copynumber: 2.0 Consensus size: 64
17795078 TGCATATTTC
* * ** * * * *
17795088 TATAAGGCTAAATCTTAGCTTTAATTTATATATAATTATAACACTATTTAAGTTATAATCTATT
1 TATAAGGCTAAATATTAGCTTTAATTCATATATAACCATAACACTAATAAAGTGATAATCAATT
*
17795152 TATAAGGCTAAATATTA-TTTTAATTCATATATAACCATAAC-CTTAATAAAGTGATAATCAATT
1 TATAAGGCTAAATATTAGCTTTAATTCATATATAACCATAACAC-TAATAAAGTGATAATCAATT
17795215 TA
1 TA
17795217 AAATAATACA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
62 1 0.02
63 38 0.69
64 16 0.29
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (64 bp):
TATAAGGCTAAATATTAGCTTTAATTCATATATAACCATAACACTAATAAAGTGATAATCAATT
Found at i:17798282 original size:16 final size:17
Alignment explanation
Indices: 17798261--17798292 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17798251 TATCAGACAT
17798261 TGGGCATTTG-GTCCAG
1 TGGGCATTTGTGTCCAG
17798277 TGGGCATTTGTGTCCA
1 TGGGCATTTGTGTCCA
17798293 AGTATAGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.12, C:0.19, G:0.34, T:0.34
Consensus pattern (17 bp):
TGGGCATTTGTGTCCAG
Found at i:17800655 original size:14 final size:14
Alignment explanation
Indices: 17800620--17800662 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
17800610 AAATCATACA
17800620 ACATAACCCCTAAAC
1 ACATAACCCCT-AAC
* *
17800635 CCATAACCCATAAC
1 ACATAACCCCTAAC
17800649 ACATAACCCCTAAC
1 ACATAACCCCTAAC
17800663 CCCTAAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (14 bp):
ACATAACCCCTAAC
Found at i:17800684 original size:21 final size:22
Alignment explanation
Indices: 17800630--17800698 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
17800620 ACATAACCCC
* *
17800630 TAAACCCATAACCCAT-AACACA
1 TAAACCCCTAACCCCTAAAC-CA
*
17800652 T-AACCCCTAACCCCTAAACCT
1 TAAACCCCTAACCCCTAAACCA
*
17800673 TAAACCCC-AACCCTTAAACCA
1 TAAACCCCTAACCCCTAAACCA
17800694 TAAAC
1 TAAAC
17800699 TATAAACCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 30 0.75
22 10 0.25
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACCA
Found at i:17800689 original size:14 final size:15
Alignment explanation
Indices: 17800660--17800692 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17800650 CATAACCCCT
17800660 AACCCCTAAACCTTA
1 AACCCCTAAACCTTA
*
17800675 AACCCC-AACCCTTA
1 AACCCCTAAACCTTA
17800689 AACC
1 AACC
17800693 ATAAACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCTTA
Found at i:17800704 original size:14 final size:14
Alignment explanation
Indices: 17800687--17800749 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
17800677 CCCCAACCCT
* *
17800687 TAAACCATAAACTA
1 TAAACCATAATCCA
17800701 TAAACCATAATCCA
1 TAAACCATAATCCA
17800715 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
* *
17800730 TAATCCATAATCTA
1 TAAACCATAATCCA
17800744 TAAACC
1 TAAACC
17800750 TTAAAATAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
14 30 0.70
15 13 0.30
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:17800730 original size:7 final size:7
Alignment explanation
Indices: 17800700--17800746 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
17800690 ACCATAAACT
*
17800700 ATAAACC
1 ATAATCC
17800707 ATAATCC
1 ATAATCC
*
17800714 ATAAACCC
1 AT-AATCC
17800722 ATAATCC
1 ATAATCC
17800729 ATAATCC
1 ATAATCC
*
17800736 ATAATCT
1 ATAATCC
17800743 ATAA
1 ATAA
17800747 ACCTTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAATCC
Found at i:17800737 original size:29 final size:29
Alignment explanation
Indices: 17800602--17800749 Score: 99
Period size: 29 Copynumber: 5.2 Consensus size: 29
17800592 TTTTATCCCC
* * *
17800602 TAAACCC-TAAATCATACAA-CATAACCCC
1 TAAACCCATAAACCATA-AACCATAATCCA
* * *
17800630 TAAACCCATAACCCAT-AACACATAACCCC
1 TAAACCCATAAACCATAAAC-CATAATCCA
* * ** * *
17800659 T-AACCCCTAAACCTTAAACCCCAACCCT
1 TAAACCCATAAACCATAAACCATAATCCA
*
17800687 TAAA-CCATAAACTATAAACCATAATCCA
1 TAAACCCATAAACCATAAACCATAATCCA
* * *
17800715 TAAACCCATAATCCATAATCCATAATCTA
1 TAAACCCATAAACCATAAACCATAATCCA
17800744 TAAACC
1 TAAACC
17800750 TTAAAATAGT
Statistics
Matches: 95, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
27 2 0.02
28 46 0.48
29 47 0.49
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (29 bp):
TAAACCCATAAACCATAAACCATAATCCA
Found at i:17801061 original size:24 final size:24
Alignment explanation
Indices: 17801033--17801081 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17801023 CCAAAATAAC
*
17801033 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
17801057 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
17801081 A
1 A
17801082 TAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:17801717 original size:41 final size:42
Alignment explanation
Indices: 17801660--17801760 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 42
17801650 AAGAGTTATA
* *
17801660 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCTGGTAATG-CCT
1 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCCCT
17801701 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCCCT
1 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCCCT
*
17801743 GGT-TTTTAGCGGCGTTTT
1 TGTCTTTTAGCGGCGTTTT
17801761 TGGTAAACGC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 51 0.91
42 5 0.09
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.36
Consensus pattern (42 bp):
TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCCCT
Found at i:17801829 original size:12 final size:12
Alignment explanation
Indices: 17801814--17801838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17801804 ATTTTTTGAT
17801814 AAAACGCCGCTA
1 AAAACGCCGCTA
17801826 AAAACGCCGCTA
1 AAAACGCCGCTA
17801838 A
1 A
17801839 TTGGAACAGA
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:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:17808344 original size:44 final size:45
Alignment explanation
Indices: 17808291--17808390 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
17808281 CTTTGACATA
* * *
17808291 GACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATATG
** * *
17808335 GACTTACATGGCTCAATCCTGTCTCCAAAGTCATATTTCTAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAATATG
17808381 GACTTACATG
1 GACTTACATG
17808391 GCTCATTTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 29 0.62
46 18 0.38
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
GACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATATG
Found at i:17808390 original size:46 final size:44
Alignment explanation
Indices: 17808307--17808395 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
17808297 CATGAATTAT
*
17808307 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
* *
17808351 TCCTGTCTCCAAAGTCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
17808396 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 17 0.43
46 23 0.57
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
Found at i:17815717 original size:44 final size:45
Alignment explanation
Indices: 17815664--17815763 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
17815654 CTTTGACATA
* * *
17815664 GACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATATG
** * *
17815708 GACTTACATGGCTCAATCCTGTCTCCAAAGTCATATTTCTAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAATATG
17815754 GACTTACATG
1 GACTTACATG
17815764 GCTCATTTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 29 0.62
46 18 0.38
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
GACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATATG
Found at i:17815763 original size:46 final size:44
Alignment explanation
Indices: 17815680--17815768 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
17815670 CATGAATTAT
*
17815680 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
* *
17815724 TCCTGTCTCCAAAGTCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
17815769 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 17 0.43
46 23 0.57
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
Found at i:17817433 original size:205 final size:205
Alignment explanation
Indices: 17817081--17817478 Score: 796
Period size: 205 Copynumber: 1.9 Consensus size: 205
17817071 TATGGATGAA
17817081 AATTGGAATTGGGGTTATCTGCGATGTTTTTTAGATAATAATATTCTTTCTTATATTGCGGGAAT
1 AATTGGAATTGGGGTTATCTGCGATGTTTTTTAGATAATAATATTCTTTCTTATATTGCGGGAAT
17817146 TCCGGTGCCAAATCCCTTGATTGGACAAGATGCACTTATCTCTATATGGTCTCCTAATGGTGATT
66 TCCGGTGCCAAATCCCTTGATTGGACAAGATGCACTTATCTCTATATGGTCTCCTAATGGTGATT
17817211 TTACAGTCAAATTTGCTTATAGTATGCTTTTGAAGCCCTTAAACCCATCGGATGATAAATGGAAG
131 TTACAGTCAAATTTGCTTATAGTATGCTTTTGAAGCCCTTAAACCCATCGGATGATAAATGGAAG
17817276 ATTGTTTGAT
196 ATTGTTTGAT
17817286 AATTGGAATTGGGGTTATCTGCGATGTTTTTTAGATAATAATATTCTTTCTTATATTGCGGGAAT
1 AATTGGAATTGGGGTTATCTGCGATGTTTTTTAGATAATAATATTCTTTCTTATATTGCGGGAAT
17817351 TCCGGTGCCAAATCCCTTGATTGGACAAGATGCACTTATCTCTATATGGTCTCCTAATGGTGATT
66 TCCGGTGCCAAATCCCTTGATTGGACAAGATGCACTTATCTCTATATGGTCTCCTAATGGTGATT
17817416 TTACAGTCAAATTTGCTTATAGTATGCTTTTGAAGCCCTTAAACCCATCGGATGATAAATGGA
131 TTACAGTCAAATTTGCTTATAGTATGCTTTTGAAGCCCTTAAACCCATCGGATGATAAATGGA
17817479 TGGTCCTCAG
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 193 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (205 bp):
AATTGGAATTGGGGTTATCTGCGATGTTTTTTAGATAATAATATTCTTTCTTATATTGCGGGAAT
TCCGGTGCCAAATCCCTTGATTGGACAAGATGCACTTATCTCTATATGGTCTCCTAATGGTGATT
TTACAGTCAAATTTGCTTATAGTATGCTTTTGAAGCCCTTAAACCCATCGGATGATAAATGGAAG
ATTGTTTGAT
Found at i:17825262 original size:40 final size:40
Alignment explanation
Indices: 17825159--17825266 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
17825149 TGGATCGAAT
* * * *
17825159 ATTAGCGGTGC-TTTCTAAAAAACACCGCTATAGATCAAGC
1 ATTAGCGGCGCTTTTCT-AAAAACGCTGCTATAGATCAACC
17825199 ATTAGCGGCGCTTTTCTAAAAACGCTGCTATA-AGTCAACC
1 ATTAGCGGCGCTTTTCTAAAAACGCTGCTATAGA-TCAACC
*
17825239 ATTAGTGGCGCTTTT-TGAAAAACGCTGC
1 ATTAGCGGCGCTTTTCT-AAAAACGCTGC
17825267 AAAAAATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.03
40 53 0.88
41 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTCTAAAAACGCTGCTATAGATCAACC
Found at i:17825414 original size:39 final size:40
Alignment explanation
Indices: 17825311--17825414 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
17825301 GCTTTAGTGT
* *
17825311 CATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCAAA
1 CATTAGCAGCGCTTTTTGAAAAACGCCGCTATAGATCAAA
** *
17825351 CATTAGCAGCGCTTTTCT-AAAAACGCCGCTATAGATTGAC
1 CATTAGCAGCGCTTTT-TGAAAAACGCCGCTATAGATCAAA
17825391 CA-TAGC-GTCGCTTTTTGAAAAACG
1 CATTAGCAG-CGCTTTTTGAAAAACG
17825415 TCGCAAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
38 2 0.04
39 18 0.32
40 35 0.62
41 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (40 bp):
CATTAGCAGCGCTTTTTGAAAAACGCCGCTATAGATCAAA
Found at i:17825495 original size:152 final size:153
Alignment explanation
Indices: 17825159--17825577 Score: 463
Period size: 152 Copynumber: 2.7 Consensus size: 153
17825149 TGGATCGAAT
* * *
17825159 ATTAGCGGTGCTTTCTAAAAAACACCGCTATAGATCAAGCATTAGCGGCGCTTTTCTAAAAACGC
1 ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCTAAAAACGC
* *
17825224 TGCTATA-AGTCAACCATTAGTGGCGCTTTTTGAAAAACGCTGCAAAAAATTAAGCACAACGCTG
66 CGCTATAGA-TCAACCATTAGCGGCGCTTTTTGAAAAACGCTGCAAAAAATTAAGCACAACGCTG
* * * * *
17825288 TGTTTTATGTTGAGCTTTAGTGTC
130 TGTGTCATGTAGAGCTATAGAGTC
* *
17825312 ATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCAAACATTAGCAGCGCTTTTCTAAAAACGC
1 ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCTAAAAACGC
** * *
17825377 CGCTATAGATTGACCA-TAGCGTCGCTTTTTGAAAAACG-TCGCAAAAAATTAAGCACAACGCTT
66 CGCTATAGATCAACCATTAGCGGCGCTTTTTGAAAAACGCT-GCAAAAAATTAAGCACAACGCTG
* * *
17825440 TAGTGTCAT-TAGCGGTGATCGAG-C
130 T-GTGTCATGTAGAGCT-ATAGAGTC
* * * * * *
17825464 ATTAGCTGCGCTTTCTGAAAAATGCCACTATAGATCAAGCATTAGCTGCGCTTTT-TGAAAAACA
1 ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCT-AAAAACG
* * * * * * *
17825528 CCGCTATAGATCGATCATTATCAGCGCTTTGTCAAAAACGCCGCAAAAAA
65 CCGCTATAGATCAACCATTAGCGGCGCTTTTTGAAAAACGCTGCAAAAAA
17825578 CATTTTATCT
Statistics
Matches: 224, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
151 2 0.01
152 117 0.52
153 104 0.46
154 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (153 bp):
ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCTAAAAACGC
CGCTATAGATCAACCATTAGCGGCGCTTTTTGAAAAACGCTGCAAAAAATTAAGCACAACGCTGT
GTGTCATGTAGAGCTATAGAGTC
Found at i:17825506 original size:40 final size:40
Alignment explanation
Indices: 17825456--17825566 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
17825446 CATTAGCGGT
**
17825456 GATCGAGCATTAGCTGCGCTTTCTGAAAAATGCCACTATA
1 GATCGAGCATTAGCTGCGCTTTCTGAAAAACACCACTATA
* * *
17825496 GATCAAGCATTAGCTGCGCTTTTTGAAAAACACCGCTATA
1 GATCGAGCATTAGCTGCGCTTTCTGAAAAACACCACTATA
* * * * *
17825536 GATCGATCATTATCAGCGCTTTGTCAAAAAC
1 GATCGAGCATTAGCTGCGCTTTCTGAAAAAC
17825567 GCCGCAAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (40 bp):
GATCGAGCATTAGCTGCGCTTTCTGAAAAACACCACTATA
Found at i:17825892 original size:14 final size:14
Alignment explanation
Indices: 17825873--17825987 Score: 76
Period size: 14 Copynumber: 8.1 Consensus size: 14
17825863 TTAATTATCA
17825873 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
17825887 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
17825901 ATATAG-TTAGGGT
1 TTATGGTTTAGGGT
* *
17825914 TTAAGGTTTATGAGTT
1 TTATGGTTTA-G-GGT
*
17825930 ATTAT--TTTAAGGT
1 -TTATGGTTTAGGGT
*
17825943 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* *
17825958 TTA-GAGGTTATGGT
1 TTATG-GTTTAGGGT
*
17825972 TTATGGTTTAAGGT
1 TTATGGTTTAGGGT
17825986 TT
1 TT
17825988 GGGGGTTAGT
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
12 4 0.05
13 12 0.16
14 40 0.52
15 16 0.21
16 2 0.03
17 3 0.04
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:17825960 original size:22 final size:21
Alignment explanation
Indices: 17825935--17825987 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
17825925 GAGTTATTAT
17825935 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGATTAT-GG
*
17825957 TTTAGAGG-TTATGGTTTATGG
1 TTTA-AGGTTTATGGATTATGG
17825978 TTTAAGGTTT
1 TTTAAGGTTT
17825988 GGGGGTTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.11
21 8 0.29
22 14 0.50
23 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGG
Found at i:17826177 original size:16 final size:16
Alignment explanation
Indices: 17826158--17826188 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17826148 ATATTAAATA
17826158 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTAAAG
17826174 ATTTCAAATTTTAAA
1 ATTTCAAATTTTAAA
17826189 TAATTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTCAAATTTTAAAG
Found at i:17826968 original size:22 final size:20
Alignment explanation
Indices: 17826938--17826977 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
17826928 TTAGTGAATT
17826938 TTATAAATATTGAATAAATTTA
1 TTATAAATA-TG-ATAAATTTA
*
17826960 TTATTAATATGATAAATT
1 TTATAAATATGATAAATT
17826978 CATTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATAAATATGATAAATTTA
Found at i:17830520 original size:21 final size:21
Alignment explanation
Indices: 17830487--17830538 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
17830477 TGAGCGTTGT
* *
17830487 ATAAAAAGTTAAAATAGAT-A
1 ATAAAAAATTAAAATAAATAA
17830507 ATAAAAAATGTAAAATAAATAA
1 ATAAAAAAT-TAAAATAAATAA
17830529 ATAAATAAAT
1 ATAAA-AAAT
17830539 AGAATGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 9 0.33
22 6 0.22
23 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (21 bp):
ATAAAAAATTAAAATAAATAA
Found at i:17830613 original size:23 final size:22
Alignment explanation
Indices: 17830581--17830712 Score: 80
Period size: 23 Copynumber: 6.0 Consensus size: 22
17830571 TAAGAAAAAA
*
17830581 AGTAAT-AATAAAAATAATATT
1 AGTAATAAATAAAAATAATAAT
* *
17830602 AGTATATAAATAGAAATAAAAAT
1 AGTA-ATAAATAAAAATAATAAT
17830625 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATA-AAA-ATAATAAT
* *
17830648 AGT-AGAAATATAAATAGATAA-
1 AGTAATAAATAAAAATA-ATAAT
17830669 A-TAA-AAATTAGATAAATAATAAT
1 AGTAATAAA-TA-A-AAATAATAAT
* *
17830692 AGTATTAGAATAACAA-AATAA
1 AGTAATA-AATAAAAATAATAA
17830713 ATATAAATAG
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
20 4 0.05
21 18 0.21
22 21 0.24
23 35 0.40
24 4 0.05
25 3 0.03
26 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.28
Consensus pattern (22 bp):
AGTAATAAATAAAAATAATAAT
Found at i:17830657 original size:44 final size:44
Alignment explanation
Indices: 17830609--17830695 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
17830599 ATTAGTATAT
17830609 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
17830653 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
17830696 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:17830680 original size:15 final size:14
Alignment explanation
Indices: 17830607--17830735 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
17830597 ATATTAGTAT
*
17830607 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
17830620 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
17830636 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
17830650 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
17830665 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
17830680 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
17830694 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
17830709 ATAAATATAAATAG
1 ATAAATAAAAATAG
17830723 A-AACATAAAAATA
1 ATAA-ATAAAAATA
17830736 ATAGGAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:17830685 original size:29 final size:28
Alignment explanation
Indices: 17830628--17830735 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
17830618 TAAAAATATA
* * *
17830628 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
17830657 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
17830686 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
17830715 ATAAATAGAAACATAAAAATA
1 ATAAATAGAAACATAAAAATA
17830736 ATAGGAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:17831276 original size:5 final size:5
Alignment explanation
Indices: 17831268--17831294 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17831258 CTAATTTAAT
17831268 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
17831295 ATAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:17831785 original size:44 final size:44
Alignment explanation
Indices: 17831737--17831888 Score: 161
Period size: 44 Copynumber: 3.5 Consensus size: 44
17831727 GTCTGCTTCA
17831737 CTACTGCTTAGGGAGGTAAGATCTGTAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGGTAAGATCTGTAATTTTCAGCCTGTTACC
* * * *
17831781 CTACTGCTTAGGG-GGTTAAGGCTCACTGT--CTTTGA-TCTGTT-CC
1 CTACTGCTTAGGGAGG-TAA-GAT--CTGTAATTTTCAGCCTGTTACC
* *
17831824 ACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGGTAAGATCTGTAATTTTCAGCCTGTTACC
*
17831869 CTACTGCTTAGGGAGTTAAG
1 CTACTGCTTAGGGAGGTAAG
17831889 GCTTACCATC
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
41 4 0.05
43 10 0.12
44 59 0.69
45 9 0.10
47 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGAGGTAAGATCTGTAATTTTCAGCCTGTTACC
Found at i:17831887 original size:88 final size:87
Alignment explanation
Indices: 17831728--17832030 Score: 396
Period size: 88 Copynumber: 3.5 Consensus size: 87
17831718 TAATCTTCAG
* * *
17831728 TCTGCTTCACTACTGCTTAGGGAGGTAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACTG-TTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
* *
17831793 GGGTTAAGGCTCACTGTCTTTGA
65 GGGTTAAGGCTTACTGTCTTCGA
*
17831816 TCTGTTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACTG-TTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
* **
17831881 GAGTTAAGGCTTACCATCTTCGA
65 GGGTTAAGGCTTACTGTCTTCGA
** * * * *
17831904 TCTGCTCCACTACTGTTTGGGAGATAAGATCTGTAATTTTTAGTCTATTACCCTATTGCTTAGGG
1 TCTGCTCCACTACTGTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
*
17831969 GGTTAAGGCTTGCTGTCTTCGA
66 GGTTAAGGCTTACTGTCTTCGA
* * *
17831991 TCTGCTCCACTATTGTTTAGG-G--AAGATCTGTATTTTTCAG
1 TCTGCTCCACTACTGTTAAGGAGATAAGATCTGTAATTTTCAG
17832031 TCTACTCCAT
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
84 16 0.08
86 1 0.01
87 81 0.42
88 93 0.49
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (87 bp):
TCTGCTCCACTACTGTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
GGTTAAGGCTTACTGTCTTCGA
Found at i:17831917 original size:44 final size:43
Alignment explanation
Indices: 17831773--17831931 Score: 112
Period size: 44 Copynumber: 3.7 Consensus size: 43
17831763 AATTTTCAGC
* * * * *
17831773 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCTCACTGTCTTTGAT
1 CTGTT-CCACTACTGCTTAGGGAGATAAGGCTTAC-ATCTTCGAT
* * * *
17831817 CTGTTCCACTACTGCTTAAGGAGATAAGATCTGTA-ATTTTC-AGC
1 CTGTTCCACTACTGCTTAGGGAGATAAG-GCT-TACATCTTCGA-T
*
17831861 CTGTTACC-CTACTGCTTAGGGAGTTAAGGCTTACCATCTTCGAT
1 CTGTT-CCACTACTGCTTAGGGAGATAAGGCTTA-CATCTTCGAT
* *
17831905 CTGCTCCACTACTG-TTTGGGAGATAAG
1 CTGTTCCACTACTGCTTAGGGAGATAAG
17831932 ATCTGTAATT
Statistics
Matches: 89, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 18 0.20
44 63 0.71
45 5 0.06
46 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (43 bp):
CTGTTCCACTACTGCTTAGGGAGATAAGGCTTACATCTTCGAT
Found at i:17832281 original size:134 final size:134
Alignment explanation
Indices: 17832035--17832286 Score: 414
Period size: 134 Copynumber: 1.9 Consensus size: 134
17832025 TTTCAGTCTA
* * *
17832035 CTCCATAGCCGATACATGAAGATAAGACTCGTCATTTCTGATTTGCTCCATAGCCGATACATAGA
1 CTCCATAGCCCATACATGAAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATAGA
*
17832100 GATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGAAAGATAAGACTAGTGGCTAAAA
66 GATAAGATCTGTAACTTTTCAGTCAGCTTCCTACAACTTCAGAAAGATAAGACTAGTGGCTAAAA
17832165 TCTG
131 TCTG
* * *
17832169 CTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGGTACATGGA
1 CTCCATAGCCCATACATGAAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATAGA
* * *
17832234 GATAAGATCTGTAACTTTTCAGTCAGCTTCCTGCAACTTCTGGAAGATAAGAC
66 GATAAGATCTGTAACTTTTCAGTCAGCTTCCTACAACTTCAGAAAGATAAGAC
17832287 CTGTATCTTC
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 108 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (134 bp):
CTCCATAGCCCATACATGAAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATAGA
GATAAGATCTGTAACTTTTCAGTCAGCTTCCTACAACTTCAGAAAGATAAGACTAGTGGCTAAAA
TCTG
Found at i:17832353 original size:178 final size:172
Alignment explanation
Indices: 17832138--17832458 Score: 462
Period size: 178 Copynumber: 1.8 Consensus size: 172
17832128 TCCTACAACT
* *
17832138 TCAGAAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCA
1 TCAGAAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCCATACATGAAGATAAGACTCGCCA
** * * *
17832203 TTTCTGATCTGCTCCATAGCCGGTACATGGAGATAAGATCTGTAACTTTTCAGTCAGCTTCCTGC
66 -TT-T--TC-AATCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTGCAGTCAGCTCCCTGC
*
17832268 AACTTCTGGAAGATAAGACCTGTATCTTCAACCGGCTCTCTTGCTACC
125 AACTTCAGGAAGATAAGACCTGTATCTTCAACCGGCTCTCTTGCTACC
* * * **
17832316 TCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATAGCTGATACATGAAGATAAGACTCGCCA
1 TCAGAAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCCATACATGAAGATAAGACTCGCCA
*
17832381 TTTTCAATCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCTGCTCCCTGCAACTTC
66 TTTTCAATCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCAGCTCCCTGCAACTTC
17832446 AGGAAGATAAGAC
131 AGGAAGATAAGAC
17832459 TAGTGGCTAA
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
172 34 0.26
173 32 0.25
174 2 0.02
176 1 0.01
177 2 0.02
178 58 0.45
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (172 bp):
TCAGAAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCCCATACATGAAGATAAGACTCGCCA
TTTTCAATCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCAGCTCCCTGCAACTTC
AGGAAGATAAGACCTGTATCTTCAACCGGCTCTCTTGCTACC
Found at i:17832445 original size:306 final size:308
Alignment explanation
Indices: 17832031--17832591 Score: 862
Period size: 306 Copynumber: 1.8 Consensus size: 308
17832021 TATTTTTCAG
* * *
17832031 TCTACTCCATAGCCGATACATGAAGATAAGACTCGTCATTTCTGATTTGCTCCATAGCCGATACA
1 TCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATTTCTCA--T-ATCCATAGCCGATACA
* *
17832096 TAGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGAAAGATAAGACTAGTGGCT
63 TAGAGATAAGATCTGTAACTTTGCAGTCTGCTCCCTACAACTTCAGAAAGATAAGACTAGTGGCT
*
17832161 AAAATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGG
128 AAAATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGA
* * *
17832226 TACATGGAGATAAGATCTGTA-ACTTTTCAGTCAGCTTCCTGCAACTTCT-GGAAGATAAGACCT
193 TACATGGAGATAAGATCTATATA--TTGCAGTCAGCTCCCTGCAACTT-TAGGAAGATAAGACCT
17832289 GTATCTTCAACCGGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
255 GTATCTTCAACCGGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
* *
17832343 TCTACTCCATAGCTGATACATGAAGATAAGACTCGCCATTT-TCA-ATCCATAGCCGATACATGG
1 TCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATTTCTCATATCCATAGCCGATACATAG
* *
17832406 AGATAAGATCTGTAA-TTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGTGGCTAAA
66 AGATAAGATCTGTAACTTTGCAGTCTGCTCCCTACAACTTCAGAAAGATAAGACTAGTGGCTAAA
* * ** *
17832470 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGTGATTTCTTATCTGCTCCATAGCCGATAC
131 ATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATAC
*
17832535 ATGGAGATAAGATCTATATATTGCAGTCTGCTCCCTGCAACTTTAGGAAGATAAGAC
196 ATGGAGATAAGATCTATATATTGCAGTCAGCTCCCTGCAACTTTAGGAAGATAAGAC
17832592 TAGTGGCTAA
Statistics
Matches: 228, Mismatches: 19, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
304 1 0.00
305 32 0.14
306 121 0.53
307 33 0.14
311 2 0.01
312 39 0.17
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (308 bp):
TCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATTTCTCATATCCATAGCCGATACATAG
AGATAAGATCTGTAACTTTGCAGTCTGCTCCCTACAACTTCAGAAAGATAAGACTAGTGGCTAAA
ATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATAC
ATGGAGATAAGATCTATATATTGCAGTCAGCTCCCTGCAACTTTAGGAAGATAAGACCTGTATCT
TCAACCGGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
Found at i:17832572 original size:133 final size:133
Alignment explanation
Indices: 17832322--17832941 Score: 894
Period size: 133 Copynumber: 4.7 Consensus size: 133
17832312 TACCTCAGAG
* * * * *
17832322 AGATAAGGCTGGTGGCTAAAATCTACTCCATAGCTGATACATGAAGATAAGACTCGCCA-TT-T-
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
** *
17832384 -TC-AATCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCTGCTCCCTGCAACTTCA
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCA
17832447 GGA
131 GGA
* ** *
17832450 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGTGATTTCTT
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
*
17832515 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTAT-ATATTGCAGTCTGCTCCCTGCAACTTT
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAAT-TTGCAGTCTGCTCCCTGCAACTTC
17832579 AGGA
130 AGGA
* * *
17832583 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGATTCACCATTTCTG
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
* * * *
17832648 ATCTGCTCCATAGCCAATACATGAAAATAAGATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCA
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCA
*
17832713 GAA
131 GGA
* * *
17832716 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATATATGGAGAAAAGACTCGCCATTTCTG
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
* *
17832781 ATTTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCGTGCAACTTCA
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCA
17832846 GGA
131 GGA
* * *
17832849 AGATAATACTAGAGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTT-TC
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCT-
* *
17832913 GATCTACTTCATAGCCGATACATGGAGAT
65 GATCTGCTCCATAGCCGATACATGGAGAT
17832942 TATGGGTGAG
Statistics
Matches: 439, Mismatches: 45, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
128 51 0.12
129 2 0.00
130 1 0.00
132 5 0.01
133 378 0.86
134 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (133 bp):
AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCA
GGA
Found at i:17832833 original size:45 final size:43
Alignment explanation
Indices: 17832388--17832834 Score: 164
Period size: 45 Copynumber: 10.1 Consensus size: 43
17832378 CCATTTTCAA
* *
17832388 TCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCTGC
1 TCCATAGCCAATACATGGAGATAAGA-CTAT-ATTTGCAGTCTGC
* * *** ** *
17832433 TCCCT-G-CAACTTCA-GGAAGATAAGACTAGTGGCTAAAATCTGC
1 TCCATAGCCAA-TACATGG-AGATAAGACTA-TATTTGCAGTCTGC
* *
17832476 TCCATAGCCGATACATGGAGATAAGACTTGTGATTT-CTTA-TCTGC
1 TCCATAGCCAATACATGGAGATAAGAC-TAT-ATTTGC--AGTCTGC
*
17832521 TCCATAGCCGATACATGGAGATAAGATCTATATATTGCAGTCTGC
1 TCCATAGCCAATACATGGAGATAAGA-CTATAT-TTGCAGTCTGC
* ** *** ** *
17832566 TCCCT-G-CAACTTTA-GGAAGATAAGACTAGTGGCTAAAATCTGC
1 TCCATAGCCAA-TACATGG-AGATAAGACTA-TATTTGCAGTCTGC
* * *
17832609 TCCATAGCCAATACATGGAGATAAGATTCACCATTT-CTGATCTGC
1 TCCATAGCCAATACATGGAGATAAGACT-A-TATTTGCAG-TCTGC
* * *
17832654 TCCATAGCCAATACATGAAAATAAGATCTCTAATTTGCAGTCTGC
1 TCCATAGCCAATACATGGAGATAAGA-CTAT-ATTTGCAGTCTGC
* * * *** ** *
17832699 TCCCT-G-CAACTTCA-GAAAGATAAGACTAGTGGCTAAAATCTGC
1 TCCATAGCCAA-TACATG-GAGATAAGACTA-TATTTGCAGTCTGC
* * ** * *
17832742 TCCATAGCCAATATATGGAGAAAAGACTCGCCATTT-CTGATTTGC
1 TCCATAGCCAATACATGGAGATAAGACT--ATATTTGCAG-TCTGC
*
17832787 TCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGC
1 TCCATAGCCAATACATGGAGATAAGA-CTAT-ATTTGCAGTCTGC
17832832 TCC
1 TCC
17832835 GTGCAACTTC
Statistics
Matches: 287, Mismatches: 78, Indels: 74
0.65 0.18 0.17
Matches are distributed among these distances:
43 52 0.18
44 79 0.28
45 146 0.51
46 10 0.03
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
TCCATAGCCAATACATGGAGATAAGACTATATTTGCAGTCTGC
Found at i:17836093 original size:16 final size:16
Alignment explanation
Indices: 17836072--17836103 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17836062 TTTATATCCC
17836072 GAGAATATATTAAATA
1 GAGAATATATTAAATA
17836088 GAGAATATATTAAATA
1 GAGAATATATTAAATA
17836104 TTCTCTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (16 bp):
GAGAATATATTAAATA
Found at i:17836673 original size:17 final size:17
Alignment explanation
Indices: 17836651--17836701 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
17836641 CATGTTGGAA
17836651 TTAAGAATTTATAATAT
1 TTAAGAATTTATAATAT
* *
17836668 TTAAGATTTTTCTAAT-T
1 TTAAGA-ATTTATAATAT
*
17836685 CTAA-AATTTATAATAT
1 TTAAGAATTTATAATAT
17836701 T
1 T
17836702 CAAGTTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 10 0.38
18 7 0.27
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (17 bp):
TTAAGAATTTATAATAT
Found at i:17836984 original size:3 final size:3
Alignment explanation
Indices: 17836976--17837013 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17836966 ATTTTGATGT
17836976 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
17837014 GAGTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17837572 original size:44 final size:44
Alignment explanation
Indices: 17837524--17837666 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 44
17837514 GCAACTTCAG
*
17837524 GAAGATAAGACTAGTGGCTAAAATTTGCTCCATAGCCGATACAT
1 GAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACAT
*** * * * * *
17837568 GAAGATAAGATCTA-TAATTTACAGTCTGCTCTC-TA--CAACTTCAG
1 GAAGATAAGA-CTAGT-GGCTAAAATCTGCTC-CATAGCCGA-TACAT
*
17837612 GAAGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCGATACAT
1 GAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACAT
*
17837656 GGAGATAAGAC
1 GAAGATAAGAC
17837667 CCGCCATTTT
Statistics
Matches: 72, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
42 1 0.01
43 17 0.24
44 37 0.51
45 16 0.22
46 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (44 bp):
GAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACAT
Found at i:17837631 original size:88 final size:88
Alignment explanation
Indices: 17837482--17837665 Score: 296
Period size: 88 Copynumber: 2.1 Consensus size: 88
17837472 CCCCTAATGG
* * * * *
17837482 AGATAATATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAA
1 AGATAAGATCTATAATTTACAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
*
17837547 TTTGCTCCATAGCCGATACATGA
66 TCTGCTCCATAGCCGATACATGA
*
17837570 AGATAAGATCTATAATTTACAGTCTGCTCTCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
1 AGATAAGATCTATAATTTACAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
*
17837635 TCTGCTCCATAGCCGATACATGG
66 TCTGCTCCATAGCCGATACATGA
17837658 AGATAAGA
1 AGATAAGA
17837666 CCCGCCATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (88 bp):
AGATAAGATCTATAATTTACAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
TCTGCTCCATAGCCGATACATGA
Found at i:17837819 original size:45 final size:45
Alignment explanation
Indices: 17837634--17837839 Score: 129
Period size: 45 Copynumber: 4.6 Consensus size: 45
17837624 AGAGGCTAAA
* * * *
17837634 ATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTTTTT
1 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
* * * * * *
17837679 ATCTGCTCCATAGCCGATGCATGGAGATAATA-TCTCTAATT-TG
1 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
* * * * * * ** *
17837722 CAGTCTGCTCCCT-G-CAACTTCAAGAAGATAAGATTAG---TGGCTAAA
1 -A-TCTGCTCCATAGCCAA-TACATGGAGATAAGACTCGCCATTTCT--G
17837767 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
1 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
* *
17837812 ATCTGCTCCATAGTCAATAAATGGAGAT
1 ATCTGCTCCATAGCCAATACATGGAGAT
17837840 GAGATCTATA
Statistics
Matches: 119, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
43 13 0.11
44 34 0.29
45 69 0.58
47 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
Found at i:17837854 original size:133 final size:133
Alignment explanation
Indices: 17837549--17837857 Score: 456
Period size: 133 Copynumber: 2.3 Consensus size: 133
17837539 GGCTAAAATT
* * * *
17837549 TGCTCCATAGCCGATACATGAAGATAAGATCTATAATTTACAGTCTGCTCTCTACAACTTCAGGA
1 TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTACAACTTCAAGA
* * *
17837614 AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTTTTT
66 AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACCCGCCATTTCTG
17837679 ATC
131 ATC
* * * *
17837682 TGCTCCATAGCCGATGCATGGAGATAATATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCAAGA
1 TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTACAACTTCAAGA
* * *
17837747 AGATAAGATTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTCTG
66 AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACCCGCCATTTCTG
17837812 ATC
131 ATC
* * * *
17837815 TGCTCCATAGTCAATAAATGGAGATGAGATCTATAATTTGCAG
1 TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAG
17837858 CCTATTACCC
Statistics
Matches: 155, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 155 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (133 bp):
TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTACAACTTCAAGA
AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACCCGCCATTTCTG
ATC
Found at i:17838060 original size:64 final size:64
Alignment explanation
Indices: 17837958--17838084 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
17837948 TCATGTATAT
* ** *
17837958 ATGCTTATGCCAAACAGTTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAGCTAGATGTG
1 ATGCTTATGCCAAACAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
17838022 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTTATGCCAAACAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
17838085 ACTATGAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAACAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:17842184 original size:19 final size:19
Alignment explanation
Indices: 17842160--17842223 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
17842150 TGAAAATTTA
*
17842160 ATGCAAATGATGCAATGCT
1 ATGCAAATGATGCAATGAT
17842179 ATGCAAATGATGCAATGAT
1 ATGCAAATGATGCAATGAT
* *
17842198 ATACAAATGCATGGAATGA-
1 ATGCAAATG-ATGCAATGAT
17842217 ATGCAAA
1 ATGCAAA
17842224 AGAAAGAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 32 0.80
20 8 0.20
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (19 bp):
ATGCAAATGATGCAATGAT
Found at i:17844226 original size:15 final size:15
Alignment explanation
Indices: 17844202--17844247 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
17844192 ATATAAATAG
*
17844202 AAATAAAAATATAAT
1 AAATAGAAATATAAT
17844217 AAATAGAAATATAAT
1 AAATAGAAATATAAT
17844232 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
17844248 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:17844235 original size:23 final size:24
Alignment explanation
Indices: 17844168--17844238 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 24
17844158 TAAGAAAAAA
*
17844168 AGTAAT-AAT-GAAA-ATAATATT
1 AGTAATAAATAGAAATATAATAAT
17844189 AGTATATAAATAGAAATA-AA-AAT
1 AGTA-ATAAATAGAAATATAATAAT
17844212 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATAGAAATATAATAAT
17844235 AGTA
1 AGTA
17844239 GAAATATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 17 0.40
22 6 0.14
23 10 0.24
24 8 0.19
25 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (24 bp):
AGTAATAAATAGAAATATAATAAT
Found at i:17844235 original size:29 final size:27
Alignment explanation
Indices: 17844170--17844265 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 27
17844160 AGAAAAAAAG
* * *
17844170 TAATAATGAAAATAATATTAGTATATAAA
1 TAATAAT-AAAA-AATATAAATAGATAAA
17844199 TAGA-AATAAAAATATAATAAATAGA-AATA
1 TA-ATAATAAAAA-AT-ATAAATAGATAA-A
*
17844228 TAATAATAGTAGAAATATAAATAGATAAA
1 TAATAATA--AAAAATATAAATAGATAAA
17844257 TAATAATAA
1 TAATAATAA
17844266 TATTAGAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
27 2 0.04
28 9 0.16
29 36 0.65
30 5 0.09
31 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (27 bp):
TAATAATAAAAAATATAAATAGATAAA
Found at i:17844245 original size:32 final size:32
Alignment explanation
Indices: 17844208--17844273 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
17844198 ATAGAAATAA
17844208 AAATAT-AATAAATAGAA-ATATAATAATAGTAG
1 AAATATAAATAAATA-AATA-ATAATAATAGTAG
* *
17844240 AAATATAAATAGATAAATAATAATAATATTAG
1 AAATATAAATAAATAAATAATAATAATAGTAG
17844272 AA
1 AA
17844274 TAACAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.29
Consensus pattern (32 bp):
AAATATAAATAAATAAATAATAATAATAGTAG
Found at i:17844262 original size:15 final size:14
Alignment explanation
Indices: 17844202--17844262 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
17844192 ATATAAATAG
*
17844202 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
17844217 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
17844232 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
17844246 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
17844261 AA
1 AA
17844263 TAATATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:17844304 original size:23 final size:22
Alignment explanation
Indices: 17844192--17844310 Score: 82
Period size: 23 Copynumber: 5.1 Consensus size: 22
17844182 TAATATTAGT
17844192 ATATAAATAGAAATA-AAAAT-
1 ATATAAATAGAAATATAAAATA
17844212 ATAATAAATAGAAATATAATAATA
1 AT-ATAAATAGAAATATAA-AATA
* * * *
17844236 GTAGAAATATAAATAGATAAATA
1 ATATAAATAGAAATATA-AAATA
*
17844259 ATAATAATATTAG-AATAACAAAATAA
1 AT-ATAA-A-TAGAAAT-ATAAAAT-A
*
17844285 ATATAAATAGAAACATAAAAATA
1 ATATAAATAGAAATAT-AAAATA
17844308 ATA
1 ATA
17844311 GGAATAATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 21
0.71 0.09 0.19
Matches are distributed among these distances:
20 2 0.03
21 13 0.17
22 2 0.03
23 28 0.36
24 13 0.17
25 12 0.16
26 7 0.09
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (22 bp):
ATATAAATAGAAATATAAAATA
Found at i:17844842 original size:5 final size:5
Alignment explanation
Indices: 17844834--17844860 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17844824 CTAATTTAAT
17844834 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
17844861 ATAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:17845834 original size:29 final size:30
Alignment explanation
Indices: 17845787--17845874 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
17845777 TTCTTTTATC
17845787 ATTTTTATAATTTTT-AAAATAAATTTAATG
1 ATTTTTA-AATTTTTAAAAATAAATTTAATG
** *
17845817 A-TTTTAAATTTTTAAAAATATTTTTAA-A
1 ATTTTTAAATTTTTAAAAATAAATTTAATG
* * *
17845845 ATTTTTAAATTTTAAAAAATTAATTAAATG
1 ATTTTTAAATTTTTAAAAATAAATTTAATG
17845875 TTGAAGTGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
28 8 0.17
29 37 0.80
30 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTTTAAATTTTTAAAAATAAATTTAATG
Found at i:17845871 original size:28 final size:29
Alignment explanation
Indices: 17845818--17845872 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
17845808 AATTTAATGA
*
17845818 TTTTAAATTTTTAAAAATATTTTTAAAAT
1 TTTTAAATTTTTAAAAATATTATTAAAAT
17845847 TTTTAAA-TTTTAAAAA-ATTAATTAAA
1 TTTTAAATTTTTAAAAATATT-ATTAAA
17845873 TGTTGAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 3 0.12
28 14 0.58
29 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTTAAATTTTTAAAAATATTATTAAAAT
Found at i:17851445 original size:73 final size:74
Alignment explanation
Indices: 17851254--17851450 Score: 261
Period size: 73 Copynumber: 2.6 Consensus size: 74
17851244 GTTTGTTTAT
* * ** *
17851254 TTTTTACATCAATAATATACTTATTTATAATTTACAAAAAAAAATGAAAATATTGTTTGTATTGT
1 TTTTTACATCAATAATATAATTATTTACAATTTAC--CCAAAAATGAAAATATTGTTTGTATTAT
* *
17851319 ATTTTATTGTA
64 AATCTATTGTA
* * * *
17851330 TTTTTACATTAATAATATATTTAGTTACAATTTACCCAAAAATGAAAATGTTGTTTGTATTATAA
1 TTTTTACATCAATAATATAATTATTTACAATTTACCCAAAAATGAAAATATTGTTTGTATTATAA
17851395 TCTATTGTA
66 TCTATTGTA
*
17851404 -TTTTACATCAATAATAGAATTATTTACAATTTACCCAAAAATGAAAA
1 TTTTTACATCAATAATATAATTATTTACAATTTACCCAAAAATGAAAA
17851451 AATATTTTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
73 43 0.40
74 33 0.31
76 31 0.29
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (74 bp):
TTTTTACATCAATAATATAATTATTTACAATTTACCCAAAAATGAAAATATTGTTTGTATTATAA
TCTATTGTA
Found at i:17853045 original size:3 final size:3
Alignment explanation
Indices: 17853039--17853086 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
17853029 AAAGGAAAAT
17853039 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17853086 A
1 A
17853087 AGAGGTATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:17853598 original size:3 final size:3
Alignment explanation
Indices: 17853590--17853627 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17853580 ATATGTTCAG
17853590 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
17853628 TATACAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17854820 original size:20 final size:20
Alignment explanation
Indices: 17854781--17854818 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17854771 ATTCTGTAAC
17854781 CTCTTTTTTGTATTTCAAAT
1 CTCTTTTTTGTATTTCAAAT
17854801 CTCTTTTTTGTA-TTCAAA
1 CTCTTTTTTGTATTTCAAA
17854819 ATAAAGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (20 bp):
CTCTTTTTTGTATTTCAAAT
Done.