Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 53 of 226
Found at i:17447172 original size:128 final size:128
Alignment explanation
Indices: 17446755--17447156 Score: 628
Period size: 128 Copynumber: 3.1 Consensus size: 128
17446745 ACTGCAACTT
17446755 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCATT
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTC-TT
* *
17446820 -GATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * * *
17446883 TAGGGAAATAGGACTTATGGCTTAAATCTGCTTCATTACTCTTGAAGATAAGATTTACCGTCTTC
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
* * * *
17446948 GATCTGCAT-CGTTACTGCTTAAGGAGACAATATCTGTAATTTCTAACCTACTCCACTGCTGAC
66 GATCTGC-TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
17447011 CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
* * *
17447076 GATCTGCTCCGCTACTACTTAGGGAGACAAGATTTGTAATTTCCAACCTACACCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
17447139 CAGGGAGATAGGATTTGT
1 CAGGGAAATAGGATTTGT
17447157 AACTTCGATC
Statistics
Matches: 247, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
127 3 0.01
128 243 0.98
129 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (128 bp):
CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:17447211 original size:88 final size:88
Alignment explanation
Indices: 17447159--17448175 Score: 1437
Period size: 88 Copynumber: 11.6 Consensus size: 88
17447149 GGATTTGTAA
* *
17447159 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCCTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* * **
17447224 ACCGAGGGAGGCAAGGCTTGCAT
66 ACCGAGAGAGGCAAGGTTTGTGT
* ** * ** * *
17447247 CTTCGATCTGCTTTGCTGTCAATGCAGGAA-AAAAG-TTTCACTGTCTTCAACCAGCTCTACCAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT-GTTGTCTTCAACCAGCTCCACTAC
17447310 AACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGAGAGGCAAGGTTTGTGT
* * * * *
17447334 CTTCGACCTTCTTCGCTGTCAATACAGGAATGCAAGATCTATTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* * *
17447399 ACCGAGGGAGGCAAGGCTAGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * *
17447422 CTTCGATCCGCTTCGCTGTCGATACAGGAAGGCAAGATTTGTTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* * *
17447487 ACCGAGGGAGGTAAGGCTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * ** * *
17447510 CTTTGATCCGCTTCGCTGTCGATTTAGGAAGGCAAGATCTGTTGTCATCAACCAGCTCTACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
17447575 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
*
17447598 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
17447663 ACCGAGAGAAGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * **
17447686 CTTCGATCTGCTTCGCTGTCAATACAGGAAGGTAAGATCTGTTGTCTTCAACCAGCTCTGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
17447751 ACTGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
*
17447774 CTTCGATCTGCTTCGTTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGA-TAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCC-ACTAC
*
17447838 TACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGAGAGGCAAGGTTTGTGT
* * *** *
17447862 CTTGGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGTTTTGCGACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* *
17447927 ACCGAGAGAGGTAAAGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * *
17447950 CTTCGATCTACTTCGCTGTCAATGTAGGAAGGAAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
17448015 ACCGAGAGAGGCAAGGTTTATGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * *
17448038 CTTTGATCTACTTCGCTGTCAATGCAGGAATGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
17448103 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
17448126 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
17448176 TTGATCTGTT
Statistics
Matches: 831, Mismatches: 93, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
86 2 0.00
87 69 0.08
88 758 0.91
89 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (88 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
ACCGAGAGAGGCAAGGTTTGTGT
Found at i:17447425 original size:43 final size:43
Alignment explanation
Indices: 17447288--17447689 Score: 129
Period size: 44 Copynumber: 9.2 Consensus size: 43
17447278 AAAGTTTCAC
* * * *
17447288 TGTCTTCAACCAGCTCTACCACAACCGAGAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* ** * * * * * * *
17447331 TGTCTTCGACCTTCTTCGCTGTCAATAC-AGGAATGCAAGATCTAT-
1 TGTCTTCAACCAGCTCCACT-ACAA-CCGAGGGAGGCAAG-GCT-TG
*
17447376 TGTCTTCAACCAGCTCCACTACAACCGAGGGAGGCAAGGCTAG
1 TGTCTTCAACCAGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* * * * * **
17447419 TGTCTTCGATCC-GCTTCGCTGTCGATA-C-AGGAAGGCAAGATTTG
1 TGTCTTC-AACCAGCTCCACT-AC-A-ACCGAGGGAGGCAAGGCTTG
*
17447463 TTGTCTTCAACCAGCTCCACTACAACCGAGGGAGGTAAGGCTTG
1 -TGTCTTCAACCAGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* * * * * * *** * *
17447507 TGTCTTTGATCC-GCTTCGCTGTCGATTTAGGAAGGCAA-GATCTG
1 TGTC-TTCAACCAGCTCCACT-ACAACCGAGGGAGGCAAGGCT-TG
* * * *
17447551 TTGTCATCAACCAGCTCTACTACAACCGAGAGAGGCAAGGTTTG
1 -TGTCTTCAACCAGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* * * * * * * * *
17447595 TGTCTTCGATCTGCTTCGCTGTCAA-TGCAGGAAGGCAA-GATCTG
1 TGTCTTCAACCAGCTCCACT-ACAACCG-AGGGAGGCAAGGCT-TG
* * * *
17447639 TTGTCTTCAACCAGCTCCGCTACAACCGAGAGAAGCAAGGTTTG
1 -TGTCTTCAACCAGCTCCACTACAACCGAGGGAGGCAAGGCTTG
17447683 TGTCTTC
1 TGTCTTC
17447690 GATCTGCTTC
Statistics
Matches: 244, Mismatches: 89, Indels: 52
0.63 0.23 0.14
Matches are distributed among these distances:
42 1 0.00
43 66 0.27
44 113 0.46
45 62 0.25
46 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCCACTACAACCGAGGGAGGCAAGGCTTG
Found at i:17450307 original size:16 final size:17
Alignment explanation
Indices: 17450286--17450322 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
17450276 CTCCTTTTTC
17450286 TTTTCTTTTTCTCTT-T
1 TTTTCTTTTTCTCTTAT
17450302 TTTTCTTTTTCTCTTAT
1 TTTTCTTTTTCTCTTAT
17450319 TTTT
1 TTTT
17450323 GACTTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTTCTCTTAT
Found at i:17452587 original size:19 final size:17
Alignment explanation
Indices: 17452565--17452607 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
17452555 GTGAAATTTG
17452565 ATGCATGCAATGAAATGTA
1 ATGCATGC-ATGAAATG-A
17452584 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
17452603 ATGCA
1 ATGCA
17452608 AAAAGAGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:17454750 original size:26 final size:24
Alignment explanation
Indices: 17454704--17454763 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
17454694 AATTATAAAT
*
17454704 TATAAAATATATGAATGTATGTACA
1 TATAAAA-ATATGAATCTATGTACA
*
17454729 TATAAAAATATGCATATCTATGTATA
1 TATAAAAATATG-A-ATCTATGTACA
*
17454755 TATATAAAT
1 TATAAAAAT
17454764 TATAAAGCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.17
25 8 0.27
26 17 0.57
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.38
Consensus pattern (24 bp):
TATAAAAATATGAATCTATGTACA
Found at i:17455009 original size:27 final size:26
Alignment explanation
Indices: 17454958--17455026 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
17454948 TAAAAATATT
*
17454958 CATATAAAAAATATATGAATGTATGTA
1 CATATAAAAAATATAT-AATCTATGTA
17454985 CATATAAAAAATATGCAT-ATCTATGTA
1 CATATAAAAAATAT--ATAATCTATGTA
* * *
17455012 TATATATAAATTATA
1 CATATAAAAAATATA
17455027 AAGCCTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 1 0.03
27 33 0.92
29 2 0.06
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (26 bp):
CATATAAAAAATATATAATCTATGTA
Found at i:17455179 original size:258 final size:258
Alignment explanation
Indices: 17454707--17455212 Score: 996
Period size: 259 Copynumber: 2.0 Consensus size: 258
17454697 TATAAATTAT
17454707 AAAATATATGAATGTATGTACATATAAAAATATGCATATCTATGTATATATATAAATTATAAAGC
1 AAAATATATGAATGTATGTACATATAAAAATATGCATATCTATGTATATATATAAATTATAAAGC
17454772 CTTAAAAAAATAAGTATGTATATTTAAAATATGTGGGTATACATATATAAAGTATAAAGTACAAA
66 CTTAAAAAAATAAGTATGTATATTTAAAATATGTGGGTATACATATATAAAGTATAAAGTACAAA
17454837 TAATATATAAGTAAGTATATATATTAAAGCATATAAAAATATAAGTACGTACATATATAAAAATT
131 TAATATATAAGTAAGTATATATATTAAAGCATATAAAAATATAAGTACGTACATATATAAAAATT
17454902 AAAAAAGGTATATATATAAGTTAGTATGAATATATATAACAAAATCTAAAAATATTCATATAA
196 AAAAAAGGTATATATATAAGTTAGTATGAATATATATAACAAAATCTAAAAATATTCATATAA
17454965 AAAATATATGAATGTATGTACATATAAAAAATATGCATATCTATGTATATATATAAATTATAAAG
1 AAAATATATGAATGTATGTACATAT-AAAAATATGCATATCTATGTATATATATAAATTATAAAG
17455030 CCTTAAAAAAATAAGTATGTATATTTAAAATATGTGGGTATACATATATAAAGTATAAAGTACAA
65 CCTTAAAAAAATAAGTATGTATATTTAAAATATGTGGGTATACATATATAAAGTATAAAGTACAA
17455095 ATAATATATAAGTAAGTATATATATTAAAGCATAT-AAAATATAAGTACGTACATATATAAAAAT
130 ATAATATATAAGTAAGTATATATATTAAAGCATATAAAAATATAAGTACGTACATATATAAAAAT
17455159 TAAAAAAGGTATATATATAAGTTAGTATGAATATATATAACAAAATCTAAAAAT
195 TAAAAAAGGTATATATATAAGTTAGTATGAATATATATAACAAAATCTAAAAAT
17455213 GGTATAAGTG
Statistics
Matches: 247, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
258 108 0.44
259 139 0.56
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.33
Consensus pattern (258 bp):
AAAATATATGAATGTATGTACATATAAAAATATGCATATCTATGTATATATATAAATTATAAAGC
CTTAAAAAAATAAGTATGTATATTTAAAATATGTGGGTATACATATATAAAGTATAAAGTACAAA
TAATATATAAGTAAGTATATATATTAAAGCATATAAAAATATAAGTACGTACATATATAAAAATT
AAAAAAGGTATATATATAAGTTAGTATGAATATATATAACAAAATCTAAAAATATTCATATAA
Found at i:17455235 original size:3 final size:3
Alignment explanation
Indices: 17455227--17455309 Score: 51
Period size: 3 Copynumber: 26.7 Consensus size: 3
17455217 TAAGTGGGTA
* * * *
17455227 AAT AAT AAT AAT AAGG AA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
* * **
17455275 AAT AAT CAT AAT AAG CTT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17455310 AAGGATTAGA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
2 1 0.02
3 52 0.85
4 5 0.08
5 3 0.05
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:17457511 original size:98 final size:94
Alignment explanation
Indices: 17457294--17457513 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 94
17457284 AAATTATGTT
** *
17457294 ATTAGAAAGGAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATC
1 ATTAGAAATTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATC
17457359 TAAAATTAGAAATTGATGTGTACTTAGAA
66 TAAAATTAGAAATTGATGTGTACTTAGAA
* ** *
17457388 ATTAGAAATTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATTTAAGTTAA
1 ATTAGAAATTAATATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTT-A
* *
17457452 TTTTATGTAATTAGAAATTGATGTGTGA-TTAGAA
64 -TCTA--AAATTAGAAATTGATGTGT-ACTTAGAA
** **
17457486 ATTTTATCTTAATATTATATAAGTTATG
1 ATTAGAAATTAATATTATATAAGTTATG
17457514 AAGTGTCCTG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
93 1 0.01
94 53 0.51
95 1 0.01
96 3 0.03
98 45 0.43
99 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (94 bp):
ATTAGAAATTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATC
TAAAATTAGAAATTGATGTGTACTTAGAA
Found at i:17459741 original size:72 final size:72
Alignment explanation
Indices: 17459662--17459886 Score: 210
Period size: 72 Copynumber: 3.1 Consensus size: 72
17459652 ATAAAACATA
17459662 TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
1 TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
17459727 ATACACT
66 ATACACT
** * * * * * *
17459734 TTTGCGGCG-TTTACAAAAAAACACCACAACTTATATAGA-G-AAAAC-A-GCACCGTTTATGTA
1 TTTGCGGCGCTTTA-AGGAAAGCACCACTA--TAGA-AAATGCCAAACGACGCA--GTTTCT-TA
** *
17459794 AAACATAAAACA-T
59 ACTCATAATACACT
* * *
17459807 ATTTGCGGTGCTTTAAGGAAAGCCCCACTATAGACAATGCCAAACGACGCAGTTTCTTAACTCAT
1 -TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCAT
17459872 AATACACT
65 AATACACT
17459880 TTTGCGG
1 TTTGCGG
17459887 TGTTTACAAA
Statistics
Matches: 114, Mismatches: 25, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
71 8 0.07
72 43 0.38
73 20 0.18
74 34 0.30
75 9 0.08
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (72 bp):
TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
ATACACT
Found at i:17459761 original size:146 final size:146
Alignment explanation
Indices: 17459605--17459899 Score: 527
Period size: 146 Copynumber: 2.0 Consensus size: 146
17459595 GCGTTTTTAG
* *
17459605 AAAACGCCACAACTTATATAGAGAAAACGGCACCATTTATGTAAAACATAAAACATATTTGCGGC
1 AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
17459670 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
66 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
17459735 TTGCGGCGTTTACAAA
131 TTGCGGCGTTTACAAA
* *
17459751 AAAACACCACAACTTATATAGAGAAAACAGCACCGTTTATGTAAAACATAAAACATATTTGCGGT
1 AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
* *
17459816 GCTTTAAGGAAAGCCCCACTATAGACAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
66 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
*
17459881 TTGCGGTGTTTACAAA
131 TTGCGGCGTTTACAAA
17459897 AAA
1 AAA
17459900 GTGCCACCAA
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (146 bp):
AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
TTGCGGCGTTTACAAA
Found at i:17460459 original size:14 final size:14
Alignment explanation
Indices: 17460440--17460479 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
17460430 TCGTAAATCT
17460440 TAAACCCCAAACTA
1 TAAACCCCAAACTA
* *
17460454 TAAACCCTAAACTC
1 TAAACCCCAAACTA
17460468 TAAACCCCAAAC
1 TAAACCCCAAAC
17460480 CCCAAATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCCAAACTA
Found at i:17460694 original size:14 final size:13
Alignment explanation
Indices: 17460671--17460719 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
17460661 AAAACTAGCC
*
17460671 AAACCCTAAAGTCT
1 AAACCATAAA-TCT
17460685 AAACCATAAATCTT
1 AAACCATAAATC-T
17460699 AAACCAT-AATCCT
1 AAACCATAAAT-CT
17460712 AAACCATA
1 AAACCATA
17460720 TCTTTGGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 13 0.42
14 18 0.58
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (13 bp):
AAACCATAAATCT
Found at i:17460714 original size:13 final size:13
Alignment explanation
Indices: 17460683--17460719 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
17460673 ACCCTAAAGT
17460683 CTAAACCATAAATC
1 CTAAACCAT-AATC
*
17460697 TTAAACCATAATC
1 CTAAACCATAATC
17460710 CTAAACCATA
1 CTAAACCATA
17460720 TCTTTGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (13 bp):
CTAAACCATAATC
Found at i:17461407 original size:114 final size:113
Alignment explanation
Indices: 17461103--17461622 Score: 720
Period size: 114 Copynumber: 4.6 Consensus size: 113
17461093 AATTGCTCTA
* * *
17461103 TAGCGGCATTTTTACATAAGCGCCACCAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
1 TAGCGGCATTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
* * *
17461168 TTAAGATATTTTGCGGCGTTTATTATAAGGCGCCGCTAATACTGTGCTT
66 TTAAGATATTTTGCGGCGTTT-TTATAATGCACCGCTAATACTATGCTT
* *
17461217 TAGCGGCGTTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
1 TAGCGGCATTTTTT-CATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
* * * *
17461282 ATTAAGCTATTTTGCGGCGCTTTTTATAATGCTCCGCTAATACTAAGCTT
65 GTTAAGATATTTTGCGGCG-TTTTTATAATGCACCGCTAATACTATGCTT
* * * *
17461332 TAGCGGCATTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACAAAATGTTGTGTTTTGG
1 TAGCGGCATTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
17461397 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATAC-AGTGCTT
66 TTAAGATATTTTGCGGCG-TTTTTATAATGCACCGCTAATACTA-TGCTT
* * * *
17461446 TAGCAGCGA-TTTTTCATAAGCACAACTAGTTCTAATATACCTCAAGACCAAACGCTACGTTTTG
1 TAGCGGC-ATTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
* *
17461510 GTTAAGATTTTTTGCGGCGTTTTTATAATGCACCGCTAATACTCTGCTT
65 GTTAAGATATTTTGCGGCGTTTTTATAATGCACCGCTAATACTATGCTT
* ** * * *
17461559 TAACGGTGTTTTTTCATAAGCACTACTAATTCTAATACACCTCAAGACCAAACGATGCGTTTTG
1 TAGCGGCATTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
17461623 TCAGCATTAT
Statistics
Matches: 362, Mismatches: 38, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
113 83 0.23
114 173 0.48
115 103 0.28
116 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (113 bp):
TAGCGGCATTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
TTAAGATATTTTGCGGCGTTTTTATAATGCACCGCTAATACTATGCTT
Found at i:17461688 original size:227 final size:228
Alignment explanation
Indices: 17461106--17461622 Score: 633
Period size: 229 Copynumber: 2.3 Consensus size: 228
17461096 TGCTCTATAG
* * * * * *
17461106 CGGCATTTTTACATAAGCGCCACCAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTA
1 CGGCATTTTTTCATAAGCACCACTAATTCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
* * * ** * * *
17461171 AGATATTTTGCGGCG-TTTATTATAAGGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTTGCAT
66 AGATATATTACAGCGCTTT-TTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTT-CAT
* * * *
17461235 AAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGCTATTTTGCGGC
129 AAGCACAACTAATTCTAATATACCTCAAGACCAAACGCTACGTTTTGATTAAGATATTTTGCGGC
* *
17461300 GCTTTTTATAATGCTCCGCTAATACTAAGCTTTAG
194 GCTTTTTATAATGCACCGCTAATACTAAGCTTTAA
* * * *
17461335 CGGCATTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACAAAATGTTGTGTTTTGGTTA
1 CGGCATTTTTTCATAAGCACCACTAATTCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
* * * ** * * *
17461400 AGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACAGTGCTTTAGCAGCGATTTTTCATAA
66 AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTTCATAA
* * *
17461465 GCACAACTAGTTCTAATATACCTCAAGACCAAACGCTACGTTTTGGTTAAGATTTTTTGCGGCG-
131 GCACAACTAATTCTAATATACCTCAAGACCAAACGCTACGTTTTGATTAAGATATTTTGCGGCGC
**
17461529 TTTTTATAATGCACCGCTAATACTCTGCTTTAA
196 TTTTTATAATGCACCGCTAATACTAAGCTTTAA
** * *
17461562 CGGTGTTTTTTCATAAGCACTACTAATTCTAATACACCTCAAGACCAAACGATGCGTTTTG
1 CGGCATTTTTTCATAAGCACCACTAATTCTAATACACCTCAAGACAAAACGATGCGTTTTG
17461623 TCAGCATTAT
Statistics
Matches: 256, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
227 82 0.32
228 62 0.24
229 109 0.43
230 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (228 bp):
CGGCATTTTTTCATAAGCACCACTAATTCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTTCATAA
GCACAACTAATTCTAATATACCTCAAGACCAAACGCTACGTTTTGATTAAGATATTTTGCGGCGC
TTTTTATAATGCACCGCTAATACTAAGCTTTAA
Found at i:17462818 original size:8 final size:8
Alignment explanation
Indices: 17462795--17462835 Score: 73
Period size: 8 Copynumber: 5.0 Consensus size: 8
17462785 AATAAATAAG
17462795 TATTATAT
1 TATTATAT
17462803 TAATTATAT
1 T-ATTATAT
17462812 TATTATAT
1 TATTATAT
17462820 TATTATAT
1 TATTATAT
17462828 TATTATAT
1 TATTATAT
17462836 ATATAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:17463808 original size:25 final size:24
Alignment explanation
Indices: 17463780--17463842 Score: 94
Period size: 22 Copynumber: 2.6 Consensus size: 24
17463770 ATTCTAGCGC
17463780 GCTCTCTGATTATTAGCACTTCAGT
1 GCTCTCTG-TTATTAGCACTTCAGT
17463805 GCTCTCTG-TA-TAGCACTTCAGT
1 GCTCTCTGTTATTAGCACTTCAGT
17463827 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
17463843 TGCATAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 20 0.57
23 3 0.09
24 1 0.03
25 11 0.31
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACTTCAGT
Found at i:17483533 original size:6 final size:6
Alignment explanation
Indices: 17483530--17483562 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
17483520 TGATTTTTAT
17483530 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
17483563 GTTCGGCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:17484381 original size:18 final size:18
Alignment explanation
Indices: 17484358--17484394 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17484348 TCATCATTAT
17484358 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
17484376 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
17484394 T
1 T
17484395 CTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:17487987 original size:38 final size:38
Alignment explanation
Indices: 17487930--17488005 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
17487920 AAGTAAGTAG
* * *
17487930 TTGGGACTTCAACTTGGGTGTTTGAATCGGAAAAGAAA
1 TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
*
17487968 TTGGGACTTCAGCTAGGGTGTTTAAACCGGAAAAGAAA
1 TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
17488006 ATGAAGCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (38 bp):
TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
Found at i:17498506 original size:29 final size:28
Alignment explanation
Indices: 17498437--17498506 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
17498427 AAATTCGAAT
* *
17498437 AAATTATAAAACTTATTTTTAAAAATTAA
1 AAATTATAAAAATTA-TTTGAAAAATTAA
* *
17498466 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTGAAAAA-T-TAA
17498495 AAATTATAAAAA
1 AAATTATAAAAA
17498507 AAAAGTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTGAAAAATTAA
Found at i:17501163 original size:18 final size:21
Alignment explanation
Indices: 17501129--17501187 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
17501119 TTATTTTCAC
17501129 AAATT-AAATACATTA-TTA-
1 AAATTAAAATACATTATTTAG
*
17501147 AAATTAAAATAGA-TATTTAG
1 AAATTAAAATACATTATTTAG
*
17501167 AAATAAAAATA-ATTATTTAG
1 AAATTAAAATACATTATTTAG
17501187 A
1 A
17501188 TTTAATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.20
19 10 0.29
20 18 0.51
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATTAAAATACATTATTTAG
Found at i:17506887 original size:29 final size:28
Alignment explanation
Indices: 17506818--17506887 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
17506808 AAATTCGAAT
* *
17506818 AAATTATAAAACTTATTTTTAAAAATTAA
1 AAATTATAAAAATTA-TTTGAAAAATTAA
* *
17506847 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTGAAAAA-T-TAA
17506876 AAATTATAAAAA
1 AAATTATAAAAA
17506888 AAAGTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTGAAAAATTAA
Found at i:17509543 original size:18 final size:21
Alignment explanation
Indices: 17509509--17509567 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
17509499 TTATTTTCAC
17509509 AAATT-AAATACATTA-TTA-
1 AAATTAAAATACATTATTTAG
*
17509527 AAATTAAAATAGA-TATTTAG
1 AAATTAAAATACATTATTTAG
*
17509547 AAATAAAAATA-ATTATTTAG
1 AAATTAAAATACATTATTTAG
17509567 A
1 A
17509568 TTTAATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.20
19 10 0.29
20 18 0.51
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATTAAAATACATTATTTAG
Found at i:17515270 original size:29 final size:28
Alignment explanation
Indices: 17515201--17515270 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
17515191 AAATTCGAAT
* *
17515201 AAATTATAAAACTTATTTTTAAAAATTAA
1 AAATTATAAAAATTA-TTTGAAAAATTAA
* *
17515230 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTGAAAAA-T-TAA
17515259 AAATTATAAAAA
1 AAATTATAAAAA
17515271 AAAGTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTGAAAAATTAA
Found at i:17517925 original size:18 final size:21
Alignment explanation
Indices: 17517891--17517949 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
17517881 TTATTTTCAC
17517891 AAATT-AAATACATTA-TTA-
1 AAATTAAAATACATTATTTAG
*
17517909 AAATTAAAATAGA-TATTTAG
1 AAATTAAAATACATTATTTAG
*
17517929 AAATAAAAATA-ATTATTTAG
1 AAATTAAAATACATTATTTAG
17517949 A
1 A
17517950 TTTAATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.20
19 10 0.29
20 18 0.51
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATTAAAATACATTATTTAG
Found at i:17523643 original size:20 final size:20
Alignment explanation
Indices: 17523620--17523658 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17523610 AAAAATCATT
**
17523620 AAAATTATTGAAAAAGTATA
1 AAAATTATAAAAAAAGTATA
17523640 AAAATTATAAAAAAAGTAT
1 AAAATTATAAAAAAAGTAT
17523659 TTTTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAAAAGTATA
Found at i:17523652 original size:29 final size:28
Alignment explanation
Indices: 17523583--17523652 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
17523573 AAATTCGAAT
* *
17523583 AAATTATAAAACTTATTTTTAAAAATTAA
1 AAATTATAAAAATTA-TTTGAAAAATTAA
* *
17523612 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTGAAAAA-T-TAA
17523641 AAATTATAAAAA
1 AAATTATAAAAA
17523653 AAGTATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTGAAAAATTAA
Found at i:17541747 original size:17 final size:16
Alignment explanation
Indices: 17541722--17541771 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
17541712 ATTTATATTT
*
17541722 TAATTATTATTAAATTA
1 TAATCATTA-TAAATTA
17541739 TAATCATTATAAATT-
1 TAATCATTATAAATTA
*
17541754 TAAAT-ATTATATATTA
1 T-AATCATTATAAATTA
17541770 TA
1 TA
17541772 TATTTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 11 0.38
16 10 0.34
17 8 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATCATTATAAATTA
Found at i:17541769 original size:22 final size:25
Alignment explanation
Indices: 17541735--17541782 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
17541725 TTATTATTAA
17541735 ATTATAATCATTATAAATTT-AAAT
1 ATTATAATCATTATAAATTTGAAAT
*
17541759 ATTAT-AT-ATTATATATTTGAAAT
1 ATTATAATCATTATAAATTTGAAAT
17541782 A
1 A
17541783 AATTTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 7 0.32
24 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTATAATCATTATAAATTTGAAAT
Found at i:17542406 original size:27 final size:25
Alignment explanation
Indices: 17542376--17542435 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
17542366 ATAGAGGGAG
17542376 AAGTAGAAGAGAAT-TAAAAAAAAAGAA
1 AAGTA-AA-AGAATATAAAAAAAAA-AA
*
17542403 AAGTTAAAAGAATATAAAAGAAAAAA
1 AAG-TAAAAGAATATAAAAAAAAAAA
17542429 AAGTAAA
1 AAGTAAA
17542436 TTGCTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 4 0.13
26 10 0.33
27 14 0.47
28 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (25 bp):
AAGTAAAAGAATATAAAAAAAAAAA
Found at i:17544378 original size:31 final size:33
Alignment explanation
Indices: 17544342--17544402 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
17544332 TTAAATTTTG
*
17544342 AGTTGGAGTTATTTTGAA-TATG-AATTTTCTT
1 AGTTGGAATTATTTTGAATTATGTAATTTTCTT
17544373 AGTTGGAATTATTTTGAATTATGTAATTTT
1 AGTTGGAATTATTTTGAATTATGTAATTTT
17544403 AGATCTTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 17 0.63
32 4 0.15
33 6 0.22
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (33 bp):
AGTTGGAATTATTTTGAATTATGTAATTTTCTT
Found at i:17545390 original size:24 final size:24
Alignment explanation
Indices: 17545350--17545401 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
17545340 CAAATAATTT
17545350 AAAAATATAAAATATTCAAAATAAA
1 AAAAATATAAAATATTCAAAA-AAA
17545375 AAAAAT-TATAAA-ATTCAAAAAAA
1 AAAAATATA-AAATATTCAAAAAAA
17545398 AAAA
1 AAAA
17545402 TGAAATACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.27
24 10 0.38
25 9 0.35
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (24 bp):
AAAAATATAAAATATTCAAAAAAA
Found at i:17558109 original size:92 final size:83
Alignment explanation
Indices: 17557931--17558112 Score: 204
Period size: 92 Copynumber: 2.1 Consensus size: 83
17557921 CTTAAGGGCG
* * *
17557931 TAAAAAACCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCTTGTTTTTTTCACTCAATTGGGTAC
1 TAAAAAACCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTTGTTTTTTTCACTCAATTGGATAC
* *
17557996 TTGAACTTTCAAAATGTA
66 TTGAACTTCCAAAATGCA
* *
17558014 TAAAAAAGGCCCTCAAACTCTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTTA
1 TAAAAAA--CCCTCAAACTCTTTC-AAAAAAAGCAATTAAG---C--CTTGTTTTTTT-CACTCA
17558079 ATTGGATACTTGAA-TTGCCAAAATGCA
57 ATTGGATACTTGAACTT-CCAAAATGCA
17558106 TAAAAAA
1 TAAAAAA
17558113 AACCCTTTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
83 7 0.09
85 14 0.17
86 15 0.18
89 1 0.01
91 12 0.15
92 33 0.40
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (83 bp):
TAAAAAACCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTTGTTTTTTTCACTCAATTGGATAC
TTGAACTTCCAAAATGCA
Found at i:17558311 original size:19 final size:19
Alignment explanation
Indices: 17558277--17558325 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
17558267 AAAATTTTAA
*
17558277 TAAAAA-TATAAAAAATATT
1 TAAAAATTAT-AAAAATAGT
17558296 TAAAAATTATAAAAATAGT
1 TAAAAATTATAAAAATAGT
*
17558315 AAAAAATTATA
1 TAAAAATTATA
17558326 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAATTATAAAAATAGT
Found at i:17558436 original size:20 final size:20
Alignment explanation
Indices: 17558411--17558463 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
17558401 AAGTTTTAAG
17558411 AAAATTATAAAAAATGTAAA
1 AAAATTATAAAAAATGTAAA
**
17558431 AAAATTATAAAATTTGTAAA
1 AAAATTATAAAAAATGTAAA
17558451 AAAATTATAAAAA
1 AAAATTATAAAAA
17558464 TTACCGTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAAATGTAAA
Found at i:17558441 original size:11 final size:11
Alignment explanation
Indices: 17558411--17558463 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
17558401 AAGTTTTAAG
17558411 AAAATTAT-AA
1 AAAATTATAAA
*
17558421 AAAA-TGTAAA
1 AAAATTATAAA
17558431 AAAATTAT--A
1 AAAATTATAAA
* *
17558440 AAATTTGTAAA
1 AAAATTATAAA
17558451 AAAATTATAAA
1 AAAATTATAAA
17558462 AA
1 AA
17558464 TTACCGTACC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 9 0.27
10 10 0.30
11 14 0.42
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:17558454 original size:66 final size:64
Alignment explanation
Indices: 17558258--17558455 Score: 177
Period size: 66 Copynumber: 3.0 Consensus size: 64
17558248 TAGAAGTAAT
* ** *
17558258 AAATTTTTTAAAATTTTAATAAAAATATAAAAAATATTTAAAAATTATAAAAATAGTAAAAAATT
1 AAATTTTTT-AAATTTTAATAAAATTATAAAAAAT-TAAAAAAATTATAAAATTAGTAAAAAA--
17558323 ATA
62 ATA
* * ** *
17558326 TATTTTTTTAAATTTT-ATAAAATCGTAAAAGAATTATAAAAGA-TATATAAATATAG-AAAAAA
1 AAATTTTTTAAATTTTAATAAAATTATAAAA-AATTA-AAAAAATTATA-AAAT-TAGTAAAAAA
17558388 ATA
62 ATA
* * *
17558391 AAATTTTATAAAGTTTTAAGAAAATTATAAAAAATGTAAAAAAATTATAAAATTTGTAAAAAAAT
1 AAATTTTTTAAA-TTTTAATAAAATTATAAAAAAT-TAAAAAAATTATAAAATTAGTAAAAAAAT
17558456 TATAAAAATT
Statistics
Matches: 104, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
65 14 0.13
66 40 0.38
67 40 0.38
68 10 0.10
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.36
Consensus pattern (64 bp):
AAATTTTTTAAATTTTAATAAAATTATAAAAAATTAAAAAAATTATAAAATTAGTAAAAAAATA
Found at i:17558705 original size:28 final size:28
Alignment explanation
Indices: 17558674--17558799 Score: 86
Period size: 28 Copynumber: 4.6 Consensus size: 28
17558664 AAAAATACAT
17558674 TTTTTTAATATTTTTTATGATTTTTATA
1 TTTTTTAATATTTTTTATGATTTTTATA
*
17558702 TTTTTT-CTAATTTTTTA--ATTTTTAATA
1 TTTTTTAAT-ATTTTTTATGATTTTT-ATA
* * *
17558729 TTTTATTAA-A-GTTTAATAATTTTTATA
1 TTTT-TTAATATTTTTTATGATTTTTATA
* ** *
17558756 ATTTTT-ATAAGTTTTATTGATTTTTATT
1 TTTTTTAATATTTTTTA-TGATTTTTATA
17558784 TTTTATTAAT-TTTTTT
1 TTTT-TTAATATTTTTT
17558800 GTCACATGTC
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
25 1 0.01
26 13 0.17
27 20 0.26
28 34 0.45
29 6 0.08
30 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (28 bp):
TTTTTTAATATTTTTTATGATTTTTATA
Found at i:17558772 original size:18 final size:18
Alignment explanation
Indices: 17558675--17558797 Score: 92
Period size: 18 Copynumber: 6.8 Consensus size: 18
17558665 AAAATACATT
* *
17558675 TTTTTAATATTTTTTATGA
1 TTTTT-ATAATTTTTATAA
* *
17558694 TTTTTATATTTTTTCTAA
1 TTTTTATAATTTTTATAA
*
17558712 TTTTT-TAATTTTTAATAT
1 TTTTTATAATTTTT-ATAA
* *
17558730 TTTATTA-AAGTTTAATAA
1 TTT-TTATAATTTTTATAA
17558748 TTTTTATAATTTTTATAA
1 TTTTTATAATTTTTATAA
* *
17558766 GTTTTATTGATTTTTAT--
1 TTTTTA-TAATTTTTATAA
17558783 TTTTTATTAATTTTT
1 TTTTTA-TAATTTTT
17558798 TTGTCACATG
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
17 23 0.27
18 41 0.48
19 21 0.25
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:17580873 original size:16 final size:16
Alignment explanation
Indices: 17580854--17580903 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
17580844 ATATTTAATC
17580854 ATATAATAAATTATTA
1 ATATAATAAATTATTA
17580870 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
17580883 ATTTAATAAAATATTTA
1 ATATAATAAATTA-TTA
17580900 ATAT
1 ATAT
17580904 TGTGATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
13 12 0.44
16 9 0.33
17 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:17580878 original size:29 final size:30
Alignment explanation
Indices: 17580846--17580903 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
17580836 ACATATTTAT
* *
17580846 ATTTAATCATATAATAAATTA-TTAATATA
1 ATTTAATAATATAATAAAATATTTAATATA
* *
17580875 ATTTATTAATTTAATAAAATATTTAATAT
1 ATTTAATAATATAATAAAATATTTAATAT
17580904 TGTGATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTTAATAATATAATAAAATATTTAATATA
Found at i:17580986 original size:21 final size:21
Alignment explanation
Indices: 17580945--17580986 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17580935 TAACAAAAAA
* *
17580945 TTAATATTTTAAGTAATATTC
1 TTAATAATTTAAGTAAAATTC
17580966 TTAATAATTTAA-TGAAAATTC
1 TTAATAATTTAAGT-AAAATTC
17580987 ATATTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
TTAATAATTTAAGTAAAATTC
Found at i:17581481 original size:16 final size:16
Alignment explanation
Indices: 17581459--17581527 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
17581449 TTTGGTTCGC
17581459 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17581475 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17581491 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
17581508 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17581524 TGTA
1 TGTA
17581528 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17581505 original size:33 final size:32
Alignment explanation
Indices: 17581459--17581527 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
17581449 TTTGGTTCGC
17581459 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
17581491 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
17581524 TGTA
1 TGTA
17581528 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:17581592 original size:44 final size:45
Alignment explanation
Indices: 17581508--17581598 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
17581498 GGATTAGAGG
* * *
17581508 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
17581553 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
17581597 TG
1 TG
17581599 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:17581784 original size:18 final size:17
Alignment explanation
Indices: 17581763--17581797 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17581753 TTATTATTAA
*
17581763 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17581781 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17581798 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17582074 original size:39 final size:39
Alignment explanation
Indices: 17582018--17582194 Score: 105
Period size: 39 Copynumber: 4.5 Consensus size: 39
17582008 TTTAATTAAA
*
17582018 ATATATAATTTAATGAAATTCTTAATTGGATAATATTCTT
1 ATAT-TAATTTACTGAAATTCTTAATTGGATAATATTCTT
* * ***
17582058 ATATTAATTTACTGAAA-TCATAATAT--ATGATACTGTAAA
1 ATATTAATTTACTGAAATTCTTAAT-TGGATAATA-T-TCTT
* * * ** * *
17582097 ATATAAATTAAC--ATAATTATT-ATTAAATATATTTTTTAAT
1 ATATTAATTTACTGA-AATTCTTAATTGGATA-ATATTCT--T
*
17582137 ATATATAATTTAATGAAATTCTTAATTGGATAATATTCTT
1 ATAT-TAATTTACTGAAATTCTTAATTGGATAATATTCTT
17582177 ATATTAATTTACTGAAAT
1 ATATTAATTTACTGAAAT
17582195 CATAATATAT
Statistics
Matches: 99, Mismatches: 24, Indels: 29
0.65 0.16 0.19
Matches are distributed among these distances:
37 7 0.07
38 12 0.12
39 42 0.42
40 15 0.15
41 5 0.05
42 11 0.11
43 7 0.07
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (39 bp):
ATATTAATTTACTGAAATTCTTAATTGGATAATATTCTT
Found at i:17582405 original size:358 final size:359
Alignment explanation
Indices: 17581746--17582524 Score: 1390
Period size: 358 Copynumber: 2.2 Consensus size: 359
17581736 ATCATATTTA
*
17581746 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-TAATTA
1 AACATAATTATTATTAAATATATTTT-ATTAAAATATATAATTTAATGAAATTCTTAATTAATTA
17581810 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAATATAAATTAACATAATTA
65 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAATATAAATTAACATAA-TA
17581875 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATA
129 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATA
17581940 TTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
194 TTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
17582005 TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTAC
259 TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTAC
*
17582070 TGAAATCATAATATATGATACTGTAAAATATAAATT
324 TCAAATCATAATATATGATACTGTAAAATATAAATT
* *
17582106 AACATAATTATTATTAAATATATTTT-TTAATATATATAATTTAATGAAATTCTTAATTGGA-TA
1 AACATAATTATTATTAAATATATTTTATTAAAATATATAATTTAATGAAATTCTTAATT-AATTA
17582169 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAA-A
65 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGT-AAATATAAATTAACATAATA
* *
17582233 -TATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTA
129 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-T-AATTAATATTCTTA
17582296 TATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
192 TATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
*
17582361 TATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTT
257 TATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTT
17582426 ACTCAAATCATAATATATGATACTGTAAAATATAAATT
322 ACTCAAATCATAATATATGATACTGTAAAATATAAATT
17582464 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTA
1 AACATAATTATTATTAAATATATTTT-ATTAAAATATATAATTTAATGAAATTCTTAATTA
17582525 TATAATAAAT
Statistics
Matches: 403, Mismatches: 9, Indels: 15
0.94 0.02 0.04
Matches are distributed among these distances:
357 46 0.11
358 233 0.58
359 48 0.12
360 76 0.19
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (359 bp):
AACATAATTATTATTAAATATATTTTATTAAAATATATAATTTAATGAAATTCTTAATTAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAATATAAATTAACATAATATT
ATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATT
AATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
TTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTACTC
AAATCATAATATATGATACTGTAAAATATAAATT
Found at i:17582531 original size:121 final size:121
Alignment explanation
Indices: 17581746--17582523 Score: 1405
Period size: 121 Copynumber: 6.5 Consensus size: 121
17581736 ATCATATTTA
* *
17581746 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
17581809 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGT-AAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17581865 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
17581928 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17581985 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
17582050 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17582106 AACATAATTATTATTAAATATATTTT--TTAATATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
17582169 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17582225 AACATAA--A-TATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
17582287 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17582343 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
*
17582408 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17582464 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATT
17582524 ATATAATAAA
Statistics
Matches: 644, Mismatches: 7, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
116 15 0.02
117 1 0.00
118 98 0.15
119 206 0.32
120 70 0.11
121 253 0.39
122 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:17585640 original size:33 final size:33
Alignment explanation
Indices: 17585601--17585676 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
17585591 ATTATAAAGC
*
17585601 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
17585634 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
17585667 ATGTATAATT
1 ATGTATAATT
17585677 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:17585752 original size:37 final size:37
Alignment explanation
Indices: 17585711--17585792 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
17585701 TTTGTTAAGT
* * *
17585711 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
17585748 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
17585785 ATTGATTA
1 ATTGATTA
17585793 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:17594994 original size:11 final size:11
Alignment explanation
Indices: 17594978--17595004 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17594968 TAGAAATTAG
17594978 TTTGTGAAACT
1 TTTGTGAAACT
17594989 TTTGTGAAACT
1 TTTGTGAAACT
17595000 TTTGT
1 TTTGT
17595005 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:17596537 original size:92 final size:92
Alignment explanation
Indices: 17596401--17596594 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
17596391 TTGATTTTAG
* *
17596401 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
17596465 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
17596492 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
17596557 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
17596585 CAAATTCATA
1 TAAATTCATA
17596595 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:17596642 original size:48 final size:52
Alignment explanation
Indices: 17596572--17596670 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
17596562 AATAATTATT
17596572 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
17596620 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
17596671 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:17596652 original size:17 final size:17
Alignment explanation
Indices: 17596627--17596660 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17596617 ATAATTTTAA
*
17596627 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
17596644 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
17596661 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:17596677 original size:17 final size:16
Alignment explanation
Indices: 17596632--17596679 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
17596622 TTTAAATTTT
17596632 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
17596649 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
17596663 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
17596680 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:17596751 original size:18 final size:17
Alignment explanation
Indices: 17596720--17596754 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17596710 ATTATTAAGA
17596720 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
17596737 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
17596755 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:17596820 original size:129 final size:130
Alignment explanation
Indices: 17596667--17596900 Score: 416
Period size: 129 Copynumber: 1.8 Consensus size: 130
17596657 ATATTAGTTA
*
17596667 TAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* *
17596732 TATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
66 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
*
17596797 TAATAATA-ATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
17596861 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTT
66 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT
17596901 TAAATATGAT
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
129 92 0.93
130 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (130 bp):
TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
Found at i:17596877 original size:18 final size:17
Alignment explanation
Indices: 17596849--17596883 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17596839 ATTATTAAGA
*
17596849 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17596866 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17596884 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17597004 original size:124 final size:127
Alignment explanation
Indices: 17596858--17597088 Score: 396
Period size: 124 Copynumber: 1.8 Consensus size: 127
17596848 AATTTTATTA
* *
17596858 AATTATATATTTTAATTAAAATATATTTAATAGTAATTATGTTTAAATATGATTAAATTATTTAT
1 AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
17596923 TATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTACCAAAACAAATTTCTGCT
66 TATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTACCAAAACAAATTTCTGCT
17596982 AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
1 AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
*
17597047 TTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 TATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
17597089 CAATAATCAT
Statistics
Matches: 99, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
124 69 0.70
125 2 0.02
128 23 0.23
129 5 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (127 bp):
AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
TATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTACCAAAACAAATTTCTGCT
Found at i:17597218 original size:44 final size:45
Alignment explanation
Indices: 17597169--17597263 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
17597159 TTACACCTCT
* *
17597169 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
17597213 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
17597258 ATTACA
1 ATTACA
17597264 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:17597263 original size:16 final size:16
Alignment explanation
Indices: 17597244--17597311 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
17597234 GATTTGCTAT
* *
17597244 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
17597260 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17597276 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17597292 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17597308 TACA
1 TACA
17597312 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:17599608 original size:30 final size:30
Alignment explanation
Indices: 17599572--17599630 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
17599562 TGTAGTTACA
*
17599572 CATTTTCTTCATTACCTCTTCCACAAAACC
1 CATTTTCTTCATTACCTCCTCCACAAAACC
17599602 CATTTTCTTCATTACCTCCTCCACAAAAC
1 CATTTTCTTCATTACCTCCTCCACAAAAC
17599631 TTCATTCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.36
Consensus pattern (30 bp):
CATTTTCTTCATTACCTCCTCCACAAAACC
Found at i:17607885 original size:16 final size:16
Alignment explanation
Indices: 17607853--17607882 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17607843 AACAGTTTAA
17607853 AAAATAATAGTATAAT
1 AAAATAATAGTATAAT
17607869 AAAATAATA-TATAA
1 AAAATAATAGTATAA
17607883 ATAGGTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAATAATAGTATAAT
Found at i:17608237 original size:38 final size:38
Alignment explanation
Indices: 17608186--17608261 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
17608176 AAAAGGGACT
*
17608186 TAGCATGCAAATATCCCCTCCCCTACCAAGATGCGCGG
1 TAGCATGCAAATATCCCCTCCCCTACCAAGACGCGCGG
17608224 TAGCATGCAAATATCCCCTCCCCTACCAAGACGCGCGG
1 TAGCATGCAAATATCCCCTCCCCTACCAAGACGCGCGG
17608262 ATCAAGCCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.17
Consensus pattern (38 bp):
TAGCATGCAAATATCCCCTCCCCTACCAAGACGCGCGG
Found at i:17609689 original size:129 final size:129
Alignment explanation
Indices: 17609458--17609719 Score: 348
Period size: 129 Copynumber: 2.0 Consensus size: 129
17609448 TCTAGTCGGC
* * ** * * *
17609458 AAGACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATACGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACCTTAATCCGCTC
* * * *
17609523 CACTACAACTTCAGGAAGGTAGGATTATCGACCTCAATCTGCTCCACTGCAATCTGAGGGAGAT
66 CACTACAACTTCAGGAAGATAGGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
* *
17609587 AAGACCTGATACGATCCACTCTATTGCAACTTCAAAGAGGTAAGATCTATTACCTTAATCCG-TC
1 AAGACCTGATACGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACCTTAATCCGCT-
* * *
17609651 CCACTACAACTTTA-GAGAGATAGGATTATCGGCTTCAATCTGCTACACTGCAACCTCAGGGAGA
65 CCACTACAACTTCAGGA-AGATAGGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGA
17609715 T
129 T
17609716 AAGA
1 AAGA
17609720 TTTGCTTCTT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
128 3 0.03
129 112 0.97
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (129 bp):
AAGACCTGATACGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACCTTAATCCGCTC
CACTACAACTTCAGGAAGATAGGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
Found at i:17609731 original size:44 final size:43
Alignment explanation
Indices: 17609683--17609808 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 43
17609673 GGATTATCGG
* * *
17609683 CTTCAATCTG-CTACACTGCAACCTCAGGGAGATAAGATTTGCTT
1 CTTCAGTCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTG-TT
** *
17609727 CTTCAGTCTGCCTCACTGTGACTTCAGGGGGATAAGACTTGTT
1 CTTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGTT
* * *
17609770 TTCTCAGTC-GTCTCCGCTGCAACTTCAGGGAGATAAGAC
1 CT-TCAGTCTGCCT-CACTGCAACTTCAGGGAGATAAGAC
17609809 CCGATGCGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 6 0.09
44 59 0.88
45 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (43 bp):
CTTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGTT
Found at i:17610112 original size:87 final size:87
Alignment explanation
Indices: 17609988--17610250 Score: 409
Period size: 87 Copynumber: 3.0 Consensus size: 87
17609978 ACTTGTAATC
* * * * *
17609988 TTCGATCTGCTTCACTGTCGACGTAAGAATGCAAGATCTACTATCTTTAACCAGCTCCACTAAAA
1 TTCGATCTGCTTCACTGTCAACGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
17610053 CCAATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
17610075 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCAACTACAA
1 TTCGATCTGCTTCACTGTCAACGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
17610140 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
*
17610162 TTCGATCTGCTTCACTGTCAACGTAGGAAGGCAAGATCTGCTATTTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
17610227 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
17610249 TT
1 TT
17610251 TTATCTTCAC
Statistics
Matches: 158, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTCAACGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:17610239 original size:44 final size:44
Alignment explanation
Indices: 17610103--17610240 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
17610093 TAACGCAGGA
* *
17610103 AGGCAAGATCTGCTATCTTTAACCAGCTCAACTACAACCGATGG
1 AGGCAAGATCTGCTATTTTTAACCAGCTCCACTACAACCGATGG
* * ** * * * *
17610147 AGGCAAG-GCT-TTATTTTCGATCTGCTTCACTGTCAA-CG-TAGG
1 AGGCAAGATCTGCTATTTTTAACCAGCTCCACT-ACAACCGAT-GG
17610189 AAGGCAAGATCTGCTATTTTTAACCAGCTCCACTACAACCGATGG
1 -AGGCAAGATCTGCTATTTTTAACCAGCTCCACTACAACCGATGG
17610234 AGGCAAG
1 AGGCAAG
17610241 GTTTTGTTTT
Statistics
Matches: 69, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
41 1 0.01
42 17 0.25
43 12 0.17
44 19 0.28
45 19 0.28
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAACCAGCTCCACTACAACCGATGG
Found at i:17611921 original size:27 final size:27
Alignment explanation
Indices: 17611873--17611933 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
17611863 TTAACTTTAA
17611873 TTGA-TTTCTCTTTTTTGCTTTTGACT
1 TTGATTTTCTCTTTTTTGCTTTTGACT
* * * *
17611899 TTGATTTTTTCTTTTTTGTTTTTTATT
1 TTGATTTTCTCTTTTTTGCTTTTGACT
17611926 TTGATTTT
1 TTGATTTT
17611934 GACCTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.74
Consensus pattern (27 bp):
TTGATTTTCTCTTTTTTGCTTTTGACT
Found at i:17611941 original size:27 final size:27
Alignment explanation
Indices: 17611884--17611946 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
17611874 TGATTTCTCT
* ** *
17611884 TTTTTGCTTTTGACTTTGATTTTTTCT
1 TTTTTGTTTTTGACTTTGATTTTGACC
* *
17611911 TTTTTGTTTTTTATTTTGATTTTGACC
1 TTTTTGTTTTTGACTTTGATTTTGACC
17611938 TTTTT-TTTT
1 TTTTTGTTTT
17611947 GAATCTGAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.75
Consensus pattern (27 bp):
TTTTTGTTTTTGACTTTGATTTTGACC
Found at i:17618721 original size:13 final size:13
Alignment explanation
Indices: 17618703--17618728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17618693 TTTTATTTAT
17618703 TTATTCCCACCGG
1 TTATTCCCACCGG
17618716 TTATTCCCACCGG
1 TTATTCCCACCGG
17618729 CTCGATGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTCCCACCGG
Found at i:17624101 original size:49 final size:49
Alignment explanation
Indices: 17624048--17624151 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
17624038 TCATGTGTTA
* * * *
17624048 TAATTTTATACAGTGTTGAATTTTTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCAACTTTTGATTCATGATATTAAACTCAATTT
* *
17624097 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCAACTTTTGATTCATGATATTAAACTCAATTT
17624146 TAATTT
1 TAATTT
17624152 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCAACTTTTGATTCATGATATTAAACTCAATTT
Found at i:17625654 original size:18 final size:18
Alignment explanation
Indices: 17625633--17625767 Score: 99
Period size: 18 Copynumber: 7.9 Consensus size: 18
17625623 ATACTAAAAA
17625633 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
17625651 TTTTATTAAA--ATATA-
1 TTTTATTAAATTATATAT
* *
17625666 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * * *
17625681 TTTAAATTATATTTTATAG
1 TTT-TATTAAATTATATAT
* * *
17625700 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
17625715 TTTTAGTAAATTCATATAT
1 TTTTATTAAATT-ATATAT
17625734 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
17625752 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
17625768 TTAATAATAA
Statistics
Matches: 91, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
13 2 0.02
14 7 0.08
15 6 0.07
16 13 0.14
17 11 0.12
18 37 0.41
19 15 0.16
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:17625740 original size:59 final size:58
Alignment explanation
Indices: 17625553--17625749 Score: 177
Period size: 59 Copynumber: 3.3 Consensus size: 58
17625543 ATTATATTTA
17625553 ATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
1 ATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
* * * * * * ** * * *
17625612 A-AGAATATTTAATACTAAAAATTTTATTA-AATTATATATTTTTATTAAAATATATTTA-AT
1 ATA-ATTATTTAA-A-T-TATATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCATAT
17625672 AATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
1 -ATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
**
17625732 ATTTTTA-TTAAATTATAT
1 ATAATTATTTAAATTATAT
17625750 ATTTTTATTA
Statistics
Matches: 104, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 38 0.37
60 6 0.06
61 33 0.32
62 8 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
ATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
Found at i:17626021 original size:16 final size:16
Alignment explanation
Indices: 17626000--17626035 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
17625990 ATGATTACCT
17626000 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
17626016 ATTACGCCTCTATTTC
1 ATTACGCCTCTATTCC
17626032 ATTA
1 ATTA
17626036 AAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:17628826 original size:68 final size:69
Alignment explanation
Indices: 17628741--17628876 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
17628731 TTCCCTTGCT
* *
17628741 GTTGATTTCATGTTCTTTT-CTGATTTTTATTTCAG-TTTT-TATGTCATTAAATACTGGTTTAA
1 GTTGATTTCATGCTCTTTTCCT-A-ATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAA
17628803 GTTGAA
64 GTTGAA
* * *
17628809 GTTGATTTCATGCTCTTTTCCTAATTTATTTCTGTTTTTATATGTCATTAAATATTTGTTTAAGT
1 GTTGATTTCATGCTCTTTTCCTAATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAAGT
17628874 TGA
66 TGA
17628877 CATTATTGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
67 9 0.15
68 23 0.38
69 28 0.47
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.55
Consensus pattern (69 bp):
GTTGATTTCATGCTCTTTTCCTAATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAAGT
TGAA
Found at i:17633861 original size:20 final size:20
Alignment explanation
Indices: 17633836--17633885 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
17633826 ACTTACAAGA
*
17633836 TGTATGGGTAGAAGTGGACT
1 TGTATGGGTAGAAATGGACT
17633856 TGTATGGGTAGAAATGGACT
1 TGTATGGGTAGAAATGGACT
*
17633876 TGTATCGGTA
1 TGTATGGGTA
17633886 TAACTAGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.06, G:0.36, T:0.32
Consensus pattern (20 bp):
TGTATGGGTAGAAATGGACT
Found at i:17635165 original size:28 final size:26
Alignment explanation
Indices: 17635130--17635206 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 26
17635120 AAAAATAAAA
17635130 AATAAAAAATATAAAAAAATTAAATTTT
1 AATAAAAAAT-TAAAAAAATTAAA-TTT
*
17635158 AATAAAAAATTTAAAAAATTTTAAATTT
1 AATAAAAAA-TTAAAAAA-ATTAAATTT
*
17635186 -ATTAAAAATTAGAAAAAATTA
1 AATAAAAAATTA-AAAAAATTA
17635207 GAAAAATTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 6 0.14
27 12 0.28
28 19 0.44
29 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (26 bp):
AATAAAAAATTAAAAAAATTAAATTT
Found at i:17635195 original size:27 final size:29
Alignment explanation
Indices: 17635130--17635193 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
17635120 AAAAATAAAA
* *
17635130 AATAAAAAATATAAAAAA-ATTAAATTTT
1 AATAAAAAATTTAAAAAATTTTAAATTTT
17635158 AATAAAAAATTTAAAAAATTTTAAA-TTT
1 AATAAAAAATTTAAAAAATTTTAAATTTT
*
17635186 ATTAAAAA
1 AATAAAAA
17635194 TTAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 27 0.84
29 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AATAAAAAATTTAAAAAATTTTAAATTTT
Found at i:17635320 original size:19 final size:20
Alignment explanation
Indices: 17635276--17635326 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
17635266 AAGCCGTAAG
* *
17635276 AAAATTATAAAATATTGTAA
1 AAAAATATAAAATATTATAA
*
17635296 AGAAATATAAAAT-TTATAA
1 AAAAATATAAAATATTATAA
17635315 AAAAATATAAAA
1 AAAAATATAAAA
17635327 AATATCGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATATAAAATATTATAA
Found at i:17653909 original size:19 final size:18
Alignment explanation
Indices: 17653872--17653910 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
17653862 AATTTGAAAC
**
17653872 AAAACATAAATTTTTGGA
1 AAAACATAAATTTCGGGA
17653890 AAAACATGAAATTTCGGGA
1 AAAACAT-AAATTTCGGGA
17653909 AA
1 AA
17653911 CTGGGTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAACATAAATTTCGGGA
Found at i:17659261 original size:40 final size:40
Alignment explanation
Indices: 17659215--17659292 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
17659205 TACTTATCGG
17659215 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
1 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
17659255 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATAT
1 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATAT
17659293 CTGTCGATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (40 bp):
ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
Found at i:17667812 original size:26 final size:27
Alignment explanation
Indices: 17667732--17667830 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
17667722 CCCTTATAGG
*
17667732 GTAAAATTATCGAAATACCCCTAGTTT
1 GTAAAATTATCGAAATACCCCCAGTTT
*
17667759 GTAAAATTATCGAAATACCCTC-GATTT
1 GTAAAATTATCGAAATACCCCCAG-TTT
* *
17667786 GTGAAATTATTG-AATACCCCCAGTTT
1 GTAAAATTATCGAAATACCCCCAGTTT
* * *
17667812 GCAAAATTACCAAAATACC
1 GTAAAATTATCGAAATACC
17667831 TCTGTAGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 19 0.32
27 40 0.68
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCCCAGTTT
Found at i:17669438 original size:37 final size:37
Alignment explanation
Indices: 17669382--17669587 Score: 265
Period size: 37 Copynumber: 5.6 Consensus size: 37
17669372 CTTAGTGTTG
* * * *
17669382 TGGCGTGTAATCAATTGGATTAGATCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
17669419 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* *
17669456 TGGCGTGTTTTCGAGTAGATTAGCTCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
17669493 TGGCGTGCTATCTAGTGGATTAGCTCTTATGAACATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
17669530 TGGCATGTTATTGGGTGGATTAGCTCTTATGAGCGA-T
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGC-ATT
17669567 TGGCGTGTT-TCG-GTTGGATTA
1 TGGCGTGTTATCGAG-TGGATTA
17669588 CTTGTGTACT
Statistics
Matches: 148, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
35 1 0.01
36 9 0.06
37 137 0.93
38 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.39
Consensus pattern (37 bp):
TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
Found at i:17674283 original size:41 final size:41
Alignment explanation
Indices: 17674222--17674335 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
17674212 TTAATTTAAA
* * *
17674222 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
17674264 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
17674305 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
17674336 AAGTCTGAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
41 62 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:17681931 original size:41 final size:41
Alignment explanation
Indices: 17681870--17681983 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
17681860 TTAATTTAAA
* * *
17681870 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
17681912 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
17681953 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
17681984 AAGTCTGAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
41 62 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:17684138 original size:120 final size:120
Alignment explanation
Indices: 17683925--17684164 Score: 453
Period size: 120 Copynumber: 2.0 Consensus size: 120
17683915 CTTGTACATA
17683925 TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
1 TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
17683990 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
66 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
* * *
17684045 TTTTCATGTTGTGATATGTTAGTCTGGTTTACATCTTACTGGAGGCTACACTATGAGTATTCTCA
1 TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
17684110 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
66 TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
17684165 GTGATTTTTC
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (120 bp):
TTTTCATGTTGTGATATGTTAGTCTGCTTTACATCTTACTAGAGGCTACACCATGAGTATTCTCA
TTGTCATATGATGCCATGGGTCTCTAACACATGTTCTTACATATATTTTCATATC
Found at i:17689490 original size:22 final size:22
Alignment explanation
Indices: 17689465--17689541 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
17689455 CCAAAATATT
17689465 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
17689487 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
17689511 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
17689533 ATCTCCTAA
1 ATCTCCTAA
17689542 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:17689504 original size:46 final size:46
Alignment explanation
Indices: 17689452--17689546 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
17689442 ACAAAGATAG
17689452 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
17689498 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
17689544 AAA
1 AAA
17689547 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:17694060 original size:22 final size:22
Alignment explanation
Indices: 17694035--17694111 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
17694025 CCAAAATATT
17694035 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
17694057 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
17694081 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
17694103 ATCTCCTAA
1 ATCTCCTAA
17694112 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:17694074 original size:46 final size:46
Alignment explanation
Indices: 17694022--17694116 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
17694012 ACAAAGATAG
17694022 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
17694068 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
17694114 AAA
1 AAA
17694117 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:17700940 original size:29 final size:29
Alignment explanation
Indices: 17700878--17700972 Score: 167
Period size: 29 Copynumber: 3.3 Consensus size: 29
17700868 AAAAATAAAA
17700878 ATTTACCAAAATATTACAAC-TTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTTT
17700906 ATTTACCAAAATATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTTT
17700935 ATTTACCAAAATATATA-AACTTTTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTTTT
17700964 ATTTACCAA
1 ATTTACCAA
17700973 TGCCATTGGC
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
28 20 0.31
29 43 0.66
30 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTTACCAAAATATTACAACTTTTTTTTT
Found at i:17701521 original size:19 final size:18
Alignment explanation
Indices: 17701497--17701557 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
17701487 TCTAATTAAG
17701497 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
17701516 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
* *
17701534 TAATAACTATATTTTAAAT
1 TAATAA-TCTATTTTAATT
17701553 TAATA
1 TAATA
17701558 GAAATATCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:17701526 original size:18 final size:18
Alignment explanation
Indices: 17701505--17701557 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
17701495 AGTAATAATT
17701505 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
17701523 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
*
17701540 CTATATTTTAAATTAATA
1 C--TATTTTAATTTAATA
17701558 GAAATATCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:17702108 original size:25 final size:27
Alignment explanation
Indices: 17702044--17702108 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 27
17702034 TCAAAAATTA
17702044 AAAAAAATTAAAATTAAAAATATTTTT
1 AAAAAAATTAAAATTAAAAATATTTTT
* *
17702071 --AAAAATTCCAAAATT-TATAT-TTTTT
1 AAAAAAATT--AAAATTAAAAATATTTTT
17702096 AAAAAAATTAAAA
1 AAAAAAATTAAAA
17702109 AATTTTAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
25 16 0.50
26 3 0.09
27 13 0.41
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAAAATTAAAATTAAAAATATTTTT
Found at i:17702649 original size:2 final size:2
Alignment explanation
Indices: 17702642--17702670 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17702632 CAATTCATTT
17702642 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17702671 TATTTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17702953 original size:17 final size:18
Alignment explanation
Indices: 17702931--17702965 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17702921 TTGCACATTG
*
17702931 TGTAA-TTTGGTTTTCTT
1 TGTAATTTTGCTTTTCTT
17702948 TGTAATTTTGCTTTTCTT
1 TGTAATTTTGCTTTTCTT
17702966 CATGACCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.11, C:0.09, G:0.14, T:0.66
Consensus pattern (18 bp):
TGTAATTTTGCTTTTCTT
Found at i:17706938 original size:3 final size:3
Alignment explanation
Indices: 17706928--17706973 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
17706918 TTTTAAATAA
* * *
17706928 TAT T-T TAT TAT TAT TGT TAT TAT TAA TAT TAT TGT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17706974 GAAATAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:17707393 original size:41 final size:40
Alignment explanation
Indices: 17707298--17707433 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
17707288 AATTTATTTT
* * * *
17707298 AAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAATATT
1 AAAAAATAAAAAAAAAATT-AAAAAAGTATTTTAAAATTA-A
** *
17707340 TTAAAAT-TAAAAAAAATTAAAAAAGTATTTTAAAATTTAA
1 AAAAAATAAAAAAAAAATTAAAAAAGTATTTTAAAA-TTAA
** ** **
17707380 AAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAA
1 AAAAAATAAAAAAAAAATTAAAAAAGTATTTTAAAATTAA
17707420 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
17707434 TAAAAATATT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 36 0.49
41 34 0.46
42 4 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (40 bp):
AAAAAATAAAAAAAAAATTAAAAAAGTATTTTAAAATTAA
Found at i:17707404 original size:11 final size:11
Alignment explanation
Indices: 17707390--17707415 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17707380 AAAATTTAAA
17707390 AAAAGTATTTT
1 AAAAGTATTTT
17707401 AAAAGTATTTT
1 AAAAGTATTTT
17707412 AAAA
1 AAAA
17707416 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:17707422 original size:30 final size:28
Alignment explanation
Indices: 17707331--17707423 Score: 107
Period size: 30 Copynumber: 3.2 Consensus size: 28
17707321 AAAGTATTTT
*
17707331 AAAAA-TATTTTAAAATTAAAAAAAATTA
1 AAAAAGTATTTTAAAATT-TAAAAAATTA
17707359 AAAAAGTATTTTAAAATTTAAAAAATTTAA
1 AAAAAGTATTTTAAAATTTAAAAAA-TT-A
**
17707389 AAAAAGTATTTTAAAAGTATTTTAAAATTA
1 AAAAAGTATTTTAAAA-T-TTAAAAAATTA
17707419 AAAAA
1 AAAAA
17707424 AATAAAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
28 11 0.19
29 14 0.25
30 23 0.40
31 3 0.05
32 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAAAGTATTTTAAAATTTAAAAAATTA
Found at i:17712166 original size:4 final size:4
Alignment explanation
Indices: 17712157--17712217 Score: 63
Period size: 4 Copynumber: 15.8 Consensus size: 4
17712147 AAGACAAGAG
* * * *
17712157 ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT AC-- ACAC ACAC ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
17712203 ACAC ACAT ACAT ACA
1 ACAT ACAT ACAT ACA
17712218 CTAGCAATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
4 50 0.96
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.16
Consensus pattern (4 bp):
ACAT
Found at i:17721295 original size:98 final size:98
Alignment explanation
Indices: 17721172--17721364 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
17721162 TAAAATTATG
* *
17721172 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
17721237 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
* * *
17721270 AAGGAAATATTCTGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
17721335 AAATCTTGGATGAGTGGATGTTCTTTTAAA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAA
17721365 GTTTTATTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
Found at i:17726147 original size:25 final size:25
Alignment explanation
Indices: 17726116--17726163 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
17726106 AGAAGGAGAT
*
17726116 AGAAAAAAGGTAGGAAAGAAGAAGG
1 AGAAAAAAGGCAGGAAAGAAGAAGG
17726141 AGAAAAAAGGCAGGAAAGAAGAA
1 AGAAAAAAGGCAGGAAAGAAGAA
17726164 TGGCGCGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.33, T:0.02
Consensus pattern (25 bp):
AGAAAAAAGGCAGGAAAGAAGAAGG
Found at i:17731627 original size:44 final size:45
Alignment explanation
Indices: 17731568--17731689 Score: 162
Period size: 45 Copynumber: 2.7 Consensus size: 45
17731558 GATCGCATCT
17731568 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCA
*
17731612 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCA
* *
17731657 AATCTTCTCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
17731690 TTAAAGCCGG
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
43 3 0.04
44 30 0.43
45 32 0.46
46 4 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
Found at i:17731681 original size:45 final size:44
Alignment explanation
Indices: 17731407--17731689 Score: 171
Period size: 44 Copynumber: 6.5 Consensus size: 44
17731397 TCTTATTCTT
* *
17731407 CTGAAGTTGTAGTGGGGCAGACTGAAG-ATAG-AAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCAAA-TCTTATCTCC
* * *
17731452 CTGAAGTTGCAGTGGAGCAG-TTCAA--AACCAATAATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACT-AAGTAAGC-A-AATCTTATCTCC
* * * * * **
17731496 CTGAAGTTGCGGTGGAGCAGATTAA--AATCTCAGATCTTGTCTTT
1 CTGAAGTTGCAGTGGAGCAGACTAAGTAA--GCAAATCTTATCTCC
* * * * * *
17731540 CTGAAGTTGCAGAGGA-CAGA-T-CG-CATCTAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCTCC
*
17731580 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTC
1 CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCTC-C
* *
17731624 CTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTCTCTCC
1 CTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAATCTTATCTCC
17731669 CTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTGGAGCAGA
17731690 TTAAAGCCGG
Statistics
Matches: 190, Mismatches: 31, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
40 24 0.13
41 4 0.02
42 4 0.02
43 9 0.05
44 90 0.47
45 55 0.29
46 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCTCC
Found at i:17731750 original size:217 final size:212
Alignment explanation
Indices: 17731393--17731923 Score: 617
Period size: 217 Copynumber: 2.5 Consensus size: 212
17731383 TCGAAAATTA
* *
17731393 CAAGTCTTATTCTTCTGAAGTTGTAGTGGGGCAGACTGAAGATAG-AAAGTCTTATCTCCCTGAA
1 CAAGTCTTA-TCTCCTGAAGTTGCAGT-GGGCAGACTGAAGAT-GCAAA-TCTTATCTCCCTGAA
* * * * *
17731457 GTTGCAGTGGAGCAG-TTCAAAACCAATAATCCTATCTCCCTGAAGTTGCGGTGGAGCAGATTAA
62 GTTGCAGTGGAGCAGATT-AAAGCCGATAATCCTATCTCACTGAAGTGGCAGTGGAGCAGATTAA
* * * * * *
17731521 AATCTCAGATCTTGTCTTTCTGAAGTTGCAGAGGACAGATCGCATCTAGTCTTATCTCCCTGAAG
126 AATCTCAGATCTTATCTCTCTGAAGTGGCAGAGGACAGATCGCATCCAATCCTATCTCCCTGAAG
17731586 TTGCAGTGGAGCAGACTAAGTAAG
191 TTGCAGTGGAGCAGACTAA--AAG
*
17731610 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTCTCTCCCTGAAG
1 CAAGTCTTAT-CTCCTGAAGTTGCAGTG-GGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAG
* * * *
17731675 TTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAA
63 TTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCACTGAAGTGGCAGTGGAGCAGATTAAAA
*
17731739 TCTCAAGATCTTATCTCTCTGAAGTGGCAGAGGGCAGATCGCATCCAATCCTATCTCCCTGAAGT
128 TCTC-AGATCTTATCTCTCTGAAGTGGCAGAGGACAGATCGCATCCAATCCTATCTCCCTGAAGT
* * *
17731804 TGCAGTGGAGCGGATTAAAAT
192 TGCAGTGGAGCAGACTAAAAG
* * ** * * *
17731825 CTCAGATCTTATCTCTCTAAAGTTGCAAAGGGCAGA-TCG--CAT-CTAATCCTATCTCCCTGAA
1 C-AAG-TCTTATCTC-CTGAAGTTGCAGTGGGCAGACT-GAAGATGCAAATCTTATCTCCCTGAA
17731886 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
62 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
17731924 CCTAAGTAGT
Statistics
Matches: 273, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
212 53 0.19
214 2 0.01
215 4 0.01
216 27 0.10
217 182 0.67
218 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (212 bp):
CAAGTCTTATCTCCTGAAGTTGCAGTGGGCAGACTGAAGATGCAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAGCCGATAATCCTATCTCACTGAAGTGGCAGTGGAGCAGATTAAAATCT
CAGATCTTATCTCTCTGAAGTGGCAGAGGACAGATCGCATCCAATCCTATCTCCCTGAAGTTGCA
GTGGAGCAGACTAAAAG
Found at i:17731801 original size:40 final size:41
Alignment explanation
Indices: 17731750--17731902 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 41
17731740 CTCAAGATCT
* *
17731750 TATCTCTCTGAAGTGGCAGAGG-GCAGATCGCATCCAATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATCGCATCCAATCC
* * *** *
17731790 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGA-TCGCATC-CA-ATCC
* * * *
17731834 TATCTCTCTAAAGTTGCAAAGG-GCAGATCGCATCTAATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATCGCATCCAATCC
*
17731874 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGAT
17731903 TAAAGCCGAT
Statistics
Matches: 86, Mismatches: 22, Indels: 9
0.74 0.19 0.08
Matches are distributed among these distances:
40 40 0.47
41 11 0.13
42 8 0.09
43 6 0.07
44 21 0.24
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGAGGAGCAGATCGCATCCAATCC
Found at i:17731801 original size:84 final size:84
Alignment explanation
Indices: 17731701--17731906 Score: 306
Period size: 84 Copynumber: 2.5 Consensus size: 84
17731691 TAAAGCCGGT
* * * *
17731701 AATCCTATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAATCTCAAGATCTTATCTCTCTGAAGTG
1 AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAAATCTC-AGATCTTATCTCTCTAAAGTG
*
17731765 GCAGAGGGCAGATCGCATCC
65 GCAAAGGGCAGATCGCATCC
* *
17731785 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTAAAGTGG
*
17731850 CAAAGGGCAGATCGCATCT
66 CAAAGGGCAGATCGCATCC
* *
17731869 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAA
17731907 GCCGATAATC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 98 0.88
85 14 0.12
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (84 bp):
AATCCTATCTCCCTGAAGTGGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTAAAGTGG
CAAAGGGCAGATCGCATCC
Found at i:17731848 original size:44 final size:43
Alignment explanation
Indices: 17731442--17731906 Score: 287
Period size: 44 Copynumber: 10.8 Consensus size: 43
17731432 AGATAGAAAG
*
17731442 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-TTCAAAA-CCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAATCC-A-GA
* *
17731486 TCCTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAATCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-CAGA
* ** * *** *
17731530 TCTTGTCTTTCTGAAGTTGCAGAGGA-CAGA-TCGCATCTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCCAGA
* * *
17731570 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCCAGA
* * * *
17731614 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT-CCAGA
* * *
17731659 TCTTCTCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCCAG--A
* * * * * *
17731703 TCCTATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAATCTCAAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-C-AGA
* * * ***
17731747 TCTTATCTCTCTGAAGTGGCAGAGG-GCAGA-TCGCATCCA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCCAGA
* *
17731787 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-CAGA
* * ** *** *
17731831 TCTTATCTCTCTAAAGTTGCAAAGG-GCAGA-TCGCATCTA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCCAGA
*
17731871 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
17731907 GCCGATAATC
Statistics
Matches: 316, Mismatches: 80, Indels: 52
0.71 0.18 0.12
Matches are distributed among these distances:
40 65 0.21
41 17 0.05
42 16 0.05
43 25 0.08
44 156 0.49
45 32 0.10
46 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCCAGA
Found at i:17731945 original size:84 final size:83
Alignment explanation
Indices: 17731701--17731932 Score: 238
Period size: 84 Copynumber: 2.8 Consensus size: 83
17731691 TAAAGCCGGT
* * * * * * * * * *
17731701 AATCCTATCTCACTGAAGTGGTAGTGG-GCGGTTTAAAATCTCAAGATCTTATCTCTCTGAAGTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCTCAA-ATCCTATCTCCCTAAAGTA
17731765 GCAGAGGGCAGATCGCATCC
65 GCA-AGGGCAGATCGCATCC
* * * * * *
17731785 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCTCAAATCCTATCTCCCTAAAGTAG
*
17731850 CAAAGGGCAGATCGCATCT
66 C-AAGGGCAGATCGCATCC
17731869 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGC-CGATAATCCTATCTCCCT-AAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCTC-A-AATCCTATCTCCCTAAAGT
17731931 AG
64 AG
17731933 TAGCGGGGCA
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
82 1 0.01
83 10 0.08
84 103 0.79
85 16 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (83 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCTCAAATCCTATCTCCCTAAAGTAG
CAAGGGCAGATCGCATCC
Found at i:17734145 original size:98 final size:98
Alignment explanation
Indices: 17734018--17734210 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
17734008 TAAAATCATG
* * *
17734018 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTT
17734083 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
* *
17734116 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTACCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTT
*
17734181 AAATCTTGGATGAGTGGATGTTCTTTTAAA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAA
17734211 GTTTTATTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAATA
Found at i:17743987 original size:46 final size:46
Alignment explanation
Indices: 17743909--17744094 Score: 266
Period size: 46 Copynumber: 4.0 Consensus size: 46
17743899 ACAATTCTAT
* * * *
17743909 AACTTAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAG
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
17743955 AACTAAGTATGGTTTTCTTCACTGCAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
17744001 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTAT-AC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTT-TCAC
* * * *
17744047 AACTCAGTATGGCTTTCTTCAGTGAAACACCATAGCTACATTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
17744093 AA
1 AA
17744095 TTTTCCATGG
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 125 0.98
47 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:17745331 original size:17 final size:17
Alignment explanation
Indices: 17745309--17745345 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17745299 AAATTATTTT
17745309 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
* *
17745326 TAAATCATAGAATTCAC
1 TAAATCACAAAATTCAC
17745343 TAA
1 TAA
17745346 TTCAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:17750352 original size:46 final size:46
Alignment explanation
Indices: 17750285--17750470 Score: 291
Period size: 46 Copynumber: 4.0 Consensus size: 46
17750275 ATAATGCTAT
* *
17750285 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
17750331 AACTCAGTATGGTTTTTTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
** *
17750377 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAAATTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
17750423 AACTCAGTATGGCTTTCTTCATTGAAACACCATACCTACTTTTTAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
17750469 AA
1 AA
17750471 TTTTCCATGG
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:17756359 original size:45 final size:45
Alignment explanation
Indices: 17756295--17756388 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
17756285 AACAGATACT
* *
17756295 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
17756340 CGGTGGAATCAGCACATAGCAACCATCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
17756385 CGGT
1 CGGT
17756389 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Done.