Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 29
Found at i:6400523 original size:62 final size:61
Alignment explanation
Indices: 6400363--6400543 Score: 218
Period size: 62 Copynumber: 2.9 Consensus size: 61
6400353 TCCAACATGA
* ** * * * *
6400363 AAAATATGTATCCTCCACTCGACCCAAAATTTTAGAAAACAAATTTGATCCGATTCAATTTG
1 AAAATATGTATCCTCCAC-CGACCCAAAAATTTAGAGTATAAATTTGACCCGATCCAATTGG
* * *
6400425 AAAATATGTATCCTCCATCCGACTCGAAAATTTAGAGTATAAATTTGACCCGATCCGATTGG
1 AAAATATGTATCCTCCA-CCGACCCAAAAATTTAGAGTATAAATTTGACCCGATCCAATTGG
* * *
6400487 AAAATATGTATCCTCCACCGGGCCCAAAAATTTAGAGTATAAATTTTACCCAATCCA
1 AAAATATGTATCCTCCACC-GACCCAAAAATTTAGAGTATAAATTTGACCCGATCCA
6400544 GTATAAAATA
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
61 2 0.02
62 98 0.97
63 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (61 bp):
AAAATATGTATCCTCCACCGACCCAAAAATTTAGAGTATAAATTTGACCCGATCCAATTGG
Found at i:6402177 original size:10 final size:12
Alignment explanation
Indices: 6402153--6402178 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6402143 ATTAAATAAA
6402153 ATAAAAAATTAT
1 ATAAAAAATTAT
6402165 ATAAAAAATTAT
1 ATAAAAAATTAT
6402177 AT
1 AT
6402179 TTTTGATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAAAAATTAT
Found at i:6411109 original size:39 final size:38
Alignment explanation
Indices: 6411061--6411187 Score: 89
Period size: 40 Copynumber: 3.2 Consensus size: 38
6411051 AGTTGTGAGA
*
6411061 TTTTGAAAATAATAAACCATAATAATTAATATGATTTCT
1 TTTTAAAAATAATAAACCATAATAATTAATATGATTT-T
* * *
6411100 TTTTAAAAAT--TAAAACA-AATTATTAGTTATGATAATTTT
1 TTTTAAAAATAATAAACCATAATAATTA---AT-ATGATTTT
* * * *
6411139 TTTTGACAATTAAATAAACTATGATAATTAATATGATTATT
1 TTTT-AAAAAT-AATAAACCATAATAATTAATATGATT-TT
6411180 TTTTAAAA
1 TTTTAAAA
6411188 GTTAAAACAA
Statistics
Matches: 66, Mismatches: 12, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
36 7 0.11
37 6 0.09
39 16 0.24
40 18 0.27
41 8 0.12
43 5 0.08
44 6 0.09
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.44
Consensus pattern (38 bp):
TTTTAAAAATAATAAACCATAATAATTAATATGATTTT
Found at i:6411274 original size:13 final size:14
Alignment explanation
Indices: 6411239--6411275 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6411229 TTACTCTATA
6411239 TTAATTAT-AATCC
1 TTAATTATAAATCC
6411252 TTACATTATAAAT-C
1 TTA-ATTATAAATCC
6411266 TTAATTATAA
1 TTAATTATAA
6411276 TTATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTATAAATCC
Found at i:6412445 original size:23 final size:21
Alignment explanation
Indices: 6412417--6412459 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6412407 CTATAAAAAA
6412417 TTAT-TTTTTATTAAATATTTT
1 TTATATTTTTATTAAAT-TTTT
*
6412438 TTATATTTTTATTTAATTTTT
1 TTATATTTTTATTAAATTTTT
6412459 T
1 T
6412460 AAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATATTTTTATTAAATTTTT
Found at i:6412951 original size:2 final size:2
Alignment explanation
Indices: 6412946--6413160 Score: 93
Period size: 2 Copynumber: 110.5 Consensus size: 2
6412936 TACAGCGTAC
* * *
6412946 AT AT AT AC AT AT AT AT AT A- AGT TT AT AT AT AT ACT -T AT GT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT
* *
6412988 A- AT GT AT ACT -T AT AT -T AT AT ACT -T TT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
6413028 AT AT AT A- AGT TT AT ACT -T AT AGT -T AT A- AGT TT A- AT GT AT
1 AT AT AT AT A-T AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT
* * * * *
6413067 AC AT -T AT AA AT AT A- AT GT AT AT GT AT AT -T AT AC AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
6413107 -T AT AT AT AT AT AT AT GT ACT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
*
6413148 AT AT AT AT TT AT A
1 AT AT AT AT AT AT A
6413161 AGTATAATGT
Statistics
Matches: 158, Mismatches: 29, Indels: 52
0.66 0.12 0.22
Matches are distributed among these distances:
1 16 0.10
2 135 0.85
3 7 0.04
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6413042 original size:20 final size:20
Alignment explanation
Indices: 6412947--6413186 Score: 91
Period size: 20 Copynumber: 11.2 Consensus size: 20
6412937 ACAGCGTACA
*
6412947 TATATACATATATATATAAG
1 TATATATATATATATATAAG
*
6412967 TTTATATATATACTTATGTATAATG
1 --TATATATATA--TATATATAA-G
*
6412992 TATACTTATATTATATACTTTTATA-
1 TATA--TATA-TATATA--TATA-AG
6413017 TATATATATATATATATAAG
1 TATATATATATATATATAAG
* *
6413037 TTTATACTTATAGTTATAAGTTTAATG
1 TATATA--TATA--TAT-A-TATAA-G
* *
6413064 TATACAT-TATAAATATAATG
1 TATATATATATATATATAA-G
* *
6413084 TATATGTATAT-TATA-CA-
1 TATATATATATATATATAAG
*
6413101 TATACTTATATATATATATATG
1 TATA--TATATATATATATAAG
6413123 TACT-TATATATATATATATA-
1 TA-TATATATATATATATA-AG
*
6413143 TATATATATATATTTATAAG
1 TATATATATATATATATAAG
* *
6413163 TATA-ATGTATATATTGTAAG
1 TATATATATATATA-TATAAG
6413183 TATA
1 TATA
6413187 ATGTACAACT
Statistics
Matches: 167, Mismatches: 23, Indels: 58
0.67 0.09 0.23
Matches are distributed among these distances:
17 4 0.02
19 17 0.10
20 68 0.41
21 4 0.02
22 23 0.14
23 9 0.05
24 16 0.10
25 11 0.07
26 9 0.05
27 6 0.04
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (20 bp):
TATATATATATATATATAAG
Found at i:6413104 original size:70 final size:70
Alignment explanation
Indices: 6412946--6413118 Score: 185
Period size: 70 Copynumber: 2.5 Consensus size: 70
6412936 TACAGCGTAC
* * *
6412946 ATATATACATATATATATAAGTTTATATATATACTTATGTATAATGTATACTTATATTATATACT
1 ATATATATATATATATATAAGTTTATATATATACTTATGTATAATGTATACTTATATAATATACA
*
6413011 TTTAT
66 TGTAT
* *
6413016 ATATATATATATATATATAAGTTTATACT-TATAGTTATAAGTTTAATGTATACATTATA-AATA
1 ATATATATATATATATATAAGTTTATA-TATATACTTAT--GTATAATGTATAC-TTATATAATA
6413079 TA-ATGTAT
62 TACATGTAT
* * *
6413087 ATGTATAT-TATACATAT-ACTTATATATATATA
1 ATATATATATATATATATAAGTT-TATATATATA
6413119 TATGTACTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
69 4 0.05
70 50 0.57
71 12 0.14
72 17 0.19
73 5 0.06
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (70 bp):
ATATATATATATATATATAAGTTTATATATATACTTATGTATAATGTATACTTATATAATATACA
TGTAT
Found at i:6419077 original size:156 final size:158
Alignment explanation
Indices: 6418769--6419142 Score: 424
Period size: 156 Copynumber: 2.4 Consensus size: 158
6418759 TCCCTGATTA
* * * * * *
6418769 TTATTTCTTTAATTACTCCTTCATTTTAAGTC-CATTTTAACCAAATTTGAACTATATGCTCCTA
1 TTATTTCCTCAATTTCTCCTTCATTTTAAGTCTCATTTTAACCAAATTTGAACCACATGTTCCTA
* * * * *
6418833 AATCAATGTAGAATATATATGTATATTCAATTTCTATTTTTTATAACAATTTTTTTATTTTTTCT
66 AAACAATGTAGAATATATATGTATATTCAATTCCTATTTTTAATAACAATTGTTTTATTTTTTCA
*
6418898 ATTTATACCCTCAATTTTCATAATTTCC
131 ATTTATACCCTCAATTTTCATAATTTAC
* * ** *
6418926 TTGTTTCCTCAATTTCTCCTTCATTTTAAATCTTTTTTTTACCAAATTTGAACCACATGTTCCTA
1 TTATTTCCTCAATTTCTCCTTCATTTTAAGTCTCATTTTAACCAAATTTGAACCACATGTTCCTA
* *
6418991 AAAC-TTCGTAG-A-ATATATGTACT-TTCAATTCCTATTTTTAATAATAATTGTTTTA-TTTTT
66 AAACAAT-GTAGAATATATATGTA-TATTCAATTCCTATTTTTAATAACAATTGTTTTATTTTTT
*
6419051 CAATTTAGT-CCCTCAATTTTTTATAATTTAC
129 CAATTTA-TACCCTCAA-TTTTCATAATTTAC
* * * *
6419082 TTATTTCTTCAA-TTCATCATTTATTTTAAGT-TCGTTTTAACCAAATTTGAACCACATGTTC
1 TTATTTCCTCAATTTC-TCCTTCATTTTAAGTCTCATTTTAACCAAATTTGAACCACATGTTC
6419143 ATATACCACA
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
155 48 0.26
156 72 0.39
157 30 0.16
158 33 0.18
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.50
Consensus pattern (158 bp):
TTATTTCCTCAATTTCTCCTTCATTTTAAGTCTCATTTTAACCAAATTTGAACCACATGTTCCTA
AAACAATGTAGAATATATATGTATATTCAATTCCTATTTTTAATAACAATTGTTTTATTTTTTCA
ATTTATACCCTCAATTTTCATAATTTAC
Found at i:6424803 original size:12 final size:13
Alignment explanation
Indices: 6424780--6424805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6424770 ACACGAAGAG
6424780 TTTGATTTTTTTT
1 TTTGATTTTTTTT
6424793 TTTGATTTTTTTT
1 TTTGATTTTTTTT
6424806 ATTTTTTTAA
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:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (13 bp):
TTTGATTTTTTTT
Found at i:6425280 original size:17 final size:17
Alignment explanation
Indices: 6425260--6425296 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6425250 TCGATTGGAG
*
6425260 CTCGATTCAAGCTCGAA
1 CTCGATTAAAGCTCGAA
6425277 CTCGATTAAAGCTCGAA
1 CTCGATTAAAGCTCGAA
6425294 CTC
1 CTC
6425297 AAACTCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (17 bp):
CTCGATTAAAGCTCGAA
Found at i:6425690 original size:26 final size:26
Alignment explanation
Indices: 6425654--6425740 Score: 138
Period size: 26 Copynumber: 3.3 Consensus size: 26
6425644 CTTGCAGACA
6425654 CACAAAACAAGGGACAGAGCACCAAG
1 CACAAAACAAGGGACAGAGCACCAAG
6425680 CACAAAACAAGGGACAGAGCACCAAG
1 CACAAAACAAGGGACAGAGCACCAAG
* * *
6425706 CAAAAAACAAGGGACAGAGAACCAAA
1 CACAAAACAAGGGACAGAGCACCAAG
6425732 CACCAAAAC
1 CA-CAAAAC
6425741 CAATACTAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
26 51 0.91
27 5 0.09
ACGTcount: A:0.54, C:0.26, G:0.20, T:0.00
Consensus pattern (26 bp):
CACAAAACAAGGGACAGAGCACCAAG
Found at i:6427394 original size:21 final size:21
Alignment explanation
Indices: 6427369--6427462 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
6427359 TGGCATAACT
6427369 TAAACCCTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
*
6427390 TAAACCTTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
* *
6427411 TAAACCCTAA-ACTTTAAACCT
1 TAAACCCTAACAC-ATAAACCC
* * *
6427432 TAAATCCTATCACATAAACTC
1 TAAACCCTAACACATAAACCC
*
6427453 TAAATCCTAA
1 TAAACCCTAA
6427463 ACCCTAAACC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAACACATAAACCC
Found at i:6427395 original size:7 final size:7
Alignment explanation
Indices: 6427369--6427472 Score: 61
Period size: 7 Copynumber: 14.9 Consensus size: 7
6427359 TGGCATAACT
6427369 TAAACCC
1 TAAACCC
*
6427376 T-AACACA
1 TAAAC-CC
6427383 TAAACCC
1 TAAACCC
6427390 TAAA-CC
1 TAAACCC
* *
6427396 TTAACACA
1 TAAAC-CC
6427404 TAAACCC
1 TAAACCC
6427411 TAAACCC
1 TAAACCC
**
6427418 TAAACTT
1 TAAACCC
*
6427425 TAAACCT
1 TAAACCC
*
6427432 TAAATCC
1 TAAACCC
* *
6427439 T-ATCACA
1 TAAAC-CC
*
6427446 TAAACTC
1 TAAACCC
*
6427453 TAAATCC
1 TAAACCC
6427460 TAAACCC
1 TAAACCC
6427467 TAAACC
1 TAAACC
6427473 TTATCACATA
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
6 9 0.13
7 52 0.73
8 10 0.14
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:6427422 original size:35 final size:35
Alignment explanation
Indices: 6427369--6427483 Score: 97
Period size: 35 Copynumber: 3.1 Consensus size: 35
6427359 TGGCATAACT
*
6427369 TAAACCCT-AACACATAAACCCTAAACCTTAACACA
1 TAAACCCTAAAC-CCTAAACCCTAAACCTTAACACA
**
6427404 TAAACCCTAAACCCTAAACTTTAAACCTTAAATCCTATCACA
1 TAAACCCTAAACCCTAAACCCTAAACCTT--A----A-CACA
* * *
6427446 TAAACTCTAAATCCTAAACCCTAAACCTTATCACA
1 TAAACCCTAAACCCTAAACCCTAAACCTTAACACA
6427481 TAA
1 TAA
6427484 TTAGTTATGA
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
35 29 0.45
36 3 0.05
37 1 0.02
40 1 0.02
41 1 0.02
42 29 0.45
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.23
Consensus pattern (35 bp):
TAAACCCTAAACCCTAAACCCTAAACCTTAACACA
Found at i:6427435 original size:28 final size:27
Alignment explanation
Indices: 6427383--6427472 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 27
6427373 CCCTAACACA
* *
6427383 TAAACCCTAAACCTTAACACATAAACCC
1 TAAACCCTAAACTTTAA-ACCTAAACCC
*
6427411 TAAACCCTAAACTTTAAACCTTAAATCC
1 TAAACCCTAAACTTTAAACC-TAAACCC
* * *
6427439 T-ATCACATAAACTCTAAATCCTAAACCC
1 TAAAC-CCTAAACTTTAAA-CCTAAACCC
6427467 TAAACC
1 TAAACC
6427473 TTATCACATA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
27 4 0.08
28 42 0.84
29 4 0.08
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.23
Consensus pattern (27 bp):
TAAACCCTAAACTTTAAACCTAAACCC
Found at i:6427463 original size:42 final size:42
Alignment explanation
Indices: 6427369--6427475 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
6427359 TGGCATAACT
* *
6427369 TAAACCCT-AACACATAAACCCTAAACCTTAACACATAAACCC
1 TAAACCCTAAAC-CCTAAACCTTAAACCTTAACACATAAACCC
** * *
6427411 TAAACCCTAAACTTTAAACCTTAAATCC-TATCACATAAACTC
1 TAAACCCTAAACCCTAAACCTTAAA-CCTTAACACATAAACCC
*
6427453 TAAATCCTAAACCCTAAACCTTA
1 TAAACCCTAAACCCTAAACCTTA
6427476 TCACATAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (42 bp):
TAAACCCTAAACCCTAAACCTTAAACCTTAACACATAAACCC
Found at i:6427755 original size:14 final size:14
Alignment explanation
Indices: 6427738--6427778 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6427728 TTTATTCATC
6427738 AATAATGTATTTTT
1 AATAATGTATTTTT
6427752 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
6427763 AATAATGTAATTTT
1 AATAATGTATTTTT
6427777 AA
1 AA
6427779 AAAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:6428489 original size:60 final size:60
Alignment explanation
Indices: 6428391--6428525 Score: 189
Period size: 60 Copynumber: 2.2 Consensus size: 60
6428381 ACACCATATG
* * *
6428391 TCCCCAAACTATAACTCTCACTTTAAACTAGTCCTTAAACTTTTGAATATTCCAATTGCA
1 TCCCTAAACTATGACTCTCACTTTAAACTAGTCCTTAAACTTTTGAACATTCCAATTGCA
* * * * * *
6428451 TCCCTAAACTATGACTCTCATTTTAAATTAGTCTTTAAACTTTTGAGCATTCTAATTTCA
1 TCCCTAAACTATGACTCTCACTTTAAACTAGTCCTTAAACTTTTGAACATTCCAATTGCA
6428511 TCCCTAAACTATGAC
1 TCCCTAAACTATGAC
6428526 CCTCTTTCTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (60 bp):
TCCCTAAACTATGACTCTCACTTTAAACTAGTCCTTAAACTTTTGAACATTCCAATTGCA
Found at i:6428773 original size:60 final size:59
Alignment explanation
Indices: 6428696--6428839 Score: 162
Period size: 60 Copynumber: 2.4 Consensus size: 59
6428686 ATATATATGT
* * * * * * * *
6428696 ATAGTTTGAGATAAAAATGGAATGTTCAAAAAGTTTAGGGGTCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATAAAATTGAAATGTTC-AAAAGTTGAAGGATCAATTTAGAATAAAAGTC
* *
6428756 ATAGTTTGGGGATAAAATTGAAATTTTCAAAAGTTGAAGGATTAATTTAGAATAAAAGTC
1 ATAGTTT-GGGATAAAATTGAAATGTTCAAAAGTTGAAGGATCAATTTAGAATAAAAGTC
*
6428816 ATAGTTTAGGGATACAATTGAAAT
1 ATAGTTT-GGGATAAAATTGAAAT
6428840 ATTTAAACGT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 55 0.77
61 16 0.23
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (59 bp):
ATAGTTTGGGATAAAATTGAAATGTTCAAAAGTTGAAGGATCAATTTAGAATAAAAGTC
Found at i:6428856 original size:60 final size:60
Alignment explanation
Indices: 6428739--6428864 Score: 173
Period size: 60 Copynumber: 2.1 Consensus size: 60
6428729 TTTAGGGGTC
* * * *
6428739 AATTTAGAATGAAGGTCATAGTTTGGGGATAAAATTGAAATTTTCAAAAGTTGAAGGATT
1 AATTTAGAATAAAAGTCATAGTTTAGGGATAAAATTGAAATTTTCAAAAGTTGAAGGACT
* * *
6428799 AATTTAGAATAAAAGTCATAGTTTAGGGATACAATTGAAATATTT-AAACGTTTAAGGACT
1 AATTTAGAATAAAAGTCATAGTTTAGGGATAAAATTGAAAT-TTTCAAAAGTTGAAGGACT
6428859 AATTTA
1 AATTTA
6428865 AAATTATAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 55 0.95
61 3 0.05
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (60 bp):
AATTTAGAATAAAAGTCATAGTTTAGGGATAAAATTGAAATTTTCAAAAGTTGAAGGACT
Found at i:6430274 original size:174 final size:173
Alignment explanation
Indices: 6429904--6430286 Score: 516
Period size: 174 Copynumber: 2.2 Consensus size: 173
6429894 TTGAGTTAAT
* * ** *
6429904 TTTTACTTTGAATTTGACTTGACTACAATGTTTTTCTTTAGGCGCTTATTGCTTTTGGAGTTTTG
1 TTTTAGTTTGAATTTGACTTCACTACAATGTTTTTCTTTAGGCGCTTATTGCTTGAGGAATTTTG
* * * *
6429969 TCAATCGTATTTTATAAGAACATGCTTGTTCGATGTATCATTGTTGATTGTTGGGGTATCTTCAG
66 TCAATCGTATTTTATAAGAACATCCTTGTTAGATGTATCATTGTTGATTGTTGGAGTATCTTCAA
* * *
6430034 TTCATGTTTGAAAATAATGAGCCTGTCAAGATAATTAATATGG
131 TTCATGCTTGAAAATAATGAGCCTATCAAGATAATTAATATGA
* * * *
6430077 TTTTAGTTTGAATTTGACTTCACTACAATTTTTTTC-TTAGGGGTTTATTGCTTGAGGAATTTTT
1 TTTTAGTTTGAATTTGACTTCACTACAATGTTTTTCTTTAGGCGCTTATTGCTTGAGGAATTTTG
* * *
6430141 TCAATCGTATCTTTCTAAGAACATCCTTTTTAGATGTATCATTGTTGATTGTTGGCATTATCTTC
66 TCAATCGTAT-TTTATAAGAACATCCTTGTTAGATGTATCATTGTTGATTGTTGG-AGTATCTTC
* *
6430206 AATTCATGCTTGAAAGTAATGAGCCTATCATGATAATTAATATGA
129 AATTCATGCTTGAAAATAATGAGCCTATCAAGATAATTAATATGA
* * * *
6430251 TTTTAGTTTTAATTTAACTTCACTAGAATGATTTTC
1 TTTTAGTTTGAATTTGACTTCACTACAATGTTTTTC
6430287 CTAGGGTTTC
Statistics
Matches: 182, Mismatches: 26, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
172 32 0.18
173 73 0.40
174 77 0.42
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.46
Consensus pattern (173 bp):
TTTTAGTTTGAATTTGACTTCACTACAATGTTTTTCTTTAGGCGCTTATTGCTTGAGGAATTTTG
TCAATCGTATTTTATAAGAACATCCTTGTTAGATGTATCATTGTTGATTGTTGGAGTATCTTCAA
TTCATGCTTGAAAATAATGAGCCTATCAAGATAATTAATATGA
Found at i:6432836 original size:3 final size:3
Alignment explanation
Indices: 6432828--6432853 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6432818 ATAATATCAA
6432828 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
6432854 ACGGTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6438278 original size:23 final size:24
Alignment explanation
Indices: 6438224--6438282 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
6438214 CAATGCTAAG
*
6438224 TGAATATGTTTGTGAACGTTAAAC
1 TGAATATGTTTATGAACGTTAAAC
*
6438248 -AAATATGTTTATGAACGTT-AAC
1 TGAATATGTTTATGAACGTTAAAC
*
6438270 TGAACATGTTTAT
1 TGAATATGTTTAT
6438283 AAATATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 27 0.90
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (24 bp):
TGAATATGTTTATGAACGTTAAAC
Found at i:6438591 original size:36 final size:38
Alignment explanation
Indices: 6438520--6438595 Score: 120
Period size: 36 Copynumber: 2.0 Consensus size: 38
6438510 TGCAATAAAA
6438520 TATGTAGTTGGCAAACAAGACATTGAGTACTTGTTAGGG
1 TATGTAGTTGGCAAACAAGACA-TGAGTACTTGTTAGGG
*
6438559 TATGTAGTTGGCAAA-AAGACA-GAGTATTTGTTAGGG
1 TATGTAGTTGGCAAACAAGACATGAGTACTTGTTAGGG
6438595 T
1 T
6438596 TGAGCAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 15 0.42
38 6 0.17
39 15 0.42
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (38 bp):
TATGTAGTTGGCAAACAAGACATGAGTACTTGTTAGGG
Found at i:6442480 original size:17 final size:18
Alignment explanation
Indices: 6442458--6442494 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6442448 TAACAATAAC
6442458 AAAATCGATA-AAAAAAT
1 AAAATCGATAGAAAAAAT
*
6442475 AAAATCGATAGAAATAAT
1 AAAATCGATAGAAAAAAT
6442493 AA
1 AA
6442495 TGTTTATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (18 bp):
AAAATCGATAGAAAAAAT
Found at i:6449259 original size:24 final size:24
Alignment explanation
Indices: 6449230--6449291 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
6449220 GAACACATTA
*
6449230 ATATTTAAAAATAATTAAAATAAT
1 ATATTTAATAATAATTAAAATAAT
** *
6449254 ATATTTTTTTACT-ATTAAAATAAT
1 ATA-TTTAATAATAATTAAAATAAT
6449278 ATATTTAATAATAA
1 ATATTTAATAATAA
6449292 CTTGCTTTTC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 6 0.21
24 18 0.62
25 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTTAATAATAATTAAAATAAT
Found at i:6451061 original size:16 final size:16
Alignment explanation
Indices: 6451040--6451078 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6451030 AACTGGTATT
*
6451040 ACCTGACATGTTTTCA
1 ACCTGACATGTTATCA
*
6451056 ACCTGACATGTTATGA
1 ACCTGACATGTTATCA
6451072 ACCTGAC
1 ACCTGAC
6451079 CTGTAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (16 bp):
ACCTGACATGTTATCA
Found at i:6451219 original size:17 final size:17
Alignment explanation
Indices: 6451197--6451235 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
6451187 TATAATAAAC
6451197 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
6451214 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
*
6451231 ATATG
1 TTATG
6451236 GTTACTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (17 bp):
TTATGATAATTAAATTA
Found at i:6451265 original size:51 final size:52
Alignment explanation
Indices: 6451207--6451304 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 52
6451197 TTATGATAAT
**
6451207 TAAATTATTATGATAATTAAATTAATATGGTTAC-TCTTTGAAATTTTATCA
1 TAAATTATTATGATAATTAAATTAATATAATTACTTCTTTGAAATTTTATCA
*
6451258 TAAATTATTATGATAATTAAATTAATATAATTACTTTTTTGAAATTT
1 TAAATTATTATGATAATTAAATTAATATAATTACTTCTTTGAAATTT
6451305 AATTTTATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 32 0.74
52 11 0.26
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (52 bp):
TAAATTATTATGATAATTAAATTAATATAATTACTTCTTTGAAATTTTATCA
Found at i:6452144 original size:20 final size:20
Alignment explanation
Indices: 6452119--6452183 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
6452109 AACCCGTACA
6452119 AATATCAAGTAGAAGCAAGC
1 AATATCAAGTAGAAGCAAGC
6452139 AATATCAAGTAGAAGCAAGC
1 AATATCAAGTAGAAGCAAGC
** *
6452159 AATATCAAACAGAAGCAAAC
1 AATATCAAGTAGAAGCAAGC
6452179 AATAT
1 AATAT
6452184 AAAACATAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (20 bp):
AATATCAAGTAGAAGCAAGC
Found at i:6452188 original size:20 final size:20
Alignment explanation
Indices: 6452119--6452199 Score: 99
Period size: 20 Copynumber: 4.0 Consensus size: 20
6452109 AACCCGTACA
**
6452119 AATATCAAGTAGAAGCAAGC
1 AATATCAAACAGAAGCAAGC
**
6452139 AATATCAAGTAGAAGCAAGC
1 AATATCAAACAGAAGCAAGC
*
6452159 AATATCAAACAGAAGCAAAC
1 AATATCAAACAGAAGCAAGC
* *
6452179 AATATAAAACATAAGCAAGC
1 AATATCAAACAGAAGCAAGC
6452199 A
1 A
6452200 TAATTAAGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.56, C:0.16, G:0.15, T:0.14
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAGC
Found at i:6454583 original size:31 final size:31
Alignment explanation
Indices: 6454545--6454694 Score: 255
Period size: 31 Copynumber: 4.8 Consensus size: 31
6454535 ACATGGTTAG
* *
6454545 TTTACATCAACAGCAATAAACCAGTACATAA
1 TTTACATCAACAACAATAAACCAGTACATCA
* *
6454576 TTAACATCAACAGCAATAAACCAGTACATCA
1 TTTACATCAACAACAATAAACCAGTACATCA
6454607 TTTACATCAACAACAATAAACCAGTACATCA
1 TTTACATCAACAACAATAAACCAGTACATCA
*
6454638 TTTACATCAACATCAATAAACCAGTACATCA
1 TTTACATCAACAACAATAAACCAGTACATCA
6454669 TTTACATCAACAACAATAAACCAGTA
1 TTTACATCAACAACAATAAACCAGTA
6454695 TATATATATA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 113 1.00
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.23
Consensus pattern (31 bp):
TTTACATCAACAACAATAAACCAGTACATCA
Found at i:6454712 original size:62 final size:62
Alignment explanation
Indices: 6454545--6454712 Score: 234
Period size: 62 Copynumber: 2.7 Consensus size: 62
6454535 ACATGGTTAG
* * *
6454545 TTTACATCAACAGCAATAAACCAGTACATA-AT-TAACATCAACAGCAATAAACCAGTACATCA
1 TTTACATCAACAACAATAAACCAGTACATATATATATCA--AACATCAATAAACCAGTACATCA
* *
6454607 TTTACATCAACAACAATAAACCAGTACATCATTTACATC-AACATCAATAAACCAGTACATCA
1 TTTACATCAACAACAATAAACCAGTACAT-ATATATATCAAACATCAATAAACCAGTACATCA
*
6454669 TTTACATCAACAACAATAAACCAGTATATATATATATCAAACAT
1 TTTACATCAACAACAATAAACCAGTACATATATATATCAAACAT
6454713 ATACAAAGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
61 7 0.07
62 83 0.88
63 1 0.01
64 1 0.01
65 2 0.02
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.24
Consensus pattern (62 bp):
TTTACATCAACAACAATAAACCAGTACATATATATATCAAACATCAATAAACCAGTACATCA
Found at i:6455095 original size:29 final size:29
Alignment explanation
Indices: 6455061--6455122 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
6455051 TTTGGTTAGG
6455061 GGTTAGGGAAGATGAACAGTAGTGGTTAA
1 GGTTAGGGAAGATGAACAGTAGTGGTTAA
*
6455090 GGTTAGGGAAGATGAACAGTAGTGGTTAG
1 GGTTAGGGAAGATGAACAGTAGTGGTTAA
6455119 GGTT
1 GGTT
6455123 GAAAAAGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.40, T:0.26
Consensus pattern (29 bp):
GGTTAGGGAAGATGAACAGTAGTGGTTAA
Found at i:6455134 original size:29 final size:29
Alignment explanation
Indices: 6455069--6455138 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
6455059 GGGGTTAGGG
**
6455069 AAGATGAACAGTAGTGGTTAAGGTTAGGG
1 AAGATGAACAGTAGTGGTTAAGGTTAGAA
*
6455098 AAGATGAACAGTAGTGGTTAGGGTT-GAAA
1 AAGATGAACAGTAGTGGTTAAGGTTAG-AA
*
6455127 AAGTTGAACAGT
1 AAGATGAACAGT
6455139 TTGTGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.37, C:0.04, G:0.34, T:0.24
Consensus pattern (29 bp):
AAGATGAACAGTAGTGGTTAAGGTTAGAA
Found at i:6455360 original size:93 final size:94
Alignment explanation
Indices: 6455227--6455404 Score: 254
Period size: 93 Copynumber: 1.9 Consensus size: 94
6455217 GATGATTTTG
* * * * *
6455227 TGGGTGCTTGATCAAAATAAACTCGATATGGTTTGTGTTTAGGTGTTTTTGAAGATCAAATGAGG
1 TGGGTGCTTGATCAAAATAAACACAAAATGATTTGTGTTTAGGTGTTTTTGAAGATCAAAAGAGG
*
6455292 GTTTTGGGGA-AGAACTGGATGAAGAAATT
66 CTTTTGGGGATA-AACTGGATGAAGAAATT
*
6455321 TGGGTGTTTGATCGAAAA-AAACACAAAATGATTTG-GTTTAGGTGTTTTTGAAGATCAAAAGAG
1 TGGGTGCTTGATC-AAAATAAACACAAAATGATTTGTGTTTAGGTGTTTTTGAAGATCAAAAGAG
6455384 GCTTTTGGGGATAAACTGGAT
65 GCTTTTGGGGATAAACTGGAT
6455405 AACAAATGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 45 0.60
94 26 0.35
95 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (94 bp):
TGGGTGCTTGATCAAAATAAACACAAAATGATTTGTGTTTAGGTGTTTTTGAAGATCAAAAGAGG
CTTTTGGGGATAAACTGGATGAAGAAATT
Found at i:6455718 original size:60 final size:59
Alignment explanation
Indices: 6455624--6455739 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 59
6455614 TTAAATTTGT
*
6455624 TCAATTTAGTCCAAATCTAATGATGCAATATATTAATTTAAGCTTCATATTTCAAAAAAA
1 TCAATTTAGTCCAAATCTAATGATACAATATATTAATTTAAGCTTCATATTT-AAAAAAA
* * *
6455684 TCAATTTAGTCCAAATTTAAT-ATTACAGTTTATTAATTTAAGCTTCATATTTAAAA
1 TCAATTTAGTCCAAATCTAATGA-TACAATATATTAATTTAAGCTTCATATTTAAAA
6455740 TTTATTCAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 5 0.10
60 46 0.90
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (59 bp):
TCAATTTAGTCCAAATCTAATGATACAATATATTAATTTAAGCTTCATATTTAAAAAAA
Found at i:6455822 original size:22 final size:24
Alignment explanation
Indices: 6455779--6455831 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
6455769 CAATTCTTCC
**
6455779 AATTAATATATATTTATAATAATA
1 AATTAATATATAGGTATAATAATA
6455803 AATTAATATATAGGT-T-ATAATA
1 AATTAATATATAGGTATAATAATA
*
6455825 TATTAAT
1 AATTAAT
6455832 GAATTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 1 0.04
24 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
AATTAATATATAGGTATAATAATA
Found at i:6455942 original size:18 final size:17
Alignment explanation
Indices: 6455843--6456130 Score: 89
Period size: 18 Copynumber: 17.2 Consensus size: 17
6455833 AATTTTTCAA
*
6455843 TATATAGTTTATATATGC
1 TATATAG-TTATATATAC
* *
6455861 TATATAATTTATATATAG
1 TATAT-AGTTATATATAC
* *
6455879 TA-AT-G-AACTATATAA
1 TATATAGTTA-TATATAC
*
6455894 TATATAGTT-TGTATA-
1 TATATAGTTATATATAC
* *
6455909 TACCATAG-TCTATATAC
1 TA-TATAGTTATATATAC
6455926 TATATAGGTTATATATAC
1 TATATA-GTTATATATAC
* *
6455944 TA-AT-G-AACTATATAA
1 TATATAGTTA-TATATAC
*
6455959 TATATAGTTTACATATAC
1 TATATAG-TTATATATAC
6455977 TATATAGTTATATATA-
1 TATATAGTTATATATAC
*
6455993 TACTA-A-TGA-ACTATA-
1 TA-TATAGTTATA-TATAC
6456008 TA-ATAGTT-TATATAC
1 TATATAGTTATATATAC
* *
6456023 TA-ATCA-ATATATACTAA
1 TATAT-AGTTATATA-TAC
*
6456040 TGTATAGTT-TATATAC
1 TATATAGTTATATATAC
*
6456056 CATATAGTTTATATATAC
1 TATATAG-TTATATATAC
**
6456074 TA-ATGAACTATATAATA-
1 TATAT-AGTTATAT-ATAC
*
6456091 TATATAATATATTTATATA-
1 TATATAGT-TA--TATATAC
*
6456110 TATATAGTTATATATAA
1 TATATAGTTATATATAC
6456127 TATA
1 TATA
6456131 GTATAAATTA
Statistics
Matches: 203, Mismatches: 32, Indels: 71
0.66 0.10 0.23
Matches are distributed among these distances:
13 1 0.00
14 8 0.04
15 35 0.17
16 42 0.21
17 44 0.22
18 58 0.29
19 12 0.06
20 3 0.01
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (17 bp):
TATATAGTTATATATAC
Found at i:6455975 original size:65 final size:65
Alignment explanation
Indices: 6455854--6455976 Score: 192
Period size: 65 Copynumber: 1.9 Consensus size: 65
6455844 ATATAGTTTA
* * * **
6455854 TATATGCTATATAATTTATATATAGTAATGAACTATATAATATATAGTTTGTATATACCATAGTC
1 TATATACTATATAAGTTATATATACTAATGAACTATATAATATATAGTTTACATATACCATAGTC
*
6455919 TATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTACATATAC
1 TATATACTATATAAGTTATATATACTAATGAACTATATAATATATAGTTTACATATAC
6455977 TATATAGTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (65 bp):
TATATACTATATAAGTTATATATACTAATGAACTATATAATATATAGTTTACATATACCATAGTC
Found at i:6455976 original size:33 final size:33
Alignment explanation
Indices: 6455861--6455978 Score: 141
Period size: 33 Copynumber: 3.6 Consensus size: 33
6455851 TTATATATGC
* *
6455861 TATATAATTTATATATAGTAATGAACTATATAA
1 TATATAGTTTATATATACTAATGAACTATATAA
* * * *
6455894 TATATAGTTTGTATATAC-CAT-AGTCTATATAC
1 TATATAGTTTATATATACTAATGA-ACTATATAA
*
6455926 TATATAGGTTATATATACTAATGAACTATATAA
1 TATATAGTTTATATATACTAATGAACTATATAA
*
6455959 TATATAGTTTACATATACTA
1 TATATAGTTTATATATACTA
6455979 TATAGTTATA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
31 1 0.01
32 25 0.36
33 42 0.61
34 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (33 bp):
TATATAGTTTATATATACTAATGAACTATATAA
Found at i:6455989 original size:33 final size:32
Alignment explanation
Indices: 6455861--6455994 Score: 119
Period size: 33 Copynumber: 4.1 Consensus size: 32
6455851 TTATATATGC
* * **
6455861 TATATAATTTATATATAGTAATGAACTATATAA
1 TATATAGTTTATATATACTAAT-AGTTATATAA
* * *
6455894 TATATAGTTTGTATATAC-CATAGTCTATATAC
1 TATATAGTTTATATATACTAATAGT-TATATAA
* **
6455926 TATATAGGTTATATATACTAATGAACTATATAA
1 TATATAGTTTATATATACTAAT-AGTTATATAA
*
6455959 TATATAGTTTACATATACTATATAGTTATAT-A
1 TATATAGTTTATATATACTA-ATAGTTATATAA
6455991 TATA
1 TATA
6455995 CTAATGAACT
Statistics
Matches: 80, Mismatches: 17, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
31 1 0.01
32 29 0.36
33 47 0.59
34 3 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (32 bp):
TATATAGTTTATATATACTAATAGTTATATAA
Found at i:6456087 original size:2 final size:2
Alignment explanation
Indices: 6456082--6456161 Score: 55
Period size: 2 Copynumber: 41.5 Consensus size: 2
6456072 ACTAATGAAC
*
6456082 TA TA TA -A TA TA TA TA -A TA TA TT TA TA TA TA TA TA GT- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
6456122 TA TA -A TA TA GTA TA AA T- TA T- TT TA TA TA GTA TA TA AA TA T
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T
6456162 CAACCATAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
1 6 0.10
2 51 0.82
3 5 0.08
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6456102 original size:33 final size:35
Alignment explanation
Indices: 6455971--6456102 Score: 90
Period size: 37 Copynumber: 3.6 Consensus size: 35
6455961 TATAGTTTAC
* *
6455971 ATATACTATATAGTTATATATATACTAATGAACTAT
1 ATATA-TATATACTAATATATATACTAATGAACTAT
* *
6456007 ATAATAGTTTATATACTAATCAATATATACTAATGTATAGTTT
1 AT-ATA---TATATACTAAT--ATATATACTAATG-A-ACTAT
* * *
6456050 ATATACCATATAGT-TTATATATACTAATGAACTAT
1 ATATA-TATATACTAATATATATACTAATGAACTAT
6456085 ATA-ATATATA-TAATATAT
1 ATATATATATACTAATATAT
6456103 TTATATATAT
Statistics
Matches: 75, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
32 1 0.01
33 10 0.13
34 1 0.01
35 6 0.08
36 3 0.04
37 16 0.21
39 10 0.13
40 6 0.08
41 13 0.17
42 4 0.05
43 5 0.07
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (35 bp):
ATATATATATACTAATATATATACTAATGAACTAT
Found at i:6456113 original size:78 final size:79
Alignment explanation
Indices: 6455935--6456096 Score: 233
Period size: 79 Copynumber: 2.1 Consensus size: 79
6455925 CTATATAGGT
* * *
6455935 TATATATACTAATGAA-CTATATAATATATAGTTTACATATACTATATAGTTATATATATACTAA
1 TATATATACTAATCAATATATATAATATATAGTTTA-ATATACCATATAGTTATATATATACTAA
6455999 TGAACTATATAATAG
65 TGAACTATATAATAG
* *
6456014 TTTATATACTAATCAATATATACTAATGTATAGTTT-ATATACCATATAGTT-TATATATACTAA
1 TATATATACTAATCAATATATA-TAATATATAGTTTAATATACCATATAGTTATATATATACTAA
6456077 TGAACTATATAATA-
65 TGAACTATATAATAG
6456091 TATATA
1 TATATA
6456097 ATATATTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
77 5 0.07
78 26 0.35
79 28 0.37
80 4 0.05
81 12 0.16
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (79 bp):
TATATATACTAATCAATATATATAATATATAGTTTAATATACCATATAGTTATATATATACTAAT
GAACTATATAATAG
Found at i:6456114 original size:14 final size:14
Alignment explanation
Indices: 6456089--6456156 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
6456079 AACTATATAA
6456089 TATATATAATATATT
1 TATATAT-ATATATT
*
6456104 TATATATATATAGT
1 TATATATATATATT
*
6456118 TATATATA-ATATAG
1 TATATATATATAT-T
*
6456132 TATAAAT-TAT-TT
1 TATATATATATATT
6456144 TATATAGTATATA
1 TATATA-TATATA
6456157 AATATCAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 25 0.60
15 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (14 bp):
TATATATATATATT
Found at i:6456131 original size:15 final size:15
Alignment explanation
Indices: 6456089--6456132 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
6456079 AACTATATAA
*
6456089 TATATATAATATATT
1 TATATATAATATAGT
6456104 TATATAT-ATATAGT
1 TATATATAATATAGT
6456118 TATATATAATATAGT
1 TATATATAATATAGT
6456133 ATAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TATATATAATATAGT
Found at i:6456229 original size:2 final size:2
Alignment explanation
Indices: 6456217--6456284 Score: 52
Period size: 2 Copynumber: 34.0 Consensus size: 2
6456207 TAAATTAAAC
* *
6456217 TA TA TA GTA TA TA TA GTT TT TA TA TA TA -A TA TA TA GTA TA TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
6456259 AA TA TA AA T- TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6456285 GGTCATATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
1 3 0.06
2 46 0.85
3 5 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6456263 original size:20 final size:20
Alignment explanation
Indices: 6456225--6456284 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
6456215 ACTATATAGT
* *
6456225 ATATATAGTTTTTATATATA
1 ATATATAGTATATATATATA
*
6456245 ATATATAGTATATAAATATA
1 ATATATAGTATATATATATA
*
6456265 A-ATTATAATATATATATATA
1 ATA-TATAGTATATATATATA
6456285 GGTCATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
ATATATAGTATATATATATA
Found at i:6456300 original size:31 final size:31
Alignment explanation
Indices: 6456265--6456344 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
6456255 TATAAATATA
*
6456265 AATTATAATA-TATATATATAGGTCATATGTG
1 AATTAT-ATAGTATATATACAGGTCATATGTG
*
6456296 AATTATATAGTATATATACAGGTCATATGTA
1 AATTATATAGTATATATACAGGTCATATGTG
*
6456327 AACTATAGTTAGTATATA
1 AATTATA--TAGTATATA
6456345 AACTATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 3 0.07
31 31 0.72
33 9 0.21
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (31 bp):
AATTATATAGTATATATACAGGTCATATGTG
Found at i:6456333 original size:20 final size:19
Alignment explanation
Indices: 6456310--6456371 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
6456300 ATATAGTATA
*
6456310 TATACAGGTCATATGTAAAC
1 TATA-AGGTTATATGTAAAC
*
6456330 TAT-A-GTTAGTATATAAAC
1 TATAAGGTTA-TATGTAAAC
*
6456348 TATATAGTTTATATGTAAAC
1 TATA-AGGTTATATGTAAAC
6456368 TATA
1 TATA
6456372 GTTCATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.09
18 12 0.35
20 16 0.47
21 3 0.09
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
TATAAGGTTATATGTAAAC
Found at i:6456348 original size:18 final size:17
Alignment explanation
Indices: 6456320--6456384 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 17
6456310 TATACAGGTC
*
6456320 ATATGTAAACTATAGTT
1 ATATATAAACTATAGTT
6456337 AGTATATAAACTATATAGTTT
1 A-TATATAAAC--TATAG-TT
*
6456358 ATATGTAAACTATAGTT
1 ATATATAAACTATAGTT
6456375 CATATATAAA
1 -ATATATAAA
6456385 TATCAACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
17 3 0.08
18 21 0.52
20 13 0.32
21 3 0.08
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (17 bp):
ATATATAAACTATAGTT
Found at i:6456380 original size:20 final size:19
Alignment explanation
Indices: 6456320--6456381 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
6456310 TATACAGGTC
6456320 ATATGTAAACTATAGTTAGT
1 ATATGTAAACTATAGTTA-T
6456340 ATA--TAAACTATATAGTT-T
1 ATATGTAAAC--TATAGTTAT
6456358 ATATGTAAACTATAGTTCAT
1 ATATGTAAACTATAGTT-AT
6456378 ATAT
1 ATAT
6456382 AAATATCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
18 16 0.44
20 20 0.56
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (19 bp):
ATATGTAAACTATAGTTAT
Found at i:6456481 original size:32 final size:33
Alignment explanation
Indices: 6456439--6456535 Score: 117
Period size: 32 Copynumber: 3.0 Consensus size: 33
6456429 TGTTATATAT
*
6456439 AATGAACTATATAATATATAGTTTGTATATACC
1 AATGAACTATATAATATATAGTTTATATATACC
* * * *
6456472 -AT-AGTCTATATATTATATAGGTTATATATACT
1 AATGA-ACTATATAATATATAGTTTATATATACC
*
6456504 AATGAACTATATAATATATAGTTTACATATAC
1 AATGAACTATATAATATATAGTTTATATATAC
6456536 TATATAGTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
31 1 0.02
32 25 0.48
33 25 0.48
34 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (33 bp):
AATGAACTATATAATATATAGTTTATATATACC
Found at i:6456501 original size:18 final size:18
Alignment explanation
Indices: 6456446--6456693 Score: 147
Period size: 18 Copynumber: 14.6 Consensus size: 18
6456436 TATAATGAAC
* *
6456446 TATATAATATATAGTTTG
1 TATATACTATATAGTTTA
* *
6456464 TATATAC--CATAGTCTA
1 TATATACTATATAGTTTA
*
6456480 TATAT--TATATAGGTTA
1 TATATACTATATAGTTTA
*
6456496 TATATACTA-AT-G--AA
1 TATATACTATATAGTTTA
*
6456510 CTATATAATATATAGTTTA
1 -TATATACTATATAGTTTA
*
6456529 CATATACTATATAGTTTA
1 TATATACTATATAGTTTA
*
6456547 TATATACTA-AT-G--AA
1 TATATACTATATAGTTTA
*
6456561 CTATA-AATATATAGTTTA
1 -TATATACTATATAGTTTA
**
6456579 TATATACTA-ATCA-AATA
1 TATATACTATAT-AGTTTA
* *
6456596 TATATAATGTATAGTTTA
1 TATATACTATATAGTTTA
*
6456614 TATATACCATATAGTTTA
1 TATATACTATATAGTTTA
*
6456632 TATATATTATATAGTTTA
1 TATATACTATATAGTTTA
**
6456650 TATATA-T-TA-A-TGAA
1 TATATACTATATAGTTTA
*
6456664 CTATATAATATATAGTTTA
1 -TATATACTATATAGTTTA
*
6456683 TATATAATATA
1 TATATACTATA
6456694 GTATAAATTA
Statistics
Matches: 175, Mismatches: 32, Indels: 46
0.69 0.13 0.18
Matches are distributed among these distances:
14 7 0.04
15 21 0.12
16 30 0.17
17 24 0.14
18 90 0.51
19 3 0.02
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (18 bp):
TATATACTATATAGTTTA
Found at i:6456541 original size:83 final size:85
Alignment explanation
Indices: 6456447--6456637 Score: 237
Period size: 83 Copynumber: 2.3 Consensus size: 85
6456437 ATAATGAACT
* * * * *
6456447 ATATAATATATAGTTTGTATATACC-AT-AGTCTATATATTATATAGGTTATATATACTAAT-GA
1 ATATACTATATAGTTTATATATACCAATGA-ACTATA-AATATATAGGTTATATATACTAATCAA
*
6456509 A-CTATATAATATATAGTTTAC
64 ATATATATAATATATAGTTTAC
* *
6456530 ATATACTATATAGTTTATATATACTAATGAACTATAAATATATAGTTTATATATACTAATCAAAT
1 ATATACTATATAGTTTATATATACCAATGAACTATAAATATATAGGTTATATATACTAATCAAAT
* *
6456595 ATATATAATGTATAGTTTAT
66 ATATATAATATATAGTTTAC
*
6456615 ATATACCATATAGTTTATATATA
1 ATATACTATATAGTTTATATATA
6456638 TTATATAGTT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
83 44 0.47
84 9 0.10
85 40 0.43
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (85 bp):
ATATACTATATAGTTTATATATACCAATGAACTATAAATATATAGGTTATATATACTAATCAAAT
ATATATAATATATAGTTTAC
Found at i:6456792 original size:2 final size:2
Alignment explanation
Indices: 6456775--6456851 Score: 59
Period size: 2 Copynumber: 37.0 Consensus size: 2
6456765 ATATGTAAAT
*
6456775 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * *
6456818 TA TA AA TA TA AA T- TA TA GTA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
6456852 GGTTGTAACA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
1 2 0.03
2 49 0.82
3 9 0.15
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6456812 original size:22 final size:21
Alignment explanation
Indices: 6456751--6456849 Score: 76
Period size: 20 Copynumber: 4.6 Consensus size: 21
6456741 TTTATTTGGT
* * *
6456751 TTTATATATAGTTAATATGTAA
1 TTTATATATA-TAAATATATAG
* *
6456773 ATTATACTATATAGTATATATAG
1 TTTATA-TATATA-AATATATAG
6456796 TTTATATATAT-AATATATAG
1 TTTATATATATAAATATATAG
* *
6456816 TATATAAATATAAAT-TATAG
1 TTTATATATATAAATATATAG
6456836 TATGTATATATATA
1 T-T-TATATATATA
6456850 TAGGTTGTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
20 23 0.38
21 3 0.05
22 20 0.33
23 15 0.25
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTATATATATAAATATATAG
Found at i:6457725 original size:23 final size:23
Alignment explanation
Indices: 6457699--6457743 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6457689 CACCACAGCT
6457699 CATATAATTACACCGAAGTGCCA
1 CATATAATTACACCGAAGTGCCA
* *
6457722 CATATAATTGCACCGGAGTGCC
1 CATATAATTACACCGAAGTGCC
6457744 GCGTAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (23 bp):
CATATAATTACACCGAAGTGCCA
Found at i:6457753 original size:23 final size:23
Alignment explanation
Indices: 6457699--6457767 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
6457689 CACCACAGCT
* *
6457699 CATATAATTACACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * *
6457722 CATATAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
* * *
6457745 CGTAGAATTGCATCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
6457768 TATAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:6457954 original size:103 final size:103
Alignment explanation
Indices: 6457783--6458000 Score: 384
Period size: 103 Copynumber: 2.1 Consensus size: 103
6457773 TAATGTCCAT
*
6457783 AAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
*
6457848 GACTTCACACATGTTCCAAAGAATACCTATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
6457886 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-GTGAAGGATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACT-AAGGATCAAGTATGTGTCTCACC
6457950 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
6457989 AAGGACCACATA
1 AAGGACCACATA
6458001 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 1 0.01
103 109 0.99
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCATTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:6458862 original size:64 final size:64
Alignment explanation
Indices: 6458786--6458942 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 64
6458776 TTCCCTATCG
* * ** *
6458786 GTGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTTGTT-TATT-ACTGG
1 GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTT-TTAGATTAAAAGA
* * * * *
6458849 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAG
6458913 A
64 A
6458914 GTGCATCGATGCACTACCTGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
6458943 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
63 6 0.08
64 65 0.84
65 6 0.08
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:6463581 original size:23 final size:23
Alignment explanation
Indices: 6463555--6463632 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
6463545 CACCACAACT
6463555 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
6463578 CATATAATTGCACCGGAA-TGCCG
1 CATATAATTGCACC-GAAGTGCCA
* * *
6463601 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
6463624 TATAATAAT
1 CAT-ATAAT
6463633 GTCCATAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.05
23 35 0.80
24 7 0.16
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:6463810 original size:103 final size:103
Alignment explanation
Indices: 6463639--6463856 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
6463629 TAATGTCCAT
* *
6463639 AAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
6463704 GACTTCACACATGTTCCAAAGAATACCTATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
6463742 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
6463807 GACTTCACACATGTTCTAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
6463845 AAAGACCACATA
1 AAGGACCACATA
6463857 GACCCTCGAC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCATTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:6465691 original size:18 final size:17
Alignment explanation
Indices: 6465636--6465729 Score: 79
Period size: 18 Copynumber: 5.4 Consensus size: 17
6465626 TAGTATATAA
*
6465636 ATATCAACTATAG-TAT
1 ATATAAACTATAGTTAT
*
6465652 ATAT--A-TATAGGTCAT
1 ATATAAACTATA-GTTAT
*
6465667 ATGTAAACTATAGTTAGT
1 ATATAAACTATAGTTA-T
6465685 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAG-TTAT
6465705 ATATAAACTATAGTTCAT
1 ATATAAACTATAGTT-AT
6465723 ATATAAA
1 ATATAAA
6465730 TATCAACTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.06
14 2 0.03
15 5 0.08
16 4 0.06
17 6 0.09
18 26 0.41
20 14 0.22
21 3 0.05
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (17 bp):
ATATAAACTATAGTTAT
Found at i:6465712 original size:38 final size:38
Alignment explanation
Indices: 6465655--6465773 Score: 124
Period size: 38 Copynumber: 3.2 Consensus size: 38
6465645 ATAGTATATA
* * *
6465655 TATATAGGTCATATGTAAACTATAGTT-AGTATATAAAC
1 TATATAGTTTATATATAAACTATAGTTCA-TATATAAAC
6465693 TATATAGTTTATATATAAACTATAGTTCATATATAAA-
1 TATATAGTTTATATATAAACTATAGTTCATATATAAAC
* *
6465730 TATCA-ACTTTAGTATAT--A-TATAGTTCATATGTAAAC
1 TAT-ATAGTTTA-TATATAAACTATAGTTCATATATAAAC
6465766 TATATAGT
1 TATATAGT
6465774 ATGTTATATA
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
35 17 0.24
36 6 0.09
37 8 0.11
38 38 0.54
39 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (38 bp):
TATATAGTTTATATATAAACTATAGTTCATATATAAAC
Found at i:6465725 original size:20 final size:19
Alignment explanation
Indices: 6465665--6465727 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
6465655 TATATAGGTC
*
6465665 ATATGTAAACTATAGTTA-
1 ATATATAAACTATAGTTAT
*
6465683 GTATATAAACTATATAGTT-T
1 ATATATAAAC--TATAGTTAT
6465703 ATATATAAACTATAGTTCAT
1 ATATATAAACTATAGTT-AT
6465723 ATATA
1 ATATA
6465728 AATATCAACT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 15 0.41
20 22 0.59
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (19 bp):
ATATATAAACTATAGTTAT
Found at i:6465737 original size:24 final size:24
Alignment explanation
Indices: 6465705--6465751 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6465695 TATAGTTTAT
6465705 ATATAAACTATAGT-TCATATATAA
1 ATATAAACTATAGTAT-ATATATAA
* *
6465729 ATATCAACTTTAGTATATATATA
1 ATATAAACTATAGTATATATATA
6465752 GTTCATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATAAACTATAGTATATATATAA
Found at i:6465799 original size:91 final size:91
Alignment explanation
Indices: 6465629--6465810 Score: 221
Period size: 91 Copynumber: 2.0 Consensus size: 91
6465619 AATTATATAG
6465629 TATATAAATATCAACTATAGTATATATATATAGGTCATATGTAAACTATAGTTAGTATATAAACT
1 TATATAAATATCAACTATAG-ATATATATATAGGTCATATGTAAACTATAG-TAGTATATAAACT
*
6465694 ATATAGTTTATATATAA-ACTATAGTTCA
64 ATATAGTTAATATATAATA-TATAGTTCA
* * * *
6465722 TATATAAATATCAACTTTAG-TATATATATAGTTCATATGTAAACTATA-TAGTATGT-TA-TAT
1 TATATAAATATCAACTATAGATATATATATAGGTCATATGTAAACTATAGTAGTATATAAACTAT
6465783 ATAGTAATGAACTATATAATATATAGTT
66 ATAGT--T-AA-TATATAATATATAGTT
6465811 TGTATATATC
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
87 8 0.10
88 1 0.01
89 8 0.10
90 1 0.01
91 41 0.52
92 1 0.01
93 19 0.24
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (91 bp):
TATATAAATATCAACTATAGATATATATATAGGTCATATGTAAACTATAGTAGTATATAAACTAT
ATAGTTAATATATAATATATAGTTCA
Found at i:6465832 original size:16 final size:15
Alignment explanation
Indices: 6465794--6465883 Score: 58
Period size: 16 Copynumber: 5.6 Consensus size: 15
6465784 TAGTAATGAA
6465794 CTATATAATATATAGT
1 CTATAT-ATATATAGT
* *
6465810 TTGTATATATCATAGT
1 CTATATATAT-ATAGT
6465826 CTATATATTATATAGGT
1 CTATATA-TATATA-GT
*
6465843 -TATATATACTA-ATGAA
1 CTATATATA-TATA-G-T
6465859 CTATATAATATATAGT
1 CTATAT-ATATATAGT
*
6465875 TTATATATA
1 CTATATATA
6465884 CTAATAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
15 11 0.19
16 30 0.52
17 13 0.22
18 4 0.07
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (15 bp):
CTATATATATATAGT
Found at i:6465850 original size:18 final size:18
Alignment explanation
Indices: 6465827--6466041 Score: 146
Period size: 18 Copynumber: 12.4 Consensus size: 18
6465817 TATCATAGTC
*
6465827 TATATATTATATAGGTTA
1 TATATATTATATAGTTTA
* *
6465845 TATATACTA-AT-G--AA
1 TATATATTATATAGTTTA
*
6465859 CTATATAATATATAGTTTA
1 -TATATATTATATAGTTTA
* ***
6465878 TATATACTA-ATAAAATA
1 TATATATTATATAGTTTA
* *
6465895 TATATAATGTATAGTTTA
1 TATATATTATATAGTTTA
**
6465913 TATATACCATATAGTTTA
1 TATATATTATATAGTTTA
6465931 TATATATTATATAGTTTA
1 TATATATTATATAGTTTA
*
6465949 TATATATTA-AT-G--AA
1 TATATATTATATAGTTTA
*
6465963 CTATATAATATATAGTTTA
1 -TATATATTATATAGTTTA
6465982 TATATATTATATAGTTTA
1 TATATATTATATAGTTTA
* *
6466000 TATGTA--ATATAGTATA
1 TATATATTATATAGTTTA
* * *
6466016 AATTATTTTATATAGTATA
1 TA-TATATTATATAGTTTA
*
6466035 TAAATAT
1 TATATAT
6466042 CAACTATAGT
Statistics
Matches: 153, Mismatches: 30, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
14 2 0.01
15 16 0.10
16 16 0.10
17 20 0.13
18 86 0.56
19 13 0.08
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (18 bp):
TATATATTATATAGTTTA
Found at i:6465865 original size:2 final size:2
Alignment explanation
Indices: 6465860--6466162 Score: 57
Period size: 2 Copynumber: 148.0 Consensus size: 2
6465850 ACTAATGAAC
* *
6465860 TA TA TA -A TA TA TA GTT TA TA TA TA CTA -A TA -A AA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
6465901 -A TG TA TA GTT TA TA TA TA CCA TA TA GTT TA TA TA TA T- TA TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* *
6465942 TA GTT TA TA TA TA T- TA -A TGA -A CTA TA TA -A TA TA TA GTT TA
1 TA -TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA -TA TA
* * *
6465982 TA TA TA T- TA TA TA GTT TA TA TG TA -A TA TA GTA TA AA T- TA T-
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * *
6466022 TT TA TA TA GTA TA TA AA TA TCA -A CTA TA GTA TA TA GTT TA TT TGG
1 TA TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA TA T-A
* * *
6466067 T- TT TA TA TA TA GT- TCA TA TG TA AA T- TA TA CTA TA TA GTA TA
1 TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA -TA TA TA -TA TA
* * *
6466108 TA TA GTT TA TA TA TA TA -A TA TA TA GTA TA TA AA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
6466150 TA GTA TA TA TA TA
1 TA -TA TA TA TA TA
6466163 GGTCATATGT
Statistics
Matches: 219, Mismatches: 39, Indels: 86
0.64 0.11 0.25
Matches are distributed among these distances:
1 18 0.08
2 168 0.77
3 33 0.15
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6465871 original size:33 final size:33
Alignment explanation
Indices: 6465777--6465987 Score: 221
Period size: 33 Copynumber: 6.3 Consensus size: 33
6465767 ATATAGTATG
*
6465777 TTATATATAGTAATGAACTATATAATATATAGT
1 TTATATATACTAATGAACTATATAATATATAGT
* * * * *
6465810 TTGTATATA-TCAT-AGTCTATATATTATATAGG
1 TTATATATACTAATGA-ACTATATAATATATAGT
6465842 TTATATATACTAATGAACTATATAATATATAGT
1 TTATATATACTAATGAACTATATAATATATAGT
* * *
6465875 TTATATATACTAATAAAATATATATAATGTATAGT
1 TTATATATACTAAT-GAA-CTATATAATATATAGT
** *
6465910 TTATATATACCATATAGTTTA-TATATATTATATAGT
1 TTATATATA-C-TA-A-TGAACTATATAATATATAGT
*
6465946 TTATATATATTAATGAACTATATAATATATAGT
1 TTATATATACTAATGAACTATATAATATATAGT
6465979 TTATATATA
1 TTATATATA
6465988 TTATATAGTT
Statistics
Matches: 147, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.01
32 27 0.18
33 63 0.43
34 5 0.03
35 23 0.16
36 23 0.16
37 2 0.01
38 2 0.01
39 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (33 bp):
TTATATATACTAATGAACTATATAATATATAGT
Found at i:6465933 original size:9 final size:9
Alignment explanation
Indices: 6465921--6466002 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
6465911 TATATATACC
6465921 ATATAGTTT
1 ATATAGTTT
6465930 ATATA-TATT
1 ATATAGT-TT
6465939 ATATAGTTT
1 ATATAGTTT
6465948 ATATA-TATT
1 ATATAGT-TT
**
6465957 A-AT-GAACT
1 ATATAG-TTT
*
6465965 ATATA--AT
1 ATATAGTTT
6465972 ATATAGTTT
1 ATATAGTTT
6465981 ATATA-TATT
1 ATATAGT-TT
6465990 ATATAGTTT
1 ATATAGTTT
6465999 ATAT
1 ATAT
6466003 GTAATATAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 22
0.69 0.05 0.26
Matches are distributed among these distances:
7 6 0.10
8 7 0.12
9 43 0.74
10 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (9 bp):
ATATAGTTT
Found at i:6465965 original size:104 final size:100
Alignment explanation
Indices: 6465795--6465987 Score: 296
Period size: 104 Copynumber: 1.9 Consensus size: 100
6465785 AGTAATGAAC
* * *
6465795 TATATAATATATAGTTTGTATATATCATAGTCTATATATTATATAGGTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACCATAGTATATATATTATATAGGTTATATATACTAATGAAC
6465860 TATATAATATATAGTTTATATATACTAATAAAATA
66 TATATAATATATAGTTTATATATACTAATAAAATA
* * *
6465895 TATATAATGTATAGTTTATATATACCATATAGTTTATATATATTATATAGTTTATATATATTAAT
1 TATATAATATATAGTTTATATATACC--ATAG--TATATATATTATATAGGTTATATATACTAAT
6465960 GAACTATATAATATATAGTTTATATATA
62 GAACTATATAATATATAGTTTATATATA
6465988 TTATATAGTT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
100 23 0.28
102 4 0.05
104 56 0.67
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (100 bp):
TATATAATATATAGTTTATATATACCATAGTATATATATTATATAGGTTATATATACTAATGAAC
TATATAATATATAGTTTATATATACTAATAAAATA
Found at i:6465977 original size:69 final size:71
Alignment explanation
Indices: 6465795--6466010 Score: 216
Period size: 69 Copynumber: 3.2 Consensus size: 71
6465785 AGTAATGAAC
* * * * * *
6465795 TATATAATATATAGTTTGTATATA-TCAT--AGTCTATATATTATATAGGTTATATATA-C-TA-
1 TATATAATATATAGTTTATATATACTAATAAAATATATATAATATATAGTTTATATATACCATAT
**
6465854 A-TGAA
66 AGTTTA
*
6465859 CTATATAATATATAGTTTATATATACTAATAAAATATATATAATGTATAGTTTATATATACCATA
1 -TATATAATATATAGTTTATATATACTAATAAAATATATATAATATATAGTTTATATATACCATA
6465924 TAGTTTA
65 TAGTTTA
* * * * **
6465931 TATATATTATATAGTTTATATATATTAAT-GAA-CTATATAATATATAGTTTATATATATTATAT
1 TATATAATATATAGTTTATATATACTAATAAAATATATATAATATATAGTTTATATATACCATAT
6465994 AGTTTA
66 AGTTTA
*
6466000 TATGTAATATA
1 TATATAATATA
6466011 GTATAAATTA
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
65 23 0.18
66 3 0.02
68 23 0.18
69 43 0.34
70 4 0.03
71 28 0.22
72 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (71 bp):
TATATAATATATAGTTTATATATACTAATAAAATATATATAATATATAGTTTATATATACCATAT
AGTTTA
Found at i:6466009 original size:16 final size:17
Alignment explanation
Indices: 6465649--6466012 Score: 167
Period size: 18 Copynumber: 20.8 Consensus size: 17
6465639 TCAACTATAG
* *
6465649 TATATATATATAGGTCA
1 TATATATATATAGTTTA
* *
6465666 TATGTAAACTATAGTTAGTA
1 TATATATA-TATAGTT--TA
*
6465686 TATAAACTATATAGTTTA
1 TATATA-TATATAGTTTA
* *
6465704 TATATAAACTATAGTTCA
1 TATATATA-TATAGTTTA
* *
6465722 TATATAAATATCAACTTTA
1 TATATATATAT--AGTTTA
*
6465741 -GTATATATATAGTTCATA
1 TATATATATATAGTT--TA
* * * *
6465759 TGTAAACTATATAGTATG
1 TATATA-TATATAGTTTA
* **
6465777 T-TATATATAGTAATGAA
1 TATATATATA-TAGTTTA
*
6465794 CTATATAATATATAGTTTG
1 -TATAT-ATATATAGTTTA
* *
6465813 TATATAT-CATAGTCTA
1 TATATATATATAGTTTA
*
6465829 TATAT-TATATAGGTTA
1 TATATATATATAGTTTA
**
6465845 TATATACTA-AT-GAACTA
1 TATATA-TATATAG-TTTA
6465862 TATA-ATATATAGTTTA
1 TATATATATATAGTTTA
***
6465878 TATATACTA-ATAAAATA
1 TATATA-TATATAGTTTA
*
6465895 TATATAATGTATAGTTTA
1 TATAT-ATATATAGTTTA
*
6465913 TATATACCATATAGTTTA
1 TATATA-TATATAGTTTA
6465931 TATATATTATATAGTTTA
1 TATATA-TATATAGTTTA
**
6465949 TATATAT-TA-A-TGAA
1 TATATATATATAGTTTA
6465963 CTATATAATATATAGTTTA
1 -TATAT-ATATATAGTTTA
6465982 TATATATTATATAGTTTA
1 TATATA-TATATAGTTTA
*
6466000 TATGTA-ATATAGT
1 TATATATATATAGT
6466013 ATAAATTATT
Statistics
Matches: 262, Mismatches: 53, Indels: 65
0.69 0.14 0.17
Matches are distributed among these distances:
14 2 0.01
15 9 0.03
16 50 0.19
17 44 0.17
18 115 0.44
19 16 0.06
20 25 0.10
21 1 0.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (17 bp):
TATATATATATAGTTTA
Found at i:6466029 original size:104 final size:103
Alignment explanation
Indices: 6465827--6466041 Score: 270
Period size: 104 Copynumber: 2.1 Consensus size: 103
6465817 TATCATAGTC
6465827 TATATATTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATAAA
1 TATATATTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATAAA
* * *
6465892 ATATATATAATGTATAGTTTATATATACCATATAGTTTA
66 ATATATATAA-GTATAGTATAAATATACCATATAGTATA
* * * *
6465931 TATATATTATATAGTTTATATATATTAATGAACTATATAATATATAGTTTATATATATTATATAG
1 TATATATTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATACTA-ATAA
** * ***
6465996 TTTATATGTAA-TATAGTATAAATTATTTTATATAGTATA
65 AATATATATAAGTATAGTATAAA-TATACCATATAGTATA
*
6466035 TAAATAT
1 TATATAT
6466042 CAACTATAGT
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 9 0.09
104 75 0.79
105 11 0.12
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (103 bp):
TATATATTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATAAA
ATATATATAAGTATAGTATAAATATACCATATAGTATA
Found at i:6466036 original size:51 final size:50
Alignment explanation
Indices: 6465827--6466002 Score: 167
Period size: 51 Copynumber: 3.4 Consensus size: 50
6465817 TATCATAGTC
* * *
6465827 TATATATTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTA
1 TATATATTATATAGTTTATATATATTAATGAAATATATAATATATAG-TTA
* *** ** **
6465878 TATATACTA-ATAAAATATATATAATGT-ATAGTTTATATATACCATATAGTTTA
1 TATATATTATATAGTTTATATAT-AT-TAAT-G-AAATATATAATATATAG-TTA
*
6465931 TATATATTATATAGTTTATATATATTAATGAACTATATAATATATAGTTTA
1 TATATATTATATAGTTTATATATATTAATGAAATATATAATATATAG-TTA
6465982 TATATATTATATAGTTTATAT
1 TATATATTATATAGTTTATAT
6466003 GTAATATAGT
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
50 10 0.10
51 48 0.48
52 4 0.04
53 28 0.28
54 10 0.10
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (50 bp):
TATATATTATATAGTTTATATATATTAATGAAATATATAATATATAGTTA
Found at i:6466111 original size:9 final size:9
Alignment explanation
Indices: 6466097--6466160 Score: 51
Period size: 9 Copynumber: 6.7 Consensus size: 9
6466087 TAAATTATAC
6466097 TATATAGTA
1 TATATAGTA
6466106 TATATAGTTTA
1 TATATAG--TA
6466117 TATATA-TAA
1 TATATAGT-A
6466126 TATATAGTA
1 TATATAGTA
6466135 TATAAATA-TA
1 TAT--ATAGTA
*
6466145 AACTATAGTA
1 TA-TATAGTA
6466155 TATATA
1 TATATA
6466161 TAGGTCATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
8 1 0.02
9 25 0.56
10 7 0.16
11 12 0.27
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (9 bp):
TATATAGTA
Found at i:6466113 original size:34 final size:36
Alignment explanation
Indices: 6466070--6466138 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
6466060 TATTTGGTTT
*
6466070 TATATATAGTTCATATGTA-AAT-TATACTATATAG
1 TATATATAGTTCATATATATAATATATACTATATAG
* *
6466104 TATATATAGTTTATATATATAATATATAGTATATA
1 TATATATAGTTCATATATATAATATATACTATATA
6466139 AATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATAGTTCATATATATAATATATACTATATAG
Found at i:6466136 original size:18 final size:18
Alignment explanation
Indices: 6466105--6466162 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 18
6466095 ACTATATAGT
6466105 ATATATAGTTTATATATATA
1 ATATATAG--TATATATATA
6466125 ATATATAGTATATAAATATA
1 ATATATAGTATAT--ATATA
6466145 A-ACTATAGTATATATATA
1 ATA-TATAGTATATATATA
6466163 GGTCATATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 10 0.29
19 1 0.03
20 24 0.69
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATATAGTATATATATA
Found at i:6466175 original size:29 final size:28
Alignment explanation
Indices: 6466070--6466286 Score: 102
Period size: 29 Copynumber: 7.6 Consensus size: 28
6466060 TATTTGGTTT
* *
6466070 TATATATAGTTCATATGTAAATTATACTA
1 TATATATAG-TCATATGTAAACTATAGTA
* *
6466099 TATAGTATA-T-ATAGTTTATATA-TATAATA
1 TATA-TATAGTCATA-TGTA-A-ACTATAGTA
* *
6466128 TATAGTATA-T-AAATATAAACTATAGTA
1 TATA-TATAGTCATATGTAAACTATAGTA
6466155 TATATATAGGTCATATGTAAACTATA-TA
1 TATATATA-GTCATATGTAAACTATAGTA
*
6466183 TATA-A-A---ATA--TCAACTATAGTA
1 TATATATAGTCATATGTAAACTATAGTA
*
6466204 TATATATAGGTCACATGTAAACTATATAGTTTATA
1 TATATATA-GTCATATGTAAAC--TATAG----TA
*
6466239 TATATATATTTCATATGTAAACTATAGTTCA
1 TATATATA-GTCATATGTAAACTATAG-T-A
6466270 TATATATAGT-ATATGTA
1 TATATATAGTCATATGTA
6466287 TATAAACTAT
Statistics
Matches: 149, Mismatches: 15, Indels: 48
0.70 0.07 0.23
Matches are distributed among these distances:
20 8 0.05
21 6 0.04
22 4 0.03
23 1 0.01
26 6 0.04
27 17 0.11
28 14 0.09
29 46 0.31
30 7 0.05
31 14 0.09
33 5 0.03
35 21 0.14
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (28 bp):
TATATATAGTCATATGTAAACTATAGTA
Found at i:6466210 original size:49 final size:51
Alignment explanation
Indices: 6466087--6466244 Score: 191
Period size: 49 Copynumber: 3.2 Consensus size: 51
6466077 AGTTCATATG
* * * *
6466087 TAAAT-TATACTATA-TAGTATATATAGTTTATATATATAA-TATATAGTATA
1 TAAATATAAACTATAGTA-TATATATAGGTCATATGTA-AACTATATAGTATA
6466137 TAAATATAAACTATAGTATATATATAGGTCATATGTAAACTATATA-TATA
1 TAAATATAAACTATAGTATATATATAGGTCATATGTAAACTATATAGTATA
* * *
6466187 -AAATATCAACTATAGTATATATATAGGTCACATGTAAACTATATAGTTTA
1 TAAATATAAACTATAGTATATATATAGGTCATATGTAAACTATATAGTATA
*
6466237 TATATATA
1 TAAATATA
6466245 TATTTCATAT
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
49 43 0.46
50 14 0.15
51 35 0.37
52 2 0.02
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (51 bp):
TAAATATAAACTATAGTATATATATAGGTCATATGTAAACTATATAGTATA
Found at i:6466244 original size:33 final size:33
Alignment explanation
Indices: 6466202--6466306 Score: 99
Period size: 35 Copynumber: 3.1 Consensus size: 33
6466192 TCAACTATAG
6466202 TATATATATAGGTCACATGTAAACTATATAGTTTA
1 TATATATATAGGTCACATGTAAAC--TATAGTTTA
** *
6466237 TATATATATATTTCATATGTAAACTATAGTTCATA
1 TATATATATAGGTCACATGTAAACTATAGTT--TA
* *
6466272 TATATAGTATATGT---ATATAAACTATAGTTTA
1 TATATA-TATAGGTCACATGTAAACTATAGTTTA
6466303 TATA
1 TATA
6466307 AATAGTATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
31 6 0.10
33 21 0.34
35 29 0.47
36 6 0.10
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (33 bp):
TATATATATAGGTCACATGTAAACTATAGTTTA
Found at i:6466257 original size:35 final size:33
Alignment explanation
Indices: 6466197--6466316 Score: 116
Period size: 33 Copynumber: 3.5 Consensus size: 33
6466187 AAATATCAAC
*
6466197 TATAGTATATATATAGGTCACATGTAAACTATATAGTT
1 TATA-TATATATATA--TCATATGTAAAC--TATAGTT
*
6466235 TATATATATATATTTCATATGTAAACTATAGTT
1 TATATATATATATATCATATGTAAACTATAGTT
* * *
6466268 CATATATATAGTATAT-GTATATAAACTATAGTT
1 TATATATATA-TATATCATATGTAAACTATAGTT
*
6466301 TATATAAATAGTATAT
1 TATATATATA-TATAT
6466317 AAATATAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
33 45 0.62
34 4 0.05
35 11 0.15
37 9 0.12
38 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (33 bp):
TATATATATATATATCATATGTAAACTATAGTT
Found at i:6466368 original size:29 final size:30
Alignment explanation
Indices: 6466312--6466389 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
6466302 ATATAAATAG
6466312 TATATAAATATAAAT-T-ATAGTATGTAGTT
1 TATATAAATATAAATATAATAGTA-GTAGTT
*
6466341 TATATAAATATAAATATAATTGTA-TAGTT
1 TATATAAATATAAATATAATAGTAGTAGTT
* *
6466370 TATATATAATTTATATATAA
1 TATATA-AATATAAATATAA
6466390 ACTATGTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 26 0.60
30 12 0.28
31 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.46
Consensus pattern (30 bp):
TATATAAATATAAATATAATAGTAGTAGTT
Found at i:6466477 original size:27 final size:28
Alignment explanation
Indices: 6466403--6466491 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
6466393 ATGTAGGTTC
* * * *
6466403 TATATAGTTCAATAGTTCATATATAA-A
1 TATATAGTACTATAGTTTATACATAATA
* **
6466430 CTATATAGTATTATAGTTTATACATGGTA
1 -TATATAGTACTATAGTTTATACATAATA
6466459 TATATAG-ACTATAGTTTATACATAATA
1 TATATAGTACTATAGTTTATACATAATA
6466486 TATATA
1 TATATA
6466492 TAAACTATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 23 0.46
28 26 0.52
29 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (28 bp):
TATATAGTACTATAGTTTATACATAATA
Found at i:6466511 original size:22 final size:21
Alignment explanation
Indices: 6466486--6466557 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 21
6466476 ATACATAATA
6466486 TATATATAAACTATATAGTTT
1 TATATATAAACTATATAGTTT
*
6466507 GTATATATAATAC-ATATA-CTT
1 -TATATATAA-ACTATATAGTTT
6466528 TATATATAAACTATATAGTTT
1 TATATATAAACTATATAGTTT
*
6466549 ATTTATATA
1 -TATATATA
6466558 TATATATTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
19 2 0.05
20 14 0.33
21 4 0.09
22 21 0.49
23 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (21 bp):
TATATATAAACTATATAGTTT
Found at i:6466513 original size:20 final size:20
Alignment explanation
Indices: 6466486--6466555 Score: 88
Period size: 20 Copynumber: 3.4 Consensus size: 20
6466476 ATACATAATA
6466486 TATATATAAACTATATAGTTT
1 TATATATAAACTATATAG-TT
*
6466507 GTATATATAATAC-ATATACTT
1 -TATATATAA-ACTATATAGTT
6466528 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
6466548 TATTTATA
1 TATATATA
6466556 TATATATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
19 2 0.05
20 23 0.53
21 2 0.05
22 14 0.33
23 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:6466524 original size:33 final size:32
Alignment explanation
Indices: 6466221--6466524 Score: 151
Period size: 33 Copynumber: 9.0 Consensus size: 32
6466211 AGGTCACATG
* *
6466221 TAAACTATATAGTTTATATATATATATTTCATATG
1 TAAACT-TATAGTTTATATATATA-ATAT-ATATA
* *
6466256 TAAAC-TATAGTTCATATATATAGTATATGTATA
1 TAAACTTATAGTTTATATATATA--ATATATATA
* *
6466289 TAAAC-TATAGTTTATATAAATAGTATATAAATA
1 TAAACTTATAGTTTATATATATA--ATATATATA
* *
6466322 TAAA-TTATAGTATGTAGTTTATATAA-ATATAAA
1 TAAACTTATAGT-T-TA-TATATATAATATATATA
* *
6466355 TATAATTGTATAG-TT-TATATATAATTTATATA
1 TA-AACT-TATAGTTTATATATATAATATATATA
*
6466387 TAAACTATGTAGGTTCTATATAGT-TCAATAGTTCATATA
1 TAAACT-TATA-GTT-TATATA-TAT-AATA--T-ATATA
* *
6466426 TAAACTATATAGTATTATAGTTTATACATGGTATATA
1 TAAACT-TATAGT-TTATA-TATATA-AT-ATATATA
* *
6466463 TAGAC-TATAG-TT-TATACATAATATATATA
1 TAAACTTATAGTTTATATATATAATATATATA
* *
6466492 TAAACTATATAGTTTGTATATATAATACATATA
1 TAAACT-TATAGTTTATATATATAATATATATA
6466525 CTTTATATAT
Statistics
Matches: 213, Mismatches: 29, Indels: 56
0.71 0.10 0.19
Matches are distributed among these distances:
29 10 0.05
30 2 0.01
31 23 0.11
32 12 0.06
33 84 0.39
34 10 0.05
35 18 0.08
36 15 0.07
37 9 0.04
38 10 0.05
39 20 0.09
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (32 bp):
TAAACTTATAGTTTATATATATAATATATATA
Found at i:6467174 original size:216 final size:214
Alignment explanation
Indices: 6466637--6467333 Score: 1100
Period size: 216 Copynumber: 3.3 Consensus size: 214
6466627 TGATCCCTTT
* * *
6466637 TGTGTTGTTTAATTTATTAAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCACA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
6466702 TTTTATTTGCATATGAAATTGACTCATACTTATTACTTATTTCTATTTATTAATTGGCCCATAAC
66 TTTTATTTGCATATGAAATTGAC-CATACTTATTACTTATTTCTATTT-TTAATTGGCCCATAAC
* * *
6466767 TTTTTAAATGAGTATAATTTAGTACATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTT
129 TTTTTAAATGAGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
6466832 CGATTTGATCCCT--T---T-
194 CGATTTGATCCCTCATCAATG
* * * *
6466847 TGTGTTGTTTAGTTTATTTAATTTTTTATTTGTTATTTTATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* *
6466912 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGACCCATAAC
66 TTTTATTTGCATATGAAATTGA-CCATACTTATTACTTATTTCTATTTTT-AATTGGCCCATAAC
* *
6466977 TTTTTAAATGTGTATAATCTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
129 TTTTTAAATGAGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
6467042 CGATTTGATCCCTCATCAATG
194 CGATTTGATCCCTCATCAATG
* *
6467063 TGTGTTGTTTAATTAATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTATTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* *
6467128 TTTTATTTGCATATGAAATTGATCCATACTTTTTACTTAATTCTATTTTTTAATTGGCCCATAAC
66 TTTTATTTGCATATGAAATTGA-CCATACTTATTACTTATTTCTA-TTTTTAATTGGCCCATAAC
* * *
6467193 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACACCACAATTAAAAATTATTT
129 TTTTTAAATGAGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
6467258 CGATTTGATCCCTCATCAATG
194 CGATTTGATCCCTCATCAATG
*
6467279 AGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
6467334 ATTCTTAAAT
Statistics
Matches: 447, Mismatches: 31, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
209 2 0.00
210 189 0.42
211 1 0.00
212 1 0.00
215 1 0.00
216 248 0.55
217 5 0.01
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (214 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATATGAAATTGACCATACTTATTACTTATTTCTATTTTTAATTGGCCCATAACTT
TTTAAATGAGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCG
ATTTGATCCCTCATCAATG
Found at i:6469087 original size:2 final size:2
Alignment explanation
Indices: 6469080--6469117 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6469070 GTGGAAATTA
6469080 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6469118 TATTAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6469136 original size:13 final size:13
Alignment explanation
Indices: 6469120--6469144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6469110 ATATATATTA
6469120 TTAATATAAAATT
1 TTAATATAAAATT
6469133 TTAATATAAAAT
1 TTAATATAAAAT
6469145 AAATATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAATATAAAATT
Found at i:6469154 original size:6 final size:6
Alignment explanation
Indices: 6469079--6469173 Score: 52
Period size: 6 Copynumber: 15.8 Consensus size: 6
6469069 AGTGGAAATT
* * * * * * *
6469079 AATATA TATATA TATATA TATATA TATATA TATATA TATTATT AATATAA
1 AATATA AATATA AATATA AATATA AATATA AATATA -AATATA AATAT-A
* * *
6469129 AATTTT AATATA AA-ATA AATATA AATA-A AATTTTA AA-ATA AATAT
1 AATATA AATATA AATATA AATATA AATATA AA-TATA AATATA AATAT
6469174 CATCAGTAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
5 12 0.17
6 49 0.69
7 10 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
AATATA
Found at i:6473268 original size:32 final size:32
Alignment explanation
Indices: 6473224--6473284 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
6473214 TGTTCAAAGT
6473224 TTGGCCACCAACCAAGATGAAATTTCCAATAA
1 TTGGCCACCAACCAAGATGAAATTTCCAATAA
*
6473256 TTGGGCACCAACCAAGATGAAATTTCCAA
1 TTGGCCACCAACCAAGATGAAATTTCCAA
6473285 CTTGTCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (32 bp):
TTGGCCACCAACCAAGATGAAATTTCCAATAA
Done.