Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 53 of 343
Found at i:17277461 original size:23 final size:24
Alignment explanation
Indices: 17277394--17277464 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 24
17277384 TAAGAAAAAA
*
17277394 AGTAAT-AAT-GAAA-ATAATATT
1 AGTAATAAATAGAAATATAATAAT
17277415 AGTATATAAATAGAAATA-AA-AAT
1 AGTA-ATAAATAGAAATATAATAAT
17277438 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATAGAAATATAATAAT
17277461 AGTA
1 AGTA
17277465 GAAATATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 17 0.40
22 6 0.14
23 10 0.24
24 8 0.19
25 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (24 bp):
AGTAATAAATAGAAATATAATAAT
Found at i:17277461 original size:29 final size:27
Alignment explanation
Indices: 17277396--17277491 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 27
17277386 AGAAAAAAAG
* * *
17277396 TAATAATGAAAATAATATTAGTATATAAA
1 TAATAAT-AAAA-AATATAAATAGATAAA
17277425 TAGA-AATAAAAATATAATAAATAGA-AATA
1 TA-ATAATAAAAA-AT-ATAAATAGATAA-A
*
17277454 TAATAATAGTAGAAATATAAATAGATAAA
1 TAATAATA--AAAAATATAAATAGATAAA
17277483 TAATAATAA
1 TAATAATAA
17277492 TATTAGAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
27 2 0.04
28 9 0.16
29 36 0.65
30 5 0.09
31 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (27 bp):
TAATAATAAAAAATATAAATAGATAAA
Found at i:17277471 original size:32 final size:32
Alignment explanation
Indices: 17277434--17277499 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
17277424 ATAGAAATAA
17277434 AAATAT-AATAAATAGAA-ATATAATAATAGTAG
1 AAATATAAATAAATA-AATA-ATAATAATAGTAG
* *
17277466 AAATATAAATAGATAAATAATAATAATATTAG
1 AAATATAAATAAATAAATAATAATAATAGTAG
17277498 AA
1 AA
17277500 TAACAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.29
Consensus pattern (32 bp):
AAATATAAATAAATAAATAATAATAATAGTAG
Found at i:17277488 original size:15 final size:14
Alignment explanation
Indices: 17277428--17277488 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
17277418 ATATAAATAG
*
17277428 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
17277443 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
17277458 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
17277472 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
17277487 AA
1 AA
17277489 TAATATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:17277530 original size:23 final size:22
Alignment explanation
Indices: 17277418--17277536 Score: 82
Period size: 23 Copynumber: 5.1 Consensus size: 22
17277408 TAATATTAGT
17277418 ATATAAATAGAAATA-AAAAT-
1 ATATAAATAGAAATATAAAATA
17277438 ATAATAAATAGAAATATAATAATA
1 AT-ATAAATAGAAATATAA-AATA
* * * *
17277462 GTAGAAATATAAATAGATAAATA
1 ATATAAATAGAAATATA-AAATA
*
17277485 ATAATAATATTAG-AATAACAAAATAA
1 AT-ATAA-A-TAGAAAT-ATAAAAT-A
*
17277511 ATATAAATAGAAACATAAAAATA
1 ATATAAATAGAAATAT-AAAATA
17277534 ATA
1 ATA
17277537 GGAATAATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 21
0.71 0.09 0.19
Matches are distributed among these distances:
20 2 0.03
21 13 0.17
22 2 0.03
23 28 0.36
24 13 0.17
25 12 0.16
26 7 0.09
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (22 bp):
ATATAAATAGAAATATAAAATA
Found at i:17278066 original size:5 final size:5
Alignment explanation
Indices: 17278058--17278084 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17278048 CTAATTTAAT
17278058 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
17278085 ATAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:17279065 original size:29 final size:30
Alignment explanation
Indices: 17279020--17279105 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 30
17279010 CTTTTATCAC
17279020 TTTTATAATTTTT-AAAATAAATTTAATGA-
1 TTTTA-AATTTTTAAAAATAAATTTAATGAT
** *
17279049 TTTTAAATTTTTAAAAATATTTTTAA-AAT
1 TTTTAAATTTTTAAAAATAAATTTAATGAT
* * *
17279078 TTTTAAATTTTAAAAAATTAATTAAATG
1 TTTTAAATTTTTAAAAATAAATTTAATG
17279106 TTGAAGTGTC
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
28 8 0.18
29 37 0.82
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
TTTTAAATTTTTAAAAATAAATTTAATGAT
Found at i:17279102 original size:28 final size:29
Alignment explanation
Indices: 17279049--17279103 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
17279039 AATTTAATGA
*
17279049 TTTTAAATTTTTAAAAATATTTTTAAAAT
1 TTTTAAATTTTTAAAAATATTATTAAAAT
17279078 TTTTAAA-TTTTAAAAA-ATTAATTAAA
1 TTTTAAATTTTTAAAAATATT-ATTAAA
17279104 TGTTGAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 3 0.12
28 14 0.58
29 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTTAAATTTTTAAAAATATTATTAAAAT
Found at i:17284607 original size:73 final size:74
Alignment explanation
Indices: 17284419--17284615 Score: 279
Period size: 73 Copynumber: 2.6 Consensus size: 74
17284409 GTTTGTTTAT
* * ** *
17284419 TTTTTACATCAATAATATACTTATTTATAATTTACAAAAAAAAATGAAAATATTGTTTGTATTGT
1 TTTTTACATCAATAATATAATTATTTACAATTTAC--CCAAAAATGAAAATATTGTTTGTATTAT
* *
17284484 ATTTTATTGTA
64 AATCTATTGTA
* * *
17284495 TTTTTACATCAATAATATATTTAGTTACAATTTACCCAAAAATGAAAATTTTGTTTGTATTATAA
1 TTTTTACATCAATAATATAATTATTTACAATTTACCCAAAAATGAAAATATTGTTTGTATTATAA
17284560 TCTATTGTA
66 TCTATTGTA
17284569 -TTTTACATCAATAATATAATTATTTACAATTTACCCAAAAATGAAAA
1 TTTTTACATCAATAATATAATTATTTACAATTTACCCAAAAATGAAAA
17284616 AATATTTTTT
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
73 45 0.41
74 33 0.30
76 32 0.29
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (74 bp):
TTTTTACATCAATAATATAATTATTTACAATTTACCCAAAAATGAAAATATTGTTTGTATTATAA
TCTATTGTA
Found at i:17286264 original size:3 final size:3
Alignment explanation
Indices: 17286200--17286244 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
17286190 AACAAAAGGA
*
17286200 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17286245 GATGATAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17287773 original size:20 final size:20
Alignment explanation
Indices: 17287734--17287771 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17287724 ATTCTGTAAC
17287734 CTCTTTTTTGTATTTCAAAT
1 CTCTTTTTTGTATTTCAAAT
17287754 CTCTTTTTTGTA-TTCAAA
1 CTCTTTTTTGTATTTCAAA
17287772 ATACCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (20 bp):
CTCTTTTTTGTATTTCAAAT
Found at i:17289931 original size:6 final size:6
Alignment explanation
Indices: 17289922--17289949 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17289912 AATAAAAGTA
17289922 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
17289950 CAAATCTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:17292269 original size:26 final size:26
Alignment explanation
Indices: 17292240--17292296 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17292230 TACCAGAGCC
*
17292240 AAAATCGTCT-AAGTTATACCAGGGGT
1 AAAATCGT-TAAAATTATACCAGGGGT
* *
17292266 AAAATCGTTAAAATTTTACTAGGGGT
1 AAAATCGTTAAAATTATACCAGGGGT
17292292 AAAAT
1 AAAAT
17292297 AGGGATGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (26 bp):
AAAATCGTTAAAATTATACCAGGGGT
Found at i:17292771 original size:21 final size:21
Alignment explanation
Indices: 17292745--17292785 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
17292735 TTTCATTTTT
17292745 ACCCTAAAAGGAGAGAACTTC
1 ACCCTAAAAGGAGAGAACTTC
17292766 ACCCTAAAAGGAGAGAACTT
1 ACCCTAAAAGGAGAGAACTT
17292786 TTTCTAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (21 bp):
ACCCTAAAAGGAGAGAACTTC
Found at i:17296922 original size:2 final size:2
Alignment explanation
Indices: 17296911--17296945 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
17296901 GAAATCCAAA
*
17296911 AT AT -T AT AT AT AA 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
17296946 TTGTGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17299354 original size:137 final size:137
Alignment explanation
Indices: 17299101--17299373 Score: 309
Period size: 137 Copynumber: 2.0 Consensus size: 137
17299091 AGCTATAAAA
* * * * *
17299101 TGGGTGTGCTCACACAAGTTGTCAGTCAAAATGTAAGCTACATATGTTGCTCACACAAGCTGTCG
1 TGGGTCTGCTCACACAAGCTGTCAGTCAAAACGTAAGCTACATATGTTACTCACACAAGCTGTCA
** * * * * * *
17299166 AGTATTCGCAACTAATGCCGGACCTCAGCCATCGGTAGGACATTCAAGACCAGCACCCGCAACAT
66 AGTAACCACAACTAATGACGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCCGAAACAT
17299231 GGTAACT
131 GGTAACT
* ** *
17299238 TGGGTCTGCTCACACAAGCTGTCGGTCGGAACGT-AGTTACATAGTGTTACTCACACAAGCTGTC
1 TGGGTCTGCTCACACAAGCTGTCAGTCAAAACGTAAGCTACATA-TGTTACTCACACAAGCTGTC
* * *
17299302 AAGTAACCACAAC-ACATGACGAAAACTCAG-CACCGGTAGGACGTTCAGGACCAGCACCTGAAA
65 AAGTAACCACAACTA-ATGACG-AAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCCGAAA
*
17299365 CATTGTAAC
128 CATGGTAAC
17299374 CCTAATGACA
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
136 9 0.08
137 97 0.87
138 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (137 bp):
TGGGTCTGCTCACACAAGCTGTCAGTCAAAACGTAAGCTACATATGTTACTCACACAAGCTGTCA
AGTAACCACAACTAATGACGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCCGAAACAT
GGTAACT
Found at i:17306822 original size:20 final size:20
Alignment explanation
Indices: 17306794--17306835 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
17306784 AAAAAGACAC
*
17306794 ATAATTATTCAACTAATATT
1 ATAACTATTCAACTAATATT
*
17306814 ATAACTATTCAAGTAATATT
1 ATAACTATTCAACTAATATT
17306834 AT
1 AT
17306836 TTGAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAACTATTCAACTAATATT
Found at i:17311125 original size:57 final size:57
Alignment explanation
Indices: 17311062--17311176 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 57
17311052 ATTCTAATAG
* * *
17311062 ACAATTGAAATGATCAAACTTTTTAAGAACTTTTTCAATGTAATGGGATTTTGATAA
1 ACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGGGATTATGATAA
*
17311119 ACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGTGATTATGATAA
1 ACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGGGATTATGATAA
17311176 A
1 A
17311177 GCTATGTTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (57 bp):
ACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGGGATTATGATAA
Found at i:17314829 original size:29 final size:27
Alignment explanation
Indices: 17314759--17314829 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 27
17314749 TAAAAATCAC
*
17314759 TAAAAGTTATAAAATTATTAAATTTTAA
1 TAAAAATT-TAAAATTATTAAATTTTAA
* *
17314787 TAAAAATATAAAAATATATTTAAATTTTAT
1 TAAAAAT-TTAAAAT-TA-TTAAATTTTAA
17314817 TAAAAATTTAAAA
1 TAAAAATTTAAAA
17314830 AATTATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 11 0.31
29 8 0.22
30 17 0.47
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
TAAAAATTTAAAATTATTAAATTTTAA
Found at i:17314845 original size:17 final size:17
Alignment explanation
Indices: 17314815--17314853 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
17314805 TTTAAATTTT
*
17314815 ATTA-AAAATTTAAAAA
1 ATTATAAAATATAAAAA
*
17314831 ATTATAAAATATAAAGA
1 ATTATAAAATATAAAAA
17314848 ATTATA
1 ATTATA
17314854 TTTTTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATTATAAAATATAAAAA
Found at i:17318464 original size:23 final size:23
Alignment explanation
Indices: 17318419--17318464 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17318409 CGAATAGCCA
* *
17318419 TATATCGAGAAGTTCAAGCGAGC
1 TATATCGAGAAGCTCAAGAGAGC
* *
17318442 TATATCGGGAAGCTCTAGAGAGC
1 TATATCGAGAAGCTCAAGAGAGC
17318465 CATTAATCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (23 bp):
TATATCGAGAAGCTCAAGAGAGC
Found at i:17318528 original size:26 final size:26
Alignment explanation
Indices: 17318476--17318538 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
17318466 ATTAATCAAA
* *
17318476 AAGCTCACAAAGATCCTTTAATGGGG
1 AAGCTCATAAAGAGCCTTTAATGGGG
*
17318502 AAGCTCATGAAGAGCCTTATAAT-GGG
1 AAGCTCATAAAGAGCCTT-TAATGGGG
*
17318528 ACGCTCATAAA
1 AAGCTCATAAA
17318539 AGCTACGGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
AAGCTCATAAAGAGCCTTTAATGGGG
Found at i:17325632 original size:73 final size:73
Alignment explanation
Indices: 17325555--17325691 Score: 170
Period size: 73 Copynumber: 1.9 Consensus size: 73
17325545 TCATAAGAGT
* * * *
17325555 CATAT-TCAAGAAGCTCATGCGAGCCAATAACGGGTAGCTCCGA-AGAGCTATTAATCAGGAAGC
1 CATATATCAAGAAGCTCAAGCGAGCC-ATAACGGGAAGCT-CGAGAGAGCCATTAATCAAGAAGC
17325618 TCCGGATAGC
64 TCCGGATAGC
* * * *
17325628 CATATATCAAGAAGTTCAAGTGAGCCATATCGGGAAGCTCTAGAGAGCCATTAATCAAGAAGCT
1 CATATATCAAGAAGCTCAAGCGAGCCATAACGGGAAGCTCGAGAGAGCCATTAATCAAGAAGCT
17325692 TACAAAAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 2 0.04
73 35 0.65
74 17 0.31
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (73 bp):
CATATATCAAGAAGCTCAAGCGAGCCATAACGGGAAGCTCGAGAGAGCCATTAATCAAGAAGCTC
CGGATAGC
Found at i:17326983 original size:38 final size:38
Alignment explanation
Indices: 17326912--17326984 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
17326902 TACAAAAAAA
* *
17326912 AGTAGACATGGTTAACATGTATTTAGTTTAACAATGGC
1 AGTAGACATGGTTAACATGTATTTAGATCAACAATGGC
* * * *
17326950 AGTAGACATGTTTAATATGTTTTTGGATCAACAAT
1 AGTAGACATGGTTAACATGTATTTAGATCAACAAT
17326985 AATAGTAGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (38 bp):
AGTAGACATGGTTAACATGTATTTAGATCAACAATGGC
Found at i:17329901 original size:9 final size:9
Alignment explanation
Indices: 17329887--17329911 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17329877 TAAGTATAAA
17329887 AATTAACCG
1 AATTAACCG
17329896 AATTAACCG
1 AATTAACCG
17329905 AATTAAC
1 AATTAAC
17329912 AAAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:17332817 original size:19 final size:19
Alignment explanation
Indices: 17332793--17332831 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17332783 ATCTTAAACT
17332793 AAATAAATTACAGCAATAA
1 AAATAAATTACAGCAATAA
* *
17332812 AAATAATTTACAGTAATAA
1 AAATAAATTACAGCAATAA
17332831 A
1 A
17332832 TTACAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATAAATTACAGCAATAA
Found at i:17342194 original size:23 final size:23
Alignment explanation
Indices: 17342151--17342194 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
17342141 TCAATTCAAC
*
17342151 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
17342174 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
17342195 CACATATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:17355539 original size:96 final size:96
Alignment explanation
Indices: 17355432--17355623 Score: 312
Period size: 96 Copynumber: 2.0 Consensus size: 96
17355422 CTTACTTTCT
** * * *
17355432 TCTCTAGTTGGATATTTAATTGGACACTGGAAATCCTTATGATCTTTTGAACTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGACACTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
17355497 TTGCACAAAAGGTGATAGCTCAATCGTATTC
66 TTGCACAAAAGGTGATAGCTCAATCGTATTC
* * *
17355528 TCTCTATTTGGATATTTATTTGGACATTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
1 TCTCTAGTTGGATATTTAATTGGACACTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
17355593 TTGCACAAAAGGTGATAGCTCAATCGTATTC
66 TTGCACAAAAGGTGATAGCTCAATCGTATTC
17355624 CTTCTTTCGT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTGGACACTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
TTGCACAAAAGGTGATAGCTCAATCGTATTC
Found at i:17357589 original size:48 final size:48
Alignment explanation
Indices: 17357472--17357689 Score: 240
Period size: 48 Copynumber: 4.5 Consensus size: 48
17357462 TGAGATCCCG
* * * * * *
17357472 TGTAAGACCATGTCTGGGACATGGCATTGGCATTCGAGATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATTGACGTT-GATATGTGTGCCAA
*
17357521 TGTAAGACCATGTCTAGGACATGGCATTGACGTTGATATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGTGCCAA
* * *
17357569 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGACATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGTGCCAA
* * * * * * *
17357617 TTTAAGACCATATCTGGGATATGGCATCGGA-GATGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCAT-TGACGTTGATATGTGTGCCAA
* *
17357665 TGTAAGACCATATCTGGGATATGGC
1 TGTAAGACCATGTCTGGGACATGGC
17357690 GTCGACATGT
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
48 115 0.78
49 32 0.22
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGTGCCAA
Found at i:17357660 original size:96 final size:97
Alignment explanation
Indices: 17357472--17357689 Score: 269
Period size: 96 Copynumber: 2.3 Consensus size: 97
17357462 TGAGATCCCG
* * * *
17357472 TGTAAGACCATGTCTGGGACATGGCATTGGCATTCGAGATGAGAGCCAGTGTAAGACCATGTCTA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTCGACATGAGAGCCAATGTAAGACCATATCTA
* *
17357537 GGACATGGCATTGACGTTGATATGTGTGCCAA
66 GGACATGGCATGGACGATGATATGTGTGCCAA
* * * * *
17357569 TGTAAGACCATGTCTGGGACATGGCATCGGCGTT-GACATGTGTGCCAATTTAAGACCATATCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTCGACATGAGAGCCAATGTAAGACCATATCTA
* * *
17357633 GGATATGGCATCGGA-GATGATATGTGTGCTAG
66 GGACATGGCAT-GGACGATGATATGTGTGCCAA
* *
17357665 TGTAAGACCATATCTGGGATATGGC
1 TGTAAGACCATGTCTGGGACATGGC
17357690 GTCGACATGT
Statistics
Matches: 104, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
96 70 0.67
97 34 0.33
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (97 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTCGACATGAGAGCCAATGTAAGACCATATCTA
GGACATGGCATGGACGATGATATGTGTGCCAA
Found at i:17363493 original size:17 final size:18
Alignment explanation
Indices: 17363466--17363500 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17363456 AACTGTGTTA
*
17363466 TAATGTGTGAGCTCTATT
1 TAATGTGTGAGCCCTATT
17363484 TAAT-TGTGAGCCCTATT
1 TAATGTGTGAGCCCTATT
17363501 ATACTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (18 bp):
TAATGTGTGAGCCCTATT
Found at i:17363961 original size:17 final size:17
Alignment explanation
Indices: 17363896--17363961 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
17363886 CAATGTGGTA
* *
17363896 TGAATGAATTATTACAT
1 TGAATGAACTATTATAT
* **
17363913 TGAATGAGCTGCTATAT
1 TGAATGAACTATTATAT
* * * *
17363930 TGTAGGAAGTGTTATAT
1 TGAATGAACTATTATAT
17363947 TGAATGAACTATTAT
1 TGAATGAACTATTAT
17363962 TATGCATAAA
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (17 bp):
TGAATGAACTATTATAT
Found at i:17369970 original size:6 final size:6
Alignment explanation
Indices: 17369959--17369994 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
17369949 GGTTTTCTCA
*
17369959 AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
17369995 AGTCATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:17374456 original size:6 final size:6
Alignment explanation
Indices: 17374448--17374477 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
17374438 AGAAAGGAAA
*
17374448 ATAAAA ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
17374478 GGTTATATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
ATAAAT
Found at i:17380525 original size:37 final size:37
Alignment explanation
Indices: 17380475--17380553 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17380465 TTATTACGAA
* * *
17380475 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17380512 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17380549 GTCTT
1 GTCTT
17380554 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17380892 original size:49 final size:49
Alignment explanation
Indices: 17380672--17381009 Score: 523
Period size: 49 Copynumber: 7.1 Consensus size: 49
17380662 CCCTTCGGGA
* * * * *
17380672 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCC-CTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17380718 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17380765 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17380812 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17380859 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17380908 CTTATCTCATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17380957 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17381006 CTTA
1 CTTA
17381010 CTATCATTTC
Statistics
Matches: 272, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.00
46 32 0.12
47 102 0.38
49 137 0.50
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17390425 original size:95 final size:94
Alignment explanation
Indices: 17390257--17390482 Score: 251
Period size: 95 Copynumber: 2.4 Consensus size: 94
17390247 CACAGTATGT
* * * *
17390257 CAACCAGTATAGTCTACTGGAACAATAAACACGGGGTAGTCCACTAGACATTAAACATGGGGTGA
1 CAACCAGTATAGTCTGCTGGGACAGTAAACACGAGGTAGTCCACTAGACATTAAACATGGGGTGA
* *
17390322 AAGGGTGTAAAACCATAACTCGGCTAAGG
66 AAGGGTGTAAAACAATAACTCAGCTAAGG
* * * *
17390351 CAACTAGTATAGTCTGCTGGGACAGTAAACACGATGTAGTCTA-TCAGGATATTAAACATGGGGT
1 CAACCAGTATAGTCTGCTGGGACAGTAAACACGAGGTAGTCCACT-A-GACATTAAACATGGGGT
* * * *
17390415 GAGAGGGTGTAAGACAATAGCTCAGCTATGG
64 GAAAGGGTGTAAAACAATAACTCAGCTAAGG
* **
17390446 CAACCATTATAGTCTG-TCGGGA-AGTAAATGCGAGGTA
1 CAACCAGTATAGTCTGCT-GGGACAGTAAACACGAGGTA
17390483 ATCTGTTGGG
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
93 1 0.01
94 50 0.45
95 59 0.54
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (94 bp):
CAACCAGTATAGTCTGCTGGGACAGTAAACACGAGGTAGTCCACTAGACATTAAACATGGGGTGA
AAGGGTGTAAAACAATAACTCAGCTAAGG
Found at i:17413584 original size:19 final size:19
Alignment explanation
Indices: 17413556--17413598 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
17413546 TTGTTTGAAA
17413556 AAAT-ATTTGCTTGTACAT
1 AAATAATTTGCTTGTACAT
17413574 AAATAATTTGCTTGTACAT
1 AAATAATTTGCTTGTACAT
17413593 AAATAA
1 AAATAA
17413599 ATAACTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (19 bp):
AAATAATTTGCTTGTACAT
Found at i:17413618 original size:17 final size:17
Alignment explanation
Indices: 17413593--17413629 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17413583 GCTTGTACAT
*
17413593 AAATAAATAACTAAATA
1 AAATAAATAAATAAATA
*
17413610 AAATGAATAAATAAATA
1 AAATAAATAAATAAATA
17413627 AAA
1 AAA
17413630 GCTCAAGTTA
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:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:17414398 original size:18 final size:18
Alignment explanation
Indices: 17414375--17414411 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17414365 ATAGAAAAAA
*
17414375 TCTTATTTTATTTTTATT
1 TCTTATTTTATTTTGATT
17414393 TCTTATTTTATTTTGATT
1 TCTTATTTTATTTTGATT
17414411 T
1 T
17414412 TATGTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (18 bp):
TCTTATTTTATTTTGATT
Found at i:17436497 original size:20 final size:21
Alignment explanation
Indices: 17436466--17436508 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
17436456 CACCAGAAAC
17436466 CCTAGAGGTTTCTGGAATACG
1 CCTAGAGGTTTCTGGAATACG
17436487 CCTAG-GGTTTCTGGAATACG
1 CCTAGAGGTTTCTGGAATACG
17436507 CC
1 CC
17436509 AATGCTGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
CCTAGAGGTTTCTGGAATACG
Found at i:17437701 original size:25 final size:25
Alignment explanation
Indices: 17437640--17437703 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
17437630 TATTTTGAAG
* *
17437640 TTTTTATAT-TATATTATTTTAACA
1 TTTTTATATATATTTTATTTAAACA
* *
17437664 TTATGTATA-ATATTTTATTTAAATA
1 TT-TTTATATATATTTTATTTAAACA
17437689 TTTTTATATATATTT
1 TTTTTATATATATTT
17437704 ATACATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTATATATATTTTATTTAAACA
Found at i:17438192 original size:34 final size:34
Alignment explanation
Indices: 17438153--17438222 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
17438143 ATATTATTTG
17438153 ATTCAAATGTCTTCATTTTATAACATCTATTTTA
1 ATTCAAATGTCTTCATTTTATAACATCTATTTTA
17438187 ATTCAAATGTCTTCATTTTATAACATCTATTTTA
1 ATTCAAATGTCTTCATTTTATAACATCTATTTTA
17438221 AT
1 AT
17438223 GATTATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (34 bp):
ATTCAAATGTCTTCATTTTATAACATCTATTTTA
Found at i:17441062 original size:23 final size:22
Alignment explanation
Indices: 17441034--17441079 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
17441024 CAAATTAAAT
17441034 TTCTAAGATTACAAAATCATATC
1 TTCTAAGATTAC-AAATCATATC
* *
17441057 TTCTAAGATTGCATATCATATC
1 TTCTAAGATTACAAATCATATC
17441079 T
1 T
17441080 AAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (22 bp):
TTCTAAGATTACAAATCATATC
Found at i:17441082 original size:19 final size:19
Alignment explanation
Indices: 17441058--17441185 Score: 219
Period size: 19 Copynumber: 6.9 Consensus size: 19
17441048 AATCATATCT
17441058 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17441077 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
17441094 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17441113 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
17441130 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17441149 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
17441168 TCTAAGATTGTATATCAT
1 TCTAAGATTGCATATCAT
17441186 TGAAGATTAT
Statistics
Matches: 104, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
17 34 0.33
19 70 0.67
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17441121 original size:55 final size:55
Alignment explanation
Indices: 17441051--17441185 Score: 215
Period size: 55 Copynumber: 2.5 Consensus size: 55
17441041 ATTACAAAAT
17441051 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTGATATCATATCTAAGATTG
17441104 CATATCATATCTAAGATTG-TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG-ATATCATATCTAAGATTG
17441159 CATATCATATCTAAGATTGTATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
17441186 TGAAGATTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
53 23 0.30
54 1 0.01
55 46 0.61
57 6 0.08
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (55 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:17441193 original size:36 final size:36
Alignment explanation
Indices: 17441058--17441185 Score: 229
Period size: 36 Copynumber: 3.5 Consensus size: 36
17441048 AATCATATCT
17441058 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
17441094 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
17441130 TCTAAGATTGCATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG--TATCATA
*
17441168 TCTAAGATTGTATATCAT
1 TCTAAGATTGCATATCAT
17441186 TGAAGATTAT
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
36 65 0.73
38 24 0.27
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (36 bp):
TCTAAGATTGCATATCATATCTAAGATTGTATCATA
Found at i:17441334 original size:21 final size:20
Alignment explanation
Indices: 17441304--17441342 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17441294 TTGGACTTCG
*
17441304 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGATTTATTAT
17441324 TTTTGTTTTTGGATTTATT
1 TTTT-TTTTTGGATTTATT
17441343 TCTGGGCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTGGATTTATTAT
Found at i:17441641 original size:45 final size:45
Alignment explanation
Indices: 17441547--17441644 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
17441537 CTACTACTTT
* * * *
17441547 GATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTATTATGTCC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTCA
* *
17441592 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTA
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTCA
17441637 GATCTGCT
1 GATCTGCT
17441645 TCGATGTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTCA
Found at i:17441787 original size:78 final size:78
Alignment explanation
Indices: 17441658--17442512 Score: 498
Period size: 78 Copynumber: 10.3 Consensus size: 78
17441648 ATGTAAACAC
* * *
17441658 ATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
17441723 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
17441736 ATGAAGGTCCA-ATCTGTTATGTCTTCAATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
17441800 TTGGATCTGCTTCAATGTAAACA
65 TTGGATCTG---C--T-T---CA
* *
17441823 CATGAAGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 -ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
17441888 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
17441902 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
* * *
17441966 TTAGATCTACTGCA
65 TTGGATCTGCTTCA
* * ** * ** *
17441980 ATGAAGGTCAGATCTGCTATGTATTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATC---A
* * *
17442045 TCTTCGATTTG-TTCT
63 TCTTGGATCTGCTTCA
* ** * * * * * * *
17442060 CTGACA-GTACAGAGATGCCAAATCATCTTAGATCTGCT--TCAACGTAA-ACACGTGAAAGCCA
1 ATGA-AGGT-CAGATCTG-C-TAT-GTCTTCGATCTGCTCCCCATC-TAATACA-GAG-ATGCCA
* *
17442121 AATCTGCTATGTCTTCGATCTGCTCTCC
58 AA--T-C-A--TCTTGGATCTGCT-TCA
* * * * ** * *
17442149 ATCGAATATGGAGTTGCCAAATTTG-T-T-TCTTCGATTTGTTCTCTGA-C-AGTACAGAGATGT
1 AT-G-A-A--G-G-T--CAGATCTGCTATGTCTTCGATCTGCTC-CCCATCTAATACAGAGATGC
**
17442209 CAAATCATCTTAAATCTGCTTCACCGTAAA
56 CAAATCATCTTGGATCTGCTT---C----A
* * * *** *
17442239 CACGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTC-AACACA-AGGATGCCAAATC
1 -A--TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGA-GATGCCAAATC
*
17442302 ATCTTGGATCTACTTCGACGTGAAAA
62 ATCTTGGATCTGCTT---C------A
* * *
17442328 CATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCA
1 -AT--GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCA
17442393 TCTTGGATCTGCTTCA
63 TCTTGGATCTGCTTCA
* * * *
17442409 ATGAAGGTCCA-ATCTGTTATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCTAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
17442473 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
17442487 ATGAAGGTCAGATCTGCTATGTCTTC
1 ATGAAGGTCAGATCTGCTATGTCTTC
17442513 AGCCTGTTAC
Statistics
Matches: 613, Mismatches: 97, Indels: 134
0.73 0.11 0.16
Matches are distributed among these distances:
77 4 0.01
78 276 0.45
79 6 0.01
80 9 0.01
81 17 0.03
82 4 0.01
83 9 0.01
84 37 0.06
85 3 0.00
86 7 0.01
87 60 0.10
88 68 0.11
89 42 0.07
90 37 0.06
91 18 0.03
92 4 0.01
93 3 0.00
94 2 0.00
95 1 0.00
96 1 0.00
97 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:17441877 original size:166 final size:166
Alignment explanation
Indices: 17441593--17442489 Score: 698
Period size: 166 Copynumber: 5.3 Consensus size: 166
17441583 ATTATGTCCG
* * *
17441593 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTAGATCTGCTTCGATGTAAACAC
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAA----TCATCTTGGATCTGCTTCAATGTAAACAC
*
17441658 ATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
62 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
17441723 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
127 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
17441763 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAACACATGA
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAACACATGA
* *
17441828 AGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
66 AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGA
*
17441893 TCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCG
131 TCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
* *
17441929 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTAGA--T-C-T-ACTG----CA-ATGA
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAACACATGA
* * * * * *
17441984 AGGTCAGATCTGCTATGTATTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTT
66 AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATC---ATCTT
* * ** * ** ** *
17442049 CGATTTG-TTCTCTGACA-GTACAGAGATGCCAAATCATCTT-A
128 GGATCTGCTTCAATGA-AGGTCCA-ATCTG--TTAT-GTCTTCA
* * * * * *
17442090 GATCTGCT--TCAACGTAA-ACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCTCCATC
1 -ATCTGCTCCCCATC-TAATACA-GAG-ATGCCAAA--T-C-A--TCTTGGATCTGCT-TCAAT-
* * * * * * * * * * * * *
17442152 G---A-ATATGGAGTTGCCAAATTTG-T-T-TCTTCGATTTGTTCTCTGAC-AGTACAGAGATGT
54 GTAAACACATGAAG--GTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGC
** * * *
17442209 CAAATCATCTTAAATCTGCTTCACCGTAAACACGTGAAAG-CCAAATCTGCTATGTCTTCG
117 CAAATCATCTTGGATCTGCTT---C----A-A--TGAAGGTCC-AATCTGTTATGTCTTCA
*** * * * *
17442269 ATCTGCTCCTTGTC-AACACA-AGGATGCCAAATCATCTTGGATCTACTTCGACGTGAAA-ACAT
1 ATCTGCTCCCCATCTAATACAGA-GATGCCAAATCATCTTGGATCTGCTTCAATGT-AAACACAT
*
17442331 CCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
64 --GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
17442396 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
127 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
* *
17442436 ATCTGCTCCCCGTCTAATACAGAGATGCTAAATCATCTTGGATCTGCTTCAATG
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
17442490 AAGGTCAGAT
Statistics
Matches: 572, Mismatches: 95, Indels: 122
0.72 0.12 0.15
Matches are distributed among these distances:
156 54 0.09
157 2 0.00
158 10 0.02
159 13 0.02
160 6 0.01
161 10 0.02
162 19 0.03
163 1 0.00
164 2 0.00
165 1 0.00
166 170 0.30
167 32 0.06
168 40 0.07
169 3 0.01
170 36 0.06
171 20 0.03
172 2 0.00
173 12 0.02
174 19 0.03
175 24 0.04
176 21 0.04
177 37 0.06
178 21 0.04
179 5 0.01
180 2 0.00
181 5 0.01
182 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (166 bp):
ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAACACATGA
AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
Found at i:17441885 original size:88 final size:83
Alignment explanation
Indices: 17441578--17442014 Score: 437
Period size: 78 Copynumber: 5.3 Consensus size: 83
17441568 AGAGATGCCA
* * *
17441578 AATCTATTATGTC--CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTAGATC
1 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAA----TCATCTTGGATC
* *
17441641 TGCTTCGATGTAAACACATGAAGGT-T
62 TGC-TCAATGT---CA-ATGAAGGTCC
* * *
17441667 AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTG-
1 A-ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGC
17441731 -C--T-TCAATGAAGGTCC
65 TCAATGTCAATGAAGGTCC
*
17441746 AATCTGTTATGTCTTCAATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGC-
17441811 TCAATGTAAACACATGAAGGT-C
65 TCAATGT---CA-ATGAAGGTCC
* * *
17441833 AGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG-
1 A-ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGC
17441897 -C--T-TCAATGAAGGTCC
65 TCAATGTCAATGAAGGTCC
*
17441912 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTAGA--T-CT
1 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
17441974 -ACTG-CAATGAAGGT-C
66 CAATGTCAATGAAGGTCC
* *
17441989 AGATCTGCTATGTATTCGATCTGCTC
1 A-ATCTGTTATGTCTTCGATCTGCTC
17442015 TCTGTCGAAT
Statistics
Matches: 307, Mismatches: 19, Indels: 55
0.81 0.05 0.14
Matches are distributed among these distances:
76 1 0.00
77 2 0.01
78 161 0.52
79 7 0.02
81 1 0.00
82 2 0.01
83 3 0.01
84 1 0.00
85 2 0.01
87 4 0.01
88 79 0.26
89 1 0.00
90 10 0.03
92 33 0.11
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (83 bp):
AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
CAATGTCAATGAAGGTCC
Found at i:17442226 original size:131 final size:131
Alignment explanation
Indices: 17441991--17442276 Score: 500
Period size: 131 Copynumber: 2.2 Consensus size: 131
17441981 TGAAGGTCAG
* **
17441991 ATCTGCTATGTATTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
*
17442056 TTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCA
66 TTCTCTGACAGTACAGAGATGCCAAATCATCTTAAATCTGCTTCAACGTAAACACGTGAAAGCCA
17442121 A
131 A
* *
17442122 ATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGTTGCCAAATTTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
* *
17442187 TTCTCTGACAGTACAGAGATGTCAAATCATCTTAAATCTGCTTCACCGTAAACACGTGAAAGCCA
66 TTCTCTGACAGTACAGAGATGCCAAATCATCTTAAATCTGCTTCAACGTAAACACGTGAAAGCCA
17442252 A
131 A
17442253 ATCTGCTATGTCTTCGATCTGCTC
1 ATCTGCTATGTCTTCGATCTGCTC
17442277 CTTGTCAACA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 147 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (131 bp):
ATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
TTCTCTGACAGTACAGAGATGCCAAATCATCTTAAATCTGCTTCAACGTAAACACGTGAAAGCCA
A
Found at i:17444661 original size:23 final size:25
Alignment explanation
Indices: 17444635--17444681 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17444625 TATCATTCAT
*
17444635 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
17444658 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
17444682 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:17445004 original size:46 final size:46
Alignment explanation
Indices: 17444952--17445196 Score: 328
Period size: 46 Copynumber: 5.5 Consensus size: 46
17444942 TGTCATAGTG
* * * *
17444952 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * *
17444998 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
17445044 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
17445090 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
17445128 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
17445174 TCTTTCAACCATGGTCTTACACA
1 TCTTTCAACCATGGTCTTACACA
17445197 CAGGTTGTCA
Statistics
Matches: 180, Mismatches: 10, Indels: 18
0.87 0.05 0.09
Matches are distributed among these distances:
38 33 0.18
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 133 0.74
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:17445126 original size:38 final size:38
Alignment explanation
Indices: 17445075--17445234 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
17445065 CATCTCATAT
17445075 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
17445113 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
17445158 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
17445197 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
17445235 TTTCATATCA
Statistics
Matches: 113, Mismatches: 1, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
38 70 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:17445173 original size:84 final size:84
Alignment explanation
Indices: 17445032--17445245 Score: 410
Period size: 84 Copynumber: 2.5 Consensus size: 84
17445022 TTCATGTCAC
*
17445032 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
17445097 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
17445116 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
17445181 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
*
17445200 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
17445246 AGAGCACACT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 128 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:17445193 original size:130 final size:122
Alignment explanation
Indices: 17444986--17445234 Score: 372
Period size: 130 Copynumber: 2.0 Consensus size: 122
17444976 TTTCTGTCAT
** * *
17444986 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
17445051 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
66 ACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
*
17445116 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
*
17445181 ACCATGGTCTTACACACAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
66 ACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
17445235 TTTCATATCA
Statistics
Matches: 113, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
122 37 0.33
123 1 0.01
125 1 0.01
128 3 0.03
130 71 0.63
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (122 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:17454743 original size:22 final size:21
Alignment explanation
Indices: 17454708--17454837 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
17454698 AAAAGGTATC
* *
17454708 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
17454729 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
17454752 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
17454771 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
**
17454789 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
17454806 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
17454825 TGC-AATCATATCT
1 TACAAATCATATCT
17454838 AAGATTGTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.16
18 21 0.22
19 29 0.31
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:17454751 original size:23 final size:22
Alignment explanation
Indices: 17454708--17454765 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
17454698 AAAAGGTATC
* *
17454708 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
17454729 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
17454752 TGCATATCATATCT
1 TACAAATCATATCT
17454766 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:17454812 original size:54 final size:54
Alignment explanation
Indices: 17454744--17454888 Score: 281
Period size: 54 Copynumber: 2.7 Consensus size: 54
17454734 AATCATATCT
17454744 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
17454798 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
17454852 TCTAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
17454889 TGAAGATTAT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
54 85 0.94
55 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:17454825 original size:73 final size:71
Alignment explanation
Indices: 17454737--17454889 Score: 247
Period size: 73 Copynumber: 2.1 Consensus size: 71
17454727 ATTACAAAAT
17454737 CATATC-TTCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTG-TATCATATC
1 CATATCATTCTAAGATTGCA-ATCATATCTAAGATTG-AATCATATCTAAGATTGATATCATATC
17454800 TAAGATTG
64 TAAGATTG
*
17454808 CATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATC
1 CATATCAT-TCTAAGATTGCAATCATATCTAAGATTGAATCATATCTAAGATTG-ATATCATATC
17454873 TAAGATTG
64 TAAGATTG
17454881 CATATCATT
1 CATATCATT
17454890 GAAGATTATA
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
71 22 0.29
72 18 0.23
73 37 0.48
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (71 bp):
CATATCATTCTAAGATTGCAATCATATCTAAGATTGAATCATATCTAAGATTGATATCATATCTA
AGATTG
Found at i:17454896 original size:17 final size:19
Alignment explanation
Indices: 17454744--17454888 Score: 248
Period size: 19 Copynumber: 7.9 Consensus size: 19
17454734 AATCATATCT
17454744 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17454763 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
17454781 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
17454798 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17454817 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
17454835 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
17454852 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17454871 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
17454889 TGAAGATTAT
Statistics
Matches: 120, Mismatches: 0, Indels: 12
0.91 0.00 0.09
Matches are distributed among these distances:
17 32 0.27
18 32 0.27
19 56 0.47
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17462840 original size:10 final size:11
Alignment explanation
Indices: 17462824--17462853 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
17462814 ACCAACTGAG
17462824 AAAAATAAAAT
1 AAAAATAAAAT
17462835 -AAAATAAAAT
1 AAAAATAAAAT
17462845 AAAAATAAA
1 AAAAATAAA
17462854 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:17469959 original size:38 final size:41
Alignment explanation
Indices: 17469863--17470003 Score: 186
Period size: 41 Copynumber: 3.5 Consensus size: 41
17469853 TTTGACATAA
* *
17469863 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA-A-ATT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T
17469903 ATTCAGACT-TAAGCTCTAGCA-GCTTAA-GCC-GTGACACAT
1 -TTCAGACTATAAG-TCTAGCAGGCTTAATGCCGGTGACACAT
17469942 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
17469983 TTCGGACTATAAGTCTAGCAG
1 TTCAGACTATAAGTCTAGCAG
17470004 CGTAAGAGCG
Statistics
Matches: 91, Mismatches: 2, Indels: 14
0.85 0.02 0.13
Matches are distributed among these distances:
38 19 0.21
39 15 0.16
40 13 0.14
41 44 0.48
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (41 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
Found at i:17470000 original size:79 final size:79
Alignment explanation
Indices: 17469863--17470009 Score: 210
Period size: 79 Copynumber: 1.9 Consensus size: 79
17469853 TTTGACATAA
* * *
17469863 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATTATTCAGACTTAAGCTCTAGCAGCTT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAAATTATTCAGACTTAAGCTCTAGCAGCGT
17469928 AAGCCGTGACACAT
66 AAGCCGTGACACAT
*
17469942 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCGGACTATAAG-TCTAGCAG
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGA-A-ATTATTCAGACT-TAAGCTCTAGCAG
17470004 CGTAAG
63 CGTAAG
17470010 AGCGGTGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 54 0.89
80 6 0.10
81 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (79 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAAATTATTCAGACTTAAGCTCTAGCAGCGT
AAGCCGTGACACAT
Found at i:17476974 original size:21 final size:23
Alignment explanation
Indices: 17476923--17476975 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
17476913 TGTCTTTGGA
17476923 TGAATATAATTAAAAATATGATAGT
1 TGAA-ATAATTAAAAATATGA-AGT
*
17476948 TGAAATAATTAAAAGTATG-AG-
1 TGAAATAATTAAAAATATGAAGT
17476969 TGAAATA
1 TGAAATA
17476976 TATATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 7 0.26
22 2 0.07
24 14 0.52
25 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (23 bp):
TGAAATAATTAAAAATATGAAGT
Found at i:17477623 original size:41 final size:41
Alignment explanation
Indices: 17477457--17477612 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
17477447 TTTATCGTTA
* * * *
17477457 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
17477498 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
17477539 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
17477580 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
17477613 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:17477881 original size:33 final size:33
Alignment explanation
Indices: 17477826--17477922 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
17477816 GATAGATATG
*
17477826 TATATATATATGT-TGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
*
17477858 TATATTTATGTGTATGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
* * *
17477891 AATAAGTGTATGTATCTATGCATTCGGCATAG
1 TAT-A-TATATG--TGTATGCATTCGGCATAG
17477923 ATGGGTATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.31
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (33 bp):
TATATATATGTGTATGCATTCGGCATAGGTGAA
Found at i:17483820 original size:16 final size:16
Alignment explanation
Indices: 17483799--17483856 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
17483789 ATTGAGTTTA
*
17483799 TTATTTTTTTTTTGTT
1 TTATTTTTTTTTTATT
*
17483815 TTATTTTTATTTTATT
1 TTATTTTTTTTTTATT
17483831 TTATTTTTTATTTTATGT
1 TTATTTTTT-TTTTAT-T
*
17483849 TTCTTTTT
1 TTATTTTT
17483857 AATTTTGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
16 22 0.61
17 6 0.17
18 8 0.22
ACGTcount: A:0.12, C:0.02, G:0.03, T:0.83
Consensus pattern (16 bp):
TTATTTTTTTTTTATT
Found at i:17483827 original size:17 final size:17
Alignment explanation
Indices: 17483799--17483871 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
17483789 ATTGAGTTTA
17483799 TTATTTTT-TTTTTGTT
1 TTATTTTTATTTTTGTT
*
17483815 TTATTTTTA-TTTTATT
1 TTATTTTTATTTTTGTT
17483831 TTATTTTTTATTTTATG-T
1 TTA-TTTTTATTTT-TGTT
* * *
17483849 TTCTTTTTAATTTTGCT
1 TTATTTTTATTTTTGTT
17483866 TTATTT
1 TTATTT
17483872 GCTTTATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 19 0.40
17 21 0.45
18 6 0.13
19 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.04, T:0.79
Consensus pattern (17 bp):
TTATTTTTATTTTTGTT
Found at i:17486901 original size:30 final size:30
Alignment explanation
Indices: 17486867--17486923 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
17486857 CTTTAATAAG
*
17486867 AACTTTAGCAAAAATACATTTTTGCCCCTA
1 AACTTTAGCAAAAATACACTTTTGCCCCTA
* * *
17486897 AACTTTTGCATAACTACACTTTTGCCC
1 AACTTTAGCAAAAATACACTTTTGCCC
17486924 TTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (30 bp):
AACTTTAGCAAAAATACACTTTTGCCCCTA
Found at i:17497971 original size:11 final size:11
Alignment explanation
Indices: 17497941--17498054 Score: 122
Period size: 11 Copynumber: 10.5 Consensus size: 11
17497931 TTAGTGCTAT
*
17497941 TTTTTGTGTTG
1 TTTTGGTGTTG
17497952 -TTTGGTGTTG
1 TTTTGGTGTTG
*
17497962 TTTTGTTGTTG
1 TTTTGGTGTTG
*
17497973 TGTTGGTGTTG
1 TTTTGGTGTTG
*
17497984 TTTTAGTGTTG
1 TTTTGGTGTTG
* *
17497995 TTTTGTTGCTG
1 TTTTGGTGTTG
*
17498006 TGTTGGTGTTG
1 TTTTGGTGTTG
*
17498017 TTTTGGTGCTG
1 TTTTGGTGTTG
* *
17498028 TTTTGTTGCTG
1 TTTTGGTGTTG
*
17498039 TTTTGGTGCTG
1 TTTTGGTGTTG
17498050 TTTTG
1 TTTTG
17498055 TTACTATTTT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
10 9 0.10
11 77 0.90
ACGTcount: A:0.01, C:0.04, G:0.33, T:0.62
Consensus pattern (11 bp):
TTTTGGTGTTG
Found at i:17497978 original size:22 final size:22
Alignment explanation
Indices: 17497884--17498056 Score: 138
Period size: 22 Copynumber: 7.8 Consensus size: 22
17497874 TTTTGCAGGT
* *
17497884 TTTTGGTGCTATTTTGGTGTTG
1 TTTTGGTGCTGTTTTGTTGTTG
* * *
17497906 TTGGTGATGCTATGTTTTG-TGCTG
1 TT-TTGGTGC--TGTTTTGTTGTTG
* * *
17497930 -TTTAGTGCTATTTTTTGTGTTG
1 TTTTGGTGCTGTTTTGT-TGTTG
*
17497952 -TTTGGTGTTGTTTTGTTGTTG
1 TTTTGGTGCTGTTTTGTTGTTG
* *
17497973 TGTTGGTGTTGTTTTAG-TGTTG
1 TTTTGGTGCTGTTTT-GTTGTTG
* * *
17497995 TTTTGTTGCTGTGTTGGTGTTG
1 TTTTGGTGCTGTTTTGTTGTTG
*
17498017 TTTTGGTGCTGTTTTGTTGCTG
1 TTTTGGTGCTGTTTTGTTGTTG
17498039 TTTTGGTGCTGTTTTGTT
1 TTTTGGTGCTGTTTTGTT
17498057 ACTATTTTTA
Statistics
Matches: 120, Mismatches: 23, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
20 5 0.04
21 6 0.05
22 92 0.77
23 7 0.06
24 4 0.03
25 6 0.05
ACGTcount: A:0.03, C:0.05, G:0.32, T:0.60
Consensus pattern (22 bp):
TTTTGGTGCTGTTTTGTTGTTG
Found at i:17497997 original size:33 final size:33
Alignment explanation
Indices: 17497946--17498054 Score: 166
Period size: 33 Copynumber: 3.3 Consensus size: 33
17497936 GCTATTTTTT
*
17497946 GTGTTG-TTTGGTGTTGTTTTGTTGTTGTGTTG
1 GTGTTGTTTTGGTGTTGTTTTGTTGCTGTGTTG
*
17497978 GTGTTGTTTTAGTGTTGTTTTGTTGCTGTGTTG
1 GTGTTGTTTTGGTGTTGTTTTGTTGCTGTGTTG
* *
17498011 GTGTTGTTTTGGTGCTGTTTTGTTGCTGTTTTG
1 GTGTTGTTTTGGTGTTGTTTTGTTGCTGTGTTG
*
17498044 GTGCTGTTTTG
1 GTGTTGTTTTG
17498055 TTACTATTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 6 0.09
33 64 0.91
ACGTcount: A:0.01, C:0.04, G:0.35, T:0.61
Consensus pattern (33 bp):
GTGTTGTTTTGGTGTTGTTTTGTTGCTGTGTTG
Found at i:17498064 original size:22 final size:22
Alignment explanation
Indices: 17498017--17498064 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
17498007 GTTGGTGTTG
* *
17498017 TTTTGGTGCTGTTTTGTTGCTG
1 TTTTGGTGCTGTTTTGTTACTA
17498039 TTTTGGTGCTGTTTTGTTACTA
1 TTTTGGTGCTGTTTTGTTACTA
17498061 TTTT
1 TTTT
17498065 TATACTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.04, C:0.08, G:0.25, T:0.62
Consensus pattern (22 bp):
TTTTGGTGCTGTTTTGTTACTA
Found at i:17498865 original size:22 final size:22
Alignment explanation
Indices: 17498834--17498875 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17498824 TAAACCTTAA
17498834 TGCTGCTTTGGT-GTTGTTTTGG
1 TGCTGCTTTGGTAG-TGTTTTGG
*
17498856 TGCTGTTTTGGTAGTGTTTT
1 TGCTGCTTTGGTAGTGTTTT
17498876 ATTGTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.02, C:0.07, G:0.33, T:0.57
Consensus pattern (22 bp):
TGCTGCTTTGGTAGTGTTTTGG
Found at i:17498875 original size:11 final size:11
Alignment explanation
Indices: 17498834--17498867 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17498824 TAAACCTTAA
*
17498834 TGCTGCTTTGG
1 TGCTGTTTTGG
*
17498845 TGTTGTTTTGG
1 TGCTGTTTTGG
17498856 TGCTGTTTTGG
1 TGCTGTTTTGG
17498867 T
1 T
17498868 AGTGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.35, T:0.56
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:17499133 original size:10 final size:11
Alignment explanation
Indices: 17499107--17499131 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17499097 TTGTTTCTTG
17499107 TTTTAATTTTT
1 TTTTAATTTTT
17499118 TTTTAATTTTT
1 TTTTAATTTTT
17499129 TTT
1 TTT
17499132 AAATGAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTAATTTTT
Found at i:17510699 original size:49 final size:50
Alignment explanation
Indices: 17510641--17510785 Score: 184
Period size: 49 Copynumber: 2.9 Consensus size: 50
17510631 GTAGCCAAAC
* *
17510641 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-T
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACAAAGT
* * * *
17510690 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CAAAGT
** * *
17510741 TATTGGGTACGCATAGTAGCCTGTACTTAGTACTGCACATGCGAC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC
17510786 TAGCTACATA
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
49 39 0.49
50 4 0.05
51 37 0.46
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (50 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACAAAGT
Found at i:17511627 original size:30 final size:30
Alignment explanation
Indices: 17511593--17511653 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17511583 TCATTAACTC
17511593 AAACTTTGGAAAATTTACAATTTTACCCCT
1 AAACTTTGGAAAATTTACAATTTTACCCCT
* * * *
17511623 AAACTTTTGCATATTTACACTTTTACCCCT
1 AAACTTTGGAAAATTTACAATTTTACCCCT
17511653 A
1 A
17511654 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTACCCCT
Found at i:17515967 original size:21 final size:21
Alignment explanation
Indices: 17515941--17515981 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17515931 ATCTGCTCAA
* *
17515941 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
17515962 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
17515982 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:17527013 original size:20 final size:20
Alignment explanation
Indices: 17526988--17527025 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17526978 CTCAATTTAG
*
17526988 GATAATTAATGATTTAATTA
1 GATAATTAAGGATTTAATTA
*
17527008 GATAATTAGGGATTTAAT
1 GATAATTAAGGATTTAAT
17527026 CAATTATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
GATAATTAAGGATTTAATTA
Found at i:17527810 original size:21 final size:20
Alignment explanation
Indices: 17527764--17527811 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
17527754 ATGTGATAAT
*
17527764 AATAAAAGTAATATTAATTA
1 AATAATAGTAATATTAATTA
17527784 ATATAATAGT-ATATTAATGTGA
1 A-ATAATAGTAATATTAAT-T-A
17527806 AATAAT
1 AATAAT
17527812 TATTCTGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
AATAATAGTAATATTAATTA
Found at i:17528260 original size:25 final size:24
Alignment explanation
Indices: 17528221--17528276 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
17528211 CATTTAATTC
* *
17528221 AAAAATATATTTTTAAAAAATTTT
1 AAAAATACATTTTTAAAAAATTTA
*
17528245 AAAAATACATTATTTAATAAATTTA
1 AAAAATACATT-TTTAAAAAATTTA
17528270 AAAAATA
1 AAAAATA
17528277 AACACGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAAATACATTTTTAAAAAATTTA
Found at i:17528269 original size:24 final size:23
Alignment explanation
Indices: 17528216--17528273 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
17528206 ATTCTCATTT
* *
17528216 AATTCAAAAATATATTTTTAAAA
1 AATTTAAAAATACATTTTTAAAA
*
17528239 AATTTTAAAAATACATTATTTAATA
1 AA-TTTAAAAATACATT-TTTAAAA
17528264 AATTTAAAAA
1 AATTTAAAAA
17528274 ATAAACACGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.07
24 20 0.67
25 8 0.27
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTAAAAATACATTTTTAAAA
Found at i:17529113 original size:125 final size:127
Alignment explanation
Indices: 17528939--17529180 Score: 301
Period size: 125 Copynumber: 1.9 Consensus size: 127
17528929 CTTCTATTTC
* * * *
17528939 ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACATTCGGATATTTAGATCAAACGGAAAA-TC
1 ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACAATCAGATACTTAGATCAAACGAAAAACT-
* * * * *
17529003 GAAACTCAATACGTTAGGGCACGACTACTCGAATTTCTAAATACGGAATATTGTCTTCGTTTT
65 GAAACCCAATACGTTAGGACACAACTACTCGAATTTCCAAATACCGAATATTGTCTTCGTTTT
* * * *
17529066 ATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCAGTTACTTAGATCAAACGAAAAACTG
1 ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACAATCAGATACTTAGATCAAACGAAAAACTG
* * * *
17529129 AAACCCAGTACGTTAGGACACAATTTCTCGAATTTCCAAGTACCGAATATTG
66 AAACCCAATACGTTAGGACACAACTACTCGAATTTCCAAATACCGAATATTG
17529181 CCCTTACTTG
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
125 73 0.75
126 4 0.04
127 20 0.21
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (127 bp):
ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACAATCAGATACTTAGATCAAACGAAAAACTG
AAACCCAATACGTTAGGACACAACTACTCGAATTTCCAAATACCGAATATTGTCTTCGTTTT
Found at i:17529388 original size:22 final size:21
Alignment explanation
Indices: 17529347--17529398 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
17529337 ATAGGATGGT
*
17529347 TAATAAAAATAATAGTAATAA
1 TAATAAAAATAATAGAAATAA
*
17529368 TAATAAAATATAATGGAAATAA
1 TAATAAAA-ATAATAGAAATAA
*
17529390 TATTAAAAA
1 TAATAAAAA
17529399 AGTAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
TAATAAAAATAATAGAAATAA
Found at i:17529391 original size:31 final size:31
Alignment explanation
Indices: 17529353--17529413 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
17529343 TGGTTAATAA
17529353 AAATAATAGTAATAATAA-TAAA-ATATAATGG
1 AAATAATAGTAA-AA-AAGTAAATATATAATGG
*
17529384 AAATAATATTAAAAAAGTAAATATATAATG
1 AAATAATAGTAAAAAAGTAAATATATAATG
17529414 AACAAATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 6 0.22
31 19 0.70
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (31 bp):
AAATAATAGTAAAAAAGTAAATATATAATGG
Found at i:17529445 original size:24 final size:23
Alignment explanation
Indices: 17529417--17529488 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
17529407 TATAATGAAC
*
17529417 AAATGAAATATTAATGATAATAGA
1 AAATGAAATA-TAATAATAATAGA
* *
17529441 AAATG-ATTATAATAATAATGGA
1 AAATGAAATATAATAATAATAGA
17529463 AGTAATGAAA-ATAATAATAATAGA
1 A--AATGAAATATAATAATAATAGA
17529487 AA
1 AA
17529489 CAATAGTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
22 13 0.32
23 3 0.08
24 23 0.57
25 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (23 bp):
AAATGAAATATAATAATAATAGA
Found at i:17529523 original size:15 final size:16
Alignment explanation
Indices: 17529465--17529524 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
17529455 ATAATGGAAG
17529465 TAAT-GAAAATAATAA
1 TAATAGAAAATAATAA
* *
17529480 TAATAG-AAACAATAG
1 TAATAGAAAATAATAA
*
17529495 TAATA-AAAGTAATAA
1 TAATAGAAAATAATAA
17529510 TAAAATAGAAAATAA
1 T--AATAGAAAATAA
17529525 CAATGATACA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 23 0.68
16 1 0.03
17 4 0.12
18 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (16 bp):
TAATAGAAAATAATAA
Found at i:17529619 original size:18 final size:19
Alignment explanation
Indices: 17529582--17529622 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
17529572 AAAAAAGAGG
*
17529582 AAATAATACTATATTAATAA
1 AAATAATAC-ATAGTAATAA
17529602 AAATAATA-ATAGTAATAA
1 AAATAATACATAGTAATAA
17529620 AAA
1 AAA
17529623 GGTTAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATAATACATAGTAATAA
Found at i:17529742 original size:15 final size:15
Alignment explanation
Indices: 17529689--17529748 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
17529679 AAAAGAAAAC
17529689 ATAATAGTATATAGA-A
1 ATAATAGTA-ATA-ATA
17529705 A-AATAGTAA-AAGTA
1 ATAATAGTAATAA-TA
17529719 ATAA-A--AATAATA
1 ATAATAGTAATAATA
17529731 ATAATAGTAATAATA
1 ATAATAGTAATAATA
17529746 ATA
1 ATA
17529749 CTCTCCCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
12 9 0.24
13 4 0.11
14 4 0.11
15 19 0.51
16 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.28
Consensus pattern (15 bp):
ATAATAGTAATAATA
Found at i:17531204 original size:25 final size:26
Alignment explanation
Indices: 17531170--17531222 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
17531160 AGTAAATATG
*
17531170 TATATATATTT-TTAAATTTATAAAAA
1 TATATATATTTAATAAATTT-TAAAAA
17531196 TATAT-TATTTAATAAATTTTAAAAA
1 TATATATATTTAATAAATTTTAAAAA
17531221 TA
1 TA
17531223 AACAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATATATATTTAATAAATTTTAAAAA
Found at i:17535622 original size:18 final size:19
Alignment explanation
Indices: 17535594--17535630 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17535584 AAACAATCTT
*
17535594 AAAACTCAAAAAATTATAA
1 AAAACTCAAAAAATCATAA
17535613 AAAACT-AAAAAATCATAA
1 AAAACTCAAAAAATCATAA
17535631 TATATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAACTCAAAAAATCATAA
Found at i:17535757 original size:22 final size:22
Alignment explanation
Indices: 17535720--17535761 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17535710 AATTTAGTTT
*
17535720 TTTTTTTAAATTAAATATTATAA
1 TTTTTTTAAATGAAAT-TTATAA
17535743 TTTTTTTAAA-GAAATTTAT
1 TTTTTTTAAATGAAATTTAT
17535762 GGTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTTTTAAATGAAATTTATAA
Found at i:17538489 original size:31 final size:32
Alignment explanation
Indices: 17538448--17538507 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
17538438 TCAAAATTAA
* *
17538448 TTATTTTTATTATTATTTT-CTATTATTATAT
1 TTATTATTATTATTATTTTACTACTATTATAT
*
17538479 TTATTATTATTATTGTTTTACTACTATTA
1 TTATTATTATTATTATTTTACTACTATTA
17538508 CTACTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (32 bp):
TTATTATTATTATTATTTTACTACTATTATAT
Found at i:17538586 original size:3 final size:3
Alignment explanation
Indices: 17538580--17538771 Score: 70
Period size: 3 Copynumber: 63.7 Consensus size: 3
17538570 AATTTATACC
* * * * *
17538580 ATT ATT ATT AAT A-T ATT ATT ATT AAT ATT ATC ATT ATTT ACAT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT
* * * * * * *
17538626 ATT ATTT CTT TTT CTT TTT ATT ATGG CTT TATT ATT ATT ACT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT ATT ATT ATT ATT
* * * * *
17538674 ACT ATT TTT ATCT -TT ATT ATT ATT ATT ATC ATC A-T CTT ATT -TT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
17538717 ATT ACT ATT ATC ATT TTT GTA ATT ATT ATT ACT ATT -GT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17538764 ATT ATT AT
1 ATT ATT AT
17538772 ATTTTCATCT
Statistics
Matches: 135, Mismatches: 44, Indels: 20
0.68 0.22 0.10
Matches are distributed among these distances:
2 6 0.04
3 119 0.88
4 10 0.07
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:17538599 original size:14 final size:14
Alignment explanation
Indices: 17538580--17538631 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
17538570 AATTTATACC
17538580 ATTATTATTAATAT
1 ATTATTATTAATAT
17538594 ATTATTATTAATATT
1 ATTATTATTAATA-T
* * *
17538609 ATCATTATTTACAT
1 ATTATTATTAATAT
*
17538623 GTTATTATT
1 ATTATTATT
17538632 TCTTTTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATTATTAATAT
Found at i:17538820 original size:17 final size:17
Alignment explanation
Indices: 17538795--17538833 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
17538785 TTTATTTTCT
*
17538795 TATTACTTATCTATTTA
1 TATTTCTTATCTATTTA
*
17538812 TATTTCTTATTTATTTA
1 TATTTCTTATCTATTTA
17538829 TATTT
1 TATTT
17538834 TTGTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTCTTATCTATTTA
Found at i:17538858 original size:17 final size:17
Alignment explanation
Indices: 17538826--17538860 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17538816 TCTTATTTAT
* *
17538826 TTATATTTTTGTTATTA
1 TTATATTTTAGGTATTA
17538843 TTATATTTTAGGTATTA
1 TTATATTTTAGGTATTA
17538860 T
1 T
17538861 ATCTCTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (17 bp):
TTATATTTTAGGTATTA
Found at i:17538895 original size:26 final size:26
Alignment explanation
Indices: 17538839--17538896 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
17538829 TATTTTTGTT
17538839 ATTA-TTATATTTTAGGTATTATATC
1 ATTATTTATATTTTAGGTATTATATC
*
17538864 -TCTATTTATA-TTTATGTATTAATATC
1 AT-TATTTATATTTTAGGTATT-ATATC
17538890 ATTATTT
1 ATTATTT
17538897 TACTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
ATTATTTATATTTTAGGTATTATATC
Found at i:17539056 original size:14 final size:14
Alignment explanation
Indices: 17539012--17539071 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
17539002 TTTCAAATAT
17539012 TTTTAGCTTATTTA
1 TTTTAGCTTATTTA
**
17539026 TTATTTCCTT-TTTA
1 TT-TTAGCTTATTTA
*
17539040 TTTTAGCTTATTCA
1 TTTTAGCTTATTTA
17539054 TTTT--CTTTATTTA
1 TTTTAGC-TTATTTA
17539067 TTTTA
1 TTTTA
17539072 TTTTTTCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
12 1 0.03
13 15 0.42
14 15 0.42
15 5 0.14
ACGTcount: A:0.18, C:0.10, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTTAGCTTATTTA
Found at i:17541613 original size:25 final size:25
Alignment explanation
Indices: 17541585--17541644 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
17541575 TTTTGGTGTT
*
17541585 TTATGATAGAATATGAGGTTTTAAA
1 TTATGTTAGAATATGAGGTTTTAAA
17541610 TTATGTTAGAATATGAGGTTTTAAA
1 TTATGTTAGAATATGAGGTTTTAAA
17541635 TTATGTTAGA
1 TTATGTTAGA
17541645 CAACTTGTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (25 bp):
TTATGTTAGAATATGAGGTTTTAAA
Found at i:17542450 original size:46 final size:44
Alignment explanation
Indices: 17542292--17542464 Score: 204
Period size: 46 Copynumber: 3.8 Consensus size: 44
17542282 ATTTGGGCAT
*
17542292 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
*** * * *
17542336 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GC
*
17542381 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GC
*
17542429 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17542465 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 30 0.28
45 6 0.06
46 41 0.38
47 28 0.26
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
Found at i:17545424 original size:14 final size:15
Alignment explanation
Indices: 17545375--17545424 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
17545365 GTATCTTGGG
*
17545375 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
17545390 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
17545405 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
17545419 TTTCTT
1 TTTCTT
17545425 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:17547971 original size:46 final size:44
Alignment explanation
Indices: 17547808--17547980 Score: 195
Period size: 46 Copynumber: 3.8 Consensus size: 44
17547798 ATTTGGGCAT
**
17547808 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
*** * * *
17547852 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GC
*
17547897 ATCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GC
*
17547945 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17547981 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
44 30 0.28
45 5 0.05
46 40 0.38
47 28 0.26
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
Found at i:17560126 original size:88 final size:88
Alignment explanation
Indices: 17560019--17560374 Score: 451
Period size: 88 Copynumber: 4.0 Consensus size: 88
17560009 TAAGTAGTAG
* * * ** *
17560019 TGGAGCAGGTTGAAACCACAATTCGTATCTCCTTAAAGTTTTAGTGGAGTAGATCGAGGCTACAA
1 TGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
* * *
17560084 ATCTTTTCTCCCTAAAATGGTAT
66 ATCTCTTCTCCCTGAAATGGCAT
* * * * * * *
17560107 TAGAGCAACTCGAAGCCACAATTTGTATCTCCTTAAACTTTCGGTGGAGTAGATCAAAGCTACAA
1 TGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
17560172 ATCTCTTCTCCCTGAAATGGCAT
66 ATCTCTTCTCCCTGAAATGGCAT
* ** * * * * *
17560195 TGGAGCGGCTTAAAGCCACAATTCGTATGTCATTGAAGTTCCAGCGGAGTAGATCGAGGCTACAA
1 TGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
17560260 ATCTCTTCTCCCTGAAATGGCAT
66 ATCTCTTCTCCCTGAAATGGCAT
* * * *
17560283 TGGAGCCGCTGGAAGCCACAAGTCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAA
1 TGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
*
17560348 ATCTCTTCTCCCTTAAATGGCAT
66 ATCTCTTCTCCCTGAAATGGCAT
17560371 TGGA
1 TGGA
17560375 ACGGCTCTTT
Statistics
Matches: 230, Mismatches: 38, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 230 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (88 bp):
TGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
ATCTCTTCTCCCTGAAATGGCAT
Found at i:17560342 original size:44 final size:44
Alignment explanation
Indices: 17560207--17560350 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 44
17560197 GAGCGGCTTA
* * * *
17560207 AAGCCACAATTCGTATGTCATTGAAGTTCCAGCGGAGTAGATCG
1 AAGCCACAAATCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCG
* * * * * ** * ** * *
17560251 AGGCTACAAATC-TCTTCTCCCTGAAATGGCATTGGAGCCGCTGG
1 AAGCCACAAATCGT-ATCTCCTTGAAGTTCCAGTGGAGTAGATCG
*
17560295 AAGCCACAAGTCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCG
1 AAGCCACAAATCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCG
*
17560339 AAGCTACAAATC
1 AAGCCACAAATC
17560351 TCTTCTCCCT
Statistics
Matches: 67, Mismatches: 31, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 1 0.01
44 65 0.97
45 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (44 bp):
AAGCCACAAATCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCG
Found at i:17560358 original size:44 final size:44
Alignment explanation
Indices: 17560227--17560358 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 44
17560217 TCGTATGTCA
* *
17560227 TTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCC
1 TTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCC
* * ** * ** * * * * *
17560271 CTGAAATGGCATTGGAGCCGCTGGAAGCCACAAGTCGT-ATCTCC
1 TTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATC-TCTTCTCC
17560315 TTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCC
1 TTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCC
17560359 CTTAAATGGC
Statistics
Matches: 60, Mismatches: 26, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
43 1 0.02
44 58 0.97
45 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (44 bp):
TTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCC
Found at i:17560434 original size:68 final size:68
Alignment explanation
Indices: 17560318--17560449 Score: 203
Period size: 68 Copynumber: 1.9 Consensus size: 68
17560308 TATCTCCTTG
* *
17560318 AAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTTAAATGGCATTGGAACGGCTCT
1 AAGTTCCAGTGGAGTAGATCGAAGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAACGGCTCT
17560383 TTA
66 TTA
* * *
17560386 AAGTTTCAGTGGAGTAGATC-AAGGCTACAAATCCCTTCTCTCTGAAATGGCATTGGAGCGGCTC
1 AAGTTCCAGTGGAGTAGATCGAA-GCTACAAATCCCTTCTCCCTGAAATGGCATTGGAACGGCTC
17560450 GAAGCCACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 2 0.03
68 56 0.97
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (68 bp):
AAGTTCCAGTGGAGTAGATCGAAGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAACGGCTCT
TTA
Found at i:17560488 original size:156 final size:156
Alignment explanation
Indices: 17560230--17560530 Score: 485
Period size: 156 Copynumber: 1.9 Consensus size: 156
17560220 TATGTCATTG
* * *
17560230 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCCGCTGG
1 AAGTTCCAGCGGAGTAGATCAAGGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAGCCGCTCG
**
17560295 AAGCCACAAGTCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCC
66 AAGCCACAAGTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCC
*
17560360 TTAAATGGCATTGGAACGGCTCTTTA
131 TGAAATGGCATTGGAACGGCTCTTTA
* * * *
17560386 AAGTTTCAGTGGAGTAGATCAAGGCTACAAATCCCTTCTCTCTGAAATGGCATTGGAGCGGCTCG
1 AAGTTCCAGCGGAGTAGATCAAGGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAGCCGCTCG
* * *
17560451 AAGCCACAATTCGTATCTCCTTGAAGTTCCAACGGAGTGGATCGAGGCTACAAATCTCTTCTCCC
66 AAGCCACAAGTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCC
17560516 TGAAATGGCATTGGA
131 TGAAATGGCATTGGA
17560531 GCCGCTCAAA
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
156 132 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (156 bp):
AAGTTCCAGCGGAGTAGATCAAGGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAGCCGCTCG
AAGCCACAAGTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCC
TGAAATGGCATTGGAACGGCTCTTTA
Found at i:17560543 original size:88 final size:88
Alignment explanation
Indices: 17560386--17560987 Score: 846
Period size: 88 Copynumber: 6.8 Consensus size: 88
17560376 CGGCTCTTTA
* * * * *
17560386 AAGTTTCAGTGGAGTAGATCAAGGCTACAAATCCCTTCTCTCTGAAATGGCATTGGAGCGGCTCG
1 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCG
17560451 AAGCCACAATTCGTATCTCCTTG
66 AAGCCACAATTCGTATCTCCTTG
* * * *
17560474 AAGTTCCAACGGAGTGGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCCGCTCA
1 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCG
17560539 AAGCCACAATTCGTATCTCCTTG
66 AAGCCACAATTCGTATCTCCTTG
* * * ** * *
17560562 AAGTTTCAGCGGAATAGATCAAAACTACAAATCTCTTCTCCCTGAAATGGCATTAGAACGGCTCG
1 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCG
*
17560627 AAGCCACAATTCGTATCTCCTTA
66 AAGCCACAATTCGTATCTCCTTG
* * * * **
17560650 AAGTTCCAGCAGAGTATATCGAAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCCTCTCG
1 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCG
** * *
17560715 AAGCCACAATTTTTATCTTCTTA
66 AAGCCACAATTCGTATCTCCTTG
* * * *
17560738 AAGTTTCAACGGAGTAGATCGATGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTTG
1 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCG
* *
17560803 AAGCCACAATTCATATCTCATTG
66 AAGCCACAATTCGTATCTCCTTG
*
17560826 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGGAGCGGCTCG
1 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCG
*
17560891 AAGCCACAATTCATATCTCCTTG
66 AAGCCACAATTCGTATCTCCTTG
* * *
17560914 AAGTTCTAGTGGAGTAGATCGAGGCTACAAATCTCTTCTCCCT-AGAATGGCATTGGAGCGGCTT
1 AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGA-AATGGCATTGGAGCGGCTC
17560978 GAAGCCACAA
65 GAAGCCACAA
17560988 ATCACAAACC
Statistics
Matches: 454, Mismatches: 59, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
87 1 0.00
88 453 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (88 bp):
AAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCG
AAGCCACAATTCGTATCTCCTTG
Found at i:17560988 original size:44 final size:43
Alignment explanation
Indices: 17560412--17560990 Score: 158
Period size: 44 Copynumber: 13.2 Consensus size: 43
17560402 GATCAAGGCT
*
17560412 ACAAATCCCTTCT-CTCTGAAATGGCATTGGAGCGGCTCGAAGCC
1 ACAAATCTCTTCTCCT-TG-AATGGCATTGGAGCGGCTCGAAGCC
** ** * * * *
17560456 AC-AAT-TCGTATCTCCTTGAAGTTCCAACGGAGTGGATCGAGGCT
1 ACAAATCTC-T-TCTCCTTGAA-TGGCATTGGAGCGGCTCGAAGCC
* * *
17560500 ACAAATCTCTTCTCCCTGAAATGGCATTGGAGCCGCTCAAAGCC
1 ACAAATCTCTTCTCCTTG-AATGGCATTGGAGCGGCTCGAAGCC
** ** *** * * * *
17560544 AC-AAT-TCGTATCTCCTTGAAGTTTCAGCGGAATAGATCAAAACT
1 ACAAATCTC-T-TCTCCTTGAA-TGGCATTGGAGCGGCTCGAAGCC
* * *
17560588 ACAAATCTCTTCTCCCTGAAATGGCATTAGAACGGCTCGAAGCC
1 ACAAATCTCTTCTCCTTG-AATGGCATTGGAGCGGCTCGAAGCC
* ** *** **** *
17560632 AC-AAT-TCGTATCTCCTTAAAGTTCCAGCAGAGTATATCGAAGCT
1 ACAAATCTC-T-TCTCCTTGAA-TGGCATTGGAGCGGCTCGAAGCC
** **
17560676 ACAAATCTCTTCTCCCTAAAATGGCATTGGAGCCTCTCGAAGCC
1 ACAAATCTCTTCT-CCTTGAATGGCATTGGAGCGGCTCGAAGCC
* * * * ** ** ** * * *
17560720 AC-AATTTTTATCTTCTTAAAGTTTCAACGGAGTAGATCGATGCT
1 ACAAATCTCT-TCTCCTTGAA-TGGCATTGGAGCGGCTCGAAGCC
* *
17560764 ACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTTGAAGCC
1 ACAAATCTCTTCTCCTTG-AATGGCATTGGAGCGGCTCGAAGCC
* ** ** ** * * *
17560808 AC-AAT-TCATATCTCATTGAAGTTCCAGCGGAGTAGATCGAGGCT
1 ACAAATCTC-T-TCTCCTTGAA-TGGCATTGGAGCGGCTCGAAGCC
17560852 ACAAATCTCTTCTCCTTGAAATGGCATTGGAGCGGCTCGAAGCC
1 ACAAATCTCTTCTCCTTG-AATGGCATTGGAGCGGCTCGAAGCC
* * ** * * *
17560896 AC-AAT-TCATATCTCCTTGAA-GTTCTAGTGGAGTAGATCGAGGCT
1 ACAAATCTC-T-TCTCCTTGAATG-GC-ATTGGAGCGGCTCGAAGCC
* *
17560940 ACAAATCTCTTCTCCCTAGAATGGCATTGGAGCGGCTTGAAGCC
1 ACAAATCTCTTCT-CCTTGAATGGCATTGGAGCGGCTCGAAGCC
17560984 ACAAATC
1 ACAAATC
17560991 ACAAACCCTA
Statistics
Matches: 366, Mismatches: 132, Indels: 74
0.64 0.23 0.13
Matches are distributed among these distances:
42 10 0.03
43 41 0.11
44 256 0.70
45 48 0.13
46 11 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
ACAAATCTCTTCTCCTTGAATGGCATTGGAGCGGCTCGAAGCC
Found at i:17561055 original size:44 final size:44
Alignment explanation
Indices: 17560999--17561613 Score: 286
Period size: 44 Copynumber: 13.6 Consensus size: 44
17560989 TCACAAACCC
* * * *
17560999 TATCTCCATGAAGTAGCAGCGGAGTAGGTTGAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCT
* * *
17561043 TATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-C-AAGTCT
* * **
17561088 TATCTCCCTTAAGTTGCAGTGCAGTAGATTGAAGCTAGAAATCACAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-T-----T-ACAAGTCT
* *
17561139 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCT
* * * * * *
17561183 TATCTCCCTGAATTTACAGTGGAGCAGATTGGAGATAGCAATTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-CAAGTCT
* * * * * ** *
17561228 CATTTCCCTGAAGATACGGTGGAACAGATTGAAGTTATAAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-T-TACA-AG-TCT
* * *
17561276 TATC-CCCTTGAAGTTGCAGTAGAGTAGA-T-CA--TATCAAATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGTAGATTGAAGTTA-CAAGTCT
* * ** *
17561317 TATCTCCCTTAAGTTGTAGTGGAGTAGATTGAAGGCACTAA-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC-AAGTCT
* * ** * *
17561361 TATC-CTCCTGAAATTGCAATGGAACATATTGAAGTTATAAATAAACAGATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGTAGATTGAAG---T---TACA-AG-TCT
* * * * *
17561413 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-AAG-CT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGA-AGTTACAAGTCT
* * * *** *
17561454 TATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCGCTAA-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC-AAGTCT
* * * *
17561498 TATCCCCCTGAAATTGCAGTGGGGCA-AGTTGAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAGTTACAAGTCT
* * * **
17561542 TATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAG-TCT
* *
17561587 TATCTCCTTGAAGTTGCAATGGAGTAG
1 TATCTCCCTGAAGTTGCAGTGGAGTAG
17561614 TTCAAGCTAC
Statistics
Matches: 426, Mismatches: 101, Indels: 87
0.69 0.16 0.14
Matches are distributed among these distances:
41 51 0.12
42 10 0.02
43 8 0.02
44 159 0.37
45 100 0.23
46 4 0.01
47 7 0.02
48 19 0.04
49 1 0.00
50 5 0.01
51 36 0.08
52 25 0.06
53 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCT
Found at i:17561236 original size:140 final size:140
Alignment explanation
Indices: 17560976--17561236 Score: 371
Period size: 140 Copynumber: 1.9 Consensus size: 140
17560966 TTGGAGCGGC
*
17560976 TTGAAGCCACAAATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGTAGGTTGAAGTTACAAGT
1 TTGAAGCCACAAATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGCAGGTTGAAGTTACAAGT
* * * *
17561041 CTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATCTCCCTTAAGTTGCA
66 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTCATCTCCCTTAAGTTGCA
17561106 GTGCAGTAGA
131 GTGCAGTAGA
* * * * * *
17561116 TTGAAGCTAGAAATCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 TTGAAGCCACAAATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGCAGGTTGAAGTTACAAGT
* * * *
17561181 CTTATCTCCCTGAATTTACAGTGGAGCAGATTGGAGATAGC-AATTCTCATTTCCCT
66 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAA-TCTCATCTCCCT
17561237 GAAGATACGG
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
139 2 0.02
140 103 0.98
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (140 bp):
TTGAAGCCACAAATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGCAGGTTGAAGTTACAAGT
CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTCATCTCCCTTAAGTTGCA
GTGCAGTAGA
Found at i:17561534 original size:137 final size:137
Alignment explanation
Indices: 17561247--17561515 Score: 413
Period size: 137 Copynumber: 2.0 Consensus size: 137
17561237 GAAGATACGG
* *
17561247 TGGAACAGATTGAAGTTATAAAT----AGATCTTATCCCCTTGAAGTTGCAGTAGAGTAGATCAT
1 TGGAACATATTGAAGTTATAAATAAACAGATCTTATCCCCTTGAAGTTGCAGTAGAGCAGATCAT
* * * * *
17561308 ATCAAATCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTGAAGGCACTAACCTTATCCTCCTGAA
66 AGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCACTAACCTTATCCCCCTGAA
17561373 ATTGCAA
131 ATTGCAA
*
17561380 TGGAACATATTGAAGTTATAAATAAACAGATCTTAT-CTCTCTGAAGTTGCAGTAGAGCAGATCA
1 TGGAACATATTGAAGTTATAAATAAACAGATCTTATCCCCT-TGAAGTTGCAGTAGAGCAGATCA
*
17561444 TAGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCGCTAACCTTATCCCCCTGA
65 TAGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCACTAACCTTATCCCCCTGA
17561509 AATTGCA
130 AATTGCA
17561516 GTGGGGCAAG
Statistics
Matches: 122, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
133 22 0.18
136 3 0.02
137 97 0.80
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (137 bp):
TGGAACATATTGAAGTTATAAATAAACAGATCTTATCCCCTTGAAGTTGCAGTAGAGCAGATCAT
AGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCACTAACCTTATCCCCCTGAA
ATTGCAA
Found at i:17562933 original size:22 final size:22
Alignment explanation
Indices: 17562908--17562951 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17562898 TTCAGGGGGA
17562908 AGGGAAAATTTCCCTTTTGGTC
1 AGGGAAAATTTCCCTTTTGGTC
*
17562930 AGGGAAAATTTCTCTTTTGGTC
1 AGGGAAAATTTCCCTTTTGGTC
17562952 CCTCGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (22 bp):
AGGGAAAATTTCCCTTTTGGTC
Found at i:17563212 original size:3 final size:3
Alignment explanation
Indices: 17563206--17563404 Score: 102
Period size: 3 Copynumber: 66.7 Consensus size: 3
17563196 ATTTACTACC
* * *
17563206 ATT ATT ATT AAT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATC ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * * * * * * **
17563255 ACAT GTT ATT ATTT CTT TTT CTT TTT ATT ATG GCT -TT ATT ATT ATT
1 A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
17563301 ACT ATT ATT ACT ATT TTT ATCT -TT ATT ATT ATT ATT ATC A-T CTT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
17563345 ATT -TT ATT ACT ATT ATC ATT TTT GTA ATT ATT ATT ACT ATT -GT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
17563391 ATT ACT ATT ATT AT
1 ATT ATT ATT ATT AT
17563405 ATTTTCATCT
Statistics
Matches: 142, Mismatches: 46, Indels: 16
0.70 0.23 0.08
Matches are distributed among these distances:
2 5 0.04
3 130 0.92
4 7 0.05
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:17563375 original size:43 final size:41
Alignment explanation
Indices: 17563290--17563401 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 41
17563280 TATTATGGCT
* * * *
17563290 TTATTATTATTACTATTATTACTATTTTTATCTTTATTATTA
1 TTATTACTATTA-TATTATTACTATTATCATCTTTATAATTA
* * * *
17563332 TTATTATCATCTTATTTTATTACTATTATCATTTTTGTAATTA
1 TTATTA-C-TATTATATTATTACTATTATCATCTTTATAATTA
*
17563375 TTATTACTATTGTATTATTACTATTAT
1 TTATTACTATTATATTATTACTATTAT
17563402 TATATTTTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 17 0.30
42 7 0.12
43 29 0.51
44 4 0.07
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (41 bp):
TTATTACTATTATATTATTACTATTATCATCTTTATAATTA
Done.