Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 52 of 325
Found at i:18786476 original size:21 final size:18
Alignment explanation
Indices: 18786439--18786477 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
18786429 GTTGATGTTT
18786439 TTTAAAAAATAAAATATA
1 TTTAAAAAATAAAATATA
18786457 TTTAAAATAATGATAAATATA
1 TTTAAAA-AAT-A-AAATATA
18786478 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 1 0.06
21 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTTAAAAAATAAAATATA
Found at i:18800223 original size:42 final size:43
Alignment explanation
Indices: 18800156--18800265 Score: 145
Period size: 42 Copynumber: 2.6 Consensus size: 43
18800146 ATAATCAGTG
*
18800156 AGATCAAGATTACCAGTCCAGGCTAAATCTC-ATCTCCAACATA
1 AGATCAGGATTACCAGTCCAGGCTAAATCTCGAT-TCCAACATA
* *
18800199 TA-ATTAGGATTA-CAGTCCAGGCTAAATCTCGATTTCAACATA
1 -AGATCAGGATTACCAGTCCAGGCTAAATCTCGATTCCAACATA
*
18800241 AGATCAGAATTACCAGTCCAGGCTA
1 AGATCAGGATTACCAGTCCAGGCTA
18800266 GATTCTGTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.02
42 34 0.59
43 22 0.38
44 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (43 bp):
AGATCAGGATTACCAGTCCAGGCTAAATCTCGATTCCAACATA
Found at i:18801751 original size:45 final size:46
Alignment explanation
Indices: 18801588--18801762 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
18801578 ATGTTGAGCA
*
18801588 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
18801634 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
18801679 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
18801727 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18801763 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:18809253 original size:47 final size:47
Alignment explanation
Indices: 18809135--18809303 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
18809125 GGATGGTTGA
*
18809135 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
18809183 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
18809226 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
18809275 -C--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
18809304 GCTTATGGGC
Statistics
Matches: 105, Mismatches: 7, Indels: 22
0.78 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 27 0.26
45 3 0.03
46 30 0.29
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:18809300 original size:44 final size:44
Alignment explanation
Indices: 18809137--18809311 Score: 210
Period size: 44 Copynumber: 3.9 Consensus size: 44
18809127 ATGGTTGAGC
18809137 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
18809181 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGA
18809230 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
18809274 ACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18809312 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 38 0.34
45 2 0.02
46 32 0.29
47 32 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:18811537 original size:29 final size:30
Alignment explanation
Indices: 18811478--18811535 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18811468 TCCGAGCCTT
*
18811478 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
18811508 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
18811536 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:18811765 original size:13 final size:13
Alignment explanation
Indices: 18811747--18811778 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18811737 TTTCCAGCAA
18811747 TTATGAATTTATT
1 TTATGAATTTATT
18811760 TTATGAATTTATT
1 TTATGAATTTATT
*
18811773 TGATGA
1 TTATGA
18811779 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:18811986 original size:50 final size:50
Alignment explanation
Indices: 18811873--18812114 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
18811863 ATTTGGGTAA
* * *
18811873 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
18811929 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18811979 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18812029 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
18812079 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
18812115 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:18812062 original size:100 final size:103
Alignment explanation
Indices: 18811873--18812122 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
18811863 ATTTGGGTAA
18811873 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
18811938 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
18811979 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
18812041 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
18812079 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18812123 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:18819129 original size:29 final size:30
Alignment explanation
Indices: 18819070--18819127 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18819060 TCCGAGCCTT
*
18819070 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
18819100 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
18819128 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:18819357 original size:13 final size:13
Alignment explanation
Indices: 18819339--18819370 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18819329 TTTCCAGCAA
18819339 TTATGAATTTATT
1 TTATGAATTTATT
18819352 TTATGAATTTATT
1 TTATGAATTTATT
*
18819365 TGATGA
1 TTATGA
18819371 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:18819578 original size:50 final size:50
Alignment explanation
Indices: 18819465--18819706 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
18819455 ATTTGGGTAA
* * *
18819465 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
18819521 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18819571 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18819621 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
18819671 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
18819707 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:18819654 original size:100 final size:103
Alignment explanation
Indices: 18819465--18819714 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
18819455 ATTTGGGTAA
18819465 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
18819530 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
18819571 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
18819633 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
18819671 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18819715 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:18822655 original size:11 final size:11
Alignment explanation
Indices: 18822639--18822665 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18822629 ATATTACATG
18822639 AAATAATAAAA
1 AAATAATAAAA
18822650 AAATAATAAAA
1 AAATAATAAAA
18822661 AAATA
1 AAATA
18822666 TAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAATAAAA
Found at i:18827508 original size:21 final size:22
Alignment explanation
Indices: 18827468--18827508 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18827458 ATGGCATGTC
* *
18827468 ATTAGGGTTATATGCGTGTTTA
1 ATTAGGGATATATGCATGTTTA
18827490 ATTAGGGAT-TATGCATGTT
1 ATTAGGGATATATGCATGTT
18827509 ATTGTAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (22 bp):
ATTAGGGATATATGCATGTTTA
Found at i:18837134 original size:21 final size:20
Alignment explanation
Indices: 18837101--18837139 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18837091 TCTTGATTCG
*
18837101 TAAAGTTTCAAAATAAATATT
1 TAAAATTTCAAAA-AAATATT
*
18837122 TAAAATTTTAAAAAAATA
1 TAAAATTTCAAAAAAATA
18837140 AAAAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATTTCAAAAAAATATT
Found at i:18838497 original size:17 final size:18
Alignment explanation
Indices: 18838475--18838514 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
18838465 ATTTTTTTAT
18838475 TTATTTTAATAA-AAGTA
1 TTATTTTAATAAGAAGTA
* *
18838492 TTATTTTTATAAGAATTA
1 TTATTTTAATAAGAAGTA
18838510 TTATT
1 TTATT
18838515 CATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TTATTTTAATAAGAAGTA
Found at i:18838514 original size:21 final size:20
Alignment explanation
Indices: 18838490--18838528 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18838480 TTAATAAAAG
18838490 TATT-ATTTTTATAAGAATTAT
1 TATTCATTTTT-TAA-AATTAT
18838511 TATTCATTTTTTAAAATT
1 TATTCATTTTTTAAAATT
18838529 TAAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTCATTTTTTAAAATTAT
Found at i:18841573 original size:21 final size:21
Alignment explanation
Indices: 18841547--18841587 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18841537 ATCTGCTCAA
* *
18841547 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18841568 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18841588 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:18846236 original size:3 final size:3
Alignment explanation
Indices: 18846228--18846493 Score: 141
Period size: 3 Copynumber: 88.0 Consensus size: 3
18846218 ATTTAATATA
* * *
18846228 TAT TAT TAT ATGT TTT TAT TAT T-T TAC TAT TACT TA- TATT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
* * *
18846274 CAT TAC TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
18846321 GT-T TAC TAT TAT TATT TAT TGT CAT TAT CAT TAT TAC GAC TAT CAT
1 -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
18846367 TAT TAT TAT T-T TATT TAT TAT CAT TAT TAT TAC TAT TAT GTTT TAAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT T-AT
* * * * * * *
18846414 TAC TAC TA- CAGT TAT TAT TAT TAT TAT TAT TGT TAT CAT TTT TGT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
18846459 AAT TAC TAT TAC TAT T-G TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18846494 ATTTTCATCT
Statistics
Matches: 197, Mismatches: 51, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
2 10 0.05
3 169 0.86
4 18 0.09
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:18846480 original size:47 final size:45
Alignment explanation
Indices: 18846378--18846492 Score: 115
Period size: 47 Copynumber: 2.5 Consensus size: 45
18846368 ATTATTATTT
* *
18846378 TATTTATTATCATTATTATTACTATTATGTTTTAATTACTACTAC
1 TATTTATTATTATTATTATTACTATCATGTTTTAATTACTACTAC
** * *
18846423 -AGTTATTATTATTATTATTATTGTTATCATTTTTGTAATTACTATTAC
1 TA--T-TTATTATTATTATTATTACTATCATGTTT-TAATTACTACTAC
*
18846471 TATTGTATTATTACTATTATTA
1 TATT-TATTATTATTATTATTA
18846493 TATTTTCATC
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
44 1 0.02
46 2 0.04
47 40 0.71
48 12 0.21
49 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.57
Consensus pattern (45 bp):
TATTTATTATTATTATTATTACTATCATGTTTTAATTACTACTAC
Found at i:18846486 original size:65 final size:62
Alignment explanation
Indices: 18846365--18846486 Score: 140
Period size: 62 Copynumber: 1.9 Consensus size: 62
18846355 TACGACTATC
* *
18846365 ATTATTATTATTTTATTTATTATCATTATTATTACTATTATGTTTTAATTACTACTACAGTT
1 ATTATTATTATTTTATTTATTATCATTATTATTACTATTATATTGTAATTACTACTACAGTT
* * *
18846427 ATTATTATTATTATTA-TTGTTATCATTTTTGTAATTACTATTACTATTGT-ATTATTACTA
1 ATTATTATTATT-TTATTTATTATCA-TTAT-T-ATTACTATTA-TATTGTAATTACTACTA
18846487 TTATTATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
62 20 0.40
63 6 0.12
64 1 0.02
65 19 0.38
66 4 0.08
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.58
Consensus pattern (62 bp):
ATTATTATTATTTTATTTATTATCATTATTATTACTATTATATTGTAATTACTACTACAGTT
Found at i:18846537 original size:25 final size:25
Alignment explanation
Indices: 18846500--18846551 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
18846490 TTATATTTTC
18846500 ATCTATATTTATTTTC-TTATTACTT
1 ATCTATATTTATTTTCGTTATTA-TT
18846525 ATCTAT-TTATATTTTCGTTATTATT
1 ATCTATATT-TATTTTCGTTATTATT
18846550 AT
1 AT
18846552 ATTTTAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 2 0.08
25 17 0.68
26 6 0.24
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (25 bp):
ATCTATATTTATTTTCGTTATTATT
Found at i:18846563 original size:17 final size:17
Alignment explanation
Indices: 18846531--18846565 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18846521 ACTTATCTAT
* *
18846531 TTATATTTTCGTTATTA
1 TTATATTTTAGGTATTA
18846548 TTATATTTTAGGTATTA
1 TTATATTTTAGGTATTA
18846565 T
1 T
18846566 ATCCATATTT
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:0.03, G:0.09, T:0.63
Consensus pattern (17 bp):
TTATATTTTAGGTATTA
Found at i:18846600 original size:26 final size:27
Alignment explanation
Indices: 18846544--18846601 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
18846534 TATTTTCGTT
18846544 ATTA-TTATATTTTAGGTATTATATCC
1 ATTATTTATATTTTAGGTATTATATCC
18846570 A-TATTTATA-TTTAGGTATTAATAT-C
1 ATTATTTATATTTTAGGTATT-ATATCC
18846595 ATTATTT
1 ATTATTT
18846602 TACTATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (27 bp):
ATTATTTATATTTTAGGTATTATATCC
Found at i:18848642 original size:88 final size:88
Alignment explanation
Indices: 18848488--18848658 Score: 288
Period size: 88 Copynumber: 1.9 Consensus size: 88
18848478 GGATGCTTCC
* * *
18848488 AATTATACTCAGCACTATTTTCATTAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCTAAC
1 AATTATACTCAACACTATTTTCATGAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCCAAC
*
18848553 AAAGCACAACTATGGACACTTTT
66 AAAGCACAACCATGGACACTTTT
* *
18848576 AATTATACTCAACACTGTTTTCATGAATACTTGTTTAGCCCAACTCCAAACTTTCACCATCCAAC
1 AATTATACTCAACACTATTTTCATGAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCCAAC
18848641 AAAGCACAACCATGGACA
66 AAAGCACAACCATGGACA
18848659 TCCATGGAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (88 bp):
AATTATACTCAACACTATTTTCATGAATACTCGTTTAGCCCAACTCCAAACTTTCACCATCCAAC
AAAGCACAACCATGGACACTTTT
Found at i:18848746 original size:27 final size:27
Alignment explanation
Indices: 18848710--18848761 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
18848700 TGGATGGTGG
18848710 AAATTTGGAGTTGGGCTAAACAAGTGA
1 AAATTTGGAGTTGGGCTAAACAAGTGA
18848737 AAATTTGGAGTTGGGCTAAACAAGT
1 AAATTTGGAGTTGGGCTAAACAAGT
18848762 ATTCAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.27
Consensus pattern (27 bp):
AAATTTGGAGTTGGGCTAAACAAGTGA
Found at i:18852211 original size:21 final size:21
Alignment explanation
Indices: 18852185--18852225 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18852175 ATCTGCTCAA
* *
18852185 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18852206 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18852226 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:18864552 original size:12 final size:12
Alignment explanation
Indices: 18864535--18864568 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
18864525 CCACCGCAAG
18864535 CGGCTGCACCGC
1 CGGCTGCACCGC
18864547 CGGCTGCACCGC
1 CGGCTGCACCGC
18864559 CGGCTGCACC
1 CGGCTGCACC
18864569 ACCCAGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.50, G:0.32, T:0.09
Consensus pattern (12 bp):
CGGCTGCACCGC
Found at i:18875083 original size:12 final size:12
Alignment explanation
Indices: 18875066--18875090 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18875056 ATACATGAAT
18875066 TTTAATTTAATA
1 TTTAATTTAATA
18875078 TTTAATTTAATA
1 TTTAATTTAATA
18875090 T
1 T
18875091 ATAAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATTTAATA
Found at i:18880341 original size:19 final size:20
Alignment explanation
Indices: 18880309--18880346 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18880299 TATAATTTAA
*
18880309 TTTAAATATATAAACTATAT
1 TTTAAATATATAAAATATAT
18880329 TTTAAATAT-TAAAATATA
1 TTTAAATATATAAAATATA
18880347 ATCATTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAATATATAAAATATAT
Found at i:18880624 original size:20 final size:20
Alignment explanation
Indices: 18880588--18880625 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18880578 TATAAACTCC
*
18880588 ATTAAATTAATTCATTTATT
1 ATTAAATTAATTAATTTATT
18880608 ATTAAA-TATATTAATTTA
1 ATTAAATTA-ATTAATTTA
18880626 ATTTCTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAAATTAATTAATTTATT
Found at i:18882231 original size:9 final size:9
Alignment explanation
Indices: 18882215--18882383 Score: 91
Period size: 9 Copynumber: 18.7 Consensus size: 9
18882205 CCATAAATAT
18882215 ATTA-AAAA
1 ATTATAAAA
18882223 ATTATAAAA
1 ATTATAAAA
* *
18882232 TTTAT-TAA
1 ATTATAAAA
*
18882240 ATAATAAAA
1 ATTATAAAA
18882249 ATTATAAAA
1 ATTATAAAA
*
18882258 TTTGATATAAA
1 ATT-ATA-AAA
* *
18882269 TTTATTAAA
1 ATTATAAAA
18882278 ATTATAAAA
1 ATTATAAAA
*
18882287 ATGATAACAA
1 ATTATAA-AA
18882297 A-TATAAAA
1 ATTATAAAA
*
18882305 A-TA-ATAA
1 ATTATAAAA
* *
18882312 TTTTTAATAA
1 ATTATAA-AA
18882322 ATTATAAAA
1 ATTATAAAA
18882331 ATTATAAAA
1 ATTATAAAA
* *
18882340 GTAATAAATA
1 ATTATAAA-A
18882350 TATT-TAAAA
1 -ATTATAAAA
*
18882359 TATTCA-AAAT
1 -ATT-ATAAAA
*
18882369 TTTATAAAA
1 ATTATAAAA
18882378 ATTATA
1 ATTATA
18882384 GTATAAAAAG
Statistics
Matches: 122, Mismatches: 26, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
7 3 0.02
8 16 0.13
9 73 0.60
10 23 0.19
11 7 0.06
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTATAAAA
Found at i:18882241 original size:29 final size:30
Alignment explanation
Indices: 18882207--18882359 Score: 113
Period size: 26 Copynumber: 5.6 Consensus size: 30
18882197 ATATTTTCCC
18882207 ATAAATATATTAAAAAATTATAAAATTT-AT
1 ATAAATATATT-AAAAATTATAAAATTTGAT
18882237 -TAAATA-A-TAAAAATTATAAAATTTGAT
1 ATAAATATATTAAAAATTATAAAATTTGAT
* *
18882264 ATAAATTTATT-AAAATTATAAAA-ATGAT
1 ATAAATATATTAAAAATTATAAAATTTGAT
* * *
18882292 A-ACAA-ATA-TAAAAATAAT-AATTTTTA-
1 ATA-AATATATTAAAAATTATAAAATTTGAT
*
18882318 ATAAAT-TA-TAAAAATTATAAAA-GT-A-
1 ATAAATATATTAAAAATTATAAAATTTGAT
*
18882343 ATAAATATATTTAAAAT
1 ATAAATATATTAAAAAT
18882360 ATTCAAAATT
Statistics
Matches: 100, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
25 7 0.07
26 36 0.36
27 24 0.24
28 13 0.13
29 19 0.19
30 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (30 bp):
ATAAATATATTAAAAATTATAAAATTTGAT
Found at i:18886638 original size:22 final size:22
Alignment explanation
Indices: 18886610--18886652 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18886600 GCACCTGTTA
18886610 GAAAAATATGCTGGGGAGCTAT
1 GAAAAATATGCTGGGGAGCTAT
18886632 GAAAAATATGCTGGGGAGCTA
1 GAAAAATATGCTGGGGAGCTA
18886653 GTGCCTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (22 bp):
GAAAAATATGCTGGGGAGCTAT
Found at i:18886956 original size:19 final size:19
Alignment explanation
Indices: 18886932--18886977 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18886922 AGTCTAATAA
18886932 TTTCTTTCTT-TCTTTCCTT
1 TTTCTTT-TTCTCTTTCCTT
* *
18886951 TTTCTTTTTCTTTTTCTTT
1 TTTCTTTTTCTCTTTCCTT
18886970 TTTCTTTT
1 TTTCTTTT
18886978 AAATTTCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTCTCTTTCCTT
Found at i:18886959 original size:6 final size:6
Alignment explanation
Indices: 18886948--18886977 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
18886938 TCTTTCTTTC
18886948 CTTTTT CTTTTT CTTTTT CTTTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT C-TTTTT CTTTT
18886978 AAATTTCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:18886963 original size:12 final size:13
Alignment explanation
Indices: 18886936--18886977 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
18886926 TAATAATTTC
18886936 TTTCTTTCTTTCCTT
1 TTTCTTT-TTT-CTT
18886951 TTTC-TTTTTCTT
1 TTTCTTTTTTCTT
18886963 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
18886976 TT
1 TT
18886978 AAATTTCAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.27
13 13 0.50
14 2 0.08
15 4 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTCTT
Found at i:18888802 original size:7 final size:7
Alignment explanation
Indices: 18888792--18888818 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18888782 CTTTCTTTTT
18888792 TTTGTTA
1 TTTGTTA
18888799 TTTGTTA
1 TTTGTTA
18888806 TTTGTTA
1 TTTGTTA
18888813 TTTGTT
1 TTTGTT
18888819 GAAGGTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.74
Consensus pattern (7 bp):
TTTGTTA
Found at i:18892312 original size:2 final size:2
Alignment explanation
Indices: 18892305--18892343 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18892295 CTTTTCCTTT
18892305 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18892344 TTTGGGGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:18903787 original size:17 final size:19
Alignment explanation
Indices: 18903753--18903790 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
18903743 CAAACCTTAA
18903753 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
18903772 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
18903789 TT
1 TT
18903791 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:18904591 original size:3 final size:3
Alignment explanation
Indices: 18904583--18904634 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
18904573 AAAGGATCAG
18904583 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18904631 ATA A
1 ATA A
18904635 AGCGCATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18910811 original size:28 final size:29
Alignment explanation
Indices: 18910780--18910835 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
18910770 TATTATTATT
*
18910780 TATATGAATATATAAATTA-ATTATAAAG
1 TATATGAATAAATAAATTACATTATAAAG
* * *
18910808 TATATTATTAAATTAATTACATTATAAA
1 TATATGAATAAATAAATTACATTATAAA
18910836 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (29 bp):
TATATGAATAAATAAATTACATTATAAAG
Found at i:18911616 original size:18 final size:18
Alignment explanation
Indices: 18911593--18911635 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
18911583 ATGTGAGGTA
18911593 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
18911611 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
18911629 ATTATTA
1 AGTATTA
18911636 TTATGAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:18911621 original size:3 final size:3
Alignment explanation
Indices: 18911595--18911639 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
18911585 GTGAGGTAAG
* * * *
18911595 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18911640 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:18911810 original size:24 final size:27
Alignment explanation
Indices: 18911783--18911851 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 27
18911773 GTGAAGTTGT
*
18911783 GAAATAATTATTG-ATTGAAAG-GTG-
1 GAAATAATGATTGAATTGAAAGTGTGA
18911807 GAAA-AATGATTGAATTGAAAGTGTGA
1 GAAATAATGATTGAATTGAAAGTGTGA
**
18911833 GAAATTGTGATTGAATTGA
1 GAAATAATGATTGAATTGA
18911852 GAATATATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 7 0.18
24 12 0.32
25 3 0.08
26 4 0.11
27 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (27 bp):
GAAATAATGATTGAATTGAAAGTGTGA
Found at i:18912054 original size:37 final size:39
Alignment explanation
Indices: 18911995--18912090 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
18911985 CGGATAGATT
* * * *
18911995 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
18912032 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
18912071 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
18912091 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:18912854 original size:11 final size:10
Alignment explanation
Indices: 18912828--18912852 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18912818 AAATTTTTAT
18912828 AAAAATAAAA
1 AAAAATAAAA
18912838 AAAAATAAAA
1 AAAAATAAAA
18912848 AAAAA
1 AAAAA
18912853 ATGAAGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:18915303 original size:22 final size:23
Alignment explanation
Indices: 18915277--18915322 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18915267 CAACCAAACC
18915277 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
18915299 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
18915322 A
1 A
18915323 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:18922260 original size:40 final size:40
Alignment explanation
Indices: 18922193--18922356 Score: 217
Period size: 40 Copynumber: 4.1 Consensus size: 40
18922183 ACCCAAGTAT
*
18922193 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
18922232 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
18922272 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
18922312 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
18922352 CTTCG
1 CTTCG
18922357 AATCTTAGTC
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.11
40 93 0.86
41 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:18925385 original size:8 final size:8
Alignment explanation
Indices: 18925372--18925415 Score: 79
Period size: 8 Copynumber: 5.5 Consensus size: 8
18925362 CTTTTATATT
18925372 TTATTAAA
1 TTATTAAA
18925380 TTATTAAA
1 TTATTAAA
18925388 TTATTAAA
1 TTATTAAA
18925396 TTATTAAA
1 TTATTAAA
*
18925404 TTATTATA
1 TTATTAAA
18925412 TTAT
1 TTAT
18925416 ATACTTAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTATTAAA
Found at i:18925973 original size:8 final size:8
Alignment explanation
Indices: 18925962--18926000 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
18925952 ATATATTAAT
18925962 TTATATTA
1 TTATATTA
18925970 TTATATTA
1 TTATATTA
18925978 TTATATTA
1 TTATATTA
*
18925986 TTACATTA
1 TTATATTA
18925994 TATATAT
1 T-TATAT
18926001 ATGTAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 24 0.86
9 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:18926065 original size:13 final size:15
Alignment explanation
Indices: 18926034--18926070 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
18926024 CAAAACGAAT
18926034 AGGAGAGAAAGAAAGA
1 AGGAGA-AAAGAAAGA
18926050 AGG-GAAAAGAAA-A
1 AGGAGAAAAGAAAGA
18926063 AGGAGAAA
1 AGGAGAAA
18926071 TTAGGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 2 0.10
16 3 0.15
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AGGAGAAAAGAAAGA
Found at i:18929165 original size:58 final size:58
Alignment explanation
Indices: 18929075--18929184 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
18929065 AATATAGTGA
* *
18929075 TTGGTAGAAATTTCCCATAAGTTGTGGGCTACCGTAGCTCTGTGTGAACATCAATGTG
1 TTGGTAGAAATTTCCCATAAGTTGTGGACTACCGTAGCTCTATGTGAACATCAATGTG
* *
18929133 TTGGTAGTAA-TTCCGCATAAGTTGTGGACTACCGTAGCTCTATGTGAGCATC
1 TTGGTAGAAATTTCC-CATAAGTTGTGGACTACCGTAGCTCTATGTGAACATC
18929185 GAAGTATATG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
57 4 0.09
58 43 0.91
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (58 bp):
TTGGTAGAAATTTCCCATAAGTTGTGGACTACCGTAGCTCTATGTGAACATCAATGTG
Found at i:18932150 original size:21 final size:20
Alignment explanation
Indices: 18932091--18932150 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
18932081 GCACATAAGT
* *
18932091 GTTGAGCGAAAACCCGTAAGG
1 GTTGAACGAAAACCCAT-AGG
* * *
18932112 GTTGAACGTAAGCTCATAGG
1 GTTGAACGAAAACCCATAGG
18932132 AGTTGAACGAAAACCCATA
1 -GTTGAACGAAAACCCATA
18932151 AAGGTTATTC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (20 bp):
GTTGAACGAAAACCCATAGG
Found at i:18932488 original size:20 final size:20
Alignment explanation
Indices: 18932463--18932509 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
18932453 ACCATTTATC
18932463 ATTTAACATATAACATTAAA
1 ATTTAACATATAACATTAAA
18932483 ATTTAACATATAACATTAAA
1 ATTTAACATATAACATTAAA
18932503 ATTTAAC
1 ATTTAAC
18932510 CATACAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTTAACATATAACATTAAA
Found at i:18935396 original size:6 final size:6
Alignment explanation
Indices: 18935385--18935425 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
18935375 GTTGTTTGTT
18935385 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTT
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTT
18935426 CCCATGGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.17, G:0.15, T:0.68
Consensus pattern (6 bp):
TTCTTG
Found at i:18941234 original size:38 final size:38
Alignment explanation
Indices: 18941169--18941281 Score: 145
Period size: 38 Copynumber: 2.9 Consensus size: 38
18941159 ATTTGATGTG
*
18941169 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
* **
18941209 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * *
18941247 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
18941282 TTATATTCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 52 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:18941282 original size:38 final size:38
Alignment explanation
Indices: 18941185--18941292 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
18941175 GGCTTAAAGA
** *
18941185 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
*
18941223 CCCACAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
18941261 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
18941293 CCTTCGTGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:18941341 original size:43 final size:43
Alignment explanation
Indices: 18941264--18941396 Score: 198
Period size: 43 Copynumber: 3.1 Consensus size: 43
18941254 GATAAATCCC
* * *
18941264 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
18941305 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
18941348 GCAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCATGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
18941391 GCAGGC
1 GCAGGC
18941397 GTAATGCCGG
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 15 0.18
42 2 0.02
43 67 0.80
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:18943024 original size:48 final size:48
Alignment explanation
Indices: 18942930--18943033 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
18942920 TGTGCTAAGC
* *
18942930 GTAAGACCTATCTGGGATAGGCATCGACACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCGACACAGCCCAGAGAGAGCTAGT
**
18942978 GTAAGACCTATC-GGGAATAGGCATC-AGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCGA-CACAGCCCAGAG-AGAGCTAGT
*
18943026 ATAAGACC
1 GTAAGACC
18943034 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 9 0.19
48 39 0.81
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCGACACAGCCCAGAGAGAGCTAGT
Found at i:18947882 original size:39 final size:38
Alignment explanation
Indices: 18947823--18947934 Score: 143
Period size: 39 Copynumber: 2.9 Consensus size: 38
18947813 ATTTGATGTG
*
18947823 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
18947863 TATCCGGGTTAAATCCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAAT-CCCGCAGGCTTCGTGCTGGTAAAA
* * *
18947902 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGG
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
18947935 ATTATATTCG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 17 0.26
39 40 0.62
40 8 0.12
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:18947932 original size:38 final size:39
Alignment explanation
Indices: 18947839--18947946 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 39
18947829 GGCTTAAAGA
** *
18947839 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATC
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATC
18947878 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT-
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATC
* * *
18947916 CCCGCAGGCCTAGTGCTGG-ATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
18947947 CCTTCGTGCC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 11 0.17
38 17 0.27
39 35 0.56
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (39 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATC
Found at i:18948058 original size:41 final size:42
Alignment explanation
Indices: 18947939--18948045 Score: 166
Period size: 41 Copynumber: 2.6 Consensus size: 42
18947929 TGCTGGATTA
*
18947939 TATTCGGGCCTTCGTGCCTAGCAGGCTTCTG-TGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCTGCCGGTGATGTG
*
18947980 TATTCGGGCCTTCGTGCCTAGCAGGCTTCTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCTGCCGGTGATGTG
*
18948022 -ATTC-GGCCTTCATGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
18948046 GTAATGCCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
40 19 0.31
41 34 0.55
42 9 0.15
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (42 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCTGCCGGTGATGTG
Found at i:18961613 original size:44 final size:42
Alignment explanation
Indices: 18961520--18961630 Score: 179
Period size: 44 Copynumber: 2.6 Consensus size: 42
18961510 CCGGCATTAC
* *
18961520 GCCTGCTAGGCATGAAGGCCCG-ATACACATCACCGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
18961561 GCCTGCTAGGCACGAAGGCCCGAATACACATCCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACAT-CACC-GCACGAA
18961605 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
18961631 TAATACCAGA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 21 0.32
42 8 0.12
43 4 0.06
44 32 0.49
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
Found at i:18961705 original size:36 final size:39
Alignment explanation
Indices: 18961623--18961724 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 39
18961613 GGCACGAAGG
* * * *
18961623 CCCGAATATAATACCAGACACTAGGCCT-GCGGGATTTAT
1 CCCGGATATAATACCAG-CACGAAGCCTCGTGGGATTTAT
18961662 CCCGGATATAAT-CCAGCACG-AGCCTCGTGGGATTTA-
1 CCCGGATATAATACCAGCACGAAGCCTCGTGGGATTTAT
**
18961698 CCCGGATATTTTACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCT
18961725 GCGGGTCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
36 14 0.26
37 20 0.37
38 9 0.17
39 11 0.20
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCCGGATATAATACCAGCACGAAGCCTCGTGGGATTTAT
Found at i:18977152 original size:30 final size:29
Alignment explanation
Indices: 18977086--18977150 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
18977076 ATAATTTATG
* * *
18977086 TTTTTATAATTTTTAAAATATTATATTAA
1 TTTTTATAATTTTAAAAAGATTAAATTAA
18977115 TTTTTTATAATTTTAAAAAGATTAAAATATAA
1 -TTTTTATAATTTTAAAAAGATT-AAAT-TAA
18977147 TTTT
1 TTTT
18977151 ATTTTTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 20 0.67
31 7 0.23
32 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTTTATAATTTTAAAAAGATTAAATTAA
Found at i:18977166 original size:36 final size:38
Alignment explanation
Indices: 18977098--18977168 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 38
18977088 TTTATAATTT
*
18977098 TTAAAATATTATATTAATTTTTTATAATTTTAAAAAGA
1 TTAAAATATAATATTAATTTTTTATAATTTTAAAAAGA
*
18977136 TTAAAATATAAT-TTTA-TTTTTACTAA-TTTAAAA
1 TTAAAATATAATATTAATTTTTTA-TAATTTTAAAA
18977169 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 13 0.43
37 6 0.20
38 11 0.37
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (38 bp):
TTAAAATATAATATTAATTTTTTATAATTTTAAAAAGA
Found at i:18978325 original size:43 final size:43
Alignment explanation
Indices: 18978272--18978361 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
18978262 TCAAAACAAC
*
18978272 ACTTGAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
1 ACTTAAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
*
18978315 ACTTAAATTTTGATCAAAAGTACAATTTAATATATGAATTTTG
1 ACTTAAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
18978358 ACTT
1 ACTT
18978362 GATATAGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (43 bp):
ACTTAAATTTTGATCAAAAGTACAATTTAATACATGAATTTTG
Found at i:18986972 original size:53 final size:52
Alignment explanation
Indices: 18986914--18987015 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 52
18986904 CACATATATT
* *
18986914 ACCGATGCCATATATCAGATATGGTCTTATACGGAAGCACATAATCACATTAC
1 ACCGATGCCATAGACCAGATATGGTCTTATACGGAAGCACAT-ATCACATTAC
* * * * *
18986967 ACCGATGTCATAGCCCTGCTATGTTCTTATACGGAAGCACATATCACAT
1 ACCGATGCCATAGACCAGATATGGTCTTATACGGAAGCACATATCACAT
18987016 GTTGCCATGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 7 0.17
53 35 0.83
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (52 bp):
ACCGATGCCATAGACCAGATATGGTCTTATACGGAAGCACATATCACATTAC
Found at i:18988076 original size:12 final size:12
Alignment explanation
Indices: 18988061--18988086 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18988051 TAAAACTTAG
18988061 TAGGCAATATAA
1 TAGGCAATATAA
18988073 TAGGCAATATAA
1 TAGGCAATATAA
18988085 TA
1 TA
18988087 TGTTTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (12 bp):
TAGGCAATATAA
Found at i:18990695 original size:5 final size:5
Alignment explanation
Indices: 18990685--18990716 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
18990675 ATAAGAATAT
18990685 TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TA
18990717 ACTAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:18995255 original size:43 final size:43
Alignment explanation
Indices: 18995197--18995391 Score: 293
Period size: 43 Copynumber: 4.5 Consensus size: 43
18995187 CATTATAACA
* *
18995197 TGCTAGGCTCAAAGGCCCGAATACACATCACCGGCACGAAACC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
*
18995240 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
* * *
18995283 TGCTAGGCACGAAGGCTCGAATACACATCACCAGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
* * *
18995326 TGCTAGGCATGAAGGGCCGAATACACATCACCGGCAC-AAAGCA
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA-CC
18995369 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
18995392 TAGTACCAGC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
42 2 0.01
43 136 0.99
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.11
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
Found at i:18997393 original size:19 final size:20
Alignment explanation
Indices: 18997364--18997407 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
18997354 CTAGTAAATT
*
18997364 TAAAGATAAAACCGAAAGTG
1 TAAAGATAAAACAGAAAGTG
18997384 TAAA-ATAAAACAGAAAGTG
1 TAAAGATAAAACAGAAAGTG
18997403 TAAAG
1 TAAAG
18997408 GTTTAAGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.59, C:0.07, G:0.18, T:0.16
Consensus pattern (20 bp):
TAAAGATAAAACAGAAAGTG
Found at i:19000563 original size:22 final size:23
Alignment explanation
Indices: 19000537--19000581 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
19000527 ACCTGATCAG
19000537 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
19000559 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
19000582 TCAGTAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:19000798 original size:23 final size:24
Alignment explanation
Indices: 19000772--19000865 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 24
19000762 AAATGTCCAA
19000772 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
19000795 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
19000823 CC-AAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
19000851 CCAAAACACACCAGA
1 CCAAAACACACCAGA
19000866 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
27 22 0.35
28 14 0.23
29 11 0.18
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:19000858 original size:29 final size:28
Alignment explanation
Indices: 19000786--19000868 Score: 132
Period size: 27 Copynumber: 3.0 Consensus size: 28
19000776 AACACACCAG
* *
19000786 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
19000814 TATAATCCTCC-AAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
19000841 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
19000869 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:19006673 original size:26 final size:26
Alignment explanation
Indices: 19006643--19006692 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
19006633 CCACTTAATC
*
19006643 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
19006669 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
19006693 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:19006839 original size:104 final size:102
Alignment explanation
Indices: 19006610--19006873 Score: 404
Period size: 104 Copynumber: 2.6 Consensus size: 102
19006600 AACCGTTATT
* * * *
19006610 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
** *
19006675 TCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
19006712 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCT-GGGGG
19006776 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
64 AATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATAC
* **
19006816 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
19006874 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 53 0.36
103 28 0.19
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
Found at i:19007234 original size:30 final size:29
Alignment explanation
Indices: 19007200--19007264 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19007190 TAATCCACCA
19007200 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
19007230 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
19007260 CCCAA
1 CCCAA
19007265 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:19007238 original size:31 final size:30
Alignment explanation
Indices: 19007207--19007264 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19007197 CCACCCAACT
19007207 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
19007237 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
19007265 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:19010892 original size:31 final size:30
Alignment explanation
Indices: 19010857--19010939 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
19010847 TTGAAAAATA
* * *
19010857 AAAAAATTAAATTTTAAAAAATTCAAACTCT
1 AAAAAATTAAA-CTTAAAAAATTCAAACCCG
** *
19010888 AAAAAGCCTGAACTTAAAAAATTCAAACCCG
1 AAAAA-ATTAAACTTAAAAAATTCAAACCCG
*
19010919 AAAAAATTAGAGCTTAAAAAA
1 AAAAAATTA-AACTTAAAAAA
19010940 AACCGAACTC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
30 1 0.03
31 36 0.90
32 3 0.08
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (30 bp):
AAAAAATTAAACTTAAAAAATTCAAACCCG
Found at i:19011955 original size:20 final size:21
Alignment explanation
Indices: 19011918--19011966 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
19011908 AATTTTAATT
**
19011918 AAAATTATTATATTACAATAA
1 AAAATTATTATAAAACAATAA
19011939 AAAATTATT-TAAAACAATAA
1 AAAATTATTATAAAACAATAA
19011959 ATAAATTA
1 A-AAATTA
19011967 AAAATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTATTATAAAACAATAA
Found at i:19012371 original size:26 final size:24
Alignment explanation
Indices: 19012310--19012375 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
19012300 CTAACTTAGG
19012310 TTTGAATGT-ATTTTGATTACGTT
1 TTTGAATGTAATTTTGATTACGTT
* *
19012333 TAT-AATGATTAATTTTTATTATCGTT
1 TTTGAATG--TAATTTTGATTA-CGTT
19012359 ATTTGAATGTAATTTTG
1 -TTTGAATGTAATTTTG
19012376 TAATTGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
22 4 0.12
23 2 0.06
24 1 0.03
25 9 0.27
26 11 0.33
27 2 0.06
28 4 0.12
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (24 bp):
TTTGAATGTAATTTTGATTACGTT
Found at i:19020585 original size:24 final size:23
Alignment explanation
Indices: 19020548--19020598 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
19020538 AATTTAATTA
*
19020548 TTTAGAAATTATAAAAATATATATT
1 TTTAGAAATAAT-AAAAT-TATATT
19020573 TTTA-AAATAATAAAATTATATT
1 TTTAGAAATAATAAAATTATATT
19020595 TTTA
1 TTTA
19020599 TTAACGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 10 0.40
23 5 0.20
24 6 0.24
25 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTAGAAATAATAAAATTATATT
Found at i:19026145 original size:24 final size:24
Alignment explanation
Indices: 19026113--19026185 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 24
19026103 TAAGTGATCA
19026113 TTATTTCTCATGTTCTTTTACCTT
1 TTATTTCTCATGTTCTTTTACCTT
* *
19026137 TTATTTCTCATCCTTTGCCCTTTACCTT
1 TTATTTCTCAT--GTT--CTTTTACCTT
19026165 TTATTTCTCATGTTCTTTTAC
1 TTATTTCTCATGTTCTTTTAC
19026186 TCTCTTATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 17 0.41
26 4 0.10
28 20 0.49
ACGTcount: A:0.12, C:0.25, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATTTCTCATGTTCTTTTACCTT
Found at i:19031702 original size:6 final size:6
Alignment explanation
Indices: 19031671--19031701 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
19031661 AAATAGTTTA
*
19031671 CAATTC CAATTC CAATTC CAATTC CCATTC C
1 CAATTC CAATTC CAATTC CAATTC CAATTC C
19031702 CCTTCCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (6 bp):
CAATTC
Found at i:19032123 original size:12 final size:12
Alignment explanation
Indices: 19032106--19032132 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19032096 CCTACAAAAA
19032106 TATTTCCCCTTT
1 TATTTCCCCTTT
19032118 TATTTCCCCTTT
1 TATTTCCCCTTT
19032130 TAT
1 TAT
19032133 CTTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTCCCCTTT
Found at i:19036037 original size:21 final size:21
Alignment explanation
Indices: 19036011--19036051 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19036001 ATCTGCTCAA
* *
19036011 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19036032 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19036052 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:19045694 original size:2 final size:2
Alignment explanation
Indices: 19045687--19045714 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19045677 CAGCACTACT
19045687 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19045715 ATGCATGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19047109 original size:10 final size:10
Alignment explanation
Indices: 19047096--19047157 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
19047086 AATATTAAAA
19047096 AATAATTTTT
1 AATAATTTTT
*
19047106 AAT-ATATTT
1 AATAATTTTT
19047115 AA-ATATTTTT
1 AATA-ATTTTT
19047125 -ATAATTTTT
1 AATAATTTTT
*
19047134 AAAATATTTTT
1 AATA-ATTTTT
*
19047145 AATGATTTTT
1 AATAATTTTT
19047155 AAT
1 AAT
19047158 TTTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 14 0.33
10 20 0.48
11 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
AATAATTTTT
Found at i:19047118 original size:20 final size:21
Alignment explanation
Indices: 19047095--19047156 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 21
19047085 AAATATTAAA
19047095 AAATAATTTTTAAT-ATATTT
1 AAATAATTTTTAATAATATTT
*
19047115 AAAT-ATTTTT-ATAATTTTT
1 AAATAATTTTTAATAATATTT
* *
19047134 AAA-ATATTTTTAATGATTTTT
1 AAATA-ATTTTTAATAATATTT
19047155 AA
1 AA
19047157 TTTTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.06
19 14 0.39
20 10 0.28
21 10 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AAATAATTTTTAATAATATTT
Found at i:19047157 original size:28 final size:27
Alignment explanation
Indices: 19047098--19047194 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 27
19047088 TATTAAAAAA
* *
19047098 TAATTTTTAATATA-TTTAAATATTTTT
1 TAATTTTTAAAATATTTTTAATA-TTTT
19047125 ATAATTTTTAAAATATTTTTAATGATTTT
1 -TAATTTTTAAAATATTTTTAAT-ATTTT
*
19047154 TAATTTTGAAAAATAATTTTTATATATTTT
1 TAATTTT-TAAAAT-ATTTTTA-ATATTTT
*
19047184 TAAATTTTAAA
1 TAATTTTTAAA
19047195 TTTTAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
28 20 0.34
29 18 0.31
30 19 0.32
31 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TAATTTTTAAAATATTTTTAATATTTT
Found at i:19047197 original size:38 final size:40
Alignment explanation
Indices: 19047125--19047210 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 40
19047115 AAATATTTTT
* *
19047125 ATAATTTTTAAAATATTTTTAATGATTTTTAATTTTGAAAA
1 ATAATTTTTAAAATATTTTTAA-GATTTTAAATTTTAAAAA
*
19047166 ATAATTTTT-ATATATTTTTAA-ATTTTAAATTTTAAAAA
1 ATAATTTTTAAAATATTTTTAAGATTTTAAATTTTAAAAA
19047204 ATTAATT
1 A-TAATT
19047211 AAATGTTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
38 16 0.39
39 5 0.12
40 11 0.27
41 9 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (40 bp):
ATAATTTTTAAAATATTTTTAAGATTTTAAATTTTAAAAA
Found at i:19048491 original size:20 final size:19
Alignment explanation
Indices: 19048468--19048525 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
19048458 TAATTTTTTT
19048468 AAAATATAAAAATAATTTAA
1 AAAATATAAAAATAATTT-A
*
19048488 AAAATAATAAAAAT-GTTTA
1 AAAAT-ATAAAAATAATTTA
19048507 AAAATATAAAAATATATTT
1 AAAATATAAAAATA-ATTT
19048526 TTAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 11 0.33
21 8 0.24
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATAAAAATAATTTA
Found at i:19049828 original size:15 final size:14
Alignment explanation
Indices: 19049785--19049828 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
19049775 TAGGAAATTC
*
19049785 TATTTTAAGTTTAT
1 TATTTTAATTTTAT
*
19049799 TTTTTTAATTATTAT
1 TATTTTAATT-TTAT
19049814 TATTTTAGATTTTAT
1 TATTTTA-ATTTTAT
19049829 ATTAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 8 0.32
15 14 0.56
16 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TATTTTAATTTTAT
Found at i:19050729 original size:18 final size:19
Alignment explanation
Indices: 19050706--19050744 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
19050696 TCCTTTTAAA
19050706 TTATTTC-TTTATTTA-TTT
1 TTATTTCATTT-TTTACTTT
19050724 TTATTTCATTTTTTACTTT
1 TTATTTCATTTTTTACTTT
19050743 TT
1 TT
19050745 TACTTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATTTCATTTTTTACTTT
Found at i:19052542 original size:10 final size:10
Alignment explanation
Indices: 19052527--19052572 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
19052517 TAATCTTAGG
19052527 ATTTAT-TTT
1 ATTTATCTTT
19052536 CATTTATCTTT
1 -ATTTATCTTT
*
19052547 AATTATCTTT
1 ATTTATCTTT
19052557 ATTTAT-TTGT
1 ATTTATCTT-T
19052567 ATTTAT
1 ATTTAT
19052573 GTTTTAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:19056622 original size:25 final size:25
Alignment explanation
Indices: 19056588--19056725 Score: 206
Period size: 25 Copynumber: 5.5 Consensus size: 25
19056578 GACCTCAGCA
19056588 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
19056613 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
19056638 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
* *
19056663 TGCTCTCTAATTATTAGCACGCCAA
1 TGCTCTCTGATTATTAGCACGCCAG
* *
19056688 TGTTCTCTGA-TATTTAGCACGTCAG
1 TGCTCTCTGATTA-TTAGCACGCCAG
19056713 TGCTCTCTGATTA
1 TGCTCTCTGATTA
19056726 GCACATTTGT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
24 2 0.02
25 98 0.96
26 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACGCCAG
Found at i:19056766 original size:22 final size:21
Alignment explanation
Indices: 19056701--19056767 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
19056691 TCTCTGATAT
*
19056701 TTAGCACGTCAGTGCTCTCTG
1 TTAGCACTTCAGTGCTCTCTG
*
19056722 ATTAGCACATT-TGTGCTCTCTG
1 -TTAGCAC-TTCAGTGCTCTCTG
19056744 TGTAGCACTTCAGTGCTCTCTG
1 T-TAGCACTTCAGTGCTCTCTG
19056766 TT
1 TT
19056768 CATTAGTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (21 bp):
TTAGCACTTCAGTGCTCTCTG
Found at i:19064867 original size:51 final size:50
Alignment explanation
Indices: 19064760--19064982 Score: 338
Period size: 51 Copynumber: 4.4 Consensus size: 50
19064750 AGTACTTCTT
* * *
19064760 ATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTG
1 ATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTATCTG
* *
19064810 ATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTATCTG
* * * *
19064861 ATCAGTGATAAGTGACAAATGATAAGTGATAGCTTAGCTACTCTTATCTG
1 ATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTATCTG
*
19064911 ATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTATCTG
19064962 ATCAGTGACAAGTGATAAATG
1 ATCAGTGACAAGTGATAAATG
19064983 TGATCAGTGT
Statistics
Matches: 154, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
50 74 0.48
51 80 0.52
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.30
Consensus pattern (50 bp):
ATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTATCTG
Found at i:19064935 original size:101 final size:101
Alignment explanation
Indices: 19064760--19064982 Score: 401
Period size: 101 Copynumber: 2.2 Consensus size: 101
19064750 AGTACTTCTT
*
19064760 ATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAAGTGA
1 ATCAGTGATAAGTGACAAATGATAAGTGATAGCTTAGCTACTCTTATCTGATCAGTGACAAGTGA
19064825 TAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
66 TAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
19064861 ATCAGTGATAAGTGACAAATGATAAGTGATAGCTTAGCTACTCTTATCTGATCAGTGACAAGTGA
1 ATCAGTGATAAGTGACAAATGATAAGTGATAGCTTAGCTACTCTTATCTGATCAGTGACAAGTGA
* *
19064926 TAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
66 TAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
* *
19064962 ATCAGTGACAAGTGATAAATG
1 ATCAGTGATAAGTGACAAATG
19064983 TGATCAGTGT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 117 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.30
Consensus pattern (101 bp):
ATCAGTGATAAGTGACAAATGATAAGTGATAGCTTAGCTACTCTTATCTGATCAGTGACAAGTGA
TAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
Found at i:19071630 original size:51 final size:50
Alignment explanation
Indices: 19071519--19071745 Score: 346
Period size: 51 Copynumber: 4.5 Consensus size: 50
19071509 TTTGAGTAAT
* * *
19071519 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
* * *
19071569 TCTGATCAGTGACAAGTGATAAGTGAGAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTA
* * *
19071620 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
*
19071670 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTA
19071721 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGACAAGTGATAAATG
19071746 TGATCAGTGT
Statistics
Matches: 158, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
50 78 0.49
51 80 0.51
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (50 bp):
TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
Found at i:19071694 original size:101 final size:101
Alignment explanation
Indices: 19071519--19071745 Score: 409
Period size: 101 Copynumber: 2.2 Consensus size: 101
19071509 TTTGAGTAAT
19071519 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
19071584 GTGATAAGTGAGAAGTGGTAGCCTCAGCTACACTTA
66 GTGATAAGTGAGAAGTGGTAGCCTCAGCTACACTTA
19071620 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
* * *
19071685 GTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GTGATAAGTGAGAAGTGGTAGCCTCAGCTACACTTA
* *
19071721 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGATAAGTGACAAATG
19071746 TGATCAGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 121 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
GTGATAAGTGAGAAGTGGTAGCCTCAGCTACACTTA
Found at i:19078645 original size:10 final size:10
Alignment explanation
Indices: 19078632--19078673 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
19078622 TAATATTAGG
19078632 ATTTATTTTT
1 ATTTATTTTT
*
19078642 ATTTATCTTT
1 ATTTATTTTT
*
19078652 ATTTATTTGT
1 ATTTATTTTT
19078662 ATTTATCTTTT
1 ATTTAT-TTTT
19078673 A
1 A
19078674 GAATTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:19078657 original size:20 final size:20
Alignment explanation
Indices: 19078632--19078671 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19078622 TAATATTAGG
*
19078632 ATTTATTTTTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
19078652 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
19078672 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:19084723 original size:28 final size:29
Alignment explanation
Indices: 19084674--19084781 Score: 141
Period size: 28 Copynumber: 3.8 Consensus size: 29
19084664 TTGTGCTATT
* * *
19084674 CTGGTGTGTTTTGGATGGATTATATTATT
1 CTGGTGTGTTTTGGAAGGATTATATGATA
*
19084703 CTGGTATG-TTTGGAAGGATTATATGATA
1 CTGGTGTGTTTTGGAAGGATTATATGATA
*
19084731 CTGGTGTG-TTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGAAGGATTATATGATA
*
19084759 CTAGTGTGTTTTGG-AGGATTATA
1 CTGGTGTGTTTTGGAAGGATTATA
19084782 CTGGTGTGTT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
28 59 0.83
29 12 0.17
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.44
Consensus pattern (29 bp):
CTGGTGTGTTTTGGAAGGATTATATGATA
Found at i:19085015 original size:23 final size:22
Alignment explanation
Indices: 19084985--19085050 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
19084975 GCTTTACTGA
19084985 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
**
19085008 TCAGGCACCTCGTGTGTCG--TT
1 TCAGGCA-CTTATGTGTCGTATT
19085029 TCAGGCACTTATGTGTCGTATT
1 TCAGGCACTTATGTGTCGTATT
19085051 CTGATCAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 9 0.25
21 9 0.25
22 2 0.06
23 15 0.42
24 1 0.03
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:19089471 original size:19 final size:19
Alignment explanation
Indices: 19089447--19089491 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
19089437 AAATGAATCG
19089447 GTAACTCCAGTAATGCTCC
1 GTAACTCCAGTAATGCTCC
*
19089466 GTAACTCCGGTAATGCTCC
1 GTAACTCCAGTAATGCTCC
19089485 GTAACTC
1 GTAACTC
19089492 TATTTCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
GTAACTCCAGTAATGCTCC
Found at i:19091385 original size:16 final size:16
Alignment explanation
Indices: 19091364--19091396 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19091354 GGCCTTATCC
19091364 ATGGAAGAAATAATGG
1 ATGGAAGAAATAATGG
19091380 ATGGAAGAAATAATGG
1 ATGGAAGAAATAATGG
19091396 A
1 A
19091397 CTCCGGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.18
Consensus pattern (16 bp):
ATGGAAGAAATAATGG
Found at i:19096006 original size:27 final size:27
Alignment explanation
Indices: 19095976--19096032 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
19095966 GCATAAAATC
19095976 AAAATATATAAAATTGTATATTAAACT
1 AAAATATATAAAATTGTATATTAAACT
19096003 AAAATATATAAAATTGTATATTAAACT
1 AAAATATATAAAATTGTATATTAAACT
19096030 AAA
1 AAA
19096033 GATTTATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATATATAAAATTGTATATTAAACT
Found at i:19096693 original size:23 final size:23
Alignment explanation
Indices: 19096661--19096721 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
19096651 CCAAAAATAT
* * ** *
19096661 AAAATCATAAATTAACATATAAC
1 AAAATTATAATTTAACAGTTAAA
19096684 AAAATTATAATTTAACAGTTAAA
1 AAAATTATAATTTAACAGTTAAA
19096707 AAAATTATAATTTAA
1 AAAATTATAATTTAA
19096722 TTTTAAACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATTATAATTTAACAGTTAAA
Found at i:19099381 original size:2 final size:2
Alignment explanation
Indices: 19099374--19099413 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19099364 CAGCACTACT
19099374 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19099414 ATGCATGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19108793 original size:237 final size:233
Alignment explanation
Indices: 19108514--19109475 Score: 820
Period size: 237 Copynumber: 4.0 Consensus size: 233
19108504 TATTATTGTT
* * *
19108514 TATTGTTATATTGGTTGAAATATGTTTTAAGTCCCTATACTTTTTGTACATTTGATAGTTAGC-C
1 TATTATTATATTGGTTGAAATATGTTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCTC
* *
19108578 ATCCTATTATATTACATAATGTTATATCATATCATATAATATATAATACATTAATAGTTTATACA
66 -TCCTATTATATTACATAATGCTATATCATACCATATAATATATAATACATTAATAGTTTAT--A
* * *
19108643 TATGCATCAATGATTAAACATTATAATATCATATAGTATTATATATTTTATTATGATTTATAATA
128 TATGCATCAATGATTAAACA-TATAATATCATATAATACTATATATTTTATTATAATTTATAATA
19108708 TAATAATAGTTATACATAATAGTAGTACATTATATATTATTA
192 TAATAATAGTTATACATAATAGTAGTACATTATATATTATTA
19108750 TATTATTATATTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCT
1 TATTATTATATTGGTTGAAATATG-TTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCT
* * ** *
19108815 CTCTTATTATATTACATAATGCTATATCATACCATGTGGTATATAATATATTAATAGTTTATATA
65 CTCCTATTATATTACATAATGCTATATCATACCATATAATATATAATACATTAATAGTTTATATA
*
19108880 TGCATCAATGATTAAACATATAATATCATGTAATACTATATATTTTATTATAATTTATAATATAA
130 TGCATCAATGATTAAACATATAATATCATATAATACTATATATTTTATTATAATTTATAATATAA
*
19108945 TAATAGTTATATATAATAGTAGTACATTATATATAAATTATTATACA
195 TAATAGTTATACATAATAGTAGTACA-T-TATAT--ATTA-T-T--A
** * ** * *
19108992 TTATTGTTTATTATTATTCTAATTGAAATATGCTCCAAGTCCTTATACTTTTTCGTAC-TTCTAA
1 -TA----TTATTA-TA-T-TGGTTGAAATATGTTTTAAGTCCCTATAC-TTTTCGTACATT-TGA
* * * * * * *
19109056 AAGTTAACTCTTCTACTATATTATATATTGCTATATCATATAGCATATAACATAT--TA-A-TAA
56 AAGTTAGCTCTCCTATTATATTACATAATGCTATATC--ATACCATATAATATATAATACATTAA
* * * * * ** * *
19109117 T--TTTGTATATGCATCAATGATTGAACATTAAAATATTATGTAATTTTCTATCTTTTATTATAA
119 TAGTTTATATATGCATCAATGATTAAACA-TATAATATCATATAATACTATATATTTTATTATAA
* * *
19109180 TCTATAATATAATAATA-TTAATATATAATAGTAGTATACAGTATTTATTACATATTATTGTT
183 TTTATAATATAATAATAGTT-ATACATAATAGTAG--TAC---A-TTA-T--ATATTA-T-TA
* * ** ** * * * *
19109242 TATTATTATAGTGGTTGAAATTTGCGTTAAGTTTCTATGC-TTTCATGCATTTGGAAGTTAGC-C
1 TATTATTATATTGGTTGAAATATGTTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCTC
* * * * * *
19109305 TTCCTACTATATTATATAATGCTATATCATATCACATATTAATATTTTATATA-T-AT-GTATAT
66 -TCCTATTATATTACATAATGCTATATCATA-C-CATA-TAATATATAATACATTAATAGTTTAT
* * * * * * *
19109367 ATATGTATAAATGATT-AACATTATAATATCATGTAATACCATATTTTTTATTATAATCTATATT
127 ATATGCATCAATGATTAAACA-TATAATATCATATAATACTATATATTTTATTATAATTTATAAT
* * *
19109431 ATATTAATAGTTATATATAATAGTAGTCCATTATATATTACTTA
191 ATAATAATAGTTATACATAATAGTAGTACATTATATATTA-TTA
19109475 T
1 T
19109476 TGTTGTATAT
Statistics
Matches: 603, Mismatches: 81, Indels: 87
0.78 0.11 0.11
Matches are distributed among these distances:
233 2 0.00
234 75 0.12
235 22 0.04
236 29 0.05
237 94 0.16
238 9 0.01
239 2 0.00
240 44 0.07
241 10 0.02
242 20 0.03
243 68 0.11
244 23 0.04
245 6 0.01
246 26 0.04
247 65 0.11
248 6 0.01
249 21 0.03
250 55 0.09
251 2 0.00
252 22 0.04
254 2 0.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (233 bp):
TATTATTATATTGGTTGAAATATGTTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCTC
TCCTATTATATTACATAATGCTATATCATACCATATAATATATAATACATTAATAGTTTATATAT
GCATCAATGATTAAACATATAATATCATATAATACTATATATTTTATTATAATTTATAATATAAT
AATAGTTATACATAATAGTAGTACATTATATATTATTA
Found at i:19108960 original size:16 final size:17
Alignment explanation
Indices: 19108934--19108967 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19108924 TTATTATAAT
19108934 TTATAATATAATAATAG
1 TTATAATATAATAATAG
*
19108951 TTAT-ATATAATAGTAG
1 TTATAATATAATAATAG
19108967 T
1 T
19108968 ACATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
TTATAATATAATAATAG
Found at i:19109603 original size:490 final size:478
Alignment explanation
Indices: 19108496--19109701 Score: 1268
Period size: 490 Copynumber: 2.5 Consensus size: 478
19108486 ATATTCATTC
* * *
19108496 TTATCATATATTATTGTTTATTGTTATATTGGTTGAAATATGTTTTAAGTCCCTATACTTTTT-G
1 TTATTATATATTATTGTTTATTGTTATAATAGTTGAAATATGTTTTAAGT-CCTATACTTTTTCG
* * * * * * *
19108560 TACATTTGATAGTTAGCCATCCTATTATATTACATAATGTTATATCATATCATATAATATATAAT
65 TACATTTGAAAGTTAACCCT-TTACTATATTATATAATGTTATATCATATCATA-AA-ATATATT
* * * *
19108625 ACATTAATAGTTTATACATATGCATCAATGATTAAACATTATAATATCATATAGTATTATATATT
127 A-ATTAATA-TTTAT--ATATGCATCAATGATTAAACATTAAAATATCATGTAATATTATATCTT
* * *
19108690 TTATTATGATTTATAATATAATAATAGTTATACATAATAGTAGTACATTATATATTATTATATTA
188 TTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTATTATATTA
* * * *
19108755 TTATATTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCTCTCTT
253 TTATAGTGGTTGAAATATGCTGTTAAGTCCCTATACTTTTCATACATTTGAAAGTTAGCTCTCCT
* * *
19108820 ATTATATTACATAATGCTATATCATACCATGTGGTATATAATATATTAATAGTTTATATATGCAT
318 ACTATATTACATAATGCTATATCATACCATAT-GTATATAATATATTAATAGTATATATATGCAT
* * *
19108885 CAATGATTAAACATATAATATCATGTAATACTATATATTTTATTATAATTTATAATATAATAATA
382 AAATGATTAAACATATAATATCATGTAATACCATATATTTTATTATAATCTATAATATAATAATA
19108950 GTTATATATAATAGTAGTACATTATATATAAA
447 GTTATATATAATAGTAGTACATTATATATAAA
* * ** * * **
19108982 TTATTATACATTATTGTTTATTATTATTCTAATTGAAATATGCTCCAAGTCCTTATACTTTTTCG
1 TTATTATATATTATTGTTTATTGTTATAATAGTTGAAATATGTTTTAAGTCC-TATACTTTTTCG
* * * * * *
19109047 TAC-TTCTAAAAGTTAACTCTTCTACTATATTATATATTGCTATATCATATAGCATATAACATAT
65 TACATT-TGAAAGTTAACCCTT-TACTATATTATATAATGTTATATCATAT--CATAAAATATAT
* * * * *
19109111 TAA-TAAT-TTTGTATATGCATCAATGATTGAACATTAAAATATTATGTAATTTTCTATCTTTTA
126 TAATTAATATTTATATATGCATCAATGATTAAACATTAAAATATCATGTAATATTATATCTTTTA
19109174 TTATAATCTATAATATAATAATA-TTAATATATAATAGTAGTATACAGTATTTATTACATATTAT
191 TTATAATCTATAATATAATAATAGTT-ATATATAATAGTAG--TAC---A-TTA-T--ATATTA-
* * ** * * *
19109238 TGTTTATTATTATAGTGGTTGAAATTTGC-GTTAAGTTTCTATGC-TTTCATGCATTTGGAAGTT
245 T-TATATTATTATAGTGGTTGAAATATGCTGTTAAGTCCCTATACTTTTCATACATTTGAAAGTT
* * *
19109301 AGC-CTTCCTACTATATTATATAATGCTATATCATATCACATAT-TA-ATATTTTA-TATATATG
309 AGCTC-TCCTACTATATTACATAATGCTATATCATA-C-CATATGTATATAATATATTA-ATA-G
* *
19109362 TATATATATGTATAAATGATT-AACATTATAATATCATGTAATACCATATTTTTTATTATAATCT
369 TATATATATGCATAAATGATTAAACA-TATAATATCATGTAATACCATATATTTTATTATAATCT
* * * *
19109426 ATATTATATTAATAGTTATATATAATAGTAGTCCATTATATATTACTTA
433 ATAATATAATAATAGTTATATATAATAGTAGTACATTATATA-TA--AA
* * * * *
19109475 TTGTTGTATATTATTGTTTATTGTTACAATAGTTAAAATATGTTTTAAGTCTCTATA-TTTTTCA
1 TTATTATATATTATTGTTTATTGTTATAATAGTTGAAATATGTTTTAAGTC-CTATACTTTTTCG
*
19109539 TACATTTGAAAGTTAACCCTATTACTATATTATATAATATTATATCATATCATAAAATATATTAA
65 TACATTTGAAAGTTAACCCT-TTACTATATTATATAATGTTATATCATATCATAAAATATATTAA
* * * * *
19109604 TGGTTTATATATATATATATGTATCGATAATTAAACATTACAATATCATGTAATATTATATCTTT
129 ----TTA-ATATTTATATATGCATCAATGATTAAACATTAAAATATCATGTAATATTATATCTTT
* *
19109669 TACTATAATCTATATTATAATAATAGTTATATA
189 TATTATAATCTATAATATAATAATAGTTATATA
19109702 CATGTTAATA
Statistics
Matches: 589, Mismatches: 93, Indels: 65
0.79 0.12 0.09
Matches are distributed among these distances:
480 2 0.00
481 77 0.13
483 7 0.01
485 6 0.01
486 54 0.09
487 46 0.08
488 4 0.01
489 18 0.03
490 160 0.27
491 15 0.03
492 74 0.13
493 47 0.08
494 1 0.00
495 2 0.00
496 2 0.00
497 72 0.12
498 2 0.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (478 bp):
TTATTATATATTATTGTTTATTGTTATAATAGTTGAAATATGTTTTAAGTCCTATACTTTTTCGT
ACATTTGAAAGTTAACCCTTTACTATATTATATAATGTTATATCATATCATAAAATATATTAATT
AATATTTATATATGCATCAATGATTAAACATTAAAATATCATGTAATATTATATCTTTTATTATA
ATCTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTATTATATTATTATAGTG
GTTGAAATATGCTGTTAAGTCCCTATACTTTTCATACATTTGAAAGTTAGCTCTCCTACTATATT
ACATAATGCTATATCATACCATATGTATATAATATATTAATAGTATATATATGCATAAATGATTA
AACATATAATATCATGTAATACCATATATTTTATTATAATCTATAATATAATAATAGTTATATAT
AATAGTAGTACATTATATATAAA
Found at i:19111048 original size:66 final size:66
Alignment explanation
Indices: 19110942--19111073 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
19110932 GAGTTAAATC
* *
19110942 TAGTTTTTCCGAGTCAAAACATGTAAAGGGATTTTATATTATGTATATAACTATATATACCTGGA
1 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
19111007 T
66 T
19111008 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
1 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
19111073 T
66 T
19111074 ACGGAGATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (66 bp):
TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
T
Found at i:19114436 original size:16 final size:18
Alignment explanation
Indices: 19114415--19114451 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
19114405 TTAATCAAAT
19114415 AAGTTTAG-AAAAAA-AA
1 AAGTTTAGCAAAAAAGAA
*
19114431 AAGTTTGGCAAAAAAGAA
1 AAGTTTAGCAAAAAAGAA
19114449 AAG
1 AAG
19114452 ATATACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.19, T:0.16
Consensus pattern (18 bp):
AAGTTTAGCAAAAAAGAA
Found at i:19119549 original size:29 final size:30
Alignment explanation
Indices: 19119486--19119550 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
19119476 TTTTATTATC
* *
19119486 TTAGTATCTAAACTTTTGTTTTTGTCACAA
1 TTAGTACCTAAACTTTTGTTTTTCTCACAA
* *
19119516 ATAGTACCTAAACTATTT-TTTTTCTCA-AG
1 TTAGTACCTAAACT-TTTGTTTTTCTCACAA
19119545 TTAGTA
1 TTAGTA
19119551 TATCCGTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 6 0.21
30 20 0.69
31 3 0.10
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (30 bp):
TTAGTACCTAAACTTTTGTTTTTCTCACAA
Found at i:19121545 original size:20 final size:20
Alignment explanation
Indices: 19121520--19121558 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19121510 TGCTGGAACT
* *
19121520 TGCATTTTGGCTTTTTTTAG
1 TGCATTTTAGCTTGTTTTAG
19121540 TGCATTTTAGCTTGTTTTA
1 TGCATTTTAGCTTGTTTTA
19121559 TTTGTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.18, T:0.59
Consensus pattern (20 bp):
TGCATTTTAGCTTGTTTTAG
Done.