Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold114
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: 3219552
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Warning! 36736 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:1581169 original size:16 final size:17
Alignment explanation
Indices: 1581150--1581188 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1581140 AATTATCTAA
*
1581150 TTTATTAAAT-ATTTAT
1 TTTATTAAATAATTAAT
*
1581166 TTTATAAAATAATTAAT
1 TTTATTAAATAATTAAT
1581183 TTTATT
1 TTTATT
1581189 TTTATTACGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATTAAATAATTAAT
Found at i:1581321 original size:15 final size:16
Alignment explanation
Indices: 1581278--1581323 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
1581268 TGTTAAAAAT
1581278 TTAAATT-TTATAATA
1 TTAAATTATTATAATA
** *
1581293 TTTTATTATAATAA-A
1 TTAAATTATTATAATA
1581308 TTAAATTATTATAATA
1 TTAAATTATTATAATA
1581324 ATTGTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAATTATTATAATA
Found at i:1583443 original size:24 final size:23
Alignment explanation
Indices: 1583411--1583457 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1583401 TTAATAATAA
*
1583411 AAATTAAATT-ATGTAATTTAATT
1 AAATTAAATTGATATAA-TTAATT
1583434 AAATTAAAATTGATATAATTAATT
1 AAATT-AAATTGATATAATTAATT
1583458 TAATAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
AAATTAAATTGATATAATTAATT
Found at i:1583661 original size:23 final size:22
Alignment explanation
Indices: 1583619--1583662 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1583609 TAAAAATTAA
*
1583619 TTTTATATTAATATTTATAATT
1 TTTTATATTAATATTAATAATT
1583641 TTTTATAATTAA-ATTAAATAAT
1 TTTTAT-ATTAATATT-AATAAT
1583663 AATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATATTAATATTAATAATT
Found at i:1584427 original size:2 final size:2
Alignment explanation
Indices: 1584420--1584449 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1584410 CCCTTCCTCA
1584420 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
1584450 AATCATTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1584561 original size:2 final size:2
Alignment explanation
Indices: 1584554--1584580 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1584544 GGTTTGGACC
1584554 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1584581 CCCTATGTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1592944 original size:9 final size:8
Alignment explanation
Indices: 1592919--1592943 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1592909 TTATGCAAAT
1592919 ATTAAAAA
1 ATTAAAAA
1592927 ATTAAAAA
1 ATTAAAAA
1592935 ATTAAAAA
1 ATTAAAAA
1592943 A
1 A
1592944 AAAAACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATTAAAAA
Found at i:1594033 original size:2 final size:2
Alignment explanation
Indices: 1594026--1594060 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1594016 GCCATTTTCC
1594026 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1594061 AAAATGAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1594563 original size:27 final size:26
Alignment explanation
Indices: 1594500--1594570 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
1594490 ATAATAAATT
*
1594500 AAATTATATTATTAATTATTTTATTAA
1 AAATTA-ATTATTTATTATTTTATTAA
*
1594527 AAATAAAATTATTTATATATTTT-TTAAA
1 AAAT-TAATTATTTAT-TATTTTATT-AA
*
1594555 AAATTAATTTTTTATT
1 AAATTAATTATTTATT
1594571 TCCTGTAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.03
27 23 0.62
28 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AAATTAATTATTTATTATTTTATTAA
Found at i:1594670 original size:6 final size:6
Alignment explanation
Indices: 1594653--1594682 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1594643 AAATTATTCA
*
1594653 TAAAAT TTAAAT TAAAAT TAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
1594683 ATTTTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TAAAAT
Found at i:1595385 original size:19 final size:18
Alignment explanation
Indices: 1595363--1595401 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1595353 TTAAAAATGA
1595363 TTTTT-TTTAAATATATCT
1 TTTTTATTTAAATATAT-T
1595381 TTTTTATTTAAATATATT
1 TTTTTATTTAAATATATT
1595399 TTT
1 TTT
1595402 ACCAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTATTTAAATATATT
Found at i:1595402 original size:16 final size:15
Alignment explanation
Indices: 1595348--1595401 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
1595338 TACATATTTG
*
1595348 TTTTTTTAAAAATGAT
1 TTTTTTTAAATAT-AT
1595364 TTTTTTTAAATATATCTT
1 TTTTTTTAAATATA---T
1595382 TTTTATTTAAATATAT
1 TTTT-TTTAAATATAT
1595398 TTTT
1 TTTT
1595402 ACCAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 1 0.03
16 17 0.52
18 5 0.15
19 10 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TTTTTTTAAATATAT
Found at i:1597568 original size:15 final size:15
Alignment explanation
Indices: 1597548--1597581 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1597538 TTTATTTACC
* *
1597548 ATTAAATATGATAAT
1 ATTAAATATAATAAG
1597563 ATTAAATATAATAAG
1 ATTAAATATAATAAG
1597578 ATTA
1 ATTA
1597582 TAAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
ATTAAATATAATAAG
Found at i:1597589 original size:18 final size:17
Alignment explanation
Indices: 1597566--1597612 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
1597556 TGATAATATT
1597566 AAATATAATA-AGATTATA
1 AAATATAATATA-ATT-TA
1597584 AAATATAAATATAATTTA
1 AAATAT-AATATAATTTA
1597602 AAATATAATAT
1 AAATATAATAT
1597613 TAAATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 14 0.52
19 7 0.26
20 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATATAATATAATTTA
Found at i:1597616 original size:24 final size:23
Alignment explanation
Indices: 1597548--1597617 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
1597538 TTTATTTACC
1597548 ATTAAATATGATAATATTAAATATA
1 ATTAAA-AT-ATAATATTAAATATA
* *
1597573 A-TAAGATTATAAAATATAAATATA
1 ATTAA-AATATAATAT-TAAATATA
1597597 ATTTAAAATATAATATTAAAT
1 A-TTAAAATATAATATTAAAT
1597618 GAAAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
23 6 0.16
24 18 0.49
25 10 0.27
26 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (23 bp):
ATTAAAATATAATATTAAATATA
Found at i:1597622 original size:18 final size:18
Alignment explanation
Indices: 1597583--1597632 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
1597573 ATAAGATTAT
* *
1597583 AAAATATAAATATAATTT
1 AAAATATAAATATAAATG
1597601 AAAATAT-AATATTAAATG
1 AAAATATAAATA-TAAATG
1597619 AAAA-ATAAA-ATAAA
1 AAAATATAAATATAAA
1597633 CATAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 17 0.61
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATATAAATATAAATG
Found at i:1597670 original size:19 final size:19
Alignment explanation
Indices: 1597642--1597690 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
1597632 ACATAATAAA
*
1597642 AATATTTTAAAATCTATAT
1 AATATATTAAAATCTATAT
* *
1597661 AATATATTAAAATTTTTAT
1 AATATATTAAAATCTATAT
1597680 AA-ATA-TAAAAT
1 AATATATTAAAAT
1597691 AATTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 6 0.22
18 3 0.11
19 18 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATATTAAAATCTATAT
Found at i:1597729 original size:16 final size:15
Alignment explanation
Indices: 1597676--1597740 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
1597666 ATTAAAATTT
1597676 TTATAAATATAAAATAA
1 TTATAAATAT-AAA-AA
1597693 TT-T-AA-AT-AAAA
1 TTATAAATATAAAAA
1597704 TTAT-AATATAAAAA
1 TTATAAATATAAAAA
*
1597718 TATATAAATATAACAA
1 T-TATAAATATAAAAA
1597734 TTATAAA
1 TTATAAA
1597741 AAAAATCGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
11 4 0.10
12 5 0.12
13 2 0.05
14 7 0.17
15 11 0.26
16 11 0.26
17 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
TTATAAATATAAAAA
Found at i:1598873 original size:13 final size:13
Alignment explanation
Indices: 1598857--1598897 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1598847 ATTTTTTTAA
1598857 AATATTTATATTT
1 AATATTTATATTT
1598870 AATATTTA-ATTTT
1 AATATTTATA-TTT
*
1598883 AATATATATATTT
1 AATATTTATATTT
1598896 AA
1 AA
1598898 ATATAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:1598952 original size:20 final size:21
Alignment explanation
Indices: 1598924--1598966 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1598914 AAATTTTTTA
* *
1598924 AATTTTTTAAAAT-TAAATAT
1 AATTATTTAAAATAAAAATAT
1598944 AATTATTTAAAATAAAAATAT
1 AATTATTTAAAATAAAAATAT
1598965 AA
1 AA
1598967 ACTCAATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTATTTAAAATAAAAATAT
Found at i:1601778 original size:2 final size:2
Alignment explanation
Indices: 1601771--1601800 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1601761 TAAAAAGAAA
1601771 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1601801 TAACTATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1605126 original size:2 final size:2
Alignment explanation
Indices: 1605119--1605144 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1605109 TCTTCTTGTA
1605119 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
1605145 TCCTCCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1616290 original size:18 final size:19
Alignment explanation
Indices: 1616262--1616297 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1616252 TTCACAACAG
*
1616262 CAGCAAACTCCTGGTGATT
1 CAGCAAACTCCTGCTGATT
1616281 CAGC-AACTCCTGCTGAT
1 CAGCAAACTCCTGCTGAT
1616298 AACAGTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (19 bp):
CAGCAAACTCCTGCTGATT
Found at i:1617500 original size:6 final size:6
Alignment explanation
Indices: 1617485--1617515 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1617475 GGAGTAAGCC
*
1617485 ATGCCG ATGCCA ATGCCA ATGCCA ATGCCA A
1 ATGCCA ATGCCA ATGCCA ATGCCA ATGCCA A
1617516 GCAAAGCAAA
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:0.32, C:0.32, G:0.19, T:0.16
Consensus pattern (6 bp):
ATGCCA
Found at i:1617524 original size:5 final size:5
Alignment explanation
Indices: 1617514--1617538 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1617504 TGCCAATGCC
1617514 AAGCA AAGCA AAGCA AAGCA AAGCA
1 AAGCA AAGCA AAGCA AAGCA AAGCA
1617539 GTAGCCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
AAGCA
Found at i:1617809 original size:25 final size:25
Alignment explanation
Indices: 1617763--1617810 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1617753 AATTAATGTT
**
1617763 ATTAAAAATTATTATATTTTTTATA
1 ATTAAAAATTATTATAAATTTTATA
1617788 ATTAAAATATTATT-TAAATTTTA
1 ATTAAAA-ATTATTATAAATTTTA
1617811 AAAATTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAAAAATTATTATAAATTTTATA
Found at i:1622505 original size:2 final size:2
Alignment explanation
Indices: 1622498--1622557 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
1622488 CTGCATAAAA
* *
1622498 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1622540 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1622558 CAGCCCCTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1631654 original size:14 final size:15
Alignment explanation
Indices: 1631637--1631665 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1631627 TTTTTATTTT
1631637 ATAAT-AAATTTAAA
1 ATAATAAAATTTAAA
1631651 ATAATAAAATTTAAA
1 ATAATAAAATTTAAA
1631666 CATTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAAAATTTAAA
Found at i:1637347 original size:19 final size:19
Alignment explanation
Indices: 1637310--1637365 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
1637300 TTTTAAAAAA
**
1637310 TTATATATTT-TAATATAT
1 TTATATATTTATTTTATAT
1637328 TTATATATTTATTTTATAT
1 TTATATATTTATTTTATAT
1637347 TT-TA-ATTATTATTTTATAT
1 TTATATA-T-TTATTTTATAT
1637366 CATATTCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 1 0.03
18 13 0.39
19 19 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATATATTTATTTTATAT
Found at i:1638640 original size:15 final size:15
Alignment explanation
Indices: 1638608--1638639 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1638598 AAATTATTAC
1638608 ATATTTTATTTATAT
1 ATATTTTATTTATAT
1638623 ATATTTT-TTTA-AT
1 ATATTTTATTTATAT
1638636 ATAT
1 ATAT
1638640 AATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 4 0.24
15 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTTATTTATAT
Found at i:1645139 original size:32 final size:32
Alignment explanation
Indices: 1645103--1645207 Score: 90
Period size: 32 Copynumber: 3.2 Consensus size: 32
1645093 AAAATTTATT
*
1645103 ATTATATTTATATTTTGATATTA-TATATTTAA
1 ATTATATTTATATTTT-ATATTATTATAATTAA
* * *
1645135 ATTATATTCATATATTTATCTTATTATAATTAT
1 ATTATATTTATAT-TTTATATTATTATAATTAA
* *
1645168 ATT-TATTTA-ATTTTAAATATATTAATAATTTAT
1 ATTATATTTATATTTTATAT-TATT-ATAA-TTAA
1645201 ATTATAT
1 ATTATAT
1645208 AAATTTTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
30 5 0.08
31 6 0.10
32 26 0.43
33 20 0.33
34 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (32 bp):
ATTATATTTATATTTTATATTATTATAATTAA
Found at i:1645188 original size:20 final size:20
Alignment explanation
Indices: 1645144--1645190 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1645134 AATTATATTC
1645144 ATATATTTATCTTATTATAA
1 ATATATTTATCTTATTATAA
* *
1645164 TTATATTTAT-TTAATTTTAA
1 ATATATTTATCTT-ATTATAA
1645184 ATATATT
1 ATATATT
1645191 AATAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATATTTATCTTATTATAA
Found at i:1645228 original size:29 final size:30
Alignment explanation
Indices: 1645156--1645248 Score: 91
Period size: 33 Copynumber: 3.0 Consensus size: 30
1645146 ATATTTATCT
* *
1645156 TATTATAATTATATT-TATTTAATTTTAAATA
1 TATTATATTTATATTATA-TAAATTTTAAA-A
1645187 TATTAATAATTTATATTATATAAATTTTAAAA
1 TATT-AT-ATTTATATTATATAAATTTTAAAA
* *
1645219 TA-TATATTTATATCATATAATATATTAAAA
1 TATTATATTTATATTATATAA-ATTTTAAAA
1645249 AAATGATTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
29 14 0.26
30 10 0.19
31 5 0.09
32 5 0.09
33 18 0.33
34 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTATATTTATATTATATAAATTTTAAAA
Found at i:1648860 original size:2 final size:2
Alignment explanation
Indices: 1648853--1648879 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1648843 CCAACCATTT
1648853 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1648880 ATGGGTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1649986 original size:2 final size:2
Alignment explanation
Indices: 1649979--1650008 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1649969 CATTAAATCT
*
1649979 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1650009 AAATATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1657246 original size:17 final size:18
Alignment explanation
Indices: 1657224--1657257 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1657214 TAAGATTAAA
1657224 TATAAAATA-TATTTATT
1 TATAAAATATTATTTATT
1657241 TATAAAATATTATTTAT
1 TATAAAATATTATTTAT
1657258 AAATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATAAAATATTATTTATT
Found at i:1657534 original size:23 final size:20
Alignment explanation
Indices: 1657477--1657536 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
1657467 TTAGACCAAA
1657477 AAATATTAA-ATATATTTTT
1 AAATATTAATATATATTTTT
1657496 -AAT-TTAATCATATATTAATTT
1 AAATATTAAT-ATATATT--TTT
1657517 AAATATTAATATATTATTTT
1 AAATATTAATATA-TATTTT
1657537 ATTTTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 7 0.21
21 5 0.15
22 6 0.18
23 9 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATATTAATATATATTTTT
Found at i:1662963 original size:22 final size:23
Alignment explanation
Indices: 1662919--1662976 Score: 100
Period size: 22 Copynumber: 2.6 Consensus size: 23
1662909 TTAAAACCTA
*
1662919 ATAAATATATTTATTTATTATTT
1 ATAAATATATTTATTAATTATTT
1662942 ATAAATATATTT-TTAATTATTT
1 ATAAATATATTTATTAATTATTT
1662964 ATAAATATATTTA
1 ATAAATATATTTA
1662977 AATCATATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATAAATATATTTATTAATTATTT
Found at i:1663059 original size:24 final size:25
Alignment explanation
Indices: 1663021--1663082 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
1663011 GAATAAATTT
1663021 ATTTAA-TTTAAATAAAT-ATATAA
1 ATTTAATTTTAAATAAATAATATAA
*
1663044 ATTTAATTTTAAATAAATAAATGTAA
1 ATTTAATTTTAAATAAAT-AATATAA
*
1663070 ATATAATTTTAAA
1 ATTTAATTTTAAA
1663083 ATTTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 6 0.18
24 11 0.32
26 17 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTTAATTTTAAATAAATAATATAA
Found at i:1664859 original size:22 final size:21
Alignment explanation
Indices: 1664831--1664897 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
1664821 CATTTATAAA
1664831 TATTAATTAAAAATTATTTAAT
1 TATTAA-TAAAAATTATTTAAT
* *
1664853 TATTAATATAAACTTTTTTACAT
1 TATTAATA-AAAATTATTTA-AT
*
1664876 TA-T-ATGAAAATTATTTAAT
1 TATTAATAAAAATTATTTAAT
1664895 TAT
1 TAT
1664898 ATATTTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 4 0.11
20 9 0.24
21 4 0.11
22 16 0.43
23 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (21 bp):
TATTAATAAAAATTATTTAAT
Found at i:1664896 original size:19 final size:18
Alignment explanation
Indices: 1664840--1664900 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 18
1664830 ATATTAATTA
1664840 AAAATTATTTAATTATTAAT
1 AAAATTATTTAATTA-T-AT
*
1664860 ATAAACTTTTTTACATTATAT
1 A-AAA-TTATTTA-ATTATAT
1664881 GAAAATTATTTAATTATAT
1 -AAAATTATTTAATTATAT
1664900 A
1 A
1664901 TTTTTTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
18 1 0.03
19 7 0.20
20 7 0.20
21 8 0.23
22 8 0.23
23 4 0.11
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (18 bp):
AAAATTATTTAATTATAT
Found at i:1671784 original size:86 final size:85
Alignment explanation
Indices: 1671624--1671787 Score: 231
Period size: 86 Copynumber: 1.9 Consensus size: 85
1671614 ATGAACATAT
*
1671624 ATATATAATTAAATACATCAACCAATGTTAGAATGTTAAATTAATATTTAAATTAAATGAACATG
1 ATATATAATTAAAAACATCAACCAATGTTAGAATGTTAAATTAATATTTAAATTAAATGAACATG
1671689 TGATGTTTTTTTAGACAAATA
66 TGA-GTTTTTTTAGACAAATA
* * * *
1671710 ATATTTAATTAAAAACATTAATCAATGTTAG-ATGGTTAAGTTAATATTTAAATTATAAATGAAC
1 ATATATAATTAAAAACATCAACCAATGTTAGAAT-GTTAAATTAATATTTAAA-T-TAAATGAAC
*
1671774 ATGTGATTTTTTTT
63 ATGTGAGTTTTTTT
1671788 TTTCTTATGG
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 2 0.03
86 44 0.64
87 8 0.12
88 15 0.22
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.41
Consensus pattern (85 bp):
ATATATAATTAAAAACATCAACCAATGTTAGAATGTTAAATTAATATTTAAATTAAATGAACATG
TGAGTTTTTTTAGACAAATA
Found at i:1697867 original size:11 final size:11
Alignment explanation
Indices: 1697851--1697897 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
1697841 TTATTTTAAC
*
1697851 ATATTTATATA
1 ATATTTATATT
1697862 ATATTT-TAATT
1 ATATTTAT-ATT
*
1697873 ATTTTTATATT
1 ATATTTATATT
1697884 ATATTTAATATT
1 ATATTT-ATATT
1697896 AT
1 AT
1697898 TAAAATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 1 0.03
11 21 0.70
12 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTTATATT
Found at i:1697879 original size:22 final size:23
Alignment explanation
Indices: 1697854--1697898 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1697844 TTTTAACATA
*
1697854 TTTATATAATATTTTA-ATTATT
1 TTTATATAATATTTAATATTATT
*
1697876 TTTATATTATATTTAATATTATT
1 TTTATATAATATTTAATATTATT
1697899 AAAATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATAATATTTAATATTATT
Found at i:1697895 original size:20 final size:20
Alignment explanation
Indices: 1697841--1697895 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
1697831 AGTTATAATT
* *
1697841 TTAT-TTTAACATATTTATA
1 TTATATTTAATATTTTTATA
*
1697860 TAATATTTTAATTATTTTTATA
1 TTATA-TTTAA-TATTTTTATA
1697882 TTATATTTAATATT
1 TTATATTTAATATT
1697896 ATTAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.10
20 4 0.14
21 10 0.34
22 12 0.41
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATATTTAATATTTTTATA
Found at i:1699569 original size:1 final size:1
Alignment explanation
Indices: 1699563--1699595 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
1699553 TAATGCAACC
*
1699563 TTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1699596 GTGTTTTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:1706263 original size:29 final size:28
Alignment explanation
Indices: 1706204--1706263 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
1706194 TATTATGTAA
*
1706204 AATTTAATAAAAAATTATTTTTATAATT
1 AATTTAATAAAAAATTATTTTTATAAAT
* *
1706232 AATTTAA-ATAAAATTTTTTATTATTAAAT
1 AATTTAATAAAAAATTATTT-TTA-TAAAT
1706261 AAT
1 AAT
1706264 AATTAAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.37
28 10 0.37
29 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AATTTAATAAAAAATTATTTTTATAAAT
Found at i:1706678 original size:7 final size:8
Alignment explanation
Indices: 1706649--1706685 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
1706639 TTATTAAAAA
1706649 TAAATAATT
1 TAAA-AATT
1706658 TAAAAATT
1 TAAAAATT
1706666 TAAAAATT
1 TAAAAATT
1706674 TAAAAA-T
1 TAAAAATT
1706681 TAAAA
1 TAAAA
1706686 TAAAACTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 6 0.21
8 18 0.64
9 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAAAATT
Found at i:1706683 original size:15 final size:15
Alignment explanation
Indices: 1706642--1706685 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
1706632 CTATTTTTTA
1706642 TTAAAAA-TAAATAAT
1 TTAAAAATTAAA-AAT
1706657 TTAAAAATTTAAAAAT
1 TTAAAAA-TTAAAAAT
1706673 TTAAAAATTAAAA
1 TTAAAAATTAAAA
1706686 TAAAACTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 13 0.48
16 10 0.37
17 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATTAAAAAT
Found at i:1712928 original size:2 final size:2
Alignment explanation
Indices: 1712921--1712968 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1712911 GGTTAACTCA
1712921 TC 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 TC
1712963 TC TC TC
1 TC TC TC
1712969 ACACACGCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1717259 original size:27 final size:27
Alignment explanation
Indices: 1717195--1717260 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
1717185 CGTAAATAAA
*
1717195 ATATTAAATGAATATAATTTTAATTTAT
1 ATATTAAA-AAATATAATTTTAATTTAT
*
1717223 ATATTTAAAAATATAATTTAATAATTTA-
1 ATATTAAAAAATATAATTT--TAATTTAT
1717251 A-ATTAAAAAA
1 ATATTAAAAAA
1717261 ATTTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 18 0.55
28 8 0.24
29 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTAAAAAATATAATTTTAATTTAT
Found at i:1717421 original size:14 final size:13
Alignment explanation
Indices: 1717404--1717449 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
1717394 AAATAAAAAA
1717404 TTTTAAATTATATT
1 TTTTAAATTA-ATT
1717418 TTTTAAATGTAA-T
1 TTTTAAAT-TAATT
*
1717431 TTTTAATTTAATT
1 TTTTAAATTAATT
1717444 TTTTAA
1 TTTTAA
1717450 CAGGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 3 0.10
13 15 0.52
14 9 0.31
15 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTAAATTAATT
Found at i:1717433 original size:13 final size:12
Alignment explanation
Indices: 1717404--1717446 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
1717394 AAATAAAAAA
1717404 TTTTAAATTATATT
1 TTTTAAATTA-A-T
1717418 TTTTAAATGTAAT
1 TTTTAAAT-TAAT
*
1717431 TTTTAATTTAAT
1 TTTTAAATTAAT
1717443 TTTT
1 TTTT
1717447 TAACAGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 8 0.30
13 8 0.30
14 9 0.33
15 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTTAAATTAAT
Found at i:1717457 original size:26 final size:27
Alignment explanation
Indices: 1717404--1717460 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
1717394 AAATAAAAAA
*
1717404 TTTTAAATTATATTTTTTAAATGTAAT
1 TTTTAAATTATATTTTTTAAATGGAAT
*
1717431 TTTTAATTTA-ATTTTTTAACA-GGAAT
1 TTTTAAATTATATTTTTTAA-ATGGAAT
1717457 TTTT
1 TTTT
1717461 TTGCAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTTAAATTATATTTTTTAAATGGAAT
Found at i:1717798 original size:13 final size:14
Alignment explanation
Indices: 1717770--1717807 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 14
1717760 TTTTAAAAAA
1717770 TAATATTTAATAATTT
1 TAATATTT--TAATTT
1717786 TAA-ATTTTAATTT
1 TAATATTTTAATTT
1717799 TAATATTTT
1 TAATATTTT
1717808 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
14 5 0.24
15 4 0.19
16 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TAATATTTTAATTT
Found at i:1720588 original size:2 final size:2
Alignment explanation
Indices: 1720581--1720609 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1720571 AATGCAATTG
1720581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1720610 ACCTGAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1721074 original size:6 final size:6
Alignment explanation
Indices: 1721065--1721091 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1721055 ACGACGACAA
1721065 TGAAGG TGAAGG TGAAGG TGAAGG TGA
1 TGAAGG TGAAGG TGAAGG TGAAGG TGA
1721092 GCCCTGTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.48, T:0.19
Consensus pattern (6 bp):
TGAAGG
Found at i:1725663 original size:33 final size:32
Alignment explanation
Indices: 1725624--1725748 Score: 157
Period size: 33 Copynumber: 3.9 Consensus size: 32
1725614 TTATATACTC
*
1725624 CATATTAATATATATAATATATATATACATATA-
1 CATATT-ATATATAT-ATATACATATACATATAT
1725657 CATATTATATATATATATACATATACATATAT
1 CATATTATATATATATATACATATACATATAT
1725689 GCATATTATATATATATATACATATACATATAT
1 -CATATTATATATATATATACATATACATATAT
* * *
1725722 CCTCTTA-ATACTATATAT-GATATACAT
1 CATATTATATA-TATATATACATATACAT
1725749 GTGACTGTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 27 0.32
32 20 0.24
33 38 0.45
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (32 bp):
CATATTATATATATATATACATATACATATAT
Found at i:1725739 original size:2 final size:2
Alignment explanation
Indices: 1725631--1725721 Score: 89
Period size: 2 Copynumber: 47.0 Consensus size: 2
1725621 CTCCATATTA
* *
1725631 AT AT AT AT A- AT AT AT AT AT AC AT AT AC AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * ** *
1725671 AT AT AC AT AT AC AT AT AT GC AT AT -T AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1725712 AT AC AT AT AT
1 AT AT AT AT AT
1725722 CCTCTTAATA
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
1 3 0.04
2 67 0.96
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1726977 original size:19 final size:19
Alignment explanation
Indices: 1726953--1726989 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1726943 TATCATATTT
1726953 ATATT-ATATATTTAATAAA
1 ATATTAATATA-TTAATAAA
1726972 ATATTAATATATTAATAA
1 ATATTAATATATTAATAA
1726990 TTTATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTAATATATTAATAAA
Found at i:1732119 original size:14 final size:14
Alignment explanation
Indices: 1732100--1732126 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1732090 CATGCTTGTA
1732100 TTGCACTAAAATAG
1 TTGCACTAAAATAG
1732114 TTGCACTAAAATA
1 TTGCACTAAAATA
1732127 AAGAAATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (14 bp):
TTGCACTAAAATAG
Found at i:1740664 original size:2 final size:2
Alignment explanation
Indices: 1740652--1740684 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1740642 GAAGGAAAGA
*
1740652 AT AT AT GT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1740685 CAATGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1743499 original size:2 final size:2
Alignment explanation
Indices: 1743492--1743519 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1743482 AATCCAAAAC
1743492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1743520 CATACTATAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1744070 original size:6 final size:7
Alignment explanation
Indices: 1744052--1744078 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1744042 AAAGGACGAA
1744052 ATTTTTT
1 ATTTTTT
1744059 ATTTTTT
1 ATTTTTT
1744066 ATTTTTT
1 ATTTTTT
1744073 ATTTTT
1 ATTTTT
1744079 CATCAAAGTC
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:1744876 original size:19 final size:17
Alignment explanation
Indices: 1744836--1744899 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
1744826 AATTAAATAT
*
1744836 AATT-AAAATAATTTTT
1 AATTAAAAATAATTTTA
1744852 AATTAAAAATAATCATTTA
1 AATTAAAAATAAT--TTTA
* *
1744871 AATT-AAACTAACTTT-
1 AATTAAAAATAATTTTA
1744886 AATTAAAAA-AATTT
1 AATTAAAAATAATTT
1744900 ACTTAAACCC
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 8 0.21
16 10 0.26
17 8 0.21
18 6 0.15
19 7 0.18
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTAAAAATAATTTTA
Found at i:1746508 original size:2 final size:2
Alignment explanation
Indices: 1746501--1746548 Score: 62
Period size: 2 Copynumber: 24.0 Consensus size: 2
1746491 CAATAACTGT
* *
1746501 TA TA TA TA TA TA TA TA TA TA TA -A GTA TC TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
1746543 TA TA TA
1 TA TA TA
1746549 AGTAGCTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
1 1 0.03
2 38 0.95
3 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1746532 original size:26 final size:26
Alignment explanation
Indices: 1746503--1746575 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
1746493 ATAACTGTTA
* *
1746503 TATATATATATATATATATAAGTATC
1 TATAAATATATATATATATAAGTAGC
1746529 TATAAATATATATATATATAAGTAGC
1 TATAAATATATATATATATAAGTAGC
*
1746555 TATAAATA-AGATATATTATAA
1 TATAAATATATATATA-TATAA
1746576 TGAGACAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 6 0.14
26 37 0.86
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (26 bp):
TATAAATATATATATATATAAGTAGC
Found at i:1748485 original size:17 final size:17
Alignment explanation
Indices: 1748465--1748500 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1748455 TATATTTGAA
1748465 TTTTTTA-TTTATTTCCT
1 TTTTTTATTTTA-TTCCT
1748482 TTTTTTATTTTATTCCT
1 TTTTTTATTTTATTCCT
1748499 TT
1 TT
1748501 CTCTCCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTATTCCT
Found at i:1748679 original size:12 final size:12
Alignment explanation
Indices: 1748662--1748686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1748652 GGGGAGGGAG
1748662 AGAAAGAAACAA
1 AGAAAGAAACAA
1748674 AGAAAGAAACAA
1 AGAAAGAAACAA
1748686 A
1 A
1748687 TTATGATATG
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:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAAGAAACAA
Found at i:1751034 original size:44 final size:42
Alignment explanation
Indices: 1750971--1751056 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 42
1750961 AGCAATTGTC
*
1750971 TAGGCTTTTAAATTGTTATCATTGATCTCTATGCATAAAAACAA
1 TAGGCTTTTAAATTGTTATCATTGA--ACTATGCATAAAAACAA
*
1751015 TAGGCTTTTCAATTGTTATCATTGAACTATGCATAAAAACAA
1 TAGGCTTTTAAATTGTTATCATTGAACTATGCATAAAAACAA
1751057 CTTGAGCTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 16 0.40
44 24 0.60
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (42 bp):
TAGGCTTTTAAATTGTTATCATTGAACTATGCATAAAAACAA
Found at i:1752748 original size:3 final size:3
Alignment explanation
Indices: 1752740--1752767 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1752730 TAAATAGATC
1752740 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1752768 GGTAGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1760386 original size:15 final size:15
Alignment explanation
Indices: 1760355--1760384 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1760345 AAAATAAATA
1760355 TATTATTTATTATTT
1 TATTATTTATTATTT
1760370 TATTA-TTATTATTT
1 TATTATTTATTATTT
1760384 T
1 T
1760385 TAAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTATTTATTATTT
Found at i:1760397 original size:53 final size:49
Alignment explanation
Indices: 1760275--1760406 Score: 126
Period size: 52 Copynumber: 2.6 Consensus size: 49
1760265 CTTCTAAATA
* *
1760275 ATTTTTTAATATTTAAATATAAATATAA-ATATATTTATTTTTAATTATT
1 ATTTTTAAAAATTTAAATATAAATA-AATATATATTTATTTTTAATTATT
**
1760324 ATTTAAAAATTAATTTTAAATA-AAATAAATATATTATTTATTATTTTATTATTATT
1 ATTTTTAAA--AA-TTTAAATATAAATAAATATA-TATTTA-T-TTTTA--ATTATT
1760380 ATTTTTAAAAATTTAAATATAAA-AAAT
1 ATTTTTAAAAATTTAAATATAAATAAAT
1760407 TAATTAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
49 6 0.09
50 2 0.03
51 9 0.13
52 14 0.21
53 13 0.19
54 10 0.15
56 13 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (49 bp):
ATTTTTAAAAATTTAAATATAAATAAATATATATTTATTTTTAATTATT
Found at i:1760421 original size:18 final size:19
Alignment explanation
Indices: 1760389--1760426 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1760379 TATTTTTAAA
*
1760389 AATTTAAATATAAAAAATT
1 AATTAAAATATAAAAAATT
1760408 AATTAAAATA-AAAAAATT
1 AATTAAAATATAAAAAATT
1760426 A
1 A
1760427 TATTTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTAAAATATAAAAAATT
Found at i:1760469 original size:16 final size:17
Alignment explanation
Indices: 1760450--1760481 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1760440 TAAAATTAAA
1760450 TTTAAAT-AAATATTAT
1 TTTAAATAAAATATTAT
1760466 TTTAAATAAAATATTA
1 TTTAAATAAAATATTA
1760482 AATAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAATAAAATATTAT
Found at i:1760495 original size:25 final size:26
Alignment explanation
Indices: 1760456--1760507 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
1760446 TAAATTTAAA
1760456 TAAATATTATTTT-AAA-TAAAATAT
1 TAAATATTATTTTAAAAGTAAAATAT
1760480 TAAATAATTATTTTAAAAGTAAAATAT
1 TAAAT-ATTATTTTAAAAGTAAAATAT
1760507 T
1 T
1760508 TTTTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.20
25 8 0.32
26 3 0.12
27 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TAAATATTATTTTAAAAGTAAAATAT
Found at i:1760596 original size:23 final size:24
Alignment explanation
Indices: 1760560--1760610 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
1760550 TCATTAAATT
*
1760560 TTTAAATAATAATA-ATTAATTAA
1 TTTAAATAATAATATATTAATAAA
*
1760583 TTTAAATACA-AATATTTTAATAAA
1 TTTAAATA-ATAATATATTAATAAA
1760607 TTTA
1 TTTA
1760611 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAAATAATAATATATTAATAAA
Found at i:1760638 original size:16 final size:16
Alignment explanation
Indices: 1760617--1760650 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1760607 TTTATTTTAA
1760617 AATTAATAAAT-AATTT
1 AATTAA-AAATAAATTT
1760633 AATTAAAAATAAATTT
1 AATTAAAAATAAATTT
1760649 AA
1 AA
1760651 AATATTCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAAAAATAAATTT
Found at i:1760700 original size:17 final size:17
Alignment explanation
Indices: 1760680--1760712 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1760670 AATTAAAATA
1760680 TAATTTAATAATAATTT
1 TAATTTAATAATAATTT
*
1760697 TAATTTTATAATAATT
1 TAATTTAATAATAATT
1760713 AAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTTAATAATAATTT
Found at i:1760792 original size:19 final size:19
Alignment explanation
Indices: 1760750--1760792 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1760740 TTATTATTTT
1760750 ATAAT-TAAAAAATTAAGA
1 ATAATATAAAAAATTAAGA
* *
1760768 AAAATATAAAAAATTAATA
1 ATAATATAAAAAATTAAGA
1760787 ATAATA
1 ATAATA
1760793 AATAATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
ATAATATAAAAAATTAAGA
Found at i:1761290 original size:27 final size:30
Alignment explanation
Indices: 1761223--1761291 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 30
1761213 TTAAATATCG
1761223 TATTT-ATATATTTTATTATATTATAATTA
1 TATTTAATATATTTTATTATATTATAATTA
*
1761252 TATTTAAAATATTTTA-TAT-TTAT-ATTA
1 TATTTAATATATTTTATTATATTATAATTA
*
1761279 -ATTTTGATATATT
1 TA-TTTAATATATT
1761292 AATAAATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 1 0.03
27 13 0.37
28 4 0.11
29 8 0.23
30 9 0.26
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTTAATATATTTTATTATATTATAATTA
Found at i:1761362 original size:60 final size:58
Alignment explanation
Indices: 1761225--1761362 Score: 133
Period size: 62 Copynumber: 2.3 Consensus size: 58
1761215 AAATATCGTA
* *
1761225 TTTATATATTTTATT-AT-ATTATAATTATATTTAAAATATTTTATATTTATATTAAT
1 TTTATATATTATATTCATAATTATAATTATATTAAAAATATTTTATATTTATATTAAT
* *
1761281 TTTGATATATTAATAAATCATAATATATAATT-T-TTAAAAATATTTTTTATATTTTTA-TAACT
1 TTT-ATATATT-AT-ATTCATAAT-TATAATTATATTAAAAATA--TTTTATATTTATATTAA-T
1761343 TTATATATATTATATTCATA
1 TT-TATATATTATATTCATA
1761363 TAATCATATT
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
56 3 0.04
57 7 0.10
58 1 0.01
59 2 0.03
60 16 0.24
61 8 0.12
62 29 0.43
63 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (58 bp):
TTTATATATTATATTCATAATTATAATTATATTAAAAATATTTTATATTTATATTAAT
Found at i:1762339 original size:2 final size:2
Alignment explanation
Indices: 1762334--1762364 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1762324 CCTTCCTTTT
1762334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1762365 CCAAATAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1763785 original size:25 final size:28
Alignment explanation
Indices: 1763755--1763809 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 28
1763745 TGAATATTGA
1763755 TTTAAAAATTA-A-TTAAT-TATAATTT
1 TTTAAAAATTATATTTAATATATAATTT
*
1763780 TTTAAAAATTATATTTAATATATTATTT
1 TTTAAAAATTATATTTAATATATAATTT
1763808 TT
1 TT
1763810 ATTAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.42
26 1 0.04
27 5 0.19
28 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTAAAAATTATATTTAATATATAATTT
Found at i:1766092 original size:4 final size:4
Alignment explanation
Indices: 1766083--1766121 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
1766073 TATTCATCTT
*
1766083 ATAC ATAC ATAC ATAC ATAC ATAT ATGTAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A--TAC ATAC ATAC A
1766122 CACACTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 28 0.90
6 3 0.10
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:1768349 original size:13 final size:14
Alignment explanation
Indices: 1768319--1768353 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
1768309 AATTAATAAA
1768319 AAATTATAAATATTT
1 AAATT-TAAATATTT
1768334 AAATTTAAAT-TTT
1 AAATTTAAATATTT
1768347 AAATTTA
1 AAATTTA
1768354 TTGAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 5 0.25
15 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATTTAAATATTT
Found at i:1768801 original size:2 final size:2
Alignment explanation
Indices: 1768794--1768823 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1768784 TTATTGAACT
1768794 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1768824 AAAGTAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1770092 original size:17 final size:17
Alignment explanation
Indices: 1770055--1770106 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
1770045 AAATATTTCG
*
1770055 AATTAAAT-ATTAATA-
1 AATTAAATAAATAATAT
1770070 AA-TAAATAAATAATAT
1 AATTAAATAAATAATAT
1770086 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
1770103 AATT
1 AATT
1770107 GCATCTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 2 0.06
17 10 0.31
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:1771036 original size:33 final size:33
Alignment explanation
Indices: 1770999--1771063 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
1770989 TAATTACCCC
1770999 ATTAGAGATTAATTCTCTAATATAATCATGTCA
1 ATTAGAGATTAATTCTCTAATATAATCATGTCA
1771032 ATTAGAGATTAATTCTCTAATATAATCATGTC
1 ATTAGAGATTAATTCTCTAATATAATCATGTC
1771064 TAATGCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (33 bp):
ATTAGAGATTAATTCTCTAATATAATCATGTCA
Found at i:1771431 original size:42 final size:42
Alignment explanation
Indices: 1771372--1771452 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
1771362 CATCAGAATA
*
1771372 TCCTTTTAAAACTGTATCCAAGAACTCTTCCAATAACTTTCC
1 TCCTTCTAAAACTGTATCCAAGAACTCTTCCAATAACTTTCC
1771414 TCCTTCTAAAACTGTATCCAAGAACTCTTCCAATAACTT
1 TCCTTCTAAAACTGTATCCAAGAACTCTTCCAATAACTT
1771453 CAATAGCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (42 bp):
TCCTTCTAAAACTGTATCCAAGAACTCTTCCAATAACTTTCC
Found at i:1771711 original size:2 final size:2
Alignment explanation
Indices: 1771706--1771746 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1771696 TCTCTCTTAC
1771706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1771747 AGCCTTTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1781162 original size:16 final size:17
Alignment explanation
Indices: 1781141--1781173 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1781131 ATATTAAATC
1781141 GATTTAA-AATTGTATT
1 GATTTAATAATTGTATT
*
1781157 GATTTAATAATTTTATT
1 GATTTAATAATTGTATT
1781174 TATATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
GATTTAATAATTGTATT
Found at i:1786795 original size:14 final size:14
Alignment explanation
Indices: 1786776--1786802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1786766 GCATTCAGTC
1786776 CTGAATGCTGGGGA
1 CTGAATGCTGGGGA
1786790 CTGAATGCTGGGG
1 CTGAATGCTGGGG
1786803 GATGGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.44, T:0.22
Consensus pattern (14 bp):
CTGAATGCTGGGGA
Found at i:1788490 original size:35 final size:34
Alignment explanation
Indices: 1788441--1788509 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
1788431 TAAATCCCCT
1788441 GGACAATAGAATATGTTAGACTGCCATTGATCAA
1 GGACAATAGAATATGTTAGACTGCCATTGATCAA
*
1788475 GGACAGTAGACATATGTTAGACTGCCATTGATCAA
1 GGACAATAGA-ATATGTTAGACTGCCATTGATCAA
1788510 CAATCGATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.27
35 24 0.73
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (34 bp):
GGACAATAGAATATGTTAGACTGCCATTGATCAA
Found at i:1792193 original size:10 final size:10
Alignment explanation
Indices: 1792132--1792219 Score: 56
Period size: 10 Copynumber: 8.7 Consensus size: 10
1792122 ATATTTAAAA
1792132 TATTATATATT
1 TATTATAT-TT
*
1792143 TATATAAATTT
1 TAT-TATATTT
* * *
1792154 TAATAAATTAA
1 TATTATATT-T
*
1792165 TATTTTATTT
1 TATTATATTT
*
1792175 TATTTTATTT
1 TATTATATTT
*
1792185 TAATATA-TT
1 TATTATATTT
1792194 TATTATA-TT
1 TATTATATTT
1792203 TATTATAATTT
1 TATTAT-ATTT
1792214 T-TTATA
1 TATTATA
1792220 ATAATTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
9 17 0.27
10 26 0.41
11 16 0.25
12 4 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATATTT
Found at i:1792200 original size:9 final size:9
Alignment explanation
Indices: 1792169--1792219 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
1792159 AATTAATATT
1792169 TTAT-TTTA
1 TTATATTTA
*
1792177 TTTTATTTTA
1 TTATA-TTTA
*
1792187 ATATATTTA
1 TTATATTTA
1792196 TTATATTTA
1 TTATATTTA
*
1792205 TTATAATTTT
1 TTAT-ATTTA
1792215 TTATA
1 TTATA
1792220 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
8 3 0.09
9 17 0.49
10 15 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATATTTA
Found at i:1792204 original size:23 final size:23
Alignment explanation
Indices: 1792161--1792232 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
1792151 TTTTAATAAA
*
1792161 TTAATATTTTATTTTATTTTATT
1 TTAATATTTTATTATATTTTATT
1792184 TTAATATATTTATTATA-TTTATT
1 TTAATAT-TTTATTATATTTTATT
* * * *
1792207 ATAATTTTTTATAATAATTTTTTT
1 TTAATATTTTATTAT-ATTTTATT
1792231 TT
1 TT
1792233 TTCATACCGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 7 0.17
23 19 0.47
24 14 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTAATATTTTATTATATTTTATT
Found at i:1792217 original size:31 final size:29
Alignment explanation
Indices: 1792125--1792217 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 29
1792115 ATATTTTATA
* *
1792125 TTTAAAATATTATATATTTA-TATAA-AT
1 TTTAATATATTATATATTTATTATAATTT
* * *
1792152 TTTAATAAATTA-ATATTTTATTTTATTTTAT
1 TTTAATATATTATATA-TTTATTATA-ATT-T
1792183 TTTAATATATTTATTATATTTATTATAATTT
1 TTTAATATA-TTA-TATATTTATTATAATTT
1792214 TTTA
1 TTTA
1792218 TAATAATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
26 3 0.06
27 14 0.28
28 3 0.06
31 14 0.28
32 5 0.10
33 8 0.16
34 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTAATATATTATATATTTATTATAATTT
Found at i:1792218 original size:19 final size:18
Alignment explanation
Indices: 1792177--1792219 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
1792167 TTTTATTTTA
1792177 TTTTAT-TTTAATATATT
1 TTTTATATTTAATATATT
* *
1792194 TATTATATTTATTATAATT
1 TTTTATATTTAATAT-ATT
1792213 TTTTATA
1 TTTTATA
1792220 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 7 0.33
19 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATTTAATATATT
Found at i:1792876 original size:20 final size:21
Alignment explanation
Indices: 1792844--1792893 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
1792834 AAAATATATT
*
1792844 TAATAT-TAA-ATTTTATATA
1 TAATATATAATATTTTAAATA
1792863 -AATATATAATATTTTAAATA
1 TAATATATAATATTTTAAATA
1792883 TAAT-TATAATA
1 TAATATATAATA
1792894 AAAAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 3 0.11
20 16 0.59
21 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATATAATATTTTAAATA
Found at i:1799255 original size:24 final size:24
Alignment explanation
Indices: 1799228--1799275 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1799218 CTTTATTTAT
*
1799228 TATTTTTAT-TATAATTAGTAAAAA
1 TATTATTATATATAA-TAGTAAAAA
*
1799252 TATTATTATATATAATATTAAAAA
1 TATTATTATATATAATAGTAAAAA
1799276 ATGATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTATTATATATAATAGTAAAAA
Found at i:1800634 original size:6 final size:6
Alignment explanation
Indices: 1800625--1800778 Score: 66
Period size: 6 Copynumber: 26.8 Consensus size: 6
1800615 AAATATATTT
* *
1800625 ATATAA ATAT-A ATATAT ATATAA TTATTAAA ATATAA ATATATA AT-TAA
1 ATATAA ATATAA ATATAA ATATAA ATA-T-AA ATATAA ATATA-A ATATAA
* ** * *
1800674 AAATTT ATAT-A ATATAA AT-T-A TTAATAA AT-TAA A-ATTA ATATAA
1 ATATAA ATATAA ATATAA ATATAA AT-ATAA ATATAA ATATAA ATATAA
*
1800718 ATATATA ATAT-- -TATAA ATATAA TTATAA TATTATAA A-AT-- ATATAA
1 ATATA-A ATATAA ATATAA ATATAA ATATAA -A-TATAA ATATAA ATATAA
*
1800763 ATAT-A ACATAA ATATA
1 ATATAA ATATAA ATATA
1800779 TAAAATATCA
Statistics
Matches: 110, Mismatches: 17, Indels: 42
0.65 0.10 0.25
Matches are distributed among these distances:
3 4 0.04
4 4 0.04
5 25 0.23
6 55 0.50
7 13 0.12
8 9 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (6 bp):
ATATAA
Found at i:1800684 original size:16 final size:16
Alignment explanation
Indices: 1800664--1800717 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
1800654 AAATATAAAT
*
1800664 ATATAATTAAAAATTT
1 ATATAATTAAAAATTA
*
1800680 ATATAATATAAATTATTA
1 ATATAAT-TAAA-AATTA
1800698 ATA-AATT-AAAATTA
1 ATATAATTAAAAATTA
1800712 ATATAA
1 ATATAA
1800718 ATATATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.22
15 4 0.12
16 8 0.25
17 7 0.22
18 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATAATTAAAAATTA
Found at i:1800718 original size:16 final size:16
Alignment explanation
Indices: 1800650--1800719 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 16
1800640 ATATATAATT
1800650 ATTAAAATATAAATATATA
1 ATTAAAAT-T-AATATA-A
*
1800669 ATTAAAAATTTATAT-A
1 ATT-AAAATTAATATAA
*
1800685 A-TATAAATTATTAATAA
1 ATTA-AAATTAAT-ATAA
1800702 ATTAAAATTAATATAA
1 ATTAAAATTAATATAA
1800718 AT
1 AT
1800720 ATATAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
14 1 0.02
15 7 0.17
16 10 0.24
17 9 0.21
18 6 0.14
19 4 0.10
20 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTAAAATTAATATAA
Found at i:1800784 original size:20 final size:20
Alignment explanation
Indices: 1800625--1800786 Score: 88
Period size: 22 Copynumber: 8.0 Consensus size: 20
1800615 AAATATATTT
*
1800625 ATATAAATATAATATATATATA
1 ATATAAATAT-ATA-AAATATA
1800647 ATTATTAAA-ATATAAATATATA
1 A-TA-TAAATATATAAA-ATATA
* * *
1800669 ATTAAAAATTTATATAATATAA
1 A-TATAAATATATAAAATAT-A
* *
1800691 ATTATTAATAAATTAAAAT-TA
1 A-TATAAATATA-TAAAATATA
1800712 ATATAAATATAT--AATAT-
1 ATATAAATATATAAAATATA
* *
1800729 -TATAAATATAATTATAATATT
1 ATATAAATAT-A-TAAAATATA
1800750 ATA-AAATATAT-AAATATA
1 ATATAAATATATAAAATATA
*
1800768 ACATAAATATATAAAATAT
1 ATATAAATATATAAAATAT
1800787 CAAATTTACT
Statistics
Matches: 111, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
16 9 0.08
17 4 0.04
18 9 0.08
19 10 0.09
20 20 0.18
21 16 0.14
22 30 0.27
23 9 0.08
24 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAAATATATAAAATATA
Found at i:1800791 original size:7 final size:7
Alignment explanation
Indices: 1800711--1800791 Score: 51
Period size: 7 Copynumber: 11.4 Consensus size: 7
1800701 AATTAAAATT
1800711 AATAT-A
1 AATATAA
*
1800717 AATATAT
1 AATATAA
1800724 AATATTATA
1 AATA-TA-A
1800733 AATAT-A
1 AATATAA
*
1800739 ATTATAA
1 AATATAA
*
1800746 TATTATAA
1 -AATATAA
1800754 AATATATA
1 AATATA-A
1800762 AATATAA
1 AATATAA
*
1800769 CATA-AA
1 AATATAA
*
1800775 TATATAA
1 AATATAA
*
1800782 AATATCA
1 AATATAA
1800789 AAT
1 AAT
1800792 TTACTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
6 15 0.25
7 24 0.40
8 17 0.28
9 4 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (7 bp):
AATATAA
Found at i:1801798 original size:2 final size:2
Alignment explanation
Indices: 1801791--1801819 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1801781 AATAAAACCA
1801791 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 T
1801820 TCAAAACCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1806399 original size:2 final size:2
Alignment explanation
Indices: 1806392--1806428 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1806382 TTAAACATAC
1806392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1806429 GGATTCTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1808073 original size:25 final size:25
Alignment explanation
Indices: 1808045--1808095 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1808035 AATATGAGTG
*
1808045 AAAAAT-TATAAAAAT-AATAAATTT
1 AAAAATATTTAAAAATAAAT-AATTT
*
1808069 AAAAATATTTTAAAATAAATAATTT
1 AAAAATATTTAAAAATAAATAATTT
1808094 AA
1 AA
1808096 CCATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 14 0.61
26 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAATATTTAAAAATAAATAATTT
Found at i:1814170 original size:23 final size:23
Alignment explanation
Indices: 1814144--1814188 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1814134 TGTATTTCAG
*
1814144 TTTTATTTTGTATTTTTATTATC
1 TTTTATATTGTATTTTTATTATC
*
1814167 TTTTCTATTGTATTTTTATTAT
1 TTTTATATTGTATTTTTATTAT
1814189 TGGCCCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTATATTGTATTTTTATTATC
Found at i:1814653 original size:20 final size:20
Alignment explanation
Indices: 1814457--1814806 Score: 122
Period size: 21 Copynumber: 17.4 Consensus size: 20
1814447 ATATCAATAG
*
1814457 TTATTAAAATTATATAAAAAAA
1 TTATCAAAATTATAT--AAAAA
* * *
1814479 TTATCAAATTTATTATTAATA
1 TTATCAAAATTA-TATAAAAA
* * *
1814500 TTATCAATATTATAATCAAGA
1 TTATCAAAATTAT-ATAAAAA
* **
1814521 TT-TCAAAAACTATTATAAATG
1 TTATC-AAAATTA-TATAAAAA
* *
1814542 TTATGAAAATTATTACAAAAA
1 TTATCAAAATTA-TATAAAAA
* *
1814563 TTACCAAAA-T-TATAAAAG
1 TTATCAAAATTATATAAAAA
* * *
1814581 TTATTAATATTATATTAAAGA
1 TTATCAAAATTATA-TAAAAA
*
1814602 TCAT-AATAATTATATAAAAAA
1 TTATCAA-AATTATAT-AAAAA
1814623 TTACTCAAAATTATATAAAAA
1 TTA-TCAAAATTATATAAAAA
** *
1814644 TTATTGAAATTATATTAAAAG
1 TTATCAAAATTATA-TAAAAA
* * *
1814665 TTATCCAAAGTA-ATCAAAA
1 TTATCAAAATTATATAAAAA
* *
1814684 --GTC-----T-TACAAAAA
1 TTATCAAAATTATATAAAAA
* *
1814696 -TATCAAAATTACATTAAAAG
1 TTATCAAAATTATA-TAAAAA
* *
1814716 TTATCAAAATTATGTCAAATA
1 TTATCAAAATTATAT-AAAAA
*
1814737 TTATCAAAATTATAT-TAAA
1 TTATCAAAATTATATAAAAA
* *
1814756 TTAATTAAAATTATATCAAATA
1 TT-ATCAAAATTATAT-AAAAA
1814778 TTATTC-AAATTATATTAAAAA
1 TTA-TCAAAATTATA-TAAAAA
1814799 TTA-CAAAA
1 TTATCAAAA
1814807 AAATGAAAAT
Statistics
Matches: 240, Mismatches: 58, Indels: 62
0.67 0.16 0.17
Matches are distributed among these distances:
12 6 0.03
13 2 0.01
17 2 0.01
18 13 0.05
19 11 0.05
20 39 0.16
21 135 0.56
22 27 0.11
23 5 0.02
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (20 bp):
TTATCAAAATTATATAAAAA
Found at i:1814756 original size:10 final size:10
Alignment explanation
Indices: 1814743--1814796 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
1814733 AATATTATCA
1814743 AAATTATATT
1 AAATTATATT
1814753 AAATTA-ATT
1 AAATTATATT
*
1814762 AAAATTATATC
1 -AAATTATATT
1814773 AAA-TATTATT
1 AAATTA-TATT
1814783 CAAATTATATT
1 -AAATTATATT
1814794 AAA
1 AAA
1814797 AATTACAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 5 0.14
10 21 0.57
11 9 0.24
12 2 0.05
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (10 bp):
AAATTATATT
Found at i:1814778 original size:41 final size:41
Alignment explanation
Indices: 1814696--1814796 Score: 134
Period size: 41 Copynumber: 2.4 Consensus size: 41
1814686 CTTACAAAAA
* *
1814696 TATCAAAATTACATTAAAAGTTATCAAAATTATGTCAAATAT
1 TATCAAAATTATATT-AAAGTTATCAAAATTATATCAAATAT
*
1814738 TATCAAAATTATATTAAA-TTAATTAAAATTATATCAAATAT
1 TATCAAAATTATATTAAAGTT-ATCAAAATTATATCAAATAT
1814779 TATTC-AAATTATATTAAA
1 TA-TCAAAATTATATTAAA
1814797 AATTACAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 2 0.04
41 36 0.67
42 16 0.30
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (41 bp):
TATCAAAATTATATTAAAGTTATCAAAATTATATCAAATAT
Found at i:1815268 original size:253 final size:254
Alignment explanation
Indices: 1814812--1815317 Score: 847
Period size: 253 Copynumber: 2.0 Consensus size: 254
1814802 CAAAAAAATG
1814812 AAAATTATATCAAAATATAATGGAATTATTATTTGATATTTAAGAATTTAATTATATTATATATT
1 AAAATTATATCAAAATATAATGGAATTATTATTTGATATTTAAGAATTTAATTATATTATATATT
* *
1814877 TGATATGATATATGATATGATCATATATATATATTTGTATATTTGTTATTATAAAAAAAATTAAT
66 TGATATGATATATGAAATGATC--A-ATATATATTTATATATTTGTTATTATAAAAAAAATTAAT
*
1814942 ATTAATATCAAATGAAAAAAATTGATGGTTATATTTCTAATATTATTATATATATAAAATATTAA
128 ATTAATATCAAATGAAAAAAATTGATGGTTATATTCCTAATATTATTATATATATAAAATATTAA
*
1815007 TAAAATTGTAAACATTAAATAACCCCTCAAAACCCATGTAATTGGGAGAATAAATGAAGTGC
193 TAAAATTGTAAACATTAAATAACCCCTCAAAACCCATGTAACTGGGAGAATAAATGAAGTGC
* *
1815069 AAAATTATATCAAACTATAATTGAATTATTATTTGATATTTAAGAATTTAATTATATTATATATT
1 AAAATTATATCAAAATATAATGGAATTATTATTTGATATTTAAGAATTTAATTATATTATATATT
**
1815134 TGATATGATATATGAAATGATC-ATATATATTTATATATTTGTTATTAT-AAAAATTTTCAATAT
66 TGATATGATATATGAAATGATCAATATATATTTATATATTTGTTATTATAAAAAAAATT-AATAT
1815197 TAATATCAAATGAAAAAAATTGATGGTTATATTCCTAATATTATTATATATGA-AAAATATTAAT
130 TAATATCAAATGAAAAAAATTGATGGTTATATTCCTAATATTATTATATAT-ATAAAATATTAAT
* * *
1815261 CAAATTGTTAACATTAAATAACCCCTCAAAAGCCATGTAACTGGGAGAATAAATGAA
194 AAAATTGTAAACATTAAATAACCCCTCAAAACCCATGTAACTGGGAGAATAAATGAA
1815318 TTGGACAAAT
Statistics
Matches: 236, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
252 7 0.03
253 144 0.61
254 1 0.00
257 84 0.36
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (254 bp):
AAAATTATATCAAAATATAATGGAATTATTATTTGATATTTAAGAATTTAATTATATTATATATT
TGATATGATATATGAAATGATCAATATATATTTATATATTTGTTATTATAAAAAAAATTAATATT
AATATCAAATGAAAAAAATTGATGGTTATATTCCTAATATTATTATATATATAAAATATTAATAA
AATTGTAAACATTAAATAACCCCTCAAAACCCATGTAACTGGGAGAATAAATGAAGTGC
Found at i:1819003 original size:101 final size:102
Alignment explanation
Indices: 1818817--1819009 Score: 282
Period size: 101 Copynumber: 1.9 Consensus size: 102
1818807 GGTTAGTATA
* **
1818817 TTTTGTTTAAAATAGTCTATTGGTATCTTAGACTATTCTATTTCCTGTAAGATAATGACTGGTGT
1 TTTTGGTTAAAATAGTCTATTGGTATCTTAGACTATTCTATTTCCTGTAAGATAATGACTACTGT
*
1818882 CTCAAATATGCTTGGATGCAGGTTATTTCTTCAGATT
66 CTCAAATATGCTTGGATGCAGGATATTTCTTCAGATT
* * *
1818919 TTTTGGTTAAAATAGTC-ATTGGTATCTTAG-CTCATTTTATTTCCTTTAAGATAATGACTACTT
1 TTTTGGTTAAAATAGTCTATTGGTATCTTAGACT-ATTCTATTTCCTGTAAGATAATGACTACTG
* *
1818982 TCTCAAATATGTTTGGTTGCAGGATATT
65 TCTCAAATATGCTTGGATGCAGGATATT
1819010 CATACTTCCT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 2 0.02
101 63 0.78
102 16 0.20
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (102 bp):
TTTTGGTTAAAATAGTCTATTGGTATCTTAGACTATTCTATTTCCTGTAAGATAATGACTACTGT
CTCAAATATGCTTGGATGCAGGATATTTCTTCAGATT
Found at i:1819438 original size:20 final size:20
Alignment explanation
Indices: 1819399--1819438 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1819389 CCATTTTTTC
*
1819399 CTTTTAATTTGCTCTGTTTA
1 CTTTTAATTTGCTCTCTTTA
1819419 CTTTT-ATTTGCTCATCTTTA
1 CTTTTAATTTGCTC-TCTTTA
1819439 AGTCATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.60
Consensus pattern (20 bp):
CTTTTAATTTGCTCTCTTTA
Found at i:1834763 original size:15 final size:15
Alignment explanation
Indices: 1834743--1834772 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1834733 TAAATTTTAA
1834743 ATTTTTAACTCATTT
1 ATTTTTAACTCATTT
*
1834758 ATTTTTAGCTCATTT
1 ATTTTTAACTCATTT
1834773 CATAGTAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.60
Consensus pattern (15 bp):
ATTTTTAACTCATTT
Found at i:1838224 original size:102 final size:102
Alignment explanation
Indices: 1838036--1838229 Score: 291
Period size: 102 Copynumber: 1.9 Consensus size: 102
1838026 AGTCAGTATA
* * * * *
1838036 TTTTGGTTAAAGTAGTCTATTGGTATCTTAGCTTATTCTTTTTCCTCTAAGATAATGACTAGTGT
1 TTTTGGTTAAAATAGTCTATTGATATCTTAGCTCATTCTGTTTCCTATAAGATAATGACTAGTGT
* *
1838101 CTCAAATATGCTTGGTCGCAGGTTATTTCTTCAGATT
66 CTCAAATATGCTTGATCGCAGGATATTTCTTCAGATT
1838138 TTTTGGTTAAAATAGTCTATTGATATCTTAGCTCATTCTGTTTCCTATAAGATAATGACT-GTTG
1 TTTTGGTTAAAATAGTCTATTGATATCTTAGCTCATTCTGTTTCCTATAAGATAATGACTAG-TG
* *
1838202 TCTCAAATATGTTTGATTGCAGGATATT
65 TCTCAAATATGCTTGATCGCAGGATATT
1838230 CATACTTCCT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 81 0.99
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (102 bp):
TTTTGGTTAAAATAGTCTATTGATATCTTAGCTCATTCTGTTTCCTATAAGATAATGACTAGTGT
CTCAAATATGCTTGATCGCAGGATATTTCTTCAGATT
Found at i:1842931 original size:20 final size:19
Alignment explanation
Indices: 1842906--1842976 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
1842896 ACCTTTTCCT
1842906 ATTTCACTTTTTTCTTATGA
1 ATTTCACTTTTTT-TTATGA
* *
1842926 ATTTCAATTTTTTTTA-CA
1 ATTTCACTTTTTTTTATGA
* *
1842944 CATTTTACTTTTTTTTATGT
1 -ATTTCACTTTTTTTTATGA
1842964 ATTGTCACTTTTT
1 ATT-TCACTTTTT
1842977 ACCATATTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 1 0.02
19 20 0.49
20 20 0.49
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.63
Consensus pattern (19 bp):
ATTTCACTTTTTTTTATGA
Found at i:1850528 original size:3 final size:3
Alignment explanation
Indices: 1850520--1850553 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1850510 TTTATTAAAG
1850520 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1850554 TGAGCAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Done.