Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 17 of 213
Found at i:4590870 original size:24 final size:25
Alignment explanation
Indices: 4590832--4590886 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
4590822 ATACTGACAT
* **
4590832 ATAAAATAAATTTTTAATTGTAAAA
1 ATAAATTAAATTTTTAATTAAAAAA
4590857 ATAAATTAAATTTTT-ATTAAAAAA
1 ATAAATTAAATTTTTAATTAAAAAA
4590881 ATAAAT
1 ATAAAT
4590887 ATATCTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAAATTAAATTTTTAATTAAAAAA
Found at i:4591871 original size:135 final size:135
Alignment explanation
Indices: 4591629--4591900 Score: 535
Period size: 135 Copynumber: 2.0 Consensus size: 135
4591619 GAAGAAGAAA
*
4591629 AAATCATGCATAAACTAAAAGGCACGTGGTTGATCTTGATGATGAATTGGAAAAAAAAATGGTCC
1 AAATCATGCATAAACTAAAAGGCACGTGGTTGATCTTGATGATGAATTGAAAAAAAAAATGGTCC
4591694 ACAAAATTAAATTCCTGCAGAGGAAGATAAATGTCTCTCCTATTGAATGCTTACCCGATATTAAT
66 ACAAAATTAAATTCCTGCAGAGGAAGATAAATGTCTCTCCTATTGAATGCTTACCCGATATTAAT
4591759 GCCAC
131 GCCAC
4591764 AAATCATGCATAAACTAAAAGGCACGTGGTTGATCTTGATGATGAATTGAAAAAAAAAATGGTCC
1 AAATCATGCATAAACTAAAAGGCACGTGGTTGATCTTGATGATGAATTGAAAAAAAAAATGGTCC
4591829 ACAAAATTAAATTCCTGCAGAGGAAGATAAATGTCTCTCCTATTGAATGCTTACCCGATATTAAT
66 ACAAAATTAAATTCCTGCAGAGGAAGATAAATGTCTCTCCTATTGAATGCTTACCCGATATTAAT
4591894 GCCAC
131 GCCAC
4591899 AA
1 AA
4591901 CTGTCCAACC
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (135 bp):
AAATCATGCATAAACTAAAAGGCACGTGGTTGATCTTGATGATGAATTGAAAAAAAAAATGGTCC
ACAAAATTAAATTCCTGCAGAGGAAGATAAATGTCTCTCCTATTGAATGCTTACCCGATATTAAT
GCCAC
Found at i:4595872 original size:23 final size:22
Alignment explanation
Indices: 4595833--4595881 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
4595823 ATTATTTAAC
4595833 AAAA-AACAAAAATTTAAAACTA
1 AAAATAACAAAAATTT-AAACTA
*
4595855 AAAATAACGAAAAA-TTAAATTA
1 AAAATAAC-AAAAATTTAAACTA
4595877 AAAAT
1 AAAAT
4595882 TAAAATGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 14 0.58
23 5 0.21
24 5 0.21
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAATAACAAAAATTTAAACTA
Found at i:4600638 original size:22 final size:22
Alignment explanation
Indices: 4600605--4600646 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4600595 AATAAACACC
4600605 AAAAAATAATTTTAAAAATAAA
1 AAAAAATAATTTTAAAAATAAA
*
4600627 AAAAAAGT-ATTTTGAAAATA
1 AAAAAA-TAATTTTAAAAATA
4600647 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAAAATAATTTTAAAAATAAA
Found at i:4601995 original size:18 final size:18
Alignment explanation
Indices: 4601969--4602003 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4601959 AAATAGGGTG
*
4601969 TACATCTTAACCATCCAC
1 TACACCTTAACCATCCAC
*
4601987 TACACCTTAATCATCCA
1 TACACCTTAACCATCCA
4602004 AATCGAGGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (18 bp):
TACACCTTAACCATCCAC
Found at i:4605765 original size:17 final size:17
Alignment explanation
Indices: 4605743--4605778 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4605733 TATAAAAAAA
4605743 AACATGTCATTTTCTTT
1 AACATGTCATTTTCTTT
4605760 AACATGTCATTTTCTTT
1 AACATGTCATTTTCTTT
4605777 AA
1 AA
4605779 TCGAATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (17 bp):
AACATGTCATTTTCTTT
Found at i:4606305 original size:20 final size:19
Alignment explanation
Indices: 4606261--4606306 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
4606251 TAAAAAATCA
4606261 TTATTTTTAGTAAACAAAT
1 TTATTTTTAGTAAACAAAT
*
4606280 TT-TTTTATATGTAAA-ATAT
1 TTATTTT-TA-GTAAACAAAT
4606299 TTATTTTT
1 TTATTTTT
4606307 CTGTCCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.17
19 10 0.43
20 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TTATTTTTAGTAAACAAAT
Found at i:4608507 original size:15 final size:15
Alignment explanation
Indices: 4608482--4608516 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4608472 AACTCTATTT
*
4608482 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
4608496 TAATTAATATTAAGA
1 TAATTAATATTAAGA
4608511 TAATTA
1 TAATTA
4608517 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:4618368 original size:17 final size:16
Alignment explanation
Indices: 4618346--4618395 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
4618336 TATTTTTATT
4618346 TTTATTATTTTATTTAC
1 TTTATT-TTTTATTTAC
*
4618363 TTTATTTATTACTTTAC
1 TTTATTTTTTA-TTTAC
4618380 TTTATTTTATTATTTA
1 TTTATTTT-TTATTTA
4618396 TTACTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 22 0.76
18 3 0.10
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATTTTTTATTTAC
Found at i:4618370 original size:21 final size:22
Alignment explanation
Indices: 4618346--4618390 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
4618336 TATTTTTATT
*
4618346 TTTATTATTTTA-TTTACTTTA
1 TTTATTACTTTACTTTACTTTA
*
4618367 TTTATTACTTTACTTTATTTTA
1 TTTATTACTTTACTTTACTTTA
4618389 TT
1 TT
4618391 ATTTATTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTACTTTACTTTACTTTA
Found at i:4618513 original size:22 final size:23
Alignment explanation
Indices: 4618483--4618525 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
4618473 AGCTAGAAAA
4618483 ATAGAACCAAATAGCC-CTATCC
1 ATAGAACCAAATAGCCTCTATCC
*
4618505 ATAGTACCAAATAGCCTCTAT
1 ATAGAACCAAATAGCCTCTAT
4618526 TCCAGATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (23 bp):
ATAGAACCAAATAGCCTCTATCC
Found at i:4619438 original size:10 final size:10
Alignment explanation
Indices: 4619416--4619453 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
4619406 CATCAAAAAT
4619416 ATAAATAATAA
1 ATAAAT-ATAA
4619427 ATAAATATAA
1 ATAAATATAA
4619437 ATCAAA-ATAA
1 AT-AAATATAA
4619447 ATAAATA
1 ATAAATA
4619454 AATAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 13 0.52
11 9 0.36
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAAATATAA
Found at i:4620378 original size:11 final size:11
Alignment explanation
Indices: 4620358--4620433 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 11
4620348 TTTTTATTTT
4620358 AAAA-TTTTAA
1 AAAATTTTTAA
4620368 AAAATTTTTAA
1 AAAATTTTTAA
**
4620379 AAAAAATTT--
1 AAAATTTTTAA
4620388 AAAA-TTTTAA
1 AAAATTTTTAA
**
4620398 AAAAAATTTAA
1 AAAATTTTTAA
* * *
4620409 AAAGTATGTAA
1 AAAATTTTTAA
4620420 AAAATATTTTAA
1 AAAAT-TTTTAA
4620432 AA
1 AA
4620434 TTAAAAAAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 8 0.16
11 30 0.59
12 6 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAATTTTTAA
Found at i:4620391 original size:30 final size:30
Alignment explanation
Indices: 4620355--4620411 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
4620345 CCATTTTTAT
**
4620355 TTTAAAATTTTAAAAAATTTTTAAAAAAAA
1 TTTAAAATTTTAAAAAAAATTTAAAAAAAA
4620385 TTTAAAATTTTAAAAAAAATTTAAAAA
1 TTTAAAATTTTAAAAAAAATTTAAAAA
4620412 GTATGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTAAAATTTTAAAAAAAATTTAAAAAAAA
Found at i:4620395 original size:19 final size:20
Alignment explanation
Indices: 4620368--4620410 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
4620358 AAAATTTTAA
4620368 AAAATTTTTAAAAAAAATTT
1 AAAATTTTTAAAAAAAATTT
4620388 AAAA-TTTTAAAAAAAATTT
1 AAAATTTTTAAAAAAAATTT
4620407 AAAA
1 AAAA
4620411 AGTATGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTTTTAAAAAAAATTT
Found at i:4620421 original size:30 final size:30
Alignment explanation
Indices: 4620357--4620421 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
4620347 ATTTTTATTT
** *
4620357 TAAAATTTTAAAAAATTTTTAAAAAAAATT
1 TAAAATTTTAAAAAAAATTTAAAAAAAATG
**
4620387 TAAAATTTTAAAAAAAATTTAAAAAGTATG
1 TAAAATTTTAAAAAAAATTTAAAAAAAATG
4620417 TAAAA
1 TAAAA
4620422 AATATTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
TAAAATTTTAAAAAAAATTTAAAAAAAATG
Found at i:4620444 original size:19 final size:19
Alignment explanation
Indices: 4620374--4620442 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 19
4620364 TTAAAAAATT
4620374 TTTAAAAAAAA-TTTAAAA
1 TTTAAAAAAAATTTTAAAA
*
4620392 TTTTAAAAAAAATTTAAAAA
1 -TTTAAAAAAAATTTTAAAA
*
4620412 GTATGTAAAAAATATTTTAAAA
1 -T-T-TAAAAAAAATTTTAAAA
4620434 -TTAAAAAAA
1 TTTAAAAAAA
4620443 TAAATATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 7 0.17
19 12 0.29
20 7 0.17
21 1 0.02
22 15 0.36
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TTTAAAAAAAATTTTAAAA
Found at i:4627633 original size:16 final size:15
Alignment explanation
Indices: 4627599--4627634 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
4627589 ATGTTATTTT
4627599 AAAATTAAAACAATGA
1 AAAATTAAAACAAT-A
*
4627615 AAACTTAAAACAATA
1 AAAATTAAAACAATA
4627630 AAAAT
1 AAAAT
4627635 ATTATCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATTAAAACAATA
Found at i:4639119 original size:24 final size:24
Alignment explanation
Indices: 4639092--4639144 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
4639082 ATAACTATAT
4639092 AAAAATTTCAATAAATA-AAAAATA
1 AAAAATTT-AATAAATATAAAAATA
* *
4639116 AAAAA-TTATTAAATATTAAAATA
1 AAAAATTTAATAAATATAAAAATA
4639139 AAAAAT
1 AAAAAT
4639145 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 7 0.28
23 13 0.52
24 5 0.20
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAAATTTAATAAATATAAAAATA
Found at i:4639154 original size:23 final size:23
Alignment explanation
Indices: 4639110--4639155 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4639100 CAATAAATAA
**
4639110 AAAATAAAAAATTATTAAATATT
1 AAAATAAAAAATTAAAAAATATT
4639133 AAAATAAAAAA-TAAAAATATATT
1 AAAATAAAAAATTAAAAA-ATATT
4639156 TTTAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAAAAAATTAAAAAATATT
Found at i:4643100 original size:25 final size:24
Alignment explanation
Indices: 4643083--4643130 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
4643073 AAGCTCGTAT
4643083 AAGCTGTATAACGGGAAGCTTATCC
1 AAGCTGTATAACGGGAAGCTTAT-C
**
4643108 GGGCTGTATAACGGGAAGCTTAT
1 AAGCTGTATAACGGGAAGCTTAT
4643131 AAGAGCCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (24 bp):
AAGCTGTATAACGGGAAGCTTATC
Found at i:4643202 original size:25 final size:25
Alignment explanation
Indices: 4643172--4643311 Score: 101
Period size: 25 Copynumber: 5.6 Consensus size: 25
4643162 AATAACAGGT
*
4643172 AGCTTCGAAGAGCCATTAATTGGGA
1 AGCTTCGAAGAGCCATTAATCGGGA
* * *
4643197 AGCTTCGGATAGCCA-TATATCAGGA
1 AGCTTCGAAGAGCCATTA-ATCGGGA
*
4643222 AG-TTC-AAGCGAGCCA-T-ATTGGGA
1 AGCTTCGAA--GAGCCATTAATCGGGA
* * *
4643245 AGCTCCAAAGAGCCATTAATCAGGA
1 AGCTTCGAAGAGCCATTAATCGGGA
* * **
4643270 AGCTCACAAAGAGCTTTTAATCGGGA
1 AGCT-TCGAAGAGCCATTAATCGGGA
4643296 AGCTTCGAAGAGCCAT
1 AGCTTCGAAGAGCCAT
4643312 ATATCGAAAC
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 14 0.16
24 8 0.09
25 45 0.51
26 21 0.24
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCTTCGAAGAGCCATTAATCGGGA
Found at i:4643256 original size:73 final size:73
Alignment explanation
Indices: 4643134--4643273 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
4643124 AGCTTATAAG
* * * * **
4643134 AGCCATAATCAGGAAGCTCATGCGAGCCAATAACAGGTAGCTTCGAAGAGCCATTAATTGGGAAG
1 AGCCATAATCAGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAAG
4643199 CTTCGGAT
66 CTTCGGAT
* ***
4643207 AGCCATATATCAGGAAGTTCAAGCGAGCC-ATATTGGGAAGCTCCAAAGAGCCATTAATCAGGAA
1 AGCCATA-ATCAGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAA
4643271 GCT
65 GCT
4643274 CACAAAGAGC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 37 0.66
74 19 0.34
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (73 bp):
AGCCATAATCAGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAAG
CTTCGGAT
Found at i:4643283 original size:26 final size:25
Alignment explanation
Indices: 4643131--4643311 Score: 88
Period size: 25 Copynumber: 7.4 Consensus size: 25
4643121 GGAAGCTTAT
4643131 AAGAGCCA-TAATCAGGAAGCT-CA
1 AAGAGCCATTAATCAGGAAGCTCCA
** * * * *
4643154 TGCGAGCCAATAA-CAGGTAGCTTCG
1 -AAGAGCCATTAATCAGGAAGCTCCA
** * *
4643179 AAGAGCCATTAATTGGGAAGCTTCG
1 AAGAGCCATTAATCAGGAAGCTCCA
* * *
4643204 GATAGCCA-TATATCAGGAAG-TTCA
1 AAGAGCCATTA-ATCAGGAAGCTCCA
* **
4643228 AGCGAGCCA-T-ATTGGGAAGCTCCA
1 A-AGAGCCATTAATCAGGAAGCTCCA
4643252 AAGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCAGGAAGCTC-CA
** * * *
4643278 AAGAGCTTTTAATCGGGAAGCTTCG
1 AAGAGCCATTAATCAGGAAGCTCCA
4643303 AAGAGCCAT
1 AAGAGCCAT
4643312 ATATCGAAAC
Statistics
Matches: 117, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
23 13 0.11
24 33 0.28
25 50 0.43
26 21 0.18
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
AAGAGCCATTAATCAGGAAGCTCCA
Found at i:4650746 original size:20 final size:20
Alignment explanation
Indices: 4650713--4650751 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4650703 CTCTCTCTCT
4650713 TTTTTTAATATATATGTTTTG
1 TTTTTTAATATATA-GTTTTG
*
4650734 TTTTTT-ATTTATAGTTTT
1 TTTTTTAATATATAGTTTT
4650752 TAGATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTTTAATATATAGTTTTG
Found at i:4653049 original size:12 final size:12
Alignment explanation
Indices: 4653028--4653061 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4653018 TATTTATTTT
*
4653028 AAAATTATATAA
1 AAAATAATATAA
4653040 AAAATAATATAA
1 AAAATAATATAA
*
4653052 AAATTAATAT
1 AAAATAATAT
4653062 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:4658016 original size:161 final size:160
Alignment explanation
Indices: 4657752--4658042 Score: 476
Period size: 161 Copynumber: 1.8 Consensus size: 160
4657742 TATATACGAA
* * *
4657752 ATTTTTAATTAATTAAATGTCATACTTTATTTGTTGAGTAAATTTATATGTAGAATTTGTAAATC
1 ATTTTTAATTAACTAAATGTAATACTTTATTTGTTGAATAAATTTATATGTAGAATTTGTAAATC
* *
4657817 AAGTATTGATTTATCTATCTATAAGAAAAATATTAATTTGACTTAAGTTAAAGTCTTGCCTCTAC
66 AAGTATTAATTTATCTATCTATAAGAAAAATATTAATTTGACTGAAGTTAAAGTCTTGCCTCTAC
4657882 CTCATCTTTTTTTTTTCTAGAGTGCTAATT
131 CTCATCTTTTTTTTTTCTAGAGTGCTAATT
*
4657912 ATTTTTAATTAACTAAATGTAATGCTTTTATTTTGTTGAATAAATTTATATGTAGAATTTGTAAA
1 ATTTTTAATTAACTAAATGTAATAC-TTTA-TTTGTTGAATAAATTTATATGTAGAATTTGTAAA
* * *
4657977 -CAAGTATTAATTTTTCTATCTATAAGAAAAATATTAATTTGACTGAATTTAATGTCTTGCCTCT
64 TCAAGTATTAATTTATCTATCTATAAGAAAAATATTAATTTGACTGAAGTTAAAGTCTTGCCTCT
4658041 AC
129 AC
4658043 TTTCTCTCTT
Statistics
Matches: 120, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
160 22 0.18
161 65 0.54
162 33 0.28
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (160 bp):
ATTTTTAATTAACTAAATGTAATACTTTATTTGTTGAATAAATTTATATGTAGAATTTGTAAATC
AAGTATTAATTTATCTATCTATAAGAAAAATATTAATTTGACTGAAGTTAAAGTCTTGCCTCTAC
CTCATCTTTTTTTTTTCTAGAGTGCTAATT
Found at i:4663973 original size:31 final size:31
Alignment explanation
Indices: 4663938--4663997 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
4663928 AACTTCAAAT
*
4663938 ATATATAAATCGAAATTGAAAATAA-AAAAGA
1 ATATATAAATCGAAAAT-AAAATAACAAAAGA
*
4663969 ATATATAAATTGAAAATAAAATAACAAAA
1 ATATATAAATCGAAAATAAAATAACAAAA
4663998 TTAGTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (31 bp):
ATATATAAATCGAAAATAAAATAACAAAAGA
Found at i:4664259 original size:7 final size:8
Alignment explanation
Indices: 4664240--4664307 Score: 59
Period size: 8 Copynumber: 8.6 Consensus size: 8
4664230 AATTGACTAT
4664240 TTTTTATA
1 TTTTTATA
4664248 TTTTTATA
1 TTTTTATA
4664256 TTTTT-T-
1 TTTTTATA
*
4664262 TGTTATATA
1 T-TTTTATA
*
4664271 TTTTTAGA
1 TTTTTATA
* *
4664279 TTTTAAAA
1 TTTTTATA
*
4664287 TTTTTTTA
1 TTTTTATA
*
4664295 TTTTTTTA
1 TTTTTATA
4664303 TTTTT
1 TTTTT
4664308 TAAGTTGAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
8 43 0.88
9 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:4672651 original size:31 final size:31
Alignment explanation
Indices: 4672615--4672674 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
4672605 AACTTCAAAT
*
4672615 ATATATAAATTGAAATTGAAAATAA-AAAAGA
1 ATATATAAATTGAAAAT-AAAATAACAAAAGA
4672646 ATATATAAATTGAAAATAAAATAACAAAA
1 ATATATAAATTGAAAATAAAATAACAAAA
4672675 TTAGTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (31 bp):
ATATATAAATTGAAAATAAAATAACAAAAGA
Found at i:4672707 original size:22 final size:23
Alignment explanation
Indices: 4672671--4672714 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4672661 ATAAAATAAC
4672671 AAAATTAGTTAAAAAGTCAAAAA
1 AAAATTAGTTAAAAAGTCAAAAA
* *
4672694 AAAATT-GTTTAAAATTCAAAA
1 AAAATTAGTTAAAAAGTCAAAA
4672715 TAAATAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (23 bp):
AAAATTAGTTAAAAAGTCAAAAA
Found at i:4672934 original size:24 final size:23
Alignment explanation
Indices: 4672898--4672983 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 23
4672888 TTTTATAATA
* *
4672898 TTTTTAAAATTTTGAATATTTATT
1 TTTTTATATTTTTGAAT-TTTATT
*
4672922 TTTTTATATTTTTTAATTTTATT
1 TTTTTATATTTTTGAATTTTATT
*
4672945 TGTTATATATTTTT-AGATTTTAAATT
1 T-TTTTATATTTTTGA-ATTTT--ATT
4672971 TCTTTT-TATTTTT
1 T-TTTTATATTTTT
4672984 TTAAGTTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
23 8 0.15
24 30 0.58
25 7 0.13
26 7 0.13
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (23 bp):
TTTTTATATTTTTGAATTTTATT
Found at i:4672940 original size:22 final size:24
Alignment explanation
Indices: 4672907--4672966 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
4672897 ATTTTTAAAA
* *
4672907 TTTTGAATATTTATTT-TTTTATAT
1 TTTTTAAT-TTTATTTGTTATATAT
4672931 TTTTTAATTTTATTTGTTATATA-
1 TTTTTAATTTTATTTGTTATATAT
4672954 TTTTTAGATTTTA
1 TTTTTA-ATTTTA
4672967 AATTTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTTTAATTTTATTTGTTATATAT
Found at i:4697506 original size:21 final size:23
Alignment explanation
Indices: 4697482--4697523 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4697472 TTCACCCCAG
4697482 TTTAGAT-TA-ATTAGAGTTTTA
1 TTTAGATGTACATTAGAGTTTTA
*
4697503 TTTAGATGTACTTTAGAGTTT
1 TTTAGATGTACATTAGAGTTT
4697524 AGAGTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (23 bp):
TTTAGATGTACATTAGAGTTTTA
Found at i:4703952 original size:27 final size:27
Alignment explanation
Indices: 4703913--4703966 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4703903 AAAAAGTGAT
*
4703913 AAATTCAAGTACCAATTTAGACAAAAAA
1 AAATTCAAGTACCAAATTAGA-AAAAAA
4703941 AAATT-AAGTACCAAATTAGAAAAAAA
1 AAATTCAAGTACCAAATTAGAAAAAAA
4703967 TTAAGTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.24
27 14 0.56
28 5 0.20
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.20
Consensus pattern (27 bp):
AAATTCAAGTACCAAATTAGAAAAAAA
Found at i:4704492 original size:22 final size:20
Alignment explanation
Indices: 4704453--4704493 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
4704443 TTCTTCCTTT
*
4704453 CCTTTTCCTTCATTTTCATC
1 CCTTTTCCTTCATCTTCATC
4704473 CCTTTTCTCATTCATCTTCAT
1 CCTTTTC-C-TTCATCTTCAT
4704494 TCATGCGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.12, C:0.34, G:0.00, T:0.54
Consensus pattern (20 bp):
CCTTTTCCTTCATCTTCATC
Found at i:4707411 original size:44 final size:44
Alignment explanation
Indices: 4707362--4707675 Score: 174
Period size: 44 Copynumber: 7.2 Consensus size: 44
4707352 TACTGCTTAA
*
4707362 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
* * * **
4707406 GGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 GGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGTTGCC-CAG
* * * * * * ** **
4707450 GGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
* *
4707494 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTATT-CCCAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
* * * **
4707537 GGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 GGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGTTGCC-CAG
* * **** * ** * * ** **
4707581 GGAGGTAAAATCCACCATATTTGATCTGCTCCGCTACTGCTTAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
*
4707625 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
4707669 GGAGATA
1 GGAGATA
4707676 GAATTACTGG
Statistics
Matches: 185, Mismatches: 72, Indels: 26
0.65 0.25 0.09
Matches are distributed among these distances:
40 3 0.02
41 4 0.02
42 20 0.11
43 33 0.18
44 91 0.49
45 31 0.17
47 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
Found at i:4707584 original size:263 final size:263
Alignment explanation
Indices: 4707274--4707784 Score: 907
Period size: 263 Copynumber: 1.9 Consensus size: 263
4707264 ACAACTTCAA
*
4707274 GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATATT
1 GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
4707339 TGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
* **
4707404 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATC
131 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAATCCACCATC
*
4707469 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTCC
196 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTCC
4707534 CAG
261 CAG
4707537 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATAT
1 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATAT
* *
4707601 TTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
*
4707666 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATTAGGGAGGTAAAATCCACCAT
130 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAATCCACCAT
* * *
4707731 TTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTA
195 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTA
4707785 CTTCACGCCA
Statistics
Matches: 236, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
262 3 0.01
263 233 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (263 bp):
GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
TGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAATCCACCATC
TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTCC
CAG
Found at i:4707607 original size:131 final size:132
Alignment explanation
Indices: 4707274--4707784 Score: 882
Period size: 132 Copynumber: 3.9 Consensus size: 132
4707264 ACAACTTCAA
*
4707274 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATAT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATAT
*
4707338 TTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
4707403 CAG
130 CAG
** *
4707406 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
* *
4707471 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATT-CCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
4707535 AG
131 AG
4707537 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
*
4707602 TGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
4707667 AG
131 AG
* * *
4707669 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATTAGGGAGGTAAAATCCACCATTTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
* *
4707734 TGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTA
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTA
4707785 CTTCACGCCA
Statistics
Matches: 358, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 128 0.36
132 230 0.64
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
AG
Found at i:4707814 original size:44 final size:44
Alignment explanation
Indices: 4707774--4708186 Score: 476
Period size: 44 Copynumber: 9.3 Consensus size: 44
4707764 AGATCTGTAA
* *
4707774 TCTTCGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * * * *** * *
4707818 TCTTCGATCTTCTTCGCCACCAGTATGGGAAAACAAGATCTGTTT
1 TCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTT
* *
4707863 TCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTG-TT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * *
4707906 ATCTTTGATCTACTTCACCGCCAGTATAGGAAGACAATATCTGCTAT
1 -TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCT-T
*
4707953 T-TTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* *
4707996 TCTTCGATCTTCTTCACGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * * *
4708040 TCTTCGATCTACTCCACCACCAGT--ATGGGAGACAAGATCTG-TT
1 TCTTTGATCTACTTCA-CGCCAGTACAT-GAAGACAAGATCTGCTT
* *
4708083 GTCTTTGATCTACTTCACGTCAGTACATGAAGACAAGATTTGCTT
1 -TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* *
4708128 TCTTTGATCTACTTCACGCCAATACATGAAGAGAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
4708172 TCTTTGATCCACTTC
1 TCTTTGATCTACTTC
4708187 GCTACCAATA
Statistics
Matches: 311, Mismatches: 46, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
43 13 0.04
44 217 0.70
45 78 0.25
46 2 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
Found at i:4707916 original size:89 final size:88
Alignment explanation
Indices: 4707754--4708227 Score: 463
Period size: 89 Copynumber: 5.4 Consensus size: 88
4707744 CACTACTGCT
* * ** * * *
4707754 TAGGGAGATAAGATCTGTAATCTTCGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTT
1 TAGGAAGACAAGATCTGTTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
* * *
4707819 CTTCGATCTTCTTCGCCACCAGTA
66 CTTTGATCTACTTC-CCGCCAGTA
* * *
4707843 TGGGAAAACAAGATCTGTTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTG-TTA
1 TAGGAAGACAAGATCTGTTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-
4707907 TCTTTGATCTACTTCACCGCCAGTA
65 TCTTTGATCTACTTC-CCGCCAGTA
* * * *
4707932 TAGGAAGACAATATCTGCTATT-TTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTT
1 TAGGAAGACAAGATCTG-TTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
4707996 TCTTCGATCTTCTTCACGCCAGTA
65 TCTTTGATCTACTTCCCGCCAGTA
* * * * * * * *
4708020 CATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGT--ATGGGAGACAAGATCTG-T
1 TAGGAAGACAAGATCTGTTTTCTTTGATCTACTTCA-CGCCAATACAT-GAAGACAAGATCTGCT
* *
4708082 TGTCTTTGATCTACTTCACGTCAGTA
64 T-TCTTTGATCTACTTCCCGCCAGTA
* * * * *
4708108 CATGAAGACAAGATTTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGAGAAGATCTGCTTT
1 TAGGAAGACAAGATCTGTTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
* ** *
4708173 CTTTGATCCACTTCGCTACCAATA
66 CTTTGATCTACTTC-CCGCCAGTA
* * *
4708197 TAGGAAGACAATATCTGTTATCTTTAATCTA
1 TAGGAAGACAAGATCTGTTTTCTTTGATCTA
4708228 TTCCACTGCT
Statistics
Matches: 317, Mismatches: 57, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
87 11 0.03
88 129 0.41
89 172 0.54
90 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (88 bp):
TAGGAAGACAAGATCTGTTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
CTTTGATCTACTTCCCGCCAGTA
Found at i:4708127 original size:132 final size:133
Alignment explanation
Indices: 4707774--4708227 Score: 540
Period size: 133 Copynumber: 3.4 Consensus size: 133
4707764 AGATCTGTAA
* * * * * * * *
4707774 TCTTCGATCTACTTCA-CGCCAGTACATGAAGACAATATCTGCTT-TCTTCGATCTTCTTCGCCA
1 TCTTTGATCTACTTCACCACCAGTATAGGAAGACAATATCTG-TTATCTTTGATCTACTTC-ACG
* *** * * *
4707837 CCAGTATGGGAAAACAAGATCTGTTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATC
64 CTAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATC
4707902 TG-TT
129 TGCTT
* * *
4707906 ATCTTTGATCTACTTCACCGCCAGTATAGGAAGACAATATCTGCTATTTTTGATCTACTTCACGC
1 -TCTTTGATCTACTTCACCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTACTTCACGC
* * *
4707971 TAGTACATGAAGACAAGATCTGCTTTCTTCGATCTTCTTCACGCCAGTACATGAAGACAAGATCT
65 TAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
4708036 GCTT
130 GCTT
* * * * *
4708040 TCTTCGATCTACTCCACCACCAGTAT-GGGAGACAAGATCTGTTGTCTTTGATCTACTTCACG-T
1 TCTTTGATCTACTTCACCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTACTTCACGCT
* *
4708103 CAGTACATGAAGACAAGATTTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGAGAAGATCT
66 -AGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
4708168 GCTT
130 GCTT
* * * * *
4708172 TCTTTGATCCACTTCGCTACCAATATAGGAAGACAATATCTGTTATCTTTAATCTA
1 TCTTTGATCTACTTCACCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTA
4708228 TTCCACTGCT
Statistics
Matches: 274, Mismatches: 42, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
131 1 0.00
132 114 0.42
133 122 0.45
134 37 0.14
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (133 bp):
TCTTTGATCTACTTCACCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTACTTCACGCT
AGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
CTT
Found at i:4708662 original size:43 final size:43
Alignment explanation
Indices: 4708614--4708806 Score: 115
Period size: 44 Copynumber: 4.4 Consensus size: 43
4708604 GATCTGAAAT
* *
4708614 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTACCCAGGGAAGTAGAATTACTGG
* * * ***
4708657 CTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCAT
1 CTTCAATCTACTCCACTGCT-ACC-CAGGGAAGTAGAATT-ACTGG
* ** * * * ** * *
4708702 TTTTGATCTGCTCCACTACTGCTTAGGG-AG-ACAA-TATCTGAAAT
1 CTTCAATCTACTCCACTGCTACCCAGGGAAGTAGAATTA-CTG---G
*
4708746 CTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTACCCAGGGAAGTAGAATTACTGG
*
4708789 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
4708807 TAACCACGGA
Statistics
Matches: 105, Mismatches: 34, Indels: 22
0.65 0.21 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 4 0.04
43 35 0.33
44 37 0.35
45 17 0.16
46 7 0.07
47 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTACCCAGGGAAGTAGAATTACTGG
Found at i:4708927 original size:132 final size:132
Alignment explanation
Indices: 4708197--4708883 Score: 1153
Period size: 132 Copynumber: 5.2 Consensus size: 132
4708187 GCTACCAATA
* * ** * *
4708197 TAGGAAGACAATATCTGTTATCTTTAATCTATTCCACTGCTGCCCAGGG-AGATAGAATTATTGG
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGG
* * *
4708261 TTTCAATATACTCCACTGTAATCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
65 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
4708326 GCT
130 GCT
*
4708329 TAGGGGGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
4708394 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
4708459 CT
131 CT
* *
4708461 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
* *
4708526 TTCAATGTACTCCACTGTAACTACAGGGAGGTAAAATTCACCATCTTTGATCTGCTTCACTACTG
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
4708591 CT
131 CT
* *
4708593 TGGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
*
4708658 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATTTTTGATCTGCTCCACTACTG
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
4708723 CT
131 CT
* *
4708725 TAGGGAGACAATATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
*
4708790 TTCAATGTACTCCACTGTAACCAC-GGAGAGATAAAATTCACCATCTTTGATCTGCTCCACTACT
66 TTCAATGTACTCCACTGTAACCACAGG-GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
4708854 GCT
130 GCT
*
4708857 TAGGGAGACAATATCTGAAATCTTCAA
1 TAGGGAGACAAGATCTGAAATCTTCAA
4708884 CCTGCTCTAC
Statistics
Matches: 525, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 2 0.00
132 521 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
CT
Found at i:4710211 original size:7 final size:7
Alignment explanation
Indices: 4710195--4710234 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
4710185 AGCCTCTCTA
4710195 TTTT-AT
1 TTTTCAT
4710201 TTTTCAT
1 TTTTCAT
4710208 TTTTCAT
1 TTTTCAT
4710215 TTTTCA-
1 TTTTCAT
4710221 TTTTCAT
1 TTTTCAT
4710228 TTTTCAT
1 TTTTCAT
4710235 CTCGTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:4710217 original size:13 final size:13
Alignment explanation
Indices: 4710194--4710234 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
4710184 TAGCCTCTCT
4710194 ATTTT-ATTTTTC
1 ATTTTCATTTTTC
4710206 ATTTTTCATTTTTC
1 A-TTTTCATTTTTC
4710220 ATTTTCATTTTTC
1 ATTTTCATTTTTC
4710233 AT
1 AT
4710235 CTCGTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.67
14 8 0.30
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTCATTTTTC
Found at i:4713542 original size:16 final size:16
Alignment explanation
Indices: 4713521--4713551 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4713511 TTCTATAATG
4713521 AAATGCCATGCAGTCT
1 AAATGCCATGCAGTCT
4713537 AAATGCCATGCAGTC
1 AAATGCCATGCAGTC
4713552 AAAGTGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCT
Found at i:4722793 original size:19 final size:18
Alignment explanation
Indices: 4722769--4722814 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
4722759 TAAAAATTCA
*
4722769 AAAAATATTAAATTATTTT
1 AAAAATATTAAAAT-TTTT
4722788 AAAAATTATTAAAATTTTT
1 AAAAA-TATTAAAATTTTT
4722807 AAAAATAT
1 AAAAATAT
4722815 ATAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 14 0.56
20 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATATTAAAATTTTT
Found at i:4722797 original size:20 final size:19
Alignment explanation
Indices: 4722768--4722812 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
4722758 TTAAAAATTC
* *
4722768 AAAAAATATTAAATTATTTT
1 AAAAATTATTAAAAT-TTTT
4722788 AAAAATTATTAAAATTTTT
1 AAAAATTATTAAAATTTTT
4722807 AAAAAT
1 AAAAAT
4722813 ATATAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTATTAAAATTTTT
Found at i:4723350 original size:16 final size:16
Alignment explanation
Indices: 4723329--4723359 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4723319 AGAGATCAAG
*
4723329 AATTTTCAATTTAAAA
1 AATTTTAAATTTAAAA
4723345 AATTTTAAATTTAAA
1 AATTTTAAATTTAAA
4723360 TCATAACAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTTAAATTTAAAA
Found at i:4725359 original size:17 final size:17
Alignment explanation
Indices: 4725337--4725391 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
4725327 AGGTTTTTTT
4725337 AAATATTTTATTTATAA
1 AAATATTTTATTTATAA
*
4725354 AAATATTATT-TTAATAA
1 AAATATT-TTATTTATAA
*
4725371 ATAA-ATTTTATGTTAGAA
1 A-AATATTTTAT-TTATAA
4725389 AAA
1 AAA
4725392 AGAGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 2 0.06
17 20 0.65
18 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
AAATATTTTATTTATAA
Found at i:4727084 original size:23 final size:25
Alignment explanation
Indices: 4727042--4727119 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 25
4727032 AAAATATTTT
4727042 ATTTTTACAGAAAATGATAATTATGTA
1 ATTTTTA-A-AAAATGATAATTATGTA
* * ** *
4727069 ATTTTT-TAAACT-ATAAAAATAT-
1 ATTTTTAAAAAATGATAATTATGTA
4727091 ATTTTTAAAAAATGATAATTATGTA
1 ATTTTTAAAAAATGATAATTATGTA
4727116 ATTT
1 ATTT
4727120 CATCCTAGCA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 6 0.16
23 11 0.29
24 11 0.29
25 4 0.11
27 6 0.16
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (25 bp):
ATTTTTAAAAAATGATAATTATGTA
Found at i:4732535 original size:20 final size:19
Alignment explanation
Indices: 4732510--4732549 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
4732500 TAAAATTAAA
4732510 AAAAATTATTAAATTATTTT
1 AAAAATTATTAAATT-TTTT
4732530 AAAAATTATTAAATTTTTT
1 AAAAATTATTAAATTTTTT
4732549 A
1 A
4732550 GAATATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAAATTATTAAATTTTTT
Found at i:4739938 original size:26 final size:25
Alignment explanation
Indices: 4739909--4739969 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 25
4739899 TTTTTTCTTA
*
4739909 AGAAATTACAGTATTAAATTTTATTT
1 AGAAATTACAGTATTAAATTAT-TTT
4739935 AGAAA-TA-A-TA--AAATTATTTT
1 AGAAATTACAGTATTAAATTATTTT
4739955 AGAAATTACAGTATT
1 AGAAATTACAGTATT
4739970 GTAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
20 8 0.28
21 8 0.28
22 1 0.03
23 4 0.14
24 1 0.03
25 2 0.07
26 5 0.17
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (25 bp):
AGAAATTACAGTATTAAATTATTTT
Found at i:4743502 original size:11 final size:10
Alignment explanation
Indices: 4743466--4743501 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
4743456 AAATTTTAGG
4743466 GAAAAAAAAA
1 GAAAAAAAAA
*
4743476 GAAAAGAAAA
1 GAAAAAAAAA
4743486 GAAAATAAAAA
1 GAAAA-AAAAA
4743497 GAAAA
1 GAAAA
4743502 TTATATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:4744696 original size:22 final size:22
Alignment explanation
Indices: 4744671--4744712 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4744661 TTAAAAGAGA
4744671 CATAATTATGCAACTAATATCT
1 CATAATTATGCAACTAATATCT
* *
4744693 CATAATTATTCAAGTAATAT
1 CATAATTATGCAACTAATAT
4744713 TACTTGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (22 bp):
CATAATTATGCAACTAATATCT
Found at i:4748129 original size:21 final size:21
Alignment explanation
Indices: 4748103--4748143 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4748093 AGATGAGCAA
* *
4748103 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4748124 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4748144 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4750082 original size:16 final size:16
Alignment explanation
Indices: 4750049--4750082 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4750039 GGAGATTGTT
* *
4750049 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
4750065 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
4750081 AA
1 AA
4750083 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:4753522 original size:20 final size:20
Alignment explanation
Indices: 4753497--4753540 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
4753487 AAATATCGTA
4753497 ATTCCCAAACAATTGAATTT
1 ATTCCCAAACAATTGAATTT
4753517 ATTCCCAAACAATTGAATTT
1 ATTCCCAAACAATTGAATTT
4753537 ATTC
1 ATTC
4753541 TAAGTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTCCCAAACAATTGAATTT
Found at i:4753928 original size:9 final size:9
Alignment explanation
Indices: 4753903--4753945 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
4753893 AATAAATTTT
4753903 AATTAATT-
1 AATTAATTA
4753911 AATTAATTA
1 AATTAATTA
*
4753920 AATTCATTA
1 AATTAATTA
*
4753929 AATTAAATA
1 AATTAATTA
*
4753938 AATAAATT
1 AATTAATT
4753946 TCTCAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAATTA
Found at i:4756218 original size:25 final size:25
Alignment explanation
Indices: 4756181--4756239 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
4756171 CGTCTCTCTT
* *
4756181 GAGCTTCCCGATATTTGGCTCGCAA
1 GAGCTTCCCGATATATAGCTCGCAA
** * *
4756206 GAGCTTCTTGATATATAGCTCGTAT
1 GAGCTTCCCGATATATAGCTCGCAA
4756231 GAGCTTCCC
1 GAGCTTCCC
4756240 AATTAATAGC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATATATAGCTCGCAA
Found at i:4759722 original size:52 final size:52
Alignment explanation
Indices: 4759641--4759746 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
4759631 TTAAAGAAAT
4759641 AGATCTCATGCATAATTGTTGATGCACATTATATTTATGTTATTACAATTTA
1 AGATCTCATGCATAATTGTTGATGCACATTATATTTATGTTATTACAATTTA
* *
4759693 AGATCTCATGCATAATTGTTGATGGACATTATATTTATTTTATTACAATTTA
1 AGATCTCATGCATAATTGTTGATGCACATTATATTTATGTTATTACAATTTA
4759745 AG
1 AG
4759747 TATTTGTAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (52 bp):
AGATCTCATGCATAATTGTTGATGCACATTATATTTATGTTATTACAATTTA
Found at i:4761051 original size:22 final size:22
Alignment explanation
Indices: 4761020--4761063 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4761010 TACAGCAGAA
* *
4761020 TAGGTTTTTAGCGGCGTTTTTT
1 TAGGTCTTTAGCGGCGCTTTTT
4761042 TAGGTCTTTAGCGGCGCTTTTT
1 TAGGTCTTTAGCGGCGCTTTTT
4761064 AACGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.50
Consensus pattern (22 bp):
TAGGTCTTTAGCGGCGCTTTTT
Found at i:4761306 original size:82 final size:84
Alignment explanation
Indices: 4761151--4761315 Score: 246
Period size: 82 Copynumber: 2.0 Consensus size: 84
4761141 CGGCGCTTAC
* * *
4761151 ATAAAAAAACGCCGCTAAAGATCATGTTCTTTTGTGGCACTTAGAAAAAAACGCCGCTAAAGATC
1 ATAAAAAAACACCCCTAAAGATCATGTTCTTTAGTGGCACTTAGAAAAAAACGCCGCTAAAGATC
4761216 ATGCTCTTTAGCGGCGCTG
66 ATGCTCTTTAGCGGCGCTG
* *
4761235 ATAAAAAAACACCCCTAAAGATCATGTTCTTTAGCT-GCGCTT-G-AAAAAACGTCGCTAAAGAT
1 ATAAAAAAACACCCCTAAAGATCATGTTCTTTAG-TGGCACTTAGAAAAAAACGCCGCTAAAGAT
*
4761297 CATGTTCTTTAGCGGCGCT
65 CATGCTCTTTAGCGGCGCT
4761316 TTGGAAGAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
82 36 0.49
83 1 0.01
84 36 0.49
85 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (84 bp):
ATAAAAAAACACCCCTAAAGATCATGTTCTTTAGTGGCACTTAGAAAAAAACGCCGCTAAAGATC
ATGCTCTTTAGCGGCGCTG
Found at i:4761378 original size:125 final size:124
Alignment explanation
Indices: 4761154--4761401 Score: 295
Period size: 125 Copynumber: 2.0 Consensus size: 124
4761144 CGCTTACATA
* * *
4761154 AAAAAACGCCGCTAAAGATCATGTTCTTTTGTGGCACTTAGAAAAAAACGCCGCTAAAGATCATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCTAAAGATAATG
* *
4761219 CTCTTTAGCGGCGCTGATAAAAAAACACCCCT-AAAGATCA-TGTTCTTTAGCTGCGCTTG
66 CTCTATAGCGGCGCTGATAAAAAAACACCCCTAAAAG-T-AGTGTTCTTTAGCGGCGCTTG
* * * * * *
4761278 AAAAAACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGAAGAAAGCGCCTCTAAA-AGTAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCAC-TTAGAAAAAAACGCCGCTAAAGA-TAA
* * * * *
4761342 TGTTCTATAGCGGCGCTTATTAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTT
64 TGCTCTATAGCGGCGCTGATAAAAAAACACCCCTAAAAGTAGTGTTCTTTAGCGGCGCTT
4761402 ATTTCACAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
124 35 0.34
125 65 0.62
126 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (124 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCTAAAGATAATG
CTCTATAGCGGCGCTGATAAAAAAACACCCCTAAAAGTAGTGTTCTTTAGCGGCGCTTG
Found at i:4761404 original size:42 final size:42
Alignment explanation
Indices: 4761135--4761403 Score: 271
Period size: 42 Copynumber: 6.4 Consensus size: 42
4761125 ACGTCACTAA
*
4761135 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--ATAAAAAAACGCCGCTAAAGATCATGTT
* * * * *
4761179 CTTTTGTGGCACTTAGAAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTT
* * *
4761221 CTTTAGCGGCGCTGATAAAAAAACACCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTT
* * *
4761263 CTTTAGCTGCGC-T-TGAAAAAACGTCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTT
* * * *
4761303 CTTTAGCGGCGCTT-TGGAAGAAAGCGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAT--AAAAAAACGCCGCTAAAGA-TCATGTT
* *
4761346 CTATAGCGGCGCTTATTAAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGA-TCA-TGTT
4761388 CTTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
4761404 TTCACAAACG
Statistics
Matches: 188, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
40 34 0.18
41 3 0.02
42 107 0.57
43 31 0.16
44 13 0.07
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTT
Found at i:4761861 original size:21 final size:21
Alignment explanation
Indices: 4761835--4761924 Score: 94
Period size: 21 Copynumber: 4.3 Consensus size: 21
4761825 GCTTCTATTG
*
4761835 CTGCTTCTCTCGCTGCGATCT
1 CTGCTTCTCTCGCTGCGACCT
*
4761856 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCGACCT
* * *
4761877 CTGCTTCTCTCGTTG-TAGCCA
1 CTGCTTCTCTCGCTGCGA-CCT
*
4761898 CTGCTTCCCTCGCTGCCG-CCT
1 CTGCTTCTCTCGCTG-CGACCT
4761919 CTGCTT
1 CTGCTT
4761925 TAAGTTGCTG
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.03, C:0.41, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCGACCT
Found at i:4767446 original size:9 final size:9
Alignment explanation
Indices: 4767432--4768620 Score: 749
Period size: 9 Copynumber: 131.9 Consensus size: 9
4767422 TTTTTATGTA
4767432 TTATGTAAG
1 TTATGTAAG
4767441 TTATGTAAG
1 TTATGTAAG
*
4767450 TTCTGT-A-
1 TTATGTAAG
4767457 TTATGT-A-
1 TTATGTAAG
*
4767464 TTATGTATG
1 TTATGTAAG
**
4767473 CCCCATGTAAG
1 --TTATGTAAG
* *
4767484 TAATGTAAA
1 TTATGTAAG
* *
4767493 CTATGCAAG
1 TTATGTAAG
*
4767502 TAATGTAAG
1 TTATGTAAG
* * *
4767511 ATATTTAAT
1 TTATGTAAG
4767520 TTATGTAAG
1 TTATGTAAG
4767529 TTATGTAAG
1 TTATGTAAG
* * *
4767538 ATATTTAAT
1 TTATGTAAG
*
4767547 TTATGTAAA
1 TTATGTAAG
4767556 TTATGTAAG
1 TTATGTAAG
* * *
4767565 ATATTTAAT
1 TTATGTAAG
4767574 TTATGTAAG
1 TTATGTAAG
*
4767583 TTATGCAAG
1 TTATGTAAG
* *
4767592 TTATTTAAT
1 TTATGTAAG
*
4767601 TTACT-TAAT
1 TTA-TGTAAG
4767610 TTATGTAAG
1 TTATGTAAG
4767619 TTATGTAAG
1 TTATGTAAG
* * *
4767628 ATATTATAAT
1 TTA-TGTAAG
4767638 TTATGTAAG
1 TTATGTAAG
*
4767647 TTATGCAAG
1 TTATGTAAG
* *
4767656 TTATTTAAT
1 TTATGTAAG
*
4767665 TTACT-TAAT
1 TTA-TGTAAG
4767674 TTATGTAAG
1 TTATGTAAG
*
4767683 TAATGTAAG
1 TTATGTAAG
* * *
4767692 ATATTATAAT
1 TTA-TGTAAG
4767702 TTATGTAAG
1 TTATGTAAG
4767711 TTATGTAAG
1 TTATGTAAG
* *
4767720 ATACT-TAAT
1 TTA-TGTAAG
4767729 TTATGTAAG
1 TTATGTAAG
* *
4767738 TTATTTAAT
1 TTATGTAAG
*
4767747 TTACT-TAAT
1 TTA-TGTAAG
4767756 TTATGTAAG
1 TTATGTAAG
4767765 TTATGTAAG
1 TTATGTAAG
* * *
4767774 ATATTTAAT
1 TTATGTAAG
*
4767783 TTACT-TAAT
1 TTA-TGTAAG
4767792 TTATGTAAG
1 TTATGTAAG
4767801 TTATGTAAG
1 TTATGTAAG
* *
4767810 TTATTTAAT
1 TTATGTAAG
*
4767819 TTACT-TAAT
1 TTA-TGTAAG
*
4767828 TTATATAAG
1 TTATGTAAG
4767837 TTATGTAAG
1 TTATGTAAG
* * *
4767846 ATATTTAAT
1 TTATGTAAG
*
4767855 TTATGTAAA
1 TTATGTAAG
4767864 TTATGTAAG
1 TTATGTAAG
* * *
4767873 ATATTTAAT
1 TTATGTAAG
4767882 TTATGTAAG
1 TTATGTAAG
*
4767891 TTATGCAAG
1 TTATGTAAG
* *
4767900 TTATTTAAT
1 TTATGTAAG
*
4767909 TTACT-TAAT
1 TTA-TGTAAG
4767918 TTATGTAAG
1 TTATGTAAG
4767927 TTATGTAAG
1 TTATGTAAG
* * *
4767936 ATATTATAAT
1 TTA-TGTAAG
4767946 TTATGTAAG
1 TTATGTAAG
4767955 TTATGTAAG
1 TTATGTAAG
* *
4767964 ATACT-TAAT
1 TTA-TGTAAG
4767973 TTATGTAAG
1 TTATGTAAG
* *
4767982 TTATTTAAT
1 TTATGTAAG
*
4767991 TTACT-TAAT
1 TTA-TGTAAG
4768000 TTATGTAAG
1 TTATGTAAG
4768009 TTATGTAAG
1 TTATGTAAG
* * *
4768018 ATATTTAAT
1 TTATGTAAG
4768027 TTATGTAAG
1 TTATGTAAG
* *
4768036 TTATTTAAT
1 TTATGTAAG
*
4768045 TTACT-TAAT
1 TTA-TGTAAG
4768054 TTATGTAAG
1 TTATGTAAG
* *
4768063 TTATTTAAT
1 TTATGTAAG
*
4768072 TTACT-TAAT
1 TTA-TGTAAG
4768081 TTATGTAAG
1 TTATGTAAG
*
4768090 TTGTGTAAG
1 TTATGTAAG
* *
4768099 TTATTTAAT
1 TTATGTAAG
4768108 TTATGTAAG
1 TTATGTAAG
* *
4768117 TTATTTAAT
1 TTATGTAAG
*
4768126 TTACT-TAAT
1 TTA-TGTAAG
4768135 TTATGTAAG
1 TTATGTAAG
* *
4768144 TTATTTAAT
1 TTATGTAAG
*
4768153 TTACT-TAAT
1 TTA-TGTAAG
4768162 TTATGTAAG
1 TTATGTAAG
4768171 TTATGTAAG
1 TTATGTAAG
* *
4768180 TTATTTAAT
1 TTATGTAAG
*
4768189 TTACT-TAAT
1 TTA-TGTAAG
4768198 TTATGTAAG
1 TTATGTAAG
4768207 TTATGTAAG
1 TTATGTAAG
* * *
4768216 ATATTTAAT
1 TTATGTAAG
*
4768225 TTATGTAAA
1 TTATGTAAG
4768234 TTATGTAAG
1 TTATGTAAG
* *
4768243 ATATTTAA-
1 TTATGTAAG
4768251 TTCATGTAAG
1 TT-ATGTAAG
*
4768261 TTATGCAAG
1 TTATGTAAG
* *
4768270 TTATTTAAT
1 TTATGTAAG
*
4768279 TTACT-TAAT
1 TTA-TGTAAG
4768288 TTATGTAAG
1 TTATGTAAG
4768297 TTATGTAAG
1 TTATGTAAG
* * *
4768306 ATATTATAAT
1 TTA-TGTAAG
4768316 TTATGTAAG
1 TTATGTAAG
4768325 TTATGTAAG
1 TTATGTAAG
* *
4768334 ATACT-TAAT
1 TTA-TGTAAG
4768343 TTATGTAAG
1 TTATGTAAG
* *
4768352 TTATTTAAT
1 TTATGTAAG
*
4768361 TTACT-TAAT
1 TTA-TGTAAG
4768370 TTATGTAAG
1 TTATGTAAG
4768379 TTATGTAAG
1 TTATGTAAG
* *
4768388 TTATTTAAT
1 TTATGTAAG
*
4768397 TTACT-TAAT
1 TTA-TGTAAG
4768406 TTATGTAAG
1 TTATGTAAG
*
4768415 TTGTGTAAG
1 TTATGTAAG
* * *
4768424 ATATTTAAT
1 TTATGTAAG
4768433 TTATGTAAG
1 TTATGTAAG
4768442 TTATGTAAG
1 TTATGTAAG
* * *
4768451 ATATTTAAT
1 TTATGTAAG
4768460 TTATGTAAG
1 TTATGTAAG
*
4768469 TTATATAAG
1 TTATGTAAG
* *
4768478 TTATTTAAT
1 TTATGTAAG
*
4768487 TTACT-TAAT
1 TTA-TGTAAG
4768496 TTATGTAAG
1 TTATGTAAG
*
4768505 TTATTTAA-
1 TTATGTAAG
*
4768513 TTAACT-TAAT
1 TT-A-TGTAAG
4768523 TTATGTAAG
1 TTATGTAAG
* *
4768532 TTGTGCAAG
1 TTATGTAAG
* * *
4768541 ATATTTAAT
1 TTATGTAAG
4768550 TTATGTAAG
1 TTATGTAAG
*
4768559 TTATGTAAA
1 TTATGTAAG
*
4768568 TTACT-TAAT
1 TTA-TGTAAG
4768577 TTATGTAAG
1 TTATGTAAG
4768586 TTATGTAAG
1 TTATGTAAG
* *
4768595 TTATTTAAT
1 TTATGTAAG
*
4768604 TTTTGTAAG
1 TTATGTAAG
4768613 TTATGTAA
1 TTATGTAA
4768621 TTAGCCAAAT
Statistics
Matches: 921, Mismatches: 205, Indels: 108
0.75 0.17 0.09
Matches are distributed among these distances:
7 12 0.01
8 25 0.03
9 829 0.90
10 49 0.05
11 6 0.01
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:4768483 original size:54 final size:54
Alignment explanation
Indices: 4767647--4768620 Score: 860
Period size: 54 Copynumber: 17.3 Consensus size: 54
4767637 TTTATGTAAG
* * * *
4767647 TTATGCAAGTTATTTAATTTACTTAATTTATGTAAGTAATGTAAGATATTATAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATT-TAAT
* * ** *
4767702 TTATGTAAGTTATGTAAGATACTTAATTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* * * * * *
4767756 TTATGTAAGTTATGTAAGATATTTAATTTACT-TAATTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTACTTAATTTA-TGTAAGTTATGTAAGATATTTAAT
* * * * * * ** * *
4767810 TTATTTAATTTACT-TAATTTA-TATAAGTTATGTAAGATATTTAATTTATGTAAA
1 TTATGTAAGTTA-TGTAAGTTACT-TAATTTATGTAAGTTATGTAAGATATTTAAT
* * * * * * ** *
4767864 TTATGTAAGATATTTAATTTA-TGTAAGTTATGCAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTAAGATATTTAAT
* * *
4767918 TTATGTAAGTTATGTAAGATATTATAATTTATGTAAGTTATGTAAGATACTTAAT
1 TTATGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTAAGATATTTAAT
* *
4767973 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* * * ** *
4768027 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* * * ** *
4768081 TTATGTAAGTTGTGTAAGTTATTTAATTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* *
4768135 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAG--A--T-A--T--TTAAT
* * *
4768198 TTATGTAAGTTATGTAAGATATTTAATTTATGTAAATTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* *
4768252 TCATGTAAGTTATGCAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTATAAT
1 TTATGTAAGTTAT----G-----TAAGTTACTTAATTTATGTAAGTTATGTAAGATATT-TAAT
* * ** *
4768316 TTATGTAAGTTATGTAAGATACTTAATTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
*
4768370 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTGTGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAG---------TTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* * *
4768433 TTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATATAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAG--A--T-A--T--TTAAT
* * *
4768496 TTATGTAAGTTATTTAA-TTAACTTAATTTATGTAAGTTGTGCAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTT-ACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* *
4768550 TTATGTAAGTTATGTAAATTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
*
4768604 TTTTGTAAGTTATGTAA
1 TTATGTAAGTTATGTAA
4768621 TTAGCCAAAT
Statistics
Matches: 770, Mismatches: 104, Indels: 91
0.80 0.11 0.09
Matches are distributed among these distances:
53 3 0.00
54 446 0.58
55 121 0.16
56 3 0.00
58 5 0.01
59 4 0.01
60 1 0.00
61 3 0.00
62 1 0.00
63 167 0.22
64 16 0.02
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (54 bp):
TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
Found at i:4768814 original size:18 final size:18
Alignment explanation
Indices: 4768780--4768834 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
4768770 AATTGTATGA
*
4768780 AATAAAAATTA-ATAATTT
1 AATAGAAATTATA-AATTT
4768798 AATAGGAAA-TATAAATTT
1 AATA-GAAATTATAAATTT
* *
4768816 TATATAAATTATAAATTT
1 AATAGAAATTATAAATTT
4768834 A
1 A
4768835 GAACAGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 23 0.77
19 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AATAGAAATTATAAATTT
Found at i:4771986 original size:21 final size:20
Alignment explanation
Indices: 4771956--4771994 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4771946 AACACATATT
*
4771956 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
4771976 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
4771995 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:4772048 original size:17 final size:17
Alignment explanation
Indices: 4772026--4772075 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
4772016 AAACATTTTC
4772026 CGGCGCTTATCAAAAAG
1 CGGCGCTTATCAAAAAG
4772043 CGGCGCTTATCAAAAAG
1 CGGCGCTTATCAAAAAG
*
4772060 TGGCGCTTATCAAAAA
1 CGGCGCTTATCAAAAA
4772076 CATATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (17 bp):
CGGCGCTTATCAAAAAG
Found at i:4772141 original size:17 final size:17
Alignment explanation
Indices: 4772119--4772159 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
4772109 ATACATTTTC
4772119 CGGCGCTTATCAAAAAG
1 CGGCGCTTATCAAAAAG
4772136 CGGCGCTTATCAAAAAG
1 CGGCGCTTATCAAAAAG
*
4772153 CGCCGCT
1 CGGCGCT
4772160 AATACCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (17 bp):
CGGCGCTTATCAAAAAG
Found at i:4775025 original size:29 final size:30
Alignment explanation
Indices: 4774960--4775025 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
4774950 GTAATTGTAT
*
4774960 TTTTTATTTTATAATTTTCATATGTAATTA
1 TTTTTATTTTATAATTATCATATGTAATTA
*
4774990 TTATTATTTTA-AA-TAT-ATATGTATATTTA
1 TTTTTATTTTATAATTATCATATGTA-A-TTA
4775019 TTTTTAT
1 TTTTTAT
4775026 GTACGTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 7 0.23
28 3 0.10
29 11 0.35
30 10 0.32
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTTTATTTTATAATTATCATATGTAATTA
Found at i:4787395 original size:217 final size:217
Alignment explanation
Indices: 4787020--4787562 Score: 852
Period size: 217 Copynumber: 2.5 Consensus size: 217
4787010 CAGATCAGTG
* * *
4787020 AAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGTCGATAATCCTATCTAC
1 AAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCC
* * * * * *
4787085 CAGAAGTTGCAGTAGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
66 CTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCCGAAGTTGCAAAGAGCACAT
4787150 CGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGAATAAATAAGCAAGTCTTATCCTCCT
131 CGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGAATAAATAAGCAAGTCTTATCCTCCT
4787215 GAAGTTGCAGTGAGGCAGACTA
196 GAAGTTGCAGTGAGGCAGACTA
* * *
4787237 AAGATGGCAAATCTTATCTTCCTGAAGTTGCAGTGCAGCAGATTAGAGCCGATAATCCTATCTCC
1 AAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCC
* *
4787302 CTGAAGTTACATTGGAGCGGATTAAAACCTTAGATCTTATCTCTCCGAAGTTGCAAAGAGCACAT
66 CTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCCGAAGTTGCAAAGAGCACAT
* * *
4787367 CGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCT
131 CGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGAATAAATAAGCAAGTCTTATCCTCCT
* *
4787432 GAAGTTGCAGTGGGGCAGACTG
196 GAAGTTGCAGTGAGGCAGACTA
* * * * *
4787454 AAGATGACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAACAATCCTATCTCC
1 AAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCC
* *
4787519 CTGAAGTTGCAGTGGAGCAGATTAAAACTTTAGATCTTATCTCT
66 CTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
4787563 ATGAATATAA
Statistics
Matches: 296, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
217 296 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
AAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCC
CTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCCGAAGTTGCAAAGAGCACAT
CGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGAATAAATAAGCAAGTCTTATCCTCCT
GAAGTTGCAGTGAGGCAGACTA
Found at i:4787489 original size:89 final size:89
Alignment explanation
Indices: 4787018--4787539 Score: 257
Period size: 89 Copynumber: 6.0 Consensus size: 89
4787008 AACAGATCAG
* * * * * * *
4787018 TGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGTCGATAATCCTATCT
1 TGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAACAATCCTATCT
* * * *
4787083 ACCAGAAGTTGCAGTAGAGCGGA-
66 CCCTGAAGTTGCAGTGGAGCAGAC
* * *** * * * * * *
4787106 TTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CG-CATCTAGT-CTCAT
1 TGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAAC-AATCCT-AT
*
4787165 CTCCCTGAAGTTGCAGTGGAGCAGAA
64 CTCCCTGAAGTTGCAGTGGAGCAGAC
* * **** *
4787191 T-AA-ATAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCAAATCTT
1 TGAAGATGA-CAAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGCCAAC-AATCCT
* *
4787252 ATCTTCCTGAAGTTGCAGTGCAGCAGA-
62 ATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * * * * * * * *
4787279 T-TAGA-GCCGATAATCCTATCTCCCTGAAGTTACATTGGAGCGGATTAAAACCTTA-GATCTTA
1 TGAAGATGAC-A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCC-AACAATCCTA
** *
4787341 TCTCTCC-GAAGTTGCA-AAGAGCACA-
63 TCTC-CCTGAAGTTGCAGTGGAGCAGAC
* * * * *
4787366 TCG--CAT--CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAGTCTTA
1 T-GAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAA-CAA-TCCTA
*
4787425 TC-CTCCTGAAGTTGCAGTGGGGCAGAC
63 TCTC-CCTGAAGTTGCAGTGGAGCAGAC
* *
4787452 TGAAGATGACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAACAATCCTATCT
1 TGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAACAATCCTATCT
4787517 CCCTGAAGTTGCAGTGGAGCAGA
66 CCCTGAAGTTGCAGTGGAGCAGA
4787540 TTAAAACTTT
Statistics
Matches: 321, Mismatches: 78, Indels: 69
0.69 0.17 0.15
Matches are distributed among these distances:
81 1 0.00
83 12 0.04
84 96 0.30
85 12 0.04
86 4 0.01
87 15 0.05
88 50 0.16
89 118 0.37
90 11 0.03
91 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (89 bp):
TGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAACAATCCTATCT
CCCTGAAGTTGCAGTGGAGCAGAC
Found at i:4787527 original size:173 final size:173
Alignment explanation
Indices: 4787201--4787529 Score: 386
Period size: 173 Copynumber: 1.9 Consensus size: 173
4787191 TAAATAAGCA
* *
4787201 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTTCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATAGCAAATCTTATCCTCCTGAAGTT
* * * *
4787266 GCAGTGCAGCAGATTAGAGCCGATAATCCTATCTCCCTGAAGTTACATTGGAGCGGATTAAAACC
66 GCAGTGCAGCAGATAAGAGACGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACC
* * *
4787331 TTAGATCTTATCTCTCCGAAGTTGCAAAGAGCACATCGCATCT
131 TAAAATCCTATCTCTCCGAAGTTGCAAAGAGCACATCGCATCT
*
4787374 AGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAGACT-AAG-TAAGCAAGTCTTATCCTCCTGAA
1 AGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTAAAGAT-AGCAAATCTTATCCTCCTGAA
** * **
4787435 GTTGCAGTGGGGCAGACTGAAGATGAC-A-AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
63 GTTGCAGTGCAGCAGA-T-AAGA-GACGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT
*
4787498 AAAGCC-AACAATCCTATCTC-CCTGAAGTTGCA
125 AAAACCTAA-AATCCTATCTCTCC-GAAGTTGCA
4787530 GTGGAGCAGA
Statistics
Matches: 132, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
171 1 0.01
172 41 0.31
173 84 0.64
174 4 0.03
175 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATAGCAAATCTTATCCTCCTGAAGTT
GCAGTGCAGCAGATAAGAGACGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACC
TAAAATCCTATCTCTCCGAAGTTGCAAAGAGCACATCGCATCT
Found at i:4787560 original size:44 final size:44
Alignment explanation
Indices: 4787030--4787561 Score: 279
Period size: 44 Copynumber: 12.2 Consensus size: 44
4787020 AAGATGGCAA
* * *
4787030 ATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATT-AAAGTCGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTC--TAG
* * * * *
4787074 ATCCTATCTACCAGAAGTTGCAGTAGAGCGGATTAAAAC-CTCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTCT-AG
* * ***
4787118 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCA-TCTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTCTAG
* * ** *
4787159 -TCTCATCTCCCTGAAGTTGCAGTGGAGCAGAATAAATAAGCAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACTCTAG
* *
4787203 -TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGA-TGGC-AA
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAA-ACT--CTAG
* * * *
4787247 ATCTTATCTTCCTGAAGTTGCAGTGCAGCAGATTAGAGC-CGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTC--TAG
* * * *
4787291 ATCCTATCTCCCTGAAGTTACATTGGAGCGGATTAAAAC-CTTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTC-TAG
** * ***
4787335 ATCTTATCTCTCC-GAAGTTGCA-AAGAGCACA-TCGCA-TCTAG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAACTCTAG
* * *
4787376 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAA-GCAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACTCTAG
* * * *
4787420 -TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGA-TGAC-AA
1 ATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAAACT--CTAG
* * * *
4787464 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGC-CAACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTCTA-G
* *
4787508 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTTTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTCTAG
4787552 ATCTTATCTC
1 ATCTTATCTC
4787562 TATGAATATA
Statistics
Matches: 373, Mismatches: 78, Indels: 74
0.71 0.15 0.14
Matches are distributed among these distances:
39 2 0.01
40 38 0.10
41 18 0.05
42 12 0.03
43 22 0.06
44 212 0.57
45 67 0.18
46 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTCTAG
Found at i:4787813 original size:15 final size:15
Alignment explanation
Indices: 4787795--4787824 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4787785 AGAAATCAAG
*
4787795 AATTTTCAATTTAAA
1 AATTTTAAATTTAAA
4787810 AATTTTAAATTTAAA
1 AATTTTAAATTTAAA
4787825 TCATAACAGC
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTTAAATTTAAA
Found at i:4791595 original size:22 final size:22
Alignment explanation
Indices: 4791570--4791611 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4791560 TTAAAATAGA
4791570 CATAATTATGCAACTAATATCT
1 CATAATTATGCAACTAATATCT
* *
4791592 CATAATTATTCAAGTAATAT
1 CATAATTATGCAACTAATAT
4791612 TACTTGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (22 bp):
CATAATTATGCAACTAATATCT
Found at i:4793950 original size:28 final size:29
Alignment explanation
Indices: 4793909--4793969 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
4793899 TAATTAGGAA
* *
4793909 TCTGCCAAAGACTATTTA-TAAATCAAGAG
1 TCTGCCAAAGACTATCTACCAAA-CAAGAG
*
4793938 TCTG-CAATGACTATCTACCAAACAAGAG
1 TCTGCCAAAGACTATCTACCAAACAAGAG
4793966 TCTG
1 TCTG
4793970 ACAGAAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (29 bp):
TCTGCCAAAGACTATCTACCAAACAAGAG
Found at i:4795096 original size:20 final size:20
Alignment explanation
Indices: 4795073--4795116 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
4795063 AAATATCGTA
4795073 ATTCCCAAACAATTGAATTT
1 ATTCCCAAACAATTGAATTT
4795093 ATTCCCAAACAATTGAATTT
1 ATTCCCAAACAATTGAATTT
4795113 ATTC
1 ATTC
4795117 TAAGTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTCCCAAACAATTGAATTT
Found at i:4796063 original size:23 final size:20
Alignment explanation
Indices: 4796037--4796097 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
4796027 ATAAAATTGA
*
4796037 AATATAGGTTATATATTCATATT
1 AATATAGGTTATATATT-A-A-C
*
4796060 AATATATGTTATATATTAAC
1 AATATAGGTTATATATTAAC
4796080 AATATAGGTTATAATATT
1 AATATAGGTTAT-ATATT
4796098 TGAGTTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.32
21 6 0.18
22 1 0.03
23 16 0.47
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (20 bp):
AATATAGGTTATATATTAAC
Found at i:4796354 original size:34 final size:34
Alignment explanation
Indices: 4796311--4796381 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
4796301 GAACACATGA
4796311 GGTACAATTTGTGATTTAAGCGAAGTCTAAATTC
1 GGTACAATTTGTGATTTAAGCGAAGTCTAAATTC
4796345 GGTACAATTTGTGATTTAAGCGAAGTCTAAATTC
1 GGTACAATTTGTGATTTAAGCGAAGTCTAAATTC
4796379 GGT
1 GGT
4796382 CTCCATACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (34 bp):
GGTACAATTTGTGATTTAAGCGAAGTCTAAATTC
Found at i:4796440 original size:31 final size:31
Alignment explanation
Indices: 4796399--4796478 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
4796389 CATGGTTGAT
*
4796399 TTAGCAGCAAAAAACAATAGAAGGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
* *
4796430 TTGGCAGCAAAAACCAATATAAGGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
4796461 TTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAACCAAT
4796479 TAAAATCCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (31 bp):
TTAGCAGCAAAAACCAATAGAAGGTACCATC
Found at i:4798592 original size:47 final size:47
Alignment explanation
Indices: 4798502--4798592 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 47
4798492 AAATTTGATT
* * *
4798502 TATAGTGCTTGTATTTTTCTCAAAATTTATAGTAGGAACTTAATCCA
1 TATAGTGCTTGTATTTTTCTCAAAATTCAAAGTAGAAACTTAATCCA
* * *
4798549 TATAGTGTTTGTATTTTTCT-AAAACTTCAAATTAGAAATTTAAT
1 TATAGTGCTTGTATTTTTCTCAAAA-TTCAAAGTAGAAACTTAAT
4798593 TCTATGAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 4 0.11
47 33 0.89
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (47 bp):
TATAGTGCTTGTATTTTTCTCAAAATTCAAAGTAGAAACTTAATCCA
Found at i:4798683 original size:14 final size:14
Alignment explanation
Indices: 4798664--4798696 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
4798654 CCTATCTTGA
4798664 AAACCAAAAACCGT
1 AAACCAAAAACCGT
4798678 AAACCAAAAACCGT
1 AAACCAAAAACCGT
4798692 AAACC
1 AAACC
4798697 CTATACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.58, C:0.30, G:0.06, T:0.06
Consensus pattern (14 bp):
AAACCAAAAACCGT
Found at i:4798736 original size:8 final size:8
Alignment explanation
Indices: 4798723--4798761 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
4798713 AGATCATAGA
4798723 CCTTAAAC
1 CCTTAAAC
4798731 CCTTAAAC
1 CCTTAAAC
4798739 CCTTAAA-
1 CCTTAAAC
4798746 CCTTAAAC
1 CCTTAAAC
*
4798754 CCATAAAC
1 CCTTAAAC
4798762 TCCAAACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (8 bp):
CCTTAAAC
Found at i:4798751 original size:15 final size:15
Alignment explanation
Indices: 4798723--4798761 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
4798713 AGATCATAGA
4798723 CCTTAAACCCTTAAAC
1 CCTTAAA-CCTTAAAC
4798739 CCTTAAACCTTAAAC
1 CCTTAAACCTTAAAC
*
4798754 CCATAAAC
1 CCTTAAAC
4798762 TCCAAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (15 bp):
CCTTAAACCTTAAAC
Found at i:4798788 original size:7 final size:7
Alignment explanation
Indices: 4798726--4798806 Score: 58
Period size: 7 Copynumber: 11.1 Consensus size: 7
4798716 TCATAGACCT
4798726 TAAACCC
1 TAAACCC
4798733 TTAAACCC
1 -TAAACCC
*
4798741 TTAAACCT
1 -TAAACCC
4798749 TAAACCC
1 TAAACCC
4798756 ATAAACTCC
1 -TAAAC-CC
**
4798765 -AAACAA
1 TAAACCC
4798771 T-AACCC
1 TAAACCC
4798777 ATAAACCC
1 -TAAACCC
4798785 TAAACCC
1 TAAACCC
**
4798792 TAAACTT
1 TAAACCC
4798799 TAAACCC
1 TAAACCC
4798806 T
1 T
4798807 TTTATCCCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
6 3 0.05
7 29 0.50
8 24 0.41
9 2 0.03
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:4799098 original size:39 final size:39
Alignment explanation
Indices: 4799055--4799141 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
4799045 AACCCATATT
4799055 CCTTAAACCCTAAATCATAAAACATATATAAACTATAAA
1 CCTTAAACCCTAAATCATAAAACATATATAAACTATAAA
* *
4799094 CCTTAAACCCTGAATCATAGAACATATATAAACTATAAA
1 CCTTAAACCCTAAATCATAAAACATATATAAACTATAAA
4799133 CCTTAAACC
1 CCTTAAACC
4799142 TCAACCCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.25
Consensus pattern (39 bp):
CCTTAAACCCTAAATCATAAAACATATATAAACTATAAA
Found at i:4799188 original size:15 final size:14
Alignment explanation
Indices: 4799164--4799198 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
4799154 CAATAAACAA
4799164 TAAACCATAATCCC
1 TAAACCATAATCCC
4799178 TAAATCCATAATCCC
1 TAAA-CCATAATCCC
4799193 TAAACC
1 TAAACC
4799199 GCCAATGCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:4799892 original size:115 final size:113
Alignment explanation
Indices: 4799487--4799924 Score: 565
Period size: 113 Copynumber: 3.8 Consensus size: 113
4799477 ACCGTTAAAT
* * * * * *
4799487 CTTGACTTTTGTGGCGTTTTTAGTAAAGCGCCACTAATGTCTTTAAAGCTGAA-AAAGAAAATGA
1 CTTGAATTTTGCGACGTTTTT-GTAAAGCGCCACTAATGTCTCTAAAGCTCAACAAA-AAAACGA
*
4799551 TGTTGTTTGCTTAAAACTTTTGTGGCGCTTTTGAGAAAGCGCCGCTAATG
64 CGTTGTTTGCTTAAAACTTTTGTGGCGCTTTTGAGAAAGCGCCGCTAATG
* *
4799601 CTTGAATTTTGTGACGTTTCTGTAAAGCGCCACTAATGTCTCTAAAGCTCAACAAAAAAACGACG
1 CTTGAATTTTGCGACGTTTTTGTAAAGCGCCACTAATGTCTCTAAAGCTCAACAAAAAAACGACG
*
4799666 CTGTTTGCTTAAAACTTTTGTGGCGCTTTTGAGAAAGCGCCGCTAATG
66 TTGTTTGCTTAAAACTTTTGTGGCGCTTTTGAGAAAGCGCCGCTAATG
4799714 CTTGAATTTTGCGACGTTTTTGTAAAGCGCCACTAATGTCTCTAAAGCTCAACAAAAAAAAACGA
1 CTTGAATTTTGCGACGTTTTTGTAAAGCGCCACTAATGTCTCTAAAGCTCAAC--AAAAAAACGA
*** *
4799779 CGTTGTTTGCTTAAAACTTTTTGTGGCGCTTACCAGAAAGGGCCGCTAATG
64 CGTTGTTTGCTTAAAAC-TTTTGTGGCGCTTTTGAGAAAGCGCCGCTAATG
* * * ** * * *
4799830 ATTGACA-TCTGCGGCGTTTTTCAAAAAGCACCACTAATGTGTCTAAAGCTCAACAAGAAAACGA
1 CTTGA-ATTTTGCGACGTTTTT-GTAAAGCGCCACTAATGTCTCTAAAGCTCAACAAAAAAACGA
* * * *
4799894 CGTCGTTTGCTAAAAACTTTTGCGACGCTTT
64 CGTTGTTTGCTTAAAACTTTTGTGGCGCTTT
4799925 CATGATCTTT
Statistics
Matches: 290, Mismatches: 28, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
113 134 0.46
114 32 0.11
115 50 0.17
116 45 0.16
117 29 0.10
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (113 bp):
CTTGAATTTTGCGACGTTTTTGTAAAGCGCCACTAATGTCTCTAAAGCTCAACAAAAAAACGACG
TTGTTTGCTTAAAACTTTTGTGGCGCTTTTGAGAAAGCGCCGCTAATG
Found at i:4799971 original size:96 final size:96
Alignment explanation
Indices: 4799854--4800082 Score: 241
Period size: 94 Copynumber: 2.4 Consensus size: 96
4799844 CGTTTTTCAA
* * * * *
4799854 AAAGCACCACTAATGTGTCTAAAGCTCAACAAGAAAACGACGTCGTTTGCTAAAAACTTTTGCGA
1 AAAGCGCCACTAATGTCTCTAAAGCTCAACAAGAAAACGACATCGTCTGCTAAAAACTTGTGCGA
*
4799919 CGCTTTCATGAT-CTTTTGCGGCGTTTCCTGAT
66 CGCTTT-ATGATACTTTTGCGGCATTT-CTGAT
* * * *
4799951 -AAGCGCCACTAATGTCTCTAAAGCT-AA-AGGAAAACGACATCGTCTGCTTAACACTTGTGCGG
1 AAAGCGCCACTAATGTCTCTAAAGCTCAACAAGAAAACGACATCGTCTGCTAAAAACTTGTGCGA
* ** * **
4800013 CGCTTTTTTTTACTTTTGCGGCATTTTTTTT
66 CGCTTTATGATACTTTTGCGGCATTTCTGAT
* * *
4800044 AAAACGCCACTAATGTCTTTGAAGCTCAACAAGAAAACG
1 AAAGCGCCACTAATGTCTCTAAAGCTCAACAAGAAAACG
4800083 GTACCGTTTG
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
93 4 0.04
94 69 0.64
95 4 0.04
96 31 0.29
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (96 bp):
AAAGCGCCACTAATGTCTCTAAAGCTCAACAAGAAAACGACATCGTCTGCTAAAAACTTGTGCGA
CGCTTTATGATACTTTTGCGGCATTTCTGAT
Found at i:4800027 original size:21 final size:20
Alignment explanation
Indices: 4800003--4800044 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4799993 TCTGCTTAAC
*
4800003 ACTTGTGCGGCGCTTTTTTTT
1 ACTTGTGCGGC-ATTTTTTTT
*
4800024 ACTTTTGCGGCATTTTTTTT
1 ACTTGTGCGGCATTTTTTTT
4800044 A
1 A
4800045 AAACGCCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.10, C:0.17, G:0.19, T:0.55
Consensus pattern (20 bp):
ACTTGTGCGGCATTTTTTTT
Found at i:4802082 original size:29 final size:29
Alignment explanation
Indices: 4802027--4802083 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
4802017 ATGGATCAAA
* ***
4802027 TTAATCTCTTTACTACTAAACGGAATAAT
1 TTAATCTCTTTACTAATAAAAAAAATAAT
*
4802056 TTAATCTTTTTACTAATAAAAAAAATAA
1 TTAATCTCTTTACTAATAAAAAAAATAA
4802084 ATAAGACTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.39
Consensus pattern (29 bp):
TTAATCTCTTTACTAATAAAAAAAATAAT
Found at i:4806137 original size:30 final size:30
Alignment explanation
Indices: 4806103--4806172 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
4806093 ATTTTAATAT
*
4806103 TTTAAAAATTCAAAAAAAATATAAAT-ATTA
1 TTTAAAAATT-AAAAAAAATAAAAATAATTA
* ** *
4806133 TTTAAATATTAAAAATTATAAAAATAATTT
1 TTTAAAAATTAAAAAAAATAAAAATAATTA
4806163 TTTAAAAATT
1 TTTAAAAATT
4806173 TATTTAATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTAAAAATTAAAAAAAATAAAAATAATTA
Found at i:4807006 original size:69 final size:69
Alignment explanation
Indices: 4806895--4807035 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
4806885 AATATGTCCA
4806895 CCGAGATTATTGAAGGTGAAATCGATGACTTCTAGCGAAAGCAAATCACGCGGAACAGAGGGTAT
1 CCGAGATTATTGAAGGTGAAATCGATGACTTCTAGCGAAAGCAAATCACGCGGAACAGAGGGTAT
4806960 GGAG
66 GGAG
4806964 CCGAGATTATTGAAGGTGAAATCGATGACTTCTAGCGAAAGCAAATCACGCGGAACAGAGGGTAT
1 CCGAGATTATTGAAGGTGAAATCGATGACTTCTAGCGAAAGCAAATCACGCGGAACAGAGGGTAT
4807029 GGAG
66 GGAG
4807033 CCG
1 CCG
4807036 GAGAGCATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.18
Consensus pattern (69 bp):
CCGAGATTATTGAAGGTGAAATCGATGACTTCTAGCGAAAGCAAATCACGCGGAACAGAGGGTAT
GGAG
Found at i:4809018 original size:21 final size:19
Alignment explanation
Indices: 4808992--4809037 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
4808982 TGGGCTAGCT
4808992 TATTTGGGCTTAGGGTTTTTG
1 TATTTGGG-TTAGGG-TTTTG
*
4809013 TATTTGGGTTTGGGTTTTG
1 TATTTGGGTTAGGGTTTTG
4809032 T-TTTGG
1 TATTTGG
4809038 ATATTGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 5 0.21
21 8 0.33
ACGTcount: A:0.07, C:0.02, G:0.35, T:0.57
Consensus pattern (19 bp):
TATTTGGGTTAGGGTTTTG
Found at i:4809029 original size:20 final size:20
Alignment explanation
Indices: 4808992--4809051 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
4808982 TGGGCTAGCT
*
4808992 TATTTGGGCTTAGGGTTTTTG
1 TATTTGGG-TTTGGGTTTTTG
4809013 TATTTGGGTTTGGG-TTTTG
1 TATTTGGGTTTGGGTTTTTG
*
4809032 T-TTTGGATATTGGGTTTTTG
1 TATTTGGGT-TTGGGTTTTTG
4809052 AGTGTGTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 6 0.17
19 11 0.31
20 10 0.29
21 8 0.23
ACGTcount: A:0.08, C:0.02, G:0.33, T:0.57
Consensus pattern (20 bp):
TATTTGGGTTTGGGTTTTTG
Found at i:4812596 original size:19 final size:18
Alignment explanation
Indices: 4812561--4812606 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
4812551 CTGTGTTATT
4812561 AAATAGAAAATTATTTTCA
1 AAATA-AAAATTATTTTCA
*
4812580 AAATAAAAATGTTTTTTCA
1 AAATAAAAAT-TATTTTCA
*
4812599 ATATAAAA
1 AAATAAAA
4812607 CACTCATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (18 bp):
AAATAAAAATTATTTTCA
Found at i:4813366 original size:22 final size:22
Alignment explanation
Indices: 4813340--4813381 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4813330 AACTGTTAGC
4813340 TTATCAGTTAATTAGTTGTACT
1 TTATCAGTTAATTAGTTGTACT
* *
4813362 TTATCAGTTAGTTGGTTGTA
1 TTATCAGTTAATTAGTTGTA
4813382 AGTTGTGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (22 bp):
TTATCAGTTAATTAGTTGTACT
Found at i:4816497 original size:22 final size:22
Alignment explanation
Indices: 4816471--4816516 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
4816461 TGTTAACTGT
4816471 TAGCTTATCAGTTAATTAGTTG
1 TAGCTTATCAGTTAATTAGTTG
* *
4816493 TAGCTTATCAGTTAGTTGGTTG
1 TAGCTTATCAGTTAATTAGTTG
4816515 TA
1 TA
4816517 AGTTGTGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.46
Consensus pattern (22 bp):
TAGCTTATCAGTTAATTAGTTG
Found at i:4823308 original size:20 final size:20
Alignment explanation
Indices: 4823285--4823335 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
4823275 AAAAAAATTC
4823285 TAAAATTATTTTAAAAA-TA
1 TAAAATTATTTTAAAAAGTA
* *
4823304 TTAAATT-TATTAAAAAAGTA
1 TAAAATTAT-TTTAAAAAGTA
*
4823324 TAAAAATATTTT
1 TAAAATTATTTT
4823336 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
18 1 0.04
19 13 0.54
20 9 0.38
21 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAAATTATTTTAAAAAGTA
Found at i:4829425 original size:23 final size:24
Alignment explanation
Indices: 4829412--4829461 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
4829402 TAATTTTTAA
4829412 ATTTTGAATTATTT-AGTGATAAT
1 ATTTTGAATTATTTAAGTGATAAT
4829435 ATTTTGAATTATTT-AGTGATAAT
1 ATTTTGAATTATTTAAGTGATAAT
4829458 ATTT
1 ATTT
4829462 AGGAAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (24 bp):
ATTTTGAATTATTTAAGTGATAAT
Found at i:4829462 original size:13 final size:13
Alignment explanation
Indices: 4829421--4829463 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
4829411 AATTTTGAAT
4829421 TATTTAGTGATAA
1 TATTTAGTGATAA
*
4829434 TATTT--TGA-AT
1 TATTTAGTGATAA
4829444 TATTTAGTGATAA
1 TATTTAGTGATAA
4829457 TATTTAG
1 TATTTAG
4829464 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:4831320 original size:13 final size:13
Alignment explanation
Indices: 4831302--4831326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4831292 ATTTTGTTAT
4831302 TTCTGTATATATA
1 TTCTGTATATATA
4831315 TTCTGTATATAT
1 TTCTGTATATAT
4831327 GTATGGGGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
TTCTGTATATATA
Found at i:4837968 original size:20 final size:20
Alignment explanation
Indices: 4837930--4837969 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4837920 AGGCAACCCA
*
4837930 CATTTATTTTTATTTATTTT
1 CATTTATTTTAATTTATTTT
4837950 CATTTA-TTTAATTTAATTTT
1 CATTTATTTTAATTT-ATTTT
4837970 GAATTCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTATTTTAATTTATTTT
Found at i:4839422 original size:23 final size:23
Alignment explanation
Indices: 4839402--4839446 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4839392 TTGAATTTTG
*
4839402 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTAATAATATTTAA
4839425 AATTATTTAGTAATAATATTTA
1 AATTATTTAGTAATAATATTTA
4839447 GGAAAAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
AATTATTTAGTAATAATATTTAA
Found at i:4840880 original size:17 final size:17
Alignment explanation
Indices: 4840858--4840915 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
4840848 GAGGTTTTTT
4840858 TAAAAATATTTTATTTA
1 TAAAAATATTTTATTTA
*
4840875 TAAAAATATTGTT-TTAA
1 TAAAAATATT-TTATTTA
4840892 TAAATAA-ATTTTATGTTA
1 TAAA-AATATTTTAT-TTA
*
4840910 GAAAAA
1 TAAAAA
4840916 AGAGAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 2 0.06
17 23 0.68
18 9 0.26
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TAAAAATATTTTATTTA
Found at i:4841916 original size:23 final size:24
Alignment explanation
Indices: 4841884--4841950 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 24
4841874 ATTTTTACAG
*
4841884 AAAATGATAATTATGTAATTTTTT
1 AAAATGATAATTATGTAATTTTTA
* ** *
4841908 AAACT-ATAAAAATAT-ATTTTTA
1 AAAATGATAATTATGTAATTTTTA
4841930 AAAATGATAATTATGTAATTT
1 AAAATGATAATTATGTAATTT
4841951 CATCCTAGCA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
22 10 0.31
23 14 0.44
24 8 0.25
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (24 bp):
AAAATGATAATTATGTAATTTTTA
Found at i:4848146 original size:46 final size:46
Alignment explanation
Indices: 4848009--4848148 Score: 235
Period size: 46 Copynumber: 3.0 Consensus size: 46
4847999 CCATGGCAAA
* *
4848009 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATATTGAA
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
4848055 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
* * *
4848101 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
4848147 TT
1 TT
4848149 ATAGCATTGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
Found at i:4850252 original size:12 final size:12
Alignment explanation
Indices: 4850235--4850259 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4850225 CTTAGTCTTC
4850235 ACAATTACAAAT
1 ACAATTACAAAT
4850247 ACAATTACAAAT
1 ACAATTACAAAT
4850259 A
1 A
4850260 GTGTAACCTA
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
ACAATTACAAAT
Found at i:4855422 original size:88 final size:90
Alignment explanation
Indices: 4855313--4855498 Score: 277
Period size: 89 Copynumber: 2.1 Consensus size: 90
4855303 AAGCTTCATG
* *
4855313 CATTTGTCTGGTTACATGTAAAATATTACAGTTAATTATTATCGGATG-TAACCTTATTAGCAGA
1 CATTTCTCTGGTTACATGTAAAATATTAAAGTTAATTATTATCGGATGTTAACCTTATTAGCAGA
4855377 TTGAATATACTATGACATTGTATTT
66 TTGAATATACTATGACATTGTATTT
* * * * *
4855402 CATTTCTC-GGTTACATGTAAACTATTAAAGTTAATTCTTATTGGATGTTGACCTTATTAGCGGA
1 CATTTCTCTGGTTACATGTAAAATATTAAAGTTAATTATTATCGGATGTTAACCTTATTAGCAGA
*
4855466 TTGAATATAGTATGACATTGTATTT
66 TTGAATATACTATGACATTGTATTT
*
4855491 CCTTTCTC
1 CATTTCTC
4855499 AAGGAAAATA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 35 0.40
89 52 0.60
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (90 bp):
CATTTCTCTGGTTACATGTAAAATATTAAAGTTAATTATTATCGGATGTTAACCTTATTAGCAGA
TTGAATATACTATGACATTGTATTT
Found at i:4866105 original size:34 final size:30
Alignment explanation
Indices: 4866038--4866097 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4866028 ATTTTTATTA
4866038 TTAATTTTGTATTTATTTTAAAGGCATTTG
1 TTAATTTTGTATTTATTTTAAAGGCATTTG
*
4866068 TTAATTTTGT-TATTATTTTAGAGGCATTTG
1 TTAATTTTGTAT-TTATTTTAAAGGCATTTG
4866098 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTATTTATTTTAAAGGCATTTG
Found at i:4866541 original size:22 final size:23
Alignment explanation
Indices: 4866493--4866544 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
4866483 CCATAATAAA
*
4866493 TAATTGTAGTGTATTTAGTATTGT
1 TAATT-TAATGTATTTAGTATTGT
*
4866517 TAATTTAATGTATTTA-TGTTGT
1 TAATTTAATGTATTTAGTATTGT
4866539 TAATTT
1 TAATTT
4866545 CACGTGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 10 0.38
24 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (23 bp):
TAATTTAATGTATTTAGTATTGT
Found at i:4866632 original size:17 final size:18
Alignment explanation
Indices: 4866592--4866632 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4866582 TTCATTGTTT
4866592 ATTATATGTTGTTTTAAA
1 ATTATATGTTGTTTTAAA
*
4866610 AATATATG-TGTTTTAAA
1 ATTATATGTTGTTTTAAA
*
4866627 TTTATA
1 ATTATA
4866633 ATTTTCACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (18 bp):
ATTATATGTTGTTTTAAA
Found at i:4870930 original size:9 final size:9
Alignment explanation
Indices: 4870918--4870994 Score: 52
Period size: 9 Copynumber: 8.1 Consensus size: 9
4870908 TAAAAAAGCA
4870918 AAAAATTAT
1 AAAAATTAT
4870927 -AAAA-TACT
1 AAAAATTA-T
*
4870935 AAAAATAAT
1 AAAAATTAT
4870944 AGAAAATTATT
1 A-AAAATTA-T
4870955 AAAAATTTGTAT
1 AAAAA--T-TAT
*
4870967 AACAATTAT
1 AAAAATTAT
4870976 AAAAA-TAT
1 AAAAATTAT
4870984 AACAAATTAT
1 AA-AAATTAT
4870994 A
1 A
4870995 GGAGACATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
7 2 0.04
8 10 0.19
9 16 0.30
10 16 0.30
11 2 0.04
12 6 0.11
13 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4871284 original size:20 final size:22
Alignment explanation
Indices: 4871259--4871298 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4871249 GGAAATTCTA
4871259 ATTTTT-AAT-AATTTTATATT
1 ATTTTTAAATAAATTTTATATT
4871279 ATTTTTAAATAAATTTTATA
1 ATTTTTAAATAAATTTTATA
4871299 AGTTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTTAAATAAATTTTATATT
Found at i:4871817 original size:29 final size:31
Alignment explanation
Indices: 4871783--4871849 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
4871773 TCGTAAATTT
4871783 AGAATTTAGT-T-TTTATATTTTT-ATTTTTA
1 AGAATTTAGTCTCTTTATATTTTTGA-TTTTA
*
4871812 AGAATTTAGTCTCTTTATTTTTTTGATTTTA
1 AGAATTTAGTCTCTTTATATTTTTGATTTTA
4871843 A-AATTTA
1 AGAATTTA
4871850 AGTCAAACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 10 0.29
30 7 0.21
31 16 0.47
32 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.61
Consensus pattern (31 bp):
AGAATTTAGTCTCTTTATATTTTTGATTTTA
Done.