Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3165331
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 15
Found at i:1664627 original size:24 final size:22
Alignment explanation
Indices: 1664580--1664622 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1664570 TCTTTATATA
1664580 TTTTTTATTAATACACTGTAAT
1 TTTTTTATTAATACACTGTAAT
*
1664602 TTTTTTATTAATATACTGTAA
1 TTTTTTATTAATACACTGTAA
1664623 AATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTTTATTAATACACTGTAAT
Found at i:1664721 original size:14 final size:15
Alignment explanation
Indices: 1664683--1664724 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
1664673 AGCTTTGAAG
* *
1664683 TTTAGGGTTTAAGAT
1 TTTAGGATTTAAGAA
*
1664698 TTTAGTATTTAA-AA
1 TTTAGGATTTAAGAA
1664712 TTTAGGATTTAAG
1 TTTAGGATTTAAG
1664725 GTTTAGAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (15 bp):
TTTAGGATTTAAGAA
Found at i:1666012 original size:7 final size:7
Alignment explanation
Indices: 1666000--1666075 Score: 98
Period size: 7 Copynumber: 10.9 Consensus size: 7
1665990 AGTAATATTT
1666000 TTTAGGG
1 TTTAGGG
1666007 TTTAGGG
1 TTTAGGG
1666014 TTTAGGG
1 TTTAGGG
*
1666021 TTTAGAG
1 TTTAGGG
*
1666028 TTTAAGG
1 TTTAGGG
*
1666035 TTTAGGA
1 TTTAGGG
1666042 TTTAGGG
1 TTTAGGG
*
1666049 TTTAGAG
1 TTTAGGG
*
1666056 TTTAAGG
1 TTTAGGG
*
1666063 TTTAGGA
1 TTTAGGG
1666070 TTTAGG
1 TTTAGG
1666076 ATTTGTCATG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:1666040 original size:28 final size:28
Alignment explanation
Indices: 1666000--1666075 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
1665990 AGTAATATTT
* *
1666000 TTTAGGGTTTAGGGTTTAGGGTTTAGAG
1 TTTAAGGTTTAGGATTTAGGGTTTAGAG
1666028 TTTAAGGTTTAGGATTTAGGGTTTAGAG
1 TTTAAGGTTTAGGATTTAGGGTTTAGAG
1666056 TTTAAGGTTTAGGATTTAGG
1 TTTAAGGTTTAGGATTTAGG
1666076 ATTTGTCATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.43
Consensus pattern (28 bp):
TTTAAGGTTTAGGATTTAGGGTTTAGAG
Found at i:1672170 original size:4 final size:4
Alignment explanation
Indices: 1672161--1672193 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1672151 TCCCTCTTTA
1672161 CCTT CCTT CCTT CCTT CCTT CCTT CCTT CCTT C
1 CCTT CCTT CCTT CCTT CCTT CCTT CCTT CCTT C
1672194 TTCACTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (4 bp):
CCTT
Found at i:1680114 original size:7 final size:7
Alignment explanation
Indices: 1680104--1680146 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
1680094 ATCCTCTGCC
1680104 CTCTTCT
1 CTCTTCT
1680111 CTCTTCT
1 CTCTTCT
1680118 CTCTTCT
1 CTCTTCT
1680125 CTCTTCT
1 CTCTTCT
1680132 CTCTTCT
1 CTCTTCT
1680139 CTCTTCT
1 CTCTTCT
1680146 C
1 C
1680147 CTCACCGGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (7 bp):
CTCTTCT
Found at i:1680121 original size:21 final size:21
Alignment explanation
Indices: 1680097--1680142 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1680087 CTCCAAAATC
1680097 CTCTGCCCTCTTCTCTCTTCT
1 CTCTGCCCTCTTCTCTCTTCT
* *
1680118 CTCTTCTCTCTTCTCTCTTCT
1 CTCTGCCCTCTTCTCTCTTCT
1680139 CTCT
1 CTCT
1680143 TCTCCTCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.46, G:0.02, T:0.52
Consensus pattern (21 bp):
CTCTGCCCTCTTCTCTCTTCT
Found at i:1680766 original size:13 final size:13
Alignment explanation
Indices: 1680748--1680772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1680738 TCACAGGTGT
1680748 GAGCTTTGACTAG
1 GAGCTTTGACTAG
1680761 GAGCTTTGACTA
1 GAGCTTTGACTA
1680773 AAGGGTTTAA
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:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (13 bp):
GAGCTTTGACTAG
Found at i:1681287 original size:22 final size:22
Alignment explanation
Indices: 1681261--1681303 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1681251 TAATAAATTA
1681261 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1681283 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1681304 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1681312 original size:22 final size:22
Alignment explanation
Indices: 1681263--1681311 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1681253 ATAAATTATT
**
1681263 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1681285 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1681308 TAAA
1 TAAA
1681312 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1681389 original size:18 final size:20
Alignment explanation
Indices: 1681345--1681437 Score: 58
Period size: 22 Copynumber: 4.8 Consensus size: 20
1681335 ACAACTACAA
*
1681345 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATATAT
1681365 TAAAATAAATCAAT-C-TATAT
1 T--AATAAATCAATCCATATAT
*
1681385 TAATAAAT---T--ATTTA-
1 TAATAAATCAATCCATATAT
* *
1681399 AAATAAATCAATCCATATTT
1 TAATAAATCAATCCATATAT
1681419 TAAAATAAATCAATCCATA
1 T--AATAAATCAATCCATA
1681438 CTAATAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
14 7 0.12
15 4 0.07
17 1 0.02
18 7 0.12
19 3 0.05
20 6 0.11
21 1 0.02
22 27 0.48
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAAATCAATCCATATAT
Found at i:1681392 original size:22 final size:22
Alignment explanation
Indices: 1681346--1681391 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1681336 CAACTACAAT
*
1681346 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTATAA
*
1681368 AATAAATCAATCTATATTAATAA
1 AATAAATCAATCCATATT-ATAA
1681391 A
1 A
1681392 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAATCAATCCATATTATAA
Found at i:1681402 original size:32 final size:31
Alignment explanation
Indices: 1681363--1681636 Score: 166
Period size: 32 Copynumber: 9.3 Consensus size: 31
1681353 CAATCCATAT
1681363 TTTAAAATAAATCAATCTATATTAATAAATTA
1 TTTAAAATAAATCAATCTATA-TAATAAATTA
*
1681395 TTTAAAATAAATCAATC-----CAT--A-T-
1 TTTAAAATAAATCAATCTATATAATAAATTA
*
1681417 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCTATA-TAATAAATTA
1681449 TTTAAAATAAATCAAT-TCATACTAATAAATTA
1 TTTAAAATAAATCAATCT-ATA-TAATAAATTA
*
1681481 TTTTAAAATAAATCAATCCATATTTTATAATAATTTA
1 -TTTAAAATAAATCAAT-C-TA---TATAATAAATTA
* *
1681518 TTTAAAATAAAT-TAT-TTTATAATAAATTA
1 TTTAAAATAAATCAATCTATATAATAAATTA
*
1681547 TTT--TA-AAAT-AAT-TA-A-AATAAATTA
1 TTTAAAATAAATCAATCTATATAATAAATTA
* * * *
1681571 TTTTATAATAAAT-TAT-TTTAAAATAAATTA
1 -TTTAAAATAAATCAATCTATATAATAAATTA
*
1681601 TTTTAAAATAAAT-AA-C-CT-TAATAAATTA
1 -TTTAAAATAAATCAATCTATATAATAAATTA
1681629 TTTAAAAT
1 TTTAAAAT
1681637 TATTTTAATA
Statistics
Matches: 200, Mismatches: 17, Indels: 55
0.74 0.06 0.20
Matches are distributed among these distances:
22 17 0.09
23 1 0.00
24 10 0.05
25 4 0.02
26 9 0.05
27 10 0.05
28 18 0.09
29 16 0.08
30 23 0.12
31 1 0.00
32 48 0.24
33 16 0.08
35 3 0.01
36 13 0.06
37 9 0.05
38 2 0.01
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTAAAATAAATCAATCTATATAATAAATTA
Found at i:1681410 original size:54 final size:54
Alignment explanation
Indices: 1681346--1681469 Score: 221
Period size: 54 Copynumber: 2.3 Consensus size: 54
1681336 CAACTACAAT
* *
1681346 AATAAATCAATCCATATTTTAAAATAAATCAATCTATATTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1681400 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
1681454 AATAAATCAATTCATA
1 AATAAATCAATCCATA
1681470 CTAATAAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1681421 original size:22 final size:22
Alignment explanation
Indices: 1681395--1681437 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1681385 TAATAAATTA
1681395 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1681417 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1681438 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1681446 original size:22 final size:22
Alignment explanation
Indices: 1681397--1681445 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1681387 ATAAATTATT
**
1681397 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1681419 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1681442 TAAA
1 TAAA
1681446 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1681475 original size:18 final size:18
Alignment explanation
Indices: 1681422--1681478 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
1681412 CATATTTTAA
*
1681422 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
* *
1681440 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
1681454 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
1681472 AATAAAT
1 AATAAAT
1681479 TATTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
17 4 0.13
18 14 0.47
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:1681492 original size:15 final size:15
Alignment explanation
Indices: 1681440--1681613 Score: 139
Period size: 15 Copynumber: 11.5 Consensus size: 15
1681430 AATCCATACT
1681440 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
* * *
1681454 AATAAATCAATTCATACT
1 AATAAAT-TATT-TTA-A
1681472 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1681487 AATAAATCAATCCATATTTTAT
1 AATAAAT---T--A--TTTTAA
*
1681509 AATAATTTA-TTTAA
1 AATAAATTATTTTAA
*
1681523 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1681538 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1681553 AAT--A--A--TTAA
1 AATAAATTATTTTAA
*
1681562 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1681577 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1681592 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1681607 AATAAAT
1 AATAAAT
1681614 AACCTTAATA
Statistics
Matches: 128, Mismatches: 14, Indels: 35
0.72 0.08 0.20
Matches are distributed among these distances:
9 7 0.05
11 2 0.02
13 2 0.02
14 19 0.15
15 68 0.53
16 3 0.02
17 6 0.05
18 8 0.06
19 1 0.01
20 1 0.01
22 11 0.09
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1681493 original size:65 final size:63
Alignment explanation
Indices: 1681414--1681557 Score: 191
Period size: 65 Copynumber: 2.2 Consensus size: 63
1681404 AATCAATCCA
*
1681414 TATTTTAAAATAAATCAATCCATA-CTAATAAATTATTTAAAATAAATCAATTCATACTAATAAA
1 TATTTTAAAATAAATCAATCCATATATAATAAATTATTTAAAATAAAT-AATT-ATA-TAATAAA
1681478 T
63 T
* * *
1681479 TATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTAAAATAAATTATTTTATAATAAA
1 TATTTTAAAATAAATCAATCCATA---TATAATAAATTATTTAAAATAAATAATTATATAATAAA
1681544 T
63 T
1681545 TATTTTAAAATAA
1 TATTTTAAAATAA
1681558 TTAAAATAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
65 24 0.34
66 21 0.30
67 2 0.03
68 3 0.04
69 21 0.30
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (63 bp):
TATTTTAAAATAAATCAATCCATATATAATAAATTATTTAAAATAAATAATTATATAATAAAT
Found at i:1681505 original size:54 final size:53
Alignment explanation
Indices: 1681447--1681598 Score: 116
Period size: 54 Copynumber: 2.9 Consensus size: 53
1681437 ACTAATAAAT
1681447 TATTTAAAATAAATCAATTCATACTAATAAATTATTTTAAAATAAATCAATCCA
1 TATTTAAAATAAAT-AATTCATACTAATAAATTATTTTAAAATAAATCAATCCA
* * * * * * * **
1681501 TATTTTATAATAATTTATT--TA-AAATAAATTATTTTATAATAAATTATTTTAAAA
1 TA-TTTAAAATAAATAATTCATACTAATAAATTATTTTAAAATAAATCA--AT-CCA
* * *
1681555 TAATTAAAATAAATTATT-TTA-TAATAAATTATTTTAAAATAAAT
1 TATTTAAAATAAATAATTCATACTAATAAATTATTTTAAAATAAAT
1681599 TATTTTAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
51 22 0.28
52 2 0.03
53 14 0.18
54 31 0.39
55 10 0.13
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (53 bp):
TATTTAAAATAAATAATTCATACTAATAAATTATTTTAAAATAAATCAATCCA
Found at i:1681573 original size:39 final size:39
Alignment explanation
Indices: 1681519--1681596 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
1681509 AATAATTTAT
1681519 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
1 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
1681558 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
1 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
1681597 ATTATTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (39 bp):
TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
Found at i:1681592 original size:69 final size:66
Alignment explanation
Indices: 1681439--1681613 Score: 224
Period size: 69 Copynumber: 2.6 Consensus size: 66
1681429 CAATCCATAC
* * * **
1681439 TAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTTAAAATAAATCAATCCATAT
1 TAATAAATTATTTAAAATAAAT-TATT-TTA-TAATAAATTATTTTAAAATAAATAAATAAATAT
1681504 TTTA
63 TTTA
* *
1681508 TAATAATTTATTTAAAATAAATTATTTTATAATAAATTATTTTAAAATAATTAAAATAAATTATT
1 TAATAAATTATTTAAAATAAATTATTTTATAATAAATTATTTTAAAATAAAT-AAATAAA-TATT
1681573 TTA
64 TTA
*
1681576 TAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
1 TAATAAATTA-TTTAAAATAAATTATTTTATAATAAAT
1681614 AACCTTAATA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
66 22 0.23
67 6 0.06
68 19 0.20
69 47 0.50
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (66 bp):
TAATAAATTATTTAAAATAAATTATTTTATAATAAATTATTTTAAAATAAATAAATAAATATTTT
A
Found at i:1681599 original size:54 final size:53
Alignment explanation
Indices: 1681509--1681636 Score: 175
Period size: 54 Copynumber: 2.3 Consensus size: 53
1681499 CATATTTTAT
* *
1681509 AATAATTTATTTAAAATAAATTATTTTATAATAAATTATTTTAAAATAATTAA
1 AATAAATTATTTAAAATAAATTATTTTAAAATAAATTATTTTAAAATAATTAA
* *
1681562 AATAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAATAA
1 AATAAATTA-TTTAAAATAAATTATTTTAAAATAAATTATTTTAAAATAATTAA
1681616 CCTTAATAAATTATTTAAAAT
1 ----AATAAATTATTTAAAAT
1681637 TATTTTAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
53 8 0.12
54 41 0.63
57 7 0.11
58 9 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (53 bp):
AATAAATTATTTAAAATAAATTATTTTAAAATAAATTATTTTAAAATAATTAA
Found at i:1681654 original size:54 final size:54
Alignment explanation
Indices: 1681509--1681661 Score: 165
Period size: 54 Copynumber: 2.8 Consensus size: 54
1681499 CATATTTTAT
* * *
1681509 AATAATTTATTTAAAATAAATTATTTTAT-AATAAATTATTTTAAAATAATTAA
1 AATAAATTATTTATAATAAATTATTTTATAAATAAATTATTTTAAAATAAATAA
1681562 AATAAATTATTTTATAATAAATTATTTTA-AAATAAATTATTTTAAAATAAATAA
1 AATAAATTA-TTTATAATAAATTATTTTATAAATAAATTATTTTAAAATAAATAA
*
1681616 CCTTAATAAATTA-TT-T-A-AAATTATTTTAATAAATAATTATATTTTA
1 ----AATAAATTATTTATAATAAATTATTTT-ATAAATAAAT-TATTTTA
1681662 TAATTATTCT
Statistics
Matches: 87, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
53 18 0.21
54 43 0.49
55 8 0.09
56 9 0.10
58 9 0.10
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (54 bp):
AATAAATTATTTATAATAAATTATTTTATAAATAAATTATTTTAAAATAAATAA
Found at i:1684393 original size:20 final size:19
Alignment explanation
Indices: 1684354--1684395 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1684344 TTTTCTCGAT
1684354 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
1684373 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
1684393 ATT
1 ATT
1684396 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:1684506 original size:120 final size:120
Alignment explanation
Indices: 1684266--1684499 Score: 296
Period size: 120 Copynumber: 2.0 Consensus size: 120
1684256 ATATATATAT
* * *
1684266 ATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTACC
1 ATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTACC
* *
1684331 TTAAGACATCTCTTTTTCTCGATATTAAAAAATAAATAAATAATTAAAACAATTA
66 TTAAGACATCTCTATTTCTCAATATTAAAAAATAAATAAATAATTAAAACAATTA
** * *
1684386 ATATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTG
1 ATATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCAGGTA
** * * *
1684450 TTTTAAGAC-TGTC-ATTTCTTAATATTGAAAAATAAATAAAT-ATTAAAACA
64 CCTTAAGACATCTCTATTTCTCAATATTAAAAAATAAATAAATAATTAAAACA
1684500 TGATTAAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 9 0.09
119 30 0.31
120 44 0.45
121 15 0.15
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (120 bp):
ATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTACC
TTAAGACATCTCTATTTCTCAATATTAAAAAATAAATAAATAATTAAAACAATTA
Found at i:1684589 original size:9 final size:9
Alignment explanation
Indices: 1684575--1684599 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1684565 TTTATGTCTA
1684575 AATAATAGT
1 AATAATAGT
1684584 AATAATAGT
1 AATAATAGT
1684593 AATAATA
1 AATAATA
1684600 ATTAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
AATAATAGT
Found at i:1684853 original size:20 final size:19
Alignment explanation
Indices: 1684828--1684869 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1684818 CTATTTTATA
1684828 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
1684848 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
1684867 AAT
1 AAT
1684870 ATCGAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:1687734 original size:43 final size:44
Alignment explanation
Indices: 1687687--1687769 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
1687677 AATAGAGAAA
* * *
1687687 TTAGGAGTGAAAGTTATTCCC-TATATGT-AAAGTTTTGTTGAAG
1 TTAGGACTGAAAGTT-GTCCCATATATGTAAAAGCTTTGTTGAAG
1687730 TTAGGACTGAAAGTTGTCCCATATATGTAAAAGCTTTGTT
1 TTAGGACTGAAAGTTGTCCCATATATGTAAAAGCTTTGTT
1687770 TAATACACGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 4 0.11
43 21 0.60
44 10 0.29
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (44 bp):
TTAGGACTGAAAGTTGTCCCATATATGTAAAAGCTTTGTTGAAG
Found at i:1693344 original size:76 final size:76
Alignment explanation
Indices: 1693261--1693434 Score: 226
Period size: 75 Copynumber: 2.3 Consensus size: 76
1693251 ATTAACAAGA
* * *
1693261 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATGTTGATGTA-TCCTGA
1 AGCAAATGCTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGCATTCCTGA
*
1693325 ATGTTTATATC
66 ATATTTATATC
* * * **
1693336 AGCAAAATGCTGGGGCATGCTG-AAAGCCTTTTCAATCAGAATGAAGATTGTTGATGCATTTTTG
1 AGC-AAATGCTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGCATTCCTG
* *
1693400 AATATTTGTATT
65 AATATTTATATC
1693412 AGCAAATGCTGGGGCATGCTGAA
1 AGCAAATGCTGGGGCATGCTGAA
1693435 GGCCCACATC
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
75 52 0.61
76 33 0.39
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (76 bp):
AGCAAATGCTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGCATTCCTGA
ATATTTATATC
Found at i:1694825 original size:23 final size:22
Alignment explanation
Indices: 1694770--1694847 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
1694760 ATCTACACTC
*
1694770 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
1694792 TTCAAAGATGATAGATTCTCTTT
1 TTCAAAGATGATAGATTCTC-TT
* * *
1694815 TTAAAAGATGACATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1694837 TTCAAAGATGA
1 TTCAAAGATGA
1694848 AAGCTTTATC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 32 0.64
23 18 0.36
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1695666 original size:165 final size:165
Alignment explanation
Indices: 1695361--1695683 Score: 558
Period size: 165 Copynumber: 2.0 Consensus size: 165
1695351 AGAATGAAAA
* * *
1695361 TTATCTTGAGATTGGGGCATGTTACCCAATCAATATGTTATTTTGAAACATAATGAGAAAACGAT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATATTATTTTGAAACATAATAAGAAAACGAT
* ** *
1695426 TTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
66 TTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCT
1695491 TAGTTTTTTTACTTAGTAAACTATTTCCAACAACC
131 TAGTTTTTTTACTTAGTAAACTATTTCCAACAACC
*
1695526 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATATTATTTTGAAATATAATAAGAAAACGAT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATATTATTTTGAAACATAATAAGAAAACGAT
1695591 TTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
66 TTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
1695656 TTAG-TTTTTTACTTAGTAAACTATTTCC
130 TTAGTTTTTTTACTTAGTAAACTATTTCC
1695684 CACATCTGTA
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
165 110 0.74
166 39 0.26
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (165 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATATTATTTTGAAACATAATAAGAAAACGAT
TTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCT
TAGTTTTTTTACTTAGTAAACTATTTCCAACAACC
Found at i:1695812 original size:76 final size:76
Alignment explanation
Indices: 1695686--1696144 Score: 846
Period size: 76 Copynumber: 6.0 Consensus size: 76
1695676 CTATTTCCCA
* * *
1695686 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCTTTCGGGAGCTTTGTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1695751 ACCCTCAGGGT
66 ACCCTCAGGGT
*
1695762 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1695827 ACCCTCAGGGT
66 ACCCTCAGGGT
1695838 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1695903 ACCCTCAGGGT
66 ACCCTCAGGGT
1695914 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1695979 ACCCTCAGGGT
66 ACCCTCAGGGT
* *
1695990 CATCTGTAAGTCCTGCGGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1696055 AGCCTCAGGGT
66 ACCCTCAGGGT
*
1696066 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1696131 ACCCTCAGGGT
66 ACCCTCAGGGT
1696142 CAT
1 CAT
1696145 TCATAAGACC
Statistics
Matches: 372, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 372 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCCTCAGGGT
Found at i:1696317 original size:10 final size:10
Alignment explanation
Indices: 1696302--1696354 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
1696292 ATTTCATTAA
*
1696302 AATTATTTTT
1 AATTATTATT
1696312 AATTATTATT
1 AATTATTATT
1696322 ATTATTATTATT
1 A--ATTATTATT
*
1696334 AA-AATTATT
1 AATTATTATT
1696343 -ATTATTATT
1 AATTATTATT
1696352 AAT
1 AAT
1696355 ATATATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.03
9 12 0.33
10 13 0.36
12 10 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTATTATT
Found at i:1696321 original size:3 final size:3
Alignment explanation
Indices: 1696303--1696352 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
1696293 TTTCATTAAA
* **
1696303 ATT ATT TTT AATT ATT ATT ATT ATT ATT ATT AAA ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1696349 ATT A
1 ATT A
1696353 ATATATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
3 38 0.95
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1696941 original size:7 final size:7
Alignment explanation
Indices: 1696924--1696953 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1696914 AGAGCCACAA
1696924 AAAAAAC
1 AAAAAAC
1696931 -AAAAAC
1 AAAAAAC
1696937 AAAAAAC
1 AAAAAAC
1696944 AAAAAAC
1 AAAAAAC
1696951 AAA
1 AAA
1696954 GAAAGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:1698064 original size:20 final size:19
Alignment explanation
Indices: 1698039--1698080 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1698029 CTATTTTATA
1698039 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
1698059 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
1698078 AAT
1 AAT
1698081 ATCGAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:1698082 original size:119 final size:117
Alignment explanation
Indices: 1697935--1698171 Score: 298
Period size: 120 Copynumber: 2.0 Consensus size: 117
1697925 ATTTTAATCC
* * * *
1697935 TGTTTTAATATTTATTTATTTTTCAATATTAAG-AAATGA-CAGTCTTAAAACAACTGGATGTCC
1 TGTTTTAATATTTATTTATTTTTCAATATCAAGAAAAAGAGCAGTCTTAAAACAACTAGAAGTCC
* *
1697998 ATTTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAAT
66 -TTTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAA-TATATATAAAT
* * * ** *
1698053 TGTTTTAATTATTTATTTATTTTTTAATATCGAGAAAAAGAGCTGTCTTAAAGTACCTAGAAGTC
1 TGTTTTAA-TATTTATTTATTTTTCAATATCAAGAAAAAGAGCAGTCTTAAAACAACTAGAAGTC
**
1698118 CTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAAT
65 CTTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAAT
1698171 T
1 T
1698172 AATATATTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 19 0.19
119 30 0.29
120 35 0.34
121 18 0.18
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (117 bp):
TGTTTTAATATTTATTTATTTTTCAATATCAAGAAAAAGAGCAGTCTTAAAACAACTAGAAGTCC
TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAAT
Found at i:1702721 original size:5 final size:5
Alignment explanation
Indices: 1702711--1702768 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
1702701 AACGATCAAC
* * *
1702711 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG CGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
1702760 GGTCG GGTC
1 GGTCG GGTC
1702769 AGACCAGTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 35 0.81
7 8 0.19
ACGTcount: A:0.07, C:0.24, G:0.50, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:1702733 original size:22 final size:22
Alignment explanation
Indices: 1702706--1702768 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
1702696 CGGTCAACGA
1702706 TCAACGGTCGGGTCGGGTCGGG
1 TCAACGGTCGGGTCGGGTCGGG
*
1702728 TCAACGGTCGGGTCGCGTCGGG
1 TCAACGGTCGGGTCGGGTCGGG
1702750 TCAACGGTCGGGTCGGGTC
1 TCAACGGTCGGGTCGGGTC
1702769 AGACCAGTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.10, C:0.25, G:0.46, T:0.19
Consensus pattern (22 bp):
TCAACGGTCGGGTCGGGTCGGG
Found at i:1702814 original size:20 final size:21
Alignment explanation
Indices: 1702778--1702816 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1702768 CAGACCAGTC
1702778 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
*
1702799 AAACCGGTTA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
1702817 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:1708202 original size:14 final size:14
Alignment explanation
Indices: 1708153--1708202 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1708143 AGAGACGAAC
1708153 AAATAATTATTAAA
1 AAATAATTATTAAA
*
1708167 TAACTAA--ATTAAA
1 -AAATAATTATTAAA
*
1708180 ATATAATTATTAAA
1 AAATAATTATTAAA
*
1708194 AAATCATTA
1 AAATAATTA
1708203 CATAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
14 13 0.46
15 5 0.18
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAATTATTAAA
Found at i:1710483 original size:20 final size:20
Alignment explanation
Indices: 1710460--1710511 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1710450 AACGCGATCC
1710460 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
1710480 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
1710500 CCAAAATCGCAA
1 CCAGAATCGCAA
1710512 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:1710592 original size:20 final size:20
Alignment explanation
Indices: 1710567--1710760 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
1710557 GATTTTCCAT
* *
1710567 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
1710587 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
1710607 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1710627 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
1710647 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
1710667 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1710687 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
1710707 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
1710728 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
1710748 AATCGCAACGCGA
1 AATCGCAACGCGA
1710761 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:1710612 original size:40 final size:39
Alignment explanation
Indices: 1710563--1710760 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
1710553 TTGCGATTTT
* ** *
1710563 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
1710601 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
1710642 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
1710682 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
1710721 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1710761 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:1710650 original size:60 final size:60
Alignment explanation
Indices: 1710567--1710759 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
1710557 GATTTTCCAT
* ** * *
1710567 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
1710627 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
1710687 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
1710748 AATCGCAACGCG
1 AATCGCAACGCG
1710760 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:1711158 original size:33 final size:33
Alignment explanation
Indices: 1711119--1711189 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1711109 TTCACTTAGA
*
1711119 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1711152 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1711185 TTTCA
1 TTTCA
1711190 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1711329 original size:14 final size:14
Alignment explanation
Indices: 1711310--1711364 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1711300 AGAATGACTG
1711310 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
1711324 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
1711343 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
1711357 TCGCAACG
1 TCGCAACG
1711365 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:1711347 original size:33 final size:33
Alignment explanation
Indices: 1711310--1711380 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1711300 AGAATGACTG
**
1711310 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1711343 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1711376 TCGCA
1 TCGCA
1711381 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:1711398 original size:19 final size:19
Alignment explanation
Indices: 1711376--1711473 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1711366 GAAACCAAAA
*
1711376 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1711395 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1711409 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1711428 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
1711442 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
1711461 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1711474 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1711417 original size:14 final size:14
Alignment explanation
Indices: 1711398--1711487 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1711388 TTTCATTTCG
1711398 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1711412 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1711431 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1711445 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
1711462 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
1711478 CGTTGCGATT
1 CGTTGCGATT
1711488 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1711423 original size:33 final size:33
Alignment explanation
Indices: 1711381--1711495 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1711371 CAAAATCGCA
1711381 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1711414 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1711447 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1711480 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1711496 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1713423 original size:185 final size:186
Alignment explanation
Indices: 1713193--1713940 Score: 1443
Period size: 185 Copynumber: 4.0 Consensus size: 186
1713183 TAGATTGCTT
*
1713193 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
1713258 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGATTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1713323 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713378 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713443 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1713508 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713564 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAG-A
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713628 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1713693 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713749 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT---ACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713811 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1713876 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713932 AGTAAATTT
1 AGTAAATTT
1713941 ATCCATTCAA
Statistics
Matches: 559, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
182 12 0.02
183 131 0.23
185 323 0.58
186 93 0.17
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1713487 original size:93 final size:93
Alignment explanation
Indices: 1713193--1713940 Score: 1443
Period size: 93 Copynumber: 8.1 Consensus size: 93
1713183 TAGATTGCTT
*
1713193 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713258 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1713286 AGTAAATTTGTTCGATTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713350 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713378 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713443 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713471 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713536 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713564 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAG-A
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713628 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713656 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713721 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713749 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT---ACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713811 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713839 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713904 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1713932 AGTAAATTT
1 AGTAAATTT
1713941 ATCCATTCAA
Statistics
Matches: 647, Mismatches: 3, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
90 90 0.14
92 183 0.28
93 374 0.58
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1713690 original size:278 final size:278
Alignment explanation
Indices: 1713193--1713940 Score: 1439
Period size: 278 Copynumber: 2.7 Consensus size: 278
1713183 TAGATTGCTT
*
1713193 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
1713258 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGATTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
1713323 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
131 GTGTATTCTTTAACACTGTGAAATAGATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
1713388 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
196 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
1713453 TTTTGTCTTTTGGTTGAA
261 TTTTGTCTTTTGGTTGAA
1713471 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713536 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1713601 GTGTATTCTTTAACACTGTGAAATAGATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
131 GTGTATTCTTTAACACTGTGAAATAGATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
1713666 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
196 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
1713731 TTTTGTCTTTTGGTTGAA
261 TTTTGTCTTTTGGTTGAA
1713749 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT---ACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1713811 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1713876 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
131 GTGTATTCTTTAACACTGTGAAATAG-ATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
1713941 ATCCATTCAA
Statistics
Matches: 466, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
275 105 0.23
276 38 0.08
278 323 0.69
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (278 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG
TTTTGTCTTTTGGTTGAA
Found at i:1714009 original size:20 final size:20
Alignment explanation
Indices: 1713984--1714112 Score: 92
Period size: 19 Copynumber: 7.2 Consensus size: 20
1713974 TAGTTTACTT
* * *
1713984 TCGCAACACAAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
1714004 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
1714023 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
*
1714042 TCGCAA--CG--A--CAGAA
1 TCGCAACGCGAAACTCAAAA
1714056 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
1714075 TCGCAA--CG--A--CAAGA
1 TCGCAACGCGAAACTCAAAA
1714089 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
1714108 TCGCA
1 TCGCA
1714113 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.52
20 12 0.13
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:1714024 original size:19 final size:19
Alignment explanation
Indices: 1714000--1714112 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
1713990 CACAAAACTT
1714000 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
**
1714019 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
1714038 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
1714052 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
1714071 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
1714085 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
1714104 AAAATCGCA
1 AAAATCGCA
1714113 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 46 0.60
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:1714063 original size:33 final size:32
Alignment explanation
Indices: 1714020--1714112 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1714010 CGCGAAACCA
**
1714020 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1714052 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1714085 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1714113 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1714110 original size:52 final size:51
Alignment explanation
Indices: 1714000--1714112 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 51
1713990 CACAAAACTT
* *
1714000 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAAC-AC
* * *
1714052 AGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-AT-GAAAAGCGAAACAC
1714104 AAAATCGCA
1 AAAATCGCA
1714113 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
52 41 0.79
53 3 0.06
54 8 0.15
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (51 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAACAC
Found at i:1714130 original size:19 final size:18
Alignment explanation
Indices: 1714108--1714226 Score: 101
Period size: 19 Copynumber: 6.8 Consensus size: 18
1714098 GAAACCAAAA
*
1714108 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
1714127 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
* *
1714143 T--CGTCGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
1714160 TCGCGTTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
1714176 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
1714193 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
1714212 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
1714227 AAGTTTCGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
14 15 0.19
16 10 0.12
17 10 0.12
19 46 0.57
ACGTcount: A:0.08, C:0.20, G:0.25, T:0.46
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:1714162 original size:33 final size:33
Alignment explanation
Indices: 1714115--1714205 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 33
1714105 AAATCGCATT
*
1714115 GCGATTTTCATTTCGCGTTGCGATTCTTTCGTC
1 GCGATTTTCATTTCGCGTTGCGATTCTGTCGTC
** *
1714148 GCGATTTTGGTTTCGCGTTGCGATTCTGTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTGTCGTC
1714181 GCGATTTTCATTTCGCGTTGCGATT
1 GCGATTTTCATTTCGCGTTGCGATT
1714206 TTGGTTTCGC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.45
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTGTCGTC
Found at i:1714234 original size:20 final size:19
Alignment explanation
Indices: 1714108--1714242 Score: 96
Period size: 19 Copynumber: 7.6 Consensus size: 19
1714098 GAAACCAAAA
*
1714108 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
1714127 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAGTT
* *
1714143 T--CGTCGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
1714160 TCGCGTTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
1714176 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
1714193 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
1714212 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
1714232 TCGTGTTGCGA
1 TCGCGTTGCGA
1714243 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
14 18 0.19
16 6 0.06
17 6 0.06
18 1 0.01
19 49 0.53
20 13 0.14
ACGTcount: A:0.10, C:0.19, G:0.26, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:1716188 original size:14 final size:14
Alignment explanation
Indices: 1716169--1716204 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1716159 ATTGTTTAAT
1716169 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1716183 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1716197 TGATTTGT
1 TGATTTGT
1716205 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1716387 original size:20 final size:19
Alignment explanation
Indices: 1716311--1716393 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
1716301 AAAAATGACT
1716311 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1716330 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1716349 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1716363 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1716383 ATCGCAATGCG
1 ATCGCAATGCG
1716394 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 1 0.02
17 3 0.05
19 28 0.50
20 13 0.23
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1716446 original size:19 final size:19
Alignment explanation
Indices: 1716422--1716728 Score: 367
Period size: 19 Copynumber: 17.4 Consensus size: 19
1716412 GATTATCTCG
1716422 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1716441 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1716460 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
1716474 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1716493 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1716512 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1716531 TTGCGA--TT-ATGTCG--
1 TTGCGATTTTCATTTCGCA
1716545 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1716564 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1716583 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1716602 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1716616 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1716635 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1716654 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1716668 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
1716688 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
1716702 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1716721 TTGCGATT
1 TTGCGATT
1716729 GTATTTTCCG
Statistics
Matches: 251, Mismatches: 11, Indels: 52
0.80 0.04 0.17
Matches are distributed among these distances:
14 35 0.14
16 31 0.12
17 26 0.10
18 4 0.02
19 143 0.57
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1716497 original size:71 final size:71
Alignment explanation
Indices: 1716422--1716661 Score: 435
Period size: 71 Copynumber: 3.4 Consensus size: 71
1716412 GATTATCTCG
* *
1716422 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1716487 TTCGCA
66 TTCGCA
* *
1716493 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTATGTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1716558 TTCGCA
66 TTCGCA
*
1716564 TTGCGATTTTCATTTCGCATTGCGATTTTTATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1716629 TTCGCA
66 TTCGCA
1716635 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1716662 CTCTCGTTGC
Statistics
Matches: 163, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 163 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCA
Found at i:1716662 original size:52 final size:52
Alignment explanation
Indices: 1716422--1716700 Score: 295
Period size: 52 Copynumber: 5.2 Consensus size: 52
1716412 GATTATCTCG
*
1716422 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
1716474 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * * * *
1716531 TTGCGATTATGTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCA
1 TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
*
1716583 TTGCGATTTTTATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1716635 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTTCGCA
1716688 TTGCGATTTTCAT
1 TTGCGATTTTCAT
1716701 GTTGGGATTT
Statistics
Matches: 200, Mismatches: 15, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
50 8 0.04
51 5 0.03
52 136 0.68
53 20 0.10
54 4 0.02
55 5 0.03
56 2 0.01
57 8 0.04
58 3 0.01
59 9 0.05
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:1716690 original size:34 final size:33
Alignment explanation
Indices: 1716400--1716728 Score: 137
Period size: 33 Copynumber: 9.5 Consensus size: 33
1716390 TGCGTTTATA
*
1716400 ATTTCGCATTGCGATTATC-TCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCAT-GTTGCGATTTTC
*
1716433 ATTTCGCATTGCGATTTTCAT-TT-CGCATTGCGATTC
1 ATTTCGCATTGCGATTCTCATGTTGCG-ATT----TTC
*
1716469 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCA--T-G--TTGCGATTTTC
* * *
1716504 ATTTCGCATTGCGATTTTAAT-TT-CGCA-TTGC
1 ATTTCGCATTGCGATTCTCATGTTGCG-ATTTTC
* *
1716535 GATTAT-GTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 -ATT-TCG-CATTGCGATTCTCA--T-G--TTGCGATTTTC
* * *
1716575 ATTTCGCATTGCGATTTTTAT-TT-CGCA-TTGC
1 ATTTCGCATTGCGATTCTCATGTTGCG-ATTTTC
* * *
1716606 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 -ATT-TCGCATTGCGATTCTCA--T-G--TTGCGATTTTC
1716646 ATTTCGCATTGCGATTCTC-TCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCAT-GTTGCGATTTTC
* *
1716679 ATTTTCGCATTGCGATTTTCATGTTGGGATTTTC
1 A-TTTCGCATTGCGATTCTCATGTTGCGATTTTC
*
1716713 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
1716729 GTATTTTCCG
Statistics
Matches: 235, Mismatches: 19, Indels: 84
0.70 0.06 0.25
Matches are distributed among these distances:
31 12 0.05
32 18 0.08
33 83 0.35
34 30 0.13
35 15 0.06
36 10 0.04
38 37 0.16
39 18 0.08
40 12 0.05
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCATGTTGCGATTTTC
Found at i:1719961 original size:20 final size:20
Alignment explanation
Indices: 1719933--1720301 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
1719923 AAATTTCAGT
* * * *
1719933 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1719953 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
1719973 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1719993 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1720013 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1720033 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
1720053 GTTGCGATTTACGGATATGC
1 GTTGCGATTTACGGATACGC
1720073 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1720093 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1720113 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
1720133 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1720153 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1720173 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
1720193 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
1720213 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1720233 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1720253 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
1720273 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
1720293 GTTGCGATT
1 GTTGCGATT
1720302 ATGTAAAATC
Statistics
Matches: 308, Mismatches: 33, Indels: 16
0.86 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 298 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1720382 original size:20 final size:20
Alignment explanation
Indices: 1720357--1720408 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1720347 AAGAATCGCG
*
1720357 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1720377 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1720397 TTGCGATTCTGG
1 TTGCGATTCTGG
1720409 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1720627 original size:38 final size:38
Alignment explanation
Indices: 1720585--1720687 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
1720575 TTTAACTCAT
**
1720585 TAAACGAGCTTCCTCATGAACATAAATGAACGAATCAA
1 TAAACGAGCTTGTTCATGAACATAAATGAACGAATCAA
* * * *
1720623 TAAACGAGCTTGTTCGTGAACATAAACGAATGAGTCAA
1 TAAACGAGCTTGTTCATGAACATAAATGAACGAATCAA
* *
1720661 TAAACAAGCTTGTTCATGAACACAAAT
1 TAAACGAGCTTGTTCATGAACATAAAT
1720688 AATCCGAACA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (38 bp):
TAAACGAGCTTGTTCATGAACATAAATGAACGAATCAA
Found at i:1736498 original size:21 final size:21
Alignment explanation
Indices: 1736463--1736509 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1736453 ATATATTTTT
1736463 AAAATAAAACACAAAAATTTCG
1 AAAATAAAACACAAAAATTT-G
* *
1736485 AAAAT-AAACCCAAAACTTTG
1 AAAATAAAACACAAAAATTTG
1736505 AAAAT
1 AAAAT
1736510 CTTTGTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.62, C:0.15, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAATAAAACACAAAAATTTG
Found at i:1737476 original size:29 final size:29
Alignment explanation
Indices: 1737434--1737492 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1737424 TTAGAAATTC
1737434 TAAAGTGGTCATAAAGTAGTATAAGGCGA
1 TAAAGTGGTCATAAAGTAGTATAAGGCGA
1737463 TAAAGTGGTCATAAAGTAGTATAAGGCGA
1 TAAAGTGGTCATAAAGTAGTATAAGGCGA
1737492 T
1 T
1737493 GAGACGAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (29 bp):
TAAAGTGGTCATAAAGTAGTATAAGGCGA
Found at i:1737713 original size:25 final size:27
Alignment explanation
Indices: 1737661--1737718 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
1737651 GCAAATGGAC
*
1737661 TTAATTAATTCTTTTAGAAAATTTAAAAT
1 TTAATTAATTCTTTTAGAAAA--TAAAAA
*
1737690 TTAATTAGTT-TTTTAGAAAA-AAAAA
1 TTAATTAATTCTTTTAGAAAATAAAAA
1737715 TTAA
1 TTAA
1737719 GGGTCTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.30
28 10 0.37
29 9 0.33
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (27 bp):
TTAATTAATTCTTTTAGAAAATAAAAA
Found at i:1737798 original size:36 final size:35
Alignment explanation
Indices: 1737751--1737819 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
1737741 TTGGTTTTTC
1737751 GGAAAATGAATTACTGAAATTTAAATTACTGGAACT
1 GGAAAATGAATTACTGAAATTTAAATT-CTGGAACT
* *
1737787 GGAAAATGAATTACTGGAATTTGAATTCTGGAA
1 GGAAAATGAATTACTGAAATTTAAATTCTGGAA
1737820 AATGAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.19
36 25 0.81
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (35 bp):
GGAAAATGAATTACTGAAATTTAAATTCTGGAACT
Found at i:1737825 original size:14 final size:15
Alignment explanation
Indices: 1737784--1737829 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1737774 AATTACTGGA
1737784 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
1737799 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
1737814 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
1737828 AC
1 AC
1737830 ATTTCTGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:1737870 original size:14 final size:14
Alignment explanation
Indices: 1737831--1737870 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1737821 ATGAATTACA
* *
1737831 TTTCTGGAAAACGT
1 TTTCCGGAAAATGT
1737845 TTTCCGGAAAATGT
1 TTTCCGGAAAATGT
*
1737859 TTTCCGTAAAAT
1 TTTCCGGAAAAT
1737871 AAATTACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (14 bp):
TTTCCGGAAAATGT
Found at i:1738130 original size:32 final size:32
Alignment explanation
Indices: 1738066--1738128 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1738056 TTTATTATTA
* *
1738066 AATATTTTTTTTATAATTTTATTAATAAAAAT
1 AATATTTTTTGTATAATTTTATAAATAAAAAT
* *
1738098 AATATTTTTTGTATATTTTTGTGAAATAAAA
1 AATATTTTTTGTATAATTTTAT-AAATAAAA
1738129 TATTATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (32 bp):
AATATTTTTTGTATAATTTTATAAATAAAAAT
Found at i:1738224 original size:23 final size:23
Alignment explanation
Indices: 1738175--1738237 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
1738165 GTGTTATATT
* **
1738175 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
1738198 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
1738221 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
1738238 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:1738265 original size:19 final size:20
Alignment explanation
Indices: 1738213--1738265 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1738203 TTAAATATCT
1738213 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
1738232 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
1738253 TTATTAAATATAT
1 TTATTAAATATAT
1738266 AAAAAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:1738278 original size:28 final size:27
Alignment explanation
Indices: 1738222--1738286 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
1738212 TTTATTAAAA
*
1738222 TATTATTTAAATATATAAATAATATTAT
1 TATTA-TTAAATATATAAAAAATATTAT
1738250 TCATTATTAAATATATAAAAAAT-TGTAT
1 T-ATTATTAAATATATAAAAAATAT-TAT
1738278 TATATATTA
1 TAT-TATTA
1738287 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.09
28 26 0.79
29 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAATATTAT
Found at i:1738287 original size:31 final size:29
Alignment explanation
Indices: 1738221--1738325 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 29
1738211 CTTTATTAAA
*
1738221 ATATTATTTAAATATATAAATAA-TATTAT
1 ATATTA-TTAAATATATAAAAAATTATTAT
1738250 -TCATTATTAAATATATAAAAAATTGTATTAT
1 AT-ATTATTAAATATATAAAAAA-T-TATTAT
*
1738281 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-A-ATTAT-TAT
1738310 ATATTATTATAATATA
1 ATATTATTA-AATATA
1738326 ATTGATTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
28 16 0.25
29 21 0.33
30 7 0.11
31 19 0.30
32 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAATTATTAT
Found at i:1738364 original size:22 final size:23
Alignment explanation
Indices: 1738339--1738382 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1738329 GATTATTTTA
1738339 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
1738361 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
1738383 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:1747524 original size:12 final size:12
Alignment explanation
Indices: 1747507--1747576 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 12
1747497 GGTATTATAA
1747507 TTTAAAAGTAAT
1 TTTAAAAGTAAT
* *
1747519 TTTAAAAGTGTAG
1 TTTAAAAGT-AAT
*
1747532 TATAAAA-TAATT
1 TTTAAAAGTAA-T
*
1747544 TTTAAAAGTGAT
1 TTTAAAAGTAAT
*
1747556 TTATAAAAGTATAA
1 TT-TAAAAGTA-AT
1747570 TTTAAAA
1 TTTAAAA
1747577 TTTAATTGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
11 1 0.02
12 19 0.43
13 21 0.48
14 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (12 bp):
TTTAAAAGTAAT
Found at i:1747537 original size:25 final size:25
Alignment explanation
Indices: 1747509--1747576 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
1747499 TATTATAATT
1747509 TAAAAGTAATTTTAAAAGTG-TAGTA
1 TAAAAGTAATTTTAAAAGTGAT-GTA
*
1747534 TAAAA-TAATTTTTAAAAGTGATTTA
1 TAAAAGTAA-TTTTAAAAGTGATGTA
*
1747559 TAAAAGTATAATTTAAAA
1 TAAAAGTA-ATTTTAAAA
1747577 TTTAATTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 3 0.08
25 23 0.62
26 10 0.27
27 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (25 bp):
TAAAAGTAATTTTAAAAGTGATGTA
Found at i:1751887 original size:15 final size:16
Alignment explanation
Indices: 1751867--1751898 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1751857 CCGTGACCCG
1751867 AATTATATATA-ATAT
1 AATTATATATATATAT
1751882 AATTATATATATATAT
1 AATTATATATATATAT
1751898 A
1 A
1751899 TATATTAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTATATATATATAT
Found at i:1751935 original size:23 final size:25
Alignment explanation
Indices: 1751909--1751972 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 25
1751899 TATATTAACC
1751909 TTAAATAT-TTTTA-TATTAACTTA
1 TTAAATATATTTTACTATTAACTTA
1751932 TTAAATATATTTTACTATTAACTTA
1 TTAAATATATTTTACTATTAACTTA
*
1751957 GTTTAAAAATATTTTA
1 --TTAAATATATTTTA
1751973 TTTTCATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 8 0.22
24 5 0.14
25 10 0.28
27 13 0.36
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (25 bp):
TTAAATATATTTTACTATTAACTTA
Found at i:1751941 original size:25 final size:27
Alignment explanation
Indices: 1751911--1751971 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 27
1751901 TATTAACCTT
1751911 AAATATTTTTA-TATTAACTTA-TTAA
1 AAATATTTTTACTATTAACTTAGTTAA
*
1751936 ATATA-TTTTACTATTAACTTAGTTTAA
1 AAATATTTTTACTATTAACTTAG-TTAA
1751963 AAATATTTT
1 AAATATTTT
1751972 ATTTTCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 14 0.47
27 8 0.27
28 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
AAATATTTTTACTATTAACTTAGTTAA
Found at i:1752820 original size:22 final size:20
Alignment explanation
Indices: 1752795--1752850 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 20
1752785 AGTTAAGGAA
1752795 TATTATAATAAATTAATATTTT
1 TATTATAATAAATT--TATTTT
*
1752817 TATTATCAA-AAATTTGTTTT
1 TATTAT-AATAAATTTATTTT
1752837 TA-TATAATTAAATT
1 TATTATAA-TAAATT
1752851 GTTAGATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 2 0.07
19 3 0.10
20 12 0.40
22 11 0.37
23 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTATAATAAATTTATTTT
Found at i:1761518 original size:23 final size:24
Alignment explanation
Indices: 1761492--1761543 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
1761482 CTAATTGTTG
*
1761492 TTTAAAATGTAACGAATTTCTT-A
1 TTTAAAATGTAACGAATTCCTTAA
1761515 TTTAAAATGTAACGAATTCCTTAA
1 TTTAAAATGTAACGAATTCCTTAA
1761539 TTTAA
1 TTTAA
1761544 TTATAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (24 bp):
TTTAAAATGTAACGAATTCCTTAA
Found at i:1762827 original size:18 final size:18
Alignment explanation
Indices: 1762804--1762840 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1762794 TTATTTCCCT
*
1762804 ATCTACGGTAAATTGAAC
1 ATCTACCGTAAATTGAAC
1762822 ATCTACCGTAAATTGAAC
1 ATCTACCGTAAATTGAAC
1762840 A
1 A
1762841 GTACTAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (18 bp):
ATCTACCGTAAATTGAAC
Found at i:1763453 original size:30 final size:30
Alignment explanation
Indices: 1763413--1763471 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1763403 CCAGGATGTT
* *
1763413 TCACCTGTGTAACTGCATACCGGAGCGGTC
1 TCACCCGTGTAACTGAATACCGGAGCGGTC
1763443 TCACCCGTGTAACTGAATACCGGAGCGGT
1 TCACCCGTGTAACTGAATACCGGAGCGGT
1763472 GCAGAGGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (30 bp):
TCACCCGTGTAACTGAATACCGGAGCGGTC
Found at i:1768826 original size:2 final size:2
Alignment explanation
Indices: 1768819--1768848 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1768809 GAATACCAAA
1768819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1768849 TCTTTTAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1770437 original size:15 final size:17
Alignment explanation
Indices: 1770397--1770438 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
1770387 TACAGAGCTT
1770397 TTGAATCATTCAGACCA
1 TTGAATCATTCAGACCA
*
1770414 TTGAATCATTCAG-CGA
1 TTGAATCATTCAGACCA
1770430 TT-AATCATT
1 TTGAATCATT
1770439 TTATTTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 13 0.54
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (17 bp):
TTGAATCATTCAGACCA
Found at i:1772858 original size:20 final size:21
Alignment explanation
Indices: 1772820--1772860 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1772810 GGCTCTTACA
*
1772820 CATAAATTTACATCTTTTCAT
1 CATAAATTTACATCATTTCAT
*
1772841 CATACATTT-CATCATTTCAT
1 CATAAATTTACATCATTTCAT
1772861 AAATATGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (21 bp):
CATAAATTTACATCATTTCAT
Found at i:1777413 original size:28 final size:27
Alignment explanation
Indices: 1777367--1777431 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
1777357 AGATTTGTGG
*
1777367 TTTTAAA-TTAAATTTAACTTATATATTT
1 TTTTAAATTTAAATTAAAC-TAT-TATTT
1777395 TTTTAAATTTAAA-TAAACTATTATTT
1 TTTTAAATTTAAATTAAACTATTATTT
*
1777421 TATTATAATTT
1 TTTTA-AATTT
1777432 TTTATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 9 0.27
27 8 0.24
28 11 0.33
29 5 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTAAATTTAAATTAAACTATTATTT
Found at i:1778019 original size:183 final size:183
Alignment explanation
Indices: 1777808--1778185 Score: 639
Period size: 183 Copynumber: 2.1 Consensus size: 183
1777798 TTAACCGAAA
** * * * * *
1777808 TTAAATTTTAAATTTTAAATATATTATATATAACATATGAGCTCAGCCTAAACCATTTAAAACTC
1 TTAAATTAAAAATATTAAAAATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCC
*
1777873 AATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTAT
66 AATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAAAATTAATTAATTAAAAAATTTAT
1777938 ATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTT
131 ATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTT
*
1777991 TTAAATTAAAAATATTAAAAATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCC
1 TTAAATTAAAAATATTAAAAATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCC
*
1778056 AATTAATAATTTAAGATCTAATAACTTTTAAACCTAAATCAAAATTAATTAATTAAAAAATTTAT
66 AATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAAAATTAATTAATTAAAAAATTTAT
* *
1778121 CTGAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTT
131 ATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTT
*
1778174 TTGAATTAAAAA
1 TTAAATTAAAAA
1778186 CATTTAATTT
Statistics
Matches: 182, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
183 182 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (183 bp):
TTAAATTAAAAATATTAAAAATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCC
AATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAAAATTAATTAATTAAAAAATTTAT
ATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTT
Found at i:1778801 original size:16 final size:16
Alignment explanation
Indices: 1778772--1778811 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 16
1778762 AATGTTAGAG
1778772 AAAAAAAATCAAAT-A
1 AAAAAAAATCAAATGA
1778787 AAAAAAAATCAAAATGA
1 AAAAAAAATC-AAATGA
1778804 AAACAAAA
1 AAA-AAAA
1778812 GAAAAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
17 4 0.18
18 4 0.18
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAAAATCAAATGA
Found at i:1780210 original size:25 final size:24
Alignment explanation
Indices: 1780167--1780215 Score: 64
Period size: 27 Copynumber: 2.0 Consensus size: 24
1780157 AATAATAATA
1780167 ATATATATATAAACGTTTTCAAAAAC
1 ATATATATATAAAC-TTTT-AAAAAC
1780193 ATATAATATATAAA-TTTTAAAAA
1 ATAT-ATATATAAACTTTTAAAAA
1780216 TGTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 4 0.18
26 4 0.18
27 9 0.41
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
ATATATATATAAACTTTTAAAAAC
Found at i:1780277 original size:38 final size:37
Alignment explanation
Indices: 1780180--1780594 Score: 226
Period size: 38 Copynumber: 10.7 Consensus size: 37
1780170 TATATATAAA
* * *
1780180 CGTTTTCAAAAAC-ATATAATATATAAATTTTAAAAAT
1 CGTTTT-AAAAACTATATATTATATATATTTTCAAAAT
1780217 -GTTTTTTAAAAAAACTATATATTATATATATTTTCAAAAT
1 CG--TTTT--AAAAACTATATATTATATATATTTTCAAAAT
* * * *
1780257 GGTTTTTAAAAATTATATATTATATAAATGTTTTCATAA-
1 CG-TTTTAAAAACTATATATTATAT--ATATTTTCAAAAT
* *
1780296 CGTTTTCAAAAGTATATATTATATATATTTT-AAAA-
1 CGTTTTAAAAACTATATATTATATATATTTTCAAAAT
1780331 CGTTTTCAAAAACTATATATTATATA-ATTTTCAAAAAATATATTTT
1 CGTTTT-AAAAACTATATATTATATATATTTTC----AA-A-A---T
* * * *
1780377 CAAAATGGTTTTAAAAATTATATATTATATAAATGTTTTCATAA-
1 C---G---TTTTAAAAACTATATATTATAT--ATATTTTCAAAAT
* * *
1780421 CGTTTTCAAAAGTATATATTATATATATTTT-AAAAA
1 CGTTTTAAAAACTATATATTATATATATTTTCAAAAT
1780457 CGTTTTCAAAAACTATATATTATATA-ATTTTCAAAAAT
1 CGTTTT-AAAAACTATATATTATATATATTTTC-AAAAT
* * *
1780495 -ATTTTAAAAACTATATAATATACATATTTTCAAAAAAT
1 CGTTTTAAAAACTATATATTATATATATTTTC--AAAAT
*
1780533 -GTTTT--AAACTATATATTATATATGTATTTTCAAAAA
1 CGTTTTAAAAACTATATATTATATA--TATTTTCAAAAT
** ** *
1780569 CAATTTGCAAACTATATAATATATAT
1 CGTTTTAAAAACTATATATTATATAT
1780595 GTGTATATAT
Statistics
Matches: 303, Mismatches: 36, Indels: 78
0.73 0.09 0.19
Matches are distributed among these distances:
35 17 0.06
36 77 0.25
37 31 0.10
38 82 0.27
39 23 0.08
40 38 0.13
41 2 0.01
42 1 0.00
44 1 0.00
46 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 17 0.06
52 4 0.01
53 1 0.00
54 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
CGTTTTAAAAACTATATATTATATATATTTTCAAAAT
Found at i:1780347 original size:25 final size:26
Alignment explanation
Indices: 1780316--1780417 Score: 86
Period size: 27 Copynumber: 3.8 Consensus size: 26
1780306 AGTATATATT
*
1780316 ATATATATTTTAAAACGTTTTCAAAAA
1 ATATATATTATAAAA-GTTTTCAAAAA
* *
1780343 CTATATATTATATAA-TTTTCAAAAA
1 ATATATATTATAAAAGTTTTCAAAAA
1780368 ATATAT-TT-TCAAAATGGTTTT-AAAAA
1 ATATATATTAT-AAAA--GTTTTCAAAAA
*
1780394 TTATATATTATATAAATGTTTTCA
1 ATATATATTATA-AAA-GTTTTCA
1780418 TAACGTTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
23 1 0.02
24 5 0.08
25 15 0.25
26 10 0.17
27 24 0.40
28 5 0.08
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
ATATATATTATAAAAGTTTTCAAAAA
Found at i:1780377 original size:15 final size:16
Alignment explanation
Indices: 1780352--1780381 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1780342 ACTATATATT
1780352 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
1780368 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
1780382 TGGTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:1780406 original size:125 final size:127
Alignment explanation
Indices: 1780242--1780493 Score: 490
Period size: 125 Copynumber: 2.0 Consensus size: 127
1780232 TATATATTAT
1780242 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1780307 GTATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
1780368 ATATATTTTCAAAATGG-TTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1780432 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
1780494 TATTTTAAAA
Statistics
Matches: 125, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
125 67 0.54
126 58 0.46
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (127 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:1780459 original size:36 final size:37
Alignment explanation
Indices: 1780368--1780594 Score: 212
Period size: 36 Copynumber: 6.1 Consensus size: 37
1780358 TTTTCAAAAA
** *
1780368 ATATATTTTCAAAATGGTTTTAAAAATTATATATTAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
* * * *
1780405 ATAAATGTTTTC-ATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1780443 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAAACTATATATTAT
** *
1780480 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
* *
1780516 ACATATTTTCAAAAAATGTTTT--AAACTATATATTAT
1 ATATATTTTC-AAAAACGTTTTAAAAACTATATATTAT
** ** *
1780552 ATATGTATTTTCAAAAACAATTTGCAAACTATATAATAT
1 ATA--TATTTTCAAAAACGTTTTAAAAACTATATATTAT
1780591 ATAT
1 ATAT
1780595 GTGTATATAT
Statistics
Matches: 158, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
36 52 0.33
37 43 0.27
38 40 0.25
39 23 0.15
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
Found at i:1783346 original size:31 final size:31
Alignment explanation
Indices: 1783305--1783371 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
1783295 TCCTGTTTGT
* *
1783305 CGAAATTTCTGTGGAACAAGTTTCAGTCATC
1 CGAAAATTCTGTGAAACAAGTTTCAGTCATC
*
1783336 TGAAAATTCTGTGAAACAAGTTTCAGTCATC
1 CGAAAATTCTGTGAAACAAGTTTCAGTCATC
1783367 CGAAA
1 CGAAA
1783372 TCGAGCTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
CGAAAATTCTGTGAAACAAGTTTCAGTCATC
Found at i:1785029 original size:60 final size:59
Alignment explanation
Indices: 1784936--1785055 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 59
1784926 TCGACCTAAA
*
1784936 AAGTCATAAATTTGTAATATTTTCGATCACAACAAAAAAAAGTTACATTGTGATTGGTTT
1 AAGTCATAAATTTGTAATATTTTCGATCACAAC-AAAAAAAGTTACATTGCGATTGGTTT
* *
1784996 AAGTCATAAATTTGTAATATTTTCGGTCACAACAAAAAAAGTTGCATTGCGATTGGTTT
1 AAGTCATAAATTTGTAATATTTTCGATCACAACAAAAAAAGTTACATTGCGATTGGTTT
1785055 A
1 A
1785056 GGTTTTACAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 25 0.44
60 32 0.56
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (59 bp):
AAGTCATAAATTTGTAATATTTTCGATCACAACAAAAAAAGTTACATTGCGATTGGTTT
Found at i:1785350 original size:37 final size:37
Alignment explanation
Indices: 1785283--1785356 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
1785273 CTGAATAGTT
* * ** *
1785283 CTTCTAAGGGTTGTAATTGTTTTTGTAGAGTTGATTC
1 CTTCCAAGGATTGTAATTGTTCATGCAGAGTTGATTC
1785320 CTTCCAAGGATTGTAATTGTTCATGCAGAGTTGATTC
1 CTTCCAAGGATTGTAATTGTTCATGCAGAGTTGATTC
1785357 TCAAAGTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.23, T:0.43
Consensus pattern (37 bp):
CTTCCAAGGATTGTAATTGTTCATGCAGAGTTGATTC
Found at i:1787965 original size:23 final size:23
Alignment explanation
Indices: 1787917--1787965 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
1787907 GAAAAATTAA
* * *
1787917 TATAATTAAATAAGTTTGAAATT
1 TATAATTAAATAAATATGAAAAT
1787940 TATAATTAAA-AAATATGAAAAAT
1 TATAATTAAATAAATATG-AAAAT
1787963 TAT
1 TAT
1787966 TGATTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (23 bp):
TATAATTAAATAAATATGAAAAT
Found at i:1794871 original size:21 final size:21
Alignment explanation
Indices: 1794821--1794862 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1794811 GCATACATAT
*
1794821 AATA-ATAAATAAATGTGTAA
1 AATATATATATAAATGTGTAA
1794841 AATATATATATAAATGATGTAA
1 AATATATATATAAATG-TGTAA
1794863 TATGTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (21 bp):
AATATATATATAAATGTGTAA
Found at i:1805291 original size:30 final size:28
Alignment explanation
Indices: 1805242--1805345 Score: 109
Period size: 30 Copynumber: 3.6 Consensus size: 28
1805232 CTTTTTCATT
*
1805242 TAAGTATCTAAAGTATTTTTTGGTCAAAA
1 TAAGTACCTAAAGTATTTTTT-GTCAAAA
1805271 TAAGTACCTAAAGTTATTTTTTAGTCAAAA
1 TAAGTACCTAAAG-TATTTTTT-GTCAAAA
* * * * *
1805301 TAGGTAGCTAAAATATTTCTTGTGAAAA
1 TAAGTACCTAAAGTATTTTTTGTCAAAA
* *
1805329 TAGGTACCTAAACTATT
1 TAAGTACCTAAAGTATT
1805346 CAAAATTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 21 0.32
29 19 0.29
30 25 0.38
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (28 bp):
TAAGTACCTAAAGTATTTTTTGTCAAAA
Found at i:1808632 original size:29 final size:29
Alignment explanation
Indices: 1808575--1808632 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
1808565 GAAAATAATG
*
1808575 TAACAAAGAAAAGGAAAAGAAAAAGAAAA
1 TAACAAAGAAAAGGAAAAGAAAAACAAAA
*
1808604 TAACAAA-AGAAAGTAAAA-AAATAACAAAA
1 TAACAAAGA-AAAGGAAAAGAAA-AACAAAA
1808633 ATCAGAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07
Consensus pattern (29 bp):
TAACAAAGAAAAGGAAAAGAAAAACAAAA
Found at i:1809325 original size:23 final size:22
Alignment explanation
Indices: 1809295--1809339 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1809285 AGATTGTTTT
1809295 GATTTTTTA-ATTAATTTTTAAA
1 GATTTTTTAGATT-ATTTTTAAA
*
1809317 GATTGTTTTAGATTTTTTTTAAA
1 GATT-TTTTAGATTATTTTTAAA
1809340 TATTATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (22 bp):
GATTTTTTAGATTATTTTTAAA
Found at i:1820020 original size:18 final size:20
Alignment explanation
Indices: 1819987--1820037 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
1819977 TTTGGTTCAC
1819987 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
*
1820007 GGAATG-AA-ATTACCGGT-
1 GGAATGTAAGATTACCAGTG
*
1820024 GGAA-ATAAGATTAC
1 GGAATGTAAGATTAC
1820038 TGGAAATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 6 0.22
18 13 0.48
19 2 0.07
20 6 0.22
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:1820263 original size:37 final size:37
Alignment explanation
Indices: 1820189--1820263 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
1820179 TACTATAATT
* *
1820189 AATTTATATATTTTCTTTAAAAAATTTAAATTCATAA
1 AATTTATATATTTTCTTTAAAAAATTGAAAATCATAA
* *
1820226 AATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAA
1 AATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAA
1820263 A
1 A
1820264 TAGGTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
AATTTATATATTTTCTTTAAAAAATTGAAAATCATAA
Found at i:1820519 original size:25 final size:26
Alignment explanation
Indices: 1820472--1820526 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
1820462 AATCCAACAA
1820472 TACCTAAAGAAAGGGGGTAATCATAT
1 TACCTAAAGAAAGGGGGTAATCATAT
1820498 TACCTAAAGAAA-GGGGTAATCATAT
1 TACCTAAAGAAAGGGGGTAATCATAT
1820523 TACC
1 TACC
1820527 GGTAATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.24
Consensus pattern (26 bp):
TACCTAAAGAAAGGGGGTAATCATAT
Found at i:1821765 original size:157 final size:155
Alignment explanation
Indices: 1821525--1822220 Score: 842
Period size: 157 Copynumber: 4.4 Consensus size: 155
1821515 TTAGTCCTGA
* * * * *
1821525 TTTCATTATTCCTTCAATTCATCCTTTATTTTAAGTCTATTTTTTTATCAAATTTGAACTATATG
1 TTTC-TTATTTCTTCAATTCATCCTTTATTTTAAG--TATGTTTTTACCAAATTTGAACCACATG
*
1821590 CTCCTAAACCATCGTAGAATATATATGTACTTTCAATTCCTCTTTTTGATAATAAATTTTTTTAT
63 CTCCTAAACCATCGTAGAATATATATGTACTTTCAATTCCTCTTTTTGATAA-AAA-TTTTCTAT
1821655 TTTTCAATTTAGTCCTCAATTTTTTATAAT
126 TTTTCAATTTAGTCCTCAATTTTTTATAAT
* * *
1821685 TTTCTTATTCCTTCAATTCAACCTTTATTTTAAGT-TCGTTTTTACCAAATTTGAACCACATACT
1 TTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTAT-GTTTTTACCAAATTTGAACCACATGCT
** * * * * *
1821749 CCTAAACCATTATAGAATACATATGTGCTTTCAATTCCTATTTTTAATAAAAAATTTCTATTTTT
65 CCTAAACCATCGTAGAATATATATGTACTTTCAATTCCTCTTTTTGATAAAAATTTTCTATTTTT
*
1821814 CAATTTAGTCCATTAATTTTTTTATAAT
130 CAATTTAGTCC-TCAA-TTTTTTATAAT
* * * * * *
1821842 TTCCTTGTTTCTTTAATTCATCCTTTATTTTAAGTATGTTTTTTACTAAATTTAAACCACGTGCT
1 TTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTATG-TTTTTACCAAATTTGAACCACATGCT
* * * * *
1821907 CTTAAACCATCGTAAAATATACATGTACTTTCAATTCCTCTTTTTGATGACAAATTTTCTAATTT
65 CCTAAACCATCGTAGAATATATATGTACTTTCAATTCCTCTTTTTGAT-AAAAATTTTCTATTTT
1821972 TCAATTTAGTTCCTC-ATTTTTTATAAT
129 TCAATTTAG-TCCTCAATTTTTTATAAT
* * * *
1821999 TTT-TATATTTCTTCGATTCATCTTTTATTTTAAGT-TCGTTTTTACCAAATTTGGATCACATGC
1 TTTCT-TATTTCTTCAATTCATCCTTTATTTTAAGTAT-GTTTTTACCAAATTTGAACCACATGC
* * * * *
1822062 TCCTAAATCATCGTATAATAAATATGTACTTTCAATTCCTCTTTTTGATAACAATTTTTTATTTT
64 TCCTAAACCATCGTAGAATATATATGTACTTTCAATTCCTCTTTTTGATAAAAATTTTCTATTTT
*
1822127 TCAATTTAGTCCCTCATTTTTTTTATAAT
129 TCAATTTAGT-CCTCA-ATTTTTTATAAT
* * * * *
1822156 TTCCTTATTTCTTCGATTCATCATTTATTTGAAGTATGTTTTTACCAAATTTGAACCATATGCTC
1 TTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTATGTTTTTACCAAATTTGAACCACATGCTC
1822221 ATAATATCAC
Statistics
Matches: 459, Mismatches: 63, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
154 1 0.00
155 46 0.10
156 73 0.16
157 215 0.47
158 65 0.14
159 52 0.11
160 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (155 bp):
TTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTATGTTTTTACCAAATTTGAACCACATGCTC
CTAAACCATCGTAGAATATATATGTACTTTCAATTCCTCTTTTTGATAAAAATTTTCTATTTTTC
AATTTAGTCCTCAATTTTTTATAAT
Found at i:1822135 original size:314 final size:315
Alignment explanation
Indices: 1821524--1822220 Score: 938
Period size: 314 Copynumber: 2.2 Consensus size: 315
1821514 TTTAGTCCTG
* * * *
1821524 ATTTCATTATTCCTTCAATTCATCCTTTATTTTAAGTCTAT-TTTTTTA-TCAAATTTGAACTAT
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAG--TATGTTTTTTACT-AAATTTGAACCAC
* * * *
1821587 ATGCTCCTAAACCATCGTAGAATATATATGTACTTTCAATTCCTCTTTTTGATAATAAATTTTTT
63 ATGCTCCTAAACCATCGTAAAATATACATGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTC
*
1821652 TATTTTTCAATTTAGTCCTCAATTTTTTATAATTTTCTTATTCCTTCAATTCAACCTTTATTTTA
128 TAATTTTCAATTTAGTCCTCAATTTTTTATAATTTTCTTATTCCTTCAATTCAACCTTTATTTTA
* * *
1821717 AGTTCGTTTTTACCAAATTTGAACCACATACTCCTAAACCATTATAGAATACATATGTGCTTTCA
193 AGTTCGTTTTTACCAAATTTGAACCACATACTCCTAAACCATCATAGAATAAATATGTACTTTCA
*
1821782 ATTCCTATTTTTAATAAAAAATTTCTATTTTTCAATTTAGTCCATTAATTTTTTTATA
258 ATTCCTATTTTTAATAAAAAATTTCTATTTTTCAATTTAGTCCATCAATTTTTTTATA
* * * *
1821840 ATTTCCTTGTTTCTTTAATTCATCCTTTATTTTAAGTATGTTTTTTACTAAATTTAAACCACGTG
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTATGTTTTTTACTAAATTTGAACCACATG
* *
1821905 CTCTTAAACCATCGTAAAATATACATGTACTTTCAATTCCTCTTTTTGATGACAAA-TTTTCTAA
66 CTCCTAAACCATCGTAAAATATACATGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTCTAA
* * * *
1821969 TTTTCAATTTAGTTCCTC-ATTTTTTATAATTTT-TATATTTCTTCGATTCATCTTTTATTTTAA
131 TTTTCAATTTAG-TCCTCAATTTTTTATAATTTTCT-TATTCCTTCAATTCAACCTTTATTTTAA
* * * * * *
1822032 GTTCGTTTTTACCAAATTTGGATCACATGCTCCTAAATCATCGTATAATAAATATGTACTTTCAA
194 GTTCGTTTTTACCAAATTTGAACCACATACTCCTAAACCATCATAGAATAAATATGTACTTTCAA
* * * * * * *
1822097 TTCCTCTTTTTGATAACAATTTTTTATTTTTCAATTTAGTCCCTCATTTTTTTTATA
259 TTCCTATTTTTAATAAAAAATTTCTATTTTTCAATTTAGTCCATCAATTTTTTTATA
* * * * *
1822154 ATTTCCTTATTTCTTCGATTCATCATTTATTTGAAGTATG-TTTTTACCAAATTTGAACCATATG
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTATGTTTTTTACTAAATTTGAACCACATG
1822218 CTC
66 CTC
1822221 ATAATATCAC
Statistics
Matches: 332, Mismatches: 45, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
313 24 0.07
314 200 0.60
315 75 0.23
316 33 0.10
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (315 bp):
ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTATGTTTTTTACTAAATTTGAACCACATG
CTCCTAAACCATCGTAAAATATACATGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTCTAA
TTTTCAATTTAGTCCTCAATTTTTTATAATTTTCTTATTCCTTCAATTCAACCTTTATTTTAAGT
TCGTTTTTACCAAATTTGAACCACATACTCCTAAACCATCATAGAATAAATATGTACTTTCAATT
CCTATTTTTAATAAAAAATTTCTATTTTTCAATTTAGTCCATCAATTTTTTTATA
Found at i:1826634 original size:12 final size:12
Alignment explanation
Indices: 1826617--1826657 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
1826607 TAAATAATTT
1826617 ATAAATGAGTCA
1 ATAAATGAGTCA
*
1826629 ATAAATGAG-CTT
1 ATAAATGAGTC-A
1826641 ATAAATGAGTCA
1 ATAAATGAGTCA
1826653 ATAAA
1 ATAAA
1826658 CGAGCTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (12 bp):
ATAAATGAGTCA
Found at i:1826643 original size:24 final size:24
Alignment explanation
Indices: 1826615--1826663 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
1826605 AGTAAATAAT
*
1826615 TTATAAATGAGTCAATAAATGAGC
1 TTATAAATGAGTCAATAAACGAGC
1826639 TTATAAATGAGTCAATAAACGAGC
1 TTATAAATGAGTCAATAAACGAGC
1826663 T
1 T
1826664 AACAAAGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (24 bp):
TTATAAATGAGTCAATAAACGAGC
Found at i:1827333 original size:25 final size:25
Alignment explanation
Indices: 1827301--1827349 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1827291 ACCAATTTGT
*
1827301 ATAATTTACATCCTAGAAACAAGTA
1 ATAATTTACATCCGAGAAACAAGTA
1827326 ATAATTTACATCCGAGAAACAAGT
1 ATAATTTACATCCGAGAAACAAGT
1827350 GAGCATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (25 bp):
ATAATTTACATCCGAGAAACAAGTA
Done.