Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold326
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: 1352760
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 8
Found at i:3234 original size:29 final size:29
Alignment explanation
Indices: 3178--3235 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
3168 TTTTATTATC
* **
3178 TAATGATAAAATTTATTTATTATTTTAAA
1 TAATGATAAAATTTATTTACTAAATTAAA
*
3207 TAATGATAAATTTTATTTACTAAATTAAA
1 TAATGATAAAATTTATTTACTAAATTAAA
3236 ATTCTAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
TAATGATAAAATTTATTTACTAAATTAAA
Found at i:5769 original size:134 final size:134
Alignment explanation
Indices: 5549--5791 Score: 296
Period size: 134 Copynumber: 1.8 Consensus size: 134
5539 TATGTGTCAC
* * ** *
5549 TTTTGTCACTTTCCCATAGACAAGTTCTTCCAATGGAAAAGTCAACTATTTTGGTCTTGTGTGCC
1 TTTTGTCACTTTCCCATACACAAGTTCTTCCAATGGAAAAGTCAACTATTGTGGTCTCATGCGCC
* *
5614 ATTTTCATCATTCTCCCCAATACGAGTA-TTCTTAATGGAGAAGTCGACCATTATAGTTCCATTT
66 ATTTTCATCACTCTCCCCAATACGAGCACTT-TTAATGGAGAAGTCGACCATTATAGTTCCATTT
5678 GCCAT
130 GCCAT
* * *
5683 TTTTGTCACTCTT-TCATACACAAGTTCTTCCAATGGAGAAA-TCGACTCTTGTGGTCTCATGCG
1 TTTTGTCACT-TTCCCATACACAAGTTCTTCCAATGGA-AAAGTCAACTATTGTGGTCTCATGCG
* * * *
5746 CTATTTTCGTCAC-CTTCCTCAATATGAGCACTTTTAATGGAGAAGT
64 CCATTTTCATCACTC-TCCCCAATACGAGCACTTTTAATGGAGAAGT
5792 AGATCGTTGT
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
133 1 0.01
134 83 0.91
135 7 0.08
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (134 bp):
TTTTGTCACTTTCCCATACACAAGTTCTTCCAATGGAAAAGTCAACTATTGTGGTCTCATGCGCC
ATTTTCATCACTCTCCCCAATACGAGCACTTTTAATGGAGAAGTCGACCATTATAGTTCCATTTG
CCAT
Found at i:6765 original size:2 final size:2
Alignment explanation
Indices: 6758--6785 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6748 TCATTATAAT
6758 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6786 GTCCATTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7128 original size:3 final size:3
Alignment explanation
Indices: 7120--7151 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7110 TCGAATTAAC
7120 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7152 TAATGGTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8773 original size:15 final size:15
Alignment explanation
Indices: 8741--8772 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8731 CATAGCATTC
8741 TTTGGTAGAGGTACT
1 TTTGGTAGAGGTACT
8756 TTTGGTAGAGGTA-T
1 TTTGGTAGAGGTACT
8770 TTT
1 TTT
8773 TAACACAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (15 bp):
TTTGGTAGAGGTACT
Found at i:15674 original size:10 final size:10
Alignment explanation
Indices: 15655--15724 Score: 70
Period size: 10 Copynumber: 6.8 Consensus size: 10
15645 AATCTCATTT
15655 TCACTGTTCA
1 TCACTGTTCA
*
15665 TCACTATTCA
1 TCACTGTTCA
*
15675 TCACTGTTTA
1 TCACTGTTCA
* *
15685 TGTA-TCGATACA
1 T-CACT-G-TTCA
15697 TCACTGTTCA
1 TCACTGTTCA
15707 TCACTGTTCA
1 TCACTGTTCA
15717 TCACTGTT
1 TCACTGTT
15725 TATGTATCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 40 0.83
11 4 0.08
12 4 0.08
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:15701 original size:22 final size:22
Alignment explanation
Indices: 15673--15785 Score: 115
Period size: 22 Copynumber: 5.1 Consensus size: 22
15663 CATCACTATT
15673 CATCACTGTTTATGTATCGATA
1 CATCACTGTTTATGTATCGATA
* * *
15695 CATCACTGTTCAT-CA-CTG-TT
1 CATCACTGTTTATGTATC-GATA
15715 CATCACTGTTTATGTATCGATA
1 CATCACTGTTTATGTATCGATA
* *
15737 CATCACTGTTTATGTATTACTATG
1 CATCACTGTTTATGTA-T-CGATA
* *
15761 CATTACTGTTCATGTATCGATA
1 CATCACTGTTTATGTATCGATA
15783 CAT
1 CAT
15786 TGTGAATAGT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
20 14 0.19
21 4 0.05
22 36 0.49
23 2 0.03
24 17 0.23
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (22 bp):
CATCACTGTTTATGTATCGATA
Found at i:15717 original size:42 final size:42
Alignment explanation
Indices: 15655--15746 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
15645 AATCTCATTT
15655 TCACTGTTCATCACTATTCATCACTGTTTATGTATCGATACA
1 TCACTGTTCATCACTATTCATCACTGTTTATGTATCGATACA
*
15697 TCACTGTTCATCACTGTTCATCACTGTTTATGTATCGATACA
1 TCACTGTTCATCACTATTCATCACTGTTTATGTATCGATACA
15739 TCACTGTT
1 TCACTGTT
15747 TATGTATTAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (42 bp):
TCACTGTTCATCACTATTCATCACTGTTTATGTATCGATACA
Found at i:16489 original size:21 final size:20
Alignment explanation
Indices: 16442--16495 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
16432 CATTTTAGAC
*
16442 ATGTATCGATACATTCACTT
1 ATGTATTGATACATTCACTT
*
16462 ATGTATTGATATATTCACTT
1 ATGTATTGATACATTCACTT
16482 ATTGTATTGATACA
1 A-TGTATTGATACA
16496 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATTGATACATTCACTT
Found at i:19561 original size:28 final size:28
Alignment explanation
Indices: 19528--19618 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
19518 ACTGGGGTTG
19528 GAGTATCCCCTCAAAGATGGAGGGGTAA
1 GAGTATCCCCTCAAAGATGGAGGGGTAA
**
19556 GAGTAT--CCT-AAGAGAT-GATGGGGTTG
1 GAGTATCCCCTCAA-AGATGGA-GGGGTAA
* *
19582 GAGTATCTCCTCCAAGATGGAGGGGTAA
1 GAGTATCCCCTCAAAGATGGAGGGGTAA
*
19610 GGGTATCCC
1 GAGTATCCC
19619 AAGAGACGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
25 4 0.08
26 18 0.36
28 25 0.50
29 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.22
Consensus pattern (28 bp):
GAGTATCCCCTCAAAGATGGAGGGGTAA
Found at i:19578 original size:26 final size:26
Alignment explanation
Indices: 19536--19653 Score: 91
Period size: 26 Copynumber: 4.5 Consensus size: 26
19526 TGGAGTATCC
19536 CCTCAAAGATGGA-GGGGTAAGAGTAT
1 CCTCAAAGAT-GATGGGGTAAGAGTAT
**
19562 CCT-AAGAGATGATGGGGTTGGAGTATCT
1 CCTCAA-AGATGATGGGGTAAGAGTA--T
* *
19590 CCTCCAAGATGGA-GGGGTAAGGGTAT
1 CCTCAAAGAT-GATGGGGTAAGAGTAT
* **
19616 CC-CAAGAGACGATGGGGTTGGAGTAT
1 CCTCAA-AGATGATGGGGTAAGAGTAT
19642 CCTCAAAGATGA
1 CCTCAAAGATGA
19654 AAAATTCGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
25 8 0.11
26 40 0.56
27 3 0.04
28 17 0.24
29 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (26 bp):
CCTCAAAGATGATGGGGTAAGAGTAT
Found at i:19584 original size:54 final size:53
Alignment explanation
Indices: 19520--19652 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 53
19510 AGGTGAAAAC
* *
19520 TGGGGTTGGAGTATCCCCTCAAAGATGGAGGGGTAAGAGTATCCTAAGAGATGA
1 TGGGGTTGGAGTAT-CCCTCAAAGATGGAGGGGTAAGAGTATCCCAAGAGACGA
* *
19574 TGGGGTTGGAGTATCTCCTCCAAGATGGAGGGGTAAGGGTATCCCAAGAGACGA
1 TGGGGTTGGAGTATC-CCTCAAAGATGGAGGGGTAAGAGTATCCCAAGAGACGA
19628 TGGGGTTGGAGTAT-CCTCAAAGATG
1 TGGGGTTGGAGTATCCCTCAAAGATG
19653 AAAAATTCGA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
52 10 0.14
53 1 0.01
54 62 0.85
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (53 bp):
TGGGGTTGGAGTATCCCTCAAAGATGGAGGGGTAAGAGTATCCCAAGAGACGA
Found at i:19704 original size:80 final size:79
Alignment explanation
Indices: 19620--20008 Score: 303
Period size: 80 Copynumber: 4.9 Consensus size: 79
19610 GGGTATCCCA
*
19620 AGAGACGATGGGGTTGGAGTATCCTCAAAGATGAAAAATTCGATGTTTTGAAAGTAAAATGGGGG
1 AGAGACGATGGGGTTGGAGTATCCTCAGAGATGAAAAATTCGATGTTTTGAAAGTAAAAT-GGGG
* *
19685 TTAGAATATCTCCTT
65 TTGGAGTATCTCCTT
* * * * * * ** * *
19700 AGAGATGGTGGGGTTGAAGTAACC-CAGAGTTGAAAATTTTAAGGTTTTGGAAGTAAAATTGGGG
1 AGAGACGATGGGGTTGGAGTATCCTCAGAGATGAAAAATTCGATGTTTTGAAAGTAAAA-TGGGG
19764 TTGGAGTATC-CCTTT
65 TTGGAGTATCTCC-TT
* * * * * ** *
19779 GGAGA-TAGTGGGGTTGGAGTATCCT-AGAGATGAAAAATTCGGTG-GTAG-AAGTAAAAACAGA
1 AGAGACGA-TGGGGTTGGAGTATCCTCAGAGATGAAAAATTCGATGTTTTGAAAGT-AAAATGGG
*
19840 GTTGGAGTATCCCCTT
64 GTTGGAGTATCTCCTT
* * * * *
19856 CA-AGACGATGGGATTAGAGTATCC-CTAGAGATGAAAAATTTGTTGTTTTGGAAGTAAAAATGG
1 -AGAGACGATGGGGTTGGAGTATCCTC-AGAGATGAAAAATTCGATGTTTTGAAAGT-AAAATGG
19919 GGTTGGAGTAT-TCCCTT
63 GGTTGGAGTATCT-CCTT
* * ** * * *
19936 AGAGATGGTGGCATTGGAGTATCCTTAGAGATGAAAAATT-TAGTGTTTTGAAAGTAAAATCGAG
1 AGAGACGATGGGGTTGGAGTATCCTCAGAGATGAAAAATTCGA-TGTTTTGAAAGTAAAAT-GGG
20000 GTTGGAGTA
64 GTTGGAGTA
20009 CCTTTTGATG
Statistics
Matches: 242, Mismatches: 50, Indels: 34
0.74 0.15 0.10
Matches are distributed among these distances:
77 35 0.14
78 28 0.12
79 80 0.33
80 99 0.41
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (79 bp):
AGAGACGATGGGGTTGGAGTATCCTCAGAGATGAAAAATTCGATGTTTTGAAAGTAAAATGGGGT
TGGAGTATCTCCTT
Found at i:19754 original size:79 final size:79
Alignment explanation
Indices: 19628--19814 Score: 196
Period size: 79 Copynumber: 2.4 Consensus size: 79
19618 CAAGAGACGA
* * * * ** *
19628 TGGGGTTGGAGTATCCTCAAAGATGAAAAATTCGATGTTTTGAAAGTAAAATGGGGGTTAGAATA
1 TGGGGTTGAAGTAACC-CAGAGATGAAAATTTTAAGGTTTTGAAAGTAAAATGGGGGTTAGAATA
*
19693 TCTCC-TTAGAGATGG
65 TC-CCTTTAGAGATAG
* * * * *
19708 TGGGGTTGAAGTAACCCAGAGTTGAAAATTTTAAGGTTTTGGAAGTAAAATTGGGGTTGGAGTAT
1 TGGGGTTGAAGTAACCCAGAGATGAAAATTTTAAGGTTTTGAAAGTAAAATGGGGGTTAGAATAT
*
19773 CCCTTTGGAGATAG
66 CCCTTTAGAGATAG
* * *
19787 TGGGGTTGGAGTATCCTAGAGATGAAAA
1 TGGGGTTGAAGTAACCCAGAGATGAAAA
19815 ATTCGGTGGT
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
78 2 0.02
79 72 0.82
80 14 0.16
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (79 bp):
TGGGGTTGAAGTAACCCAGAGATGAAAATTTTAAGGTTTTGAAAGTAAAATGGGGGTTAGAATAT
CCCTTTAGAGATAG
Found at i:24854 original size:20 final size:20
Alignment explanation
Indices: 24814--24885 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
24804 CATGGTCCAA
**
24814 TATCGATACATTTCAAGTATG
1 TATCGATACA-TTCACTTATG
24835 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATG
*
24855 TATCGATACATTAACTTATTG
1 TATCGATACATTCACTTA-TG
*
24876 TATCAATACA
1 TATCGATACA
24886 AATTATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 25 0.54
21 21 0.46
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (20 bp):
TATCGATACATTCACTTATG
Found at i:24954 original size:21 final size:21
Alignment explanation
Indices: 24928--24978 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24918 GACCTTGTAA
24928 CGATACATGGAAGGCATATAT
1 CGATACATGGAAGGCATATAT
* *
24949 CGATACATAGAAGGCATGTAT
1 CGATACATGGAAGGCATATAT
*
24970 CAATACATG
1 CGATACATG
24979 TAGGCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (21 bp):
CGATACATGGAAGGCATATAT
Found at i:30336 original size:21 final size:20
Alignment explanation
Indices: 30284--30337 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
30274 CATTATAAGC
* * *
30284 ATGTATCGATATATTCATTT
1 ATGTATCGATACATTAACTT
* *
30304 ATGTACCAATACATTAACTT
1 ATGTATCGATACATTAACTT
30324 ATTGTATCGATACA
1 A-TGTATCGATACA
30338 AATTGTAGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:31277 original size:19 final size:19
Alignment explanation
Indices: 31253--31338 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
31243 CGAATCTAAC
31253 ATAAAAATATAATTAAAAT
1 ATAAAAATATAATTAAAAT
*
31272 ATAAAAATAAAATT--AAT
1 ATAAAAATATAATTAAAAT
* *
31289 AT--AAATATGA-TATCAAT
1 ATAAAAATATAATTA-AAAT
*
31306 ATATAAATAT-ATTAAAAT
1 ATAAAAATATAATTAAAAT
31324 ATATAAAATATAATT
1 ATA-AAAATATAATT
31339 TATTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
14 1 0.02
15 6 0.11
17 10 0.19
18 7 0.13
19 27 0.50
20 3 0.06
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (19 bp):
ATAAAAATATAATTAAAAT
Found at i:31366 original size:20 final size:19
Alignment explanation
Indices: 31305--31373 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 19
31295 ATGATATCAA
*
31305 TATATAAATATATTAAA-A
1 TATATAAATATATTAAATT
31323 TATATAAA-ATA-T-AATT
1 TATATAAATATATTAAATT
31339 TAT-T-AATATATTAAATTT
1 TATATAAATATATTAAA-TT
*
31357 TATATAAATATAATAAA
1 TATATAAATATATTAAA
31374 ATGCCAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
14 2 0.05
15 6 0.14
16 5 0.12
17 5 0.12
18 13 0.31
19 1 0.02
20 10 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATAAATATATTAAATT
Found at i:31368 original size:8 final size:8
Alignment explanation
Indices: 31266--31373 Score: 53
Period size: 8 Copynumber: 12.5 Consensus size: 8
31256 AAAATATAAT
31266 TAAA-ATA
1 TAAATATA
*
31273 TAAAAATA
1 TAAATATA
31281 -AAATTAATA
1 TAAA-T-ATA
31290 TAAATATGA
1 TAAATAT-A
31299 TATCAATATA
1 TA--AATATA
31309 TAAATATA
1 TAAATATA
31317 TTAAAATATA
1 -T-AAATATA
31327 TAAA-ATA
1 TAAATATA
*
31334 T-AATTTA
1 TAAATATA
*
31341 TTAATATA
1 TAAATATA
31349 TTAAATTTTATA
1 -TAAA---TATA
31361 TAAATATAA
1 TAAATAT-A
31370 TAAA
1 TAAA
31374 ATGCCAATGA
Statistics
Matches: 81, Mismatches: 4, Indels: 30
0.70 0.03 0.26
Matches are distributed among these distances:
6 2 0.02
7 14 0.17
8 22 0.27
9 17 0.21
10 13 0.16
11 9 0.11
12 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
TAAATATA
Found at i:37469 original size:16 final size:16
Alignment explanation
Indices: 37450--37493 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
37440 AATTAGATTG
*
37450 TTTTATGTTTAGGTAA
1 TTTTATGTTTAAGTAA
**
37466 TTTTAAATTTAAGTAA
1 TTTTATGTTTAAGTAA
*
37482 TTTTTTGTTTAA
1 TTTTATGTTTAA
37494 ATCATTTTGG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (16 bp):
TTTTATGTTTAAGTAA
Found at i:40363 original size:15 final size:15
Alignment explanation
Indices: 40343--40373 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
40333 CTTTCTTACC
40343 TTTATTATTTATTTT
1 TTTATTATTTATTTT
*
40358 TTTATTCTTTATTTT
1 TTTATTATTTATTTT
40373 T
1 T
40374 AGAAAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTATTTATTTT
Found at i:47021 original size:2 final size:2
Alignment explanation
Indices: 47014--47046 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
47004 GAGATTTTCA
*
47014 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47047 AATAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:48238 original size:18 final size:17
Alignment explanation
Indices: 48215--48248 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48205 ATGCCACTCT
*
48215 TTTTTTTTTACTTTTTAA
1 TTTTTTTGTA-TTTTTAA
48233 TTTTTTTGTATTTTTA
1 TTTTTTTGTATTTTTA
48249 TCTCTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTTTGTATTTTTAA
Found at i:50430 original size:21 final size:20
Alignment explanation
Indices: 50406--50448 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
50396 CTAAATTATT
50406 AAATAATATAGTTAAAATTTA
1 AAATAATATA-TTAAAATTTA
* * *
50427 AAATTATTTATTTAAATTTA
1 AAATAATATATTAAAATTTA
50447 AA
1 AA
50449 GACTTACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATAATATATTAAAATTTA
Found at i:55054 original size:19 final size:18
Alignment explanation
Indices: 55029--55093 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
55019 ATTTCAACGA
55029 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
55047 TGTTGTATCG--ACACAA-
1 T-TTGTATCGATACATAAG
55063 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
55079 TTTTGTATCGATACA
1 -TTTGTATCGATACA
55094 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 7 0.18
15 5 0.13
17 5 0.13
18 1 0.03
19 20 0.53
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:55072 original size:32 final size:32
Alignment explanation
Indices: 55031--55101 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
55021 TTCAACGATT
55031 TGTATCGATACATAAGTGTTGTATCGACACAA
1 TGTATCGATACATAAGTGTTGTATCGACACAA
* *
55063 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGACACAA
55095 TGTATCG
1 TGTATCG
55102 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGACACAA
Found at i:55164 original size:13 final size:13
Alignment explanation
Indices: 55146--55170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55136 ATTACTCAAA
55146 TGTATCGATACAT
1 TGTATCGATACAT
55159 TGTATCGATACA
1 TGTATCGATACA
55171 CTGATTTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:58630 original size:76 final size:78
Alignment explanation
Indices: 58529--58732 Score: 218
Period size: 76 Copynumber: 2.6 Consensus size: 78
58519 GAGATAATAA
* * * * *
58529 CGGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-
*
58593 A-TT-AGAA-AAAAT
64 ATTTGAGAATAAAAC
* * **
58605 CGGGATTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCTAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* *
58670 TTTGGGAATAAAGC
65 TTTGAGAATAAAAC
* * *
58684 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
58733 GAAATAACGA
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 7 0.07
76 47 0.45
77 2 0.02
78 3 0.03
79 45 0.43
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTGAGAATAAAAC
Found at i:58724 original size:28 final size:28
Alignment explanation
Indices: 58684--58755 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
58674 GGAATAAAGC
** *
58684 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
58712 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
58740 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
58756 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:58813 original size:52 final size:50
Alignment explanation
Indices: 58744--58913 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
58734 AAATAACGAG
* * *
58744 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
58796 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
*
58849 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
58900 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
58914 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:58932 original size:28 final size:28
Alignment explanation
Indices: 58887--58968 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
58877 AGTGTTTTAA
* *
58887 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
58914 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
58941 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
58969 GATTGTGGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:61348 original size:13 final size:13
Alignment explanation
Indices: 61330--61355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61320 ACAAAGATCC
61330 ATGTATCGATACA
1 ATGTATCGATACA
61343 ATGTATCGATACA
1 ATGTATCGATACA
61356 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:61351 original size:33 final size:33
Alignment explanation
Indices: 61309--61375 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
61299 AAAATTTCCA
***
61309 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
61342 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
61375 A
1 A
61376 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:61419 original size:19 final size:18
Alignment explanation
Indices: 61395--61462 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
61385 CAGTAGCTAA
61395 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
61414 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
61429 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
61446 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
61463 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:61435 original size:13 final size:13
Alignment explanation
Indices: 61417--61441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61407 ACAATACTTA
61417 TGTATCGATACAT
1 TGTATCGATACAT
61430 TGTATCGATACA
1 TGTATCGATACA
61442 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61439 original size:32 final size:32
Alignment explanation
Indices: 61398--61460 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
61388 TAGCTAATTA
*
61398 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
61430 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
61461 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:61542 original size:21 final size:21
Alignment explanation
Indices: 61518--61574 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
61508 CATTTGTAGG
61518 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
61539 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
61560 ATGTATCGATACATT
1 ATGTATCGATACATT
61575 TAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:61605 original size:19 final size:18
Alignment explanation
Indices: 61582--61617 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
61572 ATTTAATTTT
61582 TTTTTTTTTTTTTTCAAA
1 TTTTTTTTTTTTTTCAAA
61600 TTTTTTTTTTTTTTCAAA
1 TTTTTTTTTTTTTTCAAA
61618 CACTTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTTTTTTCAAA
Found at i:62264 original size:55 final size:54
Alignment explanation
Indices: 62180--64177 Score: 3076
Period size: 55 Copynumber: 36.3 Consensus size: 54
62170 ATAAATTGTA
* * * * * *
62180 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
62235 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
62290 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
62345 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
62400 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
62455 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
62510 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
62565 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
62620 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
62675 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
62730 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
62785 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
62840 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
62895 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
62950 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
63005 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
63060 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
63115 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
63170 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
63225 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
63280 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
63335 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
63390 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
63445 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
63500 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
63555 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
63610 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
63665 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
63720 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
63775 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
63830 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
63885 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
63940 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
63995 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
64050 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCATCTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
64105 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
64160 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
64178 AAAAAGCGGA
Statistics
Matches: 1838, Mismatches: 62, Indels: 86
0.93 0.03 0.04
Matches are distributed among these distances:
53 6 0.00
54 50 0.03
55 1728 0.94
56 48 0.03
57 6 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:64100 original size:28 final size:28
Alignment explanation
Indices: 63959--64100 Score: 73
Period size: 28 Copynumber: 5.1 Consensus size: 28
63949 TTGAGGACTG
*
63959 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCATCTTGTGTGGGCTTT
* ** * * *
63987 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 GAAA-ATG-CCACCATCTTGTGTGGGCTTT
*
64014 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCATCTTGTGTGGGCTTT
** * * *
64042 -AAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 GAAAA--TG-CCACCATCTTGTGTGGGCTTT
64069 GAAAATGCCACCATCTTGTGTGGGCTTT
1 GAAAATGCCACCATCTTGTGTGGGCTTT
64097 GAAA
1 GAAA
64101 GGTGTCCTGC
Statistics
Matches: 77, Mismatches: 25, Indels: 24
0.61 0.20 0.19
Matches are distributed among these distances:
25 6 0.08
26 11 0.14
27 20 0.26
28 24 0.31
29 10 0.13
30 6 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (28 bp):
GAAAATGCCACCATCTTGTGTGGGCTTT
Found at i:64125 original size:26 final size:26
Alignment explanation
Indices: 64043--64130 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
64033 GTGGGCTTTA
64043 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACT-G
* ** * *
64070 AAA-ATG-CCACCATCTTGTGTGGGCTTTG
1 AAAGGTGTCCTGC-TCTT-TGAGGAC--TG
64098 AAAGGTGTCCTGCTCTTTGAGGACTG
1 AAAGGTGTCCTGCTCTTTGAGGACTG
64124 AAAGGTG
1 AAAGGTG
64131 CCACCAACTT
Statistics
Matches: 45, Mismatches: 10, Indels: 13
0.66 0.15 0.19
Matches are distributed among these distances:
25 3 0.07
26 15 0.33
27 8 0.18
28 9 0.20
29 7 0.16
30 3 0.07
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.30
Consensus pattern (26 bp):
AAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:65163 original size:1 final size:1
Alignment explanation
Indices: 65159--65224 Score: 69
Period size: 1 Copynumber: 66.0 Consensus size: 1
65149 CTTTTCTCTC
* * * * ** *
65159 TTTTTCTTTGTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTGCTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
65224 T
1 T
65225 GAAGAGAAGG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.05, G:0.06, T:0.89
Consensus pattern (1 bp):
T
Found at i:65188 original size:26 final size:26
Alignment explanation
Indices: 65160--65225 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
65150 TTTTCTCTCT
* * * *
65160 TTTTCTTTGTTTTGTTTTTGTTTTTT
1 TTTTTTTTTTTTTGTTTTTGCTCTTT
*
65186 TTTTTTTTTTTTTTTTTTTGCTCTTT
1 TTTTTTTTTTTTTGTTTTTGCTCTTT
65212 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
65226 AAGAGAAGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.88
Consensus pattern (26 bp):
TTTTTTTTTTTTTGTTTTTGCTCTTT
Found at i:65192 original size:20 final size:19
Alignment explanation
Indices: 65159--65225 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
65149 CTTTTCTCTC
* *
65159 TTTTTCTTTGTTTTGTTTT
1 TTTTTTTTTGTTTTTTTTT
*
65178 TGTTTTTTT-TTTTTTTTT
1 TTTTTTTTTGTTTTTTTTT
*
65196 TTTTTTTTTGCTCTTTTTTT
1 TTTTTTTTTG-TTTTTTTTT
65216 TTTTTTTTTG
1 TTTTTTTTTG
65226 AAGAGAAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 16 0.39
19 7 0.17
20 18 0.44
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTGTTTTTTTTT
Found at i:77742 original size:76 final size:78
Alignment explanation
Indices: 77641--77844 Score: 218
Period size: 76 Copynumber: 2.6 Consensus size: 78
77631 GAGATAATAA
* * * * *
77641 CGGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-
*
77705 A-TT-AGAA-AAAAT
64 ATTTGAGAATAAAAC
* * **
77717 CGGGATTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCTAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* *
77782 TTTGGGAATAAAGC
65 TTTGAGAATAAAAC
* * *
77796 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
77845 GAAATAACGA
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 7 0.07
76 47 0.45
77 2 0.02
78 3 0.03
79 45 0.43
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTGAGAATAAAAC
Found at i:77836 original size:28 final size:28
Alignment explanation
Indices: 77796--77867 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
77786 GGAATAAAGC
** *
77796 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
77824 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
77852 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
77868 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:77925 original size:52 final size:50
Alignment explanation
Indices: 77856--78025 Score: 173
Period size: 52 Copynumber: 3.3 Consensus size: 50
77846 AAATAACGAG
* * *
77856 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
77908 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
* *
77961 -TTGGAGTATCCCTGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
78012 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
78026 TCGAAAATAA
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 79 0.81
53 12 0.12
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:78044 original size:28 final size:28
Alignment explanation
Indices: 77999--78080 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
77989 AGTGTTTTAA
* *
77999 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
78026 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
78053 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
78081 GATTGTGGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:80460 original size:13 final size:13
Alignment explanation
Indices: 80442--80467 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80432 ACAAAGATCC
80442 ATGTATCGATACA
1 ATGTATCGATACA
80455 ATGTATCGATACA
1 ATGTATCGATACA
80468 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:80479 original size:33 final size:33
Alignment explanation
Indices: 80421--80487 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
80411 AAAATTTCCA
***
80421 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
* *
80454 AATGTATCGATACACAGAAAAATGTATTGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
80487 A
1 A
80488 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:80531 original size:19 final size:18
Alignment explanation
Indices: 80507--80574 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
80497 CAGTAGCTAA
80507 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
80526 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
80541 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
80558 TTATGTATCAATACAAA
1 TTATGTATCGATACAAA
80575 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:80547 original size:13 final size:13
Alignment explanation
Indices: 80529--80553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80519 ACAATACTTA
80529 TGTATCGATACAT
1 TGTATCGATACAT
80542 TGTATCGATACA
1 TGTATCGATACA
80554 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80548 original size:32 final size:32
Alignment explanation
Indices: 80510--80572 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
80500 TAGCTAATTA
* *
80510 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCAATACAT
80542 TGTATCGATACAAAACTTATGTATCAATACA
1 TGTATCGATACAAAACTTATGTATCAATACA
80573 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACAT
Found at i:80654 original size:21 final size:21
Alignment explanation
Indices: 80630--80686 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
80620 CATTTGTAGG
80630 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
80651 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
80672 ATGTATCGATACATT
1 ATGTATCGATACATT
80687 TAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:80716 original size:21 final size:20
Alignment explanation
Indices: 80688--80729 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
80678 CGATACATTT
80688 AATTTTTTTTTTTTTTTTCA
1 AATTTTTTTTTTTTTTTTCA
80708 AATTTTTTTTTTTTTTTTCA
1 AATTTTTTTTTTTTTTTTCA
80728 AA
1 AA
80730 CACTTTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
AATTTTTTTTTTTTTTTTCA
Found at i:82095 original size:29 final size:29
Alignment explanation
Indices: 81956--82153 Score: 119
Period size: 29 Copynumber: 6.8 Consensus size: 29
81946 TTTTATGACT
* * *
81956 ATTTATGCAAATTCATGCATTTTAGGGTC
1 ATTTATGTAATTTCATGCATTTTAGGATC
* * *
81985 ATTT-TAATAATTTGCCA--CATTTTAAGACC
1 ATTTAT-GTAATTT--CATGCATTTTAGGATC
*
82014 ATTTATGTAATTTCATGCA-TTTATGCATC
1 ATTTATGTAATTTCATGCATTTTA-GGATC
*
82043 ATTT-TAGTCATTTGCCATG-A-TTTAGGATC
1 ATTTAT-GTAATTT--CATGCATTTTAGGATC
* *
82072 ATTTATGTAATTTCATGCATTTTAGGGTT
1 ATTTATGTAATTTCATGCATTTTAGGATC
*
82101 ATTGT-GGTAATTTGCCATG--TTTTAGGATC
1 ATT-TATGTAATTT--CATGCATTTTAGGATC
* *
82130 ATTTATGCAATTTCATGTATTTTA
1 ATTTATGTAATTTCATGCATTTTA
82154 AGTTTATTTT
Statistics
Matches: 130, Mismatches: 20, Indels: 38
0.69 0.11 0.20
Matches are distributed among these distances:
27 10 0.08
28 8 0.06
29 94 0.72
30 8 0.06
31 10 0.08
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (29 bp):
ATTTATGTAATTTCATGCATTTTAGGATC
Found at i:82351 original size:58 final size:58
Alignment explanation
Indices: 81900--82403 Score: 285
Period size: 58 Copynumber: 8.7 Consensus size: 58
81890 GTAAAGATTA
* * * * * * *
81900 TTATGTCATTTCAAGCATTTTAGGGTCAATTTAATATTTTGTCAT-ATTTTATGACTAT
1 TTATGTAATTTCATGCATTTTAGGCTCATTTTAGTAATTTGTCATGA-TTTAAGACTAT
* * * * * * *
81958 TTATGCAAATTCATGCATTTTAGGGTCATTTTAATAATTTGCCA-CATTTTAAGACCAT
1 TTATGTAATTTCATGCATTTTAGGCTCATTTTAGTAATTTGTCATGA-TTTAAGACTAT
* * * *
82016 TTATGTAATTTCATGCA-TTTATGCATCATTTTAGTCATTTGCCATGATTTAGGA-TCAT
1 TTATGTAATTTCATGCATTTTAGGC-TCATTTTAGTAATTTGTCATGATTTAAGACT-AT
* * * * * * *
82074 TTATGTAATTTCATGCATTTTAGGGTTATTGTGGTAATTTGCCATGTTTTAGGA-TCAT
1 TTATGTAATTTCATGCATTTTAGGCTCATTTTAGTAATTTGTCATGATTTAAGACT-AT
* * * * * * * * *
82132 TTATGCAATTTCATGTATTTTAAGTTTATTTTAATAATTTTTCATGATTCAAGGGCTA-
1 TTATGTAATTTCATGCATTTTAGGCTCATTTTAGTAATTTGTCATGATTTAA-GACTAT
* ** * * *
82190 TTATGTAATTTCATGCATTTTA-GCACCATTTTAGGCATTTTTCATGACTT-AGA-TGTT
1 TTATGTAATTTCATGCATTTTAGGC-TCATTTTAGTAATTTGTCATGATTTAAGACT-AT
* ** * * * *
82247 ATTATGTAATTTTATATATTTT-TGCATTATTTTCGATAGTTT-TCATGATTTAAGACTAT
1 -TTATGTAATTTCATGCATTTTAGGC-TCATTTTAG-TAATTTGTCATGATTTAAGACTAT
* ** * * *
82306 TTATGCAATTGAATGCATTTTAGGCTCATTTTAGTAATTTGTCATGTTTTAGGGA-TTT
1 TTATGTAATTTCATGCATTTTAGGCTCATTTTAGTAATTTGTCATGATTTA-AGACTAT
* * * ** *
82364 TTATATAATTCCATGCATTTTAAGAACATTTTAGTCATTT
1 TTATGTAATTTCATGCATTTTAGGCTCATTTTAGTAATTT
82404 TCCATAATTT
Statistics
Matches: 347, Mismatches: 81, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
55 1 0.00
56 1 0.00
57 12 0.03
58 312 0.90
59 19 0.05
60 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (58 bp):
TTATGTAATTTCATGCATTTTAGGCTCATTTTAGTAATTTGTCATGATTTAAGACTAT
Found at i:84249 original size:26 final size:26
Alignment explanation
Indices: 84220--84269 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
84210 TTAAAAATGT
84220 TAAATAA-AATATTTAATTAAATATAA
1 TAAATAATAA-ATTTAATTAAATATAA
* *
84246 TAAATAATAAATTTTATTATATAT
1 TAAATAATAAATTTAATTAAATAT
84270 TTTTAATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAATAATAAATTTAATTAAATATAA
Found at i:84533 original size:34 final size:35
Alignment explanation
Indices: 84473--84538 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
84463 AAATTGAAAG
* *
84473 AATATAATTTTAAATCTATTTTATTATCTAATATA
1 AATATAATTTAAAATCTATTTAATTATCTAATATA
*
84508 AATATAATTTAATAAT-T-TTTAATTATTTAAT
1 AATATAATTTAA-AATCTATTTAATTATCTAAT
84539 TACTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 12 0.44
35 12 0.44
36 3 0.11
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (35 bp):
AATATAATTTAAAATCTATTTAATTATCTAATATA
Found at i:84812 original size:2 final size:2
Alignment explanation
Indices: 84807--84833 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84797 GAAGAAAAAA
84807 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
84834 AAACATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85732 original size:20 final size:20
Alignment explanation
Indices: 85703--85759 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
85693 ATTAAAAAAG
85703 AATTTAAATAGTAAATAAGT
1 AATTTAAATAGTAAATAAGT
* *
85723 AATTTTAATATTAAATAAGT
1 AATTTAAATAGTAAATAAGT
*
85743 -ATTGAATATAGTAAATA
1 AATTTAA-ATAGTAAATA
85760 CTTAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.39
Consensus pattern (20 bp):
AATTTAAATAGTAAATAAGT
Found at i:86700 original size:12 final size:12
Alignment explanation
Indices: 86673--86707 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
86663 TCTTAAGTGC
*
86673 AACTAAATAAATT
1 AACTAAAT-TATT
86686 AACTAAATTATT
1 AACTAAATTATT
86698 AACTAAATTA
1 AACTAAATTA
86708 AACTTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (12 bp):
AACTAAATTATT
Found at i:87291 original size:3 final size:3
Alignment explanation
Indices: 87283--87311 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
87273 TACAACCCTC
87283 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
87312 GTTCATAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:87447 original size:17 final size:16
Alignment explanation
Indices: 87423--87467 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
87413 TTAAATAAAT
*
87423 TATATTTTATTTATTA
1 TATATTTTATTTATAA
87439 TATTATTTTA-TTA-AA
1 TA-TATTTTATTTATAA
87454 TATATTTTATTTAT
1 TATATTTTATTTAT
87468 GTCATATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 5 0.20
17 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATTTTATTTATAA
Found at i:87679 original size:2 final size:2
Alignment explanation
Indices: 87662--87703 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
87652 CTGTTTAAAA
*
87662 AT AT -T AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87702 AT
1 AT
87704 TTTACGACGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:89215 original size:20 final size:20
Alignment explanation
Indices: 89162--89215 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
89152 TTTCACGTAT
89162 TAATATATTTTTAT---ATA
1 TAATATATTTTTATAAAATA
89179 TAATA-ATTATATT-TAAAATA
1 TAATATATT-T-TTATAAAATA
89199 TAATATATTTTTATAAA
1 TAATATATTTTTATAAA
89216 TTTTAATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 2 0.07
19 2 0.07
20 13 0.43
21 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATATATTTTTATAAAATA
Found at i:89222 original size:20 final size:20
Alignment explanation
Indices: 89162--89223 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
89152 TTTCACGTAT
* *
89162 TAATATATTTTTATATATAA
1 TAATATATTTTTATAAATTA
*
89182 TAAT-TATATTTA-AAA-TA
1 TAATATATTTTTATAAATTA
*
89199 TAATATATTTTTATAAATTT
1 TAATATATTTTTATAAATTA
89219 TAATA
1 TAATA
89224 AGATAATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 10 0.29
20 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATATATTTTTATAAATTA
Found at i:89271 original size:14 final size:14
Alignment explanation
Indices: 89254--89304 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
89244 TAAATTTTGA
89254 TATATTTATATATT
1 TATATTTATATATT
*
89268 TATA-TTATATTTTT
1 TATATTTATA-TATT
89282 TATATTATATTATATTT
1 TATATT-TA-TATA-TT
89299 TATATT
1 TATATT
89305 AATTTCATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.17
14 11 0.37
15 1 0.03
16 3 0.10
17 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATTTATATATT
Found at i:89276 original size:19 final size:18
Alignment explanation
Indices: 89254--89304 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
89244 TAAATTTTGA
89254 TATATTTATATATTTATAT
1 TATATTT-TATATTTATAT
*
89273 TATATTTTTTATATTATAT
1 TATATTTTATAT-TTATAT
89292 TATATTTTATATT
1 TATATTTTATATT
89305 AATTTCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 24 0.83
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATTTTATATTTATAT
Found at i:91517 original size:12 final size:12
Alignment explanation
Indices: 91500--91524 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91490 GACTGATTGA
91500 TTTATTATCTGT
1 TTTATTATCTGT
91512 TTTATTATCTGT
1 TTTATTATCTGT
91524 T
1 T
91525 CGATTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTATTATCTGT
Found at i:92450 original size:17 final size:15
Alignment explanation
Indices: 92428--92468 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
92418 CTCAAACTCT
92428 GAAAAAGAAATTAAAAA
1 GAAAAAGAAATT--AAA
92445 GAAAAAGAAAATTAAA
1 GAAAAAG-AAATTAAA
92461 GAAAAAGA
1 GAAAAAGA
92469 CGGCACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 10 0.43
17 7 0.30
18 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (15 bp):
GAAAAAGAAATTAAA
Found at i:93030 original size:2 final size:2
Alignment explanation
Indices: 93025--93063 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
93015 TGCCAAACGC
93025 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93064 TATTTTCACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:93622 original size:17 final size:17
Alignment explanation
Indices: 93580--93622 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
93570 ATTTATCTAT
93580 TAATTTTTTTAAAAAAA
1 TAATTTTTTTAAAAAAA
**
93597 T-ATTATTTTTAAAATTA
1 TAATT-TTTTTAAAAAAA
93614 TAATTTTTT
1 TAATTTTTT
93623 CACCTGCCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTTTTTTAAAAAAA
Found at i:94973 original size:23 final size:24
Alignment explanation
Indices: 94942--94986 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
94932 CAGTTCTTTG
*
94942 AAATGGGTAATTTTT-TAAAAGGT
1 AAATAGGTAATTTTTATAAAAGGT
94965 AAATAGGTAATTTTTATAAAAG
1 AAATAGGTAATTTTTATAAAAG
94987 ATATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (24 bp):
AAATAGGTAATTTTTATAAAAGGT
Found at i:95042 original size:18 final size:19
Alignment explanation
Indices: 95019--95061 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
95009 ATATAATTAT
95019 TTTTATTAAATTT-TTTAA
1 TTTTATTAAATTTATTTAA
* *
95037 TTTTA-TAATTTTATTTTA
1 TTTTATTAAATTTATTTAA
95055 TTTTATT
1 TTTTATT
95062 TTTATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 14 0.67
19 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTAAATTTATTTAA
Found at i:103204 original size:12 final size:12
Alignment explanation
Indices: 103174--103216 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
103164 CAGCAGCTGC
*
103174 CTTCTTCTCCTT
1 CTTCTTTTCCTT
103186 -TTCCTTTTCCTT
1 CTT-CTTTTCCTT
*
103198 CTTCTTTTTCTT
1 CTTCTTTTCCTT
103210 CTTCTTT
1 CTTCTTT
103217 GCTGCAGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 2 0.07
12 23 0.85
13 2 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
CTTCTTTTCCTT
Found at i:104972 original size:18 final size:18
Alignment explanation
Indices: 104949--104995 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
104939 ATGATCGTTT
104949 TAAATTATT-ATATTTATA
1 TAAATTATTAATATTTA-A
104967 TAAATT-TTAATATTTAA
1 TAAATTATTAATATTTAA
*
104984 TAATTTA-TAATA
1 TAAATTATTAATA
104996 ATAGATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAATTATTAATATTTAA
Found at i:104994 original size:17 final size:19
Alignment explanation
Indices: 104949--104995 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
104939 ATGATCGTTT
*
104949 TAAA-TTATTATATTTATA
1 TAAATTTATAATATTTATA
104967 TAAATTT-TAATATTTA-A
1 TAAATTTATAATATTTATA
104984 T-AATTTATAATA
1 TAAATTTATAATA
104996 ATAGATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 12 0.46
19 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATTTATAATATTTATA
Found at i:105072 original size:65 final size:60
Alignment explanation
Indices: 104965--105361 Score: 271
Period size: 61 Copynumber: 6.7 Consensus size: 60
104955 ATTATATTTA
*
104965 TATAAATTTTAATATTTAATAATTTATAATAATAGATTTTGATATT-TTAATAATTTATAATG
1 TATAAATTTTAATATTTAATAATTTATAATAATAAATTTTGAT-TTATT-AT-ATTTATAATG
*
105027 TATAAATTTTAATATAATTATTATATTTAT-ATATATAAATTTTGATTTATTATATTTAT-A--
1 TATAAATTTTAATAT--TTAATA-ATTTATAATA-ATAAATTTTGATTTATTATATTTATAATG
* * ** * * *
105087 -A-AAATTTTAATATTTTAATAATTTATAATATATAGATTTGGATACAAT-TA-TTATATTTA
1 TATAAATTTTAATA-TTTAATAATTTATAATA-ATAAATTTTGATTTATTATATTTATA-ATG
* * *
105146 TATAAATTTTAATATTTTAATAATTTATAATATATAGATTTTAATTTATTGTA-TT-T-A--
1 TATAAATTTTAATA-TTTAATAATTTATAATA-ATAAATTTTGATTTATTATATTTATAATG
* * * * *
105203 TATAAA-TTTGATATTTTAATAATTTATAATATATAAATTTTGATATAAT-TA-TTATATTTT
1 TATAAATTTTAATA-TTTAATAATTTATAATA-ATAAATTTTGATTTATTATATTTATA-ATG
* * * *
105263 TATAAATTTTAATATTCTAATAATTTAAAATATATTAATTTTAAATTATTATA-TT-T-A--
1 TATAAATTTTAATATT-TAATAATTTATAATA-ATAAATTTTGATTTATTATATTTATAATG
*
105320 TATAAATTTTAATATTTTAATAATTTATAATATATAATTTTT
1 TATAAATTTTAATA-TTTAATAATTTATAATA-ATAAATTTT
105362 AAAATATATA
Statistics
Matches: 280, Mismatches: 32, Indels: 51
0.77 0.09 0.14
Matches are distributed among these distances:
55 8 0.03
56 47 0.17
57 63 0.22
58 13 0.05
59 2 0.01
60 9 0.03
61 77 0.28
62 24 0.09
63 6 0.02
64 12 0.04
65 19 0.07
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (60 bp):
TATAAATTTTAATATTTAATAATTTATAATAATAAATTTTGATTTATTATATTTATAATG
Found at i:105100 original size:23 final size:23
Alignment explanation
Indices: 104954--105100 Score: 56
Period size: 24 Copynumber: 6.2 Consensus size: 23
104944 CGTTTTAAAT
*
104954 TATTATATTTATATAAATTTTAA
1 TATTATATTTATAAAAATTTTAA
*
104977 TATTTAATAATTTATAATAA---TAGA
1 TA-TT-AT-ATTTATAAAAATTTTA-A
* *
105001 TTTTGATATTT-TAATAATTTATAA
1 TATT-ATATTTATAAAAATTT-TAA
* *
105025 TGTATAAATTT-TAATATAATTATT-A
1 TAT-TATATTTATAA-A-AATT-TTAA
* * *
105050 TATT-TATATATATAAATTTTGATT
1 TATTATATTTATAAAAATTTT-A-A
105074 TATTATATTTATAAAAATTTTAA
1 TATTATATTTATAAAAATTTTAA
105097 TATT
1 TATT
105101 TTAATAATTT
Statistics
Matches: 92, Mismatches: 15, Indels: 34
0.65 0.11 0.24
Matches are distributed among these distances:
21 8 0.09
22 8 0.09
23 16 0.17
24 23 0.25
25 22 0.24
26 14 0.15
27 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (23 bp):
TATTATATTTATAAAAATTTTAA
Found at i:105101 original size:18 final size:18
Alignment explanation
Indices: 105071--105117 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
105061 ATAAATTTTG
*
105071 ATTTATTATATTTATAAAA
1 ATTTATAATATTT-TAAAA
*
105090 ATTT-TAATATTTTAATA
1 ATTTATAATATTTTAAAA
105107 ATTTATAATAT
1 ATTTATAATAT
105118 ATAGATTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 13 0.52
19 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTATAATATTTTAAAA
Found at i:105144 original size:61 final size:60
Alignment explanation
Indices: 104949--105378 Score: 487
Period size: 57 Copynumber: 7.2 Consensus size: 60
104939 ATGATCGTTT
104949 TAAATTATTATATTTATATAAATTTTAATA-TTTAATAATTTATAATA-ATAGATTTTGA
1 TAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGATTTTGA
* * * * * *
105007 TATTTTAATAATT-TATAATGTATAAATTTTAATATAATTATTATATTTAT-ATATATAAATTTT
1 TA----AATTATTATAT-TTATATAAATTTTAATAT-TTTAATA-ATTTATAATATATAGATTTT
105070 GA
59 GA
* *
105072 T---TTATTATATTTATAAAAATTTTAATATTTTAATAATTTATAATATATAGATTTGGA
1 TAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGATTTTGA
105129 TACAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGA-TTT--
1 TA-AATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGATTTTGA
* * * *
105187 TAATTTATTGTATTTATATAAA-TTTGATATTTTAATAATTTATAATATATAAATTTTGA
1 TAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGATTTTGA
* * *
105246 TATAATTATTATATTTTTATAAATTTTAATATTCTAATAATTTAAAATATATTA-A-TTT--
1 TA-AATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATA-TAGATTTTGA
*
105304 TAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATA-ATTTTTA
1 TAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGATTTTGA
*
105363 AAATATATATTATATT
1 TAA-AT-TATTATATT
105379 ACATCATATT
Statistics
Matches: 316, Mismatches: 30, Indels: 49
0.80 0.08 0.12
Matches are distributed among these distances:
56 38 0.12
57 88 0.28
58 25 0.08
59 7 0.02
60 24 0.08
61 86 0.27
62 23 0.07
64 8 0.03
65 17 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (60 bp):
TAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGATTTTGA
Found at i:105168 original size:18 final size:18
Alignment explanation
Indices: 105078--105178 Score: 50
Period size: 18 Copynumber: 5.2 Consensus size: 18
105068 TTGATTTATT
105078 ATATTTATAA-AAATTTTA
1 ATATTT-TAATAAATTTTA
105096 ATATTTTAAT-AATTTATAA
1 ATATTTTAATAAATTT-T-A
*
105115 TATATAGATTTGGATACAATTATT-
1 -ATAT---TTT-AATA-AATT-TTA
105139 ATA-TTTATATAAATTTTA
1 ATATTTTA-ATAAATTTTA
105157 ATATTTTAAT-AATTTATA
1 ATATTTTAATAAATTT-TA
105175 ATAT
1 ATAT
105179 ATAGATTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 30
0.67 0.02 0.31
Matches are distributed among these distances:
17 15 0.23
18 22 0.33
19 11 0.17
20 4 0.06
23 6 0.09
24 2 0.03
26 5 0.08
27 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (18 bp):
ATATTTTAATAAATTTTA
Found at i:105254 original size:117 final size:117
Alignment explanation
Indices: 104946--105378 Score: 545
Period size: 117 Copynumber: 3.7 Consensus size: 117
104936 GTTATGATCG
*
104946 TTTTAAATTATTATATTTATATAAATTTTAATA-TTTAATAATTTATAATA-ATAGATTTTGATA
1 TTTTAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAAATTTTGATA
* * * * *
105009 TTTTAATAATT-TATAATGTATAAATTTTAATATAATTATTATATTTAT-ATATATAAA
66 ---TAATTATTATAT-TTATATAAATTTTAATAT-TTTAATA-ATTTATAATATAT-AA
* * * * *
105066 TTTTGATTTATTATATTTATAAAAATTTTAATATTTTAATAATTTATAATATATAGATTTGGATA
1 TTTTAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAAATTTTGATA
*
105131 CAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAGA
66 TAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATA-A
* * *
105184 TTTTAATTTATTGTATTTATATAAA-TTTGATATTTTAATAATTTATAATATATAAATTTTGATA
1 TTTTAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAAATTTTGATA
* * *
105248 TAATTATTATATTTTTATAAATTTTAATATTCTAATAATTTAAAATATATTAA
66 TAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATA-TAA
* * *
105301 TTTTAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAATTTTTAAAA
1 TTTTAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAAATTTTGATA
105366 T-ATATATTATATT
66 TAAT-TATTATATT
105379 ACATCATATT
Statistics
Matches: 279, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
117 114 0.41
118 81 0.29
119 22 0.08
120 33 0.12
121 17 0.06
122 12 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (117 bp):
TTTTAAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAAATTTTGATA
TAATTATTATATTTATATAAATTTTAATATTTTAATAATTTATAATATATAA
Found at i:105390 original size:61 final size:58
Alignment explanation
Indices: 105027--105420 Score: 360
Period size: 61 Copynumber: 6.6 Consensus size: 58
105017 ATTTATAATG
* * *
105027 TATAAATTTTAATATAATTATTATATTTAT-ATATATAAATTTT--GAT-TTATTATATTTA
1 TATAAATTTTAATAT-TTTAATA-ATTTATAATATAT-AATTTTAAAATATTATTATA-TTA
* * *
105085 TAAAAATTTTAATATTTTAATAATTTATAATATATAGATTTGGATACA-ATTATTATATTTA
1 TATAAATTTTAATATTTTAATAATTTATAATATATA-ATTT-TA-AAATATTATTATA-TTA
*
105146 TATAAATTTTAATATTTTAATAATTTATAATATATAGATTTT--AAT-TTATTGTATTTA
1 TATAAATTTTAATATTTTAATAATTTATAATATATA-ATTTTAAAATATTATTATA-TTA
* * * *
105203 TATAAA-TTTGATATTTTAATAATTTATAATATATAAATTTTGATATAATTATTATATTTT
1 TATAAATTTTAATATTTTAATAATTTATAATATAT-AATTTTAAAAT-ATTATTATA-TTA
* * *
105263 TATAAATTTTAATATTCTAATAATTTAAAATATATTAATTTTAAATTATTA-TAT-TTA
1 TATAAATTTTAATATTTTAATAATTTATAATATA-TAATTTTAAAATATTATTATATTA
105320 TATAAATTTTAATATTTTAATAATTTATAATATATAATTTTTAAAATATATATTATATTA
1 TATAAATTTTAATATTTTAATAATTTATAATATATAA-TTTTAAAATAT-TATTATATTA
* * * * *
105380 CATCATATTTTAATTAATTTATTAATATTATATTTATATAA
1 TAT-AAATTTTAA-TATTTTAATAAT-TTATA-ATATATAA
105421 GGATGCTTAA
Statistics
Matches: 285, Mismatches: 28, Indels: 40
0.81 0.08 0.11
Matches are distributed among these distances:
56 42 0.15
57 78 0.27
58 18 0.06
59 6 0.02
60 25 0.09
61 93 0.33
62 11 0.04
63 5 0.02
64 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (58 bp):
TATAAATTTTAATATTTTAATAATTTATAATATATAATTTTAAAATATTATTATATTA
Found at i:105601 original size:13 final size:13
Alignment explanation
Indices: 105585--105623 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
105575 TGTAATATTT
105585 TTTATAATATATA
1 TTTATAATATATA
105598 TTTATAATATATA
1 TTTATAATATATA
* *
105611 TATATAATCTATA
1 TTTATAATATATA
105624 AATATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTATAATATATA
Found at i:105628 original size:13 final size:13
Alignment explanation
Indices: 105587--105642 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
105577 TAATATTTTT
**
105587 TATAATATATATT
1 TATAATATATAAA
*
105600 TATAATATATATA
1 TATAATATATAAA
*
105613 TATAATCTATAAA
1 TATAATATATAAA
* *
105626 TATTATAT-TATA
1 TATAATATATAAA
105638 TATAA
1 TATAA
105643 AAAACATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
12 7 0.19
13 29 0.81
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATATATAAA
Found at i:105740 original size:16 final size:16
Alignment explanation
Indices: 105701--105742 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
105691 CAATATTTTA
105701 AATATTTATCATAAAT
1 AATATTTATCATAAAT
* *
105717 -ATCTTTTATTATAAAT
1 AAT-ATTTATCATAAAT
105733 AATATTTATC
1 AATATTTATC
105743 TAATTTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 4
0.71 0.14 0.14
Matches are distributed among these distances:
15 2 0.10
16 16 0.80
17 2 0.10
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTTATCATAAAT
Found at i:105772 original size:24 final size:22
Alignment explanation
Indices: 105720--105777 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 22
105710 CATAAATATC
*
105720 TTTTA-TTATAAATAATATTTA
1 TTTTATTTATAAATAAAATTTA
* *
105741 TCTAATTTATAAATAAAAAATTTA
1 TTTTATTTATAAAT--AAAATTTA
105765 TTTTATTTA-AAAT
1 TTTTATTTATAAAT
105778 TTTGTTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.10
22 8 0.28
23 4 0.14
24 14 0.48
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTATTTATAAATAAAATTTA
Found at i:107239 original size:16 final size:17
Alignment explanation
Indices: 107218--107263 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
107208 ATTTTCCTTA
107218 AAATTAAATTTTAATT-
1 AAATTAAATTTTAATTC
*
107234 AAATTATATTTTAATTC
1 AAATTAAATTTTAATTC
*
107251 AAA-TAAATATTAA
1 AAATTAAATTTTAA
107264 ATATTTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTAAATTTTAATTC
Found at i:108489 original size:20 final size:22
Alignment explanation
Indices: 108422--108489 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
108412 TTTGTCTCAA
*
108422 AATTAAAATATAATTAA-ATATA-
1 AATTAAAATAT--TTAATATTTAT
*
108444 AATTTAAAATATTTAATATTTTT
1 AA-TTAAAATATTTAATATTTAT
108467 AATTAAAAT-TTTAAT-TTTAT
1 AATTAAAATATTTAATATTTAT
108487 AAT
1 AAT
108490 AATTAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.17
21 10 0.25
22 12 0.30
23 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTAAAATATTTAATATTTAT
Found at i:108504 original size:21 final size:22
Alignment explanation
Indices: 108478--108519 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
108468 ATTAAAATTT
*
108478 TAATTTTATAA-TAATTAAATA
1 TAATTTTAAAACTAATTAAATA
108499 TAATTTTAAAACTAATTAAAT
1 TAATTTTAAAACTAATTAAAT
108520 TTTTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTTTAAAACTAATTAAATA
Found at i:111907 original size:2 final size:2
Alignment explanation
Indices: 111900--111934 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
111890 ATGGTTAGGA
111900 TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
111935 ACACACACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:112704 original size:25 final size:24
Alignment explanation
Indices: 112674--112745 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
112664 ATAATATTAG
112674 ATATGATATTAAAAAAATAATTAAA
1 ATATGATA-TAAAAAAATAATTAAA
112699 ATATGATATAATATAAAA-AATTAAA
1 ATATGATATAA-A-AAAATAATTAAA
* * *
112724 AAATGATATAAATATATAATTA
1 ATATGATATAAAAAAATAATTA
112746 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 2 0.05
24 9 0.22
25 26 0.63
26 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
ATATGATATAAAAAAATAATTAAA
Found at i:112841 original size:18 final size:20
Alignment explanation
Indices: 112818--112858 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
112808 TAAATATGAT
*
112818 TAAATATAA-TAAAAT-ATA
1 TAAATACAATTAAAATAATA
112836 TAAATACAATTAAAATAATA
1 TAAATACAATTAAAATAATA
112856 TAA
1 TAA
112859 TTCATCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATACAATTAAAATAATA
Found at i:114537 original size:2 final size:2
Alignment explanation
Indices: 114532--114572 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
114522 ACTCTTTTGT
114532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114573 GCAACAGCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114626 original size:3 final size:3
Alignment explanation
Indices: 114618--114644 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
114608 TTCAATTAAC
114618 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
114645 TTGTTAACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:115504 original size:2 final size:2
Alignment explanation
Indices: 115497--115534 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
115487 TTGGCACAAT
115497 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
115535 ATTACCATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:115797 original size:2 final size:2
Alignment explanation
Indices: 115790--115827 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
115780 AAGCGCCTGC
115790 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
115828 TGTCATGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:123025 original size:14 final size:14
Alignment explanation
Indices: 123006--123033 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
122996 AGAGTAGGTT
123006 ATAAGTTGTGATGG
1 ATAAGTTGTGATGG
123020 ATAAGTTGTGATGG
1 ATAAGTTGTGATGG
123034 TGAATTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
ATAAGTTGTGATGG
Found at i:124392 original size:34 final size:34
Alignment explanation
Indices: 124346--124456 Score: 186
Period size: 34 Copynumber: 3.3 Consensus size: 34
124336 AAAAAATGTT
*
124346 CACCTAACACACCACCTAATATTCTCACCTAGCA
1 CACCTAACACACCACCTAATATTCTCACCTAACA
* **
124380 CACCTAATACACCACCTAATATTCTTGCCTAACA
1 CACCTAACACACCACCTAATATTCTCACCTAACA
124414 CACCTAACACACCACCTAATATTCTCACCTAACA
1 CACCTAACACACCACCTAATATTCTCACCTAACA
124448 CACCTAACA
1 CACCTAACA
124457 TACAAAGATA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 70 1.00
ACGTcount: A:0.37, C:0.40, G:0.02, T:0.22
Consensus pattern (34 bp):
CACCTAACACACCACCTAATATTCTCACCTAACA
Found at i:140248 original size:13 final size:13
Alignment explanation
Indices: 140230--140256 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
140220 ACATAATGCT
140230 TTGTATCGATACA
1 TTGTATCGATACA
140243 TTGTATCGATACA
1 TTGTATCGATACA
140256 T
1 T
140257 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:140253 original size:33 final size:32
Alignment explanation
Indices: 140211--140313 Score: 116
Period size: 38 Copynumber: 3.0 Consensus size: 32
140201 TATATCCAGA
*
140211 TGTATCGATACATAATGCTTTGTATCGATACAT
1 TGTATCGATACATAAT-CATTGTATCGATACAT
*
140244 TGTATCGATACATGATCATTGTATCGATACATGATCAT
1 TGTATCGATACATAATCATTGTATCG----AT-A-CAT
*
140282 TGTATCGATACATGATCATTGTATCGATACAT
1 TGTATCGATACATAATCATTGTATCGATACAT
140314 GCACAATTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
32 12 0.19
33 16 0.26
34 2 0.03
36 2 0.03
37 1 0.02
38 29 0.47
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAATCATTGTATCGATACAT
Found at i:140265 original size:19 final size:19
Alignment explanation
Indices: 140241--140335 Score: 165
Period size: 19 Copynumber: 4.9 Consensus size: 19
140231 TGTATCGATA
140241 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
140260 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
140279 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
140298 CATTGTATCGATACATGCA-
1 CATTGTATCGATACATG-AT
140317 CAATTGTATCGATACATGA
1 C-ATTGTATCGATACATGA
140336 AATTGGCAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
19 57 0.77
20 17 0.23
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:145799 original size:13 final size:13
Alignment explanation
Indices: 145781--145820 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
145771 ACAATGTTCT
145781 TTGTATCGATACA
1 TTGTATCGATACA
145794 TTGTATCGATACA
1 TTGTATCGATACA
145807 TTGTATCGATACA
1 TTGTATCGATACA
145820 T
1 T
145821 GGGTTACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:148336 original size:20 final size:19
Alignment explanation
Indices: 148313--148364 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
148303 AATATCTAGA
*
148313 TGTATCGATACATAATGCTT
1 TGTATCGATACATAAT-CGT
*
148333 TGTATCGATACATGATCGT
1 TGTATCGATACATAATCGT
*
148352 TATATCGATACAT
1 TGTATCGATACAT
148365 GCACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAATCGT
Found at i:148359 original size:19 final size:20
Alignment explanation
Indices: 148315--148365 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
148305 TATCTAGATG
* * *
148315 TATCGATACATAATGCTTTG
1 TATCGATACATGATGCGTTA
148335 TATCGATACATGAT-CGTTA
1 TATCGATACATGATGCGTTA
148354 TATCGATACATG
1 TATCGATACATG
148366 CACAATTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
TATCGATACATGATGCGTTA
Found at i:148379 original size:20 final size:19
Alignment explanation
Indices: 148332--148404 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
148322 ACATAATGCT
*
148332 TTGTATCGATACATGATC-G
1 TTGTATCGATACATGA-CAA
*
148351 TTATATCGATACATGCACAA
1 TTGTATCGATACATG-ACAA
* *
148371 TTGTATCGATATATGAAGAA
1 TTGTATCGATACATG-ACAA
148391 TTGTATCGATACAT
1 TTGTATCGATACAT
148405 TGTCTCAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:157272 original size:13 final size:13
Alignment explanation
Indices: 157254--157279 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
157244 CAATTTTTTG
157254 TGTATCGATACAT
1 TGTATCGATACAT
157267 TGTATCGATACAT
1 TGTATCGATACAT
157280 ACATTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:158035 original size:86 final size:87
Alignment explanation
Indices: 157939--158113 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
157929 AATAAGATAA
157939 TTTTAGCAAATTTACGCATTCTCCCCTTTTATT-AAAAAAAAATCTCCCCCTTTATAAGGTAATT
1 TTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAAAAATCTCCCCCTTTATAAGGTAATT
*
158003 TACACACATATCAAAAATTTAT
66 TACACACATATCAAAAATTGAT
158025 TTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAAAAATCTCCCCCTTTATAAGGTAATT
1 TTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAAAAATCTCCCCCTTTATAAGGTAATT
158090 TACACACATATCAAAAATTGAT
66 TACACACATATCAAAAATTGAT
158112 TT
1 TT
158114 GCACATACAT
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 33 0.38
87 54 0.62
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (87 bp):
TTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAAAAATCTCCCCCTTTATAAGGTAATT
TACACACATATCAAAAATTGAT
Found at i:159451 original size:21 final size:20
Alignment explanation
Indices: 159422--159464 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
159412 GACTAGTGTG
* *
159422 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
159443 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
159463 GG
1 GG
159465 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:165036 original size:19 final size:19
Alignment explanation
Indices: 165012--165051 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
165002 CCCTCTTCGG
165012 AACCATAGTGCCTTCGATC
1 AACCATAGTGCCTTCGATC
165031 AACCATAGTGCCTTCGATC
1 AACCATAGTGCCTTCGATC
165050 AA
1 AA
165052 TGGAATACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (19 bp):
AACCATAGTGCCTTCGATC
Found at i:166141 original size:13 final size:13
Alignment explanation
Indices: 166123--166148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
166113 CAATTTTTTG
166123 TGTATCGATACAT
1 TGTATCGATACAT
166136 TGTATCGATACAT
1 TGTATCGATACAT
166149 ACATTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:167868 original size:25 final size:25
Alignment explanation
Indices: 167818--167884 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
167808 CTTGGTCATC
*
167818 ATATTATAAA-AATATTTTAATTAATT
1 ATATTAAAAATAATA-TTTAA-TAATT
167844 ATAGTTAAAAATAATATTTAA-AATT
1 ATA-TTAAAAATAATATTTAATAATT
**
167869 ATATTGCAAATAATAT
1 ATATTAAAAATAATAT
167885 GACAATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 11 0.31
25 7 0.19
26 3 0.08
27 11 0.31
28 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (25 bp):
ATATTAAAAATAATATTTAATAATT
Found at i:168040 original size:21 final size:21
Alignment explanation
Indices: 168014--168055 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
168004 AAATAATATT
*
168014 TTATATTTAAAACATATTAAA
1 TTATATTTAAAACAGATTAAA
*
168035 TTATATTTAAAATAGATTAAA
1 TTATATTTAAAACAGATTAAA
168056 ATATCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TTATATTTAAAACAGATTAAA
Found at i:174723 original size:20 final size:20
Alignment explanation
Indices: 174698--174735 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
174688 TATCGATACA
* *
174698 ATGTATTGATACATTGTACC
1 ATGTATCGATACAATGTACC
174718 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
174736 TTGATAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:174882 original size:175 final size:168
Alignment explanation
Indices: 174591--174951 Score: 650
Period size: 175 Copynumber: 2.1 Consensus size: 168
174581 TTTCCCATAG
174591 CCATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTATAGCCG
1 CCATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTATAGCCG
174656 TTACAAGCTATGTATCGATACATTTCTTCACGTATCGATACAATGTATTGATACATTGTACCATG
66 TTACAAGCTATGTATCGATACATTTCTTCACGTATCGATACAATGTATTGATACATTGTACCATG
174721 TATCGATACAATGTATTGATAATGATAGGGTAGCTACTGCCAGTT
131 TATCGATAC-A---A---ATAATGATAGGGTAGCTACTGCCAGTT
*
174766 CCATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCGTTTATAGCCG
1 CCATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTATAGCCG
174831 TTACAAGCTATGTATCGATACATTTCTTCACGTATCGATACAATGTATTGATACATTGTACCATG
66 TTACAAGCTATGTATCGATACATTTCTTCACGTATCGATACAATGTATTGATACATTGTACCATG
174896 TATCGATACAAATAATGATAGGGTAGCTACTGCCAGTT
131 TATCGATACAAATAATGATAGGGTAGCTACTGCCAGTT
174934 CCATGTATCGATACAATT
1 CCATGTATCGATACAATT
174952 TGGCCATGTA
Statistics
Matches: 185, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
168 45 0.24
171 1 0.01
174 1 0.01
175 138 0.75
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (168 bp):
CCATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTATAGCCG
TTACAAGCTATGTATCGATACATTTCTTCACGTATCGATACAATGTATTGATACATTGTACCATG
TATCGATACAAATAATGATAGGGTAGCTACTGCCAGTT
Found at i:174976 original size:13 final size:13
Alignment explanation
Indices: 174958--174982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174948 AATTTGGCCA
174958 TGTATCGATACAT
1 TGTATCGATACAT
174971 TGTATCGATACA
1 TGTATCGATACA
174983 AAGCAGCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:175574 original size:39 final size:39
Alignment explanation
Indices: 175525--175604 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
175515 TTTTCGTTTT
* * * *
175525 TCTCCCCTTAAAAAAAATATTCTCTCCCTTAAACGATTA
1 TCTCCCCTTAAAAAAAAAACTCTCCCCCTTAAACAATTA
*
175564 TCTCCTCTTAAAAAAAAAACTCTCCCCCTTAAACAATTA
1 TCTCCCCTTAAAAAAAAAACTCTCCCCCTTAAACAATTA
175603 TC
1 TC
175605 AACTCCCCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.38, C:0.30, G:0.01, T:0.31
Consensus pattern (39 bp):
TCTCCCCTTAAAAAAAAAACTCTCCCCCTTAAACAATTA
Done.