Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001134.1 Hibiscus syriacus cultivar Beakdansim tig00002261_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: 206115
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:5843 original size:19 final size:19
Alignment explanation
Indices: 5819--5856 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5809 GAAATTATTC
5819 AAGGTGTACCGATGCACAT
1 AAGGTGTACCGATGCACAT
5838 AAGGTGTACCGATGCACAT
1 AAGGTGTACCGATGCACAT
5857 GAAGTGCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (19 bp):
AAGGTGTACCGATGCACAT
Found at i:5869 original size:19 final size:19
Alignment explanation
Indices: 5819--5872 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
5809 GAAATTATTC
*
5819 AAGGTGTACCGATGCACAT
1 AAGGTGCACCGATGCACAT
*
5838 AAGGTGTACCGATGCACAT
1 AAGGTGCACCGATGCACAT
*
5857 GAA-GTGCATCGATGCA
1 -AAGGTGCACCGATGCA
5873 ATCTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 30 0.94
20 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (19 bp):
AAGGTGCACCGATGCACAT
Found at i:6379 original size:30 final size:30
Alignment explanation
Indices: 6345--6413 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
6335 TTATATGAGT
*
6345 TATGTGATAAAGGTATGG-AAATGATATGTC
1 TATGTGATAAAGGTA-GGAAAATAATATGTC
6375 TATGTGATAAAGGTAGGAAAATAATATGTC
1 TATGTGATAAAGGTAGGAAAATAATATGTC
*
6405 TACGTGATA
1 TATGTGATA
6414 CAAATTATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGTGATAAAGGTAGGAAAATAATATGTC
Found at i:6662 original size:23 final size:23
Alignment explanation
Indices: 6632--6722 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
6622 ATTATTATAT
*
6632 GGCACTCCGGTGTAATTCTACGC
1 GGCACTCCGATGTAATTCTACGC
*
6655 GGCACTCCGATGCAATTCTACGC
1 GGCACTCCGATGTAATTCTACGC
* * * *
6678 GACACTTCGATGTAATTCTATGT
1 GGCACTCCGATGTAATTCTACGC
* * *
6701 GGCACTTCGGTGTAATTATACG
1 GGCACTCCGATGTAATTCTACG
6723 AGCTGTGGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (23 bp):
GGCACTCCGATGTAATTCTACGC
Found at i:8280 original size:27 final size:28
Alignment explanation
Indices: 8227--8284 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
8217 TAAATTACAA
*
8227 TAAAGATTTATTAATCATAATCATAAAT
1 TAAAGATTTATAAATCATAATCATAAAT
* *
8255 TAAAGATTTA-AAATTATAATCGTAAAT
1 TAAAGATTTATAAATCATAATCATAAAT
8282 TAA
1 TAA
8285 GTATATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (28 bp):
TAAAGATTTATAAATCATAATCATAAAT
Found at i:8600 original size:15 final size:15
Alignment explanation
Indices: 8577--8622 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
8567 TTTTCAGGTA
*
8577 TCTCTCTTTTCATCT
1 TCTCCCTTTTCATCT
8592 TCTCCCTTTTCATCT
1 TCTCCCTTTTCATCT
8607 TC-CCCTTTTCATCT
1 TCTCCCTTTTCATCT
8621 TC
1 TC
8623 CTTAACCTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.07, C:0.39, G:0.00, T:0.54
Consensus pattern (15 bp):
TCTCCCTTTTCATCT
Found at i:8614 original size:14 final size:14
Alignment explanation
Indices: 8582--8623 Score: 75
Period size: 14 Copynumber: 2.9 Consensus size: 14
8572 AGGTATCTCT
8582 CTTTTCATCTTCTCC
1 CTTTTCATCTTC-CC
8597 CTTTTCATCTTCCC
1 CTTTTCATCTTCCC
8611 CTTTTCATCTTCC
1 CTTTTCATCTTCC
8624 TTAACCTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.07, C:0.40, G:0.00, T:0.52
Consensus pattern (14 bp):
CTTTTCATCTTCCC
Found at i:22709 original size:13 final size:14
Alignment explanation
Indices: 22677--22746 Score: 51
Period size: 15 Copynumber: 5.1 Consensus size: 14
22667 ATTTATTTAA
22677 ATTAAATATATAAAT
1 ATTAAATATAT-AAT
22692 ATTAAATATAT-AT
1 ATTAAATATATAAT
*
22705 -TTTAAT-T-TAAT
1 ATTAAATATATAAT
*
22716 -TTAAATTTATTAAT
1 ATTAAATATA-TAAT
22730 ATTATATATATATAAT
1 ATTA-A-ATATATAAT
22746 A
1 A
22747 ATTATTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
10 1 0.02
11 8 0.18
12 6 0.13
13 2 0.04
14 4 0.09
15 14 0.31
16 6 0.13
17 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTAAATATATAAT
Found at i:22720 original size:38 final size:37
Alignment explanation
Indices: 22663--22742 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 37
22653 ATCGAGCCGG
22663 ATATA-TTTATTTAAATTAAATATATAAATATTAAAT
1 ATATATTTTATTTAAATTAAATATATAAATATTAAAT
* * * *
22699 ATATATTTTAATTTAATTTAAATTTATTAATATTATAT
1 ATATATTTT-ATTTAAATTAAATATATAAATATTAAAT
22737 ATATAT
1 ATATAT
22743 AATAATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 5 0.13
37 3 0.08
38 30 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
ATATATTTTATTTAAATTAAATATATAAATATTAAAT
Found at i:36450 original size:21 final size:21
Alignment explanation
Indices: 36413--36457 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
36403 GATTTATGGG
*
36413 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
*
36434 CAAGGGGAA-CAGATACCCCTT
1 CAAGGGGAATC-GATACCCATT
36455 CAA
1 CAA
36458 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:37060 original size:18 final size:18
Alignment explanation
Indices: 37037--37071 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37027 CTAGGAGATT
37037 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
37055 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
37072 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:37157 original size:21 final size:22
Alignment explanation
Indices: 37128--37170 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37118 GTTGTATGAT
37128 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
37149 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
37171 GAATTGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:38236 original size:149 final size:149
Alignment explanation
Indices: 38055--38358 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
38045 GAGTCGAGGG
*
38055 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGAGTGAAGTCTAGAAAGACACAT
* *
38120 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
38185 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
38204 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGAGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGAGTGAAGTCTAGAAAGACACAT
38269 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
38334 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
38353 TCTACG
1 TCTACG
38359 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGAGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:38381 original size:23 final size:23
Alignment explanation
Indices: 38337--38381 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
38327 ATCATTATAT
*
38337 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
38360 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
38382 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:46642 original size:35 final size:35
Alignment explanation
Indices: 46581--46652 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
46571 ACTATTTATT
* *
46581 TATTTATTTAAAATAATATTATTTTTAA-ATTAAC
1 TATTTATTTAAAATAATATTAATTTTAAGATAAAC
*
46615 TATTTAATTTGAAATAAT-TTAAATTTTAAGATAAAC
1 TATTT-ATTTAAAATAATATT-AATTTTAAGATAAAC
46651 TA
1 TA
46653 CATATTTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 7 0.22
35 18 0.56
36 7 0.22
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (35 bp):
TATTTATTTAAAATAATATTAATTTTAAGATAAAC
Found at i:48977 original size:21 final size:20
Alignment explanation
Indices: 48951--49048 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
48941 ATCAGTTTCC
48951 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
48972 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
**
48991 ACAAATTCGCATTGCGATTTT-
1 A-AAA-TCGCAACGCGATTTTG
* *
49012 ACAGAATCGCAACGCGAATATG
1 A-A-AATCGCAACGCGATTTTG
49034 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
49049 ACACATAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.27
21 42 0.67
22 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:49041 original size:20 final size:20
Alignment explanation
Indices: 49016--49244 Score: 237
Period size: 20 Copynumber: 11.4 Consensus size: 20
49006 GATTTTACAG
* ** *
49016 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
49036 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
49056 AATCACAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49076 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
49096 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
49116 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
49136 TATCGCAACGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
49156 AATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
49176 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
49196 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
49216 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
49236 AATCACAAC
1 AATCGCAAC
49245 ACTGAAATTT
Statistics
Matches: 178, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 175 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:49976 original size:24 final size:24
Alignment explanation
Indices: 49937--49983 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49927 AAATTTGGTC
49937 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
49961 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
49984 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:50175 original size:12 final size:12
Alignment explanation
Indices: 50158--50182 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50148 ATATAATCCT
50158 GAAGAAGAAAAA
1 GAAGAAGAAAAA
50170 GAAGAAGAAAAA
1 GAAGAAGAAAAA
50182 G
1 G
50183 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:52517 original size:33 final size:33
Alignment explanation
Indices: 52466--52677 Score: 175
Period size: 33 Copynumber: 6.2 Consensus size: 33
52456 CGGAAATTAC
*
52466 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
*
52499 AATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACATGAAAATCGCAATGC-GAAATGAA
* * * *
52533 AATCGTAATGTGAAATGAAAATCGCAACT-AGAGAATCG-C
1 AATCG-CA----ACATGAAAATCGCAA-TGCGA-AAT-GAA
*
52572 AATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACATGAAAATCGCAATGCGAAATGAA
*
52605 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
* *
52638 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
52671 AATCGCA
1 AATCGCA
52678 TTGCGATTCT
Statistics
Matches: 151, Mismatches: 13, Indels: 30
0.78 0.07 0.15
Matches are distributed among these distances:
32 6 0.04
33 88 0.58
34 28 0.19
35 2 0.01
38 2 0.01
39 21 0.14
40 4 0.03
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (33 bp):
AATCGCAACATGAAAATCGCAATGCGAAATGAA
Found at i:52548 original size:53 final size:53
Alignment explanation
Indices: 52480--52645 Score: 257
Period size: 53 Copynumber: 3.2 Consensus size: 53
52470 GCAACGAGAG
* *
52480 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACATGAGAATCGCAATGCGGAAATGAA
* *
52533 AATCGTAATGTGAAATGAAAATCGCAAC-TAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAT-GAGAATCGCAATGCGGAAATGAA
52586 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAC-ATGAGAATCGCAATGCGGAAATGAA
52638 AATCGCAA
1 AATCGCAA
52646 CGAGAGAATC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
52 17 0.16
53 87 0.84
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACATGAGAATCGCAATGCGGAAATGAA
Found at i:52549 original size:19 final size:20
Alignment explanation
Indices: 52508--52645 Score: 126
Period size: 19 Copynumber: 7.7 Consensus size: 20
52498 AAATCCCAAC
52508 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGCGGAA
* *
52528 ATGAAAATCGTAATG-TGAA
1 ATGAAAATCGCAATGCGGAA
*
52547 ATGAAAATCGCAA--C---T
1 ATGAAAATCGCAATGCGGAA
*
52562 A-GAGAATCGCAATGCGGAA
1 ATGAAAATCGCAATGCGGAA
52581 ATGAAAATCGCAATGC-GAA
1 ATGAAAATCGCAATGCGGAA
52600 ATGAAAATCGCAA--C-G--
1 ATGAAAATCGCAATGCGGAA
*
52615 A-GAGAATCGCAATGC-GAA
1 ATGAAAATCGCAATGCGGAA
52633 ATGAAAATCGCAA
1 ATGAAAATCGCAA
52646 CGAGAGAATC
Statistics
Matches: 97, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
14 20 0.21
15 2 0.02
16 3 0.03
17 2 0.02
18 1 0.01
19 42 0.43
20 27 0.28
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.16
Consensus pattern (20 bp):
ATGAAAATCGCAATGCGGAA
Found at i:52623 original size:86 final size:88
Alignment explanation
Indices: 52466--52683 Score: 281
Period size: 86 Copynumber: 2.5 Consensus size: 88
52456 CGGAAATTAC
*
52466 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--ATGAAAATCGCAATGCGGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAA-GCGG-
* *
52527 AATGAAAATCGTAATGTGAAATGAA
64 AATGAAAATCGCAATGCGAAATGAA
*
52552 AATCGCAACTAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCG-AATGAAAATCGCAAGCGG
*
52615 -A-GAGAATCGCAATGCGAAATGAA
64 AATGAAAATCGCAATGCGAAATGAA
* *
52638 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
52684 TTCTCTCGTT
Statistics
Matches: 118, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
84 1 0.01
85 18 0.15
86 67 0.57
87 16 0.14
89 2 0.02
90 1 0.01
92 13 0.11
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (88 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAAGCGGAA
TGAAAATCGCAATGCGAAATGAA
Found at i:52624 original size:14 final size:14
Alignment explanation
Indices: 52605--52659 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
52595 GCGAAATGAA
52605 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
52619 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
52638 AATCGCAACGAGAG
1 AATCGCAACGAGAG
52652 AATCGCAA
1 AATCGCAA
52660 TGCGAAATTA
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:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:52778 original size:19 final size:19
Alignment explanation
Indices: 52692--52770 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
52682 GATTCTCTCG
52692 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
52712 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
52731 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
52745 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
52764 TTGCGAT
1 TTGCGAT
52771 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:52896 original size:14 final size:14
Alignment explanation
Indices: 52877--52913 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
52867 CATCAATTAC
52877 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
52891 ACAAATCATCTTTT
1 ACAAATCAACTTTT
52905 ACAAATCAA
1 ACAAATCAA
52914 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:54878 original size:19 final size:19
Alignment explanation
Indices: 54836--55008 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
54826 TAGTTTACTT
* *
54836 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
54856 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
54875 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
54894 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
54913 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
54932 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
54946 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
54965 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
54979 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
54998 TCGCAATGCGA
1 TCGCAACGCGA
55009 TTTTGGTTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.05
17 7 0.05
18 1 0.01
19 82 0.64
20 12 0.09
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:54949 original size:14 final size:14
Alignment explanation
Indices: 54930--54986 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
54920 GCGAAATGAA
*
54930 AATCGCAACGACAG
1 AATCGCAACGAAAG
54944 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
54961 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
54977 AATCGCAACG
1 AATCGCAACG
54987 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:54957 original size:33 final size:33
Alignment explanation
Indices: 54911--55003 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
54901 GCGAAACCAA
54911 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
54944 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
54977 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
55004 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:55000 original size:52 final size:52
Alignment explanation
Indices: 54870--55008 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 52
54860 AACGCGAAAT
* * * *
54870 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
* ** * **
54922 GA-AAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGA
*
54974 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGA
55009 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 43 0.63
53 4 0.06
54 9 0.13
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
Found at i:55039 original size:14 final size:14
Alignment explanation
Indices: 55020--55046 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55010 TTTGGTTTCG
55020 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
55034 CGTTGCGATTTTG
1 CGTTGCGATTTTG
55047 GTTTCGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:55046 original size:33 final size:32
Alignment explanation
Indices: 55004--55107 Score: 145
Period size: 33 Copynumber: 3.2 Consensus size: 32
54994 AAAATCGCAA
55004 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTT-TCGT
*
55037 TGCGATTTTGGTTTCGCGTTGCGATTCTTTTGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTTCGT
** *
55070 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTTCGT
55103 TGCGA
1 TGCGA
55108 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 63 0.97
34 2 0.03
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.47
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTTCGT
Found at i:55058 original size:19 final size:18
Alignment explanation
Indices: 55004--55095 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
54994 AAAATCGCAA
55004 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
55023 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
55037 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
55056 TGCGATTCT-TTT---GT
1 TGCGATTTTGTTTCGCGT
*
55070 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
55089 TGCGATT
1 TGCGATT
55096 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
14 22 0.36
15 1 0.02
16 4 0.07
17 4 0.07
18 1 0.02
19 29 0.48
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.49
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:55291 original size:93 final size:93
Alignment explanation
Indices: 55155--55530 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
55145 ATGGATTGCA
55155 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
55219 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
55247 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
55312 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
55340 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
55405 TAGTAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
55433 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
55498 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
55526 TTACT
1 TTACT
55531 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 276 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:57240 original size:14 final size:14
Alignment explanation
Indices: 57221--57277 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
57211 TTGAAATGAA
57221 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
57235 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
57254 AATCGCAACGAGAG
1 AATCGCAACGAGAG
57268 AATCGCAACG
1 AATCGCAACG
57278 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:57253 original size:33 final size:33
Alignment explanation
Indices: 57213--57293 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
57203 TCTTTTGGTT
57213 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
57246 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
57279 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
57294 TGCGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 9 0.19
33 39 0.81
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:57259 original size:19 final size:19
Alignment explanation
Indices: 57235--57298 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 19
57225 GCAACGAGAG
57235 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
57254 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
57268 AATCGCAACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
*
57286 AATCGCAATGCGA
1 AATCGCAACGCGA
57299 TTTTGGTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 13 0.35
19 9 0.24
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:57346 original size:21 final size:21
Alignment explanation
Indices: 57321--57394 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
57311 GTTGCGATTC
57321 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
57342 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
57363 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
57384 TCTCGTTGCGA
1 TCTCGTTGCGA
57395 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:57516 original size:33 final size:33
Alignment explanation
Indices: 57474--57544 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
57464 AATACTAACT
*
57474 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
* *
57507 TGAAAATCGCAACAAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
57540 TGAAA
1 TGAAA
57545 TCTAAGTGAA
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:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
Found at i:57951 original size:20 final size:20
Alignment explanation
Indices: 57926--58116 Score: 224
Period size: 20 Copynumber: 9.5 Consensus size: 20
57916 TTAAAAATCA
57926 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
57946 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
*
57966 TCGTAGCGATTTACGGATACG
1 -CGTTGCGATTTACGGATACG
* *
57987 CGTTGCGATATACGGATATG
1 CGTTGCGATTTACGGATACG
*
58007 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
58027 CGTTGCGATTTACGGATACC
1 CGTTGCGATTTACGGATACG
58047 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
58067 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
58087 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
58107 CGTTGCGATT
1 CGTTGCGATT
58117 CTGTAAAATC
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
20 129 0.88
21 17 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:58134 original size:21 final size:20
Alignment explanation
Indices: 58110--58159 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
58100 ATATTCGCGT
58110 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
58131 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
58152 TGCGATTT
1 TGCGATTT
58160 TCAAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:60226 original size:19 final size:19
Alignment explanation
Indices: 60204--60240 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60194 TGATTAGGGA
*
60204 AAATGTGAAATTCTCATGT
1 AAATGAGAAATTCTCATGT
*
60223 AAATGAGAGATTCTCATG
1 AAATGAGAAATTCTCATG
60241 GAATGAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (19 bp):
AAATGAGAAATTCTCATGT
Found at i:60247 original size:18 final size:19
Alignment explanation
Indices: 60213--60252 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
60203 AAAATGTGAA
60213 ATTCTCATGTAAATGAGAG
1 ATTCTCATGTAAATGAGAG
*
60232 ATTCTCATG-GAATGAGAG
1 ATTCTCATGTAAATGAGAG
60250 ATT
1 ATT
60253 ATTGGGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (19 bp):
ATTCTCATGTAAATGAGAG
Found at i:65047 original size:3 final size:3
Alignment explanation
Indices: 65041--65087 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
65031 TTAAAAAAAA
*
65041 TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65087 T
1 T
65088 TTTACAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:65088 original size:12 final size:12
Alignment explanation
Indices: 65041--65091 Score: 84
Period size: 12 Copynumber: 4.2 Consensus size: 12
65031 TTAAAAAAAA
65041 TATTATTATTTAT
1 TATTATTATTT-T
*
65054 TATTATTATTAT
1 TATTATTATTTT
65066 TATTATTATTTT
1 TATTATTATTTT
65078 TATTATTATTTT
1 TATTATTATTTT
65090 TA
1 TA
65092 CAGATTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 26 0.72
13 10 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTATTATTTT
Found at i:66203 original size:14 final size:14
Alignment explanation
Indices: 66178--66226 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
66168 TATAATGAAA
66178 ATAAAT-AAATAAT
1 ATAAATAAAATAAT
66191 ATAAATAAAATAAT
1 ATAAATAAAATAAT
* *
66205 ATATATATATATATAT
1 ATAAATA-AAATA-AT
66221 ATAAAT
1 ATAAAT
66227 GTATGTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 6 0.20
14 13 0.43
15 4 0.13
16 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAATAAAATAAT
Found at i:66203 original size:18 final size:19
Alignment explanation
Indices: 66176--66276 Score: 56
Period size: 20 Copynumber: 5.4 Consensus size: 19
66166 AATATAATGA
66176 AAATAAATAA-ATA-ATAT
1 AAATAAATAATATATATAT
66193 AAATAAAATAATATATATAT
1 AAAT-AAATAATATATATAT
* * *
66213 ATATATATATAA-ATGTATGT
1 A-A-ATAAATAATATATATAT
66233 ATAATATAATAA-A-ATAT-T
1 A-AATA-AATAATATATATAT
*
66251 AAAT-AGTAATA-ATATAAT
1 AAATAAATAATATATAT-AT
66269 AAATAAAT
1 AAATAAAT
66277 GAAAAATAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
15 4 0.06
16 5 0.07
17 7 0.10
18 13 0.19
19 11 0.16
20 19 0.28
21 6 0.09
22 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAATAAATAATATATATAT
Found at i:66355 original size:2 final size:2
Alignment explanation
Indices: 66348--66380 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
66338 TAAAATAAGA
66348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66381 ACGTTAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67051 original size:37 final size:37
Alignment explanation
Indices: 67010--67102 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
67000 ATGCTTGTGG
* * *
67010 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
* ** *
67047 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
*
67084 ATCATATTTTTAGGAGTTT
1 ATCCTATTTTTAGGAGTTT
67103 GAATCCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
Found at i:68048 original size:106 final size:106
Alignment explanation
Indices: 67864--69138 Score: 1942
Period size: 106 Copynumber: 12.0 Consensus size: 106
67854 GCATTGTTCC
* * * * *
67864 GAGTCTAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGATATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * *
67928 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
67970 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
68035 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
68076 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
68141 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
68182 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGTCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
** * *
68247 TTAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
68288 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
68353 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
68394 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGAGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
68459 CCAGCGGTCCCTTCGTCGTGAAGTTGAATTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
68500 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
68565 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTATCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
68606 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
68671 CCAGCGGTCCCTTCATCGTGAAGTTAAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
68712 GAGTCCAATATCCTTCGCTGTGACGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
68777 CCAGCGGTCCCTTCGTCATGAAATTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
68818 GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-TGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
68882 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
68923 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
68988 CCAACGGTTCTTTCGTCGTGAAGTTAAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
69029 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
69094 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
69135 GAGT
1 GAGT
69139 GGCACGATAT
Statistics
Matches: 1070, Mismatches: 97, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
105 98 0.09
106 971 0.91
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:70126 original size:22 final size:22
Alignment explanation
Indices: 70100--70154 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
70090 TTGTGTTTGG
70100 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
70122 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
70144 TCAAAGGTTTG
1 TCAAAGGTTTG
70155 ATAGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:74992 original size:21 final size:21
Alignment explanation
Indices: 74966--75010 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
74956 GATTTCTGGG
* *
74966 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
74987 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
75008 CAA
1 CAA
75011 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:76878 original size:103 final size:103
Alignment explanation
Indices: 76694--76899 Score: 358
Period size: 103 Copynumber: 2.0 Consensus size: 103
76684 GGGTCTACGC
* *
76694 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
76759 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATATATATGATTCTTAAGGAATGATATGT
76797 GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
76862 CCCTAGTATATATATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATATATATGATTCTTAAGGAATGATATGT
76900 AGTCCTTATG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATATATATGATTCTTAAGGAATGATATGT
Found at i:76913 original size:103 final size:103
Alignment explanation
Indices: 76702--76922 Score: 345
Period size: 103 Copynumber: 2.1 Consensus size: 103
76692 GCGGTCCTTC
* * *
76702 GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCA
1 GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
* * *
76767 TATGTATATGATTCTTAAGGAATGATATGTGGTCATTC
66 TATATATATGATTCTTAAGGAATGATATGTAGTCATTA
*
76805 GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGTA
1 GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
*
76870 TATATATATGATTCTTAAGGAATGATATGTAGTCCTTA
66 TATATATATGATTCTTAAGGAATGATATGTAGTCATTA
*
76908 TGGACAGTAT-TATAT
1 GGGACA-TATATATAT
76923 GGCACTACGG
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
103 105 0.97
104 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (103 bp):
GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
TATATATATGATTCTTAAGGAATGATATGTAGTCATTA
Found at i:76956 original size:23 final size:23
Alignment explanation
Indices: 76923--76990 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
76913 AGTATTATAT
76923 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
76946 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
76969 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
76991 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:79993 original size:21 final size:21
Alignment explanation
Indices: 79967--80011 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
79957 GATTTCTGGG
* *
79967 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
79988 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
80009 CAA
1 CAA
80012 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:81877 original size:103 final size:103
Alignment explanation
Indices: 81693--81898 Score: 349
Period size: 103 Copynumber: 2.0 Consensus size: 103
81683 GGGTCTACGC
* *
81693 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
81758 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATATATATGATTCTTAAGGAATGATATGT
*
81796 GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTTGAT
1 GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
81861 CCCTAGTATATATATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATATATATGATTCTTAAGGAATGATATGT
81899 AGTCCTTATG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATATATATGATTCTTAAGGAATGATATGT
Found at i:81912 original size:103 final size:103
Alignment explanation
Indices: 81701--81921 Score: 336
Period size: 103 Copynumber: 2.1 Consensus size: 103
81691 GCGGTCCTTC
* * *
81701 GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCA
1 GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
* * *
81766 TATGTATATGATTCTTAAGGAATGATATGTGGTCATTC
66 TATATATATGATTCTTAAGGAATGATATGTAGTCATTA
* *
81804 GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTTGATCCCTAGTA
1 GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
*
81869 TATATATATGATTCTTAAGGAATGATATGTAGTCCTTA
66 TATATATATGATTCTTAAGGAATGATATGTAGTCATTA
*
81907 TGGACAT-TATTATAT
1 GGGACATATA-TATAT
81922 GGCACTACGG
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 2 0.02
103 105 0.98
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (103 bp):
GGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
TATATATATGATTCTTAAGGAATGATATGTAGTCATTA
Found at i:81955 original size:23 final size:23
Alignment explanation
Indices: 81922--81989 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
81912 ATTATTATAT
81922 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
81945 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
81968 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
81990 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:83698 original size:28 final size:27
Alignment explanation
Indices: 83647--83846 Score: 113
Period size: 30 Copynumber: 6.9 Consensus size: 27
83637 AAATAGATAG
83647 TATAAATAAAATAATATATATATATATA
1 TATAAATAAAATAATATATATATA-ATA
* *
83675 TATAAATATAAA-AATGTATGTATAATA
1 TATAAATA-AAATAATATATATATAATA
*
83702 TAATAAAATACTAAATAGTA-ATAATAATAATA
1 T-AT-AAATA--AAATAATATAT-AT-ATAATA
* *
83734 AATAAATGAAAAATAATATACATATAATA
1 TATAAAT--AAAATAATATATATATAATA
* * *
83763 T-TAACTAAAAATAATCATAGAAATATAAAA
1 TATAAAT-AAAATAAT-AT--ATATATAATA
* *
83793 TA-AAATAAAGTAAGAATATATATATATA
1 TATAAATAAAATAA-TATATATATA-ATA
83821 TATAATATAAAAATAATATA-ATATAA
1 TATAA-AT-AAAATAATATATATATAA
83847 CGCAAAAACA
Statistics
Matches: 134, Mismatches: 19, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
27 19 0.14
28 31 0.23
29 29 0.22
30 36 0.27
31 12 0.09
32 7 0.05
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
TATAAATAAAATAATATATATATAATA
Found at i:84449 original size:37 final size:37
Alignment explanation
Indices: 84399--84477 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 37
84389 GTTTAAATAA
84399 TAGTAAAATTCTATCATATTTTTAAGAA-TTTGAATTC
1 TAGTAAAATTCTATCATATTTTTAA-AATTTTGAATTC
84436 TAGTAAAATTCTATCATATTTTTAAAATTTTGAATTC
1 TAGTAAAATTCTATCATATTTTTAAAATTTTGAATTC
84473 TAGTA
1 TAGTA
84478 GGACGAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 2 0.05
37 39 0.95
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (37 bp):
TAGTAAAATTCTATCATATTTTTAAAATTTTGAATTC
Found at i:85300 original size:21 final size:21
Alignment explanation
Indices: 85276--85327 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
85266 AATTTTAGCG
85276 TTTTTTATTTTAGT-TATTTAT
1 TTTTTTATTTTAGTGTATTT-T
*
85297 TTTTTAATTTTAGTGTATTTT
1 TTTTTTATTTTAGTGTATTTT
*
85318 TTATTTATTT
1 TTTTTTATTT
85328 ATTTGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTTTTATTTTAGTGTATTTT
Found at i:85305 original size:36 final size:37
Alignment explanation
Indices: 85261--85338 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
85251 CATTTTTTCC
85261 TTTTTAATTTTAGCG--TTTTTTATTTTAGTTATTTAT
1 TTTTTAATTTTAGCGTATTTTTTA-TTTAGTTATTTAT
* * *
85297 TTTTTAATTTTAGTGTATTTTTTATTTATTTATTTGT
1 TTTTTAATTTTAGCGTATTTTTTATTTAGTTATTTAT
85334 TTTTT
1 TTTTT
85339 CTTATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 14 0.38
37 16 0.43
38 7 0.19
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.73
Consensus pattern (37 bp):
TTTTTAATTTTAGCGTATTTTTTATTTAGTTATTTAT
Found at i:89328 original size:106 final size:104
Alignment explanation
Indices: 89143--89354 Score: 286
Period size: 106 Copynumber: 2.0 Consensus size: 104
89133 GATGGTGGTT
* *
89143 GCTCAACTTCACAGCGAAGGGGCGACTGTCAACAAACAACTTTTTAGTTTCATTCAGAGTTAATT
1 GCTCAAATTCACAGCGAAGGGGCGACTGTCAACAAACAACTTTTTAG-TT-ATTCAGAGTCAATT
*
89208 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
64 TCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAA
*
89249 GCTCAAATTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAA-TTTTCTAG-T-TTCAGAGTCA
1 GCTCAAATTCACAGCGAA--GG-GGC-GACTGTCAACAAACAACTTTT-TAGTTATTCAGAGTCA
* *
89311 ATTTCAACTTCACAGCGAAGGATATTGGCCTCGAAACAGCACAA
61 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAA
89355 ATATTTGGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
106 67 0.71
108 3 0.03
109 7 0.07
110 18 0.19
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (104 bp):
GCTCAAATTCACAGCGAAGGGGCGACTGTCAACAAACAACTTTTTAGTTATTCAGAGTCAATTTC
AACTTCACAGCGAAGGATATTGGACTCGAAACAACACAA
Found at i:90131 original size:15 final size:15
Alignment explanation
Indices: 90111--90167 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
90101 AAGTTTTGTC
90111 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
* *
90126 TCTCTTGAAACAAATTTT
1 TCTCTTGAGAC--A-GTT
90144 CTCTCTTGAGACAGTT
1 -TCTCTTGAGACAGTT
*
90160 TCCCTTGA
1 TCTCTTGA
90168 AACAAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:90152 original size:34 final size:35
Alignment explanation
Indices: 90096--90209 Score: 158
Period size: 34 Copynumber: 3.1 Consensus size: 35
90086 AATTTACTCA
90096 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTT-TCTCTCTTGAGACAGTTTCTCTTG
*
90133 AAACAAA-TTTTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTTCTCTCTTGAGACAGTTTCTCTTG
*
90167 AAACAAAAATTTTTACTCTCTTGAGACGGTTTCTCTTG
1 AAAC--AAATTTTT-CTCTCTTGAGACAGTTTCTCTTG
90205 AAACA
1 AAACA
90210 CCAACCTTTG
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
34 27 0.39
35 3 0.04
36 4 0.06
37 11 0.16
38 25 0.36
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (35 bp):
AAACAAATTTTTCTCTCTTGAGACAGTTTCTCTTG
Found at i:90161 original size:17 final size:17
Alignment explanation
Indices: 90109--90161 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 17
90099 CAAAGTTTTG
90109 TCTCTCTTGAGACAG-T
1 TCTCTCTTGAGACAGTT
* *
90125 T-TCTCTTGAAACAAATTT
1 TCTCTCTTGAGAC--AGTT
90143 TCTCTCTTGAGACAGTT
1 TCTCTCTTGAGACAGTT
90160 TC
1 TC
90162 CCTTGAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 10 0.34
16 1 0.03
17 6 0.21
18 2 0.07
19 10 0.34
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (17 bp):
TCTCTCTTGAGACAGTT
Found at i:90428 original size:84 final size:84
Alignment explanation
Indices: 90284--90446 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 84
90274 ACAAAGACCA
* * *
90284 TCGAGTTCGACTACACTAAGCTCAAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTT
1 TCGAGTTCGACTACACTAAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCT
90349 ATCTGCCAACAAAATACCT
66 ATCTGCCAACAAAATACCT
* * * *
90368 TCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGTATAGCTCAAGGCGAGAAGGGCT
1 TCGAGTTCGACTACACTAAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCT
* *
90433 ATCTGTCGACAAAA
66 ATCTGCCAACAAAA
90447 ACTGACGATT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (84 bp):
TCGAGTTCGACTACACTAAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCT
ATCTGCCAACAAAATACCT
Found at i:90712 original size:6 final size:6
Alignment explanation
Indices: 90689--90754 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
90679 TTAAAAAATA
* * * *
90689 TTATTAT TTATTTAT TTATTT TTATTT TTATTA TTATTC TTATTA ATATTT
1 TTATT-T TTA-TT-T TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
90740 TTATTA TTATTT TTA
1 TTATTT TTATTT TTA
90755 CAGATTTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
6 38 0.76
7 5 0.10
8 7 0.14
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:90718 original size:12 final size:12
Alignment explanation
Indices: 90689--90754 Score: 78
Period size: 12 Copynumber: 5.2 Consensus size: 12
90679 TTAAAAAATA
90689 TTATTATTTATTTAT
1 TTATTA-TTA-TT-T
*
90704 TTATTTTTATTT
1 TTATTATTATTT
*
90716 TTATTATTATTC
1 TTATTATTATTT
*
90728 TTATTAATATTT
1 TTATTATTATTT
90740 TTATTATTATTT
1 TTATTATTATTT
90752 TTA
1 TTA
90755 CAGATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
12 35 0.78
13 2 0.04
14 3 0.07
15 5 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:92008 original size:22 final size:21
Alignment explanation
Indices: 91969--92017 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
91959 ATTTTAGCAA
* *
91969 TTTTTT-ATTTTAGTTATTCT
1 TTTTTTAATTTTAATTATTAT
91989 TTTTTTAATTTTAATGTATTAT
1 TTTTTTAATTTTAAT-TATTAT
*
92011 TTATTTA
1 TTTTTTA
92018 TTTATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 11 0.46
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTTAATTTTAATTATTAT
Found at i:92016 original size:4 final size:4
Alignment explanation
Indices: 92007--92033 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
91997 TTTTAATGTA
92007 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
92034 ATCTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:92020 original size:21 final size:19
Alignment explanation
Indices: 91968--92020 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
91958 AATTTTAGCA
*
91968 ATTTTTTATTTTAGTTATT
1 ATTTTTTATTTTAATTATT
*
91987 CTTTTTTTAATTTTAATGTATT
1 -ATTTTTT-ATTTTAAT-TATT
92009 ATTTATTTATTT
1 ATTT-TTTATTT
92021 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTTATTTTAATTATT
Found at i:92045 original size:16 final size:15
Alignment explanation
Indices: 92005--92048 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
91995 AATTTTAATG
92005 TATTATTTATTTATT
1 TATTATTTATTTATT
92020 TATTTATTTATTTAATCT
1 TA-TTATTTATTT-AT-T
92038 TATT-TTTATTT
1 TATTATTTATTT
92049 TATTACCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.08
16 17 0.65
17 4 0.15
18 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTATTTATTTATT
Found at i:96589 original size:10 final size:11
Alignment explanation
Indices: 96572--96600 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
96562 ATCTAGAAAT
96572 GAAAAAAAGGA
1 GAAAAAAAGGA
96583 GAAAAAAAGGA
1 GAAAAAAAGGA
96594 GAAAAAA
1 GAAAAAA
96601 TTGCTACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAAAGGA
Found at i:105581 original size:27 final size:27
Alignment explanation
Indices: 105545--105612 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
105535 GTGATGGTGA
*
105545 CGGCGGCGGCATCAGGTAAGGGAATGG
1 CGGCGGCGGCATCAGGTAAGGGAAAGG
* *
105572 CGGCGGCGGCATCTGGTAATGGAAAGG
1 CGGCGGCGGCATCAGGTAAGGGAAAGG
*
105599 CGGTGGCGGCATCA
1 CGGCGGCGGCATCA
105613 TATATGGCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.46, T:0.13
Consensus pattern (27 bp):
CGGCGGCGGCATCAGGTAAGGGAAAGG
Found at i:107322 original size:9 final size:9
Alignment explanation
Indices: 107292--107343 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 9
107282 TCTGCAAAAA
107292 AAATTAAAT
1 AAATTAAAT
*
107301 -AAGTAAA-
1 AAATTAAAT
*
107308 ATATTAAAT
1 AAATTAAAT
107317 AAATTAAAT
1 AAATTAAAT
*
107326 -ACTTAAAT
1 AAATTAAAT
107334 AAATTAAAT
1 AAATTAAAT
107343 A
1 A
107344 CAAAATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 18 0.53
9 16 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:107324 original size:17 final size:17
Alignment explanation
Indices: 107289--107341 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
107279 ATATCTGCAA
* *
107289 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
107305 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
107322 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
107339 AAA
1 AAA
107342 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:107342 original size:17 final size:17
Alignment explanation
Indices: 107295--107344 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
107285 GCAAAAAAAA
* *
107295 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
107311 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
107328 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
107345 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:107755 original size:30 final size:29
Alignment explanation
Indices: 107693--107755 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
107683 TACTGCTAAG
* * * *
107693 GGTGTTTGATCGGGAAATATAGTTTGACC
1 GGTGTTAGATCGGGAAATATACTGTCACC
*
107722 GGTGTTAGATCGGTAAATATACTAGTCACC
1 GGTGTTAGATCGGGAAATATACT-GTCACC
107752 GGTG
1 GGTG
107756 ATTTTTCGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (29 bp):
GGTGTTAGATCGGGAAATATACTGTCACC
Found at i:108255 original size:31 final size:31
Alignment explanation
Indices: 108220--108287 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
108210 ATTGTATGCC
108220 ATTATACA-TATAAAATTTTAATTCTTATTTA
1 ATTATACACT-TAAAATTTTAATTCTTATTTA
* * *
108251 ATTATACACTTAAATTTTTATTTTTTATTTA
1 ATTATACACTTAAAATTTTAATTCTTATTTA
*
108282 ACTATA
1 ATTATA
108288 TTCATTCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTATACACTTAAAATTTTAATTCTTATTTA
Found at i:109776 original size:59 final size:59
Alignment explanation
Indices: 109658--109780 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 59
109648 ATTGGGTAAG
* * * *
109658 CATTCTATAAATTTTAATAGTTAGAGACTCAACAAAACAACACCCTATCATCGGAGGAC
1 CATTTTATAAATTTCAATAGTTAGAGACTCAACAAAACAACACCATATAATCGGAGGAC
* ** *
109717 CATTTTATAACTTTCAATAGTTAG-GTAACTCAACAAAGTAATACCATATAATCGG-GGAC
1 CATTTTATAAATTTCAATAGTTAGAG--ACTCAACAAAACAACACCATATAATCGGAGGAC
109776 CATTT
1 CATTT
109781 GTGCACTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
58 1 0.02
59 30 0.56
60 23 0.43
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (59 bp):
CATTTTATAAATTTCAATAGTTAGAGACTCAACAAAACAACACCATATAATCGGAGGAC
Found at i:112753 original size:3 final size:3
Alignment explanation
Indices: 112725--112769 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
112715 CAAAAATGTA
* * *
112725 AAT AA- AAT AAC ATT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
112770 TTATTATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:112774 original size:3 final size:3
Alignment explanation
Indices: 112768--112797 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
112758 ATAATAATAA
112768 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112798 ATTTTTGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:114152 original size:24 final size:24
Alignment explanation
Indices: 114125--114173 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
114115 TTCGGATATA
* *
114125 TCAAAAATCAAAACATAATTCAGG
1 TCAAAAATCAAAACAGAATCCAGG
* *
114149 TCAAATATCATAACAGAATCCAGG
1 TCAAAAATCAAAACAGAATCCAGG
114173 T
1 T
114174 AAGGTATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.22
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAATCCAGG
Found at i:114211 original size:24 final size:24
Alignment explanation
Indices: 114131--114215 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
114121 TATATCAAAA
* * *
114131 ATCAAAACATAATTCAGGTCAA-AT
1 ATCATAACAGAATCCAGGT-AAGAT
*
114155 ATCATAACAGAATCCAGGTAAGGT
1 ATCATAACAGAATCCAGGTAAGAT
* * ** *
114179 ATTAGAACAGAATCCATTTCAGAT
1 ATCATAACAGAATCCAGGTAAGAT
114203 ATCATAACAGAAT
1 ATCATAACAGAAT
114216 TCAAATCGAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
23 2 0.04
24 46 0.96
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (24 bp):
ATCATAACAGAATCCAGGTAAGAT
Found at i:116060 original size:30 final size:29
Alignment explanation
Indices: 115972--116073 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
115962 TTGACTTTTT
*
115972 GGTCAAAGTCAACGTCAACGGGTTGACTC
1 GGTCAAAGTCAACGTCAATGGGTTGACTC
* *
116001 GGTCAAAGTTAACGTCAATGGGTTAACTC
1 GGTCAAAGTCAACGTCAATGGGTTGACTC
* *
116030 GGTCAAATTCAACGGTCAATAGGTTGACTC
1 GGTCAAAGTCAAC-GTCAATGGGTTGACTC
116060 GGTCAAAGTCAACG
1 GGTCAAAGTCAACG
116074 AGTTGACCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 38 0.59
30 26 0.41
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (29 bp):
GGTCAAAGTCAACGTCAATGGGTTGACTC
Found at i:118176 original size:24 final size:24
Alignment explanation
Indices: 118149--118198 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
118139 ATAAAGAACC
118149 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
118173 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
118197 AA
1 AA
118199 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:123805 original size:24 final size:24
Alignment explanation
Indices: 123778--123827 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
123768 ATAAAGAACC
123778 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
123802 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
123826 AA
1 AA
123828 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:125206 original size:14 final size:13
Alignment explanation
Indices: 125180--125204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125170 AAAGATACAG
125180 ATCTTTTTAAAAC
1 ATCTTTTTAAAAC
125193 ATCTTTTTAAAA
1 ATCTTTTTAAAA
125205 ACTATAGTAA
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
ATCTTTTTAAAAC
Found at i:125411 original size:24 final size:24
Alignment explanation
Indices: 125379--125463 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
125369 TATATGAAAA
* *
125379 ATCAAAACATAATTCAGGTCAGAT
1 ATCAAAACAGAATCCAGGTCAGAT
* *
125403 ATCATAACAGAATCCAGGTCAGGT
1 ATCAAAACAGAATCCAGGTCAGAT
* * * * *
125427 ATTAGAATAGAATCCATGTCAGGT
1 ATCAAAACAGAATCCAGGTCAGAT
**
125451 ATCGTAACAGAAT
1 ATCAAAACAGAAT
125464 TCAAATCGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAACAGAATCCAGGTCAGAT
Found at i:125929 original size:30 final size:30
Alignment explanation
Indices: 125894--125967 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
125884 TTGACTTTTT
* *
125894 GGTCAAAGTCAACGGTCAATGGGTTGACTC
1 GGTCAAAGTCAACGGTCAACGGGTTAACTC
*
125924 GGTCAAAGTCAACAGTCAACGGGTTAACTC
1 GGTCAAAGTCAACGGTCAACGGGTTAACTC
*
125954 GGTCAAAGTTAACG
1 GGTCAAAGTCAACG
125968 AGTTGACCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (30 bp):
GGTCAAAGTCAACGGTCAACGGGTTAACTC
Found at i:126794 original size:19 final size:19
Alignment explanation
Indices: 126770--126808 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
126760 TCGAATGCAT
126770 TCCATGCACCGATACACTC
1 TCCATGCACCGATACACTC
* *
126789 TCCATGCATCGATGCACTC
1 TCCATGCACCGATACACTC
126808 T
1 T
126809 GAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATACACTC
Found at i:126933 original size:64 final size:65
Alignment explanation
Indices: 126756--126918 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
126746 GAATTAATTG
* * * * *
126756 AACATCGAATGCATTCCATGCACCGATACACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
126821 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
126884 A
65 A
126885 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
126919 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:132765 original size:44 final size:44
Alignment explanation
Indices: 132715--132810 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
132705 CTTCATGCAC
* * * * *
132715 CGATGCATTTAACA-ATGCATCGATGCATTCCTTTGAATATGTAT
1 CGATGCATTCAACAGATGCACCGATGCATGCC-TTGAATAGGCAT
*
132759 CGATGCA-TCACCATGATGCACCGATGCATGCCTTGAATAGGCAT
1 CGATGCATTCAACA-GATGCACCGATGCATGCCTTGAATAGGCAT
132803 CGATGCAT
1 CGATGCAT
132811 AAGACCATGC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 4 0.09
44 24 0.56
45 15 0.35
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CGATGCATTCAACAGATGCACCGATGCATGCCTTGAATAGGCAT
Found at i:134359 original size:19 final size:19
Alignment explanation
Indices: 134335--134373 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
134325 TCGAATGCAT
134335 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
134354 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
134373 T
1 T
134374 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:134498 original size:64 final size:65
Alignment explanation
Indices: 134321--134483 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
134311 GAATTAATTG
* * * *
134321 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
134386 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
134449 A
65 A
134450 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
134484 TGGTGCACTG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:135855 original size:32 final size:32
Alignment explanation
Indices: 135814--135877 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
135804 TTCATATCAA
135814 GATGTTGAATCCCCAAAGATGCCCCAACATTC
1 GATGTTGAATCCCCAAAGATGCCCCAACATTC
* * *
135846 GATGTTGAATCTCCAAAGATGCCTCATCATTC
1 GATGTTGAATCCCCAAAGATGCCCCAACATTC
135878 ATTTTTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (32 bp):
GATGTTGAATCCCCAAAGATGCCCCAACATTC
Found at i:137015 original size:20 final size:20
Alignment explanation
Indices: 136990--137030 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
136980 TTTATTTTTG
*
136990 TTCTTTG-TTTTTTTCCTCTT
1 TTCTTTGCTTCTTTT-CTCTT
137010 TTCTTTGCTTCTTTTCTCTT
1 TTCTTTGCTTCTTTTCTCTT
137030 T
1 T
137031 GTTTTGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (20 bp):
TTCTTTGCTTCTTTTCTCTT
Found at i:140475 original size:5 final size:5
Alignment explanation
Indices: 140465--140505 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
140455 TTTTGCCAAG
* *
140465 ATAAA ATAAA ATACA ATAAA ATAAA ACAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
140506 AAGAAAAGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:142460 original size:3 final size:3
Alignment explanation
Indices: 142454--142495 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
142444 CAACAACAAC
142454 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
142496 TTTTTGGTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:143439 original size:21 final size:21
Alignment explanation
Indices: 143397--143439 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
143387 GTGTTTGATG
*
143397 TAATATTTTATATTTTTAAAT
1 TAATATTTTATATTTTCAAAT
*
143418 TAAT-TTTTTTATTTTCACAAT
1 TAATATTTTATATTTTCA-AAT
143439 T
1 T
143440 GCCTATGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TAATATTTTATATTTTCAAAT
Found at i:144528 original size:51 final size:51
Alignment explanation
Indices: 144473--144594 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
144463 AAAGCGCTCT
* * ** * *
144473 CCCTGTCCCGCGCTATATGCTGATTTGG-TGCCACGTGGGGTATAGCGCGCC
1 CCCTGTACCGCGCTATACGCTGACATGGCTGACACGT-GGGTATAGAGCGCC
*
144524 CCCTGTACCGCGCTATACGCTGACATGGCTTACACGTGGGTATAGAGCGCC
1 CCCTGTACCGCGCTATACGCTGACATGGCTGACACGTGGGTATAGAGCGCC
* *
144575 CCCTGTTCCGCACTATACGC
1 CCCTGTACCGCGCTATACGC
144595 CACGTAAGGG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.90
52 6 0.10
ACGTcount: A:0.16, C:0.34, G:0.27, T:0.24
Consensus pattern (51 bp):
CCCTGTACCGCGCTATACGCTGACATGGCTGACACGTGGGTATAGAGCGCC
Found at i:148244 original size:35 final size:34
Alignment explanation
Indices: 148159--148245 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
148149 ATTTGGTATT
*
148159 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
148193 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
148231 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
148246 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:148474 original size:3 final size:3
Alignment explanation
Indices: 148468--148529 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
148458 GCTGTCATCA
* * * * * *
148468 TCG TCG TCA TTG TCG TCA TCG TCT TCG TCG TCG TCG TCG TTG T-G ATCT
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG -TCG
148516 TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TC
148530 CTGAGGAGGT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 1 0.02
3 45 0.98
ACGTcount: A:0.05, C:0.29, G:0.26, T:0.40
Consensus pattern (3 bp):
TCG
Found at i:148506 original size:24 final size:24
Alignment explanation
Indices: 148468--148529 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
148458 GCTGTCATCA
* *
148468 TCGTCGTCATTGTCGTCATCG-TCT
1 TCGTCGTCGTCGTCGTCAT-GATCT
**
148492 TCGTCGTCGTCGTCGTTGTGATCT
1 TCGTCGTCGTCGTCGTCATGATCT
148516 TCGTCGTCGTCGTC
1 TCGTCGTCGTCGTC
148530 CTGAGGAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.05, C:0.29, G:0.26, T:0.40
Consensus pattern (24 bp):
TCGTCGTCGTCGTCGTCATGATCT
Found at i:151507 original size:60 final size:57
Alignment explanation
Indices: 151399--151515 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 57
151389 TAGTTTAGTC
* * *
151399 TATAACTTTTAATAGTCGGAGACTCAACAAAATAACACCATATCATCGGAGGACCATTT
1 TATAACTTTCAATAGTCAGAGACTCAACAAAATAACACCATATAATC-G-GGACCATTT
* * * *
151458 TATAACTTTCAATAGTTAGAGAACTCAACAAAGTAATACCCTATAATCGGGACCATTT
1 TATAACTTTCAATAGTCAGAG-ACTCAACAAAATAACACCATATAATCGGGACCATTT
151516 GTGCACTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 9 0.18
59 19 0.38
60 22 0.44
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (57 bp):
TATAACTTTCAATAGTCAGAGACTCAACAAAATAACACCATATAATCGGGACCATTT
Found at i:151779 original size:2 final size:2
Alignment explanation
Indices: 151772--151798 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
151762 ACTCTAATCC
151772 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
151799 CTCTATAGTT
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:152527 original size:59 final size:59
Alignment explanation
Indices: 152449--152571 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 59
152439 ATTGAGTAAG
* * * * *
152449 CATTCTATAACTTTTAATAG-TCGG-AGACTCAACAAAACAACACCCTATCATCGGAGGAC
1 CATTTTATAACTTTCAATAGTTAGGTA-ACTCAACAAAACAACACCATATAATCGG-GGAC
** *
152508 CATTTTATAACTTTCAATAGTTAGGTAACTCAACAAAGTAATACCATATAATCGGGGAC
1 CATTTTATAACTTTCAATAGTTAGGTAACTCAACAAAACAACACCATATAATCGGGGAC
152567 CATTT
1 CATTT
152572 GTGCACTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 27 0.50
60 26 0.48
61 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (59 bp):
CATTTTATAACTTTCAATAGTTAGGTAACTCAACAAAACAACACCATATAATCGGGGAC
Found at i:154284 original size:21 final size:21
Alignment explanation
Indices: 154245--154284 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
154235 TTGATGTAAT
*
154245 ATTTTTATATTTTTAAATTAA
1 ATTTTTATATTTTCAAATTAA
154266 ATTTTT-TATTTTCACAATT
1 ATTTTTATATTTTCA-AATT
154285 GCTTATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTATATTTTCAAATTAA
Found at i:156091 original size:18 final size:17
Alignment explanation
Indices: 156044--156092 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
156034 TTTTGTAAAG
*
156044 AAAATATATAAATATTTT
1 AAAATATAT-AATATTAT
* *
156062 AAAATTTGTAATATTAT
1 AAAATATATAATATTAT
156079 ACAAATATATAATA
1 A-AAATATATAATA
156093 AGGACAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAATATATAATATTAT
Found at i:169210 original size:21 final size:21
Alignment explanation
Indices: 169186--169225 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
169176 TTGTGAACCA
**
169186 TTCATTTATGTTTGTATAACG
1 TTCATTTACATTTGTATAACG
169207 TTCATTTACATTTGTATAA
1 TTCATTTACATTTGTATAA
169226 ATGTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (21 bp):
TTCATTTACATTTGTATAACG
Found at i:169362 original size:37 final size:37
Alignment explanation
Indices: 169312--169408 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
169302 AATTGTCAAC
* *
169312 ATTCAAACTCCTAAAAATATGATAGAATTTTGCTAGG
1 ATTCAAACTCCTAAAAATATGATAGAATTCTACTAGG
* * **
169349 ATTCAAACTCCTAAATATATGATAGAGTTCTACTATT
1 ATTCAAACTCCTAAAAATATGATAGAATTCTACTAGG
* *
169386 ATTTAAACTCCTAAAGATATGAT
1 ATTCAAACTCCTAAAAATATGAT
169409 CCACAAGCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (37 bp):
ATTCAAACTCCTAAAAATATGATAGAATTCTACTAGG
Found at i:169836 original size:10 final size:10
Alignment explanation
Indices: 169823--169854 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
169813 TGTATATATA
169823 TATATTTTAT
1 TATATTTTAT
169833 TATATTTTAT
1 TATATTTTAT
169843 T-TA-TTTAT
1 TATATTTTAT
169851 TATA
1 TATA
169855 AAAAAATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.29
9 4 0.19
10 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATATTTTAT
Found at i:169901 original size:3 final size:3
Alignment explanation
Indices: 169895--169949 Score: 56
Period size: 3 Copynumber: 16.3 Consensus size: 3
169885 ATTATTTTCC
169895 TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT ATAT ATAT ATAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TAT -TAT -TAT
169942 ATAT TAT T
1 -TAT TAT T
169950 TATCTATGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 28 0.55
4 23 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:169912 original size:12 final size:14
Alignment explanation
Indices: 169901--169949 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 14
169891 TTCCTATTAT
169901 TATTATTAT-TAT-
1 TATTATTATATATA
169913 TATTATTATATATA
1 TATTATTATATATA
169927 TATATATATATATATA
1 TAT-TAT-TATATATA
169943 TATTATT
1 TATTATT
169950 TATCTATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.27
13 3 0.09
14 4 0.12
15 6 0.18
16 11 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTATATATA
Found at i:169926 original size:2 final size:2
Alignment explanation
Indices: 169919--169945 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
169909 TTATTATTAT
169919 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 T
169946 TATTTATCTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:169984 original size:13 final size:13
Alignment explanation
Indices: 169966--169991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
169956 TGTTTACTTA
169966 TTTACTATATTTT
1 TTTACTATATTTT
169979 TTTACTATATTTT
1 TTTACTATATTTT
169992 CTTAACGTTA
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:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:170148 original size:29 final size:27
Alignment explanation
Indices: 170111--170180 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
170101 ATTGTTACTA
170111 TTTAGTATTTTATTATATTATACATACATT
1 TTTA-TATTTTATTATATT-TACATA-ATT
* *
170141 TTTATATTTT-TATATATTTATATATTT
1 TTTATATTTTAT-TATATTTACATAATT
*
170168 TTTTTATTTTATT
1 TTTATATTTTATT
170181 TATACTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 12 0.34
28 7 0.20
29 12 0.34
30 4 0.11
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTATATTTTATTATATTTACATAATT
Found at i:170172 original size:22 final size:23
Alignment explanation
Indices: 170147--170190 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
170137 CATTTTTATA
170147 TTTTTA-TATATTTATA-TATTT
1 TTTTTATTATATTTATACTATTT
*
170168 TTTTTATTTTATTTATACTATTT
1 TTTTTATTATATTTATACTATTT
170191 ATTTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTATTATATTTATACTATTT
Done.