Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 86 of 173
Found at i:26880634 original size:24 final size:24
Alignment explanation
Indices: 26880607--26880659 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
26880597 TACATTTTAC
26880607 TTAATTTTCACTTTTAGTTCATAA
1 TTAATTTTCACTTTTAGTTCATAA
26880631 TTAATTTTCACTTTTAGTTCATAA
1 TTAATTTTCACTTTTAGTTCATAA
26880655 TTAAT
1 TTAAT
26880660 AAAAATTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (24 bp):
TTAATTTTCACTTTTAGTTCATAA
Found at i:26888221 original size:22 final size:22
Alignment explanation
Indices: 26888196--26888244 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
26888186 TAATTTTGGA
26888196 TTAATAGACAAA-TATTTGAA-AC
1 TTAAT-GACAAATTATTT-AAGAC
*
26888218 TTAATTACAAATTATTTAAGAC
1 TTAATGACAAATTATTTAAGAC
26888240 TTAAT
1 TTAAT
26888245 TATATAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (22 bp):
TTAATGACAAATTATTTAAGAC
Found at i:26888245 original size:22 final size:21
Alignment explanation
Indices: 26888203--26888246 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
26888193 GGATTAATAG
26888203 ACAAATATTTGAAACTTAATT
1 ACAAATATTTGAAACTTAATT
26888224 ACAAATTATTT-AAGACTTAATT
1 ACAAA-TATTTGAA-ACTTAATT
26888246 A
1 A
26888247 TATAAGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (21 bp):
ACAAATATTTGAAACTTAATT
Found at i:26894115 original size:5 final size:5
Alignment explanation
Indices: 26894107--26894173 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
26894097 ATAGTGTTCC
26894107 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
26894157 ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT AT
26894174 AGTTCGTGGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:26897607 original size:5 final size:5
Alignment explanation
Indices: 26897597--26897622 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26897587 TGAGCATTCG
26897597 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
26897623 AATTTTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:26898258 original size:19 final size:20
Alignment explanation
Indices: 26898234--26898272 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
26898224 AAAGGGTGAG
26898234 AAGT-AAAAGTTTAGGGGAA
1 AAGTAAAAAGTTTAGGGGAA
*
26898253 AAGTAAAAAGTTTTGGGGAA
1 AAGTAAAAAGTTTAGGGGAA
26898273 TAAAAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (20 bp):
AAGTAAAAAGTTTAGGGGAA
Found at i:26898662 original size:9 final size:9
Alignment explanation
Indices: 26898648--26898690 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
26898638 TATAGTTTGA
*
26898648 TATTCGAAT
1 TATTCGAGT
26898657 TATTCGAGT
1 TATTCGAGT
26898666 TATTCGAGT
1 TATTCGAGT
26898675 TATTCGAGT
1 TATTCGAGT
26898684 TATTCGA
1 TATTCGA
26898691 ATTCGAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.44
Consensus pattern (9 bp):
TATTCGAGT
Found at i:26899486 original size:9 final size:9
Alignment explanation
Indices: 26899472--26899527 Score: 69
Period size: 9 Copynumber: 6.2 Consensus size: 9
26899462 TTGGGTATTT
26899472 TTCGGTTAA
1 TTCGGTTAA
26899481 TTCGGTTAA
1 TTCGGTTAA
26899490 TTCGGTTAA
1 TTCGGTTAA
*
26899499 TTTAGG-TAA
1 -TTCGGTTAA
*
26899508 TTCGGGTAA
1 TTCGGTTAA
*
26899517 TTCGGGTAA
1 TTCGGTTAA
26899526 TT
1 TT
26899528 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 4 0.09
9 35 0.81
10 4 0.09
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:26899705 original size:12 final size:12
Alignment explanation
Indices: 26899688--26899712 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26899678 AGTAATTTCG
26899688 GGTCGGTTAACC
1 GGTCGGTTAACC
26899700 GGTCGGTTAACC
1 GGTCGGTTAACC
26899712 G
1 G
26899713 AATGAACACC
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:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:26903444 original size:18 final size:17
Alignment explanation
Indices: 26903422--26903556 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
26903412 AATACTAAGA
26903422 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
26903439 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
26903455 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
26903469 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
26903488 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
26903504 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
26903522 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
26903539 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
26903557 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:26903475 original size:26 final size:25
Alignment explanation
Indices: 26903437--26903576 Score: 85
Period size: 26 Copynumber: 5.5 Consensus size: 25
26903427 ATTAAATTAT
*
26903437 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
26903463 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* * * *
26903489 ATATTATATATTATAATTTTAGTAAATTC
1 ATATTAT-T-TTA-AATTATATTTAA-TA
*
26903518 ATA-TATTTT--ATTA-AATT-AT-
1 ATATTATTTTAAATTATATTTAATA
*
26903537 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
26903563 ATAATTATGTTAAA
1 AT-ATTATTTTAAA
26903577 ATATGATTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
19 3 0.03
20 4 0.05
21 3 0.03
22 2 0.02
23 7 0.08
24 3 0.03
25 7 0.08
26 30 0.34
27 13 0.15
28 11 0.13
29 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:26903494 original size:15 final size:15
Alignment explanation
Indices: 26903450--26903505 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
26903440 TTTTTGTTAA
*
26903450 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
26903465 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
26903476 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
26903491 ATTATATATTATAAT
1 ATTATATTTTATAAT
26903506 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:26903494 original size:120 final size:120
Alignment explanation
Indices: 26903280--26903522 Score: 468
Period size: 120 Copynumber: 2.0 Consensus size: 120
26903270 TGATACAATC
26903280 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
26903345 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
26903400 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
26903465 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
26903520 ATA
1 ATA
26903523 TTTTATTAAA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:26903523 original size:41 final size:40
Alignment explanation
Indices: 26903358--26903541 Score: 118
Period size: 41 Copynumber: 4.6 Consensus size: 40
26903348 TATTTTAAAT
* *
26903358 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
26903399 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
* **
26903436 TATATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTA
26903478 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
26903519 TATATTTTATTAA-ATTATATATT
1 TATATTTTA-TAATATTATATATT
26903542 TTTATTAAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.13
38 19 0.17
39 3 0.03
40 4 0.04
41 43 0.39
42 14 0.13
43 6 0.05
44 6 0.05
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:26903827 original size:9 final size:9
Alignment explanation
Indices: 26903813--26903843 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26903803 GTTAAACGAA
26903813 TCGAGTTAT
1 TCGAGTTAT
*
26903822 TCGAGTTAA
1 TCGAGTTAT
26903831 TCGAGTTAT
1 TCGAGTTAT
26903840 TCGA
1 TCGA
26903844 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:26903915 original size:9 final size:9
Alignment explanation
Indices: 26903898--26903934 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26903888 TGAGTTTTCG
26903898 AATTCGAAT
1 AATTCGAAT
*
26903907 AAGTCGAAT
1 AATTCGAAT
26903916 AATTCGAAT
1 AATTCGAAT
26903925 AATTCGAAT
1 AATTCGAAT
26903934 A
1 A
26903935 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26904055 original size:30 final size:30
Alignment explanation
Indices: 26903993--26904055 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
26903983 ACTTTTCCCT
* *
26903993 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCCTCCCACTTCCCCCC
26904023 CAAAACTTTTACTCCCCTCCC-C-TCCCCTCC
1 CAAAACTTTTACT-CCCTCCCACTTCCCC-CC
26904053 CAA
1 CAA
26904056 CCCCCCAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.14
30 19 0.66
31 6 0.21
ACGTcount: A:0.21, C:0.51, G:0.00, T:0.29
Consensus pattern (30 bp):
CAAAACTTTTACTCCCTCCCACTTCCCCCC
Found at i:26905271 original size:47 final size:47
Alignment explanation
Indices: 26905215--26905313 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
26905205 ATATACCTAC
26905215 ATAATTCCGAGTTAGGAACTCCACAATTCTACACATTTAGTATTATA
1 ATAATTCCGAGTTAGGAACTCCACAATTCTACACATTTAGTATTATA
26905262 ATAATTCCGAGTTAGGAACTCCACAATTCTACACATTTAGTATTATA
1 ATAATTCCGAGTTAGGAACTCCACAATTCTACACATTTAGTATTATA
26905309 ATAAT
1 ATAAT
26905314 AATAATAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (47 bp):
ATAATTCCGAGTTAGGAACTCCACAATTCTACACATTTAGTATTATA
Found at i:26905314 original size:3 final size:3
Alignment explanation
Indices: 26905306--26905349 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
26905296 ATTTAGTATT
26905306 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
26905350 TAAACAAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26906864 original size:13 final size:13
Alignment explanation
Indices: 26906846--26906874 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
26906836 TTAAGATTAT
26906846 TTAACAAATGAAA
1 TTAACAAATGAAA
26906859 TTAACAAATGAAA
1 TTAACAAATGAAA
26906872 TTA
1 TTA
26906875 TATGAAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (13 bp):
TTAACAAATGAAA
Found at i:26907231 original size:22 final size:23
Alignment explanation
Indices: 26907206--26907248 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26907196 TAATGCAAAT
*
26907206 TTATTTT-AGCAGTTACAAACCA
1 TTATTTTCAACAGTTACAAACCA
26907228 TTATTTTCAACAGTTACAAAC
1 TTATTTTCAACAGTTACAAAC
26907249 TGGTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (23 bp):
TTATTTTCAACAGTTACAAACCA
Found at i:26911369 original size:68 final size:68
Alignment explanation
Indices: 26911187--26911370 Score: 224
Period size: 68 Copynumber: 2.7 Consensus size: 68
26911177 TTTAATATGC
* * * * * * * *
26911187 AAGACTATAGCTAGACTATGGCAATATAAAGAGTTCGCCTGGATAGTAAATATGAGTTTATAATG
1 AAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGAGTTTATAATG
26911252 TGT
66 TGT
* * * * *
26911255 AAAACCATAGCTAGGCTATGGAAACATATAGAGTCTGCCAGAACAGTAAACATGAGTTTGTAATG
1 AAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGAGTTTATAATG
26911320 TGT
66 TGT
* * *
26911323 GAGACCATAGCTAGGCTATGGCAACATATAGAGCCCGTCAGGACAGTA
1 AAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTA
26911371 GTATGATTGT
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 96 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (68 bp):
AAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGAGTTTATAATG
TGT
Found at i:26911820 original size:68 final size:68
Alignment explanation
Indices: 26911698--26911985 Score: 351
Period size: 68 Copynumber: 4.2 Consensus size: 68
26911688 GAGAGAGGTT
* * * * * *
26911698 TAATATGTAAGACCATAGCTAGACTATGGAAATATAAAGAGTTCGCCTGGATAGTAAACATGGGT
1 TAATGTGTAAGACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGGATAGTAAACATGGGT
26911763 TTA
66 TTA
* *
26911766 TAATGTGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGAATAGTAAACATGGGT
1 TAATGTGTAAGACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGGATAGTAAACATGGGT
*
26911831 TTG
66 TTA
* * * * * *
26911834 TAATGTGTGAGACTATAGCTAGGCTATGGCAACATATAGAGCCCGTCAGGACAGTAAACATGGGT
1 TAATGTGTAAGACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGGATAGTAAACATGGGT
26911899 TTA
66 TTA
* * * * * * *
26911902 TAATGTGTAAGACCATAACTAGGCTATGGAAATATATAGAGTTCTCTAGGACATTAAACATGGGT
1 TAATGTGTAAGACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGGATAGTAAACATGGGT
*
26911967 TCA
66 TTA
**
26911970 TACCGTGTAAGACCAT
1 TAATGTGTAAGACCAT
26911986 GGCCAGACTA
Statistics
Matches: 188, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 188 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (68 bp):
TAATGTGTAAGACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGGATAGTAAACATGGGT
TTA
Found at i:26911836 original size:519 final size:519
Alignment explanation
Indices: 26910857--26911889 Score: 1827
Period size: 519 Copynumber: 2.0 Consensus size: 519
26910847 TATAAGTAAA
*
26910857 ATTGTTGAATGAAATATGGTGTTTAAATAAATGGCATACTATGTATTTTATAATAAGTACCTTGC
1 ATTGTTGAATGAAATATGGTGTTTAAATAAATGGCATACTATGTATTTTATAATAAGTAACTTGC
*
26910922 TCGTGTGTGTAATGCATGATTATATTATACACAAAGTACGAAGGTAATTTATCTGGATGGGTAGA
66 TCGTGTGTGTAATGCATGATTATATTATACACAAAGTACAAAGGTAATTTATCTGGATGGGTAGA
26910987 TGAAGTTAGGAATAATTAGCAGAATGGAGGAATGAGTCGATTGTTAAGAGAATAAAAGGGAGTAA
131 TGAAGTTAGGAATAATTAGCAGAATGGAGGAATGAGTCGATTGTTAAGAGAATAAAAGGGAGTAA
* *
26911052 GGAAGTGTCGTGGGATGCTATCGACTGACTCGCTAGAGTGAAATCGTGACAATAGTCTATTGACT
196 GGAAGTGTCGTGGAATGCTATCGACTAACTCGCTAGAGTGAAATCGTGACAATAGTCTATTGACT
* * *
26911117 GTATGGAGTGACACCGTGACAGGGGTTTATAGGTCCTATGGGGCGTCATCTCGAGAGAGGTTTAA
261 CTATGGAGTGACACCGTGACAGGGGTTTATAGGTCCTATGAGGCGACATCTCGAGAGAGGTTTAA
* * *
26911182 TATGCAAGACTATAGCTAGACTATGGCAATATAAAGAGTTCGCCTGGATAGTAAATATGAGTTTA
326 TATGCAAGACCATAGCTAGACTATGGAAATATAAAGAGTTCGCCTGGATAGTAAACATGAGTTTA
*
26911247 TAATGTGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCTGCCAGAACAGTAAACATGAGT
391 TAATGTGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGAACAGTAAACATGAGT
26911312 TTGTAATGTGTGAGACCATAGCTAGGCTATGGCAACATATAGAGCCCGTCAGGACAGTAGTATG
456 TTGTAATGTGTGAGACCATAGCTAGGCTATGGCAACATATAGAGCCCGTCAGGACAGTAGTATG
* *
26911376 ATTGTTGAATGAAATATGGTGTTTGAATAAATGGCATACTATGTATTTTATAATAATTAACTTGC
1 ATTGTTGAATGAAATATGGTGTTTAAATAAATGGCATACTATGTATTTTATAATAAGTAACTTGC
* *
26911441 TTGTGTGTGTAATGCATGATTATATTATACACAAAGTACAAAGGTAATTTATTTGGATGGGTAGA
66 TCGTGTGTGTAATGCATGATTATATTATACACAAAGTACAAAGGTAATTTATCTGGATGGGTAGA
*
26911506 TGAAGTTAGGAATAATTAGCAGAATGGAGGAATGAGTCGATTGTTAAG-GAAATATAAGGGAGTA
131 TGAAGTTAGGAATAATTAGCAGAATGGAGGAATGAGTCGATTGTTAAGAG-AATAAAAGGGAGTA
*
26911570 AGGAAGTGTCGTGGAATGCTATCGACTAACTCGCTAGAGTGAAA-CTGTGGCAATAGTCTATTGA
195 AGGAAGTGTCGTGGAATGCTATCGACTAACTCGCTAGAGTGAAATC-GTGACAATAGTCTATTGA
*
26911634 CTCTATGGAGTGACACCGTGACAGGGGTTTATAGGTCCTATGAGGTGACATCTCGAGAGAGGTTT
259 CTCTATGGAGTGACACCGTGACAGGGGTTTATAGGTCCTATGAGGCGACATCTCGAGAGAGGTTT
* *
26911699 AATATGTAAGACCATAGCTAGACTATGGAAATATAAAGAGTTCGCCTGGATAGTAAACATGGGTT
324 AATATGCAAGACCATAGCTAGACTATGGAAATATAAAGAGTTCGCCTGGATAGTAAACATGAGTT
* *
26911764 TATAATGTGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGAATAGTAAACATGG
389 TATAATGTGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGAACAGTAAACATGA
*
26911829 GTTTGTAATGTGTGAGACTATAGCTAGGCTATGGCAACATATAGAGCCCGTCAGGACAGTA
454 GTTTGTAATGTGTGAGACCATAGCTAGGCTATGGCAACATATAGAGCCCGTCAGGACAGTA
26911890 AACATGGGTT
Statistics
Matches: 489, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
518 2 0.00
519 487 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (519 bp):
ATTGTTGAATGAAATATGGTGTTTAAATAAATGGCATACTATGTATTTTATAATAAGTAACTTGC
TCGTGTGTGTAATGCATGATTATATTATACACAAAGTACAAAGGTAATTTATCTGGATGGGTAGA
TGAAGTTAGGAATAATTAGCAGAATGGAGGAATGAGTCGATTGTTAAGAGAATAAAAGGGAGTAA
GGAAGTGTCGTGGAATGCTATCGACTAACTCGCTAGAGTGAAATCGTGACAATAGTCTATTGACT
CTATGGAGTGACACCGTGACAGGGGTTTATAGGTCCTATGAGGCGACATCTCGAGAGAGGTTTAA
TATGCAAGACCATAGCTAGACTATGGAAATATAAAGAGTTCGCCTGGATAGTAAACATGAGTTTA
TAATGTGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCCGCCAGAACAGTAAACATGAGT
TTGTAATGTGTGAGACCATAGCTAGGCTATGGCAACATATAGAGCCCGTCAGGACAGTAGTATG
Found at i:26915958 original size:22 final size:23
Alignment explanation
Indices: 26915930--26915972 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26915920 TAATGTAAAT
*
26915930 TTATTT-CAGCAGTTACAAACCA
1 TTATTTCCAACAGTTACAAACCA
26915952 TTATTTCCAACAGTTACAAAC
1 TTATTTCCAACAGTTACAAAC
26915973 AGTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (23 bp):
TTATTTCCAACAGTTACAAACCA
Found at i:26917720 original size:28 final size:28
Alignment explanation
Indices: 26917671--26917729 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
26917661 CAAATTCCTA
**
26917671 TTTAAAAAAGTTTTGATTTTTTAATTATT
1 TTTAAAAAAGTTTTGAAATTTT-ATTATT
*
26917700 TTTAAAAAAGTTTT-AAATTTTATTTTT
1 TTTAAAAAAGTTTTGAAATTTTATTATT
26917727 TTT
1 TTT
26917730 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 8 0.30
28 5 0.19
29 14 0.52
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (28 bp):
TTTAAAAAAGTTTTGAAATTTTATTATT
Found at i:26918838 original size:7 final size:7
Alignment explanation
Indices: 26918826--26918851 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26918816 TAGTCGATTG
26918826 GTATTTA
1 GTATTTA
26918833 GTATTTA
1 GTATTTA
26918840 GTATTTA
1 GTATTTA
26918847 GTATT
1 GTATT
26918852 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:26918857 original size:7 final size:7
Alignment explanation
Indices: 26918847--26918871 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26918837 TTAGTATTTA
26918847 GTATTAT
1 GTATTAT
26918854 GTATTAT
1 GTATTAT
26918861 GTATTAT
1 GTATTAT
26918868 GTAT
1 GTAT
26918872 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:26918857 original size:14 final size:14
Alignment explanation
Indices: 26918826--26918871 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
26918816 TAGTCGATTG
26918826 GTATTTAGTATT-T
1 GTATTTAGTATTAT
26918839 AGTATTTAGTATTAT
1 -GTATTTAGTATTAT
26918854 GTA-TTATGTATTAT
1 GTATTTA-GTATTAT
26918868 GTAT
1 GTAT
26918872 ATAACTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.10
14 25 0.86
15 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:26919536 original size:18 final size:18
Alignment explanation
Indices: 26919513--26919555 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26919503 TGTCAGGTGC
* *
26919513 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
26919531 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
26919549 GTTTCCT
1 GTATCCT
26919556 TTTTATAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:26923476 original size:125 final size:125
Alignment explanation
Indices: 26923254--26923542 Score: 443
Period size: 125 Copynumber: 2.3 Consensus size: 125
26923244 CCAAACATGC
* ** *
26923254 GCTACTGTAGAAAAAGTGCATCCACGTGGGAACGATTTCAGTACTTTTGCTGACAAAGCATCCTG
1 GCTACTGTAGCAAAAGCACATCCACGTGGGAACGATTTCAATACTTTTGCTGACAAAGCATCCTG
*
26923319 CTTAAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCGAAATCATTTTTTCAGGA
66 CTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATCATTTTTTCAGGA
* * * *
26923379 GCTACTGTAGCAAAAGCACGTCCACGTGGGAGCGATTTCAATACTTTTGCTGACAATGCATCTTG
1 GCTACTGTAGCAAAAGCACATCCACGTGGGAACGATTTCAATACTTTTGCTGACAAAGCATCCTG
*
26923444 CTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 CTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATCATTTTTTCAGGA
* * * * *
26923504 GTTACTGTAGCAAAACCGCATCCACATGAGAACGATTTC
1 GCTACTGTAGCAAAAGCACATCCACGTGGGAACGATTTC
26923543 CTTAAAAAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 147 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (125 bp):
GCTACTGTAGCAAAAGCACATCCACGTGGGAACGATTTCAATACTTTTGCTGACAAAGCATCCTG
CTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATCATTTTTTCAGGA
Found at i:26926570 original size:21 final size:22
Alignment explanation
Indices: 26926544--26926598 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
26926534 AACAGCGGTG
26926544 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
26926565 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
26926586 GCAGTGAGATTAG
1 GCGGTGAGATTAG
26926599 AAACAGCGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:26926785 original size:18 final size:18
Alignment explanation
Indices: 26926762--26926895 Score: 90
Period size: 18 Copynumber: 7.9 Consensus size: 18
26926752 TTATTATTTA
26926762 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
26926780 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
26926797 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
26926815 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
26926831 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
26926850 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
26926862 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
26926880 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
26926896 TTCTTAGTAT
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 22 0.25
18 42 0.48
19 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:26926824 original size:24 final size:22
Alignment explanation
Indices: 26926789--26926842 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
26926779 TATATAATTT
*
26926789 AATAAAATATATGAAT-TTACTAA
1 AATATAATATAT-AATATTA-TAA
26926812 AATTATAATATATAATATTATAA
1 AA-TATAATATATAATATTATAA
26926835 AATATAAT
1 AATATAAT
26926843 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.21
23 10 0.36
24 12 0.43
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATAATATATAATATTATAA
Found at i:26926833 original size:15 final size:15
Alignment explanation
Indices: 26926813--26926868 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
26926803 ATTTACTAAA
*
26926813 ATTATAATATATAAT
1 ATTATAAAATATAAT
26926828 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
26926841 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
26926854 ATTATTAAATATAAT
1 ATTATAAAATATAAT
26926869 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:26926863 original size:26 final size:25
Alignment explanation
Indices: 26926823--26926885 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
26926813 ATTATAATAT
26926823 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
26926848 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
26926875 AAAATA-TATAA
1 ATAATATTATAA
26926886 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:26926881 original size:59 final size:58
Alignment explanation
Indices: 26926818--26927016 Score: 199
Period size: 59 Copynumber: 3.3 Consensus size: 58
26926808 CTAAAATTAT
26926818 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTT-AAATAATTATTATTAAATATAATTTAACAAA
* * * * * * ** *
26926877 AATATATAATTTAATAAAATTCTTAGTATTAAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATAATTTAA-CAAA
*
26926938 AATATATAATACT-ATAAAATATAATTTTAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAA-TTTAAATAATTATTATTAAATATAATTTAACAAA
26926997 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
26927017 TCTTAGTATT
Statistics
Matches: 109, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
58 4 0.04
59 51 0.47
60 17 0.16
61 33 0.30
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
AATATATAATTTAATAAAATATAATTTAAATAATTATTATTAAATATAATTTAACAAA
Found at i:26926929 original size:120 final size:120
Alignment explanation
Indices: 26926796--26927038 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
26926786 TTTAATAAAA
* *
26926796 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
26926861 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
26926916 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTTAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
26926981 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
26927036 TAT
1 TAT
26927039 GATTGTATCA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:26926945 original size:61 final size:60
Alignment explanation
Indices: 26926846--26927038 Score: 187
Period size: 61 Copynumber: 3.2 Consensus size: 60
26926836 ATATAATTTA
* **
26926846 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
* * * * * * * *
26926907 AAATATTCTTATATGAATTTACTAAAATC-ATAATATATAATACT-ATAAAA-T-ATAATTTT
1 AAATATTCTTAT-TAAATATAATAAAA-CAAAAATATATAAT-TTAATAAAATTCTTAGTATT
* **
26926966 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
26927027 AAATATTCTTAT
1 AAATATTCTTAT
26927039 GATTGTATCA
Statistics
Matches: 101, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
58 2 0.02
59 35 0.35
60 23 0.23
61 39 0.39
62 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (60 bp):
AAATATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
Found at i:26929946 original size:6 final size:6
Alignment explanation
Indices: 26929935--26929972 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
26929925 TTTGCAAACC
*
26929935 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
26929973 GAAGAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:26929958 original size:18 final size:18
Alignment explanation
Indices: 26929935--26929970 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26929925 TTTGCAAACC
26929935 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
26929953 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
26929971 GAGAAGAAGG
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:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:26929979 original size:18 final size:18
Alignment explanation
Indices: 26929940--26929981 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26929930 AAACCAAGGG
**
26929940 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
26929958 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
26929976 GAAGGG
1 GAAGGG
26929982 TAACCAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:26935448 original size:8 final size:8
Alignment explanation
Indices: 26935435--26935459 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26935425 ATATATTTGC
26935435 TTGTGAAA
1 TTGTGAAA
26935443 TTGTGAAA
1 TTGTGAAA
26935451 TTGTGAAA
1 TTGTGAAA
26935459 T
1 T
26935460 CATGAACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TTGTGAAA
Found at i:26940742 original size:28 final size:28
Alignment explanation
Indices: 26940706--26940812 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
26940696 AAAGAAGTGT
*
26940706 CTTTGTGGCGATCTCTGTTAAAGGAAAC
1 CTTTGTGGCGATCTCTGTTAAAGGAAGC
* *
26940734 CTTTATGGCGGTCTCTGTTAAAGGAAGC
1 CTTTGTGGCGATCTCTGTTAAAGGAAGC
* * *
26940762 CTTTGTGGCTATCTCTGTAAAAAGGATGC
1 CTTTGTGGCGATCTCTGT-TAAAGGAAGC
* *
26940791 CTTTGTGCCTATCTCTGTTAAA
1 CTTTGTGGCGATCTCTGTTAAA
26940813 AGGATATCTT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 43 0.63
29 25 0.37
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (28 bp):
CTTTGTGGCGATCTCTGTTAAAGGAAGC
Found at i:26940793 original size:29 final size:28
Alignment explanation
Indices: 26940706--26940834 Score: 123
Period size: 29 Copynumber: 4.5 Consensus size: 28
26940696 AAAGAAGTGT
* *
26940706 CTTTGTGGCGATCTCTGTTAAAGGAAAC
1 CTTTGTGGCTATCTCTGTAAAAGGAAAC
* ** * *
26940734 CTTTATGGCGGTCTCTGTTAAAGGAAGC
1 CTTTGTGGCTATCTCTGTAAAAGGAAAC
**
26940762 CTTTGTGGCTATCTCTGTAAAAAGGATGC
1 CTTTGTGGCTATCTCTGT-AAAAGGAAAC
* * *
26940791 CTTTGTGCCTATCTCTGTTAAAAGGATAT
1 CTTTGTGGCTATCTCTG-TAAAAGGAAAC
*
26940820 CTTTGTGCCTATCTC
1 CTTTGTGGCTATCTC
26940835 AGATAAATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 40 0.45
29 47 0.53
30 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (28 bp):
CTTTGTGGCTATCTCTGTAAAAGGAAAC
Found at i:26947429 original size:20 final size:20
Alignment explanation
Indices: 26947404--26947495 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
26947394 ATTACACTTT
*
26947404 GGTGCCTCTGTTTGTACTCC
1 GGTGCCTCTGTTTGCACTCC
* *
26947424 GGTGCCTCTATTTGCACTTC
1 GGTGCCTCTGTTTGCACTCC
* * * * *
26947444 AGTGACTTTGATTGCACAT-T
1 GGTGCCTCTGTTTGCAC-TCC
* *
26947464 TGTGCCTTTGTTTGCACTCC
1 GGTGCCTCTGTTTGCACTCC
26947484 GGTGCCTCTGTT
1 GGTGCCTCTGTT
26947496 ACGCATCTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
19 1 0.02
20 53 0.96
21 1 0.02
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.41
Consensus pattern (20 bp):
GGTGCCTCTGTTTGCACTCC
Found at i:26949998 original size:14 final size:14
Alignment explanation
Indices: 26949979--26950009 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
26949969 TGAGACATGT
26949979 TGTATTGTGTATGA
1 TGTATTGTGTATGA
26949993 TGTATTGTGTATGA
1 TGTATTGTGTATGA
26950007 TGT
1 TGT
26950010 GAGACAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
TGTATTGTGTATGA
Found at i:26953151 original size:34 final size:34
Alignment explanation
Indices: 26953107--26953174 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
26953097 GCACGGTTGA
* *
26953107 ATAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ATAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
26953142 ATAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ATAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
26953175 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (34 bp):
ATAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:26956704 original size:15 final size:15
Alignment explanation
Indices: 26956684--26956740 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
26956674 AAATAAACCC
26956684 AAAACCAACCCAAAT
1 AAAACCAACCCAAAT
*
26956699 AAAACCAAACC---T
1 AAAACCAACCCAAAT
26956711 AAAACCAACCCAAAT
1 AAAACCAACCCAAAT
**
26956726 AAAAAAAACCCAAAT
1 AAAACCAACCCAAAT
26956741 CCAATTCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 11 0.31
15 24 0.69
ACGTcount: A:0.63, C:0.30, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAACCAACCCAAAT
Found at i:26956709 original size:27 final size:26
Alignment explanation
Indices: 26956678--26956744 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
26956668 TCACATAAAT
*
26956678 AAACCCAAAACCAACCCAAATAAAACC
1 AAACCCAAAACCAACCCAAATAAAA-A
*
26956705 AAACCTAAAACCAACCCAAATAAAAA
1 AAACCCAAAACCAACCCAAATAAAAA
*
26956731 AAACCCAAATCCAA
1 AAACCCAAAACCAA
26956745 TTCAGCCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 12 0.33
27 24 0.67
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (26 bp):
AAACCCAAAACCAACCCAAATAAAAA
Found at i:26959290 original size:22 final size:22
Alignment explanation
Indices: 26959265--26959315 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
26959255 ACGGGAAATG
26959265 GGTGGAGTCG-TGGAGGACCGGA
1 GGTGGA-TCGATGGAGGACCGGA
*
26959287 GGTGGATCGATGGAGGACTGGA
1 GGTGGATCGATGGAGGACCGGA
26959309 GGTGGAT
1 GGTGGAT
26959316 TGGTGCCGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.20, C:0.10, G:0.53, T:0.18
Consensus pattern (22 bp):
GGTGGATCGATGGAGGACCGGA
Found at i:26960421 original size:23 final size:21
Alignment explanation
Indices: 26960374--26960416 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
26960364 ACTGAGCGTC
*
26960374 GAACACAATCATCCACCACTT
1 GAACACAATCAACCACCACTT
26960395 GAACAC-ATCAACCACCACTT
1 GAACACAATCAACCACCACTT
26960415 GA
1 GA
26960417 TGAACCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.40, C:0.37, G:0.07, T:0.16
Consensus pattern (21 bp):
GAACACAATCAACCACCACTT
Found at i:26961721 original size:22 final size:22
Alignment explanation
Indices: 26961696--26961758 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 22
26961686 TAAATATGCA
26961696 TGATTGTTTCTCTTTAGCTGCC
1 TGATTGTTTCTCTTTAGCTGCC
26961718 TGATTGTTTGTTTCTCTTTAGCTGCC
1 TGA----TTGTTTCTCTTTAGCTGCC
26961744 TGATTGTTTCTCTTT
1 TGATTGTTTCTCTTT
26961759 CACATGTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
22 15 0.41
26 22 0.59
ACGTcount: A:0.08, C:0.19, G:0.17, T:0.56
Consensus pattern (22 bp):
TGATTGTTTCTCTTTAGCTGCC
Found at i:26961728 original size:26 final size:26
Alignment explanation
Indices: 26961699--26961752 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
26961689 ATATGCATGA
26961699 TTGTTTCTCTTTAGCTGCCTGATTGT
1 TTGTTTCTCTTTAGCTGCCTGATTGT
26961725 TTGTTTCTCTTTAGCTGCCTGATTGT
1 TTGTTTCTCTTTAGCTGCCTGATTGT
26961751 TT
1 TT
26961753 CTCTTTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.07, C:0.19, G:0.19, T:0.56
Consensus pattern (26 bp):
TTGTTTCTCTTTAGCTGCCTGATTGT
Found at i:26965752 original size:19 final size:19
Alignment explanation
Indices: 26965718--26965757 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
26965708 AAATTATTAA
*
26965718 ATTTGAATATGTCAAATCC
1 ATTTGAATATGTCAAAACC
26965737 ATTTGAA-ATGTCCAAAACC
1 ATTTGAATATGT-CAAAACC
26965756 AT
1 AT
26965758 GTTAGGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTTGAATATGTCAAAACC
Found at i:26971807 original size:22 final size:22
Alignment explanation
Indices: 26971781--26971825 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
26971771 TTTTAATAAA
26971781 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
26971803 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
26971825 A
1 A
26971826 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:26975556 original size:22 final size:22
Alignment explanation
Indices: 26975530--26975574 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
26975520 TTTTAATAAA
26975530 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
26975552 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
26975574 A
1 A
26975575 CATTAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:26986605 original size:54 final size:54
Alignment explanation
Indices: 26986514--26986618 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
26986504 ATTTGGAGAA
*
26986514 ATCAAGTGTAACTAATGTTAAAAGCAACTCATATAGACACGGAAGGTCTAAGAG
1 ATCAAGTGTAACTAATGTTAAAAGCAACGCATATAGACACGGAAGGTCTAAGAG
* * * * * *
26986568 ATCAAGTGTGACTAGTGTTGAAAGCAAGGCATCTAGACATGGAAGGTCTAA
1 ATCAAGTGTAACTAATGTTAAAAGCAACGCATATAGACACGGAAGGTCTAA
26986619 TTCAAATGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (54 bp):
ATCAAGTGTAACTAATGTTAAAAGCAACGCATATAGACACGGAAGGTCTAAGAG
Found at i:26992542 original size:13 final size:13
Alignment explanation
Indices: 26992524--26992572 Score: 71
Period size: 13 Copynumber: 3.6 Consensus size: 13
26992514 ATTTTTACGG
26992524 TTTAAAAAAATTA
1 TTTAAAAAAATTA
*
26992537 TTTAAAAAAATATTT
1 TTT-AAAAAA-ATTA
26992552 TTTAAAAAAATTA
1 TTTAAAAAAATTA
26992565 TTTAAAAA
1 TTTAAAAA
26992573 TAGGGATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 14 0.44
14 12 0.38
15 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTAAAAAAATTA
Found at i:26992555 original size:15 final size:15
Alignment explanation
Indices: 26992527--26992567 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
26992517 TTTACGGTTT
*
26992527 AAAAAA-ATTATTTA
1 AAAAAATATTTTTTA
26992541 AAAAAATATTTTTTA
1 AAAAAATATTTTTTA
26992556 AAAAAATTATTT
1 AAAAAA-TATTT
26992568 AAAAATAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 13 0.54
16 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAAAATATTTTTTA
Found at i:26992625 original size:51 final size:51
Alignment explanation
Indices: 26992570--26992667 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
26992560 AATTATTTAA
26992570 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
26992621 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
26992668 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:26992665 original size:12 final size:11
Alignment explanation
Indices: 26992629--26992705 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
26992619 ATAAATATGG
26992629 ATTTGAGAGAA
1 ATTTGAGAGAA
*
26992640 ATTTTGA-AGGA
1 A-TTTGAGAGAA
26992651 ATTTGAGAGCAA
1 ATTTGAGAG-AA
26992663 A-TTGAGAGGAA
1 ATTTGAGA-GAA
26992674 ATTT-AGAAGAA
1 ATTTGAG-AGAA
* *
26992685 A-TTAAAAGGAA
1 ATTTGAGA-GAA
26992696 ATTTGAGAGA
1 ATTTGAGAGA
26992706 GGATTAGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
10 8 0.15
11 29 0.56
12 15 0.29
ACGTcount: A:0.47, C:0.01, G:0.26, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:26992672 original size:22 final size:21
Alignment explanation
Indices: 26992629--26992705 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 21
26992619 ATAAATATGG
26992629 ATTTGAGAGAAATTTTGAAGG-A
1 ATTTGAGAGAAA--TTGAAGGAA
26992651 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGA-AGGAA
*
26992674 ATTT-AGAAGAAATTAAAAGGAA
1 ATTTGAG-AGAAATT-GAAGGAA
26992696 ATTTGAGAGA
1 ATTTGAGAGA
26992706 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
21 4 0.08
22 31 0.65
23 13 0.27
ACGTcount: A:0.47, C:0.01, G:0.26, T:0.26
Consensus pattern (21 bp):
ATTTGAGAGAAATTGAAGGAA
Found at i:26994214 original size:26 final size:27
Alignment explanation
Indices: 26994162--26994224 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
26994152 ATAAAAAATA
26994162 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
26994189 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
26994215 ACCAAAATAT
1 ACCAAAATAT
26994225 ACAAAAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:26994303 original size:27 final size:27
Alignment explanation
Indices: 26994273--26994324 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
26994263 CACCTTGGTC
*
26994273 GTGCCAAAGTAATTGGTGGCACCAAAG
1 GTGCCAAAGTAATTGGCGGCACCAAAG
*
26994300 GTGCCAAAGTTATTGGCGGCACCAA
1 GTGCCAAAGTAATTGGCGGCACCAA
26994325 TGTTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (27 bp):
GTGCCAAAGTAATTGGCGGCACCAAAG
Found at i:26994408 original size:18 final size:17
Alignment explanation
Indices: 26994369--26994428 Score: 77
Period size: 18 Copynumber: 3.5 Consensus size: 17
26994359 GAGAAGGAAA
*
26994369 GAAAGAAAGAAAGA-AA
1 GAAAGAAAGAAAGAGAG
26994385 GAAAGAAAGAAATGAGAG
1 GAAAGAAAGAAA-GAGAG
*
26994403 GAAAGAAAGAAAAAGAAG
1 GAAAGAAAGAAAGAG-AG
26994421 GAAAGAAA
1 GAAAGAAA
26994429 AGGAAAGGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.31
17 4 0.10
18 23 0.59
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (17 bp):
GAAAGAAAGAAAGAGAG
Found at i:26994500 original size:78 final size:73
Alignment explanation
Indices: 26994408--26994572 Score: 249
Period size: 78 Copynumber: 2.2 Consensus size: 73
26994398 GAGAGGAAAG
26994408 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAATAAAGAAGAAGAAGAGGAAAG
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAG--AAAAAA-AAAGAAGAAGAAGAGGAAAG
26994473 GAGAAGAAAAAA
63 GA-AAGAAAAAA
* *
26994485 TAAAGAAAAGGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAGGGAAGGA
1 -AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAGGAAAGGA
*
26994550 AGGAAAAAA
65 AAGAAAAAA
*
26994559 AAAGAAAAAAAAGG
1 AAAGAAAAAGAAGG
26994573 TAATTTTTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
73 12 0.15
74 8 0.10
75 21 0.26
76 6 0.07
78 35 0.43
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (73 bp):
AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAGGAAAGGAA
AGAAAAAA
Found at i:26994506 original size:4 final size:4
Alignment explanation
Indices: 26994360--26994428 Score: 79
Period size: 4 Copynumber: 17.2 Consensus size: 4
26994350 GGGGAGAAGG
* *
26994360 AGAA GGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA ATGAGA GGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA
*
26994410 AG-A A-AA AGAA GGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA A
26994429 AGGAAAGGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
3 4 0.07
4 46 0.84
5 4 0.07
6 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
AGAA
Found at i:26994539 original size:21 final size:21
Alignment explanation
Indices: 26994477--26994542 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
26994467 GGAAAGGAGA
26994477 AGAAAAAATAAAGAA-AAGGAAG
1 AGAAAAAA-AAAGAAGAA-GAAG
* * *
26994499 -GAAAGAAAAGGAAAGGAGAAG
1 AGAAAAAAAAAG-AAGAAGAAG
26994520 AGAAAAAAAAAGAAGAAGAAG
1 AGAAAAAAAAAGAAGAAGAAG
26994541 AG
1 AG
26994543 GGAAGGAAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
20 3 0.09
21 22 0.63
22 10 0.29
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (21 bp):
AGAAAAAAAAAGAAGAAGAAG
Found at i:26995316 original size:27 final size:27
Alignment explanation
Indices: 26995286--26995341 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
26995276 AAAGAGGGTG
* *
26995286 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGAGGCACCA
26995313 ATGGAGAGGAATAAAAAGGAGGCACCA
1 ATGGAGAGGAATAAAAAGGAGGCACCA
26995340 AT
1 AT
26995342 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.34, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAGGAGGCACCA
Found at i:26997041 original size:18 final size:18
Alignment explanation
Indices: 26997018--26997062 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
26997008 ATCCCAATGA
26997018 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
26997036 TCGCCAGCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
26997054 TCACCACCA
1 TCGCCACCA
26997063 ACCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:26997919 original size:3 final size:3
Alignment explanation
Indices: 26997911--26997958 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
26997901 CCTTAATAAC
* *
26997911 ATA ATA ATA CTA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26997959 CTAACTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:26998256 original size:27 final size:27
Alignment explanation
Indices: 26998173--26998275 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
26998163 AACACGATTA
* *
26998173 GTGCCGCCAATCAATATGGCACCATTG
1 GTGCCGCCAATCACTTTGGCACCATTG
* * * *
26998200 GGGCCGCCAATCTCCTTGGCACCATCG
1 GTGCCGCCAATCACTTTGGCACCATTG
**
26998227 GTGCCGCCAATCACTTTGGCACGTTTG
1 GTGCCGCCAATCACTTTGGCACCATTG
* *
26998254 GTGTCGACAATCA-TCTTGGCAC
1 GTGCCGCCAATCACT-TTGGCAC
26998276 GATCAGAGTG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.24
Consensus pattern (27 bp):
GTGCCGCCAATCACTTTGGCACCATTG
Found at i:26998265 original size:54 final size:54
Alignment explanation
Indices: 26998173--26998275 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
26998163 AACACGATTA
*
26998173 GTGCCGCCAATCAATATGGCACCATTGGGGCCGCCAATC-TCCTTGGCACCATCG
1 GTGCCGCCAATCAATATGGCACCATTGGGGCCGACAATCAT-CTTGGCACCATCG
* * ** * *
26998227 GTGCCGCCAATCACTTTGGCACGTTTGGTGTCGACAATCATCTTGGCAC
1 GTGCCGCCAATCAATATGGCACCATTGGGGCCGACAATCATCTTGGCAC
26998276 GATCAGAGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 40 0.98
55 1 0.02
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.24
Consensus pattern (54 bp):
GTGCCGCCAATCAATATGGCACCATTGGGGCCGACAATCATCTTGGCACCATCG
Found at i:26998361 original size:26 final size:28
Alignment explanation
Indices: 26998332--26998392 Score: 101
Period size: 26 Copynumber: 2.3 Consensus size: 28
26998322 ATTTTTTGGT
26998332 ATATTTTGA-TAAATAAAAAAA-TTATA
1 ATATTTTGAGTAAATAAAAAAATTTATA
26998358 ATA-TTTGAGTAAATAAAAAAATTTATA
1 ATATTTTGAGTAAATAAAAAAATTTATA
26998385 ATATTTTG
1 ATATTTTG
26998393 GCTATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 5 0.16
26 15 0.47
27 8 0.25
28 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (28 bp):
ATATTTTGAGTAAATAAAAAAATTTATA
Found at i:27002069 original size:31 final size:31
Alignment explanation
Indices: 27002034--27002096 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
27002024 GGGTGCTTAA
*
27002034 AAGGCCCTAGAGCATTTGTTTGCTTCATGTG
1 AAGGCCCTAGAGCATTTGTTTACTTCATGTG
27002065 AAGGCCCTAGAGCATTTGTTTACTTCATGTG
1 AAGGCCCTAGAGCATTTGTTTACTTCATGTG
27002096 A
1 A
27002097 TTTTTTTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (31 bp):
AAGGCCCTAGAGCATTTGTTTACTTCATGTG
Found at i:27003805 original size:3 final size:3
Alignment explanation
Indices: 27003797--27003825 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27003787 GCATAATTGT
27003797 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27003826 TTAAGGTGTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27003956 original size:24 final size:24
Alignment explanation
Indices: 27003924--27003972 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27003914 AAGTATGGCT
*
27003924 ATAATGACCAAAATCATCCTGTAA
1 ATAATGACCAAAATCACCCTGTAA
27003948 ATAATGACCAAAATCACCCTGTAA
1 ATAATGACCAAAATCACCCTGTAA
27003972 A
1 A
27003973 GAACTAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (24 bp):
ATAATGACCAAAATCACCCTGTAA
Found at i:27010520 original size:20 final size:20
Alignment explanation
Indices: 27010497--27010550 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
27010487 AGTTTTTCCC
*
27010497 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
27010517 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
27010537 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
27010551 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:27010532 original size:30 final size:30
Alignment explanation
Indices: 27010497--27010570 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
27010487 AGTTTTTCCC
27010497 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
27010527 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
27010557 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
27010571 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:27010560 original size:20 final size:20
Alignment explanation
Indices: 27010497--27010561 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
27010487 AGTTTTTCCC
* * * *
27010497 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
27010517 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
27010536 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
27010557 AGCTC
1 AGCTC
27010562 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:27012273 original size:15 final size:14
Alignment explanation
Indices: 27012213--27012277 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
27012203 AAAAAAATTT
27012213 CAAAAAAAAGTGA-
1 CAAAAAAAAGTGAG
27012226 -AAAAAAAA-TCGAG
1 CAAAAAAAAGT-GAG
**
27012239 CAAAAAAAAGAAAAG
1 CAAAAAAAAG-TGAG
*
27012254 AAAAAAAAAGGTGAG
1 CAAAAAAAA-GTGAG
27012269 CAAAAAAAA
1 CAAAAAAAA
27012278 ATCAAGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 1 0.03
12 10 0.25
14 8 0.20
15 20 0.50
16 1 0.03
ACGTcount: A:0.74, C:0.06, G:0.15, T:0.05
Consensus pattern (14 bp):
CAAAAAAAAGTGAG
Found at i:27013623 original size:27 final size:26
Alignment explanation
Indices: 27013585--27013886 Score: 300
Period size: 27 Copynumber: 11.2 Consensus size: 26
27013575 TAATGGGCAG
* *
27013585 AAAATGACTGAAATACCCTCGAAAGGT
1 AAAATGTC-GAAATACCCTCGAAGGGT
* *
27013612 AAAATGTGTGAAATACCCTCAAAGGGT
1 AAAATGT-CGAAATACCCTCGAAGGGT
* * *
27013639 AAAATGACTGAAATACCCTTGAAGGAT
1 AAAATGTC-GAAATACCCTCGAAGGGT
* *
27013666 AAAATGACCGAAACACCCTCGAAGGGT
1 AAAATG-TCGAAATACCCTCGAAGGGT
* *
27013693 AAAATAATTGAAATACCCTCGAAGGGT
1 AAAAT-GTCGAAATACCCTCGAAGGGT
* *
27013720 AAAATGATTGAAATACCCTCGATGGGT
1 AAAATG-TCGAAATACCCTCGAAGGGT
27013747 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATG-TCGAAATACCCTCGAAGGGT
27013774 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATG-TCGAAATACCCTCGAAGGGT
* * *
27013801 AAAATGACCAAAATACCCTTGAAGGGT
1 AAAATG-TCGAAATACCCTCGAAGGGT
* *
27013828 AAAATGACCGAAATACCCTCGAAAGGT
1 AAAATG-TCGAAATACCCTCGAAGGGT
* * *
27013855 AAATTGATCAAAATGCCC-CTGAAGGGT
1 AAAATG-TCGAAATACCCTC-GAAGGGT
27013882 AAAAT
1 AAAAT
27013887 AATTGTTATA
Statistics
Matches: 236, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.00
27 234 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (26 bp):
AAAATGTCGAAATACCCTCGAAGGGT
Found at i:27013867 original size:54 final size:54
Alignment explanation
Indices: 27013585--27013886 Score: 367
Period size: 54 Copynumber: 5.6 Consensus size: 54
27013575 TAATGGGCAG
* *** *
27013585 AAAATGA-CTGAAATACCCTCGAAAGGTAAAATGTGTGAAATACCCTCAAAGGGT
1 AAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
* * *
27013639 AAAATGA-CTGAAATACCCTTGAAGGATAAAATGACCGAAACACCCTCGAAGGGT
1 AAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
* * ** *
27013693 AAAATAATTGAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGATGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
*
27013747 AAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
* * * *
27013801 AAAATGACCAAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCGAAAGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
* * *
27013855 AAATTGATCAAAATGCCC-CTGAAGGGTAAAAT
1 AAAATGATCGAAATACCCTC-GAAGGGTAAAAT
27013887 AATTGTTATA
Statistics
Matches: 217, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
54 217 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (54 bp):
AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
Found at i:27013901 original size:81 final size:81
Alignment explanation
Indices: 27013585--27013886 Score: 410
Period size: 81 Copynumber: 3.7 Consensus size: 81
27013575 TAATGGGCAG
* * *
27013585 AAAATGACTGAAATACCCTCGAAAGGTAAAATG-TGTGAAATACCCTCAAAGGGTAAAATGACTG
1 AAAATGACCGAAATACCCTCGAAAGGTAAAATGAT-CGAAATACCCTCGAAGGGTAAAATGACTG
*
27013649 AAATACCCTTGAAGGAT
65 AAATACCCTTGAAGGGT
* * * * *
27013666 AAAATGACCGAAACACCCTCGAAGGGTAAAATAATTGAAATACCCTCGAAGGGTAAAATGATTGA
1 AAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTGA
* *
27013731 AATACCCTCGATGGGT
66 AATACCCTTGAAGGGT
* * **
27013747 AAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCAA
1 AAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTGA
27013812 AATACCCTTGAAGGGT
66 AATACCCTTGAAGGGT
* * *
27013828 AAAATGACCGAAATACCCTCGAAAGGTAAATTGATCAAAATGCCC-CTGAAGGGTAAAAT
1 AAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACCCTC-GAAGGGTAAAAT
27013887 AATTGTTATA
Statistics
Matches: 196, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 194 0.99
82 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (81 bp):
AAAATGACCGAAATACCCTCGAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTGA
AATACCCTTGAAGGGT
Found at i:27018247 original size:24 final size:22
Alignment explanation
Indices: 27018197--27018247 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
27018187 GTTTCGACCC
* *
27018197 ACAGCTCGTGATAGCACCGATT
1 ACAGCTCGTGAAAGCACAGATT
27018219 ACAGCTCGTGAAAGCATCTAGATT
1 ACAGCTCGTGAAAGCA-C-AGATT
27018243 ACAGC
1 ACAGC
27018248 CTGTGAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.60
23 1 0.04
24 9 0.36
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (22 bp):
ACAGCTCGTGAAAGCACAGATT
Found at i:27027214 original size:24 final size:24
Alignment explanation
Indices: 27027187--27027278 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
27027177 GTTCTGACCC
*
27027187 ACAGCTCGTGAAAGCATACTGATT
1 ACAGCTCGTGAGAGCATACTGATT
*
27027211 ACAGCTCGTGAGAGCATACCGATT
1 ACAGCTCGTGAGAGCATACTGATT
** * **
27027235 ATTGCTCGTGTGAGCATGTTGATTT
1 ACAGCTCGTGAGAGCATACTGA-TT
*
27027260 ACAGCTCGTGTGAGCATAC
1 ACAGCTCGTGAGAGCATAC
27027279 ATTTACAGGA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
24 38 0.69
25 17 0.31
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (24 bp):
ACAGCTCGTGAGAGCATACTGATT
Found at i:27029428 original size:19 final size:19
Alignment explanation
Indices: 27029404--27029446 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
27029394 ATCAGGGACC
27029404 AATTTA-AAACAAATCTAAA
1 AATTTAGAAA-AAATCTAAA
**
27029423 AATTTAGGGAAAATCTAAA
1 AATTTAGAAAAAATCTAAA
27029442 AATTT
1 AATTT
27029447 TCAATACAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (19 bp):
AATTTAGAAAAAATCTAAA
Found at i:27039157 original size:24 final size:23
Alignment explanation
Indices: 27039116--27039191 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
27039106 AATATGCTAC
* * * *
27039116 AAAGGCATTTATATAATATGCCA
1 AAAGGCACTTACAAAATAAGCCA
* *
27039139 TAAAGGCACTTTCAAAATACGCCA
1 -AAAGGCACTTACAAAATAAGCCA
*
27039163 CAAAGGCACTTACAGAATAAGCCA
1 -AAAGGCACTTACAAAATAAGCCA
27039187 AAAGG
1 AAAGG
27039192 GCCTTATAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 5 0.12
24 38 0.88
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.20
Consensus pattern (23 bp):
AAAGGCACTTACAAAATAAGCCA
Found at i:27043221 original size:41 final size:41
Alignment explanation
Indices: 27043158--27043242 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
27043148 CATTTTTTTA
* **
27043158 ATTTGTTATCCTTTTTTAATAACATCCTTTTAAACCCTTTC
1 ATTTGATATCCTTTTCGAATAACATCCTTTTAAACCCTTTC
* * *
27043199 ATTTGATATCCTTTTCGGATAACATCCTTTTCAACCTTTTC
1 ATTTGATATCCTTTTCGAATAACATCCTTTTAAACCCTTTC
27043240 ATT
1 ATT
27043243 GATTTGGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (41 bp):
ATTTGATATCCTTTTCGAATAACATCCTTTTAAACCCTTTC
Found at i:27045232 original size:14 final size:14
Alignment explanation
Indices: 27045213--27045251 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
27045203 TTGTTTCATT
*
27045213 GAAAATGGTTTCCG
1 GAAAATGATTTCCG
*
27045227 GAAAATGATTTCTG
1 GAAAATGATTTCCG
27045241 GAAAATGATTT
1 GAAAATGATTT
27045252 ACTTTTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:27045789 original size:16 final size:16
Alignment explanation
Indices: 27045756--27045796 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
27045746 ATGTGAAGAA
27045756 TATTATTTAAAATCAT
1 TATTATTTAAAATCAT
27045772 TATT-TTTAAAAT--T
1 TATTATTTAAAATCAT
27045785 TATTA-TTAAAAT
1 TATTATTTAAAAT
27045797 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTATTTAAAATCAT
Found at i:27049291 original size:16 final size:18
Alignment explanation
Indices: 27049265--27049297 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27049255 TTTAATAAGA
27049265 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
27049282 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
27049298 CACAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:27051984 original size:51 final size:50
Alignment explanation
Indices: 27051849--27052038 Score: 220
Period size: 51 Copynumber: 3.8 Consensus size: 50
27051839 AGTGAAAGTG
* *** *
27051849 ATGGTCACTTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATG-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATTGT
*
27051898 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATTGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATTGT
* * * * * * *
27051949 TTCGATCACGTGTGTAGTACTATGTGCAGGATACTATGGGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATTGT
*
27052000 AATGGTCACATGTGTAGTACTATGTGCATGCTACTATGC
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGC
27052039 AAACCGAACA
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.02
50 41 0.35
51 73 0.62
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATTGT
Found at i:27052036 original size:102 final size:101
Alignment explanation
Indices: 27051853--27052038 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
27051843 AAAGTGATGG
* * * *
27051853 TCACTTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGATACTACAGGTACCGGAATGATAGGTCACATGTGTAGTAC
27051918 TATGTGCAGGCTACTATGCGTACCGGATTGTTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATTGTTTCGA
** * *
27051954 TCACGTGTGTAGTACTATGTGCAGGATACTATGGGTATCGG-ATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGATACTACAGGTACCGGAATGAT-A-GGTCACATGTGTAGT
*
27052018 ACTATGTGCATGCTACTATGC
64 ACTATGTGCAGGCTACTATGC
27052039 AAACCGAACA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
100 4 0.05
101 36 0.49
102 34 0.46
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGATACTACAGGTACCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATTGTTTCGA
Found at i:27055878 original size:25 final size:25
Alignment explanation
Indices: 27055844--27055926 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
27055834 GGACACACCA
27055844 CAGCTCGTATAAGCTTCCCAATTTG
1 CAGCTCGTATAAGCTTCCCAATTTG
* * *
27055869 CAGCTTGTATAAGTTTCCCGATTTG
1 CAGCTCGTATAAGCTTCCCAATTTG
* * * **
27055894 CAGCTCGTGTGAGCTTACCAATTCA
1 CAGCTCGTATAAGCTTCCCAATTTG
27055919 CAGCTCGT
1 CAGCTCGT
27055927 GAGAACATAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATAAGCTTCCCAATTTG
Found at i:27055937 original size:25 final size:25
Alignment explanation
Indices: 27055894--27055948 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
27055884 TCCCGATTTG
* * *
27055894 CAGCTCGTGTGAGCTTACCAATTCA
1 CAGCTCGTGAGAACATACCAATTCA
*
27055919 CAGCTCGTGAGAACATACCGATTCA
1 CAGCTCGTGAGAACATACCAATTCA
*
27055944 TAGCT
1 CAGCT
27055949 AGCATGAGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (25 bp):
CAGCTCGTGAGAACATACCAATTCA
Found at i:27057380 original size:15 final size:17
Alignment explanation
Indices: 27057354--27057385 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27057344 TTTTCCCAAT
27057354 AAAGACAAAACT-TAAA
1 AAAGACAAAACTCTAAA
27057370 AAAGA-AAAACTCTAAA
1 AAAGACAAAACTCTAAA
27057386 TTCTATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.69, C:0.12, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAGACAAAACTCTAAA
Found at i:27057922 original size:19 final size:19
Alignment explanation
Indices: 27057895--27057934 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27057885 GGAAGAAGAG
27057895 AAGGAAAAT-AAAGAAATAA
1 AAGGAAAATAAAAGAAA-AA
*
27057914 AAGGGAAATAAAAGAAAAA
1 AAGGAAAATAAAAGAAAAA
27057933 AA
1 AA
27057935 AATTTGCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (19 bp):
AAGGAAAATAAAAGAAAAA
Found at i:27057935 original size:20 final size:19
Alignment explanation
Indices: 27057895--27057935 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
27057885 GGAAGAAGAG
*
27057895 AAGGAAAATAAAGAAATAA
1 AAGGAAAATAAAGAAAAAA
*
27057914 AAGGGAAATAAAAGAAAAAA
1 AAGGAAAAT-AAAGAAAAAA
27057934 AA
1 AA
27057936 ATTTGCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (19 bp):
AAGGAAAATAAAGAAAAAA
Found at i:27058430 original size:15 final size:16
Alignment explanation
Indices: 27058406--27058435 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27058396 CAAATAATTT
27058406 AAAAATTAAAAAAATC
1 AAAAATTAAAAAAATC
27058422 AAAAA-TAAAAAAAT
1 AAAAATTAAAAAAAT
27058436 TTATAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATTAAAAAAATC
Found at i:27074148 original size:21 final size:21
Alignment explanation
Indices: 27074124--27074177 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
27074114 ATTAGTTATT
*
27074124 GTAGCAGTGAGAGTGAATATG
1 GTAGCAATGAGAGTGAATATG
*
27074145 GTAGCAATGAGAGTGGATATG
1 GTAGCAATGAGAGTGAATATG
27074166 GTAGCAATGAGA
1 GTAGCAATGAGA
27074178 TTAAAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.06, G:0.37, T:0.22
Consensus pattern (21 bp):
GTAGCAATGAGAGTGAATATG
Found at i:27074442 original size:21 final size:21
Alignment explanation
Indices: 27074413--27074476 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
27074403 ACATATAAAA
*
27074413 AACACAAATAACATAATATAT
1 AACAAAAATAACATAATATAT
27074434 AACAAAAATATA-ATACAT-TAT
1 AACAAAAATA-ACATA-ATATAT
* *
27074455 AA-AAACAAAAACATAAAATAT
1 AACAAA-AATAACATAATATAT
27074476 A
1 A
27074477 TTATGTAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
20 5 0.14
21 27 0.77
22 3 0.09
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (21 bp):
AACAAAAATAACATAATATAT
Found at i:27078140 original size:19 final size:19
Alignment explanation
Indices: 27078118--27078158 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
27078108 ATTATTCCCA
27078118 AATTTAATTCCTAGACCCG
1 AATTTAATTCCTAGACCCG
*
27078137 AATTTAATTCCTAGACTCG
1 AATTTAATTCCTAGACCCG
27078156 AAT
1 AAT
27078159 CGGCTACCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (19 bp):
AATTTAATTCCTAGACCCG
Found at i:27085023 original size:18 final size:18
Alignment explanation
Indices: 27085002--27085051 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
27084992 GAGTGTTGTT
27085002 ATTGAAAAAGAAAGAGAG
1 ATTGAAAAAGAAAGAGAG
*
27085020 ATTGAAAAAGAAA-TGAG
1 ATTGAAAAAGAAAGAGAG
27085037 --TGAAAAAG-AAGAGAG
1 ATTGAAAAAGAAAGAGAG
27085052 TAATCAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 2 0.07
15 11 0.38
17 3 0.10
18 13 0.45
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (18 bp):
ATTGAAAAAGAAAGAGAG
Found at i:27085052 original size:15 final size:15
Alignment explanation
Indices: 27085004--27085052 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
27084994 GTGTTGTTAT
27085004 TGAAAAAGAAAGAGAG
1 TGAAAAAG-AAGAGAG
27085020 ATTGAAAAAGAA-ATGAG
1 --TGAAAAAGAAGA-GAG
27085037 TGAAAAAGAAGAGAG
1 TGAAAAAGAAGAGAG
27085052 T
1 T
27085053 AATCAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 14 0.48
16 2 0.07
17 5 0.17
18 8 0.28
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (15 bp):
TGAAAAAGAAGAGAG
Found at i:27090119 original size:79 final size:82
Alignment explanation
Indices: 27090008--27090192 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
27089998 GCTACTCGTT
* * * *
27090008 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAGTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-AGATCTTAACCC
* *
27090071 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
27090088 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCG
* *
27090151 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
27090168 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27090193 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 54 0.60
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:27090192 original size:40 final size:40
Alignment explanation
Indices: 27089989--27090192 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
27089979 CGGAATTTAA
** *
27089989 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
27090029 CCGGTTATAGTAACTCGCACAAGTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27090069 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
27090108 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27090148 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27090188 CCGGA
1 CCGGA
27090193 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 92 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27097853 original size:49 final size:50
Alignment explanation
Indices: 27097776--27098058 Score: 167
Period size: 50 Copynumber: 5.7 Consensus size: 50
27097766 AAATATAACA
* * * * * *
27097776 TGCCAAAGCTATATCCCAGACATAGTCTTACATGGGATGTT-TCTTGTA-C
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGA-GTTCTCATATAGC
* *
27097825 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAGC
* * ** * ** *
27097875 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG-
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATAT-AGC
* ** * * * * ** * * * *
27097925 TGCGAGCGTCATGTCCCAGACATGATCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAGC
* * * * ** * * *
27097975 TGCCAACGCCATGTCCCAGGCATGATCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAGC
* *
27098025 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATG
27098059 GGATCTCTTT
Statistics
Matches: 195, Mismatches: 35, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
48 3 0.02
49 38 0.19
50 152 0.78
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAGC
Found at i:27097893 original size:50 final size:50
Alignment explanation
Indices: 27097825--27098058 Score: 263
Period size: 50 Copynumber: 4.7 Consensus size: 50
27097815 TTTCTTGTAC
* * * ** *
27097825 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGG
* * ** *
27097875 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCA-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCT-AGG
* * * * * * *
27097925 TGCGAGCGTCATGTCCCAGACATGATCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGG
* * *
27097975 TGCCAACGCCATGTCCCAGGCATGATCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGG
27098025 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
27098059 GGATCTCTTT
Statistics
Matches: 155, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
50 154 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGG
Found at i:27107761 original size:19 final size:19
Alignment explanation
Indices: 27107737--27107775 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27107727 TCAATCCATT
27107737 TAATACTTCTAGTATTCAA
1 TAATACTTCTAGTATTCAA
27107756 TAATACTTCTAGTATTCAA
1 TAATACTTCTAGTATTCAA
27107775 T
1 T
27107776 TTAGTCCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
TAATACTTCTAGTATTCAA
Found at i:27113301 original size:27 final size:27
Alignment explanation
Indices: 27113263--27113318 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
27113253 TATATGAAAG
*
27113263 CATAGTCCAATTTGAGTAAGGAGTTAT
1 CATAGTCCAATTTGAGTAAAGAGTTAT
27113290 CATAGTCCAATTTGAGTAAAGAGTTAT
1 CATAGTCCAATTTGAGTAAAGAGTTAT
27113317 CA
1 CA
27113319 CACTATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (27 bp):
CATAGTCCAATTTGAGTAAAGAGTTAT
Found at i:27114846 original size:27 final size:27
Alignment explanation
Indices: 27114808--27114866 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
27114798 TTTTCTTATT
* *
27114808 TAGATCTAGATAAGCCTCGTATGGATC
1 TAGATCTAGATAAACCTCGTACGGATC
*
27114835 TAGATCTAGATAAACCTTGTACGGATC
1 TAGATCTAGATAAACCTCGTACGGATC
27114862 TAGAT
1 TAGAT
27114867 AAGCCTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (27 bp):
TAGATCTAGATAAACCTCGTACGGATC
Found at i:27127445 original size:41 final size:42
Alignment explanation
Indices: 27127400--27127537 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
27127390 GGCTCAGTAC
** **
27127400 CTAGCAGGCTTGTTGCCAGTGAAA-CCATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
** *
27127441 CTAGCAGGCTTAATGCTGGTGAAATAAATTTAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
* * ** * *
27127483 CTAGTAGGCTTAATGCCGGTGAAATAAATTTGGACTATAAGT
1 CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
*
27127525 CTAGTAGGCTTAA
1 CTAGCAGGCTTAA
27127538 AGTCGGTGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 20 0.24
42 64 0.76
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCAGTGAAATAAATTCAGACTTTACGT
Found at i:27127492 original size:42 final size:42
Alignment explanation
Indices: 27127430--27127537 Score: 171
Period size: 42 Copynumber: 2.6 Consensus size: 42
27127420 GAAACCATTC
* *
27127430 AGACTTTACGTCTAGCAGGCTTAATGCTGGTGAAATAAATTT
1 AGACTTTACGTCTAGTAGGCTTAATGCCGGTGAAATAAATTT
27127472 AGACTTTACGTCTAGTAGGCTTAATGCCGGTGAAATAAATTT
1 AGACTTTACGTCTAGTAGGCTTAATGCCGGTGAAATAAATTT
* * *
27127514 GGACTATAAGTCTAGTAGGCTTAA
1 AGACTTTACGTCTAGTAGGCTTAA
27127538 AGTCGGTGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (42 bp):
AGACTTTACGTCTAGTAGGCTTAATGCCGGTGAAATAAATTT
Found at i:27131764 original size:28 final size:28
Alignment explanation
Indices: 27131732--27131787 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
27131722 TCGACTTGAC
* *
27131732 TTAGACATCATTAA-AGCATGTAATAAAA
1 TTAGACA-CATTAATAACATATAATAAAA
27131760 TTAGACACATTAATAACATATAATAAAA
1 TTAGACACATTAATAACATATAATAAAA
27131788 ACACATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (28 bp):
TTAGACACATTAATAACATATAATAAAA
Found at i:27139969 original size:29 final size:29
Alignment explanation
Indices: 27139906--27139973 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
27139896 TAATCAACCA
27139906 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
27139935 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
27139964 CGCACACTTA
1 CGCACACTTA
27139974 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:27140114 original size:29 final size:30
Alignment explanation
Indices: 27140075--27140153 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
27140065 CTTAATAATC
27140075 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
27140105 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
27140134 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27140154 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:27147090 original size:17 final size:17
Alignment explanation
Indices: 27147068--27147101 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27147058 AATCCTACTA
27147068 AATGTATATATT-ATCTT
1 AATGTAT-TATTCATCTT
27147085 AATGTATTATTCATCTT
1 AATGTATTATTCATCTT
27147102 CCTTTTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (17 bp):
AATGTATTATTCATCTT
Found at i:27169562 original size:14 final size:14
Alignment explanation
Indices: 27169543--27169581 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
27169533 TTGTTTCACT
27169543 GAAAATGACTTCCG
1 GAAAATGACTTCCG
* *
27169557 GAAAATGATTTCTG
1 GAAAATGACTTCCG
27169571 GAAAATGACTT
1 GAAAATGACTT
27169582 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Done.