Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167967.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_226, 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: 46850
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 1 of 2
Found at i:2199 original size:176 final size:177
Alignment explanation
Indices: 1764--2685 Score: 621
Period size: 176 Copynumber: 5.1 Consensus size: 177
1754 TAACATTCAA
* * * * * ** * *
1764 AAAATTAATAAGCAAAAGATATGAAAAAATAAATTTGTTTACCGATTAAGTTTAAATAGTTATGA
1 AAAATTAATAAGTAAGAGAT-TTAAAAAAT-AATTTCTTTACTGAACAAATTCAAATAGTTATGA
* * * * *
1829 CTATTTGAATAATTATTTATTTAAAATTATTATGAGTATTTGTTTTGACA-AAAACAAATTGTTT
64 CTATTTGAACAATTATCTATTTAAAATCATTATGACT-TTTGTTTTGTCATAAAA-AAATTGTTT
* * * * *
1893 CAGTTCATAAAAGCTTATCTAAAATAAAATTATACTAATTTCTTAATATTTTA
127 CAGTTCATACAAGCTTTTC-AAAATAAAATAATACTAATTTATTAATA-TTTC
* * *
1946 AAAATTAATAAGCAAGAG-TTTGAAAAATTAATTTGTTTACTGAACAAATTCAAATAGTTATGAC
1 AAAATTAATAAGTAAGAGATTT-AAAAAATAATTTCTTTACTGAACAAATTCAAATAGTTATGAC
*
2010 TATTTGAACAATTATCTATTTAAAATCATTATGACTTTTGTTTTGTCATAAAATAATTGTTTCAG
65 TATTTGAACAATTATCTATTTAAAATCATTATGACTTTTGTTTTGTCATAAAAAAATTGTTTCAG
* *
2075 TTCATACAAGCTTTTCAAAAT-AAATAATAGTAATTTATTAATATTCC
130 TTCATACAAGCTTTTCAAAATAAAATAATACTAATTTATTAATATTTC
* * **** * *
2122 AAAATTAAT-AGTAAGTGATTTAAAAAATGATTCTCTTTA-TCGAATTGGTTCAAATAATTATGG
1 AAAATTAATAAGTAAGAGATTTAAAAAATAATT-TCTTTACT-GAACAAATTCAAATAGTTATGA
* * * * * *
2185 CTATTTCAACAATTATCTATTTGAAATCAATATTACCTTTTG-TTTGATCATATAACAATTGTTT
64 CTATTTGAACAATTATCTATTTAAAATCATTATGA-CTTTTGTTTTG-TCATAAAAAAATTGTTT
** *
2249 -TTTATCATACAAGC--TTCAAAATAAAATAATACTAATTTATTAATCTTTC
127 CAGT-TCATACAAGCTTTTCAAAATAAAATAATACTAATTTATTAATATTTC
* * * * ** *
2298 AAAAGCTAATAAGTAAGAAATTTAAAAAATAAATTTATTTA-TCAAACATGTTTAAATAGTTATG
1 AAAA-TTAATAAGTAAGAGATTTAAAAAAT-AATTTCTTTACT-GAACAAATTCAAATAGTTATG
* * * * * * * *
2362 ACTATTTGATCAAATGTATAGTTTAAATCAATTATTTAAAAAATAAACCTTTTTTGTTCTATCAT
63 ACTATTTGAACAATTATCTA-TTT-AA--AATCA-TT-----AT-GA-C--TTTTGTTTTGTCAT
* ** * * * *
2427 AAAACAATT-ACTCATGTTCATACAAGCTTATTCGAAATAAAATAATACTAATCTAATAATACTC
114 AAAAAAATTGTTTCA-GTTCATACAAGCTT-TTCAAAATAAAATAATACTAATTTATTAATA-TT
*
2491 TG
176 TC
* * * * * * * *
2493 AAAATTAATAACTAGGAGATTTAAAAAATAAATTTTTTTTGCTGAACGCAGTTTAAATAGTTAAG
1 AAAATTAATAAGTAAGAGATTTAAAAAAT-AA-TTTCTTTACTGAAC-AAATTCAAATAGTTATG
* * * * * *
2558 ACTATATGAACAATTATCTATTTTAAATCGTTATGACCTTTTGTTTT-TTAT-AAACAATTTTTT
63 ACTATTTGAACAATTATCTATTTAAAATCATTATGA-CTTTTGTTTTGTCATAAAAAAATTGTTT
* ** * * *
2621 CAATTCAGGCTAGCTTATTCAGAATAAAATAA-AATGAATTTATTAAATATTTC
127 CAGTTCATACAAGCTT-TTCAAAATAAAATAATACT-AATTTATT-AATATTTC
2674 AAAAATTAATAA
1 -AAAATTAATAA
2686 AGATTTAACA
Statistics
Matches: 590, Mismatches: 111, Indels: 78
0.76 0.14 0.10
Matches are distributed among these distances:
175 24 0.04
176 98 0.17
177 54 0.09
178 58 0.10
179 42 0.07
180 70 0.12
181 47 0.08
182 42 0.07
183 9 0.02
185 3 0.01
186 2 0.00
188 2 0.00
189 3 0.01
190 1 0.00
191 29 0.05
192 6 0.01
194 52 0.09
195 18 0.03
196 30 0.05
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (177 bp):
AAAATTAATAAGTAAGAGATTTAAAAAATAATTTCTTTACTGAACAAATTCAAATAGTTATGACT
ATTTGAACAATTATCTATTTAAAATCATTATGACTTTTGTTTTGTCATAAAAAAATTGTTTCAGT
TCATACAAGCTTTTCAAAATAAAATAATACTAATTTATTAATATTTC
Found at i:3067 original size:25 final size:26
Alignment explanation
Indices: 3039--3096 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
3029 TTTATATAGT
*
3039 ATAAATT-TAAATAATTAATATTATA
1 ATAAATTATAAATAATTAATAATATA
* *
3064 AT-AATTATAAATTATTACTAATATA
1 ATAAATTATAAATAATTAATAATATA
3089 AT-AATTAT
1 ATAAATTAT
3097 GTTTATTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAAATTATAAATAATTAATAATATA
Found at i:3180 original size:92 final size:89
Alignment explanation
Indices: 3016--3186 Score: 195
Period size: 91 Copynumber: 1.9 Consensus size: 89
3006 ATTTAAAATA
* * *
3016 TTAAAATAATAATTTTATATAGTATAAATTTAAATAATTAATATTATAATAATTATAAATTATTA
1 TTAAAATAATAATTTTATATAGTATAAATTTAAATAATTAATATTAAAATAATAATAAA-TACTA
*
3081 CTAATATAATAATTATGTTTATTAGT
65 ATAATATAA-AATTATGTTTATTAGT
* * *
3107 TTAAAATAATTATTTTATTATATTATAAA-TTATAATAAATAATTAGTTTAAAATAATAATAAA-
1 TTAAAATAATAATTTTA-TATAGTATAAATTTA-AATAATTAA-TA--TTAAAATAATAATAAAT
3170 ACTAAT-ATATAAAATTA
61 ACTAATAATATAAAATTA
3187 CATAAAAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
91 24 0.35
92 24 0.35
93 6 0.09
95 14 0.21
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (89 bp):
TTAAAATAATAATTTTATATAGTATAAATTTAAATAATTAATATTAAAATAATAATAAATACTAA
TAATATAAAATTATGTTTATTAGT
Found at i:3277 original size:16 final size:16
Alignment explanation
Indices: 3256--3290 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3246 CAATAAATTA
* *
3256 TTATATTAGTTATAAT
1 TTATATTAATAATAAT
3272 TTATATTAATAATAAT
1 TTATATTAATAATAAT
3288 TTA
1 TTA
3291 AACAATAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTATATTAATAATAAT
Found at i:4317 original size:33 final size:36
Alignment explanation
Indices: 4255--4323 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 36
4245 TAAATTAGTA
4255 TTATATAATAATATATAATAATATTAATTTTACTATC
1 TTATATAATAATATATAATAATA-TAATTTTACTATC
*
4292 TTATA-AATATTAT-TAATAATA-AATTTTACTAT
1 TTATATAATAATATATAATAATATAATTTTACTAT
4324 TAATACTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 11 0.35
35 8 0.26
36 7 0.23
37 5 0.16
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
TTATATAATAATATATAATAATATAATTTTACTATC
Found at i:4473 original size:13 final size:14
Alignment explanation
Indices: 4454--4493 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
4444 TGTTTTGAAA
4454 ATAATTAATTAATT
1 ATAATTAATTAATT
4468 -TAATTAA-TAATT
1 ATAATTAATTAATT
4480 ATAA-TAATTAATT
1 ATAATTAATTAATT
4493 A
1 A
4494 ATAACAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTAATTAATT
Found at i:4478 original size:20 final size:20
Alignment explanation
Indices: 4453--4497 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
4443 TTGTTTTGAA
*
4453 AATAATTA-ATTAATTTAATT
1 AATAATTATAATAA-TTAATT
4473 AATAATTATAATAATTAATT
1 AATAATTATAATAATTAATT
4493 AATAA
1 AATAA
4498 CAAAAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAATTATAATAATTAATT
Found at i:4674 original size:11 final size:11
Alignment explanation
Indices: 4651--4693 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
4641 ACAATTTTAA
4651 AATATTATTATT
1 AATATT-TTATT
4663 AATATTTTATT
1 AATATTTTATT
*
4674 AATTGTTTATATT
1 AA-TATTT-TATT
4687 AATATTT
1 AATATTT
4694 AAATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 7 0.26
12 14 0.52
13 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
AATATTTTATT
Found at i:4934 original size:25 final size:24
Alignment explanation
Indices: 4901--4948 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
4891 TTAATTAAAT
4901 ATAAATATTCAATTAAATAT-TTTTA
1 ATAAATATT--ATTAAATATATTTTA
*
4926 ATAATTATTATTAAATATATTTT
1 ATAAATATTATTAAATATATTTT
4949 TACTAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATAAATATTATTAAATATATTTTA
Found at i:4958 original size:25 final size:24
Alignment explanation
Indices: 4917--4966 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
4907 ATTCAATTAA
4917 ATATTTTTAATAATTATTATTAAAT
1 ATATTTTTAATAATTA-TATTAAAT
* * *
4942 ATATTTTTACTAGTTATATTTAAT
1 ATATTTTTAATAATTATATTAAAT
4966 A
1 A
4967 CTATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATTTTTAATAATTATATTAAAT
Found at i:5034 original size:16 final size:16
Alignment explanation
Indices: 5003--5048 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
4993 TAAATCTAAT
5003 TTATTTATATAATTAAAA
1 TTATTTA-A-AATTAAAA
5021 TTATTTAAAATTAAAA
1 TTATTTAAAATTAAAA
5037 TTATTTAAAATT
1 TTATTTAAAATT
5049 TTTGTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
17 1 0.04
18 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTTAAAATTAAAA
Found at i:5151 original size:13 final size:14
Alignment explanation
Indices: 5122--5153 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
5112 AATAATTTAA
5122 TAAATTATATAATT
1 TAAATTATATAATT
5136 TAAATTATAT-ATT
1 TAAATTATATAATT
5149 TAAAT
1 TAAAT
5154 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:5401 original size:17 final size:17
Alignment explanation
Indices: 5379--5413 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5369 CCATTTATGA
5379 AATATTAGA-TAATTAAT
1 AATATTA-ATTAATTAAT
5396 AATATTAATTAATTAAT
1 AATATTAATTAATTAAT
5413 A
1 A
5414 TTTTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AATATTAATTAATTAAT
Found at i:5423 original size:25 final size:25
Alignment explanation
Indices: 5395--5444 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
5385 AGATAATTAA
5395 TAATATTAATTAA-TTAATATTTTAT
1 TAAT-TTAATTAATTTAATATTTTAT
*
5420 TAATTTTATTAATTTAATATTTTAT
1 TAATTTAATTAATTTAATATTTTAT
5445 CATTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATTTAATTAATTTAATATTTTAT
Found at i:5537 original size:27 final size:29
Alignment explanation
Indices: 5507--5563 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
5497 ATATTAAGAT
5507 TTTAAT-AATAATTAT-CA-ATAATTTTAA
1 TTTAATAAAT-ATTATACATATAATTTTAA
* *
5534 TTTATTAAATATTATATATATAATTTTAA
1 TTTAATAAATATTATACATATAATTTTAA
5563 T
1 T
5564 AAATTATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 10 0.40
28 4 0.16
29 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTAATAAATATTATACATATAATTTTAA
Found at i:6054 original size:181 final size:178
Alignment explanation
Indices: 5743--6336 Score: 585
Period size: 181 Copynumber: 3.3 Consensus size: 178
5733 TTAATTATTT
* * * * * *
5743 TAATACAATTTATCAATATTTTGAAAATTAATAATTAAGAGATTTAAAAAAATGAATTTGTTTAC
1 TAATATAATTTATTAATATTATGAAAATTAATAAGTAAAAGATTT-AAAAAATAAATTTGTTTA-
* * * * * * * *
5808 TAGAAAAGTTTAAATAATTATGACATTTGAACAATTATTTTTTTGAAATCAG-TATAACCTTTTG
64 TCGAAAAGTTCAAATAGTTATGACATTTGAATAATTATTTATTTCAAAT-AGTTATGACTTTTTG
*
5872 TTTTATCATAAAATAAAATT-TTT-TGTTCATACAAGCTTCTTTCAAATAAAA
128 TTTTGTCATAAAAT-AAATTATTTCTGTTCATACAAGCTT-TTTCAAATAAAA
* *
5923 TAATATAAATTTATTAATATTAAGACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAT
1 TAATAT-AATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAT
*
5988 CGAATAAGTTCAAACT-GTTATGACTATTTGAATAATTATTTATTTCAAATTGTTATGACTTTTT
65 CGAA-AAGTTCAAA-TAGTTATGAC-ATTTGAATAATTATTTATTTCAAATAGTTATGACTTTTT
* * * * *
6052 GTTTTGGCATAAAAT-AGTTATTTCTGTTCATACAAGGTTATTCAAATTAAAG
127 GTTTTGTCATAAAATAAATTATTTCTGTTCATACAAGCTTTTTCAAA-TAAAA
* * * *
6104 TAATATTAATTTATTAAT-TT-TGACAATTAATAAGTAGAAGATTTAAAAAATAAATATGTTTAC
1 TAATA-TAATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAT
* ** ** *
6167 CGAACAAGTTGAAATAGCCATGACAATTTGAATAATTAACTATTTCAAATCA-TTATGCCCTTTT
65 CGAA-AAGTTCAAATAGTTATGAC-ATTTGAATAATTATTTATTTCAAAT-AGTTATG-ACTTTT
* * * * * * *
6231 TGTTTTGTAATAAAA-CAATTGTTTCAGTTCAAATAAGCTTATTTGAAATAAAA
126 TGTTTTGTCATAAAATAAATTATTTCTGTTCATACAAGCTT-TTTCAAATAAAA
* * *
6284 TAATACTAATTTATTAATATTATGAAAATTAATTAGTAAGAGAATTAAAAAAT
1 TAATA-TAATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAAT
6337 GAATCTGCTT
Statistics
Matches: 345, Mismatches: 53, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
178 1 0.00
179 92 0.27
180 106 0.31
181 119 0.34
182 27 0.08
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (178 bp):
TAATATAATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATC
GAAAAGTTCAAATAGTTATGACATTTGAATAATTATTTATTTCAAATAGTTATGACTTTTTGTTT
TGTCATAAAATAAATTATTTCTGTTCATACAAGCTTTTTCAAATAAAA
Found at i:6213 original size:179 final size:180
Alignment explanation
Indices: 5888--6336 Score: 523
Period size: 179 Copynumber: 2.5 Consensus size: 180
5878 CATAAAATAA
* * *
5888 AATT-TTT-TGTTCATACAAGCTTCTTTCAAATAAAATAATATAAATTTATTAATATTAAGACAA
1 AATTATTTCTGTTCATACAAGCTT-ATTCAAATAAAATAATATTAATTTATTAATATTATGACAA
* * * ** *
5951 TTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAATAAGTTCAAACTGTTATGACTATT
65 TTAATAAGT-AAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAACTGCCATGACAATT
** ** * *
6016 TGAATAATTATTTATTTCAAATTGTTATG-ACTTTTTGTTTTGGCATAAAAT
129 TGAATAATTAACTATTTCAAATCATTATGCACTTTTTGTTTTGGAATAAAAC
* * *
6067 AGTTATTTCTGTTCATACAAGGTTATTCAAATTAAAGTAATATTAATTTATTAAT-TT-TGACAA
1 AATTATTTCTGTTCATACAAGCTTATTCAAA-TAAAATAATATTAATTTATTAATATTATGACAA
*
6130 TTAATAAGTAGAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTGAAA-TAGCCATGACAAT
65 TTAATAAGTA-AAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAACT-GCCATGACAAT
* *
6194 TTGAATAATTAACTATTTCAAATCATTATGCCCTTTTTGTTTTGTAATAAAAC
128 TTGAATAATTAACTATTTCAAATCATTATGCACTTTTTGTTTTGGAATAAAAC
* * * * * * *
6247 AATTGTTTCAGTTCAAATAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTATGAAAA
1 AATTATTTCTGTTCATACAAGCTTA-TTCAAATAAAATAATATTAATTTATTAATATTATGACAA
* *
6312 TTAATTAGTAAGAGAATTAAAAAAT
65 TTAATAAGTAA-AGATTTAAAAAAT
6337 GAATCTGCTT
Statistics
Matches: 227, Mismatches: 33, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
178 2 0.01
179 87 0.38
180 69 0.30
181 43 0.19
182 26 0.11
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (180 bp):
AATTATTTCTGTTCATACAAGCTTATTCAAATAAAATAATATTAATTTATTAATATTATGACAAT
TAATAAGTAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAACTGCCATGACAATTTG
AATAATTAACTATTTCAAATCATTATGCACTTTTTGTTTTGGAATAAAAC
Found at i:7840 original size:19 final size:19
Alignment explanation
Indices: 7816--7852 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7806 AATTTATTTT
7816 TTAAAT-TTAATTTAAATAA
1 TTAAATATTAA-TTAAATAA
7835 TTAAATATTAATTAAATA
1 TTAAATATTAATTAAATA
7853 TATGACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATATTAATTAAATAA
Found at i:8397 original size:16 final size:17
Alignment explanation
Indices: 8365--8397 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8355 AACAAGTACA
8365 AATAATTATAACTATTTG
1 AATAATTAT-ACTATTTG
8383 AATAATTAT-CTATTT
1 AATAATTATACTATTT
8398 CTAATCGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:8419 original size:177 final size:180
Alignment explanation
Indices: 8013--8696 Score: 462
Period size: 181 Copynumber: 3.8 Consensus size: 180
8003 GTTCAATTAT
* * ** * * * * *
8013 TTATAACTATTTGAACAATTATTTATTTCAAATTATTATTACCA-TTTGTATTGTCATAAAATAA
1 TTATAACTATTTGAATAATTATTTATTTCTAATCGTTATGA-CATTTTGTTTTATCACAAAACAA
* * ** * * * * * **
8077 TTATTTCTGTTTGTA-TAGTCTTATTTGAAATAAAGTAATACTAATTTATCAATATTTTGA-AAT
65 TTGTTTCTATTCATACAAG-CTTATTTCAAATAAAATAATACAAATTTATTAATATTCAGACAA-
* * * *** ** * * *
8140 TAATAAGTAATAGATTTAAAAAATGAATCA-ATTGGCCTGACCAGTGCAAATAG
128 CAATAAGTAAAAGATTTAAAAAATAAAT-ATATTTATCAAACAAGTACAAATAA
* * * * *
8193 TTATGATTGTTTGAATAATTATTTATTTCAAATCATTATGACATTTTGTTTTATCACAAAACAAT
1 TTATAACTATTTGAATAATTATTTATTTCTAATCGTTATGACATTTTGTTTTATCACAAAACAAT
* * * * * *
8258 TGTTTCT-GTCTATACTAA-CTTATTTGAAATAATATAATTCTATTTTATTAATATTCTA-A-AA
66 TGTTTCTATTC-ATAC-AAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTC-AGACAA
* * * *
8319 -ATTAA-TAAGAGATTTAAAAAATAAATATGTTTATCGAACAAGTACAAATAA
128 CAATAAGTAAAAGATTTAAAAAATAAATATATTTATCAAACAAGTACAAATAA
* * * * *
8370 TTATAACTATTTGAATAATTATCTATTTCTAATCGCTATAACCTTTTGTTTTGTC-CTAAAACAA
1 TTATAACTATTTGAATAATTATTTATTTCTAATCGTTATGACATTTTGTTTTATCAC-AAAAC-A
* *
8434 AAT-TTTCTATTCATACAAGCTTATTTCAAATAAAATTATACAAATTTATTAATATTCAGACAAC
64 ATTGTTTCTATTCATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCAGACAAC
* * **
8498 TAATAAGTAAAAGATTTAAAAAATAAATTTATTTATCAAATAAGTTTAAATAA
129 -AATAAGTAAAAGATTTAAAAAATAAATATATTTATCAAACAAGTACAAATAA
* * * * * ** *
8551 TTATGACTATTTGAACAATTATTTATTTCTAATTGTTATGACTTTTTGTTTTCTCATGACACAAT
1 TTATAACTATTTGAATAATTATTTATTTCTAATCGTTATGACATTTTGTTTTATCACAAAACAAT
* * * * * ** * *
8616 TGTTTTTCTTCATTA-AAGCCTA-TTCGGATTAAAATAATATTAATTTATTAATATTTTA-AAAA
66 TGTTTCTATTCA-TACAAGCTTATTTC-AAATAAAATAATACAAATTTATTAATA-TTCAGACAA
*
8678 TTAATAAGTAAAAGATTTA
128 -CAATAAGTAAAAGATTTA
8697 TTAATTTTTA
Statistics
Matches: 400, Mismatches: 83, Indels: 41
0.76 0.16 0.08
Matches are distributed among these distances:
176 5 0.01
177 125 0.31
178 11 0.03
179 3 0.01
180 105 0.26
181 145 0.36
182 6 0.01
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (180 bp):
TTATAACTATTTGAATAATTATTTATTTCTAATCGTTATGACATTTTGTTTTATCACAAAACAAT
TGTTTCTATTCATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCAGACAACAA
TAAGTAAAAGATTTAAAAAATAAATATATTTATCAAACAAGTACAAATAA
Found at i:9200 original size:21 final size:22
Alignment explanation
Indices: 9166--9206 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9156 TTAATCAATT
* *
9166 ATATATAATTATAATTAATAAA
1 ATATATAATAATAACTAATAAA
9188 ATAT-TAATAATAACTAATA
1 ATATATAATAATAACTAATA
9207 GTCTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATATAATAATAACTAATAAA
Found at i:9582 original size:22 final size:21
Alignment explanation
Indices: 9554--9621 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 21
9544 ATTTTATATG
9554 TATTATATAAATATTAAGTAAT
1 TATTATATAAATATTAA-TAAT
* *
9576 TATTATATAATTTATTTATAAT
1 TATTATATAA-ATATTAATAAT
* * *
9598 T-TAATATAAATATAAATATT
1 TATTATATAAATATTAATAAT
9618 TATT
1 TATT
9622 TGAACAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 8 0.22
21 8 0.22
22 15 0.42
23 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
TATTATATAAATATTAATAAT
Found at i:10484 original size:13 final size:13
Alignment explanation
Indices: 10466--10507 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10456 ATCTATTAAT
10466 TAATTAAAATCAA
1 TAATTAAAATCAA
*
10479 TAATTAAAAT-ATT
1 TAATTAAAATCA-A
10492 TAAATTAAAATCAA
1 T-AATTAAAATCAA
10506 TA
1 TA
10508 TTCAGATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 1 0.04
13 12 0.50
14 10 0.42
15 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATTAAAATCAA
Found at i:10527 original size:27 final size:28
Alignment explanation
Indices: 10460--10527 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
10450 TTAAATATCT
10460 ATTAATTAATTAAAATCAATAATTAAAATA
1 ATTAA-TAA-TAAAATCAATAATTAAAATA
* * * *
10490 TTTAA-ATTAAAATCAAT-ATTCAGATA
1 ATTAATAATAAAATCAATAATTAAAATA
10516 ATTAATAATAAA
1 ATTAATAATAAA
10528 TTATAAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.35
27 15 0.48
28 1 0.03
30 4 0.13
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (28 bp):
ATTAATAATAAAATCAATAATTAAAATA
Found at i:10547 original size:26 final size:27
Alignment explanation
Indices: 10513--10568 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
10503 CAATATTCAG
*
10513 ATAATTAATAA-TAAATTATAAGTATTT
1 ATAATTAATAATTAAATTA-AAATATTT
*
10540 ATAA-TAATAATTTAATTAAAATATTT
1 ATAATTAATAATTAAATTAAAATATTT
10566 ATA
1 ATA
10569 TTTTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
ATAATTAATAATTAAATTAAAATATTT
Found at i:10871 original size:14 final size:13
Alignment explanation
Indices: 10851--10922 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
10841 AGTCATTTTT
10851 ATTAATATTAATA
1 ATTAATATTAATA
*
10864 ATTCAATATTATTA
1 ATT-AATATTAATA
*
10878 TTTAA-ATATAATA
1 ATTAATAT-TAATA
*
10891 A-TAATATTAAAA
1 ATTAATATTAATA
10903 TATTAAT-TTAAATA
1 -ATTAATATT-AATA
10917 ATTAAT
1 ATTAAT
10923 TTTTAATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
12 9 0.19
13 20 0.43
14 18 0.38
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAATATTAATA
Found at i:11686 original size:21 final size:21
Alignment explanation
Indices: 11662--11703 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11652 CTAAGGGGTT
*
11662 ATAGATAATT-ATAAATTATTA
1 ATAGAT-ATTAATAAATAATTA
*
11683 ATAGGTATTAATAAATAATTA
1 ATAGATATTAATAAATAATTA
11704 GATTTATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
ATAGATATTAATAAATAATTA
Found at i:11890 original size:31 final size:31
Alignment explanation
Indices: 11828--11893 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
11818 TATTTAAATA
*
11828 ATTAATATTTATTATCTATTATAAATTTATT
1 ATTAATATTTATTATCTATTATAAATATATT
* *
11859 ATTAATTTTTATTA-CTA-TAT-AATATAAT
1 ATTAATATTTATTATCTATTATAAATATATT
11887 ATTAATA
1 ATTAATA
11894 ATAGATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 12 0.39
29 3 0.10
30 3 0.10
31 13 0.42
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTAATATTTATTATCTATTATAAATATATT
Found at i:12015 original size:21 final size:20
Alignment explanation
Indices: 11982--12031 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
11972 TAAAGATATC
*
11982 TTAAATTAT-TTTAAATAAT
1 TTAAATTTTATTTAAATAAT
* *
12001 TATGAATTTTATTTAAATTAT
1 T-TAAATTTTATTTAAATAAT
12022 TTAAATTTTA
1 TTAAATTTTA
12032 ATAATTAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.56
21 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAAATTTTATTTAAATAAT
Found at i:12483 original size:19 final size:18
Alignment explanation
Indices: 12425--12493 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 18
12415 AACAAAAGGT
*
12425 TATAATAATTTGAAATA-
1 TATAATTATTTGAAATAG
* *
12442 TATAATTGTTT-AAGTAG
1 TATAATTATTTGAAATAG
*
12459 TAATAATTATTTGAACTAG
1 T-ATAATTATTTGAAATAG
12478 TCATAATTATTT-AAAT
1 T-ATAATTATTTGAAAT
12494 TGGTTTGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
16 4 0.10
17 10 0.24
18 12 0.29
19 16 0.38
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (18 bp):
TATAATTATTTGAAATAG
Found at i:13119 original size:23 final size:23
Alignment explanation
Indices: 13088--13135 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13078 ATTAATTTTT
*
13088 TAAATATTAATATAA-TATTATTA
1 TAAAGATT-ATATAATTATTATTA
*
13111 TAAAGATTATATAATTGTTATTA
1 TAAAGATTATATAATTATTATTA
13134 TA
1 TA
13136 TTAGTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
TAAAGATTATATAATTATTATTA
Found at i:14274 original size:35 final size:35
Alignment explanation
Indices: 14209--14276 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
14199 AATATAAAAC
*
14209 AATAAATATTTAATATTATTTTACAAATAATATAT
1 AATAAATATTTAATATTATTTGACAAATAATATAT
*
14244 AATATATATTT-ATA-TATTTGACTAATATAATAT
1 AATAAATATTTAATATTATTTGAC-AA-ATAATAT
14277 TATTTTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 7 0.24
34 5 0.17
35 17 0.59
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (35 bp):
AATAAATATTTAATATTATTTGACAAATAATATAT
Found at i:14288 original size:27 final size:28
Alignment explanation
Indices: 14240--14301 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
14230 TACAAATAAT
14240 ATATAATATATATTTATATATTTGACTA
1 ATATAATATATATTTATATATTTGACTA
*
14268 ATATAATAT-TATTT-TACTATTTGATTA
1 ATATAATATATATTTATA-TATTTGACTA
14295 AT-TAATA
1 ATATAATA
14302 ATTGTTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 7 0.22
27 16 0.50
28 9 0.28
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (28 bp):
ATATAATATATATTTATATATTTGACTA
Found at i:14396 original size:18 final size:18
Alignment explanation
Indices: 14373--14425 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
14363 TTAATTTGTC
14373 ATTAATTTTATAATATTA
1 ATTAATTTTATAATATTA
* *
14391 ATTAATTATAAAATATT-
1 ATTAATTTTATAATATTA
*
14408 A-TAATACTTATAATATTA
1 ATTAAT-TTTATAATATTA
14426 TAATTAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 15 0.54
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTAATTTTATAATATTA
Found at i:14424 original size:17 final size:17
Alignment explanation
Indices: 14380--14429 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
14370 GTCATTAATT
*
14380 TTATAATATTA-ATTAA
1 TTATAATATTATAATAA
*
14396 TTATAAAATATTATAATAC
1 TTAT--AATATTATAATAA
14415 TTATAATATTATAAT
1 TTATAATATTATAAT
14430 TAATATGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 4 0.14
17 11 0.38
18 7 0.24
19 7 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATAATATTATAATAA
Found at i:14459 original size:40 final size:35
Alignment explanation
Indices: 14375--14460 Score: 86
Period size: 40 Copynumber: 2.3 Consensus size: 35
14365 AATTTGTCAT
14375 TAAT-TTTATAATATTAATTAATTATAAAATATTA
1 TAATATTTATAATATTAATTAATTATAAAATATTA
* *
14409 TAATACTTATAATATTATAATTAATATGATTAAATTATTA
1 TAATATTTATAATA-T-TAATTAAT-T-A-TAAAATATTA
14449 -AATTATTTATAA
1 TAA-TATTTATAA
14461 ATTTAAAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
34 4 0.10
35 8 0.19
36 1 0.02
37 8 0.19
38 1 0.02
39 3 0.07
40 17 0.40
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
TAATATTTATAATATTAATTAATTATAAAATATTA
Found at i:14854 original size:16 final size:16
Alignment explanation
Indices: 14833--14926 Score: 61
Period size: 16 Copynumber: 5.7 Consensus size: 16
14823 TTATTAAATA
14833 ATTATAAATATTATAT
1 ATTATAAATATTATAT
*
14849 ATTATACTTATATT-TAT
1 ATTATA--AATATTATAT
* * *
14866 AATATAAAT-TAATAA
1 ATTATAAATATTATAT
14881 ATTATATAATTAGTTATA-
1 ATTATA-AA-TA-TTATAT
14899 ATTATAAATAATTATAT
1 ATTATAAAT-ATTATAT
14916 -TTATTAAATAT
1 ATTA-TAAATAT
14927 ATAAATAGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 1 0.02
15 9 0.15
16 19 0.31
17 17 0.28
18 11 0.18
19 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
ATTATAAATATTATAT
Found at i:14914 original size:48 final size:50
Alignment explanation
Indices: 14763--14914 Score: 136
Period size: 48 Copynumber: 3.3 Consensus size: 50
14753 ATATTAATAA
*
14763 ATATAATATATTATAAT-TAAA-TAATATAATT-TCT-ATTAGTTAT-ATT
1 ATATAATA-ATTATAATATAAATTAATATAATTATATAATTAGTTATAATT
*
14809 A-ATAATAATTAT--TAT-TATTAA-ATAATTATA-AA-TA-TTATATATT
1 ATATAATAATTATAATATAAATTAATATAATTATATAATTAGTTATA-ATT
* *
14852 ATACTTATATTTATAATATAAATTAATA-AATTATATAATTAGTTATAATT
1 ATA-TAATAATTATAATATAAATTAATATAATTATATAATTAGTTATAATT
14902 ATA-AATAATTATA
1 ATATAATAATTATA
14915 TTTATTAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 28
0.71 0.06 0.24
Matches are distributed among these distances:
41 4 0.05
42 10 0.12
43 10 0.12
44 6 0.07
45 14 0.17
46 1 0.01
47 3 0.04
48 20 0.24
49 3 0.04
50 8 0.10
51 5 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (50 bp):
ATATAATAATTATAATATAAATTAATATAATTATATAATTAGTTATAATT
Found at i:14925 original size:17 final size:17
Alignment explanation
Indices: 14812--14925 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 17
14802 TTATATTAAT
14812 AATAATTAT-TATTATTA
1 AATAATTATAT-TTATTA
14829 AATAATTATAAATATTATATA
1 AATAATTAT--AT-TTAT-TA
* *
14850 TTATACTTATATTTA-TA
1 -AATAATTATATTTATTA
*
14867 ATATAAATTAATAAATTATATA
1 A-AT-AATT-AT-ATTTAT-TA
* * *
14889 ATTAGTTATAATTA-TA
1 AATAATTATATTTATTA
14905 AATAATTATATTTATTA
1 AATAATTATATTTATTA
14922 AATA
1 AATA
14926 TATAAATAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
16 13 0.17
17 19 0.25
18 8 0.11
19 7 0.09
20 15 0.20
21 3 0.04
22 10 0.13
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (17 bp):
AATAATTATATTTATTA
Found at i:15442 original size:36 final size:34
Alignment explanation
Indices: 15380--15448 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 34
15370 TTAAATATTA
15380 ATTATTAATGATAAACTATATTATTATCTTAATT
1 ATTATTAATGATAAACTATATTATTATCTTAATT
* *
15414 ATTATTAATTATAACATTATTATTATTATCTTAAT
1 ATTATTAATGATAA-ACTA-TATTATTATCTTAAT
15449 AATAACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 13 0.42
35 3 0.10
36 15 0.48
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (34 bp):
ATTATTAATGATAAACTATATTATTATCTTAATT
Found at i:17088 original size:181 final size:180
Alignment explanation
Indices: 16782--17129 Score: 425
Period size: 181 Copynumber: 1.9 Consensus size: 180
16772 TTAAACAACC
* * *
16782 TTATTTGGAATAAAATAATTCTAATTAATTAATATTCCAAAATTAATAAGTAAAAGATTTAAAAA
1 TTATTTGGAATAAAATAATACTAATTAATTAACATTCAAAAATTAATAAGTAAAAGATTTAAAAA
* *** * * * ** *
16847 ATAAATTTATTTACCGAGTGATTTTAAATAGTTATGATTGTTTGAACAATTATTTATTTCAAATC
66 ATAAATTTATTTACCAAACCAGTTCAAATAGTCATGATCATTTGAACAATTATCTATTTCAAATC
* *
16912 GTTATAATC-TTTTGTTTTGTTATAAAATAATTGTTTCGATTCATACAAGT
131 GTTATAA-CATTTTATTTTGTTATAAAACAATTGTTTCGATTCATACAAGT
**
16962 TTATTTGGAATAAAATAATACTAA-TATATTAACATTCTAAAAATTAATAAGTTGAAGATTTAAA
1 TTATTTGGAATAAAATAATACTAATTA-ATTAACATTC-AAAAATTAATAAGTAAAAGATTTAAA
* *
17026 AAATTAA-TTAGTTTACCAAACCAGTTCAAATAGTCATG-TCCATTTGAACTATTATCTATTTCA
64 AAATAAATTTA-TTTACCAAACCAGTTCAAATAGTCATGAT-CATTTGAACAATTATCTATTTCA
* * *
17089 AATTGTTATGACATTTTATTTTGTTGTAAAACAATTGTTTC
127 AATCGTTATAACATTTTATTTTGTTATAAAACAATTGTTTC
17130 TTATCGATCA
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
179 2 0.01
180 37 0.26
181 102 0.72
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (180 bp):
TTATTTGGAATAAAATAATACTAATTAATTAACATTCAAAAATTAATAAGTAAAAGATTTAAAAA
ATAAATTTATTTACCAAACCAGTTCAAATAGTCATGATCATTTGAACAATTATCTATTTCAAATC
GTTATAACATTTTATTTTGTTATAAAACAATTGTTTCGATTCATACAAGT
Found at i:17775 original size:24 final size:21
Alignment explanation
Indices: 17741--17808 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 21
17731 TTTTTACTAG
*
17741 TTATTTTAATACTATAATATATAA
1 TTATTTAAATA-T-TAA-ATATAA
*
17765 TTATTTAAATATTAAATCTAA
1 TTATTTAAATATTAAATATAA
*
17786 TTATTT-TATATTAAA-ATTAA
1 TTATTTAAATATTAAATA-TAA
17806 TTA
1 TTA
17809 ATTTTACTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 14 0.36
21 11 0.28
22 3 0.08
23 1 0.03
24 10 0.26
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTTAAATATTAAATATAA
Found at i:17812 original size:21 final size:20
Alignment explanation
Indices: 17762--17814 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
17752 CTATAATATA
*
17762 TAATTATTTAAATATTAAATC
1 TAATTATTT-TATATTAAATC
17783 TAATTATTTTATATTAAAAT-
1 TAATTATTTTATATT-AAATC
17803 TAATTAATTTTA
1 TAATT-ATTTTA
17815 CTTATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTATTTTATATTAAATC
Found at i:17876 original size:22 final size:22
Alignment explanation
Indices: 17848--17889 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17838 AATTGTTATA
*
17848 ATTAATA-ATTATCTAATTAATT
1 ATTAATATATAAT-TAATTAATT
17870 ATTAATATATAATTAATTAA
1 ATTAATATATAATTAATTAA
17890 AATATAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAATATATAATTAATTAATT
Found at i:18191 original size:14 final size:14
Alignment explanation
Indices: 18168--18204 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
18158 TTGTCCAAAA
18168 TAAA-AATAATTAT
1 TAAATAATAATTAT
*
18181 TTAATAATAATTAT
1 TAAATAATAATTAT
18195 TAAAT-ATAAT
1 TAAATAATAAT
18205 AAACAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATAATTAT
Found at i:18399 original size:18 final size:18
Alignment explanation
Indices: 18351--18400 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
18341 TATTAAAGAT
18351 ATTATTTATATATAATTTA
1 ATTATTTATAT-TAATTTA
**
18370 A-TAAATATTATTAATTTA
1 ATTATTTA-TATTAATTTA
18388 ATTATTTATATTA
1 ATTATTTATATTA
18401 TATATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATTTATATTAATTTA
Found at i:18420 original size:35 final size:37
Alignment explanation
Indices: 18351--18426 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
18341 TATTAAAGAT
*
18351 ATTATTTATATATAATTTAATAAATATTATTAATTTA
1 ATTATTTATATATAATATAATAAATATTATTAATTTA
* *
18388 ATTATTTATAT-TATATATAATATA-ATTA-TAATTTG
1 ATTATTTATATATA-ATATAATAAATATTATTAATTTA
18423 ATTA
1 ATTA
18427 ATAATAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 10 0.29
36 6 0.17
37 19 0.54
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (37 bp):
ATTATTTATATATAATATAATAAATATTATTAATTTA
Found at i:18595 original size:18 final size:18
Alignment explanation
Indices: 18559--18597 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18549 AATTAGAATT
**
18559 AATATATTGTTATTGAAA
1 AATATATTGTTATAAAAA
*
18577 AATATATTTTTATAAAAA
1 AATATATTGTTATAAAAA
18595 AAT
1 AAT
18598 TATCTAACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
AATATATTGTTATAAAAA
Found at i:19027 original size:14 final size:15
Alignment explanation
Indices: 18986--19051 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
18976 ATGTAATAAT
18986 TTAATAA-ATTATTA
1 TTAATAATATTATTA
19000 -TAATTAA-A-TATTA
1 TTAA-TAATATTATTA
19013 TTAATAATATT-TTA
1 TTAATAATATTATTA
* *
19027 TGAATCATATTAATTA
1 TTAATAATATT-ATTA
19043 TT-ATAATAT
1 TTAATAATAT
19052 GTAATTATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 11 0.26
14 20 0.48
15 7 0.17
16 4 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TTAATAATATTATTA
Found at i:19086 original size:15 final size:17
Alignment explanation
Indices: 18993--19102 Score: 65
Period size: 16 Copynumber: 6.8 Consensus size: 17
18983 AATTTAATAA
* *
18993 ATTATTATA-ATTAAAT
1 ATTATTATATAATAATT
19009 ATTATTA-ATAAT-ATT
1 ATTATTATATAATAATT
* *
19024 -TTATGAATCATATTAATT
1 ATTAT-TAT-ATAATAATT
* *
19042 ATTATAATAT-GTAATT
1 ATTATTATATAATAATT
* *
19058 ATAATTGTAT-ATAA-T
1 ATTATTATATAATAATT
19073 A-TATTATATAATAATT
1 ATTATTATATAATAATT
19089 ATTTATTATATAAT
1 A-TTATTATATAAT
19103 TTAATTGGAC
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
14 10 0.14
15 10 0.14
16 26 0.36
17 6 0.08
18 17 0.23
19 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTATTATATAATAATT
Found at i:19103 original size:15 final size:15
Alignment explanation
Indices: 19033--19103 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
19023 TTTATGAATC
*
19033 ATAT-TAATTATTATA
1 ATATATAATTA-TATT
*
19048 ATATGTAATTATAATT
1 ATATATAATTAT-ATT
*
19064 GTATATAA-TATATT
1 ATATATAATTATATT
19078 ATATAATAATTAT-TT
1 ATAT-ATAATTATATT
19093 ATTATATAATT
1 A-TATATAATT
19104 TAATTGGACA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
14 6 0.13
15 21 0.45
16 20 0.43
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATATATAATTATATT
Found at i:19200 original size:13 final size:12
Alignment explanation
Indices: 19154--19205 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
19144 ATTGTTTGAC
19154 AATAATAGTTAAT
1 AATAATA-TTAAT
19167 AA-AATATTAAT
1 AATAATATTAAT
19178 AATAACTATTAACT
1 AATAA-TATTAA-T
*
19192 ACTAATATT-AT
1 AATAATATTAAT
19203 AAT
1 AAT
19206 TAATTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.29
12 7 0.21
13 12 0.35
14 5 0.15
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:20502 original size:25 final size:25
Alignment explanation
Indices: 20455--20502 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
20445 TATTTGGATA
*
20455 ATATTATTATAAATATTAATATAGT
1 ATATTATAATAAATATTAATATAGT
*
20480 ATATTAATAATAAAT-TTATTATA
1 ATATT-ATAATAAATATTAATATA
20503 TTTTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATTATAATAAATATTAATATAGT
Found at i:20659 original size:16 final size:16
Alignment explanation
Indices: 20618--20665 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
20608 TCCAATCTTC
20618 AATTGTTAAAAT-TTAA
1 AATTG-TAAAATATTAA
*
20634 AATATTTAAAATATTAA
1 AAT-TGTAAAATATTAA
20651 AATTGTAAAA-ATTAA
1 AATTGTAAAATATTAA
20666 TCAAAGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 5 0.18
16 15 0.54
17 8 0.29
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
AATTGTAAAATATTAA
Found at i:20904 original size:19 final size:19
Alignment explanation
Indices: 20865--20901 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20855 ACAAATTTAT
*
20865 TTTTTAAATATCTTATTAA
1 TTTTTAAATATATTATTAA
20884 TTTTTAAA-ATATTATTAA
1 TTTTTAAATATATTATTAA
20902 ATTAGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTAAATATATTATTAA
Found at i:21831 original size:18 final size:19
Alignment explanation
Indices: 21795--21860 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 19
21785 TAATAATTAT
* *
21795 TATTATATATAGTTTAATA
1 TATTATATATAATTCAATA
21814 TATTA-ATATAATTCAATA
1 TATTATATATAATTCAATA
*
21832 TAATTACTATTATATAATCAATA
1 T-ATTA-TA-TATA-ATTCAATA
21855 TATTAT
1 TATTAT
21861 TAATAAATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 12 0.31
19 9 0.23
21 2 0.05
22 8 0.21
23 8 0.21
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTATATATAATTCAATA
Found at i:21834 original size:10 final size:9
Alignment explanation
Indices: 21746--21837 Score: 55
Period size: 10 Copynumber: 9.7 Consensus size: 9
21736 AGTAATTTGG
21746 TAATTAA-A
1 TAATTAATA
*
21754 TAATAATATA
1 TAATTA-ATA
21764 TTAATTATATA
1 -TAATTA-ATA
*
21775 TAATAAATA
1 TAATTAATA
21784 TTAA-TAATTA
1 -TAATTAA-TA
*
21794 TTATTATATA
1 TAATTA-ATA
*
21804 TAGTTTAATA
1 TA-ATTAATA
21814 T-ATTAATA
1 TAATTAATA
21822 TAATTCAATA
1 TAATT-AATA
21832 TAATTA
1 TAATTA
21838 CTATTATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
8 12 0.18
9 12 0.18
10 29 0.44
11 13 0.20
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (9 bp):
TAATTAATA
Found at i:22008 original size:19 final size:19
Alignment explanation
Indices: 21984--22022 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21974 GCCTTCTCAA
21984 TTAAA-TATTTATATTATAT
1 TTAAATTATTTATA-TATAT
*
22003 TTAAATTATTTTTATATAT
1 TTAAATTATTTATATATAT
22022 T
1 T
22023 AATTATGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAATTATTTATATATAT
Found at i:22541 original size:21 final size:22
Alignment explanation
Indices: 22503--22552 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
22493 ATAGAATCAA
*
22503 ATAATATTACAATTAATTTATT
1 ATAATATTACAATTAATTAATT
* *
22525 TTAATATTA-AGTTAATTAATT
1 ATAATATTACAATTAATTAATT
22546 ATAATAT
1 ATAATAT
22553 AAATAGCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAATATTACAATTAATTAATT
Found at i:23197 original size:31 final size:29
Alignment explanation
Indices: 23121--23200 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 29
23111 CTAAAATATA
* *
23121 TATTAATTTTAAATATTAAATCAAATTTATT
1 TATTAA-TTTAAA-ATTAAATAAAATTTACT
*
23152 TATATAA-TTAAAATTAATTAAAATTTTTACT
1 TAT-TAATTTAAAATTAAATAAAA--TTTACT
23183 TATTAATTTAAAATTAAA
1 TATTAATTTAAAATTAAA
23201 ATATTTGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 9 0.22
30 8 0.20
31 21 0.51
32 3 0.07
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TATTAATTTAAAATTAAATAAAATTTACT
Found at i:23251 original size:17 final size:17
Alignment explanation
Indices: 23209--23261 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
23199 AAATATTTGT
23209 TATAATTAA--ATAATAA
1 TATAATTAATTATAAT-A
*
23225 TCTAATTTAATTATAATA
1 TATAA-TTAATTATAATA
*
23243 TATAATTAATTAAAATA
1 TATAATTAATTATAATA
23260 TA
1 TA
23262 ATATAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 17 0.55
18 5 0.16
19 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAATTAATTATAATA
Found at i:23252 original size:22 final size:23
Alignment explanation
Indices: 23211--23266 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
23201 ATATTTGTTA
23211 TAATTA-AATA-ATAATCTAATT
1 TAATTATAATATATAATCTAATT
23232 TAATTATAATATATAAT-TAATT
1 TAATTATAATATATAATCTAATT
* *
23254 AAAATATAATATA
1 TAATTATAATATA
23267 AATATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 20 0.65
23 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTATAATATATAATCTAATT
Found at i:23415 original size:13 final size:13
Alignment explanation
Indices: 23397--23421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23387 AATACAAATA
23397 AATCTAATTATTT
1 AATCTAATTATTT
23410 AATCTAATTATT
1 AATCTAATTATT
23422 AATAAAGTAT
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:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AATCTAATTATTT
Found at i:23477 original size:21 final size:21
Alignment explanation
Indices: 23447--23509 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
23437 ACTTTATTAT
23447 ATAAACTATTGTTATAAGTATA
1 ATAAACTATTGTTATAA-TATA
*
23469 ATAAA-TATTG-CATAATATA
1 ATAAACTATTGTTATAATATA
* *
23488 ATAAAATTATTGTT-TATTATA
1 AT-AAACTATTGTTATAATATA
23509 A
1 A
23510 ATTAAATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 6 0.17
20 7 0.20
21 17 0.49
22 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (21 bp):
ATAAACTATTGTTATAATATA
Found at i:23881 original size:18 final size:18
Alignment explanation
Indices: 23838--23881 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23828 AGGTTGAGGA
*
23838 AAATTATATTATTATAAT
1 AAATTATATAATTATAAT
* * *
23856 ATAGTATATAATTATTAT
1 AAATTATATAATTATAAT
23874 AAATTATA
1 AAATTATA
23882 ATTAATATTA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATTATATAATTATAAT
Found at i:23909 original size:18 final size:17
Alignment explanation
Indices: 23882--23918 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
23872 ATAAATTATA
*
23882 ATTAATATTAATATAATT
1 ATTAACATTAA-ATAATT
23900 ATTAACATTAAATAATT
1 ATTAACATTAAATAATT
23917 AT
1 AT
23919 ATTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAACATTAAATAATT
Found at i:23915 original size:28 final size:31
Alignment explanation
Indices: 23861--23928 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 31
23851 ATAATATAGT
23861 ATATAATTATTATAAATTATAATTAA-TATTA
1 ATATAATTATTATAAATTATAATTAATTA-TA
*
23892 ATATAATTATTA-ACATTA-AA-TAATTATA
1 ATATAATTATTATAAATTATAATTAATTATA
*
23920 TTATAATTA
1 ATATAATTA
23929 AGTTATGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 13 0.38
29 4 0.12
30 5 0.15
31 12 0.35
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
ATATAATTATTATAAATTATAATTAATTATA
Found at i:24024 original size:21 final size:23
Alignment explanation
Indices: 23993--24038 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
23983 TTAATTATTT
23993 ATAATTTAATATTTGAA-ATTAA
1 ATAATTTAATATTTGAATATTAA
24015 ATAA-TTAATATTTGAATATTAA
1 ATAATTTAATATTTGAATATTAA
24037 AT
1 AT
24039 TGATATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
ATAATTTAATATTTGAATATTAA
Found at i:24926 original size:16 final size:17
Alignment explanation
Indices: 24907--24939 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24897 ATAATATTTA
24907 AAATAG-ATAATTATTC
1 AAATAGTATAATTATTC
24923 AAATAGTTATAATTATT
1 AAATAG-TATAATTATT
24940 TGACTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAGTATAATTATTC
Found at i:25324 original size:21 final size:21
Alignment explanation
Indices: 25300--25391 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 21
25290 TACTGAATAA
25300 AATTAATATAATAATAATTAT
1 AATTAATATAATAATAATTAT
** * *
25321 AATTGTTTTCATAAATTAATTA-
1 AATTAATATAAT-AA-TAATTAT
25343 AATTAAT-TAATTAATATATTAT
1 AATTAATATAA-TAATA-ATTAT
* * *
25365 AAATATTAT-ATTATAAATTAT
1 AATTAATATAATAAT-AATTAT
25386 AATTAA
1 AATTAA
25392 CAATATGTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
20 2 0.04
21 28 0.54
22 15 0.29
23 7 0.13
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
AATTAATATAATAATAATTAT
Found at i:25908 original size:35 final size:35
Alignment explanation
Indices: 25865--25951 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
25855 GATTATTTTT
*
25865 TTAAT-ATAATAATA-AATT-ATTATATAG-T-TTA
1 TTAATAATTATAATATAATTAATT-TATAGTTATTA
*
25896 TTAATTATTATAATATAATTAATTTATAGTTATTA
1 TTAATAATTATAATATAATTAATTTATAGTTATTA
*
25931 TTAATAATTATATTATAATTA
1 TTAATAATTATAATATAATTA
25952 GTTGTAACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.10
32 8 0.17
33 9 0.19
34 4 0.08
35 22 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (35 bp):
TTAATAATTATAATATAATTAATTTATAGTTATTA
Found at i:26117 original size:29 final size:26
Alignment explanation
Indices: 26075--26132 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 26
26065 ACAATTTTTC
26075 ATATTTATATTATTCATATAAATAGTATA
1 ATATTTATATTATT--TATAAA-AGTATA
*
26104 ATATATTAT-TTATTTATAAAATTATA
1 ATAT-TTATATTATTTATAAAAGTATA
26130 ATA
1 ATA
26133 AATAACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.30
27 6 0.22
29 9 0.33
30 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATTTATATTATTTATAAAAGTATA
Found at i:27348 original size:22 final size:22
Alignment explanation
Indices: 27306--27350 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
27296 TTAATTATTG
*
27306 TTATTAATTAATATTAGTTAAT
1 TTATTAATTAACATTAGTTAAT
27328 TTATTAATTAACATTTA-TTAAT
1 TTATTAATTAACA-TTAGTTAAT
27350 T
1 T
27351 AGTAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAATTAACATTAGTTAAT
Found at i:27378 original size:18 final size:16
Alignment explanation
Indices: 27355--27408 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
27345 TTAATTAGTA
27355 AATTAATAATATATAATT
1 AATTAATAAT-T-TAATT
27373 AATTAAT-ATTTAATTT
1 AATTAATAATTTAA-TT
27389 AATATAATAATTTTAATT
1 AAT-TAATAA-TTTAATT
27407 AA
1 AA
27409 ACAAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.09
16 6 0.19
17 6 0.19
18 12 0.38
19 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAATAATTTAATT
Found at i:27421 original size:18 final size:18
Alignment explanation
Indices: 27380--27423 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
27370 ATTAATTAAT
* * *
27380 ATTTAATTTAATATAATA
1 ATTTAATTAAACAAAATA
27398 ATTTTAATTAAACAAAATA
1 A-TTTAATTAAACAAAATA
27417 ATTTAAT
1 ATTTAAT
27424 AAATTTGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAATTAAACAAAATA
Found at i:27773 original size:16 final size:15
Alignment explanation
Indices: 27752--27786 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
27742 TTAATAATTT
27752 TATAATAATCAAATGG
1 TATAATAATCAAAT-G
*
27768 TATAATAATTAAATG
1 TATAATAATCAAATG
27783 TATA
1 TATA
27787 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:27967 original size:26 final size:27
Alignment explanation
Indices: 27938--27988 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
27928 AGATATGAAT
27938 TATTATAAATTTAT-TATAA-TAAATAC
1 TATTAT-AATTTATATATAATTAAATAC
27964 TATTATAATTTATATATAATTAAAT
1 TATTATAATTTATATATAATTAAAT
27989 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATTATAATTTATATATAATTAAATAC
Found at i:27996 original size:26 final size:24
Alignment explanation
Indices: 27935--27997 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
27925 AAAAGATATG
27935 AATTAT-TATAAATTTATTATAATA
1 AATTATATAT-AATTTATTATAATA
27959 AA-TACTATTATAATTTATATATAATTA
1 AATTA-TA-TATAATTTAT-TATAA-TA
27986 AATTATATATAA
1 AATTATATATAA
27998 AAAAAGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 2 0.06
24 3 0.09
25 7 0.21
26 13 0.39
27 6 0.18
28 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTATATATAATTTATTATAATA
Found at i:28419 original size:13 final size:14
Alignment explanation
Indices: 28390--28421 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
28380 AATAATTTAA
28390 TAAATTATATAATT
1 TAAATTATATAATT
28404 TAAATTATAT-ATT
1 TAAATTATATAATT
28417 TAAAT
1 TAAAT
28422 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:28527 original size:27 final size:29
Alignment explanation
Indices: 28473--28528 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
28463 AATTAAGAAA
28473 AAATTATATAATAAGAATTTATATTTAAT
1 AAATTATATAATAAGAATTTATATTTAAT
*
28502 AAATTA-ATAATTAA-AA-TTATCTTTAAT
1 AAATTATATAA-TAAGAATTTATATTTAAT
28529 TCTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 9 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTATATAATAAGAATTTATATTTAAT
Found at i:28688 original size:29 final size:27
Alignment explanation
Indices: 28632--28700 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
28622 TATAGATATA
*
28632 ATTAATAATTTTATTATAAATTTATTTG
1 ATTAAT-ATATTATTATAAATTTATTTG
*
28660 TTTAATATATTATTATATAATTATATTTG
1 ATTAATATATTATTATA-AATT-TATTTG
*
28689 ATTAATACATTA
1 ATTAATATATTA
28701 AAAGATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 16 0.46
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTAATATATTATTATAAATTTATTTG
Found at i:29324 original size:16 final size:17
Alignment explanation
Indices: 29303--29335 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
29293 TAATGATTTA
29303 AAATAG-ATAATTATTC
1 AAATAGTATAATTATTC
29319 AAATAGTTATAATTATT
1 AAATAG-TATAATTATT
29336 TGACTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAGTATAATTATTC
Found at i:30514 original size:29 final size:26
Alignment explanation
Indices: 30472--30529 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 26
30462 ACAATTTTTC
30472 ATATTTATATTATTCATATAAATAGTATA
1 ATATTTATATTATT--TATAAA-AGTATA
*
30501 ATATATTAT-TTATTTATAAAATTATA
1 ATAT-TTATATTATTTATAAAAGTATA
30527 ATA
1 ATA
30530 AATAACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.30
27 6 0.22
29 9 0.33
30 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATTTATATTATTTATAAAAGTATA
Found at i:30928 original size:15 final size:16
Alignment explanation
Indices: 30908--30937 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30898 CTGATCTTTT
30908 TTATATA-TAAATTAA
1 TTATATATTAAATTAA
30923 TTATATATTAAATTA
1 TTATATATTAAATTA
30938 TAATAGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATATATTAAATTAA
Found at i:31030 original size:8 final size:7
Alignment explanation
Indices: 31007--31038 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
30997 GAATGTTAAT
31007 AATTTTA
1 AATTTTA
31014 AATTTTA
1 AATTTTA
31021 AATATTTA
1 AAT-TTTA
31029 AATTTTA
1 AATTTTA
31036 AAT
1 AAT
31039 ATAATAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTTA
Found at i:31030 original size:15 final size:15
Alignment explanation
Indices: 31010--31040 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31000 TGTTAATAAT
31010 TTTAAATTTTAAATA
1 TTTAAATTTTAAATA
31025 TTTAAATTTTAAATA
1 TTTAAATTTTAAATA
31040 T
1 T
31041 AATAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAAATTTTAAATA
Found at i:31157 original size:16 final size:15
Alignment explanation
Indices: 31128--31162 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
31118 ACTATTCACA
31128 TATACATTTAATTAT
1 TATACATTTAATTAT
*
31143 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
31159 TATA
1 TATA
31163 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:31169 original size:27 final size:27
Alignment explanation
Indices: 31137--31199 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
31127 ATATACATTT
* *
31137 AATTATTATACT-ATTTGATTATTATAA
1 AATTATTA-ACTAATTTAATTATAATAA
*
31164 AATTATTAACTAATTTAATTGTAATAA
1 AATTATTAACTAATTTAATTATAATAA
*
31191 ATTTATTAA
1 AATTATTAA
31200 AATATACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTATTAACTAATTTAATTATAATAA
Found at i:31295 original size:22 final size:22
Alignment explanation
Indices: 31243--31310 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
31233 ACACAATTTG
*
31243 TATT-ATTATAAATTAATATTA
1 TATTAATTATAAATAAATATTA
31264 TACTTAATTATAAATAAATAATT-
1 TA-TTAATTATAAATAAAT-ATTA
*
31287 TATTAATTAT-ATTAAATACTTA
1 TATTAATTATAAATAAATA-TTA
31309 TA
1 TA
31311 ATGAAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 1 0.03
21 10 0.25
22 12 0.30
23 14 0.35
24 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTAATTATAAATAAATATTA
Found at i:31535 original size:18 final size:18
Alignment explanation
Indices: 31514--31579 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
31504 ACACAAATTT
* * *
31514 ATTAAATTATTTTGTTTA
1 ATTAAATTATTATATTAA
31532 ATTAAAATTATTATATTAA
1 ATT-AAATTATTATATTAA
31551 ATTAAA-TATTA-ATT-A
1 ATTAAATTATTATATTAA
31566 ATTATATATTATTA
1 ATTA-A-ATTATTA
31580 ATTTACTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.12
16 4 0.10
17 6 0.15
18 11 0.27
19 15 0.37
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTAAATTATTATATTAA
Found at i:31574 original size:15 final size:15
Alignment explanation
Indices: 31529--31582 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
31519 ATTATTTTGT
31529 TTAATTAAAATTATTATA
1 TTAATT-AAA-TATTA-A
31547 TTAAATTAAATATTAA
1 TT-AATTAAATATTAA
*
31563 TTAATTATATATT-A
1 TTAATTAAATATTAA
31577 TTAATT
1 TTAATT
31583 TACTAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 7 0.21
15 10 0.29
16 3 0.09
17 5 0.15
18 5 0.15
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATTAAATATTAA
Found at i:31580 original size:18 final size:16
Alignment explanation
Indices: 31529--31582 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
31519 ATTATTTTGT
31529 TTAATTAAAATTATTATA
1 TTAATT-AAATTATTA-A
31547 TTAAATTAAA-TATTAA
1 TT-AATTAAATTATTAA
31563 TTAATTATATATTATTAA
1 TTAATTA-A-ATTATTAA
31581 TT
1 TT
31583 TACTAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 6 0.19
18 13 0.41
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATTAAATTATTAA
Found at i:32250 original size:11 final size:10
Alignment explanation
Indices: 32209--32292 Score: 57
Period size: 10 Copynumber: 8.2 Consensus size: 10
32199 CAAATACTTA
*
32209 TAATATTAAC
1 TAATATTAAT
32219 TAATATTAAT
1 TAATATTAAT
*
32229 TATTAGTTAAT
1 TAATA-TTAAT
32240 TAATATATAA-
1 TAATAT-TAAT
* *
32250 TAACCATTTAT
1 TAA-TATTAAT
32261 TAATA-TAAT
1 TAATATTAAT
*
32270 CTAAT-TTAAA
1 -TAATATTAAT
32280 TAATTATTAAT
1 TAA-TATTAAT
32291 TA
1 TA
32293 TTTGAATATT
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.11
10 28 0.49
11 23 0.40
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (10 bp):
TAATATTAAT
Found at i:32568 original size:24 final size:25
Alignment explanation
Indices: 32523--32569 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32513 CTATATTAAT
*
32523 TTTAAATTATATTAGATAATTTACA
1 TTTAAATTAAATTAGATAATTTACA
32548 TTTAAATATAAATTA-AT-ATTTA
1 TTTAAAT-TAAATTAGATAATTTA
32570 TGTAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 9 0.45
26 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTAAATTAAATTAGATAATTTACA
Found at i:32631 original size:16 final size:17
Alignment explanation
Indices: 32600--32687 Score: 53
Period size: 16 Copynumber: 5.3 Consensus size: 17
32590 TATAATTAAT
32600 TAATTATTAATATATTA
1 TAATTATTAATATATTA
*
32617 TAATTA-TACTATATTA
1 TAATTATTAATATATTA
*
32633 T--TTATT-AT-TTTTA
1 TAATTATTAATATATTA
* *
32646 TAATTAGTAAT-TAGTA
1 TAATTATTAATATATTA
*
32662 CTAATTTAATAATATTATTA
1 -TAA-TTATTAATA-TATTA
32682 TCAATT
1 T-AATT
32688 TTTGTCATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
13 5 0.09
14 4 0.07
15 5 0.09
16 15 0.28
17 9 0.17
18 7 0.13
19 3 0.06
20 6 0.11
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (17 bp):
TAATTATTAATATATTA
Found at i:33179 original size:19 final size:19
Alignment explanation
Indices: 33151--33216 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
33141 TAATTTATTA
33151 TATT-TAATTTATATAAAT
1 TATTATAATTTATATAAAT
*
33169 TATTATAATTT-TATAATCT
1 TATTATAATTTATATAA-AT
*
33188 TATTATAATTAATTATAAAAT
1 TATTATAATTTA-TAT-AAAT
*
33209 TAATATAA
1 TATTATAA
33217 AATAATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.23
19 17 0.44
21 11 0.28
22 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTATAATTTATATAAAT
Found at i:33193 original size:11 final size:10
Alignment explanation
Indices: 33151--33205 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
33141 TAATTTATTA
33151 TATT-TAATT
1 TATTATAATT
*
33160 TA-TATAAAT
1 TATTATAATT
33169 TATTATAA-T
1 TATTATAATT
33178 T-TTATAATCT
1 TATTATAAT-T
33188 TATTATAATT
1 TATTATAATT
*
33198 AATTATAA
1 TATTATAA
33206 AATTAATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 7 0.18
9 10 0.26
10 15 0.38
11 7 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
TATTATAATT
Found at i:33215 original size:11 final size:12
Alignment explanation
Indices: 33194--33227 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
33184 ATCTTATTAT
33194 AATTAATTATAA
1 AATTAATTATAA
33206 AATTAA-TATAA
1 AATTAATTATAA
33217 AA-TAATTATAA
1 AATTAATTATAA
33228 TTATTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 12 0.57
12 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTAATTATAA
Found at i:33710 original size:15 final size:15
Alignment explanation
Indices: 33684--33723 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
33674 TAAACATTAA
33684 AATTTAATAAATTTAT
1 AATTT-ATAAATTTAT
33700 AATTTATAAATTTAT
1 AATTTATAAATTTAT
*
33715 AAATTATAA
1 AATTTATAA
33724 TCAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTATAAATTTAT
Found at i:33711 original size:8 final size:8
Alignment explanation
Indices: 33683--33723 Score: 59
Period size: 7 Copynumber: 5.2 Consensus size: 8
33673 ATAAACATTA
33683 AAATTTAAT
1 AAATTT-AT
33692 AAATTTAT
1 AAATTTAT
33700 -AATTTAT
1 AAATTTAT
33707 AAATTTAT
1 AAATTTAT
33715 AAA-TTAT
1 AAATTTAT
33722 AA
1 AA
33724 TCAATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 13 0.42
8 12 0.39
9 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAATTTAT
Found at i:33789 original size:26 final size:25
Alignment explanation
Indices: 33747--33797 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
33737 ATTAATATTG
33747 ATTTAATATATAAATAATTTAATTA
1 ATTTAATATATAAATAATTTAATTA
*
33772 ATTTAATAT-TAATTATAATTTTATTA
1 ATTTAATATATAA--ATAATTTAATTA
33798 GCCTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.13
25 9 0.39
26 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTAATATATAAATAATTTAATTA
Found at i:34194 original size:25 final size:23
Alignment explanation
Indices: 34165--34227 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 23
34155 TAAGTGAAAT
34165 TTAATATTAATAATATTTATGATAA
1 TTAATATTAATAATATTT-T-ATAA
34190 TT-A-ATT-ATAATATTTTATAA
1 TTAATATTAATAATATTTTATAA
*
34210 TTAAAATATTAATCATAT
1 TT--AATATTAATAATAT
34228 AATTTTATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
20 6 0.19
21 1 0.03
22 9 0.28
23 4 0.12
24 4 0.12
25 8 0.25
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTAATATTAATAATATTTTATAA
Found at i:34211 original size:20 final size:22
Alignment explanation
Indices: 34174--34213 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34164 TTTAATATTA
34174 ATAATATTTATGATAATTAATT
1 ATAATATTTATGATAATTAATT
34196 ATAATATTT-T-ATAATTAA
1 ATAATATTTATGATAATTAA
34214 AATATTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
ATAATATTTATGATAATTAATT
Found at i:34282 original size:17 final size:17
Alignment explanation
Indices: 34262--34318 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
34252 ATCTTTGAAC
34262 AATTATAATATTAAATT
1 AATTATAATATTAAATT
*
34279 AATTATAATATTAAGTT
1 AATTATAATATTAAATT
34296 AA-TAT--TATTATAATT
1 AATTATAATATTA-AATT
34311 AATTATAA
1 AATTATAA
34319 GTTAATTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 6 0.18
17 18 0.53
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
AATTATAATATTAAATT
Found at i:34793 original size:29 final size:31
Alignment explanation
Indices: 34743--34802 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
34733 CTATTTAAAT
34743 AATTATGATTATTTGATTAATAATCAATTTA
1 AATTATGATTATTTGATTAATAATCAATTTA
* * *
34774 AATTATTA-TATTTG-TTAATATTTAATTTA
1 AATTATGATTATTTGATTAATAATCAATTTA
34803 TTACTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 6 0.23
31 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (31 bp):
AATTATGATTATTTGATTAATAATCAATTTA
Found at i:34952 original size:15 final size:14
Alignment explanation
Indices: 34927--34958 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
34917 GTATTATAAG
34927 ATATTTTTATTATT
1 ATATTTTTATTATT
34941 ATATTATTTATTATT
1 ATATT-TTTATTATT
34956 ATA
1 ATA
34959 GTATAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTATTATT
Found at i:35099 original size:12 final size:12
Alignment explanation
Indices: 35046--35106 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
35036 ATTATAATTA
35046 TTATAATATT-AT
1 TTATAA-ATTAAT
*
35058 CTATAATATTAAT
1 TTATAA-ATTAAT
*
35071 TTATATTAATTATT
1 TTATA--AATTAAT
35085 TTATAAATTAAT
1 TTATAAATTAAT
35097 TTAATAAATT
1 TT-ATAAATT
35107 TGTTTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 17 0.41
13 13 0.32
14 10 0.24
15 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATAAATTAAT
Found at i:35103 original size:13 final size:13
Alignment explanation
Indices: 35060--35106 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
35050 AATATTATCT
35060 ATAATATTAATTTA
1 ATAA-ATTAATTTA
* *
35074 TATTAATT-ATTTT
1 -ATAAATTAATTTA
35087 ATAAATTAATTTA
1 ATAAATTAATTTA
35100 ATAAATT
1 ATAAATT
35107 TGTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.22
13 15 0.56
14 3 0.11
15 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAAATTAATTTA
Found at i:35127 original size:22 final size:23
Alignment explanation
Indices: 35102--35144 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
35092 TTAATTTAAT
* *
35102 AAATTTGTTTATTA-TAAATAAC
1 AAATTTATGTATTATTAAATAAC
35124 AAATTTATGTATTATTAAATA
1 AAATTTATGTATTATTAAATA
35145 CATTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
AAATTTATGTATTATTAAATAAC
Found at i:36262 original size:11 final size:11
Alignment explanation
Indices: 36242--36440 Score: 52
Period size: 12 Copynumber: 18.4 Consensus size: 11
36232 ATTAAGTAAC
36242 TTATAATTATA
1 TTATAATTATA
*
36253 TTATAGTTATTATT
1 TTATA---ATTATA
36267 TTATAAATTATA
1 TTAT-AATTATA
**
36279 -TA-CCTTAT-
1 TTATAATTATA
36287 TTATAATTAT-
1 TTATAATTATA
*
36297 TTATTATT-TA
1 TTATAATTATA
*
36307 -AATAA--ATA
1 TTATAATTATA
36315 TTATAATCTTATA
1 TTATAA--TTATA
*
36328 ATATAATTGATA
1 TTATAATT-ATA
*
36340 -TATTAATTTTA
1 TTA-TAATTATA
*
36351 TTAT-TTTATAA
1 TTATAATTAT-A
*
36362 TTATAAGTA-A
1 TTATAATTATA
36372 -TA-AATTATA
1 TTATAATTATA
*
36381 TGATAATT-TAA
1 TTATAATTAT-A
36392 TT-TAATTATTA
1 TTATAATTA-TA
*
36403 TAATAATTATTA
1 TTATAATTA-TA
*
36415 TGATAATTGATA
1 TTATAATT-ATA
*
36427 TAATAATTA-A
1 TTATAATTATA
36437 TTAT
1 TTAT
36441 TCTTAATAAT
Statistics
Matches: 139, Mismatches: 23, Indels: 53
0.65 0.11 0.25
Matches are distributed among these distances:
8 6 0.04
9 17 0.12
10 26 0.19
11 28 0.20
12 43 0.31
13 9 0.06
14 9 0.06
15 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (11 bp):
TTATAATTATA
Found at i:36305 original size:17 final size:18
Alignment explanation
Indices: 36259--36306 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
36249 TATATTATAG
36259 TTATTATTTTATAAATTAT
1 TTATTA-TTTATAAATTAT
*
36278 ATACCTTATTTAT-AATTAT
1 TTA--TTATTTATAAATTAT
36297 TTATTATTTA
1 TTATTATTTA
36307 AATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 7 0.28
19 10 0.40
20 5 0.20
21 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATTTATAAATTAT
Found at i:36411 original size:12 final size:13
Alignment explanation
Indices: 36359--36440 Score: 59
Period size: 12 Copynumber: 6.5 Consensus size: 13
36349 TATTATTTTA
36359 TAATTATAAGTAAT
1 TAATTATAA-TAAT
* *
36373 AAATTAT-ATGA-
1 TAATTATAATAAT
36384 TAATT-TAATTTAAT
1 TAATTATAA--TAAT
36398 T-ATTATAATAAT
1 TAATTATAATAAT
*
36410 T-ATTATGATAAT
1 TAATTATAATAAT
*
36422 TGA-TATAATAAT
1 TAATTATAATAAT
36434 TAATTAT
1 TAATTAT
36441 TCTTAATAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
10 1 0.02
11 5 0.09
12 28 0.52
13 10 0.19
14 10 0.19
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (13 bp):
TAATTATAATAAT
Found at i:36434 original size:41 final size:40
Alignment explanation
Indices: 36313--36450 Score: 111
Period size: 46 Copynumber: 3.3 Consensus size: 40
36303 TTTAAATAAA
* * *
36313 TATTATAAT-CTTATAATATAATTGATATATTAATTTTAT
1 TATTATAATAATTATAATATAATTGATATAATAATTTAAT
* *
36352 TATT-TTATAATTATAAGTAATAAATTATATGATAATTTAATTTAAT
1 TATTATAATAATTATAA-T-AT-AATT-GAT-ATAA--TAATTTAAT
*
36398 TATTATAATAATTATTATGATAATTGATATAATAA-TTAAT
1 TATTATAATAATTATAAT-ATAATTGATATAATAATTTAAT
*
36438 TATTCTTAATAAT
1 TATT-ATAATAAT
36451 AATTTAAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
38 3 0.04
39 10 0.13
40 10 0.13
41 12 0.15
42 4 0.05
43 6 0.08
44 5 0.06
45 4 0.05
46 15 0.19
47 10 0.13
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (40 bp):
TATTATAATAATTATAATATAATTGATATAATAATTTAAT
Found at i:36605 original size:18 final size:18
Alignment explanation
Indices: 36578--36612 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36568 TAAATACAAT
*
36578 AATTATTATATAATAATA
1 AATTAATATATAATAATA
36596 AATTAATATATAATAAT
1 AATTAATATATAATAAT
36613 TATTTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTAATATATAATAATA
Found at i:36611 original size:41 final size:40
Alignment explanation
Indices: 36566--36647 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
36556 TTGACAGATA
*
36566 AATAAATACAATA-ATTATTATATAATAATAAATTAATATAT
1 AATAAATA-AATATATTATTAAATAAT-ATAAATTAATATAT
* ** *
36607 AATAATTATTTATATTATTAAATAATATAAATTAATTTAT
1 AATAAATAAATATATTATTAAATAATATAAATTAATATAT
36647 A
1 A
36648 GTTAATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
40 16 0.46
41 19 0.54
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (40 bp):
AATAAATAAATATATTATTAAATAATATAAATTAATATAT
Found at i:36635 original size:30 final size:30
Alignment explanation
Indices: 36563--36643 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 30
36553 ATATTGACAG
36563 ATAAATAA-ATACAATAATTATTATATAATA
1 ATAAATAATATA-AATAATTATTATATAATA
*
36593 ATAAATTAATATATAATAATTATT-TATATTA
1 ATAAA-TAATATA-AATAATTATTATATAATA
*
36624 TTAAATAATATAAATTAATT
1 ATAAATAATATAAA-TAATT
36644 TATAGTTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.04
30 17 0.38
31 13 0.29
32 13 0.29
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAATAATATAAATAATTATTATATAATA
Found at i:36855 original size:13 final size:13
Alignment explanation
Indices: 36837--36870 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36827 TTGAATTAAA
36837 TATTAATAGTCAT
1 TATTAATAGTCAT
* *
36850 TATTAATATTTAT
1 TATTAATAGTCAT
36863 TATTAATA
1 TATTAATA
36871 AGTAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (13 bp):
TATTAATAGTCAT
Found at i:37160 original size:8 final size:8
Alignment explanation
Indices: 37132--37182 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
37122 TATTATTAGG
37132 ATAATTAT
1 ATAATTAT
*
37140 ATAA-TAA
1 ATAATTAT
37147 AT-ATTAT
1 ATAATTAT
37154 ATAATTAT
1 ATAATTAT
*
37162 ATTATTA-
1 ATAATTAT
37169 ATTAATTAT
1 A-TAATTAT
37178 ATAAT
1 ATAAT
37183 AGTATTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 1 0.03
7 9 0.26
8 24 0.69
9 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
ATAATTAT
Found at i:37199 original size:26 final size:24
Alignment explanation
Indices: 37132--37182 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
37122 TATTATTAGG
* *
37132 ATAATTATA-TAATAAAT-ATTAT
1 ATAATTATATTATTAATTAATTAT
37154 ATAATTATATTATTAATTAATTAT
1 ATAATTATATTATTAATTAATTAT
37178 ATAAT
1 ATAAT
37183 AGTATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 6 0.24
24 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATAATTATATTATTAATTAATTAT
Found at i:37264 original size:13 final size:14
Alignment explanation
Indices: 37246--37347 Score: 54
Period size: 13 Copynumber: 7.1 Consensus size: 14
37236 AATATTTAGA
37246 TAATTAA-TAATAT
1 TAATTAATTAATAT
37259 TAATTAATTAATAT
1 TAATTAATTAATAT
*
37273 TCTATTATATTAA-A-
1 T-AATTA-ATTAATAT
37287 TAATTAATATGAAT-T
1 TAATTAAT-T-AATAT
*
37302 TATTTAA-T-ATAT
1 TAATTAATTAATAT
*
37314 TAAATAAATTAAGTATT
1 T-AATTAATTAA-TA-T
*
37331 TATTTAATTAACTAT
1 TAATTAATTAA-TAT
37346 TA
1 TA
37348 TAATTAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
11 2 0.03
12 4 0.06
13 17 0.25
14 11 0.16
15 15 0.22
16 17 0.25
17 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Done.