Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 25 of 129
Found at i:5036043 original size:59 final size:60
Alignment explanation
Indices: 5035895--5036169 Score: 312
Period size: 59 Copynumber: 4.6 Consensus size: 60
5035885 CATTTAGAAG
* * *
5035895 TTTTTAGTTT-AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTTTTTTGATAA
1 TTTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTC-AAAAT-ATTTTTTTTTGA-AA
* * ** *
5035957 TTTTTATTTTTAAGAAAAATTTGTACTTCCAACTTTTCCTCAAAATATTTTTTTTTGAAA
1 TTTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAA
*
5036017 -TTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATA---CTTTTTGAAAA
1 TTTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATTTTTTTTTG-AAA
* * * * * *
5036074 TTTTTATTTTGAATG-AAAATTGATACTTTCAACTTTTTCTCAAAATGTTTTTTTCTGAAA
1 TTTTTAATTTCAA-GAAAAATTAATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAA
5036134 -TTTTAATTTCAAGAAAAATTAATACTTTCAAACTTT
1 TTTTTAATTTCAAGAAAAATTAATACTTTC-AACTTT
5036170 CAACTTTTTC
Statistics
Matches: 183, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
56 6 0.03
57 3 0.02
58 40 0.22
59 66 0.36
60 11 0.06
61 17 0.09
62 14 0.08
63 26 0.14
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.48
Consensus pattern (60 bp):
TTTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAA
Found at i:5036076 original size:117 final size:117
Alignment explanation
Indices: 5035896--5036264 Score: 411
Period size: 117 Copynumber: 3.0 Consensus size: 117
5035886 ATTTAGAAGT
* * * *
5035896 TTTTAGTTT-AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTTTTTTGATAATTT
1 TTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTTCTC-AAAAT-A---CTTTTTGAAAATTT
* *
5035960 TTATTTTTAAGAAAAATTTG-TACTTCCAACTTTTCCTCAAAATATTTTTTTTTGAAA
61 TTATTTTCAAGAAAAA-TTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAA
*
5036017 TTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTGAAAATTTTTATT
1 TTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTTCTCAAAATACTTTTTGAAAATTTTTATT
* * * *
5036082 TTGAATG-AAAATTGATACTTTCAACTTTTTCTCAAAATGTTTTTTTCTGAAA
66 TTCAA-GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAA
* *
5036134 TTTTAATTTCAAGAAAAATTAATACTTTCAAACTTTCAACTTTTTCTCAAAATACTTTTTGAGAT
1 TTTTAATTTCAAGAAAAATT-A-A---T---ACTTTCAACTTTTTCTCAAAATACTTTTTGAAAA
* * * **
5036199 TTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTTAAAAATATATTTTTTAAAAA
58 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCC-TCAAAATATTTTTTTTTGAAA
5036260 TTTTA
1 TTTTA
5036265 TTTTATATTT
Statistics
Matches: 213, Mismatches: 22, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
116 3 0.01
117 78 0.37
118 2 0.01
119 1 0.00
120 1 0.00
121 13 0.06
122 29 0.14
124 1 0.00
125 65 0.31
126 20 0.09
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.49
Consensus pattern (117 bp):
TTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTTCTCAAAATACTTTTTGAAAATTTTTATT
TTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAA
Found at i:5036225 original size:66 final size:67
Alignment explanation
Indices: 5036098--5036230 Score: 187
Period size: 66 Copynumber: 2.0 Consensus size: 67
5036088 GAAAATTGAT
** *
5036098 ACTTTCAACTTTTTCTCAAAATGTTTTTTTCTGAAATTTTAATTTCAAGAAAAATTAATACTTTC
1 ACTTTCAACTTTTTCTCAAAATGACTTTTTCAGAAATTTTAATTTCAAGAAAAATTAATACTTTC
5036163 AA
66 AA
* ** * *
5036165 ACTTTCAACTTTTTCTCAAAAT-ACTTTTTGAGATTTTTTATTTTCAAGAAAAATTGATACTTTC
1 ACTTTCAACTTTTTCTCAAAATGACTTTTTCAGAAATTTTAATTTCAAGAAAAATTAATACTTTC
5036229 AA
66 AA
5036231 TTTTTCCTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
66 36 0.62
67 22 0.38
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (67 bp):
ACTTTCAACTTTTTCTCAAAATGACTTTTTCAGAAATTTTAATTTCAAGAAAAATTAATACTTTC
AA
Found at i:5036364 original size:20 final size:22
Alignment explanation
Indices: 5036315--5036364 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
5036305 AAATACTTTT
5036315 AAAAAAATAAACAAAGACATAA
1 AAAAAAATAAACAAAGACATAA
* *
5036337 ATAAAAAATGAA-AAATACA-AA
1 A-AAAAAATAAACAAAGACATAA
5036358 AAAAAAA
1 AAAAAAA
5036365 CCCAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 3 0.12
22 7 0.28
23 9 0.36
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAAAAATAAACAAAGACATAA
Found at i:5036364 original size:22 final size:23
Alignment explanation
Indices: 5036315--5036364 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
5036305 AAATACTTTT
*
5036315 AAAAAAATAAACAAAGACATAAA
1 AAAAAAATAAACAAAGACAAAAA
* * *
5036338 TAAAAAATGAA-AAATACAAAAA
1 AAAAAAATAAACAAAGACAAAAA
5036360 AAAAA
1 AAAAA
5036365 CCCAAAGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (23 bp):
AAAAAAATAAACAAAGACAAAAA
Found at i:5036387 original size:12 final size:12
Alignment explanation
Indices: 5036315--5036400 Score: 50
Period size: 12 Copynumber: 6.7 Consensus size: 12
5036305 AAATACTTTT
5036315 AAAAAAATAAAC
1 AAAAAAATAAAC
* * *
5036327 AAAGACATAAATA
1 AAAAAAATAAA-C
*
5036340 AAAAATGAAAAATAC
1 AAAAA--AATAA-AC
5036355 AAAAAAA-AAACCC
1 AAAAAAATAAA--C
5036368 AAAGAAAATAAAC
1 AAA-AAAATAAAC
5036381 AAAAAAATACAA-
1 AAAAAAATA-AAC
5036393 AAAAAAAT
1 AAAAAAAT
5036401 TGAAACGGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
11 1 0.02
12 25 0.43
13 16 0.28
14 4 0.07
15 11 0.19
16 1 0.02
ACGTcount: A:0.78, C:0.09, G:0.03, T:0.09
Consensus pattern (12 bp):
AAAAAAATAAAC
Found at i:5037233 original size:17 final size:17
Alignment explanation
Indices: 5037211--5037243 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5037201 AAAACCAATT
5037211 ATAAATCTAAA-AAATAG
1 ATAAATC-AAATAAATAG
5037228 ATAAATCAAATAAATA
1 ATAAATCAAATAAATA
5037244 AAAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (17 bp):
ATAAATCAAATAAATAG
Found at i:5038046 original size:114 final size:114
Alignment explanation
Indices: 5037844--5038110 Score: 385
Period size: 114 Copynumber: 2.3 Consensus size: 114
5037834 ACATCCCAAA
* * * *
5037844 AGTTCAAAGTTTTTCGTTTGAATTTTGAAGGTTCACATTTCAAAAATCTTAAAGTTTCACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCACATCTCAAAAATCTTAAAGTTTCACATCTA
* *
5037909 AGTTCAAAGGTTCTCATTCAAAAATTTAAAAATTCACAACCAAAAGTTG
66 AGTTCAAAGATTCTCATTCAAAAATTTAAAAATTCACAACCAAAAATTG
* * *
5037958 AGTTCAAAGCTTTTCATTTGAATTTTGGAGATTCGCATCT-AAGAAATCTTAGAGTTTCACATCT
1 AGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCACATCTCAA-AAATCTTAAAGTTTCACATCT
* * *
5038022 AAGTTCAAAGATTCTCACTT-AAAAATTTAAAGATTCGCATCCAAAAATTG
65 AAGTTCAAAGATTCTCA-TTCAAAAATTTAAAAATTCACAACCAAAAATTG
*
5038072 AGTTCAAAGCTTTTCGTTTGAATTTTAGAGATTCACATC
1 AGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCACATC
5038111 CAACAGTTTA
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
113 2 0.01
114 132 0.97
115 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (114 bp):
AGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCACATCTCAAAAATCTTAAAGTTTCACATCTA
AGTTCAAAGATTCTCATTCAAAAATTTAAAAATTCACAACCAAAAATTG
Found at i:5038225 original size:20 final size:21
Alignment explanation
Indices: 5038175--5038214 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5038165 GTTTCACATC
5038175 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
5038196 TCAAAGATTCTTATTTGAA
1 TCAAAGATTCTCATTTGAA
5038215 TTTGAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:5038294 original size:79 final size:79
Alignment explanation
Indices: 5038135--5038367 Score: 333
Period size: 79 Copynumber: 2.9 Consensus size: 79
5038125 TTTTCATTAG
* * * *
5038135 TTCGAAAATTCACATCCAACAAACTTTAGGGTTTCACATCTCAAAGATTCTCATTTGAAATTCAA
1 TTCGAAGATTCACATTCAACAAA-TTTTGGGTTTCACATCTCAAAGATTCTTATTTGAAATTCAA
*
5038200 AGATTCTTATTTGAA
65 AGATTCTCATTTGAA
* * * *
5038215 TTTGAAGATTCGCATTCAATAAATTTTGGGTTTCACACCTCAAAGATTCTTATTTGAAATTCAAA
1 TTCGAAGATTCACATTCAACAAATTTTGGGTTTCACATCTCAAAGATTCTTATTTGAAATTCAAA
*
5038280 TATTCTCATTTGAA
66 GATTCTCATTTGAA
* *
5038294 TTCGAAGATTCACATTCAACAAATTTTGGGTTTCACATCTTAAAGATTCTTATTTG-AATTCGAA
1 TTCGAAGATTCACATTCAACAAATTTTGGGTTTCACATCTCAAAGATTCTTATTTGAAATTCAAA
*
5038358 GATTCACATT
66 GATTCTCATT
5038368 CGACAAATTT
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 15 0.11
79 102 0.76
80 18 0.13
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (79 bp):
TTCGAAGATTCACATTCAACAAATTTTGGGTTTCACATCTCAAAGATTCTTATTTGAAATTCAAA
GATTCTCATTTGAA
Found at i:5038304 original size:20 final size:21
Alignment explanation
Indices: 5038254--5038309 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
5038244 GTTTCACACC
*
5038254 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
5038275 TCAAATATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
5038295 TCGAAGATTCACATT
1 TCAAAGATTCTCATT
5038310 CAACAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:5038351 original size:58 final size:58
Alignment explanation
Indices: 5038275--5038409 Score: 207
Period size: 58 Copynumber: 2.3 Consensus size: 58
5038265 TATTTGAAAT
* * *
5038275 TCAAATATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGGGTTTCACATC
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGAGTTTCACACC
* * *
5038333 TTAAAGATTCTTATTTGAATTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACC
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGAGTTTCACACC
*
5038391 TCAAATATTCTCATTTGAA
1 TCAAAGATTCTCATTTGAA
5038410 ATTTAAAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 68 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (58 bp):
TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGAGTTTCACACC
Found at i:5038385 original size:137 final size:137
Alignment explanation
Indices: 5038196--5038488 Score: 451
Period size: 137 Copynumber: 2.1 Consensus size: 137
5038186 CATTTGAAAT
* * * *
5038196 TCAAAGATTCTTATTTGAATTTGAAGATTCGCATTCAATAAATTTTGGGTTTCACACCTCAAAGA
1 TCAAAGATTCTTATTTGAATTCGAAGATTCACATTCAACAAATTTTGAGTTTCACACCTCAAAGA
* *
5038261 TTCTTATTTGAAATTCAAATATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGGGTT
66 TTCTCATTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGGGTT
*
5038326 TCACATC
131 TCACACC
* * *
5038333 TTAAAGATTCTTATTTGAATTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACCTCAAATA
1 TCAAAGATTCTTATTTGAATTCGAAGATTCACATTCAACAAATTTTGAGTTTCACACCTCAAAGA
* * * *
5038398 TTCTCATTTGAAATTTAAAAATTTTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGGTT
66 TTCTCATTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGGGTT
5038463 TCACACC
131 TCACACC
*
5038470 TCAAAGATTATTATTTGAA
1 TCAAAGATTCTTATTTGAA
5038489 ATTCAAATAT
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
137 140 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (137 bp):
TCAAAGATTCTTATTTGAATTCGAAGATTCACATTCAACAAATTTTGAGTTTCACACCTCAAAGA
TTCTCATTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCAACAAATTTTGGGTT
TCACACC
Found at i:5038396 original size:79 final size:78
Alignment explanation
Indices: 5038235--5038474 Score: 213
Period size: 79 Copynumber: 3.0 Consensus size: 78
5038225 CGCATTCAAT
* * * * * * *
5038235 AAATTTTGGGTTTCACACCTCAAAGATTCTTATTTGAAATTCAAATATTCTCATTTG--AA-TTC
1 AAATTTTGGGTTTCACATCTTAAAGATTCTTATTTG-AATTCGAAGATTCACATTCGAAAATTTT
* **
5038297 GAAGATTCACATTCAAC
65 G-AGTTTCACA--CCTC
5038314 AAATTTTGGGTTTCACATCTTAAAGATTCTTATTTGAATTCGAAGATTCACATTCGACAAATTTT
1 AAATTTTGGGTTTCACATCTTAAAGATTCTTATTTGAATTCGAAGATTCACATTCGA-AAATTTT
5038379 GAGTTTCACACCTC
65 GAGTTTCACACCTC
** * * *
5038393 AAATATTCT-CATTTGAAAT-TTAAAAATT-TTCATTTGAATTCGAAGATTCACATTCGATAAAT
1 AAAT-TT-TGGGTTTCACATCTTAAAGATTCTT-ATTTGAATTCGAAGATTCACATTCGA-AAAT
*
5038455 TTTGGGTTTCACACCTC
62 TTTGAGTTTCACACCTC
5038472 AAA
1 AAA
5038475 GATTATTATT
Statistics
Matches: 137, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
78 18 0.13
79 97 0.71
80 8 0.06
81 11 0.08
82 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.39
Consensus pattern (78 bp):
AAATTTTGGGTTTCACATCTTAAAGATTCTTATTTGAATTCGAAGATTCACATTCGAAAATTTTG
AGTTTCACACCTC
Found at i:5038486 original size:79 final size:79
Alignment explanation
Indices: 5038339--5038508 Score: 261
Period size: 79 Copynumber: 2.2 Consensus size: 79
5038329 CATCTTAAAG
* *
5038339 ATTCTTATTTGAATTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACCTCAAATATTCTCA
1 ATTCTTATTTGAATTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACCTCAAAGATTATCA
*
5038404 TTTGAAATTTAAAA
66 TTTGAAATTCAAAA
* * *
5038418 ATT-TTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTATT
1 ATTCTT-ATTTGAATTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACCTCAAAGATTATC
*
5038482 ATTTGAAATTCAAAT
65 ATTTGAAATTCAAAA
5038497 ATTCTTATTTGA
1 ATTCTTATTTGA
5038509 CACTTAAAGA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 2 0.02
79 78 0.95
80 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (79 bp):
ATTCTTATTTGAATTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACCTCAAAGATTATCA
TTTGAAATTCAAAA
Found at i:5038504 original size:21 final size:20
Alignment explanation
Indices: 5038470--5038573 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 20
5038460 GTTTCACACC
5038470 TCAAAGATTATTATTTGAAAT
1 TCAAAGATT-TTATTTGAAAT
* *
5038491 TCAAATATTCTTATTTGACACT
1 TCAAAGATT-TTATTTGA-AAT
* *
5038513 T-AAAGATTCTCATTTAAAAT
1 TCAAAGATT-TTATTTGAAAT
*
5038533 TCAAAGATTTTCATTTGACAT
1 TCAAAGATTTT-ATTTGAAAT
* *
5038554 TAAAAAATTTTCATTTGAAA
1 TCAAAGATTTT-ATTTGAAA
5038574 ATGTCTTAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.06
21 60 0.90
22 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (20 bp):
TCAAAGATTTTATTTGAAAT
Found at i:5038533 original size:42 final size:42
Alignment explanation
Indices: 5038472--5038594 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 42
5038462 TTCACACCTC
* * *
5038472 AAAGATTATTATTTGAAATTCAAATATTCTT-ATTTGACACTT-
1 AAAGATTATCATTTAAAATTCAAAGATT-TTCATTTGACA-TTA
*
5038514 AAAGATTCTCATTTAAAATTCAAAGATTTTCATTTGACATTA
1 AAAGATTATCATTTAAAATTCAAAGATTTTCATTTGACATTA
* *
5038556 AAAAATTTTCATTTGAAAATGTCTTAAAGATTTTCATTT
1 AAAGATTATCATTT-AAAAT-TC--AAAGATTTTCATTT
5038595 AAAAAAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.06
42 44 0.64
43 5 0.07
44 2 0.03
46 14 0.20
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (42 bp):
AAAGATTATCATTTAAAATTCAAAGATTTTCATTTGACATTA
Found at i:5038571 original size:63 final size:65
Alignment explanation
Indices: 5038470--5038598 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 65
5038460 GTTTCACACC
* * *
5038470 TCAAAGATTATTATTTGAAATTCAAATATTCTTATTTG-ACA-CTTAAAGATTCTCATTTAAAAT
1 TCAAAGATTATTATTTGAAATTAAAAAATTCTTATTTGAAAATCTTAAAGATTCTCATTTAAAAT
* *
5038533 TCAAAGATT-TTCATTTGACATTAAAAAATT-TTCATTTGAAAATGTCTTAAAGATTTTCATTTA
1 TCAAAGATTATT-ATTTGAAATTAAAAAATTCTT-ATTTGAAAA--TCTTAAAGATTCTCATTTA
5038596 AAA
62 AAA
5038599 AAAAAATCAG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
62 4 0.07
63 29 0.53
64 2 0.04
67 20 0.36
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (65 bp):
TCAAAGATTATTATTTGAAATTAAAAAATTCTTATTTGAAAATCTTAAAGATTCTCATTTAAAAT
Found at i:5039725 original size:27 final size:28
Alignment explanation
Indices: 5039695--5039750 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
5039685 TTTCATCTTT
5039695 TTTTTCA-TTTTTTCTCTTATTTTTTCA
1 TTTTTCATTTTTTTCTCTTATTTTTTCA
*
5039722 TTTTTCATTTTTTTCTCTTTTTTTTTCA
1 TTTTTCATTTTTTTCTCTTATTTTTTCA
5039750 T
1 T
5039751 CTATTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTCATTTTTTTCTCTTATTTTTTCA
Found at i:5039742 original size:9 final size:9
Alignment explanation
Indices: 5039684--5039744 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
5039674 TTCTTTTTTC
5039684 TTTTCATCTT
1 TTTTC-TCTT
*
5039694 TTTTTTCATT
1 TTTTCTC-TT
5039704 TTTTCTCTT
1 TTTTCTCTT
* *
5039713 ATTTTTTCAT
1 -TTTTCTCTT
5039723 TTTTCAT-TT
1 TTTTC-TCTT
5039732 TTTTCTCTT
1 TTTTCTCTT
5039741 TTTT
1 TTTT
5039745 TTTCATCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 1 0.02
9 20 0.49
10 20 0.49
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:5039746 original size:21 final size:20
Alignment explanation
Indices: 5039722--5039769 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
5039712 TATTTTTTCA
5039722 TTTTTCATTTTTTTCTCTTTT
1 TTTTTCATTTTTTT-TCTTTT
*
5039743 TTTTTCATCTATTTTTCTTTT
1 TTTTTCAT-TTTTTTTCTTTT
5039764 TTTTTC
1 TTTTTC
5039770 GCTTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCATTTTTTTTCTTTT
Found at i:5039764 original size:38 final size:38
Alignment explanation
Indices: 5039677--5039764 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
5039667 TTGAGTTTTC
* *
5039677 TTTTTTC-TTTTCATCTTTTTTTTCATTTTTTCTCTTA
1 TTTTTTCTTTTTCATCTTTTTTCTCATTTTTTCTCATA
* * *
5039714 TTTTTTCATTTTTCAT-TTTTTTCTCTTTTTTTTTCATC
1 TTTTTTC-TTTTTCATCTTTTTTCTCATTTTTTCTCATA
5039752 TATTTTTCTTTTT
1 T-TTTTTCTTTTT
5039765 TTTTCGCTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
37 7 0.16
38 23 0.53
39 13 0.30
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (38 bp):
TTTTTTCTTTTTCATCTTTTTTCTCATTTTTTCTCATA
Found at i:5042333 original size:24 final size:23
Alignment explanation
Indices: 5042306--5042357 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
5042296 AAGTTGGTAA
5042306 GTAAGCTGATTGTGGACATGATTG
1 GTAAGCT-ATTGTGGACATGATTG
*
5042330 GTAAAGGTATTGTGGACATGATTG
1 GT-AAGCTATTGTGGACATGATTG
5042354 GTAA
1 GTAA
5042358 AGGTAAGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 20 0.77
25 4 0.15
ACGTcount: A:0.29, C:0.06, G:0.33, T:0.33
Consensus pattern (23 bp):
GTAAGCTATTGTGGACATGATTG
Found at i:5042358 original size:24 final size:24
Alignment explanation
Indices: 5042314--5042362 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5042304 AAGTAAGCTG
5042314 ATTGTGGACATGATTGGTAAAGGT
1 ATTGTGGACATGATTGGTAAAGGT
5042338 ATTGTGGACATGATTGGTAAAGGT
1 ATTGTGGACATGATTGGTAAAGGT
5042362 A
1 A
5042363 AGGTGAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.33
Consensus pattern (24 bp):
ATTGTGGACATGATTGGTAAAGGT
Found at i:5044841 original size:24 final size:27
Alignment explanation
Indices: 5044789--5044843 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
5044779 AAATCCTTTT
* *
5044789 CTTTTCATTTAAAAAAAAATCTTATTA
1 CTTTTCATATAAAAAAAAATCTGATTA
5044816 CTTTT-ATATAAAAAAAAAT-TGA-TA
1 CTTTTCATATAAAAAAAAATCTGATTA
5044840 CTTT
1 CTTT
5044844 CAACTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.23
25 2 0.08
26 13 0.50
27 5 0.19
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (27 bp):
CTTTTCATATAAAAAAAAATCTGATTA
Found at i:5044980 original size:61 final size:60
Alignment explanation
Indices: 5044868--5045102 Score: 180
Period size: 61 Copynumber: 3.9 Consensus size: 60
5044858 AGCATTTGGA
*
5044868 AGTTTTTAGTTTAAAAAAATTGATACTTTCAACTTTTGCTCAAAAATATTTTTTTTTTAT
1 AGTTTTTAGTTTAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTAT
*
5044928 AGTTTTTATTTTTAAGAAAAATTTG-TAC-TTCAAACTTTTCCTC-AAAATATTTTTTTTTCTGA
1 AGTTTTTA-GTTTAA-AAAAA-TTGATACTTTC-AACTTTTCCTCAAAAATATTTTTTTTT-T-A
5044990 -
60 T
* * * * * * ***
5044990 A-ATTTTAATTTCAAGAAAAATTGATATTTTTAACTTTTTCTC-AAAATA-CTTTTTGAGAT
1 AGTTTTTAGTTT-AA-AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTAT
* * * * *
5045049 -TTTTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTCTTAAAAATATTTTT
1 AGTTTTTAGTTT-AA-AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
5045103 CTTGAAAATT
Statistics
Matches: 146, Mismatches: 16, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
58 1 0.01
59 37 0.25
60 25 0.17
61 57 0.39
62 22 0.15
63 4 0.03
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (60 bp):
AGTTTTTAGTTTAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTAT
Found at i:5045213 original size:21 final size:21
Alignment explanation
Indices: 5045157--5045220 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
5045147 TTATTTATGC
* *
5045157 AAAAAATACTTTAAAAAAAAT
1 AAAAAATACATAAAAAAAAAT
*
5045178 AAACAAAGACATAAATAAAAAAT
1 AAA-AAATACATAAA-AAAAAAT
*
5045201 -AAAAATACCTAAAAGAAAAA
1 AAAAAATACATAAAA-AAAAA
5045221 ACCAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
22 10 0.29
23 7 0.20
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (21 bp):
AAAAAATACATAAAAAAAAAT
Found at i:5045235 original size:43 final size:43
Alignment explanation
Indices: 5045158--5045244 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
5045148 TATTTATGCA
* * *
5045158 AAAAATACTTTAAAAAAAATAAACAAAGACATAAATAAAAAAT
1 AAAAATACTCTAAAAAAAATAAACAAAGAAATAAACAAAAAAT
*
5045201 AAAAATAC-CTAAAAGAAAA-AACCAAAGAAAATAAACAAAAAAT
1 AAAAATACTCTAAAA-AAAATAAACAAAG-AAATAAACAAAAAAT
5045244 A
1 A
5045245 CCAAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 12 0.32
43 26 0.68
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.14
Consensus pattern (43 bp):
AAAAATACTCTAAAAAAAATAAACAAAGAAATAAACAAAAAAT
Found at i:5054361 original size:53 final size:54
Alignment explanation
Indices: 5054276--5054429 Score: 171
Period size: 53 Copynumber: 3.0 Consensus size: 54
5054266 TATAACATAC
* * *
5054276 AACTTGCCC-ATTAAGAATCCCTCT-CTTCTTAGAATTCTTCTCCTGTAAGTCA
1 AACTTGCCCTATTAAGAATCCTTTTCCTTCTTAGAATTCTTCTCCTGCAAGTCA
*
5054328 AACTTGCCCTATTAAGAATCCTTTTCCTT-TTAGAATTCTTCTCTTGCAAGTCA
1 AACTTGCCCTATTAAGAATCCTTTTCCTTCTTAGAATTCTTCTCCTGCAAGTCA
* * **
5054381 AACTT--ACTATTAAGAATCCTCTTT-C-TC-TGGAATTCTTCTTTTGCAAGTC
1 AACTTGCCCTATTAAGAATCCT-TTTCCTTCTTAGAATTCTTCTCCTGCAAGTC
5054430 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
50 21 0.23
51 15 0.16
52 12 0.13
53 40 0.44
54 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (54 bp):
AACTTGCCCTATTAAGAATCCTTTTCCTTCTTAGAATTCTTCTCCTGCAAGTCA
Found at i:5054731 original size:23 final size:25
Alignment explanation
Indices: 5054705--5054751 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5054695 CCCATGTCTC
5054705 AAACC-AT-GCACTTCCCACATCTG
1 AAACCTATAGCACTTCCCACATCTG
* *
5054728 AAACCTTTAGCTCTTCCCACATCT
1 AAACCTATAGCACTTCCCACATCT
5054752 TGAACATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 1 0.05
25 14 0.70
ACGTcount: A:0.28, C:0.38, G:0.06, T:0.28
Consensus pattern (25 bp):
AAACCTATAGCACTTCCCACATCTG
Found at i:5055434 original size:52 final size:51
Alignment explanation
Indices: 5055348--5055504 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 51
5055338 TATAACCATA
* *
5055348 CAAACTTGCAC-ATTAAGAATCCCTCTCTTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGC-CTATTAAGAATCCCTTTCTT-TTAGAATTCTTCTCCTGCAAGT
*
5055400 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTTTTAGAATTCTTCTCCTGCAAGT
* * * **
5055452 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTTTTAGAATTCTTCTCCTGCAAGT
5055504 C
1 C
5055505 TTCTTGTCCA
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 1 0.01
52 87 0.92
53 7 0.07
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTTTTAGAATTCTTCTCCTGCAAGT
Found at i:5058447 original size:1 final size:1
Alignment explanation
Indices: 5058441--5058466 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
5058431 AATCTTAATG
5058441 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
5058467 GCTTTTGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5059379 original size:27 final size:27
Alignment explanation
Indices: 5059343--5059395 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5059333 AGTAAAAATT
5059343 ATATTAATAAAA-AAATTAAATTATTTA
1 ATATTAATAAAATAAA-TAAATTATTTA
* *
5059370 ATATTTATAAAATTAATAAATTATTT
1 ATATTAATAAAATAAATAAATTATTT
5059396 TTAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATATTAATAAAATAAATAAATTATTTA
Found at i:5062505 original size:2 final size:2
Alignment explanation
Indices: 5062498--5062527 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5062488 TTGAACATGC
*
5062498 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5062528 GAAAGAGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5068973 original size:14 final size:16
Alignment explanation
Indices: 5068954--5068986 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5068944 TAATTTTAAA
5068954 AATAT-AAA-AATTAT
1 AATATAAAATAATTAT
5068968 AATATAAAATAATTAT
1 AATATAAAATAATTAT
5068984 AAT
1 AAT
5068987 TTTAAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 3 0.18
16 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:5071668 original size:2 final size:2
Alignment explanation
Indices: 5071661--5071688 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5071651 TGGCTAGGAG
5071661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5071689 TTATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5072693 original size:23 final size:24
Alignment explanation
Indices: 5072661--5072714 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
5072651 TTTAAGTTTG
* * *
5072661 ATTTATATATTTGTGAATATATTT-
1 ATTTA-ATATTTATAAATAAATTTA
5072685 ATTTAATATTTATAAATAAATTTA
1 ATTTAATATTTATAAATAAATTTA
5072709 ATTTAA
1 ATTTAA
5072715 ATTAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTAATATTTATAAATAAATTTA
Found at i:5073580 original size:28 final size:29
Alignment explanation
Indices: 5073542--5073596 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
5073532 AAAGAGATAA
*
5073542 AAATAAATAAAAGTATTTA-ATGAAAAAT
1 AAATAAATAAAAGTATATATATGAAAAAT
*
5073570 AAATAATTAAAAGTATATATATGAAAA
1 AAATAAATAAAAGTATATATATGAAAA
5073597 GGATATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATAAATAAAAGTATATATATGAAAAAT
Found at i:5074501 original size:22 final size:23
Alignment explanation
Indices: 5074459--5074509 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
5074449 TGGTATTTTT
*
5074459 TTAAGAAAAAAATTCAGTAAAAA
1 TTAAAAAAAAAATTCAGTAAAAA
*
5074482 TTAAAAAAATAAATT-A-TAAATA
1 TTAAAAAAA-AAATTCAGTAAAAA
5074504 TTAAAA
1 TTAAAA
5074510 TTTAAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 9 0.36
24 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
TTAAAAAAAAAATTCAGTAAAAA
Found at i:5074509 original size:21 final size:21
Alignment explanation
Indices: 5074459--5074523 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
5074449 TGGTATTTTT
*
5074459 TTAAGAAAA-AAATTCAGTAAAAA
1 TTAA-AAAATAAATT-A-TAAATA
5074482 TTAAAAAAATAAATTATAAATA
1 TT-AAAAAATAAATTATAAATA
** *
5074504 TTAAAATTTAAATTCTAAAT
1 TTAAAAAATAAATTATAAAT
5074524 CATTTGAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 15 0.42
22 7 0.19
23 7 0.19
24 7 0.19
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (21 bp):
TTAAAAAATAAATTATAAATA
Found at i:5079513 original size:2 final size:2
Alignment explanation
Indices: 5079471--5079495 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5079461 ACGGTAGCTT
5079471 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5079496 CTTGTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5089440 original size:188 final size:185
Alignment explanation
Indices: 5089104--5090144 Score: 1073
Period size: 186 Copynumber: 5.6 Consensus size: 185
5089094 ATTGAAAGCA
* * **
5089104 TTTGTTCT-AAAAAATCACCTTCAATAATTATGTGCAAAAATTAAAATGAATTAGTGAAGGCGTT
1 TTTGTTATAAAAAAAT-ACCTTCAATAATTATGTACAAAAATTAAAA-GAATTAGTGAAGGTATT
* * * * *
5089168 TTCCTAGAATAAACACTTTCACTAAGCATATTAAAATTTGAGTACTGGTATATTG-AAGATGTTT
64 TTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTGAAAG-TGTTT
* *
5089232 TTCAGTAGAAGACGCCTTTAATAATCTTAAAATTTTTTAAAAAGAAATTATTGAAGGAG
128 TTCACTAGAAGACACCTTTAATAATCTTAAAATTTTTTAAAAA-AAATTATTGAAGGAG
5089291 TTTGTTATAAAAAAAATACCTTCAATAATTATGTACAAAAATTAAAATGAATTAGTGAAGGTATT
1 TTTGTTAT-AAAAAAATACCTTCAATAATTATGTACAAAAATTAAAA-GAATTAGTGAAGGTATT
* * *
5089356 TTTCAAGAATAAACACCTTCACTCACCATCTTAAAATTTGAGTACTGGTATATTGAAAGTGTTTT
64 TTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTGAAAGTGTTTT
* * *
5089421 TCAGTAGAAGATACCTTTAATAATCTTAAATTTTTTTTAAAAAAAATTATTGAAGGTA-
129 TCACTAGAAGACACCTTTAATAATCTTAAA-ATTTTTTAAAAAAAATTATTGAAGG-AG
* ** * * * *
5089479 TTTGTTATAAAAAAATACCGTCAATAATTATGTACAAATTTTAAAAAAATTATTAAATGTATTTT
1 TTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAAATTAAAAGAATTAGTGAAGGTATTTT
* * * * *
5089544 T-TAGAATAAATGCATTCACTAACCGTCTTAAAATTTGAGTAAC-GGTATATTGAAGGCGTTTTT
66 TCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGT-ACTGGTATATTGAAAGTGTTTTT
* *
5089607 CACTAGAAGACACCTTTAATAATCCTAAAATTTTTTAGAAAAAAAATTATTGAAGGCG
130 CACTAGAAGACACCTTTAATAATCTTAAAATTTTTT--AAAAAAAATTATTGAAGGAG
* * * * * *
5089665 TTTGTTATCAAAAAATGCTTTTAATAATTATGTA-AAAAATTTAAAA-AATTATTGAAGGTGTTT
1 TTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAAA-TTAAAAGAATTAGTGAAGGTATTT
* * *
5089728 TTCTAAAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGGTATATT-AAAGGTATTTT
65 TTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTGAAA-GTGTTTT
* * * **
5089792 TCACTAGAAGATACTTTTAATAATCTCAAAAATTTTTTAAATGAAATTATTGAAGGCA-
129 TCACTAGAAGACACCTTTAATAATCT-TAAAATTTTTTAAAAAAAATTATTGAAGG-AG
* * * * * *
5089850 TTTATTTTTGAAAAAATACCTTCAATAATTATGTACATAAATTAAATGGAATCAGTGAAGGTATT
1 TTT-GTTATAAAAAAATACCTTCAATAATTATGTACAAAAATTAAA-AGAATTAGTGAAGGTATT
** * * * * * ** *
5089915 TTTCTAGAATAAACGTTTTTACTAACCGTTTTAAAATTTGAGCAGTGAAATATTGAAGACT-TTT
64 TTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTGAA-AGTGTTT
* * *** *
5089979 TTTACTACAAGACGGTTTTAATAATAC-TAAAATTTTTTAAAAAAAATTATTGAA-TACG
128 TTCACTAGAAGACACCTTTAATAAT-CTTAAAATTTTTTAAAAAAAATTATTGAAGGA-G
* * * * * * *
5090037 TTTATTCTCAAAAAATGCCTACAATAATTATGTACATAAATTAAAAGAAATTAGTGAA-GTCGTT
1 TTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAAATTAAAAG-AATTAGTGAAGGT-ATT
* * * * * *
5090101 TTTCTACAATAAACGCATTCACTAATCGTTTTTAAATTTGAGTA
64 TTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTA
5090145 GTGAAATATT
Statistics
Matches: 724, Mismatches: 104, Indels: 53
0.82 0.12 0.06
Matches are distributed among these distances:
184 6 0.01
185 122 0.17
186 257 0.35
187 83 0.11
188 229 0.32
189 26 0.04
190 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (185 bp):
TTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAAATTAAAAGAATTAGTGAAGGTATTTT
TCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTGAAAGTGTTTTTC
ACTAGAAGACACCTTTAATAATCTTAAAATTTTTTAAAAAAAATTATTGAAGGAG
Found at i:5096469 original size:140 final size:140
Alignment explanation
Indices: 5096233--5096491 Score: 317
Period size: 140 Copynumber: 1.9 Consensus size: 140
5096223 CAAATTAATA
* * * *
5096233 GTTATTGTTCTATTTTAATAATTTTGATAGTTTCAATACATGATATTAAACTTATTGAAAGTTTT
1 GTTATTATTCTATTTTAATAATTTGGATAGTTTCAATACATGATATTAAACTTAGTCAAAGTTTT
* * *
5096298 GAACTTAGTTGACACGGATGATATGTATGAAAAAGTTATTGTTTATGTCTATTTAGGTAAAAATA
66 GAACTTAGTTGACACGGATGATATGGATGAAAAAATTATCGTTTATGTCTATTTAGGTAAAAATA
5096363 CAAATTTGTT
131 CAAATTTGTT
* * * * *
5096373 GTTATTATTGTATTTTAATAGTTTGGATAGTTTTAATACTTGATATTAAACTT-GTCCAA-TTGA
1 GTTATTATTCTATTTTAATAATTTGGATAGTTTCAATACATGATATTAAACTTAGTCAAAGTT--
* * * * *
5096436 TTGAACTTGGTT-TCTACTGTTGATATGGGTGAAAAAATTATCGTTTATGTCTATTT
64 TTGAACTTAGTTGAC-ACGGATGATATGGATGAAAAAATTATCGTTTATGTCTATTT
5096492 GGGACTATTT
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
138 2 0.02
139 4 0.04
140 93 0.94
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (140 bp):
GTTATTATTCTATTTTAATAATTTGGATAGTTTCAATACATGATATTAAACTTAGTCAAAGTTTT
GAACTTAGTTGACACGGATGATATGGATGAAAAAATTATCGTTTATGTCTATTTAGGTAAAAATA
CAAATTTGTT
Found at i:5099600 original size:17 final size:18
Alignment explanation
Indices: 5099561--5099626 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
5099551 CTTAATTTTA
5099561 ATTTT-TTAAAAATATAT
1 ATTTTATTAAAAATATAT
*
5099578 TTTTTATTAAAAATAT-T
1 ATTTTATTAAAAATATAT
*
5099595 ATTTTATTGATAAAT-TAT
1 ATTTTATT-AAAAATATAT
* *
5099613 ATTATAATAAAAAT
1 ATTTTATTAAAAAT
5099627 TAAAAAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
17 18 0.45
18 22 0.55
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTTTATTAAAAATATAT
Found at i:5099609 original size:18 final size:16
Alignment explanation
Indices: 5099561--5099602 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
5099551 CTTAATTTTA
5099561 ATTTTTTA--AAAATAT
1 ATTTTTTATTAAAA-AT
5099576 ATTTTTTATTAAAAAT
1 ATTTTTTATTAAAAAT
5099592 ATTATTTTATT
1 ATT-TTTTATT
5099603 GATAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTTATTAAAAAT
Found at i:5101193 original size:2 final size:2
Alignment explanation
Indices: 5101186--5101213 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5101176 GTATCCAGGG
5101186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5101214 GGGGAGCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5105093 original size:19 final size:20
Alignment explanation
Indices: 5105069--5105113 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
5105059 ATTTTTTTTA
*
5105069 AATTATAAAT-ACGTATTAC
1 AATTATAAATCAAGTATTAC
5105088 AATTAT-AATCAAGTATTAC
1 AATTATAAATCAAGTATTAC
*
5105107 ATTTATA
1 AATTATA
5105114 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (20 bp):
AATTATAAATCAAGTATTAC
Found at i:5108060 original size:2 final size:2
Alignment explanation
Indices: 5108053--5108087 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
5108043 GATAGCTATT
* *
5108053 TA TA TA TA TA TA TA TA TA TG TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5108088 TTGTCAGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5111388 original size:3 final size:3
Alignment explanation
Indices: 5111375--5111414 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
5111365 TGACTAATTT
5111375 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5111415 ACCTTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5112268 original size:23 final size:23
Alignment explanation
Indices: 5112242--5112300 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
5112232 TCTTTTTCTT
5112242 TTTATTTTTTGTTTTGATTTTGA
1 TTTATTTTTTGTTTTGATTTTGA
* *
5112265 TTTATTTTATG--TTGATTTTTA
1 TTTATTTTTTGTTTTGATTTTGA
5112286 TATTATTTTTATGTT
1 T-TTATTTTT-TGTT
5112301 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 10 0.34
22 7 0.24
23 12 0.41
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (23 bp):
TTTATTTTTTGTTTTGATTTTGA
Found at i:5112284 original size:22 final size:23
Alignment explanation
Indices: 5112255--5112306 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 23
5112245 ATTTTTTGTT
*
5112255 TTGATTTTGAT-TTA-TTTTATG
1 TTGATTTTTATATTATTTTTATG
5112276 TTGATTTTTATATTATTTTTATG
1 TTGATTTTTATATTATTTTTATG
5112299 TT-ATTTTT
1 TTGATTTTT
5112307 TAATGATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.36
22 9 0.32
23 9 0.32
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (23 bp):
TTGATTTTTATATTATTTTTATG
Found at i:5112293 original size:11 final size:11
Alignment explanation
Indices: 5112269--5112363 Score: 52
Period size: 11 Copynumber: 8.4 Consensus size: 11
5112259 TTTTGATTTA
*
5112269 TTTTATGTTGAT
1 TTTTATATT-AT
5112281 TTTTATATTAT
1 TTTTATATTAT
*
5112292 TTTTATGTTAT
1 TTTTATATTAT
5112303 TTTT-TAATGATAT
1 TTTTAT-AT--TAT
5112316 TTTGT-TATTAT
1 TTT-TATATTAT
* *
5112327 TATTATTGTTA-
1 TTTTA-TATTAT
5112338 TTTTATATTAT
1 TTTTATATTAT
** *
5112349 TACTATAATAT
1 TTTTATATTAT
5112360 TTTT
1 TTTT
5112364 TTAAAAACAA
Statistics
Matches: 64, Mismatches: 12, Indels: 15
0.70 0.13 0.16
Matches are distributed among these distances:
10 6 0.09
11 36 0.56
12 12 0.19
13 8 0.12
14 2 0.03
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.67
Consensus pattern (11 bp):
TTTTATATTAT
Found at i:5112306 original size:23 final size:22
Alignment explanation
Indices: 5112269--5112324 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
5112259 TTTTGATTTA
*
5112269 TTTTATGTTGA-TTTTTATATTAT
1 TTTTATGTT-ATTTTTTA-ATGAT
5112292 TTTTATGTTATTTTTTAATGAT
1 TTTTATGTTATTTTTTAATGAT
*
5112314 ATTT-TGTTATT
1 TTTTATGTTATT
5112325 ATTATTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 7 0.23
22 8 0.27
23 15 0.50
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTATGTTATTTTTTAATGAT
Found at i:5112308 original size:12 final size:11
Alignment explanation
Indices: 5112269--5112306 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
5112259 TTTTGATTTA
5112269 TTTTATGTTGAT
1 TTTTATGTT-AT
*
5112281 TTTTATATTAT
1 TTTTATGTTAT
5112292 TTTTATGTTAT
1 TTTTATGTTAT
5112303 TTTT
1 TTTT
5112307 TAATGATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (11 bp):
TTTTATGTTAT
Found at i:5112781 original size:14 final size:14
Alignment explanation
Indices: 5112764--5112795 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5112754 TAAAACAATG
5112764 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
*
5112778 ATAAAAAAATAATA
1 ATAAAAAAATAAAA
5112792 ATAA
1 ATAA
5112796 TTAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
ATAAAAAAATAAAA
Found at i:5112937 original size:7 final size:7
Alignment explanation
Indices: 5112925--5112956 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
5112915 AATAAAAATA
5112925 AATAATT
1 AATAATT
5112932 AATAATT
1 AATAATT
5112939 AATAATT
1 AATAATT
*
5112946 AATAAAT
1 AATAATT
5112953 AATA
1 AATA
5112957 TATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:5112944 original size:14 final size:14
Alignment explanation
Indices: 5112920--5112956 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5112910 TTTATAATAA
5112920 AAATAAATAATTAAT
1 AAAT-AATAATTAAT
*
5112935 AATTAATAATTAAT
1 AAATAATAATTAAT
5112949 AAATAATA
1 AAATAATA
5112957 TATATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAATAATTAAT
Found at i:5113309 original size:3 final size:3
Alignment explanation
Indices: 5113301--5113351 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
5113291 TAGAATACGA
5113301 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5113349 AAT
1 AAT
5113352 TTCACAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5113550 original size:20 final size:20
Alignment explanation
Indices: 5113508--5113551 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5113498 ACCATACTCC
* *
5113508 TAAACCTAATCTTGGTTTTG
1 TAAACCTAAACTTGCTTTTG
5113528 TAAACCTAAACTT-CTTTTAG
1 TAAACCTAAACTTGCTTTT-G
5113548 TAAA
1 TAAA
5113552 TCTTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (20 bp):
TAAACCTAAACTTGCTTTTG
Found at i:5114964 original size:16 final size:16
Alignment explanation
Indices: 5114943--5114977 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
5114933 TCTTACGTGA
*
5114943 TTACATTATCAAACAC
1 TTACATCATCAAACAC
5114959 TTACATCATCAAACAC
1 TTACATCATCAAACAC
5114975 TTA
1 TTA
5114978 AATGATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (16 bp):
TTACATCATCAAACAC
Found at i:5124752 original size:40 final size:39
Alignment explanation
Indices: 5124693--5124788 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 39
5124683 ATTGCCTTAC
*
5124693 AGCCTTTTAAATTTAAAGTTTGTTGCATCTGGTCAAATG
1 AGCCTTTTAAATTTAAAGTTTGTTGCATCTGATCAAATG
*
5124732 AGCCTTTTAACATTTAAAGTTTGTTGCCTCTGATCAAATG
1 AGCCTTTTAA-ATTTAAAGTTTGTTGCATCTGATCAAATG
*
5124772 AGCCTTTTAATTTTAAA
1 AGCCTTTTAAATTTAAA
5124789 AGCCTCTGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
39 16 0.30
40 37 0.70
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (39 bp):
AGCCTTTTAAATTTAAAGTTTGTTGCATCTGATCAAATG
Found at i:5124982 original size:40 final size:39
Alignment explanation
Indices: 5124906--5125319 Score: 271
Period size: 40 Copynumber: 10.3 Consensus size: 39
5124896 TAAATAAGCC
* * * * *
5124906 ATTTAAAGTTCGTTACCTCTGGTCAGAAAAACCTTTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGCCTTTTAA
* * *
5124945 CATTTAAAGTTTGTTGCCTTTAGTTA-AAGAGCACTTTTGA
1 -ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGC-CTTTTAA
** * * *
5124985 ATTTAAAGTTCATTGCCACTGGTGAGAGGAGCCTTTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGCCTTTTAA
* * *
5125024 TATTTAATATTTAATATTTGTTGCCTTTGGTTA-AATGAGCACTTTTGA
1 -A-TT--TA---AA-GTTTGTTGCCTCTGGTTAGAA-GAGC-CTTTTAA
* * * * *
5125072 ATATAAAGTTCGTTG-CTGCTAGTGAGATGAGCCTTTTAA
1 ATTTAAAGTTTGTTGCCT-CTGGTTAGAAGAGCCTTTTAA
* * *
5125111 TATTTAAAGTTTGTTGCCTTTGGTTA-AATGAACACTTTTGA
1 -ATTTAAAGTTTGTTGCCTCTGGTTAGAA-GAGC-CTTTTAA
* * * * *
5125152 ATTTAAAGTTCGTTGCCTATGGTGAGAGGAGCTTTTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGCCTTTTAA
* *
5125191 CATTTAAAGTTTGTTGCCACTGGTTA-AAGAGCACTTTTGA
1 -ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGC-CTTTTAA
** * * *
5125231 ATTTAAAGTCCGTTGCCTCTGGTGAGAGGAGCCTTTTGA
1 ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGCCTTTTAA
* * * *
5125270 ATTTAAAGTTTGTTGTCTTTGGTTAGAGGAGCTTTTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGCCTTTTAA
5125309 ATTTAAAGTTT
1 ATTTAAAGTTT
5125320 CATAGCCTCT
Statistics
Matches: 286, Mismatches: 66, Indels: 45
0.72 0.17 0.11
Matches are distributed among these distances:
39 119 0.42
40 122 0.43
41 14 0.05
43 2 0.01
44 2 0.01
46 4 0.01
47 17 0.06
48 6 0.02
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (39 bp):
ATTTAAAGTTTGTTGCCTCTGGTTAGAAGAGCCTTTTAA
Found at i:5125125 original size:80 final size:79
Alignment explanation
Indices: 5125026--5125318 Score: 371
Period size: 80 Copynumber: 3.7 Consensus size: 79
5125016 CCTTTTAATA
*
5125026 TTTAATATTTAATA-TTTGTTGCCTTTGGTTAAATGAGCACTTTTGAATATAAAGTTCGTTGCTG
1 TTTAATATTTAA-AGTTTGTTGCCTTTGGTTAAATGAGCACTTTTGAATTTAAAGTTCGTTGCT-
*
5125090 CTAGTGAGATGAGCCT
64 CTAGTGAGAGGAGCCT
*
5125106 TTTAATATTTAAAGTTTGTTGCCTTTGGTTAAATGAACACTTTTGAATTTAAAGTTCGTTGC-CT
1 TTTAATATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCACTTTTGAATTTAAAGTTCGTTGCTCT
*
5125170 ATGGTGAGAGGAGCTT
66 A--GTGAGAGGAGCCT
* ** *
5125186 TTTAACATTTAAAGTTTGTTGCCACTGGTTAAA-GAGCACTTTTGAATTTAAAGTCCGTTGCCTC
1 TTTAATATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCACTTTTGAATTTAAAGTTCGTTG-CTC
*
5125250 TGGTGAGAGGAGCCT
65 TAGTGAGAGGAGCCT
* * * * * *
5125265 TTTGA-ATTTAAAGTTTGTTGTCTTTGGTTAGAGGAGC-TTTTTAAATTTAAAGTT
1 TTTAATATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCACTTTTGAATTTAAAGTT
5125319 TCATAGCCTC
Statistics
Matches: 188, Mismatches: 19, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
78 40 0.21
79 46 0.24
80 100 0.53
81 2 0.01
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (79 bp):
TTTAATATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCACTTTTGAATTTAAAGTTCGTTGCTCT
AGTGAGAGGAGCCT
Found at i:5125522 original size:6 final size:6
Alignment explanation
Indices: 5125511--5125564 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
5125501 TTTTTTTTAT
* * * * *
5125511 ATATTA ATATTA ATAATA ATAATA ATAATA ATATTA TTATTA TTATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
*
5125559 TTATTA
1 ATATTA
5125565 TTAACCTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:5125548 original size:3 final size:3
Alignment explanation
Indices: 5125542--5125567 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5125532 ATAATAATAA
5125542 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
5125568 ACCTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5129843 original size:22 final size:24
Alignment explanation
Indices: 5129788--5129845 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
5129778 ATAATAATAT
*
5129788 AAAT-TATTATAATTTTAATTAAA
1 AAATATATTATAATTATAATTAAA
*
5129811 AAATATATTATAATTATGATTAAA
1 AAATATATTATAATTATAATTAAA
5129835 AAA-AT-TTATAA
1 AAATATATTATAA
5129846 AAAATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 6 0.19
23 6 0.19
24 20 0.62
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATATATTATAATTATAATTAAA
Found at i:5129896 original size:23 final size:25
Alignment explanation
Indices: 5129862--5129907 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
5129852 TTATACTAAA
*
5129862 TAAATTTTATTAA-AAT-TAATATT
1 TAAATTTAATTAATAATATAATATT
5129885 TAAATTTAATTAATAATATAATA
1 TAAATTTAATTAATAATATAATA
5129908 AATTTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAATTTAATTAATAATATAATATT
Found at i:5130525 original size:21 final size:20
Alignment explanation
Indices: 5130501--5130549 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
5130491 ATTACTAATT
*
5130501 TTAATCTTATCATTATATTAA
1 TTAAT-TTATCATTATAATAA
*
5130522 TTAATTTAATTATTATAATAA
1 TTAATTT-ATCATTATAATAA
5130543 TTAATTT
1 TTAATTT
5130550 TATTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTTATCATTATAATAA
Found at i:5130553 original size:18 final size:18
Alignment explanation
Indices: 5130512--5130569 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
5130502 TAATCTTATC
*
5130512 ATTATATTAATTAATTTAATT
1 ATTATAATAATTAA-TT--TT
5130533 ATTATAATAATTAATTTT
1 ATTATAATAATTAATTTT
* * *
5130551 ATTTTAATTATTATTTTT
1 ATTATAATAATTAATTTT
5130569 A
1 A
5130570 ATATCATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTATAATAATTAATTTT
Found at i:5131143 original size:169 final size:169
Alignment explanation
Indices: 5130851--5131161 Score: 401
Period size: 169 Copynumber: 1.8 Consensus size: 169
5130841 ACTTGTATTT
* * *
5130851 GATCTTGAGTTCGAGATATTTTGTTAATTAAAATAATAAAAATTTATTTAAATATAAAAACTCGA
1 GATCTTAAGTTCGAGATATTTTATTAATTAAAATAATAAAAATATATTTAAATATAAAAACTCGA
* * * * * * *
5130916 TTAGGCTCGCGGATTACTCAAGCTGAGTATAAAAATACTCAAACTCAATTTGATTGATGAATCGA
66 TTAGACTCACGGATTACTAAAGCTGAATATAAAAATACTAAAACTCAATTTAATTGATGAATCAA
* *
5130981 GTTATTCGAACTCAAGCTTAAGCTCAATTATTTGTACTC
131 ATTATTCAAACTCAAGCTTAAGCTCAATTATTTGTACTC
*
5131020 GATCTTAAGTTCGAGATATTTTATTAATTAAAATAATAAAAATATATTTAAATATAAAAATTCGA
1 GATCTTAAGTTCGAGATATTTTATTAATTAAAATAATAAAAATATATTTAAATATAAAAACTCGA
* * * * * * * *
5131085 TTATATTCA-TGAGTTATTTAAATC-GAATATAAAAATATTAAAATTTAATTTAATTGATGAATC
66 TTAGACTCACGGA-TTA-CTAAAGCTGAATATAAAAATACTAAAACTCAATTTAATTGATGAATC
5131148 AAATTATTCAAACT
129 AAATTATTCAAACT
5131162 TGAGTTAAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
168 2 0.02
169 113 0.95
170 4 0.03
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (169 bp):
GATCTTAAGTTCGAGATATTTTATTAATTAAAATAATAAAAATATATTTAAATATAAAAACTCGA
TTAGACTCACGGATTACTAAAGCTGAATATAAAAATACTAAAACTCAATTTAATTGATGAATCAA
ATTATTCAAACTCAAGCTTAAGCTCAATTATTTGTACTC
Found at i:5147913 original size:17 final size:16
Alignment explanation
Indices: 5147874--5147914 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
5147864 AATAAAAAAT
5147874 TTTAAATATTATTTTAA
1 TTTAAATA-TATTTTAA
5147891 -TT-AATATATTTATAA
1 TTTAAATATATTT-TAA
5147906 TTTAAATAT
1 TTTAAATAT
5147915 CGTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.24
15 7 0.33
16 4 0.19
17 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAATATATTTTAA
Found at i:5147921 original size:28 final size:27
Alignment explanation
Indices: 5147890--5147965 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
5147880 TATTATTTTA
*
5147890 ATTAATATATTTATAATTTAAATATCG-T
1 ATTAA-ATATTTTTAATTTAAATAT-GAT
*
5147918 ATTAAATATTTTTAAATTTGAATATGAT
1 ATTAAATATTTTT-AATTTAAATATGAT
*
5147946 ATTAAATATTTTTATTTTAA
1 ATTAAATATTTTTAATTTAA
5147966 TTTAAGATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 13 0.31
28 29 0.69
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (27 bp):
ATTAAATATTTTTAATTTAAATATGAT
Found at i:5147931 original size:29 final size:29
Alignment explanation
Indices: 5147893--5147960 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
5147883 TATTTTAATT
*
5147893 AATATATTTATAATTTAAATATCG-TATTA
1 AATATTTTTATAATTTAAATAT-GATATTA
*
5147922 AATATTTTTA-AATTTGAATATGATATTA
1 AATATTTTTATAATTTAAATATGATATTA
5147950 AATATTTTTAT
1 AATATTTTTAT
5147961 TTTAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 1 0.03
28 25 0.71
29 9 0.26
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
AATATTTTTATAATTTAAATATGATATTA
Found at i:5147975 original size:26 final size:27
Alignment explanation
Indices: 5147890--5147975 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 27
5147880 TATTATTTTA
* * *
5147890 ATTAATATATTTATAATTTAAATAT-CG
1 ATTAA-ATATTTTTAATTTGAATATAAG
* *
5147917 TATTAAATATTTTTAAATTTGAATATGAT
1 -ATTAAATATTTTT-AATTTGAATATAAG
* *
5147946 ATTAAATATTTTT-ATTTTAATTTAAG
1 ATTAAATATTTTTAATTTGAATATAAG
5147972 ATTA
1 ATTA
5147976 TTTATTATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 13 0.27
27 7 0.15
28 28 0.58
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (27 bp):
ATTAAATATTTTTAATTTGAATATAAG
Found at i:5152357 original size:43 final size:43
Alignment explanation
Indices: 5152304--5152387 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
5152294 AGAGTGCAAA
5152304 AAGTTCCTAGTGAAATCACATCTCATTACTCAAAAGGTATTCT
1 AAGTTCCTAGTGAAATCACATCTCATTACTCAAAAGGTATTCT
* *
5152347 AAGTTTCTAGTGAAATTACATCTCATTACTCAAAAGGTATT
1 AAGTTCCTAGTGAAATCACATCTCATTACTCAAAAGGTATT
5152388 GTAACTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (43 bp):
AAGTTCCTAGTGAAATCACATCTCATTACTCAAAAGGTATTCT
Found at i:5154219 original size:45 final size:45
Alignment explanation
Indices: 5154155--5154244 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
5154145 ACAGTCAGAA
* *
5154155 AACAGAAGTCATAGAAACAGTATGTTAATCGGTGATGGGAATGTG
1 AACAGAACTCATAGAAACAGCATGTTAATCGGTGATGGGAATGTG
* *
5154200 AACAGAACTCATAGAAACAGCATGTTAGTCTGTGATGGGAATGTG
1 AACAGAACTCATAGAAACAGCATGTTAATCGGTGATGGGAATGTG
5154245 TTAGAAATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.24
Consensus pattern (45 bp):
AACAGAACTCATAGAAACAGCATGTTAATCGGTGATGGGAATGTG
Found at i:5154845 original size:16 final size:16
Alignment explanation
Indices: 5154821--5154857 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
5154811 GAAACAGAGA
*
5154821 TGAAGTTTGACTTAGT
1 TGAACTTTGACTTAGT
5154837 TGAACTTTGACTTAGT
1 TGAACTTTGACTTAGT
5154853 TGAAC
1 TGAAC
5154858 CTAATGCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (16 bp):
TGAACTTTGACTTAGT
Found at i:5156333 original size:13 final size:13
Alignment explanation
Indices: 5156315--5156348 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
5156305 TACCTGCCTA
5156315 TGTAATTGTAAAT
1 TGTAATTGTAAAT
5156328 TGTAATTGT-AAT
1 TGTAATTGTAAAT
5156340 TGT-ATTGTA
1 TGTAATTGTA
5156349 GCTATCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (13 bp):
TGTAATTGTAAAT
Found at i:5156334 original size:6 final size:6
Alignment explanation
Indices: 5156315--5156348 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
5156305 TACCTGCCTA
5156315 TGTAAT TGTAAAT TGTAAT TGTAAT TGT-AT TGTA
1 TGTAAT TGT-AAT TGTAAT TGTAAT TGTAAT TGTA
5156349 GCTATCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
TGTAAT
Found at i:5161656 original size:20 final size:20
Alignment explanation
Indices: 5161631--5161670 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5161621 AGAGTTTATC
5161631 TCTTTGTAAATCTTGAAGAT
1 TCTTTGTAAATCTTGAAGAT
5161651 TCTTTGTAAATCTTGAAGAT
1 TCTTTGTAAATCTTGAAGAT
5161671 GTGTAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TCTTTGTAAATCTTGAAGAT
Found at i:5173620 original size:17 final size:17
Alignment explanation
Indices: 5173600--5173641 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
5173590 TTAGTTCACA
* *
5173600 TATCATTTAAGTTTATG
1 TATCATATAAGATTATG
*
5173617 TATCGTATAAGATTATG
1 TATCATATAAGATTATG
5173634 TATCATAT
1 TATCATAT
5173642 CCTATTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (17 bp):
TATCATATAAGATTATG
Found at i:5178772 original size:155 final size:155
Alignment explanation
Indices: 5178490--5178797 Score: 492
Period size: 155 Copynumber: 2.0 Consensus size: 155
5178480 ATGTCCAGAC
* * *
5178490 ACATATCACAAACCGCAGAGGCAAAAAATACAAGTGCTGACCTTATGGCCAAGGTTTGATTTCAT
1 ACATATCACAAACCGCAAAGGCAAAAAATACAAGTGCTGACCTTATGACCAAGGCTTGATTTCAT
* *
5178555 GCTTTCATCATCACCTTTGCACTCATCGATATCATCATCATCATGCACCTTAGCATGTTAAAGTG
66 GCTTTCATCATCACCTTTGCACTCATCAATATCATCATCATCATGCACCTTAGCATGTTAAAGGG
* *
5178620 CAAAATTAGTATAAAGTATAAACCG
131 AAAAATTAATATAAAGTATAAACCG
* * *
5178645 ACATATCATAAACTGCAAAGGGAAAAAATAC-AGTTGCTGACCTTATGACCAAGGCTTGATTTCA
1 ACATATCACAAACCGCAAAGGCAAAAAATACAAG-TGCTGACCTTATGACCAAGGCTTGATTTCA
* *
5178709 TGCTTTCATCATCATCTTTGCACTCATCAATATCATCATCATCATGCATCTTAGCATGTTAAAGG
65 TGCTTTCATCATCACCTTTGCACTCATCAATATCATCATCATCATGCACCTTAGCATGTTAAAGG
5178774 GAAAAATTAATATAAAGTATAAAC
130 GAAAAATTAATATAAAGTATAAAC
5178798 TGAGTTATTG
Statistics
Matches: 140, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 2 0.01
155 138 0.99
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (155 bp):
ACATATCACAAACCGCAAAGGCAAAAAATACAAGTGCTGACCTTATGACCAAGGCTTGATTTCAT
GCTTTCATCATCACCTTTGCACTCATCAATATCATCATCATCATGCACCTTAGCATGTTAAAGGG
AAAAATTAATATAAAGTATAAACCG
Found at i:5185244 original size:2 final size:2
Alignment explanation
Indices: 5185237--5185262 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5185227 TGTAAATAAC
5185237 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5185263 TGAAATCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5185651 original size:18 final size:17
Alignment explanation
Indices: 5185616--5185668 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
5185606 CTCTTTATTG
5185616 ATTTAAAAAAAATAAAA
1 ATTTAAAAAAAATAAAA
*
5185633 ATTTAAAGAAAAAAGAAAA
1 ATTT-AA-AAAAAATAAAA
**
5185652 AAATAAAAAAAATAAAA
1 ATTTAAAAAAAATAAAA
5185669 TGGAGGATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 4 0.13
19 12 0.40
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (17 bp):
ATTTAAAAAAAATAAAA
Found at i:5185658 original size:19 final size:18
Alignment explanation
Indices: 5185620--5185663 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
5185610 TTATTGATTT
* **
5185620 AAAAAAAATAAAAATTTA
1 AAAAAAAAGAAAAAAATA
5185638 AAGAAAAAAGAAAAAAATA
1 AA-AAAAAAGAAAAAAATA
5185657 AAAAAAA
1 AAAAAAA
5185664 TAAAATGGAG
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:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAATA
Found at i:5185736 original size:21 final size:22
Alignment explanation
Indices: 5185711--5185772 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
5185701 AAATTCTAAA
*
5185711 ATATTAATATCT-AAAAAATCC
1 ATATTAATATATAAAAAAATCC
* *
5185732 ATATTTATTTATAAAAAAATCC
1 ATATTAATATATAAAAAAATCC
* *
5185754 A-ATAAAATAAATAAAAAAA
1 ATAT-TAATATATAAAAAAA
5185773 AAAGTCTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 11 0.34
22 21 0.66
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (22 bp):
ATATTAATATATAAAAAAATCC
Found at i:5187952 original size:14 final size:14
Alignment explanation
Indices: 5187933--5187964 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5187923 AAATATTAGT
5187933 TTTAATAAAATTTA
1 TTTAATAAAATTTA
*
5187947 TTTAATAAAATTTT
1 TTTAATAAAATTTA
5187961 TTTA
1 TTTA
5187965 TAATCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATAAAATTTA
Found at i:5201357 original size:29 final size:29
Alignment explanation
Indices: 5201308--5201369 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
5201298 AAAAATAATT
5201308 TTTTTAATATTATATAATTTTTTAAAAATA
1 TTTTTAATATTATATAATTTTTT-AAAATA
* *
5201338 TTTTTATTATTTTAT-ATTTTTTAAAATA
1 TTTTTAATATTATATAATTTTTTAAAATA
5201366 TTTT
1 TTTT
5201370 ACACTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.33
29 7 0.23
30 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTTAATATTATATAATTTTTTAAAATA
Found at i:5201991 original size:26 final size:27
Alignment explanation
Indices: 5201950--5202009 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
5201940 TTTTAATTTT
5201950 TTTAT-ATTTTATTTTTCAAACCAAAA
1 TTTATAATTTTATTTTTCAAACCAAAA
* * *
5201976 TTTATAATTTTATTTTTTAAACCTAAG
1 TTTATAATTTTATTTTTCAAACCAAAA
5202003 TTTATAA
1 TTTATAA
5202010 GTATTTCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTATAATTTTATTTTTCAAACCAAAA
Found at i:5202105 original size:14 final size:14
Alignment explanation
Indices: 5202083--5202122 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
5202073 CCATGGTTAA
5202083 TTTTT-TTTTTATC
1 TTTTTATTTTTATC
5202096 TTTTTATTTTTATC
1 TTTTTATTTTTATC
**
5202110 TTGATATTTTTAT
1 TTTTTATTTTTAT
5202123 TAAAAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTATC
Found at i:5204757 original size:3 final size:3
Alignment explanation
Indices: 5204749--5204811 Score: 117
Period size: 3 Copynumber: 20.7 Consensus size: 3
5204739 TAGGCTCCAT
5204749 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
5204795 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
5204812 TTATTATTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5205201 original size:10 final size:10
Alignment explanation
Indices: 5205186--5205211 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
5205176 GGGTGAGTTT
5205186 TCTAGAAAAA
1 TCTAGAAAAA
5205196 TCTAGAAAAA
1 TCTAGAAAAA
5205206 TCTAGA
1 TCTAGA
5205212 TTTTTGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (10 bp):
TCTAGAAAAA
Found at i:5205558 original size:23 final size:23
Alignment explanation
Indices: 5205525--5205641 Score: 103
Period size: 23 Copynumber: 4.8 Consensus size: 23
5205515 AGATTGTAAG
*
5205525 TTTTTTT-TTTTATTTATTTACA
1 TTTTTTTATTTTATTTATTTAGA
5205547 TTTTTTTATTTTATTT-TTCTAGA
1 TTTTTTTATTTTATTTATT-TAGA
* *
5205570 TTTTTTTAATTTATTTGCTATTTATA
1 TTTTTTTATTTTA-TT--TATTTAGA
*
5205596 TTTTATTTATTTTATTCTTTTTAGA
1 TTTT-TTTATTTTATT-TATTTAGA
*
5205621 TTTTCTTTAATTTCATTTATT
1 TTTT-TTT-ATTTTATTTATT
5205642 ATCATTATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
22 9 0.12
23 23 0.29
24 2 0.03
25 17 0.22
26 17 0.22
27 10 0.13
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTTTTTATTTTATTTATTTAGA
Found at i:5205968 original size:14 final size:15
Alignment explanation
Indices: 5205943--5205971 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5205933 ATATATTTTC
5205943 TAAAAAATAATCTTA
1 TAAAAAATAATCTTA
5205958 TAAAAAA-AATCTTA
1 TAAAAAATAATCTTA
5205972 CCAAACTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAATAATCTTA
Found at i:5211481 original size:12 final size:11
Alignment explanation
Indices: 5211464--5211496 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
5211454 CAGATATGCT
5211464 AAAAAAATAAGA
1 AAAAAAATAA-A
5211476 AAAAAAAT-AA
1 AAAAAAATAAA
5211486 AAAAAAATAAA
1 AAAAAAATAAA
5211497 CTTGATCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 3 0.15
12 8 0.40
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:5216495 original size:67 final size:67
Alignment explanation
Indices: 5216398--5216972 Score: 372
Period size: 66 Copynumber: 8.7 Consensus size: 67
5216388 TTACATATTT
* * ** * * *
5216398 AATTTTTGATCTTGGCTCAAACCAGATCATTTTATTTTTTTGACTCACGGTTCGATCTCGGTCAC
1 AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGATCAC
5216463 TC
66 TC
* ** ** *
5216465 AATTTTTAATCTAGATTCAGTCCAAATCATTTTATTTTTTTGACTCGTGGCTCGATCTCGTTCAC
1 AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGATCAC
*
5216530 TT
66 TC
* * * * * ** *
5216532 AATGTTTGATCTCGACTCAGTCTAGATCATTTTA-TTTTTTGACTTGCGACTC-ATCTC-AGTCA
1 AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGA-TCA
5216594 CTC
65 CTC
* * * * * * *
5216597 AATGTTTGATCTCAGCTC-GATCCAGATTATTTTATTTTTTTGACTTACGGCTC-ATC-CTACTC
1 AATTTTTAATCTCGGCTCAG-TCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGA-TC
5216659 ACTC
64 ACTC
* * * * * * *
5216663 AATTTTTAATATC-GCTCGGTCTAAATTATTTTA-TTTTTT-ACTCA--GTTCGATCTTGGTCAC
1 AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGATCAC
5216723 TC
66 TC
* * * * *
5216725 AATTTTTAAT-TATGGCTC-GATCCAAATCATTTTATTTTTTT-ACTCACGACTCAATTTTGATC
1 AATTTTTAATCT-CGGCTCAG-TCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGATC
*
5216787 ACTT
64 ACTC
* * * * * * * * * *
5216791 AATGTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGACT-AGCAGTTTGATCCCAATCA
1 AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCA-CGGCTCGATCTCGATCA
5216855 CTC
65 CTC
* * ** * * * * *
5216858 AATTTTTTATCTCGGCTCGGTTTAGATCATTTTATTTTTTTAACTCGCGACT-TATCTCGATCAC
1 AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGATCAC
*
5216922 TT
66 TC
* * * * * *
5216924 AATTTTTTATCTCGGTTCAATCCAAATTATTTTATTTGTCTGACTCACG
1 AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCACG
5216973 ATTTGATCCC
Statistics
Matches: 400, Mismatches: 90, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
61 4 0.01
62 20 0.05
63 20 0.05
64 18 0.05
65 55 0.14
66 145 0.36
67 138 0.34
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (67 bp):
AATTTTTAATCTCGGCTCAGTCCAAATCATTTTATTTTTTTGACTCACGGCTCGATCTCGATCAC
TC
Found at i:5216664 original size:66 final size:66
Alignment explanation
Indices: 5216419--5216903 Score: 261
Period size: 67 Copynumber: 7.4 Consensus size: 66
5216409 TTGGCTCAAA
* * *
5216419 CCAGATCATTTTATTTTTTTGACTCACGGTTCGATCT-CGGTCACTCAATTTTTAATCT-AGATT
1 CCAGATCATTTTATTTTTTTGACTCACGGCTCGATCTAC--TCACTCAATGTTTAATCTCAG-CT
5216482 C-AGT
63 CGA-T
* ** * *
5216486 CCAAATCATTTTATTTTTTTGACTCGTGGCTCGATCT-CGTTCACTTAATGTTTGATCTC-GACT
1 CCAGATCATTTTATTTTTTTGACTCACGGCTCGATCTAC--TCACTCAATGTTTAATCTCAG-CT
5216549 C-AGT
63 CGA-T
* ** * * *
5216553 CTAGATCATTTTA-TTTTTTGACTTGCGACTC-ATCTCAGTCACTCAATGTTTGATCTCAGCTCG
1 CCAGATCATTTTATTTTTTTGACTCACGGCTCGATCT-ACTCACTCAATGTTTAATCTCAGCTCG
5216616 AT
65 AT
* * * *
5216618 CCAGATTATTTTATTTTTTTGACTTACGGCTC-ATCCTACTCACTCAATTTTTAATATC-GCTCG
1 CCAGATCATTTTATTTTTTTGACTCACGGCTCGAT-CTACTCACTCAATGTTTAATCTCAGCTCG
*
5216681 GT
65 AT
* * * * ** *
5216683 CTAAATTATTTTA-TTTTTT-ACTCA--GTTCGATCTTGGTCACTCAATTTTTAAT-T-ATGGCT
1 CCAGATCATTTTATTTTTTTGACTCACGGCTCGATC-TACTCACTCAATGTTTAATCTCA--GCT
5216742 CGAT
63 CGAT
* * * * * * *
5216746 CCAAATCATTTTATTTTTTT-ACTCACGACTCAATTTTGA-TCACTTAATGTTTGATCTCGGCTC
1 CCAGATCATTTTATTTTTTTGACTCACGGCTCGA-TCT-ACTCACTCAATGTTTAATCTCAGCTC
*
5216809 AAT
64 GAT
* * * * * * * * *
5216812 CTAGATCATTTTATTTTTTTGACT-AGCAGTTTGATCCCAATCACTCAATTTTTTATCTCGGCTC
1 CCAGATCATTTTATTTTTTTGACTCA-CGGCTCGAT-CTACTCACTCAATGTTTAATCTCAGCTC
*
5216876 GGT
64 GAT
** *
5216879 TTAGATCATTTTATTTTTTTAACTC
1 CCAGATCATTTTATTTTTTTGACTC
5216904 GCGACTTATC
Statistics
Matches: 334, Mismatches: 60, Indels: 47
0.76 0.14 0.11
Matches are distributed among these distances:
61 5 0.01
62 19 0.06
63 21 0.06
64 17 0.05
65 54 0.16
66 96 0.29
67 122 0.37
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (66 bp):
CCAGATCATTTTATTTTTTTGACTCACGGCTCGATCTACTCACTCAATGTTTAATCTCAGCTCGA
T
Found at i:5216876 original size:133 final size:131
Alignment explanation
Indices: 5216396--5217033 Score: 499
Period size: 133 Copynumber: 4.9 Consensus size: 131
5216386 AATTACATAT
* * * * *
5216396 TTAATTTTTGATCTTGGCTCAAACCAGATCATTTTATTTTTTTGACTCACGGTTCGATCTCGGTC
1 TTAATTTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGACTCA--GTTTGATCTCAGTC
* ** * ** *
5216461 ACTCAATTTTTAATCTAGATTC-AGTCCAAATCATTTTATTTTTTTGACTCGTGGCTCGATCTCG
64 ACTCAATTTTTAATCTCGGCTCGA-TCCAGATCATTTTATTTTTTTGACTCACGACTC-ATCTCG
*
5216525 TTCAC
127 ATCAC
* * * ** *
5216530 TTAATGTTTGATCTCGACTCAGTCTAGATCATTTTA-TTTTTTGACTTGC-GACTCATCTCAGTC
1 TTAATTTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGAC-T-CAGTTTGATCTCAGTC
* * * * * * *
5216593 ACTCAATGTTTGATCTCAGCTCGATCCAGATTATTTTATTTTTTTGACTTACGGCTCATC-CTAC
64 ACTCAATTTTTAATCTCGGCTCGATCCAGATCATTTTATTTTTTTGACTCACGACTCATCTCGA-
5216657 TCAC
128 TCAC
* * * ** * * * **
5216661 TCAATTTTTAATATC-GCTCGGTCTAAATTATTTTA-TTTTTT-ACTCAGTTCGATCTTGGTCAC
1 TTAATTTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGACTCAGTTTGATCTCAGTCAC
* * * *
5216723 TCAATTTTTAAT-TATGGCTCGATCCAAATCATTTTATTTTTTT-ACTCACGACTCAATTTTGAT
66 TCAATTTTTAATCT-CGGCTCGATCCAGATCATTTTATTTTTTTGACTCACGACTC-ATCTCGAT
5216786 CAC
129 CAC
* * *
5216789 TTAATGTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGACTAGCAGTTTGATCCCAATC
1 TTAATTTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGACT--CAGTTTGATCTCAGTC
* * ** * * *
5216854 ACTCAATTTTTTATCTCGGCTCGGTTTAGATCATTTTATTTTTTTAACTCGCGACTTATCTCGAT
64 ACTCAATTTTTAATCTCGGCTCGATCCAGATCATTTTATTTTTTTGACTCACGACTCATCTCGAT
5216919 CAC
129 CAC
* * * * * * * *
5216922 TTAATTTTTTATCTCGGTTCAATCCAAATTATTTTATTTGTCTGACTCACGATTTGATCCCAGTC
1 TTAATTTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGACTCA-G-TTTGATCTCAGTC
* * * * * *
5216987 TCT-TA-TTTTGATTTTGGCTCTATCCAGATCATTTTA-TTTTTTGACTC
64 ACTCAATTTTTAATCTCGGCTCGATCCAGATCATTTTATTTTTTTGACTC
5217034 GCAATTCGAT
Statistics
Matches: 396, Mismatches: 91, Indels: 38
0.75 0.17 0.07
Matches are distributed among these distances:
127 11 0.03
128 63 0.16
129 19 0.05
130 39 0.10
131 47 0.12
132 55 0.14
133 120 0.30
134 41 0.10
135 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (131 bp):
TTAATTTTTGATCTCGGCTCAATCTAGATCATTTTATTTTTTTGACTCAGTTTGATCTCAGTCAC
TCAATTTTTAATCTCGGCTCGATCCAGATCATTTTATTTTTTTGACTCACGACTCATCTCGATCA
C
Found at i:5217366 original size:3 final size:3
Alignment explanation
Indices: 5217358--5217417 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
5217348 AGGCTTAATC
5217358 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5217406 ATT ATT ATT ATT
1 ATT ATT ATT ATT
5217418 GATTTTGTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5218101 original size:11 final size:11
Alignment explanation
Indices: 5218087--5218179 Score: 82
Period size: 11 Copynumber: 8.3 Consensus size: 11
5218077 CCAATCGTAG
5218087 TTTT-TTTATT
1 TTTTATTTATT
*
5218097 TTTTTTTTATT
1 TTTTATTTATT
* *
5218108 TTCTATTTACAT
1 TTTTATTTA-TT
5218120 TTTTATTTATT
1 TTTTATTTATT
*
5218131 TTTT-TGTAGATT
1 TTTTAT-T-TATT
5218143 TTCTTATTTATT
1 TT-TTATTTATT
* *
5218155 TTCTATTTATA
1 TTTTATTTATT
5218166 TTTTATTTATT
1 TTTTATTTATT
5218177 TTT
1 TTT
5218180 ATTCTTTTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.08
11 38 0.58
12 19 0.29
13 3 0.05
14 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:5218114 original size:7 final size:6
Alignment explanation
Indices: 5218089--5218182 Score: 52
Period size: 6 Copynumber: 15.3 Consensus size: 6
5218079 AATCGTAGTT
** *
5218089 TTTTTA TTTTT- TTTTTA TTTTCTA TTTACA TTTTTA TTTATTT TTTTGTA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTT-TTA TTTT-TA
* * *
5218139 GATTTTC TTATTTA TTTTCTA TTTATA -TTTTA --TTTA TTTTTA TT
1 -TTTTTA TT-TTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TT
5218183 CTTTTTAGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
4 4 0.06
5 9 0.13
6 29 0.43
7 22 0.33
8 3 0.04
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:5218144 original size:35 final size:33
Alignment explanation
Indices: 5218087--5218174 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 33
5218077 CCAATCGTAG
**
5218087 TTTT-TTTATTTTTTTTTTATTTTC-TATTTACAT
1 TTTTATTTATTTTTTTTAGATTTTCTTATTT--AT
5218120 TTTTATTTATTTTTTTGTAGATTTTCTTATTTAT
1 TTTTATTTATTTTTTT-TAGATTTTCTTATTTAT
5218154 TTTCTATTTATATTTTATTTA
1 TTT-TATTTAT-TTTT-TTTA
5218175 TTTTTATTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
33 4 0.09
34 16 0.34
35 14 0.30
36 11 0.23
37 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (33 bp):
TTTTATTTATTTTTTTTAGATTTTCTTATTTAT
Found at i:5218184 original size:26 final size:26
Alignment explanation
Indices: 5218094--5218209 Score: 88
Period size: 26 Copynumber: 4.7 Consensus size: 26
5218084 TAGTTTTTTT
*
5218094 ATTTT-TTT-TTTATTTTCTATTTAC
1 ATTTTATTTATTTATTTTCTATTTAG
5218118 A--TT-TTTATTTATTTT-T-TTGTAG
1 ATTTTATTTATTTATTTTCTATT-TAG
* *
5218140 ATTTT-CTTATTTATTTTCTATTTAT
1 ATTTTATTTATTTATTTTCTATTTAG
*
5218165 ATTTTATTTATTT-TTATTCTTTTTAG
1 ATTTTATTTATTTATT-TTCTATTTAG
*
5218191 ATTTTCTTTAATTTCATTT
1 ATTTTATTT-ATTT-ATTT
5218210 ATTATCATTA
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.03
22 9 0.12
23 8 0.11
24 14 0.19
25 10 0.14
26 24 0.32
27 4 0.05
28 1 0.01
29 2 0.03
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (26 bp):
ATTTTATTTATTTATTTTCTATTTAG
Found at i:5218290 original size:14 final size:13
Alignment explanation
Indices: 5218266--5218297 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
5218256 TGAATTTTTT
5218266 TAAAAAATAATAA
1 TAAAAAATAATAA
5218279 TAAAATAATAATAA
1 TAAAA-AATAATAA
5218293 TAAAA
1 TAAAA
5218298 GTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAAAAATAATAA
Found at i:5218537 original size:15 final size:16
Alignment explanation
Indices: 5218508--5218540 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5218498 TGAAATATTT
*
5218508 AATATATTTTCTAAAA
1 AATATATTTTATAAAA
5218524 AATA-ATTTTATAAAA
1 AATATATTTTATAAAA
5218539 AA
1 AA
5218541 ATCTCACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATATTTTATAAAA
Found at i:5219055 original size:67 final size:67
Alignment explanation
Indices: 5218984--5219115 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
5218974 CCTAAATAAT
* *
5218984 AAAAAATTAGTGATGACTCATTTAATACATATCTAACAGTAAATCTACAAATCTATATTTTATGA
1 AAAAAATTAATGATGACTCATTTAATACATATCTAACAATAAATCTACAAATCTATATTTTATGA
5219049 TA
66 TA
* * * * *
5219051 AAAAAATTAATGATGATTCTTTTAATACATATTTAATAATAAATCTACAAATTTATATTTTATGA
1 AAAAAATTAATGATGACTCATTTAATACATATCTAACAATAAATCTACAAATCTATATTTTATGA
5219116 CATTACCCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (67 bp):
AAAAAATTAATGATGACTCATTTAATACATATCTAACAATAAATCTACAAATCTATATTTTATGA
TA
Found at i:5232861 original size:50 final size:50
Alignment explanation
Indices: 5232784--5232883 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
5232774 TATAAGCATA
* *
5232784 CAAACTTACCTATTAAAAATATTTTTTCTCTTAAATTTTTTTTTGTAAGT
1 CAAACTTACATATTAAAAATATATTTTCTCTTAAATTTTTTTTTGTAAGT
* * *
5232834 CAAACTTACATTTTAAGAATCTATTTTCTCTTAAATTTTTTTTTGTAAGT
1 CAAACTTACATATTAAAAATATATTTTCTCTTAAATTTTTTTTTGTAAGT
5232884 TTTCTTATCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (50 bp):
CAAACTTACATATTAAAAATATATTTTCTCTTAAATTTTTTTTTGTAAGT
Found at i:5237141 original size:3 final size:3
Alignment explanation
Indices: 5237133--5237182 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
5237123 TTTGTAACAT
5237133 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5237181 TT
1 TT
5237183 TACTTAGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5237491 original size:14 final size:14
Alignment explanation
Indices: 5237474--5237500 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5237464 CTTTCGTAAT
5237474 TTTTTATATTTATA
1 TTTTTATATTTATA
5237488 TTTTTATATTTAT
1 TTTTTATATTTAT
5237501 CCTATTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATATTTATA
Found at i:5237808 original size:16 final size:16
Alignment explanation
Indices: 5237789--5237819 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5237779 TTTTAATTTA
*
5237789 AATATTTTATTTTATG
1 AATATTTTATATTATG
5237805 AATATTTTATATTAT
1 AATATTTTATATTAT
5237820 AACAAGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
AATATTTTATATTATG
Found at i:5238412 original size:46 final size:45
Alignment explanation
Indices: 5238344--5238446 Score: 143
Period size: 46 Copynumber: 2.2 Consensus size: 45
5238334 CTTTTTTTTC
*
5238344 TTCTTAAAAAACAATATCGAATCTCTTATATTGGCCTTTAAAATCTT
1 TTCTT-AAAAACAATATCGAATCTCTTAGATTGGCCTTTAAAAT-TT
* *
5238391 TTCTTAAAAACAATCTTGAATCTCTTAGATTGGCCTTTAAAATTT
1 TTCTTAAAAACAATATCGAATCTCTTAGATTGGCCTTTAAAATTT
**
5238436 TTAGTAAAAAC
1 TTCTTAAAAAC
5238447 TTTTTTATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 11 0.22
46 35 0.69
47 5 0.10
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.40
Consensus pattern (45 bp):
TTCTTAAAAACAATATCGAATCTCTTAGATTGGCCTTTAAAATTT
Found at i:5239003 original size:3 final size:3
Alignment explanation
Indices: 5238989--5239028 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
5238979 AAAAAATATA
* * *
5238989 ATG ATA ATG ATG ATG ATA ATG ATG ATG ATG ATG ACG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
5239029 GGATAATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:5239006 original size:12 final size:12
Alignment explanation
Indices: 5238989--5239028 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
5238979 AAAAAATATA
5238989 ATGATAATGATG
1 ATGATAATGATG
5239001 ATGATAATGATG
1 ATGATAATGATG
* *
5239013 ATGATGATGACG
1 ATGATAATGATG
5239025 ATGA
1 ATGA
5239029 GGATAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.30
Consensus pattern (12 bp):
ATGATAATGATG
Found at i:5240790 original size:2 final size:2
Alignment explanation
Indices: 5240783--5240814 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5240773 GTTTTTAGTC
5240783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5240815 AACAAACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5240855 original size:18 final size:18
Alignment explanation
Indices: 5240828--5240876 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
5240818 AAACAAGATC
*
5240828 AATGAGATAAACTAAGACA
1 AATGAGATAAA-TAAAACA
5240847 AATGA-ATAAATAAAACA
1 AATGAGATAAATAAAACA
5240864 AA--A-ATAAATAAAA
1 AATGAGATAAATAAAA
5240877 TTAAGATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.38
17 8 0.28
18 5 0.17
19 5 0.17
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.16
Consensus pattern (18 bp):
AATGAGATAAATAAAACA
Found at i:5241959 original size:20 final size:20
Alignment explanation
Indices: 5241936--5241977 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
5241926 AAGCTTTACG
5241936 AATTAAATTTTAATTTTAGT
1 AATTAAATTTTAATTTTAGT
5241956 AATTAAATTTTAATTTTAGT
1 AATTAAATTTTAATTTTAGT
5241976 AA
1 AA
5241978 AATTATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
AATTAAATTTTAATTTTAGT
Found at i:5244812 original size:154 final size:154
Alignment explanation
Indices: 5244532--5244843 Score: 624
Period size: 154 Copynumber: 2.0 Consensus size: 154
5244522 CTCCAGGGCT
5244532 GGTTAGGATGTCCATTGGATACATTGGGACATTGGAACAGAAGTGGAGCCAATTAGAAAAGGCAC
1 GGTTAGGATGTCCATTGGATACATTGGGACATTGGAACAGAAGTGGAGCCAATTAGAAAAGGCAC
5244597 TCTTCAGGATGCAGGATTCTACCTTATTCAGTAACACCTAAAAGTTCTCTAGTTTTCAATAATGG
66 TCTTCAGGATGCAGGATTCTACCTTATTCAGTAACACCTAAAAGTTCTCTAGTTTTCAATAATGG
5244662 GTTGCTCGTAGTTCATATAAAAAA
131 GTTGCTCGTAGTTCATATAAAAAA
5244686 GGTTAGGATGTCCATTGGATACATTGGGACATTGGAACAGAAGTGGAGCCAATTAGAAAAGGCAC
1 GGTTAGGATGTCCATTGGATACATTGGGACATTGGAACAGAAGTGGAGCCAATTAGAAAAGGCAC
5244751 TCTTCAGGATGCAGGATTCTACCTTATTCAGTAACACCTAAAAGTTCTCTAGTTTTCAATAATGG
66 TCTTCAGGATGCAGGATTCTACCTTATTCAGTAACACCTAAAAGTTCTCTAGTTTTCAATAATGG
5244816 GTTGCTCGTAGTTCATATAAAAAA
131 GTTGCTCGTAGTTCATATAAAAAA
5244840 GGTT
1 GGTT
5244844 TCGTTTGTGT
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 158 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (154 bp):
GGTTAGGATGTCCATTGGATACATTGGGACATTGGAACAGAAGTGGAGCCAATTAGAAAAGGCAC
TCTTCAGGATGCAGGATTCTACCTTATTCAGTAACACCTAAAAGTTCTCTAGTTTTCAATAATGG
GTTGCTCGTAGTTCATATAAAAAA
Found at i:5250667 original size:10 final size:10
Alignment explanation
Indices: 5250652--5250676 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5250642 GAAGTCCTTG
5250652 GAAAAGCTAA
1 GAAAAGCTAA
5250662 GAAAAGCTAA
1 GAAAAGCTAA
5250672 GAAAA
1 GAAAA
5250677 TGTATAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (10 bp):
GAAAAGCTAA
Found at i:5252312 original size:116 final size:116
Alignment explanation
Indices: 5252103--5252313 Score: 334
Period size: 116 Copynumber: 1.8 Consensus size: 116
5252093 TAGGCCATAT
*
5252103 CCATAGCCAAGTAGCAAAATATGTGATATTAGCTGCCATCTTTTTCGATCAATAGCTATCAAATT
1 CCATAGCCAAGTAGCAAAATATGTGATATTAGCTGCCATCTCTTTCGATCAATAGCTATCAAATT
*
5252168 AATAATATCATAGCCTGCTAGCTAGTACGTGCTATATGCTACATGAGCCAG
66 AATAATATCATAGCCTCCTAGCTAGTACGTGCTATATGCTACATGAGCCAG
* * * **
5252219 CCATTGCCAAGTCGGAAAATATGTGATATTAG-TCGCCATCTCTTTCGATCAATAGCTATTTAAT
1 CCATAGCCAAGTAGCAAAATATGTGATATTAGCT-GCCATCTCTTTCGATCAATAGCTATCAAAT
*
5252283 TAATAATATGATAGCCTCCTAGCTAGTACGT
65 TAATAATATCATAGCCTCCTAGCTAGTACGT
5252314 ACTACTGCAT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 1 0.01
116 85 0.99
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (116 bp):
CCATAGCCAAGTAGCAAAATATGTGATATTAGCTGCCATCTCTTTCGATCAATAGCTATCAAATT
AATAATATCATAGCCTCCTAGCTAGTACGTGCTATATGCTACATGAGCCAG
Found at i:5258465 original size:303 final size:303
Alignment explanation
Indices: 5257738--5258648 Score: 1635
Period size: 303 Copynumber: 3.0 Consensus size: 303
5257728 ATAAGTGATT
5257738 TCAATAAAAATGATAGTCAACGAAAATAGATAATTCATGTGTTTTATCGATTTTAGAGAATATAA
1 TCAATAAAAATGATAGTCAACGAAAATAGATAATTCATGTGTTTTATCGATTTTAGAGAATATAA
*
5257803 AATATTTATGTTTTGTTTGCAAAATTTAAAATTACTTAATGAATTTTGTTACTATATTATAATTT
66 AATTTTTATGTTTTGTTTGCAAAATTTAAAATTACTTAATGAATTTTGTTACTATATTATAATTT
* *
5257868 ATGATACATAAATAAAATGTACACTACAGGTGTTTTGATTTTTAATGACGTTTTTTTTACCGTTT
131 ATGATACATAAATAAAATGTACACTACAGGTGTTTTGGTTTTTAGTGACGTTTTTTTTACCGTTT
* * *
5257933 AGCGACGTTTATTAACGCCACTTAAGATTTACGACGTTTGCAAAAAACGCCACACAGAATACCGC
196 AGCGACGTTTATTAACGCCACTTAAGGTTTATGACGTTTGCAAAAAACGCCACACAGAGTACCGC
*
5257998 TTATACACGCATCGCGATAAATAGTGACG-TTTTGAAAAAACG
261 CTATACACGCATCGCGATAAATAGTGACGTTTTTGAAAAAACG
*
5258040 TCAATAAAAATGATAGTCAACTAAAATAGATAATTCATGTGTTTTATCGATTTTAGAGAATATAA
1 TCAATAAAAATGATAGTCAACGAAAATAGATAATTCATGTGTTTTATCGATTTTAGAGAATATAA
5258105 AATTTTTATGTTTTGTTTGCAAAATTTAAAATTACTTAATGAATTTTGTTACTATATTATAATTT
66 AATTTTTATGTTTTGTTTGCAAAATTTAAAATTACTTAATGAATTTTGTTACTATATTATAATTT
5258170 ATGATACATAAATAAAATGTACACTACAGGTGTTTTGGTTTTTAGTGACGTTTTTTTTACCGTTT
131 ATGATACATAAATAAAATGTACACTACAGGTGTTTTGGTTTTTAGTGACGTTTTTTTTACCGTTT
* * *
5258235 AGCGACGTTTATTAACGCCACTTAAGGTTTATGATGTTTGCAAAAAATGCCACACATAGTACCGC
196 AGCGACGTTTATTAACGCCACTTAAGGTTTATGACGTTTGCAAAAAACGCCACACAGAGTACCGC
*
5258300 CTATACACGCATCGTGATAAATAGTGACGTTTTTGAAAAAACG
261 CTATACACGCATCGCGATAAATAGTGACGTTTTTGAAAAAACG
5258343 TCAATAAAAATGATAGTCAACGAAAATAGATAATTCATGTGTTTTATCGATTTTAGAGAATATAA
1 TCAATAAAAATGATAGTCAACGAAAATAGATAATTCATGTGTTTTATCGATTTTAGAGAATATAA
*
5258408 AATTTTTATGTTTTGTTTTCAAAATTTAAAATTACTTAATGAATTTTGTTACTATATTATAATTT
66 AATTTTTATGTTTTGTTTGCAAAATTTAAAATTACTTAATGAATTTTGTTACTATATTATAATTT
* *
5258473 ATGATACATAAATAAAATGTACACTACAGGTGTTTTGGTTTTTAGTAATGTTTTTTTTACCGTTT
131 ATGATACATAAATAAAATGTACACTACAGGTGTTTTGGTTTTTAGTGACGTTTTTTTTACCGTTT
* * * *
5258538 AGCGACGTTTATTAACGCCACTTAAGGTTTATGACATTTGTAAAAAACACCACACAGAGTACTGC
196 AGCGACGTTTATTAACGCCACTTAAGGTTTATGACGTTTGCAAAAAACGCCACACAGAGTACCGC
5258603 CTATACACGCATCGCGATAAATAGTGACGTTTTTGAAAAAAACG
261 CTATACACGCATCGCGATAAATAGTGACGTTTTTG-AAAAAACG
5258647 TC
1 TC
5258649 TCAATATTAG
Statistics
Matches: 583, Mismatches: 24, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
302 277 0.48
303 296 0.51
304 10 0.02
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (303 bp):
TCAATAAAAATGATAGTCAACGAAAATAGATAATTCATGTGTTTTATCGATTTTAGAGAATATAA
AATTTTTATGTTTTGTTTGCAAAATTTAAAATTACTTAATGAATTTTGTTACTATATTATAATTT
ATGATACATAAATAAAATGTACACTACAGGTGTTTTGGTTTTTAGTGACGTTTTTTTTACCGTTT
AGCGACGTTTATTAACGCCACTTAAGGTTTATGACGTTTGCAAAAAACGCCACACAGAGTACCGC
CTATACACGCATCGCGATAAATAGTGACGTTTTTGAAAAAACG
Done.