Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 85 of 125
Found at i:26279309 original size:12 final size:12
Alignment explanation
Indices: 26279294--26279323 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26279284 GGAGACTGAT
*
26279294 GAAGAGAAAGAA
1 GAAGAAAAAGAA
26279306 GAAGAAAAAGAA
1 GAAGAAAAAGAA
26279318 GAAGAA
1 GAAGAA
26279324 CGAGAGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAGAA
Found at i:26288272 original size:23 final size:23
Alignment explanation
Indices: 26288246--26288290 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
26288236 AGTGAAAAGA
26288246 ACAAAAAGAAAATGAGT-AGAAAC
1 ACAAAAAGAAAAT-AGTAAGAAAC
26288269 ACAAAAAGAAAATAGTAAGAAA
1 ACAAAAAGAAAATAGTAAGAAA
26288291 AAGTGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.69, C:0.07, G:0.16, T:0.09
Consensus pattern (23 bp):
ACAAAAAGAAAATAGTAAGAAAC
Found at i:26291308 original size:15 final size:15
Alignment explanation
Indices: 26291286--26291321 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
26291276 ATTAGAAATT
26291286 TAAA-TGCAAGAAAA
1 TAAATTGCAAGAAAA
26291300 TAAATTGCAAGAAAA
1 TAAATTGCAAGAAAA
26291315 TAAATTG
1 TAAATTG
26291322 GTAAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (15 bp):
TAAATTGCAAGAAAA
Found at i:26296488 original size:23 final size:23
Alignment explanation
Indices: 26296453--26296507 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
26296443 CCATCCTTGT
* * *
26296453 TGACTAGACCTTCTGGAAGCTGC
1 TGACTGGATCTTCTAGAAGCTGC
*
26296476 TGACTGGATCTTCTAGAAGCTGT
1 TGACTGGATCTTCTAGAAGCTGC
26296499 TGACTGGAT
1 TGACTGGAT
26296508 GCCATGTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (23 bp):
TGACTGGATCTTCTAGAAGCTGC
Found at i:26306244 original size:17 final size:17
Alignment explanation
Indices: 26306213--26306258 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
26306203 AATTTTGTTA
* *
26306213 GTTTT-TTTAATTATTT
1 GTTTTATTTTATTATTC
26306229 GTTTTATTTTATTATTC
1 GTTTTATTTTATTATTC
26306246 G-TTTATTTTATTA
1 GTTTTATTTTATTA
26306259 ATTTTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.72
Consensus pattern (17 bp):
GTTTTATTTTATTATTC
Found at i:26307971 original size:16 final size:16
Alignment explanation
Indices: 26307950--26307985 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
26307940 AAGAATAGTG
*
26307950 TTTTTGAGACTTTTAA
1 TTTTTGAGACTTGTAA
26307966 TTTTTGAGACTTGTAA
1 TTTTTGAGACTTGTAA
26307982 TTTT
1 TTTT
26307986 GGGATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (16 bp):
TTTTTGAGACTTGTAA
Found at i:26317943 original size:12 final size:13
Alignment explanation
Indices: 26317914--26317941 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26317904 TTTATATATT
26317914 AAATATTTTTTAA
1 AAATATTTTTTAA
26317927 AAATATTTTTTAA
1 AAATATTTTTTAA
26317940 AA
1 AA
26317942 TAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:26320185 original size:41 final size:40
Alignment explanation
Indices: 26320137--26320237 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
26320127 TCGACCTCGA
** *
26320137 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
26320177 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
26320215 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
26320238 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:26322186 original size:6 final size:6
Alignment explanation
Indices: 26322175--26322214 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
26322165 CACCACTTTC
*
26322175 AGCCTG AGCCTG AGCCTG AGCCTG AGCCTG AGCCTT AGCC
1 AGCCTG AGCCTG AGCCTG AGCCTG AGCCTG AGCCTG AGCC
26322215 GCAGCACTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (6 bp):
AGCCTG
Found at i:26322652 original size:6 final size:6
Alignment explanation
Indices: 26322641--26322693 Score: 81
Period size: 6 Copynumber: 8.8 Consensus size: 6
26322631 GGCCATTAAA
*
26322641 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT
1 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT
26322689 TATGT
1 TATGT
26322694 ATGCAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 1 0.02
6 41 0.95
7 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:26322822 original size:26 final size:26
Alignment explanation
Indices: 26322766--26322842 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
26322756 TGCTAAACCT
*
26322766 AATTAAATAAATTCAAACATAAAAAT
1 AATTAAATAAATTCAAACATAAAAAG
* ** *
26322792 TATTAAATAAATTCAAATTTAAATAG
1 AATTAAATAAATTCAAACATAAAAAG
* *
26322818 AATTAATTCCAAATTCAATCATAAA
1 AATTAAAT--AAATTCAAACATAAA
26322843 CTTAATTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 27 0.69
28 12 0.31
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.32
Consensus pattern (26 bp):
AATTAAATAAATTCAAACATAAAAAG
Found at i:26323134 original size:15 final size:15
Alignment explanation
Indices: 26323114--26323148 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
26323104 CTTGTCAAAT
26323114 TTTAATTTTATTTAA
1 TTTAATTTTATTTAA
*
26323129 TTTAATTTTTTTTAA
1 TTTAATTTTATTTAA
26323144 TTTAA
1 TTTAA
26323149 AAATATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATTTTATTTAA
Found at i:26323225 original size:57 final size:56
Alignment explanation
Indices: 26323164--26323293 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 56
26323154 TATAAAAGTG
* *
26323164 TATTATTTTTATATTTAAAT-TTTTCTTATATTA-TTATTGTAAAAATCTGGAGATTAT
1 TATTATTTTAATATTTAAATATTTT-TTATATTATTTATT-TAAAAATATGGAG-TTAT
* ** *
26323221 TATTATTTTGATAAATAAATATTTTTTATATTATTTATTTAAAAATATTGAGTTAT
1 TATTATTTTAATATTTAAATATTTTTTATATTATTTATTTAAAAATATGGAGTTAT
*
26323277 TCTTA-TTTAATATTTAA
1 TATTATTTTAATATTTAA
26323294 TTTAATTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
55 9 0.15
56 8 0.13
57 36 0.58
58 9 0.15
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (56 bp):
TATTATTTTAATATTTAAATATTTTTTATATTATTTATTTAAAAATATGGAGTTAT
Found at i:26323432 original size:15 final size:14
Alignment explanation
Indices: 26323407--26323459 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
26323397 TTATTTAAGT
26323407 TATTAATTTTTTTTG
1 TATT-ATTTTTTTTG
**
26323422 TATTATATTTTGGTG
1 TATTAT-TTTTTTTG
26323437 TA-TATTTTTTTTG
1 TATTATTTTTTTTG
26323450 TATTAGTTTT
1 TATTA-TTTT
26323460 GTAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 8 0.26
14 7 0.23
15 16 0.52
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (14 bp):
TATTATTTTTTTTG
Found at i:26323517 original size:27 final size:27
Alignment explanation
Indices: 26323476--26323610 Score: 180
Period size: 27 Copynumber: 5.0 Consensus size: 27
26323466 AAAATACGAG
* * **
26323476 TTGGTGCCACTTGACAGAAAGGCACCA
1 TTGGTGCCGCCTGACAGGTAGGCACCA
26323503 TTGGTGCCGCCTGACAGGTAGGCACCA
1 TTGGTGCCGCCTGACAGGTAGGCACCA
* * *
26323530 CTGGTACCGCCTGTCAGGTAGGCACCA
1 TTGGTGCCGCCTGACAGGTAGGCACCA
26323557 TTGGTGCCGCCTGACAGGTAGGCACCA
1 TTGGTGCCGCCTGACAGGTAGGCACCA
* * *
26323584 CTGGTACCGCCTGTCAGGTAGGCACCA
1 TTGGTGCCGCCTGACAGGTAGGCACCA
26323611 CCCACTTATA
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.19
Consensus pattern (27 bp):
TTGGTGCCGCCTGACAGGTAGGCACCA
Found at i:26323577 original size:54 final size:54
Alignment explanation
Indices: 26323495--26323610 Score: 232
Period size: 54 Copynumber: 2.1 Consensus size: 54
26323485 CTTGACAGAA
26323495 AGGCACCATTGGTGCCGCCTGACAGGTAGGCACCACTGGTACCGCCTGTCAGGT
1 AGGCACCATTGGTGCCGCCTGACAGGTAGGCACCACTGGTACCGCCTGTCAGGT
26323549 AGGCACCATTGGTGCCGCCTGACAGGTAGGCACCACTGGTACCGCCTGTCAGGT
1 AGGCACCATTGGTGCCGCCTGACAGGTAGGCACCACTGGTACCGCCTGTCAGGT
26323603 AGGCACCA
1 AGGCACCA
26323611 CCCACTTATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (54 bp):
AGGCACCATTGGTGCCGCCTGACAGGTAGGCACCACTGGTACCGCCTGTCAGGT
Found at i:26324875 original size:3 final size:3
Alignment explanation
Indices: 26324867--26324899 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
26324857 GTTCTGGGTT
26324867 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
26324900 ACAAACCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:26325587 original size:37 final size:37
Alignment explanation
Indices: 26325537--26325631 Score: 127
Period size: 37 Copynumber: 2.6 Consensus size: 37
26325527 ACATCCAAAT
**
26325537 TTGCGCCCAAAACTGTCGTTGCACGAGCACTTCTAGA
1 TTGCGCCCAAAACTGTCGCCGCACGAGCACTTCTAGA
* * *
26325574 TTGCGCCCAAAACTGTCACCGCATGAGCACTTTTAGA
1 TTGCGCCCAAAACTGTCGCCGCACGAGCACTTCTAGA
* *
26325611 TTGCACCTAAAACTGTCGCCG
1 TTGCGCCCAAAACTGTCGCCG
26325632 TAGGAATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
TTGCGCCCAAAACTGTCGCCGCACGAGCACTTCTAGA
Found at i:26325770 original size:26 final size:26
Alignment explanation
Indices: 26325732--26325789 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
26325722 ATTACACCCA
26325732 AGAA-TGTCACTGCATGAACATGTCC
1 AGAATTGTCACTGCATGAACATGTCC
* *
26325757 AGAATTGTCGCTGCATGAACGTGTCC
1 AGAATTGTCACTGCATGAACATGTCC
26325783 AGAATTG
1 AGAATTG
26325790 CTCCCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (26 bp):
AGAATTGTCACTGCATGAACATGTCC
Found at i:26330112 original size:37 final size:37
Alignment explanation
Indices: 26330071--26330164 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 37
26330061 ACATCCAAAT
*
26330071 TTGCGCTCAAAACTATCACTGCATGAGCACTTCTAGA
1 TTGCGCTCAAAACTGTCACTGCATGAGCACTTCTAGA
*
26330108 TTGCGGTCCAAAACTGTCACTGCATGAGCACTTCTAGA
1 TTGCGCT-CAAAACTGTCACTGCATGAGCACTTCTAGA
* *
26330146 TTGCACCCAAAACTGTCAC
1 TTGCGCTCAAAACTGTCAC
26330165 CGCAGGAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 18 0.35
38 33 0.65
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (37 bp):
TTGCGCTCAAAACTGTCACTGCATGAGCACTTCTAGA
Found at i:26330281 original size:37 final size:38
Alignment explanation
Indices: 26330184--26330261 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
26330174 ATTTTCGGAA
* *
26330184 TGCACCCAAAACTGTCGCTGCATAAATATTCTTCAAAT
1 TGCATCCAGAACTGTCGCTGCATAAATATTCTTCAAAT
** *
26330222 TGCATCCAGAACCATCGCTGCATAAGTATTCTTC-AAT
1 TGCATCCAGAACTGTCGCTGCATAAATATTCTTCAAAT
26330259 TGC
1 TGC
26330262 TCCCAGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 6 0.17
38 29 0.83
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (38 bp):
TGCATCCAGAACTGTCGCTGCATAAATATTCTTCAAAT
Found at i:26330333 original size:26 final size:26
Alignment explanation
Indices: 26330279--26330333 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
26330269 AATGTCGTTG
* * *
26330279 CATGAACATGTCCAGAATTGTCGCTA
1 CATGAACATGTCCAGAATTGCCACCA
*
26330305 CATGAACGTGTCCAGAATTGCCACCA
1 CATGAACATGTCCAGAATTGCCACCA
26330331 CAT
1 CAT
26330334 CTGACAGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (26 bp):
CATGAACATGTCCAGAATTGCCACCA
Found at i:26331129 original size:16 final size:16
Alignment explanation
Indices: 26331108--26331138 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26331098 TTGTGGATCT
26331108 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
26331124 CATTTTATCTTTATT
1 CATTTTACCTTTATT
26331139 TTCACATTAT
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:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:26335573 original size:20 final size:21
Alignment explanation
Indices: 26335548--26335593 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
26335538 TTAGTATCAA
26335548 TAGAAG-CATGACTTGT-TCGG
1 TAGAAGTCAT-ACTTGTATCGG
*
26335568 TAGAAGTCATACTTGTATTGG
1 TAGAAGTCATACTTGTATCGG
26335589 TAGAA
1 TAGAA
26335594 CCATCACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (21 bp):
TAGAAGTCATACTTGTATCGG
Found at i:26338667 original size:22 final size:25
Alignment explanation
Indices: 26338628--26338673 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
26338618 TGAGATATGT
26338628 TTAATATAAGTAGAATTAATTAAGA
1 TTAATATAAGTAGAATTAATTAAGA
26338653 TTAA-ATAA-TAG-ATTAATTAAG
1 TTAATATAAGTAGAATTAATTAAG
26338674 CTAATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 4 0.19
25 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (25 bp):
TTAATATAAGTAGAATTAATTAAGA
Found at i:26342843 original size:34 final size:34
Alignment explanation
Indices: 26342805--26342964 Score: 196
Period size: 34 Copynumber: 4.7 Consensus size: 34
26342795 TTTGATATGT
* *
26342805 TATGACATTCTTATACGATATATGTTTCTGAAAA
1 TATGACATTCTAATATGATATATGTTTCTGAAAA
* * *
26342839 TATGACATTCTAATGTAATATATGTTTCTGTAAA
1 TATGACATTCTAATATGATATATGTTTCTGAAAA
*
26342873 TATGACATTCTAATATGATACATGTTTCTGAAAA
1 TATGACATTCTAATATGATATATGTTTCTGAAAA
* ** * **
26342907 TATGACATTCTGAGCTGATATATG-TTATGGTAA
1 TATGACATTCTAATATGATATATGTTTCTGAAAA
*
26342940 TATGACATTCTGATATGATATATGT
1 TATGACATTCTAATATGATATATGT
26342965 GTATGTGTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
33 28 0.26
34 79 0.74
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (34 bp):
TATGACATTCTAATATGATATATGTTTCTGAAAA
Found at i:26342914 original size:68 final size:67
Alignment explanation
Indices: 26342805--26342964 Score: 216
Period size: 68 Copynumber: 2.4 Consensus size: 67
26342795 TTTGATATGT
* * *
26342805 TATGACATTCTTATACGATATATGTTTCTGAAAATATGACATTCTAATG-TAATATATGTT-TCT
1 TATGACATTCTAATATGATATATGTTTCTGAAAATATGACATTCTAA-GCTAATATATGTTAT-G
26342868 GTAAA
64 GT-AA
* * *
26342873 TATGACATTCTAATATGATACATGTTTCTGAAAATATGACATTCTGAGCTGATATATGTTATGGT
1 TATGACATTCTAATATGATATATGTTTCTGAAAATATGACATTCTAAGCTAATATATGTTATGGT
26342938 AA
66 AA
*
26342940 TATGACATTCTGATATGATATATGT
1 TATGACATTCTAATATGATATATGT
26342965 GTATGTGTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
67 26 0.32
68 55 0.67
69 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (67 bp):
TATGACATTCTAATATGATATATGTTTCTGAAAATATGACATTCTAAGCTAATATATGTTATGGT
AA
Found at i:26352270 original size:17 final size:17
Alignment explanation
Indices: 26352245--26352278 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26352235 ACATATGTTA
*
26352245 TTTATTATAAATATATT
1 TTTACTATAAATATATT
*
26352262 TTTACTATAAATTTATT
1 TTTACTATAAATATATT
26352279 AATGTCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTACTATAAATATATT
Found at i:26357427 original size:29 final size:29
Alignment explanation
Indices: 26357385--26357444 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
26357375 ATCCGTCAAG
*
26357385 GTCCGAGTCTTGTTAATAGGGTAAATAAT
1 GTCCGAGTCTTGTTAATAGGGTAAACAAT
26357414 GTCCGAGTCTTGTTAATAGGGTAAACAAT
1 GTCCGAGTCTTGTTAATAGGGTAAACAAT
26357443 GT
1 GT
26357445 GAAAAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (29 bp):
GTCCGAGTCTTGTTAATAGGGTAAACAAT
Found at i:26358258 original size:318 final size:318
Alignment explanation
Indices: 26357676--26358955 Score: 2519
Period size: 318 Copynumber: 4.0 Consensus size: 318
26357666 AAATAATTAT
26357676 CTGAA-TGAGTTTG-AATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
1 CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
26357739 GCCTTCACCGGCTTAACGCGTTTAATTCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTG
66 GCCTTCACCGGCTTAACGCGTTTAA-TCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTG
26357804 GATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTT
130 GATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTT
26357869 GAGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTT
195 GAGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTT
26357934 TGGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
260 TGGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
26357993 CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
1 CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
26358058 GCCTTCACCGGCTTAACGCGTTTAATCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTGG
66 GCCTTCACCGGCTTAACGCGTTTAATCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTGG
26358123 ATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTTG
131 ATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTTG
26358188 AGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTTT
196 AGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTTT
26358253 GGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
261 GGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
26358311 CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
1 CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
26358376 GCCTTCACCGGCTTAACGCGTTTAATCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTGG
66 GCCTTCACCGGCTTAACGCGTTTAATCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTGG
26358441 ATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTTG
131 ATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTTG
26358506 AGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTTT
196 AGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTTT
26358571 GGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
261 GGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
26358629 CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
1 CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
26358694 GCCTTCACCGGCTTAACGCGTTTAATCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTGG
66 GCCTTCACCGGCTTAACGCGTTTAATCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTGG
26358759 ATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTTG
131 ATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTTG
26358824 AGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTTT
196 AGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTTT
* *
26358889 GGAATACTATGAACTTATGAAATGAGATGATGAATTTTGAATGGAATTGTGTTTTAGA
261 GGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
26358947 CTGAATTGA
1 CTGAATTGA
26358956 TTTATTGGTA
Statistics
Matches: 959, Mismatches: 2, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
317 5 0.01
318 879 0.92
319 75 0.08
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (318 bp):
CTGAATTGAGTTTGAAATGTGTGATTAAAAGATGAATGATTAATGACTCTTGTAGTACTTACTAA
GCCTTCACCGGCTTAACGCGTTTAATCAACACGTAGGTACAAGATCTTTGAGAAGCTAAGGTTGG
ATTAGGTGTCTCTCATCAAATCACATCAACATTGGAAGATTACAAGACAAGGTATACTTATTTTG
AGCTAAAATGGCATGTACAAATGGTACTTATATGTCCTCAATGAATGGGTTATAAATGTTATTTT
GGAATACTATGAACTTATGAAATGAGATGATGAATTTTAAATGAAATTGTGTTTTAGA
Found at i:26362614 original size:15 final size:16
Alignment explanation
Indices: 26362589--26362618 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26362579 AATTTACTTT
26362589 TATATAAAAATAATAA
1 TATATAAAAATAATAA
26362605 TATA-AAAAATAATA
1 TATATAAAAATAATA
26362619 TGGGCATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TATATAAAAATAATAA
Found at i:26363378 original size:12 final size:12
Alignment explanation
Indices: 26363361--26363399 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26363351 ACGGCAGAAC
26363361 AAAGAAAAAAAG
1 AAAGAAAAAAAG
*
26363373 AAAGAAAATAAG
1 AAAGAAAAAAAG
*
26363385 AAGGAAAAAAGAG
1 AAAGAAAAAA-AG
26363398 AA
1 AA
26363400 GAAGGAGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:26365586 original size:43 final size:43
Alignment explanation
Indices: 26365504--26365588 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
26365494 ATTAACATGT
* *
26365504 TAAATTATATTACTTGACTCATGTTAATATGGTTGCATGTTAC
1 TAAATTATATTACTTGACTCATATTAATATGCTTGCATGTTAC
*
26365547 TAAATTATATTACTTTACT-ATTATTAATAT-CTTGACATGTTA
1 TAAATTATATTACTTGACTCA-TATTAATATGCTTG-CATGTTA
26365589 TTAATTGTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (43 bp):
TAAATTATATTACTTGACTCATATTAATATGCTTGCATGTTAC
Found at i:26366475 original size:14 final size:14
Alignment explanation
Indices: 26366451--26366580 Score: 79
Period size: 14 Copynumber: 9.3 Consensus size: 14
26366441 CACATACTTA
*
26366451 TAAACCCTAAACCT
1 TAAACCATAAACCT
*
26366465 TAAAGCATAAACCT
1 TAAACCATAAACCT
*
26366479 TAAACCTTAAACCT
1 TAAACCATAAACCT
** *
26366493 TAAA-TTTAAAACCC
1 TAAACCAT-AAACCT
* *
26366507 TAAACCCTAAATCT
1 TAAACCATAAACCT
*
26366521 TAAACCATAAA-TT
1 TAAACCATAAACCT
* *
26366534 TAAAACCCTAAACAT
1 T-AAACCATAAACCT
* *
26366549 TAAATTCAAAAACC-
1 TAAA-CCATAAACCT
26366563 TAAACCCAT-AACCT
1 TAAA-CCATAAACCT
26366577 TAAA
1 TAAA
26366581 TCCTAAATTA
Statistics
Matches: 89, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
13 8 0.09
14 73 0.82
15 8 0.09
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:26366545 original size:21 final size:21
Alignment explanation
Indices: 26366521--26366573 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
26366511 CCCTAAATCT
* *
26366521 TAAACCATAAATTTAAAACCC
1 TAAACCATAAATTCAAAAACC
26366542 TAAA-CATTAAATTCAAAAACC
1 TAAACCA-TAAATTCAAAAACC
26366563 TAAACCCATAA
1 TAAA-CCATAA
26366574 CCTTAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.07
21 20 0.74
22 3 0.11
23 2 0.07
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCATAAATTCAAAAACC
Found at i:26366546 original size:7 final size:7
Alignment explanation
Indices: 26366451--26366531 Score: 74
Period size: 7 Copynumber: 11.6 Consensus size: 7
26366441 CACATACTTA
*
26366451 TAAACCC
1 TAAACCT
26366458 TAAACCT
1 TAAACCT
* *
26366465 TAAAGCA
1 TAAACCT
26366472 TAAACCT
1 TAAACCT
26366479 TAAACCT
1 TAAACCT
26366486 TAAACCT
1 TAAACCT
*
26366493 TAAA-TT
1 TAAACCT
*
26366499 TAAAACCC
1 T-AAACCT
*
26366507 TAAACCC
1 TAAACCT
*
26366514 TAAATCT
1 TAAACCT
*
26366521 TAAACCA
1 TAAACCT
26366528 TAAA
1 TAAA
26366532 TTTAAAACCC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
6 2 0.03
7 57 0.95
8 1 0.02
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:26366553 original size:35 final size:35
Alignment explanation
Indices: 26366472--26366553 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
26366462 CCTTAAAGCA
* *
26366472 TAAACCTTAAACCTTAAACCTTAAATTTAAAACCC
1 TAAACCTTAAATCTTAAACCATAAATTTAAAACCC
*
26366507 TAAACCCTAAATCTTAAACCATAAATTTAAAACCC
1 TAAACCTTAAATCTTAAACCATAAATTTAAAACCC
*
26366542 TAAACATTAAAT
1 TAAACCTTAAAT
26366554 TCAAAAACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (35 bp):
TAAACCTTAAATCTTAAACCATAAATTTAAAACCC
Found at i:26366579 original size:56 final size:56
Alignment explanation
Indices: 26366451--26366658 Score: 192
Period size: 56 Copynumber: 3.7 Consensus size: 56
26366441 CACATACTTA
* * * *
26366451 TAAACCCTAAACCTTAAAGCATAAACCTT-AAACCTTAAACCTTAAATTTAAAACCC
1 TAAACCCTAAACCTTAAACCATAAA-TTTAAAACCCTAAACCTTAAATTCAAAACCC
* * *
26366507 TAAACCCTAAATCTTAAACCATAAATTTAAAACCCTAAACATTAAATTCAAAAACC
1 TAAACCCTAAACCTTAAACCATAAATTTAAAACCCTAAACCTTAAATTCAAAACCC
* * * *
26366563 TAAACCC-ATAACCTTAAATCC-TAAA-TTAGAAACCCTTAACCTCAATTTCATAACCC
1 TAAACCCTA-AACCTTAAA-CCATAAATTTA-AAACCCTAAACCTTAAATTCAAAACCC
* * * * *
26366619 TAACCCCT-ATCTTTAAAATCTTAAATTTAAAACCCTAAAC
1 TAAACCCTAAACCTT-AAACCATAAATTTAAAACCCTAAAC
26366659 TGGAAACTTG
Statistics
Matches: 125, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
55 11 0.09
56 109 0.87
57 5 0.04
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (56 bp):
TAAACCCTAAACCTTAAACCATAAATTTAAAACCCTAAACCTTAAATTCAAAACCC
Found at i:26366581 original size:28 final size:28
Alignment explanation
Indices: 26366451--26366581 Score: 115
Period size: 28 Copynumber: 4.7 Consensus size: 28
26366441 CACATACTTA
* *
26366451 TAAACCCTAAACCTTAAA-GCATAAACC
1 TAAACCCTAAACCTTAAATTCAAAAACC
* * *
26366478 TTAAACCTTAAACCTTAAATTTAAAACCC
1 -TAAACCCTAAACCTTAAATTCAAAAACC
* * * **
26366507 TAAACCCTAAATCTTAAA-CCATAAATT
1 TAAACCCTAAACCTTAAATTCAAAAACC
*
26366534 TAAAACCCTAAACATTAAATTCAAAAACC
1 T-AAACCCTAAACCTTAAATTCAAAAACC
26366563 TAAACCC-ATAACCTTAAAT
1 TAAACCCTA-AACCTTAAAT
26366582 CCTAAATTAG
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
27 5 0.06
28 63 0.80
29 11 0.14
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAACCTTAAATTCAAAAACC
Found at i:26366964 original size:4 final size:4
Alignment explanation
Indices: 26366955--26367002 Score: 82
Period size: 4 Copynumber: 12.5 Consensus size: 4
26366945 TTCTCTCCTT
26366955 TTTC TTTC TTTC TTTC TTTC TTTC TTTC --TC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
26367001 TT
1 TT
26367003 CTTCTGTCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
4 40 0.95
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:26366986 original size:22 final size:22
Alignment explanation
Indices: 26366961--26367002 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
26366951 CCTTTTTCTT
26366961 TCTTTCTTTCTTTCTTTCTTTC
1 TCTTTCTTTCTTTCTTTCTTTC
26366983 TCTTTCTTTCTTTCTTTCTT
1 TCTTTCTTTCTTTCTTTCTT
26367003 CTTCTGTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTTCTTTCTTTCTTTCTTTC
Found at i:26366986 original size:26 final size:26
Alignment explanation
Indices: 26366943--26367003 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
26366933 AACACACCAC
*
26366943 CTTTCTCTCCTTTTTCTTTCTTTCTTT
1 CTTTCT-TCCTTTCTCTTTCTTTCTTT
*
26366970 CTTTCTTTCTTTCTCTTTCTTTCTTT
1 CTTTCTTCCTTTCTCTTTCTTTCTTT
26366996 CTTTCTTC
1 CTTTCTTC
26367004 TTCTGTCCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (26 bp):
CTTTCTTCCTTTCTCTTTCTTTCTTT
Found at i:26367214 original size:4 final size:4
Alignment explanation
Indices: 26367207--26367240 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
26367197 TCATTCTTCC
26367207 TTCT TTCT TTCT TTCT TTCT TTCTT TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT T
26367241 CTTCTGTCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:26370508 original size:2 final size:2
Alignment explanation
Indices: 26370501--26370530 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26370491 TAAACGAAGA
26370501 AT 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 AT
26370531 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26370959 original size:20 final size:19
Alignment explanation
Indices: 26370930--26370979 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
26370920 AAAAAAGATA
26370930 ATATTATTTTCTAGTTATAT
1 ATATTATTTTCTAGTT-TAT
* *
26370950 ATATTCTTTT-TGGTTTAT
1 ATATTATTTTCTAGTTTAT
26370968 ATATTATTTTCT
1 ATATTATTTTCT
26370980 TTCTTCTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 12 0.46
19 5 0.19
20 9 0.35
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (19 bp):
ATATTATTTTCTAGTTTAT
Found at i:26375477 original size:20 final size:20
Alignment explanation
Indices: 26375452--26375497 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
26375442 CTTCTTGAAG
26375452 AACTACATCT-CCTTAGCCAA
1 AACTACATCTCCCTTA-CCAA
*
26375472 AACTACATCTCCCTTACCAG
1 AACTACATCTCCCTTACCAA
26375492 AACTAC
1 AACTAC
26375498 CAACCACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.35, C:0.37, G:0.04, T:0.24
Consensus pattern (20 bp):
AACTACATCTCCCTTACCAA
Found at i:26382347 original size:186 final size:186
Alignment explanation
Indices: 26382033--26382402 Score: 695
Period size: 186 Copynumber: 2.0 Consensus size: 186
26382023 AGTTAGGTTC
* *
26382033 AAGAGTTAAAATTTTAAGACTGGAGACATTGGAATCAAGTCAAATCAAACAAAAAAACTTCATCA
1 AAGAGTTAAAATTTTAAGACTGGAGACACTGAAATCAAGTCAAATCAAACAAAAAAACTTCATCA
26382098 CATTGCGATCTCTGATTAAAATTATTTTTTTACTTCCTCAATAAATTTGATTATCCAATTAAAAT
66 CATTGCGATCTCTGATTAAAATTATTTTTTTACTTCCTCAATAAATTTGATTATCCAATTAAAAT
26382163 AGATATATATCTTTTATTTTGTTTAACCCCACTCTCTCTCCTTTTCGTTTATCATG
131 AGATATATATCTTTTATTTTGTTTAACCCCACTCTCTCTCCTTTTCGTTTATCATG
* * *
26382219 AAGAGTTAAAATTTTAAGATTGGAGGCACTGAAATCAAGTCAAATCAAACAAAAAAGCTTCATCA
1 AAGAGTTAAAATTTTAAGACTGGAGACACTGAAATCAAGTCAAATCAAACAAAAAAACTTCATCA
26382284 CATTGCGATCTCTGATTAAAATTATTTTTTTACTTCCTCAATAAATTTGATTATCCAATTAAAAT
66 CATTGCGATCTCTGATTAAAATTATTTTTTTACTTCCTCAATAAATTTGATTATCCAATTAAAAT
26382349 AGATATATATCTTTTATTTTGTTTAACCCCACTCTCTCTCCTTTTCGTTTATCA
131 AGATATATATCTTTTATTTTGTTTAACCCCACTCTCTCTCCTTTTCGTTTATCA
26382403 CCATATAAAA
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
186 179 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (186 bp):
AAGAGTTAAAATTTTAAGACTGGAGACACTGAAATCAAGTCAAATCAAACAAAAAAACTTCATCA
CATTGCGATCTCTGATTAAAATTATTTTTTTACTTCCTCAATAAATTTGATTATCCAATTAAAAT
AGATATATATCTTTTATTTTGTTTAACCCCACTCTCTCTCCTTTTCGTTTATCATG
Found at i:26384174 original size:62 final size:59
Alignment explanation
Indices: 26384066--26384181 Score: 169
Period size: 62 Copynumber: 1.9 Consensus size: 59
26384056 ATCACTTTAA
* * *
26384066 TATTAAATTAATATAATACTTATCAAAATAAATATTAGATTAAATTTAATATTAGATCT
1 TATTAAATTAATAGAATACTTATCAAAATAAACATTAAATTAAATTTAATATTAGATCT
*
26384125 TATTAAATTAATAGAATATTTATCTACAAAATAAACATTAAATTAAATTTAATATTA
1 TATTAAATTAATAGAATACTTA--T-CAAAATAAACATTAAATTAAATTTAATATTA
26384182 AAATAATCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCAAAATAAACATTAAATTAAATTTAATATTAGATCT
Found at i:26393517 original size:19 final size:19
Alignment explanation
Indices: 26393493--26393548 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
26393483 CTTTACATGT
26393493 ACACACGATTCCACTAATC
1 ACACACGATTCCACTAATC
* *
26393512 ACACACGGTTCCACTAAAC
1 ACACACGATTCCACTAATC
* * *
26393531 AGACACAATTTCACTAAT
1 ACACACGATTCCACTAAT
26393549 TAAACACTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.21
Consensus pattern (19 bp):
ACACACGATTCCACTAATC
Found at i:26394144 original size:24 final size:24
Alignment explanation
Indices: 26394117--26394164 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
26394107 GTTTCAATAG
26394117 TTTGGTATCATAAA-TTTTTTTTGT
1 TTTGGTA-CATAAAGTTTTTTTTGT
* *
26394141 TTTGTTACTTAAAGTTTTTTTTGT
1 TTTGGTACATAAAGTTTTTTTTGT
26394165 CTCAATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (24 bp):
TTTGGTACATAAAGTTTTTTTTGT
Found at i:26396152 original size:12 final size:11
Alignment explanation
Indices: 26396133--26396166 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
26396123 TTCTTTAGAA
26396133 ATAATAAAATT
1 ATAATAAAATT
*
26396144 ATAAATAAATTT
1 AT-AATAAAATT
26396156 ATAATAAAATT
1 ATAATAAAATT
26396167 GTATTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAATAAAATT
Found at i:26397022 original size:22 final size:22
Alignment explanation
Indices: 26396973--26397022 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
26396963 AATAACAATA
* *
26396973 AAATAATAGCAACATAATAATG
1 AAATAATAGCAACAAAATAAAG
** *
26396995 TGATAATAGTAACAAAATAAAG
1 AAATAATAGCAACAAAATAAAG
26397017 AAATAA
1 AAATAA
26397023 CAAGAAAATA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.22
Consensus pattern (22 bp):
AAATAATAGCAACAAAATAAAG
Found at i:26397337 original size:20 final size:20
Alignment explanation
Indices: 26397312--26397349 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26397302 TACTAAAATA
26397312 ATACAAAAAAT-ATATATTAT
1 ATAC-AAAAATGATATATTAT
26397332 ATACAAAAATGATATATT
1 ATACAAAAATGATATATT
26397350 CTCCTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
ATACAAAAATGATATATTAT
Found at i:26397552 original size:27 final size:27
Alignment explanation
Indices: 26397513--26397566 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
26397503 GTACAAGGGG
26397513 TGGTGCCTACCTGCCAGGCAGCACCAA
1 TGGTGCCTACCTGCCAGGCAGCACCAA
* **
26397540 TGGTGCCTTCCTGCCAGGTGGCACCAA
1 TGGTGCCTACCTGCCAGGCAGCACCAA
26397567 CTCCCGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.35, G:0.28, T:0.19
Consensus pattern (27 bp):
TGGTGCCTACCTGCCAGGCAGCACCAA
Found at i:26397843 original size:22 final size:23
Alignment explanation
Indices: 26397818--26397861 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
26397808 TAATATAAAA
*
26397818 AATATT-TATTTATCAAAATAAT
1 AATATTATATTTACCAAAATAAT
26397840 AATATTCATATTTACCAAAATA
1 AATATT-ATATTTACCAAAATA
26397862 GTATAGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
24 13 0.68
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATTATATTTACCAAAATAAT
Found at i:26397929 original size:5 final size:5
Alignment explanation
Indices: 26397921--26397948 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
26397911 ATTAAAAAAA
26397921 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
26397949 ATTTGACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:26400996 original size:26 final size:26
Alignment explanation
Indices: 26400947--26400996 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
26400937 TCTGTTTAAA
**
26400947 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
26400973 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
26400997 GCAAATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:26401073 original size:6 final size:6
Alignment explanation
Indices: 26401062--26401102 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
26401052 ATATTTGCAT
*
26401062 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
26401103 TTTAATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:26403528 original size:16 final size:17
Alignment explanation
Indices: 26403507--26403545 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
26403497 ATCATTTTAA
26403507 AAAATATTT-AATATAT
1 AAAATATTTAAATATAT
26403523 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
*
26403540 CAAATA
1 AAAATA
26403546 AATGAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:26404322 original size:17 final size:17
Alignment explanation
Indices: 26404300--26404332 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26404290 CTTACAATAA
*
26404300 TAAATAATATTTAAATT
1 TAAATAACATTTAAATT
26404317 TAAATAACATTTAAAT
1 TAAATAACATTTAAAT
26404333 AAATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAACATTTAAATT
Found at i:26404764 original size:16 final size:17
Alignment explanation
Indices: 26404735--26404771 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
26404725 TTAATATTTT
26404735 TTTAAAAAATTTTATTA
1 TTTAAAAAATTTTATTA
26404752 TTTAAAAAA-TTTATTA
1 TTTAAAAAATTTTATTA
26404768 TTTA
1 TTTA
26404772 TTTAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAAAAATTTTATTA
Found at i:26409298 original size:14 final size:12
Alignment explanation
Indices: 26409268--26409294 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26409258 GAAATGAACT
26409268 AAATCCCTGAGA
1 AAATCCCTGAGA
26409280 AAATCCCTGAGA
1 AAATCCCTGAGA
26409292 AAA
1 AAA
26409295 AATCGACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (12 bp):
AAATCCCTGAGA
Found at i:26411486 original size:59 final size:59
Alignment explanation
Indices: 26411372--26411742 Score: 430
Period size: 59 Copynumber: 6.3 Consensus size: 59
26411362 TTTGGATACC
* *
26411372 CGGGGGTAAAATGGTAA-TTTTGGTTGAAAT-TGGGTCAAAAA-GGAATTTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGG-TAAAATCGGGGTCAAAAATGGAA-TTTTGGAAAGTT
* * *
26411430 CGGGGATAAAATGGTAATTTTTAGTAAAATCGGGGTCAAAAATGGACTTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTGGAAAGTT
* * * *
26411489 CGGGGGTAAAATAGTAATTTTTGGTAAAAAT-AGGGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGT-AAAATCGGGGTCAAAAATGGAATTTTGGAAAGTT
* * *
26411548 CGGGGGTAAAATGGTAATTTTTGATAAAATCGAGGTCAAAAATGGAATTTTGGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTGGAAAGTT
** * **
26411607 CAAGGGTAAAATGATAATTTTTGGTAAAATCGGGGTTTAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTGGAAAGTT
** * * * * *
26411666 TAGGGGTAAAATGGTAA-TTTTAGTAAAATCGAGGT-TAAAATAGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTGGAAAGTT
** *
26411723 CGAAGATAAAATGGTAATTT
1 CGGGGGTAAAATGGTAATTT
26411743 CGGTGAAAGT
Statistics
Matches: 268, Mismatches: 39, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
57 32 0.12
58 44 0.16
59 184 0.69
60 8 0.03
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTGGAAAGTT
Found at i:26411549 original size:118 final size:117
Alignment explanation
Indices: 26411375--26411807 Score: 461
Period size: 118 Copynumber: 3.7 Consensus size: 117
26411365 GGATACCCGG
** * * * *
26411375 GGGTAAAATGGTAATTTTGGTTGAAATTGGGTCAAAAA-GGAATTTTTGGAAAG-TTCGGGGATA
1 GGGTAAAATGGTAATTTTGGTAAAAATAGGGTTAAAAATGGAA-TTTTAGAAAGTTTAGGGG-TA
* * *
26411438 AAATGGTAATTTTTAGTAAAATCGGGGTCAAAAATGGACTTTTGGAAAGTTCGG
64 AAATGGTAATTTTTAGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCGA
* **
26411492 GGGTAAAATAGTAATTTTTGGTAAAAATAGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAA
1 GGGTAAAATGGTAA-TTTTGGTAAAAATAGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAA
* *
26411557 AATGGTAATTTTT-GATAAAATCGAGGTCAAAAATGGAATTTTGGGAAGTTCAA
65 AATGGTAATTTTTAG-TAAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCGA
* * * *
26411610 GGGTAAAATGATAATTTTTGGT-AAAATCGGGGTTTAAAATGGAATTTTGGAAAGTTTAGGGGTA
1 GGGTAAAATGGTAA-TTTTGGTAAAAAT-AGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTA
* * *
26411674 AAATGGTAA-TTTTAGTAAAATCGAGGT-TAAAATAGAATTTTAGAAAGTTCGA
64 AAATGGTAATTTTTAGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCGA
* * * **
26411726 AGATAAAATGGTAATTTCGGTGAAAGTTTTAGGGTTAAAATAT--AATTTTAGAAAGTTTAGGGG
1 GGGTAAAATGGTAATTTTGGT-AAA--AATAGGGTTAAAA-ATGGAATTTTAGAAAGTTTAGGGG
26411789 TTAAAAAT-GTAATTTTTAG
62 -T-AAAATGGTAATTTTTAG
26411808 AAAGTTTTGG
Statistics
Matches: 268, Mismatches: 34, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
115 6 0.02
116 31 0.12
117 56 0.21
118 152 0.57
119 23 0.09
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (117 bp):
GGGTAAAATGGTAATTTTGGTAAAAATAGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAA
ATGGTAATTTTTAGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCGA
Found at i:26411617 original size:29 final size:28
Alignment explanation
Indices: 26411403--26411885 Score: 167
Period size: 29 Copynumber: 16.3 Consensus size: 28
26411393 GGTTGAAATT
*
26411403 GGGTCAAAAAGGAATTTTTGGAAAGTTC-G
1 GGGT-AAAATGGAA-TTTTGGAAAGTTCAG
* *
26411432 GGGATAAAATGGTAATTTTTAGTAAA-ATC-G
1 GGG-TAAAATGG-AA-TTTT-GGAAAGTTCAG
* *
26411462 GGGTCAAAAATGGACTTTTGGAAAGTTCGG
1 GGGT--AAAATGGAATTTTGGAAAGTTCAG
* **
26411492 GGGTAAAATAGTAATTTTTGGTAAAAAT-AG
1 GGGTAAAAT-GGAA-TTTTGG-AAAGTTCAG
* * *
26411522 GGTTAAAAATGGAATTTTAGAAAGTTCGG
1 GGGT-AAAATGGAATTTTGGAAAGTTCAG
* **
26411551 GGGTAAAATGGTAATTTTTGATAAAATC-G
1 GGGTAAAATGG-AATTTTGGA-AAGTTCAG
* * *
26411580 AGGTCAAAAATGGAATTTTGGGAAGTTCAA
1 GGGT--AAAATGGAATTTTGGAAAGTTCAG
* *
26411610 GGGTAAAATGATAATTTTTGGTAAA-ATC-G
1 GGGTAAAATG-GAA-TTTTGG-AAAGTTCAG
*
26411639 GGGTTTAAAATGGAATTTTGGAAAGTTTAG
1 GGG--TAAAATGGAATTTTGGAAAGTTCAG
* *
26411669 GGGTAAAATGGTAATTTTAGTAAA-ATC-G
1 GGGTAAAATGG-AATTTT-GGAAAGTTCAG
* * *
26411697 AGGTTAAAATAGAATTTTAGAAAGTTC-G
1 -GGGTAAAATGGAATTTTGGAAAGTTCAG
* * * *
26411725 AAGATAAAATGGTAATTTCGGTGAAAGTTTTAG
1 -GGGTAAAATGG-AATTT-TG-GAAAG-TTCAG
* ** * *
26411758 GGTTAAAATATAATTTTAGAAAGTTTAG
1 GGGTAAAATGGAATTTTGGAAAGTTCAG
* * **
26411786 GGGTTAAAAATGTAATTTTTAGAAAGTTTTG
1 GGG-T-AAAATGGAA-TTTTGGAAAGTTCAG
** *
26411817 GGGTTAAAATATAATTTTGGAAAGTTTTAG
1 GGG-TAAAATGGAATTTTGGAAAG-TTCAG
* ** *
26411847 GGTTAAAATATAATTTTGGAAAAGTTTAG
1 GGGTAAAATGGAATTTTGG-AAAGTTCAG
26411876 GGGTTAAAAT
1 GGG-TAAAAT
26411886 ATAACATTCA
Statistics
Matches: 352, Mismatches: 63, Indels: 77
0.72 0.13 0.16
Matches are distributed among these distances:
27 3 0.01
28 63 0.18
29 114 0.32
30 97 0.28
31 65 0.18
32 9 0.03
33 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (28 bp):
GGGTAAAATGGAATTTTGGAAAGTTCAG
Found at i:26411779 original size:60 final size:59
Alignment explanation
Indices: 26411698--26411961 Score: 178
Period size: 60 Copynumber: 4.4 Consensus size: 59
26411688 GTAAAATCGA
* *
26411698 GGTTAAAATAGAATTTTAGAAAGTTCGAAGAT-AAAATGGTAATTTCGGT-GAAAGTTTTAG
1 GGTTAAAATATAATTTTAGAAAGTTAGAAGATAAAAAT-GTAATTT--GTAGAAAGTTTTAG
** * * *
26411758 GGTTAAAATATAATTTTAGAAAGTTTAGGGGTTAAAAATGTAATTTTTAGAAAGTTTTGG
1 GGTTAAAATATAATTTTAGAAAG-TTAGAAGATAAAAATGTAATTTGTAGAAAGTTTTAG
* ** * * * * *
26411818 GGTTAAAATATAATTTTGGAAAGTTTTAGGGTTAAAATATAATTT-TGGAAAAG-TTTAGG
1 GGTTAAAATATAATTTTAGAAAGTTAGAAGATAAAAATGTAATTTGTAG-AAAGTTTTA-G
* * * ** * * * * *
26411877 GGTTAAAATATAACATTCAAAAAGTTTTAGGGTCAAAATATAATTT-TAGGAAGTTTTAG
1 GGTTAAAATATAA-TTTTAGAAAGTTAGAAGATAAAAATGTAATTTGTAGAAAGTTTTAG
* *
26411936 GGTCAAAATGTAACTTTTAGAAAGTT
1 GGTTAAAATATAA-TTTTAGAAAGTT
26411962 TTAGGGTCAA
Statistics
Matches: 169, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
58 5 0.03
59 60 0.36
60 87 0.51
61 12 0.07
62 5 0.03
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.37
Consensus pattern (59 bp):
GGTTAAAATATAATTTTAGAAAGTTAGAAGATAAAAATGTAATTTGTAGAAAGTTTTAG
Found at i:26411873 original size:30 final size:29
Alignment explanation
Indices: 26411747--26411996 Score: 256
Period size: 30 Copynumber: 8.4 Consensus size: 29
26411737 TAATTTCGGT
*
26411747 GAAAGTTTTAGGGTTAAAATATAATTTTA
1 GAAAGTTTTAGGGTTAAAATATAATTTTG
* *
26411776 GAAAG-TTTAGGGGTTAAAAATGTAATTTTTA
1 GAAAGTTTTA-GGGTT-AAAATATAA-TTTTG
*
26411807 GAAAGTTTTGGGGTTAAAATATAATTTTG
1 GAAAGTTTTAGGGTTAAAATATAATTTTG
26411836 GAAAGTTTTAGGGTTAAAATATAATTTTG
1 GAAAGTTTTAGGGTTAAAATATAATTTTG
* **
26411865 GAAAAG-TTTAGGGGTTAAAATATAACATTCA
1 G-AAAGTTTTA-GGGTTAAAATATAA-TTTTG
* *
26411896 AAAAGTTTTAGGGTCAAAATATAATTTTAG
1 GAAAGTTTTAGGGTTAAAATATAATTTT-G
* * *
26411926 G-AAGTTTTAGGGTCAAAATGTAACTTTTA
1 GAAAGTTTTAGGGTTAAAATATAA-TTTTG
* *
26411955 GAAAGTTTTAGGGTCAAAATACTATTTTTG
1 GAAAGTTTTAGGGTTAAAATA-TAATTTTG
*
26411985 GATAG-TTTAGGG
1 GAAAGTTTTAGGG
26411997 ACTTTTAGGG
Statistics
Matches: 189, Mismatches: 20, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
28 4 0.02
29 78 0.41
30 81 0.43
31 23 0.12
32 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (29 bp):
GAAAGTTTTAGGGTTAAAATATAATTTTG
Found at i:26411992 original size:89 final size:88
Alignment explanation
Indices: 26411652--26411996 Score: 303
Period size: 89 Copynumber: 3.9 Consensus size: 88
26411642 TTTAAAATGG
* * * * * *
26411652 AATTTTGGAAAG-TTTAGGGGTAAAATGGTAATTTTAGTAAA--ATCGAGGTTAAAATAGAA-TT
1 AATTTTGGAAAGTTTTAGGGTTAAAAT-ATAATTTTAG-AAAGTTTAGGGGTTAAAATATAATTT
** * * *
26411713 TTAGAAAGTTCGAAGAT-AAAATGGT
64 TTAGAAAGTTTTAGGGTCAAAAT-AT
* *
26411738 AATTTCGGTGAAAGTTTTAGGGTTAAAATATAATTTTAGAAAGTTTAGGGGTTAAAAATGTAATT
1 AATTT-TG-GAAAGTTTTAGGGTTAAAATATAATTTTAGAAAGTTTAGGGGTT-AAAATATAATT
* *
26411803 TTTAGAAAGTTTTGGGGTTAAAATAT
63 TTTAGAAAGTTTTAGGGTCAAAATAT
* **
26411829 AATTTTGGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATATAACATT
1 AATTTTGGAAAGTTTTAGGGTTAAAATATAATTTTAG-AAAGTTTAGGGGTTAAAATATAATTTT
* *
26411894 CAAAAAGTTTTAGGGTCAAAATAT
65 TAGAAAGTTTTAGGGTCAAAATAT
* * *
26411918 AATTTTAGG-AAGTTTTAGGGTCAAAATGTAACTTTTAGAAAGTTTTA-GGGTCAAAATACT-AT
1 AATTTT-GGAAAGTTTTAGGGTTAAAATATAA-TTTTAGAAAG-TTTAGGGGTTAAAATA-TAAT
* *
26411980 TTTTGGATAG-TTTAGGG
62 TTTTAGAAAGTTTTAGGG
26411997 ACTTTTAGGG
Statistics
Matches: 213, Mismatches: 33, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
86 5 0.02
87 4 0.02
88 21 0.10
89 124 0.58
90 34 0.16
91 20 0.09
92 5 0.02
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.37
Consensus pattern (88 bp):
AATTTTGGAAAGTTTTAGGGTTAAAATATAATTTTAGAAAGTTTAGGGGTTAAAATATAATTTTT
AGAAAGTTTTAGGGTCAAAATAT
Found at i:26412648 original size:15 final size:15
Alignment explanation
Indices: 26412636--26412666 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26412626 TCTCTTTTCT
26412636 TTCTTTTTCTTTTTA
1 TTCTTTTTCTTTTTA
26412651 TTCTTTTT-TTTTTA
1 TTCTTTTTCTTTTTA
26412665 TT
1 TT
26412667 TTTAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (15 bp):
TTCTTTTTCTTTTTA
Found at i:26413103 original size:21 final size:20
Alignment explanation
Indices: 26413058--26413104 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
26413048 TAATATTTTT
26413058 ATTTAAAATTAATTAATACC
1 ATTTAAAATTAATTAATACC
*
26413078 ATTTAAAACTTTAGTTAATA-C
1 ATTTAAAA--TTAATTAATACC
26413099 ATTTAA
1 ATTTAA
26413105 TATATGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 7 0.29
22 9 0.38
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTTAAAATTAATTAATACC
Found at i:26413837 original size:17 final size:17
Alignment explanation
Indices: 26413811--26413882 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
26413801 CTTTTAATTT
*
26413811 AATTTTAATTTAAAATA
1 AATTTAAATTTAAAATA
*
26413828 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
* ***
26413845 AATTCAAACCCAAAA-A
1 AATTTAAATTTAAAATA
*
26413861 TAATTTGAATTTAAAATA
1 -AATTTAAATTTAAAATA
26413879 AATT
1 AATT
26413883 CAAACTTATT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
16 1 0.02
17 39 0.95
18 1 0.02
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:26413872 original size:34 final size:35
Alignment explanation
Indices: 26413822--26413887 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
26413812 ATTTTAATTT
*
26413822 AAAATAAATTTAAATTTAAAGTAAATTCAAACCCA
1 AAAATAAATTTAAATTTAAAATAAATTCAAACCCA
*
26413857 AAAAT-AATTTGAATTTAAAATAAATTCAAAC
1 AAAATAAATTTAAATTTAAAATAAATTCAAAC
26413888 TTATTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (35 bp):
AAAATAAATTTAAATTTAAAATAAATTCAAACCCA
Found at i:26414757 original size:48 final size:48
Alignment explanation
Indices: 26414686--26414784 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
26414676 CTAATCCTTT
26414686 AAATTCATGTTTCTATACTTAGGAGAGCATTTGAGAGTAGAAGGAGCC
1 AAATTCATGTTTCTATACTTAGGAGAGCATTTGAGAGTAGAAGGAGCC
26414734 AAATTCATGTTTCTATACTTAGGAGAGCATTTGAGAGTAGAAGGAGCC
1 AAATTCATGTTTCTATACTTAGGAGAGCATTTGAGAGTAGAAGGAGCC
26414782 AAA
1 AAA
26414785 AACGAGTGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (48 bp):
AAATTCATGTTTCTATACTTAGGAGAGCATTTGAGAGTAGAAGGAGCC
Found at i:26415732 original size:20 final size:19
Alignment explanation
Indices: 26415709--26415775 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
26415699 TTTATTTATG
26415709 TTAATTTAGCATTTTT-TATT
1 TTAATTTA--ATTTTTATATT
*
26415729 TTAATTTTAATATTTT-TGTTT
1 TTAA-TTTAAT-TTTTAT-ATT
26415750 TTAATTTAATTTTTATATT
1 TTAATTTAATTTTTATATT
*
26415769 CTAATTT
1 TTAATTT
26415776 TTTTCTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 14 0.35
20 16 0.40
21 10 0.25
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTAATTTAATTTTTATATT
Found at i:26415776 original size:26 final size:26
Alignment explanation
Indices: 26415721--26415777 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
26415711 AATTTAGCAT
* * **
26415721 TTTTTATTTTAATTTTAATATTTTTG
1 TTTTTAATTTAATTTTAATATTCTAA
*
26415747 TTTTTAATTTAATTTTTATATTCTAA
1 TTTTTAATTTAATTTTAATATTCTAA
26415773 TTTTT
1 TTTTT
26415778 TTCTTTTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTTAATTTAATTTTAATATTCTAA
Found at i:26415777 original size:14 final size:14
Alignment explanation
Indices: 26415719--26415777 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
26415709 TTAATTTAGC
26415719 ATTTTT-TATTTTA
1 ATTTTTATATTTTA
* *
26415732 ATTTTAATATTTTT
1 ATTTTTATATTTTA
*
26415746 GTTTTTA-A-TTTA
1 ATTTTTATATTTTA
*
26415758 ATTTTTATATTCTA
1 ATTTTTATATTTTA
26415772 ATTTTT
1 ATTTTT
26415778 TTCTTTTTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
12 9 0.25
13 7 0.19
14 20 0.56
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (14 bp):
ATTTTTATATTTTA
Found at i:26426078 original size:26 final size:26
Alignment explanation
Indices: 26426042--26426095 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
26426032 CGCCGAATAA
* *
26426042 ATGTTGGTGCAATCCTGCATCAAAAG
1 ATGTTAGTGCAATCCTACATCAAAAG
*
26426068 ATGTTAGTGCAATCCTACATCAAGAG
1 ATGTTAGTGCAATCCTACATCAAAAG
26426094 AT
1 AT
26426096 TGCAGAAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (26 bp):
ATGTTAGTGCAATCCTACATCAAAAG
Found at i:26427769 original size:39 final size:40
Alignment explanation
Indices: 26427721--26427980 Score: 150
Period size: 41 Copynumber: 6.4 Consensus size: 40
26427711 TTTGAATAGA
26427721 AAACGCCGCAAAAGGTAAAGTAATAGTGGCGTTTTTACAT
1 AAACGCCGCAAAAGGTAAAGTAATAGTGGCGTTTTTACAT
* * ** *
26427761 AAA-TCCGCAAAAAGTAAAGTAATAGCAGCGTTTTTGCAT
1 AAACGCCGCAAAAGGTAAAGTAATAGTGGCGTTTTTACAT
* * * * *
26427800 AAACGCCGAAAAAGCTAAACTAATAGTGGCGTTTATAGAAT
1 AAACGCCGCAAAAGGTAAAGTAATAGTGGCGTTTTTA-CAT
* * * * * * * *
26427841 AAACACTGTTAAAAGTTAGAGCATTAGTGGCGCTTTCT-CAT
1 AAACGCCG-CAAAAGGTAAAGTAATAGTGGCG-TTTTTACAT
* * * * *
26427882 AAACGCCGCTAAAGGTCAGAGCAATAGCGGCG-CTTTATCAT
1 AAACGCCGCAAAAGGT-AAAGTAATAGTGGCGTTTTTA-CAT
* * * * * * *
26427923 AAATGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTTCT-CAT
1 AAACGCCGCAAAAGGT-AAAGTAATAGTGGCG-TTTTTACAT
*
26427964 AAACGCCGCTAAAGGTA
1 AAACGCCGCAAAAGGTA
26427981 TGACCTTTAG
Statistics
Matches: 172, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
39 36 0.21
40 33 0.19
41 80 0.47
42 17 0.10
43 6 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (40 bp):
AAACGCCGCAAAAGGTAAAGTAATAGTGGCGTTTTTACAT
Found at i:26427884 original size:41 final size:41
Alignment explanation
Indices: 26427858--26427979 Score: 208
Period size: 41 Copynumber: 3.0 Consensus size: 41
26427848 GTTAAAAGTT
*
26427858 AGAGCATTAGTGGCGCTTTCTCATAAACGCCGCTAAAGGTC
1 AGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTC
* * *
26427899 AGAGCAATAGCGGCGCTTTATCATAAATGCCGCTAAAGGTC
1 AGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTC
26427940 AGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGT
1 AGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGT
26427980 ATGACCTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (41 bp):
AGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTC
Found at i:26429652 original size:21 final size:20
Alignment explanation
Indices: 26429628--26429670 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
26429618 TTTAAATACA
26429628 TAATAATTT-AAATAATATTTT
1 TAATAATTTCAAAT-AT-TTTT
*
26429649 TAATTATTTCAAATATTTTT
1 TAATAATTTCAAATATTTTT
26429669 TA
1 TA
26429671 CCATCTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATAATTTCAAATATTTTT
Found at i:26429957 original size:41 final size:41
Alignment explanation
Indices: 26429906--26429997 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
26429896 TATGGGAAAG
* *
26429906 AGCATTAGCGGCGTTTATGGGAAAAACGCCGCTAAAGGTCA
1 AGCAATAGCGGCGTTTATGGGAAAAACGCCGCTAAAAGTCA
* *
26429947 AGTC-ATAGCGGCGTTTATGGTAAAAACGCTGCTAAAAGTCA
1 AG-CAATAGCGGCGTTTATGGGAAAAACGCCGCTAAAAGTCA
26429988 AGCAATAGCG
1 AGCAATAGCG
26429998 ACATTTTCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 1 0.02
41 43 0.96
42 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (41 bp):
AGCAATAGCGGCGTTTATGGGAAAAACGCCGCTAAAAGTCA
Found at i:26430629 original size:2 final size:2
Alignment explanation
Indices: 26430622--26430648 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26430612 AATCCTGTAT
26430622 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
26430649 TTTTGGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26431710 original size:15 final size:15
Alignment explanation
Indices: 26431690--26431724 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
26431680 TTCTTCTCAA
26431690 TTATTTTCATGGGGG
1 TTATTTTCATGGGGG
26431705 TTATTTTCATGGGGG
1 TTATTTTCATGGGGG
26431720 TTATT
1 TTATT
26431725 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.06, G:0.29, T:0.51
Consensus pattern (15 bp):
TTATTTTCATGGGGG
Found at i:26432437 original size:29 final size:29
Alignment explanation
Indices: 26432285--26432447 Score: 82
Period size: 29 Copynumber: 5.5 Consensus size: 29
26432275 ATTTAATTCA
* *
26432285 AAATATTGAATTATTTAAATATATTAAAT
1 AAATATTAAATTATTTAATTATATTAAAT
* * * * *
26432314 AAATATTAAATTATTAAAATAGAACTCAATT
1 AAATATTAAATTATTTAATTA-TA-TTAAAT
* *
26432345 AAAGTAATT-AATTATTTAATTAGTTATTTATT
1 AAA-T-ATTAAATTATTTAATTA--TATTAAAT
** * ** * *
26432377 AAATCCTAAACTCAAATATTTA-ATT-CA-
1 AAATATTAAA-TTATTTAATTATATTAAAT
26432404 AAATATTAAATTATTTAATTATATTAAAT
1 AAATATTAAATTATTTAATTATATTAAAT
*
26432433 AAATATTCAATTATT
1 AAATATTAAATTATT
26432448 AAAAATAGAA
Statistics
Matches: 97, Mismatches: 27, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
26 7 0.07
27 11 0.11
28 1 0.01
29 36 0.37
30 2 0.02
31 10 0.10
32 26 0.27
33 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
AAATATTAAATTATTTAATTATATTAAAT
Found at i:26432537 original size:121 final size:120
Alignment explanation
Indices: 26432270--26432627 Score: 535
Period size: 121 Copynumber: 3.0 Consensus size: 120
26432260 AAAAACAACC
* *
26432270 CAAATATTTAATTCAAAATATTGAATTATTTAAATATATTAAATAAATATTAAATTATT-AAAAT
1 CAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAAATATTAAATTATTAAAAAT
** * *
26432334 AGAACTCA-ATTAAAGTAATTAATTATTTAATTAGTTATTTATTAAATCCTAAACT
66 AGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCT-AACT
*
26432389 CAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAAATATTCAATTATTAAAAAT
1 CAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAAATATTAAATTATTAAAAAT
*
26432454 AGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCTAAGT
66 AGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCTAACT
* * *
26432509 CAAAATATTTAATTCAAAAAATTTAATTATTTCATTATATTTAAATAAATATTAAATTATTAAAA
1 C-AAATATTTAATTCAAAATATTAAATTATTTAATTATA-TTAAATAAATATTAAATTATTAAAA
* *
26432574 ACT-GAA-AAATATTAAAATAATTAATTATTTAATTAATTATTTATTAAACCCTAA
64 A-TAGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCTAA
26432628 ATATTAAATT
Statistics
Matches: 220, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
119 56 0.25
120 15 0.07
121 120 0.55
122 28 0.13
123 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
CAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAAATATTAAATTATTAAAAAT
AGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCTAACT
Found at i:26432608 original size:12 final size:12
Alignment explanation
Indices: 26432591--26432620 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26432581 AATATTAAAA
26432591 TAATTAATTATT
1 TAATTAATTATT
26432603 TAATTAATTATT
1 TAATTAATTATT
26432615 T-ATTAA
1 TAATTAA
26432621 ACCCTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATTAATTATT
Found at i:26432609 original size:46 final size:46
Alignment explanation
Indices: 26432559--26432704 Score: 146
Period size: 46 Copynumber: 3.2 Consensus size: 46
26432549 TTAAATAAAT
26432559 ATTAAATTATTAAAAACTGAAAAATATTAAAATAATTAATTATTTA
1 ATTAAATTATTAAAAACTGAAAAATATTAAAATAATTAATTATTTA
** * *
26432605 ATTAATTATTTATTAAACCCT---AAATATTAAATTATTTAATTA--T-
1 ATTAA--A-TTATTAAAAACTGAAAAATATTAAAATAATTAATTATTTA
*
26432648 ATTCAATTATTAAAAA-TAGAACAAATATTAAAATAATTAATTATTTA
1 ATTAAATTATTAAAAACT-GAA-AAATATTAAAATAATTAATTATTTA
26432695 ATT-AATTATT
1 ATTAAATTATT
26432705 TATTAAATCC
Statistics
Matches: 80, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
39 1 0.01
40 8 0.10
41 1 0.01
43 4 0.05
44 20 0.25
46 32 0.40
47 3 0.04
48 1 0.01
49 10 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (46 bp):
ATTAAATTATTAAAAACTGAAAAATATTAAAATAATTAATTATTTA
Found at i:26432656 original size:211 final size:212
Alignment explanation
Indices: 26432435--26432840 Score: 715
Period size: 211 Copynumber: 1.9 Consensus size: 212
26432425 TATTAAATAA
*
26432435 ATATTCAATTATTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAA
1 ATATTCAATTATTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
* *
26432500 AACCTAAGTCAAAATATTTAATTCAAAAAATTTAATTATTTCATTATATTTAAATAAATATTAAA
66 AACCTAAGTCAAAATATTTAATTCAAAAAATTAAATTATTTAATTATATTTAAATAAATATTAAA
*
26432565 TTATTAAAAACTGAA-AAATATTAAAATAATTAATTATTTAATTAATTATTTATTAAACCCTAAA
131 TTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAAACCCTAAA
26432629 TATTAAATTATTTAATT
196 TATTAAATTATTTAATT
26432646 ATATTCAATTATTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
1 ATATTCAATTATTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
* * * *
26432711 ATCCTAAGTCGAAATATTTATTTCAAAATATTAAATTATTTAATTATATTTAAATAAATATTAAA
66 AACCTAAGTCAAAATATTTAATTCAAAAAATTAAATTATTTAATTATATTTAAATAAATATTAAA
* *
26432776 TTATTAAAAGCAGAACAAATATTAAAATAATTAATTATTTAATTATTTATTTATTAAACCCTAAA
131 TTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAAACCCTAAA
26432841 CTCAAATATT
Statistics
Matches: 184, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
211 136 0.74
212 48 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (212 bp):
ATATTCAATTATTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
AACCTAAGTCAAAATATTTAATTCAAAAAATTAAATTATTTAATTATATTTAAATAAATATTAAA
TTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAAACCCTAAA
TATTAAATTATTTAATT
Found at i:26432698 original size:12 final size:12
Alignment explanation
Indices: 26432681--26432710 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26432671 AATATTAAAA
26432681 TAATTAATTATT
1 TAATTAATTATT
26432693 TAATTAATTATT
1 TAATTAATTATT
26432705 T-ATTAA
1 TAATTAA
26432711 ATCCTAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATTAATTATT
Found at i:26432748 original size:58 final size:59
Alignment explanation
Indices: 26432673--26432883 Score: 174
Period size: 58 Copynumber: 3.5 Consensus size: 59
26432663 ATAGAACAAA
26432673 TATT-AAAATAATTAATTATTTAATTA-ATTATTTATTAAATCCT-AAGTCGAAATATT
1 TATTCAAAATAATTAATTATTTAATTATATTATTTATTAAATCCTAAAGTCGAAATATT
* **
26432729 TATTTCAAAAT-ATTAAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAG-CAGAAC
1 TA-TTCAAAATAATT-AATTATTTAATTATA-TT--AT--TTATTAAA-TCCT-AAAGTC-GAA-
*
26432792 A-A-A
55 ATATT
* *
26432795 TATT-AAAATAATTAATTATTTAATTAT-TTATTTATTAAACCCTAAACTC-AAATATT
1 TATTCAAAATAATTAATTATTTAATTATATTATTTATTAAATCCTAAAGTCGAAATATT
26432851 TAATTCAAAAT-ATTAAATTATTTAATTATATTA
1 T-ATTCAAAATAATT-AATTATTTAATTATATTA
26432884 AATAAATATT
Statistics
Matches: 123, Mismatches: 10, Indels: 41
0.71 0.06 0.24
Matches are distributed among these distances:
54 1 0.01
55 3 0.02
56 6 0.05
57 13 0.11
58 44 0.36
59 4 0.03
60 4 0.03
62 4 0.03
64 26 0.21
65 7 0.06
66 3 0.02
67 7 0.06
68 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.45
Consensus pattern (59 bp):
TATTCAAAATAATTAATTATTTAATTATATTATTTATTAAATCCTAAAGTCGAAATATT
Found at i:26432919 original size:333 final size:330
Alignment explanation
Indices: 26432316--26432991 Score: 1023
Period size: 333 Copynumber: 2.1 Consensus size: 330
26432306 TATTAAATAA
** * *
26432316 ATATTAAATTATTAAAATAGAACTCAATTAAAGTAATTAATTATTTAATTAGTTATTTATTAAAT
1 ATATTAAATTATTAAAATAGAACAAAATTAAAATAATTAATTATTTAATTAATTATTTATTAAAT
*
26432381 CCTAAACTCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAAATATTCAATTA
66 CCTAAACTCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAAATATTAAATTA
* *
26432446 TTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCTAAGTCA
131 TTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCTAACTCA
* *
26432511 AAATATTTAATTCAAAAAATTTAATTATTTCATTATATTTAAATAAATATTAAATTATTAAAAAC
196 AAATATTTAATTCAAAAAATTAAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAAC
* *
26432576 TGAAAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAAACCCTAAATATTAAATTATT
261 TGAAAAATATTAAAATAATTAAGTATTCAATTAATTATTTATTAAACCCTAAATATTAAATTATT
26432641 TAATT
326 TAATT
*
26432646 ATATTCAATTATTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
1 ATATTAAATTATT-AAAATAGAACAAA-ATTAAAATAATTAATTATTTAATTAATTATTTATTAA
* *
26432711 ATCCT-AAGTCGAAATATTTATTTCAAAATATTAAATTATTTAATTATATTTAAATAAATATTAA
64 ATCCTAAACTC-AAATATTTAATTCAAAATATTAAATTATTTAATTATA-TTAAATAAATATTAA
* * *
26432775 ATTATTAAAAGCAGAACAAATATTAAAATAATTAATTATTTAATTATTTATTTATTAAACCCTAA
127 ATTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCT-A
* *
26432840 ACTC-AAATATTTAATTCAAAATATTAAATTATTTAATTATA-TTAAATAAATATTCAATTATTA
191 ACTCAAAATATTTAATTCAAAAAATTAAATTATTTAATTATATTTAAATAAATATTAAATTATTA
*
26432903 AAAA-TAGAATAAATATTAAAATAATTAAGTATTCAATTAGTTATTTATTAAACCCTAAATCA--
256 AAAACT-GAA-AAATATTAAAATAATTAAGTATTCAATTAATTATTTATTAAACCCTAAAT-ATT
26432965 AAA-TATTTAATT
318 AAATTATTTAATT
26432977 -TA--AAA-TATTAAAATA
1 ATATTAAATTATTAAAATA
26432992 TTAAATTATA
Statistics
Matches: 317, Mismatches: 21, Indels: 20
0.89 0.06 0.06
Matches are distributed among these distances:
326 6 0.02
327 4 0.01
328 2 0.01
330 14 0.04
331 25 0.08
332 107 0.34
333 154 0.49
334 5 0.02
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (330 bp):
ATATTAAATTATTAAAATAGAACAAAATTAAAATAATTAATTATTTAATTAATTATTTATTAAAT
CCTAAACTCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAAATATTAAATTA
TTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAGTTATTTATTAAAACCTAACTCA
AAATATTTAATTCAAAAAATTAAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAAC
TGAAAAATATTAAAATAATTAAGTATTCAATTAATTATTTATTAAACCCTAAATATTAAATTATT
TAATT
Found at i:26432950 original size:121 final size:121
Alignment explanation
Indices: 26432646--26433050 Score: 641
Period size: 121 Copynumber: 3.3 Consensus size: 121
26432636 TTATTTAATT
*
26432646 ATATTCAATTATTAAAAATAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
1 ATATTCAATTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
* * * *
26432711 ATCCTAAGTCGAAATATTTATTTCAAAATATTAAATTATTTAATTATATTTAAATAA
66 ACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTTAATTATA-TTAAATAA
* * *
26432768 ATATTAAATTATTAAAAGCAGAACAAATATTAAAATAATTAATTATTTAATTATTTATTTATTAA
1 ATATTCAATTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
26432833 ACCCTAAACTC-AAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAA
66 ACCCTAAA-TCAAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAA
* * * * *
26432889 ATATTCAATTATTAAAAATAGAATAAATATTAAAATAATTAAGTATTCAATTAGTTATTTATTAA
1 ATATTCAATTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
* * *
26432954 ACCCTAAATCAAAATATTTAATTTAAAATATTAAAATATTAAATTATATTAAATAA
66 ACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAA
26433010 ATATTCAATTATTAAAAACAGAACAAATATTAAAATAATTA
1 ATATTCAATTATTAAAAACAGAACAAATATTAAAATAATTA
26433051 CATATTAAAT
Statistics
Matches: 262, Mismatches: 19, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
120 2 0.01
121 155 0.59
122 103 0.39
123 2 0.01
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (121 bp):
ATATTCAATTATTAAAAACAGAACAAATATTAAAATAATTAATTATTTAATTAATTATTTATTAA
ACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTTAATTATATTAAATAA
Found at i:26432999 original size:58 final size:58
Alignment explanation
Indices: 26432797--26432987 Score: 158
Period size: 58 Copynumber: 3.2 Consensus size: 58
26432787 AGAACAAATA
26432797 TTAAAATAATTAATTATTTAATTATTTATTTATTAAACCCTAAACTC-AAATATTTAAT
1 TTAAAATAATTAATTATTTAATTA-TTATTTATTAAACCCTAAACTCAAAATATTTAAT
* * * *** * * * *
26432855 TCAAAAT-ATTAAATTATTTAATTA-TATTAAATAAATATTCAATTATTAAAAATAGAATAAAT
1 TTAAAATAATT-AATTATTTAATTATTATTTATTAAACCCT-AA--ACTCAAAAT--ATTTAAT
* *
26432917 ATTAAAATAATTAAGTATTCAATTAGTTATTTATTAAACCCTAAA-TCAAAATATTTAAT
1 -TTAAAATAATTAATTATTTAATTA-TTATTTATTAAACCCTAAACTCAAAATATTTAAT
26432976 TTAAAAT-ATTAA
1 TTAAAATAATTAA
26432988 AATATTAAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
56 10 0.10
57 10 0.10
58 26 0.26
59 7 0.07
60 4 0.04
61 6 0.06
62 6 0.06
63 17 0.17
64 5 0.05
65 10 0.10
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (58 bp):
TTAAAATAATTAATTATTTAATTATTATTTATTAAACCCTAAACTCAAAATATTTAAT
Found at i:26438773 original size:21 final size:22
Alignment explanation
Indices: 26438729--26438785 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
26438719 TACAACTTAG
* * *
26438729 AGCGGATGCAGCAGCGAGGAGA
1 AGCGGAGGAAGCAACGAGGAGA
*
26438751 AGCGGAGGTAGCAACGA-GAGA
1 AGCGGAGGAAGCAACGAGGAGA
*
26438772 AGCGAAGGAAGCAA
1 AGCGGAGGAAGCAA
26438786 AGGGAACAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.39, C:0.16, G:0.42, T:0.04
Consensus pattern (22 bp):
AGCGGAGGAAGCAACGAGGAGA
Found at i:26439164 original size:43 final size:43
Alignment explanation
Indices: 26439117--26439220 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
26439107 AAAACACCGC
*
26439117 TAAAGAACAT-TATCTATAGTGGCATTTGTGGGCAAAGCGTCGT
1 TAAAGAACATGT-TCTATAGCGGCATTTGTGGGCAAAGCGTCGT
* * * *
26439160 TAAAGACCATGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCT
1 TAAAGAACATGTTCTATAGCGGCATTTGTGGGCAAAGCGTCG-T
*
26439204 T-AAGACCATGTTCTATA
1 TAAAGAACATGTTCTATA
26439221 ACGACGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 50 0.94
44 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAAGAACATGTTCTATAGCGGCATTTGTGGGCAAAGCGTCGT
Found at i:26439229 original size:43 final size:43
Alignment explanation
Indices: 26439141--26439229 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
26439131 TATAGTGGCA
* * * *
26439141 TTTGTGGGCAAAGCGTCGTTAAAGACCATGTTCTTTAGCGGCG
1 TTTGTGGGCAAAGCGCCGTTAAAGACCATGTTCTATAACGACG
26439184 TTTGTGGGCAAAGCGCCGCTT-AAGACCATGTTCTATAACGACG
1 TTTGTGGGCAAAGCGCCG-TTAAAGACCATGTTCTATAACGACG
26439227 TTT
1 TTT
26439230 TTCCTCATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 39 0.95
44 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
TTTGTGGGCAAAGCGCCGTTAAAGACCATGTTCTATAACGACG
Found at i:26441794 original size:80 final size:80
Alignment explanation
Indices: 26441653--26441959 Score: 339
Period size: 80 Copynumber: 3.8 Consensus size: 80
26441643 ATATTGACTG
* * * * * * *
26441653 TATGGTCCCTCCGATGGTTGAGATCCTGCATATGCTACGGACTCTTAACAGCTTGTATGAGCAGC
1 TATGGACCCTCCGATGGCTGAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTGAGCAGC
26441718 ATCGAGAGTGGGTGA
66 ATCGAGAGTGGGTGA
* * ** *
26441733 TATAGACCCTCCGATGGTTGAGATCCTACATATGTTGTGGATTCTTGACAGCTTGTGTGAGCAAC
1 TATGGACCCTCCGATGGCTGAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTGAGCAGC
26441798 ATCGAGAGTGGGTGTTACA
66 ATCGAGAGTGGGTG----A
* * * *
26441817 TTTATGGACCCTCCGATGGCTGAGATCCCACATATGTTGCGGATTTTTGACAGCTTGTGTGGGCA
1 --TATGGACCCTCCGATGGCTGAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTGAGCA
*
26441882 GCATC-ATGAGT-GGTAA
64 GCATCGA-GAGTGGGTGA
* * * *
26441898 TATGGTCCGTATCGATGGCTGAGATCCTACATATGTTATGGATTCTTGACAGCTTGTGTGAG
1 TATGGACCCT-CCGATGGCTGAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTGAG
26441960 AATCATCGTA
Statistics
Matches: 193, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
79 8 0.04
80 114 0.59
81 1 0.01
84 1 0.01
85 4 0.02
86 65 0.34
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (80 bp):
TATGGACCCTCCGATGGCTGAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTGAGCAGC
ATCGAGAGTGGGTGA
Found at i:26441933 original size:166 final size:166
Alignment explanation
Indices: 26441653--26441967 Score: 420
Period size: 166 Copynumber: 1.9 Consensus size: 166
26441643 ATATTGACTG
* * **
26441653 TATGGTCCCTCCGATGGTTGAGATCCTGCATATGCTACGGACTCTTAACAGCTTGTATGAGCAGC
1 TATGGACCCTCCGATGGCTGAGATCCCACATATGCTACGGACTCTTAACAGCTTGTATGAGCAGC
* * *
26441718 ATCGAGAGTGGGTGATATAGACCCTCCGATGGTTGAGATCCTACATATGTTGTGGATTCTTGACA
66 ATCGAGAGTGGGTAATATAGACCCTCCGATGGCTGAGATCCTACATATGTTATGGATTCTTGACA
26441783 GCTTGTGTGAGCAA-CATCGAGAGTGGGTGTTACATT
131 GCTTGTGTGAG-AATCATCGAGAGTGGGTGTTACATT
* * * * * * *
26441819 TATGGACCCTCCGATGGCTGAGATCCCACATATGTTGCGGATTTTTGACAGCTTGTGTGGGCAGC
1 TATGGACCCTCCGATGGCTGAGATCCCACATATGCTACGGACTCTTAACAGCTTGTATGAGCAGC
* * * *
26441884 ATC-ATGAGT-GGTAATATGGTCCGTATCGATGGCTGAGATCCTACATATGTTATGGATTCTTGA
66 ATCGA-GAGTGGGTAATATAGACCCT-CCGATGGCTGAGATCCTACATATGTTATGGATTCTTGA
26441947 CAGCTTGTGTGAGAATCATCG
129 CAGCTTGTGTGAGAATCATCG
26441968 TATACTGGTT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
165 14 0.11
166 114 0.89
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (166 bp):
TATGGACCCTCCGATGGCTGAGATCCCACATATGCTACGGACTCTTAACAGCTTGTATGAGCAGC
ATCGAGAGTGGGTAATATAGACCCTCCGATGGCTGAGATCCTACATATGTTATGGATTCTTGACA
GCTTGTGTGAGAATCATCGAGAGTGGGTGTTACATT
Found at i:26445662 original size:20 final size:20
Alignment explanation
Indices: 26445633--26445671 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26445623 CAAGAAGTAA
*
26445633 TGGACGACAATAGAGATCTT
1 TGGACAACAATAGAGATCTT
*
26445653 TGGACAACAATGGAGATCT
1 TGGACAACAATAGAGATCT
26445672 ATTTTTGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (20 bp):
TGGACAACAATAGAGATCTT
Found at i:26449409 original size:21 final size:21
Alignment explanation
Indices: 26449385--26449435 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
26449375 TGAGACAATA
26449385 CTACCGATACAAGTG-AGACTT
1 CTACCGATACAAGTGAAG-CTT
* * *
26449406 CTACCGAAACATGTTAAGCTT
1 CTACCGATACAAGTGAAGCTT
26449427 CTACCGATA
1 CTACCGATA
26449436 TTAAAAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
CTACCGATACAAGTGAAGCTT
Found at i:26459129 original size:21 final size:22
Alignment explanation
Indices: 26459096--26459139 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
26459086 AAGATAAAAA
* *
26459096 TATTCTGATAAAAATAAT-TGT
1 TATTCTGAAAAAAAAAATGTGT
*
26459117 TATTTTGAAAAAAAAAATGTGT
1 TATTCTGAAAAAAAAAATGTGT
26459139 T
1 T
26459140 TTTGATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (22 bp):
TATTCTGAAAAAAAAAATGTGT
Found at i:26465700 original size:25 final size:26
Alignment explanation
Indices: 26465656--26465711 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
26465646 GTATTTTTTA
26465656 CAAAAAAAAAAATCTAAAATT-AATT
1 CAAAAAAAAAAATCTAAAATTAAATT
26465681 CAAAAAAGAAAAA-C-ATAAATTAAATT
1 CAAAAAA-AAAAATCTA-AAATTAAATT
26465707 -AAAAA
1 CAAAAA
26465712 TGGTTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 1 0.04
25 18 0.64
26 9 0.32
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (26 bp):
CAAAAAAAAAAATCTAAAATTAAATT
Found at i:26465761 original size:20 final size:18
Alignment explanation
Indices: 26465714--26465761 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
26465704 ATTAAAAATG
26465714 GTTTTTCCTAAAACCCAA
1 GTTTTTCCTAAAACCCAA
* *
26465732 GTAATTTCCTATAAAGCCTAA
1 GT-TTTTCCTA-AAA-CCCAA
26465753 GTTTTTCCT
1 GTTTTTCCT
26465762 TTTTATTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.08
19 7 0.29
20 9 0.38
21 6 0.25
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (18 bp):
GTTTTTCCTAAAACCCAA
Found at i:26469191 original size:17 final size:17
Alignment explanation
Indices: 26469113--26469196 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
26469103 TTAGATTTTT
* *
26469113 AATTCATTTTAAGTTTA
1 AATTTATTTTAAATTTA
*
26469130 AATTTATTATAAATTTAA
1 AATTTATTTTAAATTT-A
* * ** * *
26469148 AACTTGTTTGGAGTTTG
1 AATTTATTTTAAATTTA
26469165 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
26469182 AATTTATTTTGAAAT
1 AATTTATTTT-AAAT
26469197 GAAAATTTAA
Statistics
Matches: 49, Mismatches: 16, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
17 34 0.69
18 15 0.31
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.52
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:26469202 original size:18 final size:17
Alignment explanation
Indices: 26469165--26469205 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
26469155 TTGGAGTTTG
**
26469165 AATTTATTTTAAATTTA
1 AATTTATTTTAAATGAA
26469182 AATTTATTTTGAAATGAA
1 AATTTATTTT-AAATGAA
26469200 AATTTA
1 AATTTA
26469206 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
AATTTATTTTAAATGAA
Found at i:26469707 original size:27 final size:25
Alignment explanation
Indices: 26469637--26469725 Score: 90
Period size: 27 Copynumber: 3.4 Consensus size: 25
26469627 CGGGTCTAAA
* *
26469637 AAAATCAATAAAAAACCCATCTTTG
1 AAAATCAATAACAAACCCTTCTTTG
*
26469662 AAAACCCAATACACAAACCCTTCTTTG
1 AAAA-TCAATA-ACAAACCCTTCTTTG
*
26469689 AAAATCAATAGACAGAACCCATTC-TGG
1 AAAATCAATA-ACA-AACCC-TTCTTTG
26469716 AAAATCAATA
1 AAAATCAATA
26469726 CATTATCCGT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.07
26 13 0.24
27 34 0.63
28 3 0.06
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (25 bp):
AAAATCAATAACAAACCCTTCTTTG
Found at i:26471274 original size:30 final size:29
Alignment explanation
Indices: 26471240--26471470 Score: 168
Period size: 30 Copynumber: 7.7 Consensus size: 29
26471230 CCAAACTATC
*
26471240 CAAAAATAGTATTTTGACCCTAAAACTTTT
1 CAAAATTA-TATTTTGACCCTAAAACTTTT
* *
26471270 CAAAAATTACATTTTAACCCCT-AAACTTTT
1 C-AAAATTATATTTTGA-CCCTAAAACTTTT
* * *
26471300 CCAAAATTATACTTTAATCCTAAAACTTTTT
1 -CAAAATTATATTTTGACCCTAAAAC-TTTT
** *
26471331 GTAAATTACATTTTGACCCCT-AAACTTTT
1 CAAAATTATATTTTGA-CCCTAAAACTTTT
26471360 CTAAAATTATATTTTGATCCC-AATAA--TTT
1 C-AAAATTATATTTTGA-CCCTAA-AACTTTT
* *
26471389 CTATAAATTACATTTTGACCCTTAAACTTCTT
1 C-A-AAATTATATTTTGACCCTAAAACTT-TT
*
26471421 CAAAATTATATTTTGACCCCAAAAC-TTT
1 CAAAATTATATTTTGACCCTAAAACTTTT
* *
26471449 CTAAGAATTACATTTTTACCCT
1 C-AA-AATTATATTTTGACCCT
26471471 CGAACTTTCC
Statistics
Matches: 161, Mismatches: 24, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
28 3 0.02
29 21 0.13
30 112 0.70
31 22 0.14
32 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.40
Consensus pattern (29 bp):
CAAAATTATATTTTGACCCTAAAACTTTT
Found at i:26471322 original size:60 final size:60
Alignment explanation
Indices: 26471238--26471469 Score: 265
Period size: 60 Copynumber: 3.9 Consensus size: 60
26471228 CCCCAAACTA
* *
26471238 TCCAAAAATAGTATTTTGA-CCCTAAAACTTT-TCAAAAATTACATTTTAACCCCTAAACTTT
1 TCCAAAATTA-TATTTTGATCCC-AAAACTTTCT-AAAAATTACATTTTGACCCCTAAACTTT
* * * * **
26471299 TCCAAAATTATACTTTAATCCTAAAACTTTTTGTAAATTACATTTTGACCCCTAAACTTT
1 TCCAAAATTATATTTTGATCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTT
* * *
26471359 TCTAAAATTATATTTTGATCCCAATAA-TTTCTATAAATTACATTTTGACCCTTAAACTTCT
1 TCCAAAATTATATTTTGATCCCAA-AACTTTCTAAAAATTACATTTTGACCCCTAAACTT-T
* * *
26471420 T-CAAAATTATATTTTGACCCCAAAACTTTCTAAGAATTACATTTTTACCC
1 TCCAAAATTATATTTTGATCCCAAAACTTTCTAAAAATTACATTTTGACCC
26471470 TCGAACTTTC
Statistics
Matches: 147, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.01
60 129 0.88
61 16 0.11
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.40
Consensus pattern (60 bp):
TCCAAAATTATATTTTGATCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTT
Found at i:26471397 original size:90 final size:90
Alignment explanation
Indices: 26471250--26471469 Score: 223
Period size: 90 Copynumber: 2.4 Consensus size: 90
26471240 CAAAAATAGT
* * *
26471250 ATTTTGA-CCCTAAAACTTTTCAAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTATACTT
1 ATTTTGACCCCT-AAACTTTTCTAAAATTACATTTTAACCCCTAAACATTTCCAAAATTACACTT
* * **
26471314 TAATCCTAAAACTTTTTGTAAATTAC
65 TAACCCTAAAACTTCTTCAAAATTAC
* * * * *
26471340 ATTTTGACCCCTAAACTTTTCTAAAATTATATTTTGATCCC-AATA-ATTTCTATAAATTACATT
1 ATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAA-ACATTTCCA-AAATTACACT
* * *
26471403 TTGACCCTTAAACTTCTTCAAAATTAT
64 TTAACCCTAAAACTTCTTCAAAATTAC
* *
26471430 ATTTTGACCCCAAAAC-TTTCTAAGAATTACATTTTTACCC
1 ATTTTGACCCCTAAACTTTTCTAA-AATTACATTTTAACCC
26471470 TCGAACTTTC
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
89 14 0.13
90 89 0.83
91 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.41
Consensus pattern (90 bp):
ATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACATTTCCAAAATTACACTTT
AACCCTAAAACTTCTTCAAAATTAC
Found at i:26471530 original size:59 final size:59
Alignment explanation
Indices: 26471454--26471648 Score: 239
Period size: 59 Copynumber: 3.3 Consensus size: 59
26471444 ACTTTCTAAG
* * *
26471454 AATTACATTTTTACCCTCGAACTTTCCAAGACTCCGTTTTTGACCTCGATTTCACCAAA
1 AATTACATTTTTACCCTCAAACTTTCCAAAATTCCGTTTTTGACCTCGATTTCACCAAA
* * * *
26471513 AATTACATTTTTACCCTCAAACTTTCCAAAATTCCGTTTTTGACTTCTATTTCATCGAA
1 AATTACATTTTTACCCTCAAACTTTCCAAAATTCCGTTTTTGACCTCGATTTCACCAAA
* * * * ** * *
26471572 AATTATATTTTTGCCCCCAAAATTTCCAAAATTCTATTTTTAACCTCGATTTTACCAAA
1 AATTACATTTTTACCCTCAAACTTTCCAAAATTCCGTTTTTGACCTCGATTTCACCAAA
26471631 AATTACCA-TTTTACCCTC
1 AATTA-CATTTTTACCCTC
26471649 GAAAGTCTGA
Statistics
Matches: 113, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
59 112 0.99
60 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (59 bp):
AATTACATTTTTACCCTCAAACTTTCCAAAATTCCGTTTTTGACCTCGATTTCACCAAA
Found at i:26471542 original size:30 final size:30
Alignment explanation
Indices: 26471231--26471543 Score: 153
Period size: 30 Copynumber: 10.5 Consensus size: 30
26471221 TGGAAGTCCC
* *
26471231 CAAACTATCCAAAAA-TAGTATTTTGACCCT
1 CAAACTTTCCAAAAATTA-CATTTTGACCCT
* * *
26471261 AAAACTTTTCAAAAATTACATTTTAACCC-
1 CAAACTTTCCAAAAATTACATTTTGACCCT
* * * *
26471290 CTAAACTTTTCC-AAAATTATACTTTAATCCT
1 C-AAAC-TTTCCAAAAATTACATTTTGACCCT
* ****
26471321 AAAACTTTTTGTAAATTACATTTTGACCC-
1 CAAACTTTCCAAAAATTACATTTTGACCCT
* * * *
26471350 CTAAACTTTTCTAAAATTATATTTTGATCC-
1 C-AAACTTTCCAAAAATTACATTTTGACCCT
* * *
26471380 CAATAATTTCTATAAATTACATTTTGACCCT
1 CAA-ACTTTCCAAAAATTACATTTTGACCCT
* * *
26471411 TAAACTTCTTC-AAAATTATATTTTGACCC-
1 CAAACTT-TCCAAAAATTACATTTTGACCCT
* * *
26471440 CAAAACTTTCTAAGAATTACATTTTTACCCT
1 C-AAACTTTCCAAAAATTACATTTTGACCCT
* * * * *
26471471 CGAACTTTCC-AAGACTCCGTTTTTGA-CCT
1 CAAACTTTCCAAAAATTAC-ATTTTGACCCT
* *
26471500 C-GA-TTTCACCAAAAATTACATTTTTACCCT
1 CAAACTTT--CCAAAAATTACATTTTGACCCT
26471530 CAAACTTTCCAAAA
1 CAAACTTTCCAAAA
26471544 TTCCGTTTTT
Statistics
Matches: 206, Mismatches: 58, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
27 3 0.01
28 1 0.00
29 21 0.10
30 167 0.81
31 11 0.05
32 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.38
Consensus pattern (30 bp):
CAAACTTTCCAAAAATTACATTTTGACCCT
Found at i:26475202 original size:7 final size:7
Alignment explanation
Indices: 26475190--26475236 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
26475180 TTAAAAAAAT
26475190 AATTGAG
1 AATTGAG
26475197 AATTGAG
1 AATTGAG
*
26475204 AATTGAA
1 AATTGAG
*
26475211 AATTTAG
1 AATTGAG
*
26475218 AAATGAG
1 AATTGAG
26475225 AATTGAG
1 AATTGAG
*
26475232 GATTG
1 AATTG
26475237 CGGATTGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:26475219 original size:21 final size:21
Alignment explanation
Indices: 26475190--26475230 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26475180 TTAAAAAAAT
*
26475190 AATTGAGAATTGAGAATTGAA
1 AATTGAGAAATGAGAATTGAA
*
26475211 AATTTAGAAATGAGAATTGA
1 AATTGAGAAATGAGAATTGA
26475231 GGATTGCGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (21 bp):
AATTGAGAAATGAGAATTGAA
Found at i:26486482 original size:5 final size:5
Alignment explanation
Indices: 26486472--26486513 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
26486462 AGCTCTCACA
26486472 CCACC CCACC CCACC CCACC CCACC CCACC CCACC CC-CC CCA
1 CCACC CCACC CCACC CCACC CCACC CCACC CCACC CCACC CCA
26486514 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.19, C:0.81, G:0.00, T:0.00
Consensus pattern (5 bp):
CCACC
Found at i:26489065 original size:4 final size:4
Alignment explanation
Indices: 26489056--26489104 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
26489046 AAAATTGTAT
26489056 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26489104 A
1 A
26489105 CTTGAGTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:26497145 original size:3 final size:3
Alignment explanation
Indices: 26497137--26497162 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26497127 CGGTGAATTC
26497137 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
26497163 CACTTCTTTG
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:26498460 original size:47 final size:47
Alignment explanation
Indices: 26498387--26498485 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
26498377 TTTAATCTTG
*
26498387 TTTTAAAGTTTAATTCAACCTGATTTAATTTTACTTTCCTATTTAAA
1 TTTTAAAGTTTAATTCAACCTAATTTAATTTTACTTTCCTATTTAAA
**
26498434 TTTTAAAGTTTAATTCCGCCTAATTTAATTTTACTTTCCTATTTAAA
1 TTTTAAAGTTTAATTCAACCTAATTTAATTTTACTTTCCTATTTAAA
26498481 TTTTA
1 TTTTA
26498486 TTATTTTTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (47 bp):
TTTTAAAGTTTAATTCAACCTAATTTAATTTTACTTTCCTATTTAAA
Found at i:26500635 original size:28 final size:27
Alignment explanation
Indices: 26500602--26500674 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
26500592 CATAGAATAG
26500602 AAAGCTCGCACAAAGCAGAGCCAAACA
1 AAAGCTCGCACAAAGCAGAGCCAAACA
* *
26500629 GAGAGCTTGCACAAAGCAGAGCCAAACA
1 -AAAGCTCGCACAAAGCAGAGCCAAACA
*
26500657 AAAGGCTCTCACAAAGCA
1 AAA-GCTCGCACAAAGCA
26500675 AAGCTAAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.45, C:0.27, G:0.21, T:0.07
Consensus pattern (27 bp):
AAAGCTCGCACAAAGCAGAGCCAAACA
Found at i:26503919 original size:16 final size:17
Alignment explanation
Indices: 26503898--26503934 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
26503888 AAATGGGATG
26503898 AAATAAATTT-TTAATT
1 AAATAAATTTATTAATT
26503914 AAATAAATTTAATTAATT
1 AAATAAATTT-ATTAATT
26503932 AAA
1 AAA
26503935 AATTTAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAAATTTATTAATT
Found at i:26503989 original size:11 final size:11
Alignment explanation
Indices: 26503973--26504008 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
26503963 CCTCCTCTTT
26503973 TTTTAGTTTTC
1 TTTTAGTTTTC
26503984 TTTTAGTATTT-
1 TTTTAGT-TTTC
26503995 TTTTAGTTTTC
1 TTTTAGTTTTC
26504006 TTT
1 TTT
26504009 CTCATTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.11, C:0.06, G:0.08, T:0.75
Consensus pattern (11 bp):
TTTTAGTTTTC
Done.