Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 113 of 182
Found at i:36821981 original size:21 final size:21
Alignment explanation
Indices: 36821940--36822008 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
36821930 GGAGTTTTTA
36821940 GTATCGGTAGAAGTAAG--ACTT
1 GTATCGGTAGAAG--AGTCACTT
36821961 GTATCGGTAGAAGAGTCACTT
1 GTATCGGTAGAAGAGTCACTT
* **
36821982 GTATCGATAGAACCGTCACTT
1 GTATCGGTAGAAGAGTCACTT
36822003 GTATCG
1 GTATCG
36822009 ATAAGAATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.05
21 41 0.95
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (21 bp):
GTATCGGTAGAAGAGTCACTT
Found at i:36822009 original size:21 final size:21
Alignment explanation
Indices: 36821957--36822011 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
36821947 TAGAAGTAAG
* *
36821957 ACTTGTATCGGTAGAAGAGTC
1 ACTTGTATCGATAGAACAGTC
*
36821978 ACTTGTATCGATAGAACCGTC
1 ACTTGTATCGATAGAACAGTC
36821999 ACTTGTATCGATA
1 ACTTGTATCGATA
36822012 AGAATCTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (21 bp):
ACTTGTATCGATAGAACAGTC
Found at i:36822904 original size:47 final size:47
Alignment explanation
Indices: 36822831--36822978 Score: 137
Period size: 47 Copynumber: 3.2 Consensus size: 47
36822821 GTTGTCATTC
* *
36822831 TATT-ATTCTG-TATT-AGAATATGATTATGTCTAATTCTATATATCTG
1 TATTGATTCTGTTATTCAGAAT-T-ATTATGTCTGATTCTGTATATCTG
36822877 TATTGATTCTGTTATTCAGAATTATTATG-CTCGATTCTGTATAT-TCG
1 TATTGATTCTGTTATTCAGAATTATTATGTCT-GATTCTGTATATCT-G
* * * * * *
36822924 TATTGCTTTTGTTATTC-GAGATAAGTATGTCTGATTCTGTTTATCTA
1 TATTGATTCTGTTATTCAGA-ATTATTATGTCTGATTCTGTATATCTG
36822971 TATTGATT
1 TATTGATT
36822979 TTTTCATCTG
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
46 9 0.11
47 63 0.74
48 8 0.09
49 5 0.06
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (47 bp):
TATTGATTCTGTTATTCAGAATTATTATGTCTGATTCTGTATATCTG
Found at i:36824889 original size:18 final size:16
Alignment explanation
Indices: 36824847--36824890 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
36824837 GATGATGAAC
36824847 AATAATAATAATTTTA
1 AATAATAATAATTTTA
36824863 AA-AATAATAATTTAATA
1 AATAATAATAATTT--TA
*
36824880 AATAAAAATAA
1 AATAATAATAA
36824891 GCTAGAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 2 0.08
17 4 0.17
18 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAATAATAATTTTA
Found at i:36826083 original size:41 final size:41
Alignment explanation
Indices: 36826026--36826109 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
36826016 ATCGTGCTGT
36826026 TTGGAAGAAGCAGAGGCAATATTAATAATATCAGATAAGTC
1 TTGGAAGAAGCAGAGGCAATATTAATAATATCAGATAAGTC
36826067 TTGGAAGAAGCAGAGGCAATATTAATAATATCAGATAAGTC
1 TTGGAAGAAGCAGAGGCAATATTAATAATATCAGATAAGTC
36826108 TT
1 TT
36826110 TAAAGAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (41 bp):
TTGGAAGAAGCAGAGGCAATATTAATAATATCAGATAAGTC
Found at i:36827699 original size:28 final size:28
Alignment explanation
Indices: 36827668--36827735 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
36827658 AACTATCATC
* *
36827668 TAAAAAAAGAAAGTTGAAATATATTATA
1 TAAAAAAAGAAAGTTAAAATATATGATA
* ***
36827696 TAAATATTTAAAGTTAAAATATATGATA
1 TAAAAAAAGAAAGTTAAAATATATGATA
*
36827724 TGAAAAAAGAAA
1 TAAAAAAAGAAA
36827736 TGAAAAAGGA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.29
Consensus pattern (28 bp):
TAAAAAAAGAAAGTTAAAATATATGATA
Found at i:36827822 original size:123 final size:120
Alignment explanation
Indices: 36827689--36828049 Score: 653
Period size: 116 Copynumber: 3.0 Consensus size: 120
36827679 AGTTGAAATA
36827689 TATTATATAAATATTTAAAGTTAAAATATATGATATGAAAAAAGAAATGAAAAAGGAAATATTTA
1 TATTATATAAATATTTAAAGTTAAAATATATGATATGAAAAAA-AAAT-AAAAA-GAAATATTTA
36827754 TTTAAAGTTAAAAAGTTAAAATATATGATATGGAAAAAAATAAAGAAAGAAATAATTT
63 TTTAAAGTTAAAAAGTTAAAATATATGATATGGAAAAAAATAAAGAAAGAAATAATTT
36827812 TATTATATAAATATTTAAAGTTAAAATATATGATATGAAAAAAAAATAAAAA-AAATATTTATTT
1 TATTATATAAATATTTAAAGTTAAAATATATGATATGAAAAAAAAATAAAAAGAAATATTTATTT
36827876 AAAGTTAAAAAGTTAAAATATATGATATGG-AAAAAATAAAGAAAGAAATAATTT
66 AAAGTTAAAAAGTTAAAATATATGATATGGAAAAAAATAAAGAAAGAAATAATTT
36827930 TATTATATAAATATTTAAAGTTAAAATATATGATATG--AAAAAAA-AAAAAGAAATATTTATTT
1 TATTATATAAATATTTAAAGTTAAAATATATGATATGAAAAAAAAATAAAAAGAAATATTTATTT
36827992 AAAGTTAAAAAGTTAAAATATATGATAT-GAAAAAAATAAAGAAAGAAATAATTT
66 AAAGTTAAAAAGTTAAAATATATGATATGGAAAAAAATAAAGAAAGAAATAATTT
36828046 TATT
1 TATT
36828050 TAATGTTCAA
Statistics
Matches: 236, Mismatches: 0, Indels: 11
0.96 0.00 0.04
Matches are distributed among these distances:
115 6 0.03
116 75 0.32
118 61 0.26
119 42 0.18
121 5 0.02
122 4 0.02
123 43 0.18
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (120 bp):
TATTATATAAATATTTAAAGTTAAAATATATGATATGAAAAAAAAATAAAAAGAAATATTTATTT
AAAGTTAAAAAGTTAAAATATATGATATGGAAAAAAATAAAGAAAGAAATAATTT
Found at i:36832757 original size:36 final size:36
Alignment explanation
Indices: 36832642--36832758 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 36
36832632 CTATGCGACA
36832642 TTAATTTTTTTATGATTTTTATAAAATTT--TACAATTT
1 TTAA-TTTTTTAT-ATTTTTATAAAATTTAATA-AATTT
* * *
36832679 TTATTTTTTTACAATTTTTATAAAAAATTCTAAATTCTAATTT
1 TTAATTTTTTA-TATTTTTAT--AAAATT-T-AA-T-AAATTT
*
36832722 TTAATTTTTTATATTTTTATTAAATTTAATAAATTT
1 TTAATTTTTTATATTTTTATAAAATTTAATAAATTT
36832758 T
1 T
36832759 CTAAAATTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
36 21 0.33
37 4 0.06
38 8 0.12
39 2 0.03
40 5 0.08
42 8 0.12
43 16 0.25
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (36 bp):
TTAATTTTTTATATTTTTATAAAATTTAATAAATTT
Found at i:36832920 original size:86 final size:84
Alignment explanation
Indices: 36832818--36832997 Score: 236
Period size: 87 Copynumber: 2.1 Consensus size: 84
36832808 ATAAGAGCAT
* * * *
36832818 GGACTTAATTGC-TTTTTTGAAAAATTTTGAGGGTCTTTTTAATACATTTTGAAAGTTTAAGTAC
1 GGACTTAATTGCTTTTTTTGAAAAAGTTTGAGGGACTTTTTAATACATTTTGAAAGTTCAAATAC
36832882 CCAATTGAGTGGAAAAAAATA
66 CCAATTGAGT--AAAAAAATA
* * * * *
36832903 GGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGACTTTTTTATGCATTTTGAAAGTTCAAATG
1 -GGACTTAATTGCTTTTTTTGAAAAAGTTTGAGGGACTTTTTAATACATTTTGAAAGTTCAAATA
*
36832968 CTCAATTGAGTAAAAAAATA
65 CCCAATTGAGTAAAAAAATA
36832988 GGACTTAATT
1 GGACTTAATT
36832998 ATTATTTTCT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
84 9 0.11
85 9 0.11
86 11 0.13
87 53 0.65
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (84 bp):
GGACTTAATTGCTTTTTTTGAAAAAGTTTGAGGGACTTTTTAATACATTTTGAAAGTTCAAATAC
CCAATTGAGTAAAAAAATA
Found at i:36833377 original size:34 final size:34
Alignment explanation
Indices: 36833332--36833398 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
36833322 TTTTTAAATA
*
36833332 AGTTTGAATTTA-TTTTAAATTCAAATTCATTTTG
1 AGTTTGAATTTACTTTAAAATT-AAATTCATTTTG
* *
36833366 AGTTTGGATTTACTTTAAAATTAAATTTATTTT
1 AGTTTGAATTTACTTTAAAATTAAATTCATTTT
36833399 TAAATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 21 0.72
35 8 0.28
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAAATTAAATTCATTTTG
Found at i:36833403 original size:17 final size:17
Alignment explanation
Indices: 36833373--36833407 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36833363 TTGAGTTTGG
36833373 ATTTACTTTAAAATTAA
1 ATTTACTTTAAAATTAA
* *
36833390 ATTTATTTTTAAATTAA
1 ATTTACTTTAAAATTAA
36833407 A
1 A
36833408 ATTAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTACTTTAAAATTAA
Found at i:36834240 original size:3 final size:3
Alignment explanation
Indices: 36834226--36834282 Score: 78
Period size: 3 Copynumber: 18.3 Consensus size: 3
36834216 TAAGTTCTTT
* *
36834226 ATA ATA ATTA ATA ATA ATA ATA ATA ATA ATA GTA ATAA ATA ATA TTA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
36834273 ATA ATA ATA A
1 ATA ATA ATA A
36834283 AAAAGAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:36835334 original size:30 final size:28
Alignment explanation
Indices: 36835298--36835418 Score: 136
Period size: 30 Copynumber: 4.1 Consensus size: 28
36835288 CCCTGAAAGT
36835298 CCCTAAACTATCCAAAAATTACATTTTTAA
1 CCCTAAACT-TCCAAAAATTACATTTTT-A
*
36835328 CCCTAAAACTTCCAAAAATTATATTTTTA
1 CCCT-AAACTTCCAAAAATTACATTTTTA
*
36835357 CCCTTAAACTTCCAAAAATTTCATTTTTGA
1 CCC-TAAACTTCCAAAAATTACATTTTT-A
* *
36835387 CCTCGAAACTTACAAAAATTACCA-TTTTA
1 CC-CTAAACTTCCAAAAATTA-CATTTTTA
36835416 CCC
1 CCC
36835419 CCGGATGTCT
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.01
29 28 0.35
30 43 0.54
31 8 0.10
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.35
Consensus pattern (28 bp):
CCCTAAACTTCCAAAAATTACATTTTTA
Found at i:36835415 original size:59 final size:60
Alignment explanation
Indices: 36835301--36835418 Score: 152
Period size: 59 Copynumber: 2.0 Consensus size: 60
36835291 TGAAAGTCCC
* *
36835301 TAAACTATCCAAAAATTACATTTTTAACCCTAAAACTTCCAAAAATTATATTTTTACCCT
1 TAAACTATCCAAAAATTACATTTTTAACCCTAAAACTTACAAAAATTACATTTTTACCCT
* * *
36835361 TAAACT-TCCAAAAATTTCATTTTTGA-CCTCGAAACTTACAAAAATTACCA-TTTTACCC
1 TAAACTATCCAAAAATTACATTTTTAACCCT-AAAACTTACAAAAATTA-CATTTTTACCC
36835419 CCGGATGTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
58 3 0.06
59 41 0.80
60 7 0.14
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.36
Consensus pattern (60 bp):
TAAACTATCCAAAAATTACATTTTTAACCCTAAAACTTACAAAAATTACATTTTTACCCT
Found at i:36835463 original size:58 final size:58
Alignment explanation
Indices: 36835399--36835677 Score: 176
Period size: 58 Copynumber: 4.7 Consensus size: 58
36835389 TCGAAACTTA
* *
36835399 CAAAAATTACCATTTTACCCCCGGATGTCTAAAATAT-CATTTTTAGCCCCAAATTTTC
1 CAAAAATTACCATTTTACCCCCGAATGTCCAAAA-ATCCATTTTTAGCCCCAAATTTTC
* * * * * **
36835457 CCAAAATTA-TATTTTTGCCCCCAAAT-TCCAAAAATTCCATTTTT-GACCTCAAAAAATT-
1 CAAAAATTACCA-TTTTACCCCCGAATGTCCAAAAA-TCCATTTTTAG-CC-CCAAATTTTC
* * ** *** *
36835515 CAAAAATTACCATTTTACCCCCGGATGTCCAAAAATCCCGTTTTTAATCTTGATTTTTC
1 CAAAAATTACCATTTTACCCCCGAATGTCCAAAAAT-CCATTTTTAGCCCCAAATTTTC
* * * *
36835574 TAAAAATTA-CATTTTTACCCCCGAATGTCC-AAAATGTCATTTTTAACCCCCCAAACTTTC
1 CAAAAATTACCA-TTTTACCCCCGAATGTCCAAAAAT-CCATTTTT-A-GCCCCAAATTTTC
** * * *
36835634 CCCAAATTACCATTTTACCCCCAAAAGTCCAAAATTACCATTTT
1 CAAAAATTACCATTTTACCCCCGAATGTCCAAAAAT-CCATTTT
36835678 ACCCCCTGGT
Statistics
Matches: 163, Mismatches: 43, Indels: 27
0.70 0.18 0.12
Matches are distributed among these distances:
56 1 0.01
57 9 0.06
58 64 0.39
59 49 0.30
60 28 0.17
61 12 0.07
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCGAATGTCCAAAAATCCATTTTTAGCCCCAAATTTTC
Found at i:36835519 original size:116 final size:117
Alignment explanation
Indices: 36835319--36835548 Score: 329
Period size: 116 Copynumber: 2.0 Consensus size: 117
36835309 CCAAAAATTA
* ** *
36835319 CATTTTTAACCCTAAAACTTCCAAAAATTATATTTTTACCCTTAAACTTCCAAAAATTTCATTTT
1 CATTTTTAACCCCAAAACTTCCAAAAATTATATTTTTACCCCCAAACTTCCAAAAATTCCATTTT
* * *
36835384 TGACCTCGAAACTTACAAAAATTACCATTTTACCCCCGGATGTCTAAAATAT
66 TGACCTCAAAAATTACAAAAATTACCATTTTACCCCCGGATGTCCAAAATAT
* ** * *
36835436 CATTTTTAGCCCCAAATTTTCCCAAAATTATATTTTTGCCCCCAAA-TTCCAAAAATTCCATTTT
1 CATTTTTAACCCCAAAACTTCCAAAAATTATATTTTTACCCCCAAACTTCCAAAAATTCCATTTT
36835500 TGACCTCAAAAAATT-CAAAAATTACCATTTTACCCCCGGATGTCCAAAA
66 TGACCTC-AAAAATTACAAAAATTACCATTTTACCCCCGGATGTCCAAAA
36835549 ATCCCGTTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
116 57 0.57
117 43 0.43
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (117 bp):
CATTTTTAACCCCAAAACTTCCAAAAATTATATTTTTACCCCCAAACTTCCAAAAATTCCATTTT
TGACCTCAAAAATTACAAAAATTACCATTTTACCCCCGGATGTCCAAAATAT
Found at i:36835571 original size:116 final size:117
Alignment explanation
Indices: 36835337--36835607 Score: 316
Period size: 117 Copynumber: 2.3 Consensus size: 117
36835327 ACCCTAAAAC
** * * *
36835337 TTCCAAAAATTATATTTTTACCCTTAAACTTCCAAAAATTTCATTTTTGACCTCGAAACTTACAA
1 TTCCAAAAATTATATTTTTACCCCCAAA-TTCCAAAAATTCCATTTTTGACCTCAAAAATTACAA
* *
36835402 AAATTACCATTTTACCCCCGGATGTCTAAAATATCATTTTTAGCCCCAAA-TT
65 AAATTACCATTTTACCCCCGGATGTCCAAAATATCATTTTTAGACCCAAATTT
* *
36835454 TTCCCAAAATTATATTTTTGCCCCCAAATTCCAAAAATTCCATTTTTGACCTCAAAAAATT-CAA
1 TTCCAAAAATTATATTTTTACCCCCAAATTCCAAAAATTCCATTTTTGACCTC-AAAAATTACAA
* * ***
36835518 AAATTACCATTTTACCCCCGGATGTCCAAAA-ATCCCGTTTTTA-ATCTTGATTT
65 AAATTACCATTTTACCCCCGGATGTCCAAAATAT--CATTTTTAGACCCAAATTT
* * *
36835571 TTCTAAAAATTACATTTTTACCCCCGAATGTCCAAAA
1 TTCCAAAAATTATATTTTTACCCCCAAAT-TCCAAAA
36835608 TGTCATTTTT
Statistics
Matches: 130, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
115 2 0.02
116 59 0.45
117 62 0.48
118 7 0.05
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.36
Consensus pattern (117 bp):
TTCCAAAAATTATATTTTTACCCCCAAATTCCAAAAATTCCATTTTTGACCTCAAAAATTACAAA
AATTACCATTTTACCCCCGGATGTCCAAAATATCATTTTTAGACCCAAATTT
Found at i:36840409 original size:23 final size:23
Alignment explanation
Indices: 36840383--36840428 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
36840373 TGAATTGATA
36840383 TCATTAATTAAATATAAAGGATG
1 TCATTAATTAAATATAAAGGATG
*
36840406 TCATTAATTGAATATAAAGGATG
1 TCATTAATTAAATATAAAGGATG
36840429 ACTTCCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (23 bp):
TCATTAATTAAATATAAAGGATG
Found at i:36845777 original size:6 final size:6
Alignment explanation
Indices: 36845766--36845794 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36845756 TTTCTCCCAA
36845766 CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
36845795 TTTTTTCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCTCTC
Found at i:36846401 original size:13 final size:13
Alignment explanation
Indices: 36846363--36846403 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
36846353 ACTCAACCTG
* *
36846363 TTGACCGTTGGCG
1 TTGACCGTTGACT
*
36846376 TTGATCGTTGACT
1 TTGACCGTTGACT
36846389 TTGACCGTTGACT
1 TTGACCGTTGACT
36846402 TT
1 TT
36846404 TTTTGAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.12, C:0.20, G:0.27, T:0.41
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:36853458 original size:7 final size:7
Alignment explanation
Indices: 36853445--36853480 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
36853435 CTGATCCGAC
36853445 CCGTTGA
1 CCGTTGA
*
36853452 TCGTTGA
1 CCGTTGA
*
36853459 CCATTGA
1 CCGTTGA
36853466 CCGTTGA
1 CCGTTGA
36853473 CCGTTGA
1 CCGTTGA
36853480 C
1 C
36853481 TTTGACTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.31
Consensus pattern (7 bp):
CCGTTGA
Found at i:36862258 original size:22 final size:22
Alignment explanation
Indices: 36862186--36862258 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
36862176 AATTTACTTT
* *
36862186 ATAAAATGAGATAAATGTACTA
1 ATAAAATTAGATAAATCTACTA
* * *
36862208 ATAAAATTA-AT-ATTCTTATTC
1 ATAAAATTAGATAAATC-TACTA
36862229 A-AAAATTAGATAAATCTACTA
1 ATAAAATTAGATAAATCTACTA
36862250 ATAAAATTA
1 ATAAAATTA
36862259 ATATTCCTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 9 0.23
21 12 0.31
22 18 0.46
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.34
Consensus pattern (22 bp):
ATAAAATTAGATAAATCTACTA
Found at i:36869538 original size:29 final size:29
Alignment explanation
Indices: 36869506--36869777 Score: 184
Period size: 29 Copynumber: 9.3 Consensus size: 29
36869496 AGTTTCGGAG
* *
36869506 AGTTCGAGGGTAAAAATGTGATTTTTAGA
1 AGTTTGAGGGTAAAAATGTAATTTTTAGA
* *
36869535 AGTTTG-GGTGCAAAAATGTAATTTTGAGA
1 AGTTTGAGG-GTAAAAATGTAATTTTTAGA
** * * *
36869564 AGTTCAAGGGTAAAAGTGTGATTTTTGGA
1 AGTTTGAGGGTAAAAATGTAATTTTTAGA
* * *
36869593 AATTTGAGGGTACAAATGTGATTTTT-GAA
1 AGTTTGAGGGTAAAAATGTAATTTTTAG-A
*
36869622 AGTTTTG-GGGCAAAAATGTAATTTTTGAGA
1 AG-TTTGAGGGTAAAAATGTAATTTTT-AGA
* *
36869652 AGTTTAAGGGT-AAAATGTAATTTTTGAAA
1 AGTTTGAGGGTAAAAATGTAATTTTT-AGA
*
36869681 AGTTT-AGGGGTCAAAATGTAA-TTTTAGGAA
1 AGTTTGA-GGGTAAAAATGTAATTTTTA-G-A
* * *
36869711 AGTTT-AGGGGTTAAAATATAATTTTTAAA
1 AGTTTGA-GGGTAAAAATGTAATTTTTAGA
* * * *
36869740 AATTT-AGGGTCAAAATGTGATTTTTGCGA
1 AGTTTGAGGGTAAAAATGTAATTTTT-AGA
36869769 AGTTT-AGGG
1 AGTTTGAGGG
36869778 GCCTCCTAAG
Statistics
Matches: 196, Mismatches: 34, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
28 21 0.11
29 128 0.65
30 41 0.21
31 6 0.03
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
AGTTTGAGGGTAAAAATGTAATTTTTAGA
Found at i:36869698 original size:59 final size:58
Alignment explanation
Indices: 36869513--36869774 Score: 243
Period size: 58 Copynumber: 4.5 Consensus size: 58
36869503 GAGAGTTCGA
* * * * *
36869513 GGGTAAAAATGTGATTTTTAGAAGTTT--GGGTGCAAAAATGTAA-TTTTGAGAAGTTCAA
1 GGGTCAAAATGTGATTTTTGGAAGTTTAAGGGT---AAAATGTAATTTTTGAAAAGTTTAG
* * * *
36869571 GGGT-AAAAGTGTGATTTTTGGAAATTTGAGGGTACAAATGTGATTTTTG-AAAGTTTTG
1 GGGTCAAAA-TGTGATTTTTGGAAGTTTAAGGGTA-AAATGTAATTTTTGAAAAGTTTAG
*
36869629 GGG-CAAAAATGTAATTTTTGAGAAGTTTAAGGGTAAAATGTAATTTTTGAAAAGTTTAG
1 GGGTC-AAAATGTGATTTTTG-GAAGTTTAAGGGTAAAATGTAATTTTTGAAAAGTTTAG
* * * * *
36869688 GGGTCAAAATGTAATTTTAGGAAAGTTTAGGGGTTAAAATATAATTTTT-AAAAATTTA-
1 GGGTCAAAATGTGATTTTTGG-AAGTTTAAGGG-TAAAATGTAATTTTTGAAAAGTTTAG
36869746 GGGTCAAAATGTGATTTTTGCGAAGTTTA
1 GGGTCAAAATGTGATTTTTG-GAAGTTTA
36869775 GGGGCCTCCT
Statistics
Matches: 173, Mismatches: 18, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
57 5 0.03
58 84 0.49
59 65 0.38
60 19 0.11
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (58 bp):
GGGTCAAAATGTGATTTTTGGAAGTTTAAGGGTAAAATGTAATTTTTGAAAAGTTTAG
Found at i:36869698 original size:88 final size:87
Alignment explanation
Indices: 36869513--36869778 Score: 285
Period size: 88 Copynumber: 3.0 Consensus size: 87
36869503 GAGAGTTCGA
*
36869513 GGGTAAAAATGTGATTTTT-AGAAG-TTTGGGTGCAAAAATGTAA-TTTTGAGAAGTTCAAGGGT
1 GGGT-AAAATGTGATTTTTGA-AAGTTTTGGG-GCAAAAATGTAATTTTTGAGAAGTTTAAGGGT
*
36869575 AAAAGTGTGATTTTTGGAAA-TTT-G
63 AAAA-TGTGATTTTTGAAAAGTTTAG
36869599 AGGGTACAAATGTGATTTTTGAAAGTTTTGGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGGTA
1 -GGGTA-AAATGTGATTTTTGAAAGTTTTGGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGGTA
*
36869664 AAATGTAATTTTTGAAAAGTTTAG
64 AAATGTGATTTTTGAAAAGTTTAG
* * * ** * * *
36869688 GGGTCAAAATGTAATTTTAGGAAAGTTTAGGGGTTAAAATATAATTTTT-AAAAATTT-AGGGTC
1 GGGT-AAAATGTGATTTT-TGAAAGTTTTGGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGGT-
**
36869751 AAAATGTGATTTTTGCGAAGTTTAG
63 AAAATGTGATTTTTGAAAAGTTTAG
36869776 GGG
1 GGG
36869779 CCTCCTAAGT
Statistics
Matches: 156, Mismatches: 14, Indels: 17
0.83 0.07 0.09
Matches are distributed among these distances:
86 1 0.01
87 50 0.32
88 78 0.50
89 27 0.17
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (87 bp):
GGGTAAAATGTGATTTTTGAAAGTTTTGGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGGTAAA
ATGTGATTTTTGAAAAGTTTAG
Found at i:36878465 original size:22 final size:22
Alignment explanation
Indices: 36878432--36878473 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
36878422 AAAATTAATT
36878432 AAAAATAAAAA-TACTAAAATCC
1 AAAAATAAAAATTA-TAAAATCC
36878454 AAAAA-AATAAATTATAAAAT
1 AAAAATAA-AAATTATAAAAT
36878474 TATAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.11
22 14 0.78
23 2 0.11
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAATAAAAATTATAAAATCC
Found at i:36878519 original size:23 final size:23
Alignment explanation
Indices: 36878493--36878537 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36878483 TAGAAAACAT
*
36878493 AATATATTTTTGAA-AATTATAAA
1 AATAT-TTTTTAAATAATTATAAA
36878516 AATATTTTTTAAATAATTATAA
1 AATATTTTTTAAATAATTATAA
36878538 GTATGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AATATTTTTTAAATAATTATAAA
Found at i:36878597 original size:11 final size:11
Alignment explanation
Indices: 36878560--36878599 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
36878550 TCAAAAAAAT
*
36878560 TAAAAATTTCA
1 TAAAATTTTCA
36878571 TAAAATTTT-A
1 TAAAATTTTCA
36878581 -AAAATTTTCA
1 TAAAATTTTCA
36878591 TAAAATTTT
1 TAAAATTTT
36878600 AAAAATGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 8 0.31
10 2 0.08
11 16 0.62
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (11 bp):
TAAAATTTTCA
Found at i:36878605 original size:20 final size:20
Alignment explanation
Indices: 36878559--36878605 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
36878549 TTCAAAAAAA
36878559 TTAAAAA-TTTCATAAAATT
1 TTAAAAATTTTCATAAAATT
36878578 TTAAAAATTTTCATAAAATT
1 TTAAAAATTTTCATAAAATT
36878598 TTAAAAAT
1 TTAAAAAT
36878606 GCATTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAAATTTTCATAAAATT
Found at i:36878975 original size:18 final size:19
Alignment explanation
Indices: 36878952--36878994 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36878942 TTTTGGGAGC
36878952 TTTTTTAAAAATTT-ATGA
1 TTTTTTAAAAATTTAATGA
** *
36878970 TTTTTTGGAATTTTAATGA
1 TTTTTTAAAAATTTAATGA
36878989 TTTTTT
1 TTTTTT
36878995 TAATTCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (19 bp):
TTTTTTAAAAATTTAATGA
Found at i:36891044 original size:91 final size:86
Alignment explanation
Indices: 36890817--36891056 Score: 252
Period size: 85 Copynumber: 2.7 Consensus size: 86
36890807 AAACTTTTTC
* ** * * *
36890817 AAAAAATCAATTAAGCCATTGTTTTTTTTTTCCACTCAATTAGGTATTTGAATTGTCAAAATGCA
1 AAAAAAGCAATTAAGCCCCTGATTTTTTTTT-CACTCAATTGGGTACTTGAATTGTCAAAATGCA
*
36890882 TAAAAAAGCCTTTAAACTTAAA
65 TAAAAAAGACTTTAAACTTAAA
** * * *
36890904 AAAAAAGCAATTAAGCCCCT-ACCTTTTTTACACTCAATTGGAT-CATTGAATTTTCAAAATGCA
1 AAAAAAGCAATTAAGCCCCTGATTTTTTTTTCACTCAATTGGGTAC-TTGAATTGTCAAAATGCA
* * *
36890967 TCAAAAAGACTCTTAAATTTTTTTTAA
65 TAAAAAAGACT-TTAAA----CTTAAA
*
36890994 AAAAAAGCAATTAAGCCCCTGATTTTTTTTTCACTCAATTGGGTACTTGAACTGTC-AAATGCA
1 AAAAAAGCAATTAAGCCCCTGATTTTTTTTTCACTCAATTGGGTACTTGAATTGTCAAAATGCA
36891057 CCGATAAAGC
Statistics
Matches: 124, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
85 37 0.30
86 11 0.09
87 17 0.14
90 31 0.25
91 27 0.22
92 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (86 bp):
AAAAAAGCAATTAAGCCCCTGATTTTTTTTTCACTCAATTGGGTACTTGAATTGTCAAAATGCAT
AAAAAAGACTTTAAACTTAAA
Found at i:36891214 original size:20 final size:20
Alignment explanation
Indices: 36891191--36891285 Score: 72
Period size: 19 Copynumber: 4.8 Consensus size: 20
36891181 AATAAAAATC
36891191 AATAAAAATTATTAAATTTT
1 AATAAAAATTATTAAATTTT
** *
36891211 AATAAAAAACA-TAAAATTT
1 AATAAAAATTATTAAATTTT
* * *
36891230 ATTAAAAATTA-GAATTTTT
1 AATAAAAATTATTAAATTTT
*
36891249 TATAAAAATT-TGTAAACTTTT
1 AATAAAAATTAT-TAAA-TTTT
*
36891270 -ATAAAAATTATAAAAT
1 AATAAAAATTATTAAAT
36891286 GCATCAATTT
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
19 29 0.51
20 23 0.40
21 5 0.09
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AATAAAAATTATTAAATTTT
Found at i:36891254 original size:19 final size:20
Alignment explanation
Indices: 36891227--36891283 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
36891217 AAACATAAAA
**
36891227 TTTATTAAAAATTAG-AATTT
1 TTTA-TAAAAATTAGTAAACT
*
36891247 TTTATAAAAATTTGTAAACT
1 TTTATAAAAATTAGTAAACT
36891267 TTTATAAAAATTA-TAAA
1 TTTATAAAAATTAGTAAA
36891284 ATGCATCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTATAAAAATTAGTAAACT
Found at i:36891516 original size:29 final size:28
Alignment explanation
Indices: 36891484--36891564 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
36891474 TTTACAAATT
* *
36891484 TTATATTTCTTTACATTTTTATAATTTTC
1 TTATATTTCTATA-AATTTTATAATTTTC
* *
36891513 TTATGATTT-TATAAAATTTTATAGTTTTT
1 TTAT-ATTTCTAT-AAATTTTATAATTTTC
*
36891542 TTATATTTCTATATATTTTATAA
1 TTATATTTCTATAAATTTTATAA
36891565 AAAAAATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
28 13 0.30
29 25 0.58
30 5 0.12
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
TTATATTTCTATAAATTTTATAATTTTC
Found at i:36891620 original size:19 final size:19
Alignment explanation
Indices: 36891461--36891630 Score: 73
Period size: 19 Copynumber: 8.8 Consensus size: 19
36891451 TAGTACGATA
**
36891461 ATTTTTATAATTTTTTACA
1 ATTTTTATAATTTTTTATG
* *
36891480 AATTTTAT-ATTTCTTTA-C
1 ATTTTTATAATTT-TTTATG
36891498 ATTTTTATAATTTTCTTATG
1 ATTTTTATAATTTT-TTATG
**
36891518 A-TTTTATAAAATTTTAT-
1 ATTTTTATAATTTTTTATG
* *
36891535 AGTTTTTTTATATTTCTATAT-
1 A-TTTTTATA-ATTT-TTTATG
* ***
36891556 ATTTTATAAAAAAAATTTATG
1 ATTTT-T-ATAATTTTTTATG
** * **
36891577 ATTTTTATAAAATTTAACA
1 ATTTTTATAATTTTTTATG
36891596 ATTTTTTATAATTTTTTATG
1 A-TTTTTATAATTTTTTATG
36891616 A-TTTTATAATTTTTT
1 ATTTTTATAATTTTTT
36891631 TTCTAGTTTT
Statistics
Matches: 113, Mismatches: 26, Indels: 25
0.69 0.16 0.15
Matches are distributed among these distances:
17 1 0.01
18 30 0.27
19 43 0.38
20 26 0.23
21 12 0.11
22 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATTTTTTATG
Found at i:36891620 original size:60 final size:59
Alignment explanation
Indices: 36891513--36891624 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
36891503 TATAATTTTC
* * *
36891513 TTATGATTTTATAAAATTTTATAGTTTTTTTATATTTCTATATATTTTATAAAAAAAAT
1 TTATGATTTTATAAAATTTAACAATTTTTTTATATTTCTATATATTTTATAAAAAAAAT
*
36891572 TTATGATTTTTATAAAATTTAACAA-TTTTTTATAATTT-TTTATGATTTTATAA
1 TTATGA-TTTTATAAAATTTAACAATTTTTTTAT-ATTTCTATAT-ATTTTATAA
36891625 TTTTTTTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 18 0.39
60 28 0.61
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (59 bp):
TTATGATTTTATAAAATTTAACAATTTTTTTATATTTCTATATATTTTATAAAAAAAAT
Found at i:36891683 original size:27 final size:28
Alignment explanation
Indices: 36891634--36891688 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
36891624 ATTTTTTTTC
36891634 TAGTTTTTAATAAAATTCAAATAATTTA
1 TAGTTTTTAATAAAATTCAAATAATTTA
* *
36891662 TAGTTTTTATTAAAATT-TAATAATTTA
1 TAGTTTTTAATAAAATTCAAATAATTTA
36891689 ATAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (28 bp):
TAGTTTTTAATAAAATTCAAATAATTTA
Found at i:36891688 original size:8 final size:8
Alignment explanation
Indices: 36891671--36891700 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
36891661 ATAGTTTTTA
36891671 TTAA-AAT
1 TTAATAAT
36891678 TTAATAAT
1 TTAATAAT
36891686 TTAATAAT
1 TTAATAAT
36891694 TTAATAA
1 TTAATAA
36891701 ATTTTATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.18
8 18 0.82
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAATAAT
Found at i:36892024 original size:88 final size:86
Alignment explanation
Indices: 36891791--36892037 Score: 268
Period size: 88 Copynumber: 2.8 Consensus size: 86
36891781 AAAGTAAAGG
* * *
36891791 GTTCAAGTACCTAATTGAGTGCAAAAAAGTTAGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAG
1 GTTCAAGTACCTAATTGAGTACAAAAAA-ATAAGGGCTTAATT-ATTTTTTTGAAAAAGTTTGAG
**
36891856 GGCCTTTTTGATGCATTTTGAAA
64 GGTTTTTTTGATGCATTTTGAAA
* * * *
36891879 ATTCAAGTA-CTCAATTGAGTTTAATAAAAAAAACAATGGCTTAA-T-TTTTTTTGAAAAAGTTT
1 GTTCAAGTACCT-AATTGAG--T-A-CAAAAAAATAAGGGCTTAATTATTTTTTTGAAAAAGTTT
*
36891941 GAGGGTTTTTTTG-TGCATTTTGACA
61 GAGGGTTTTTTTGATGCATTTTGAAA
* * **
36891966 GTTCAAGTACCTAATTCAGTACAAAAAAATAAGGGTTTAATTATTTGTTTTGAAAAAAATTGAGG
1 GTTCAAGTACCTAATTGAGTACAAAAAAATAAGGGCTTAATTATTT-TTTTGAAAAAGTTTGAGG
36892031 GTTTTTT
65 GTTTTTT
36892038 ACACCCTTAT
Statistics
Matches: 132, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
83 15 0.11
84 2 0.02
85 4 0.03
86 23 0.17
87 27 0.20
88 45 0.34
90 2 0.02
91 8 0.06
92 6 0.05
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (86 bp):
GTTCAAGTACCTAATTGAGTACAAAAAAATAAGGGCTTAATTATTTTTTTGAAAAAGTTTGAGGG
TTTTTTTGATGCATTTTGAAA
Found at i:36893350 original size:73 final size:72
Alignment explanation
Indices: 36893267--36893434 Score: 210
Period size: 72 Copynumber: 2.3 Consensus size: 72
36893257 GGGCTAGGCT
* * * * * * *
36893267 CACGGTCATGTGCTAGGCCATGTGACCGTACTATTTTGAGAAATCAGAAACAGTGAGTTGCACGG
1 CACGGGCATGTGCTAGACCATGTGAACATACT-GTTTAAGAAATCAGAAACAGTGAGTTACACGG
36893332 GTTGGACA
65 GTTGGACA
* ** *
36893340 CACGGGCATGTGCCAGACTGTGTGAACATCCTGTTTAAGAAATCAGAAACAGTGAGTTACACGGG
1 CACGGGCATGTGCTAGACCATGTGAACATACTGTTTAAGAAATCAGAAACAGTGAGTTACACGGG
36893405 TTGGACA
66 TTGGACA
* *
36893412 CACGAGCGTGTGCTAGACCATGT
1 CACGGGCATGTGCTAGACCATGT
36893435 AGATATTCTG
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
72 55 0.70
73 24 0.30
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (72 bp):
CACGGGCATGTGCTAGACCATGTGAACATACTGTTTAAGAAATCAGAAACAGTGAGTTACACGGG
TTGGACA
Found at i:36893660 original size:36 final size:39
Alignment explanation
Indices: 36893613--36893766 Score: 143
Period size: 39 Copynumber: 4.0 Consensus size: 39
36893603 AAGTTCTCGA
36893613 ATTATTGAACCAACAGT-AC-C-GTAAACACTACAATAC
1 ATTATTGAACCAACAGTGACACTGTAAACACTACAATAC
*
36893649 ATTATTGAACCAATAGTGACACTGTAAACACTACAATAC
1 ATTATTGAACCAACAGTGACACTGTAAACACTACAATAC
** **** * * * *
36893688 ATTACCGAACTGGTAGAGACACTATAAACACTACAACAT
1 ATTATTGAACCAACAGTGACACTGTAAACACTACAATAC
* *** *
36893727 ATTACTGAAATGACAGTGATACTGTAAACACTACAATAC
1 ATTATTGAACCAACAGTGACACTGTAAACACTACAATAC
36893766 A
1 A
36893767 ATACTGAATG
Statistics
Matches: 96, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
36 16 0.17
37 2 0.02
38 1 0.01
39 77 0.80
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.23
Consensus pattern (39 bp):
ATTATTGAACCAACAGTGACACTGTAAACACTACAATAC
Found at i:36893684 original size:39 final size:39
Alignment explanation
Indices: 36893633--36893793 Score: 169
Period size: 39 Copynumber: 4.1 Consensus size: 39
36893623 CAACAGTACC
* *
36893633 GTAAACACTACAATACATTATTGAACCAATAGTGACACT
1 GTAAACACTACAATACATTACTGAACCGATAGTGACACT
* * * *
36893672 GTAAACACTACAATACATTACCGAACTGGTAGAGACACT
1 GTAAACACTACAATACATTACTGAACCGATAGTGACACT
* * * ** * *
36893711 ATAAACACTACAACATATTACTGAAATGACAGTGATACT
1 GTAAACACTACAATACATTACTGAACCGATAGTGACACT
* ** *
36893750 GTAAACACTACAATACAATACTGAATGGATGGTGACACT
1 GTAAACACTACAATACATTACTGAACCGATAGTGACACT
36893789 GTAAA
1 GTAAA
36893794 TACCGTGAAG
Statistics
Matches: 98, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 98 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (39 bp):
GTAAACACTACAATACATTACTGAACCGATAGTGACACT
Found at i:36895580 original size:21 final size:21
Alignment explanation
Indices: 36895554--36895593 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36895544 GCACAGGTCG
* *
36895554 AGGTAGTATCACTTTCGGTGA
1 AGGTAGTACCACGTTCGGTGA
36895575 AGGTAGTACCACGTTCGGT
1 AGGTAGTACCACGTTCGGT
36895594 AGAGGTCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
AGGTAGTACCACGTTCGGTGA
Found at i:36895599 original size:21 final size:20
Alignment explanation
Indices: 36895553--36895599 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
36895543 GGCACAGGTC
* *
36895553 GAGGTAGTATCACTTTCGGT
1 GAGGTAGTACCACGTTCGGT
36895573 GAAGGTAGTACCACGTTCGGT
1 G-AGGTAGTACCACGTTCGGT
36895594 AGAGGT
1 -GAGGT
36895600 CGTAGGGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (20 bp):
GAGGTAGTACCACGTTCGGT
Found at i:36896289 original size:24 final size:24
Alignment explanation
Indices: 36896235--36896290 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
36896225 CCAAGGTGGG
*
36896235 AAAGATTCATTTATTATAAATGTT
1 AAAGTTTCATTTATTATAAATGTT
**
36896259 ACTGTTTCATTTATTATAAATGTT
1 AAAGTTTCATTTATTATAAATGTT
36896283 AAAGTTTC
1 AAAGTTTC
36896291 CTATTCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (24 bp):
AAAGTTTCATTTATTATAAATGTT
Found at i:36897004 original size:71 final size:71
Alignment explanation
Indices: 36896883--36897019 Score: 184
Period size: 71 Copynumber: 1.9 Consensus size: 71
36896873 AATGGCTTGG
* * * * * *
36896883 TGTTATGAGGTATGGGTTTTGGGGTTAGGGTTATAAGGTTTGGGGAAAGGGTTTTGGGTTTTTGC
1 TGTTATGAGGTATGGGTTTTGAGGTTAAGGTTATAAGGTCTAGGGAAAGGGTTATGAGTTTTTGC
36896948 CTACGA
66 CTACGA
* ** *
36896954 TGTTATGGGGTATGGGTTTTGAGGTTAAGGTTATGGGGTCTAGGGTAAGGGTTATGAGTTTTTGC
1 TGTTATGAGGTATGGGTTTTGAGGTTAAGGTTATAAGGTCTAGGGAAAGGGTTATGAGTTTTTGC
36897019 C
66 C
36897020 CATTGTTTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.17, C:0.04, G:0.39, T:0.39
Consensus pattern (71 bp):
TGTTATGAGGTATGGGTTTTGAGGTTAAGGTTATAAGGTCTAGGGAAAGGGTTATGAGTTTTTGC
CTACGA
Found at i:36897224 original size:53 final size:53
Alignment explanation
Indices: 36897166--36897269 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
36897156 TAGTGGATTT
36897166 CACTATTAGTCTTCTCTCTGTTTTTCTTGTTTCTTCTATCTTTGTTTGTTGCC
1 CACTATTAGTCTTCTCTCTGTTTTTCTTGTTTCTTCTATCTTTGTTTGTTGCC
*
36897219 CACTATTAGTCTTCTCTTTGTTTTTCTTGTTTCTTCTATCTTTGTTTGTTG
1 CACTATTAGTCTTCTCTCTGTTTTTCTTGTTTCTTCTATCTTTGTTTGTTG
36897270 ATTTTACCTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.08, C:0.20, G:0.12, T:0.61
Consensus pattern (53 bp):
CACTATTAGTCTTCTCTCTGTTTTTCTTGTTTCTTCTATCTTTGTTTGTTGCC
Found at i:36897262 original size:24 final size:24
Alignment explanation
Indices: 36897184--36897265 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 24
36897174 GTCTTCTCTC
36897184 TGTTTTTCTTGTTTCTTCTATCTT
1 TGTTTTTCTTGTTTCTTCTATCTT
* *
36897208 TGTTTGTTGCCCACTATTAGTCTTC--TCTT
1 TGTTT-TT---C-TTGTT--TCTTCTATCTT
36897237 TGTTTTTCTTGTTTCTTCTATCTT
1 TGTTTTTCTTGTTTCTTCTATCTT
36897261 TGTTT
1 TGTTT
36897266 GTTGATTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
22 5 0.11
24 17 0.38
25 3 0.07
28 3 0.07
29 12 0.27
31 5 0.11
ACGTcount: A:0.06, C:0.18, G:0.11, T:0.65
Consensus pattern (24 bp):
TGTTTTTCTTGTTTCTTCTATCTT
Found at i:36898866 original size:6 final size:6
Alignment explanation
Indices: 36898848--36898954 Score: 52
Period size: 6 Copynumber: 16.5 Consensus size: 6
36898838 TGGGTTCTTA
* * ** * *
36898848 GTTAGG GTGAGG GTTAGG GTTAGG ATCGGG GTGTAGG GTTGGG GTTAAAG
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GT-TAGG GTTAGG GTT-AGG
* * * *
36898898 GTTAGAG GTTAGG TTTGAGG TTTAGG GTTTAAGG TTTAGG GTTTGGG GTTAGAG
1 GTTAG-G GTTAGG GTT-AGG GTTAGG G-TT-AGG GTTAGG G-TTAGG GTTAG-G
36898952 GTT
1 GTT
36898955 TAAGGTTTGG
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
6 39 0.52
7 33 0.44
8 3 0.04
ACGTcount: A:0.18, C:0.01, G:0.47, T:0.35
Consensus pattern (6 bp):
GTTAGG
Found at i:36898926 original size:14 final size:14
Alignment explanation
Indices: 36898897--36898962 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
36898887 TGGGGTTAAA
*
36898897 GGTTAGAGG-TTA-
1 GGTTTGAGGTTTAG
36898909 GGTTTGAGGTTTAG
1 GGTTTGAGGTTTAG
*
36898923 GGTTTAAGGTTTAG
1 GGTTTGAGGTTTAG
*
36898937 GGTTTG-GGGTTAG
1 GGTTTGAGGTTTAG
*
36898950 AGGTTTAAGGTTT
1 -GGTTTGAGGTTT
36898963 GGGGCTTGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 8 0.18
13 9 0.20
14 23 0.52
15 4 0.09
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (14 bp):
GGTTTGAGGTTTAG
Found at i:36898934 original size:21 final size:20
Alignment explanation
Indices: 36898908--36898966 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 20
36898898 GTTAGAGGTT
*
36898908 AGGTTTGAGGTTTAGGGTTTA-
1 AGGTTT-AGGTTT-GGGGTTAG
36898929 AGGTTTAGGGTTTGGGGTTAG
1 AGGTTTA-GGTTTGGGGTTAG
36898950 AGGTTTAAGGTTTGGGG
1 AGGTTT-AGGTTTGGGG
36898967 CTTGGGCTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 7 0.21
21 26 0.76
22 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (20 bp):
AGGTTTAGGTTTGGGGTTAG
Found at i:36899614 original size:39 final size:39
Alignment explanation
Indices: 36899560--36899747 Score: 171
Period size: 39 Copynumber: 4.8 Consensus size: 39
36899550 AAGTTCTCAG
* * * *
36899560 ATTACTAAACCAGCAGTAACACTATAAACACTGCAATAT
1 ATTACTGAACCAGCAGTGACACTATAAACACTACAATAC
36899599 ATTACTGAACCAGCAGTGACACTATAAACACTACAATAC
1 ATTACTGAACCAGCAGTGACACTATAAACACTACAATAC
* *** * * * *
36899638 ATTACCGAATTGGTAGTGACACTGTAAACACTGCGATAC
1 ATTACTGAACCAGCAGTGACACTATAAACACTACAATAC
* ** * *
36899677 ATTATTGAAATAGCAGTGATACTGTAAACACTACAATAC
1 ATTACTGAACCAGCAGTGACACTATAAACACTACAATAC
* * * *
36899716 AATACTGAA-TAGACGGTGACACTTTAAACACT
1 ATTACTGAACCAG-CAGTGACACTATAAACACT
36899748 GTGAAGCTAG
Statistics
Matches: 123, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
38 3 0.02
39 120 0.98
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (39 bp):
ATTACTGAACCAGCAGTGACACTATAAACACTACAATAC
Found at i:36899692 original size:78 final size:78
Alignment explanation
Indices: 36899573--36899748 Score: 208
Period size: 78 Copynumber: 2.3 Consensus size: 78
36899563 ACTAAACCAG
* * *
36899573 CAGTAACACTATAAACACTGCAATATATTACTGAACCAGCAGTGACACTATAAACACTACAATAC
1 CAGTGACACTATAAACACTGCAATACATTACTGAAACAGCAGTGACACTATAAACACTACAATAC
* * *
36899638 ATTACCGAATTGG
66 AATACCGAATAGA
* * * * * * *
36899651 TAGTGACACTGTAAACACTGCGATACATTATTGAAATAGCAGTGATACTGTAAACACTACAATAC
1 CAGTGACACTATAAACACTGCAATACATTACTGAAACAGCAGTGACACTATAAACACTACAATAC
*
36899716 AATACTGAATAGA
66 AATACCGAATAGA
* *
36899729 CGGTGACACTTTAAACACTG
1 CAGTGACACTATAAACACTG
36899749 TGAAGCTAGG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (78 bp):
CAGTGACACTATAAACACTGCAATACATTACTGAAACAGCAGTGACACTATAAACACTACAATAC
AATACCGAATAGA
Found at i:36906698 original size:21 final size:21
Alignment explanation
Indices: 36906669--36906712 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
36906659 AGGTCAATTC
*
36906669 AAGACAAGGTG-ACTCTTCAA
1 AAGACAAGGGGAACTCTTCAA
36906689 AAGACCAAGGGGAAACTCTTCAA
1 AAGA-CAAGGGG-AACTCTTCAA
36906712 A
1 A
36906713 TGTTGATCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 6 0.30
23 10 0.50
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (21 bp):
AAGACAAGGGGAACTCTTCAA
Found at i:36906748 original size:79 final size:79
Alignment explanation
Indices: 36906596--36906748 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
36906586 ATTCTTGATT
* *
36906596 AGGTGACTCTTTAAAAGACCAAGGGAAGACTCTTCAAATGCTGATTAGTTTTGGTGCACTTAAAG
1 AGGTGACTCTTCAAAAGACCAAGGGAAGACTCTTCAAATGCTGATTAGTTTTGGGGCACTTAAAG
*
36906661 GTCAATTCAAGACA
66 GCCAATTCAAGACA
* *
36906675 AGGTGACTCTTCAAAAGACCAAGGGGAA-ACTCTTCAAATGTTGA-TCGCTTTTGGGGCACTTAA
1 AGGTGACTCTTCAAAAGACCAA-GGGAAGACTCTTCAAATGCTGATTAG-TTTTGGGGCACTTAA
*
36906738 AGGCCTATTCA
64 AGGCCAATTCA
36906749 TGTCACCAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
78 2 0.03
79 59 0.89
80 5 0.08
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (79 bp):
AGGTGACTCTTCAAAAGACCAAGGGAAGACTCTTCAAATGCTGATTAGTTTTGGGGCACTTAAAG
GCCAATTCAAGACA
Found at i:36908140 original size:2 final size:2
Alignment explanation
Indices: 36908133--36908163 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
36908123 AAAAAGAGAA
*
36908133 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36908164 ACCTTTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36909452 original size:42 final size:42
Alignment explanation
Indices: 36909398--36909487 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
36909388 ATCTCATGTG
* * *
36909398 ATGATACGGTGAAATGGTGGAGTTAAGTATGCTTGTTTATGA
1 ATGATTCGGTGAAATAGTGGAGTTAAGTATGCTTATTTATGA
36909440 ATGATTCGGTGAAATAGTGGAGTTAAGTATGCTTATTTATGA
1 ATGATTCGGTGAAATAGTGGAGTTAAGTATGCTTATTTATGA
36909482 ATGATT
1 ATGATT
36909488 GTTCATTACT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (42 bp):
ATGATTCGGTGAAATAGTGGAGTTAAGTATGCTTATTTATGA
Found at i:36915686 original size:87 final size:86
Alignment explanation
Indices: 36915529--36915687 Score: 212
Period size: 87 Copynumber: 1.8 Consensus size: 86
36915519 AATGAAAGGA
*
36915529 TGAGTTTTTACTAATAATGAATTCATAACCCAAAATTTGGGTGGTCCTGTTGAGATAGACTTGAT
1 TGAGTTTTTACTAATAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGATAGACTTGAT
36915594 GAATTCATTGACTTGAGAGGT
66 GAATTCATTGACTTGAGAGGT
** * * * * *
36915615 TGAGTTTATTACTCTTAATGAGTTCATATCCCAGAGTTTGGGTGGTCCTATTGATAT-GAGCTTG
1 TGAGTTT-TTACTAATAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGATAGA-CTTG
*
36915679 ATTAATTCA
64 ATGAATTCA
36915688 CCGAACTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 9 0.15
87 53 0.85
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (86 bp):
TGAGTTTTTACTAATAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGATAGACTTGAT
GAATTCATTGACTTGAGAGGT
Found at i:36918298 original size:13 final size:12
Alignment explanation
Indices: 36918277--36918373 Score: 69
Period size: 12 Copynumber: 8.3 Consensus size: 12
36918267 GCTTTTTTCG
*
36918277 TGTTGTTTTTGT
1 TGTTATTTTTGT
*
36918289 TGTTATTTTTTAT
1 TGTTA-TTTTTGT
*
36918302 TGCTATTTTTGT
1 TGTTATTTTTGT
*
36918314 TGTT-TTTAATGT
1 TGTTATTT-TTGT
*
36918326 TG----TTTTGC
1 TGTTATTTTTGT
*
36918334 TGTTATTTTTGC
1 TGTTATTTTTGT
* *
36918346 TGCTATTTTGGT
1 TGTTATTTTTGT
36918358 TGTTATTTTTGT
1 TGTTATTTTTGT
36918370 TGTT
1 TGTT
36918374 TGGATTTATT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
11 3 0.05
12 47 0.71
13 10 0.15
ACGTcount: A:0.08, C:0.04, G:0.19, T:0.69
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:36918343 original size:44 final size:45
Alignment explanation
Indices: 36918277--36918396 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 45
36918267 GCTTTTTTCG
* * *
36918277 TGTTGTTTTTGTTGTTATTTTTTATTGCTATTTTTGTTGTT-TTTAA
1 TGTTG-TTTTGCTGTTATTTTTTACTGCTATTTTGGTTGTTATTT-A
* *
36918323 TGTTGTTTTGCTGTTA-TTTTTGCTGCTATTTTGGTTGTTATTTT
1 TGTTGTTTTGCTGTTATTTTTTACTGCTATTTTGGTTGTTATTTA
* *
36918367 TGTTGTTTGGAT-TTATTTTTTA-TGC-ATTTT
1 TGTTGTTTTGCTGTTATTTTTTACTGCTATTTT
36918397 TATTATTGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 5 0.08
43 6 0.09
44 35 0.55
45 13 0.20
46 5 0.08
ACGTcount: A:0.10, C:0.04, G:0.17, T:0.68
Consensus pattern (45 bp):
TGTTGTTTTGCTGTTATTTTTTACTGCTATTTTGGTTGTTATTTA
Found at i:36919413 original size:22 final size:22
Alignment explanation
Indices: 36919366--36919425 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
36919356 TCAGCTCGTG
* *
36919366 GCCACATCAGCACCACGTTAGA
1 GCCACGTCAGCACCACGTCAGA
*
36919388 GCCACGTCAGCACCATGTCA-A
1 GCCACGTCAGCACCACGTCAGA
36919409 TGCCACGTCA--ACCACGT
1 -GCCACGTCAGCACCACGT
36919426 GACTCCTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.18
21 1 0.03
22 26 0.79
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.15
Consensus pattern (22 bp):
GCCACGTCAGCACCACGTCAGA
Found at i:36919774 original size:21 final size:22
Alignment explanation
Indices: 36919735--36919775 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36919725 GTTCTTAAGG
36919735 TATATCACTTTTAATATATTCT
1 TATATCACTTTTAATATATTCT
36919757 TATATTCA-TTTT-ATATATT
1 TATA-TCACTTTTAATATATT
36919776 GTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (22 bp):
TATATCACTTTTAATATATTCT
Found at i:36922298 original size:29 final size:29
Alignment explanation
Indices: 36922243--36922299 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
36922233 ATGGAATAGT
*
36922243 TTATTCAATTTAAAATCAATCATAATAAC
1 TTATTCAATTTAAAATCAATCAGAATAAC
*
36922272 TTATTCAATTTAAAATCAATTAGAATAA
1 TTATTCAATTTAAAATCAATCAGAATAA
36922300 TTTTAAGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (29 bp):
TTATTCAATTTAAAATCAATCAGAATAAC
Found at i:36927685 original size:29 final size:29
Alignment explanation
Indices: 36927652--36927769 Score: 133
Period size: 29 Copynumber: 4.3 Consensus size: 29
36927642 TGTGAATATG
* *
36927652 AAATAGTTTATTCAATTTAAAATCAATCA
1 AAATAATTTATTTAATTTAAAATCAATCA
* *
36927681 AAATAATTTATTTAATTTAAAAGCATTCA
1 AAATAATTTATTTAATTTAAAATCAATCA
36927710 AAAT-A---ATTT-ATTT--AATCAATCA
1 AAATAATTTATTTAATTTAAAATCAATCA
*
36927732 CAATAATTTATTTAATTTAAAATCAATCA
1 AAATAATTTATTTAATTTAAAATCAATCA
*
36927761 GAATAATTT
1 AAATAATTT
36927770 TAAGGATTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
22 10 0.14
23 1 0.01
24 4 0.05
25 4 0.05
26 4 0.05
27 4 0.05
28 1 0.01
29 46 0.62
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (29 bp):
AAATAATTTATTTAATTTAAAATCAATCA
Found at i:36927729 original size:51 final size:51
Alignment explanation
Indices: 36927672--36927769 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
36927662 TTCAATTTAA
*
36927672 AATCAATCAAAATAATTTATTTAATTTAAAAGCATTCAAAATAATTTATTT
1 AATCAATCAAAATAATTTATTTAATTTAAAAGCAATCAAAATAATTTATTT
* * *
36927723 AATCAATCACAATAATTTATTTAATTTAAAATCAATCAGAATAATTT
1 AATCAATCAAAATAATTTATTTAATTTAAAAGCAATCAAAATAATTT
36927770 TAAGGATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (51 bp):
AATCAATCAAAATAATTTATTTAATTTAAAAGCAATCAAAATAATTTATTT
Found at i:36931697 original size:6 final size:6
Alignment explanation
Indices: 36931663--36931711 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
36931653 AATGAATTTG
* * * *
36931663 AAATGA GAATGA AAATGA GAATG- ATATGA AAATGA AAATGG AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
36931710 AA
1 AA
36931712 TGGATGTTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
5 3 0.09
6 31 0.91
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.18
Consensus pattern (6 bp):
AAATGA
Found at i:36940147 original size:29 final size:30
Alignment explanation
Indices: 36940093--36940302 Score: 202
Period size: 29 Copynumber: 7.1 Consensus size: 30
36940083 ATCTGGGGGT
* *
36940093 AAAATGGTAATTTTTGAAAGTTTTGGGATTA
1 AAAATGG-AATTTTTGGAAGTTTAGGGATTA
* * *
36940124 AAAATGGAATTTTTAGAAGTTT--GGAGGTG
1 AAAATGGAATTTTTGGAAGTTTAGGGA-TTA
* * *
36940153 AAAATGTAA-TTTTGGAAGTTTCGAGATTA
1 AAAATGGAATTTTTGGAAGTTTAGGGATTA
*
36940182 AAAATGGAATTTTTGGAAGTTTAGGG-GTA
1 AAAATGGAATTTTTGGAAGTTTAGGGATTA
*
36940211 AAAATGGAATTTTTGGAAGTTTCA-AGATTA
1 AAAATGGAATTTTTGGAAGTTT-AGGGATTA
*
36940241 AAAATGTAATTTTTGGAAGTTTAAGGG--TA
1 AAAATGGAATTTTTGGAAGTTT-AGGGATTA
* *
36940270 AAAATGTAATTTTTGGGAGTTTTAGGG-TTA
1 AAAATGGAATTTTTGGAAG-TTTAGGGATTA
36940300 AAA
1 AAA
36940303 TCATAATTTT
Statistics
Matches: 151, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
28 14 0.09
29 67 0.44
30 62 0.41
31 8 0.05
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.38
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAGTTTAGGGATTA
Found at i:36940301 original size:59 final size:59
Alignment explanation
Indices: 36940088--36940302 Score: 267
Period size: 59 Copynumber: 3.7 Consensus size: 59
36940078 TTGACATCTG
* * *
36940088 GGGGT-AAAATGGTAATTTTTGAAAGTTTTGGGATTAAAAATGGAATTTTTAGAAGTTT-
1 GGGGTAAAAAT-GTAATTTTTGGAAGTTTTAGGATTAAAAATGGAATTTTTGGAAGTTTA
* *
36940146 GGAGGTGAAAATGTAA-TTTTGGAAG-TTTCGAGATTAAAAATGGAATTTTTGGAAGTTTA
1 GG-GGTAAAAATGTAATTTTTGGAAGTTTTAG-GATTAAAAATGGAATTTTTGGAAGTTTA
* * * *
36940205 GGGGTAAAAATGGAATTTTTGGAAGTTTCAAGATTAAAAATGTAATTTTTGGAAGTTTA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTTAGGATTAAAAATGGAATTTTTGGAAGTTTA
* * *
36940264 AGGGTAAAAATGTAATTTTTGGGAGTTTTAGGGTTAAAA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTTAGGATTAAAA
36940303 TCATAATTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
57 4 0.03
58 47 0.35
59 78 0.57
60 7 0.05
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (59 bp):
GGGGTAAAAATGTAATTTTTGGAAGTTTTAGGATTAAAAATGGAATTTTTGGAAGTTTA
Found at i:36940310 original size:30 final size:29
Alignment explanation
Indices: 36940100--36940352 Score: 145
Period size: 29 Copynumber: 8.6 Consensus size: 29
36940090 GGTAAAATGG
* * *
36940100 TAATTTTTGAAAGTTT-TGGGATTAAAAATG
1 TAATTTTTGGAAGTTTAAGGG--TAAAAATA
* * * * *
36940130 GAATTTTTAGAAGTTT-GGAGGTGAAAATG
1 TAATTTTTGGAAGTTTAAG-GGTAAAAATA
* ** *
36940159 TAA-TTTTGGAAGTTTCGAGATTAAAAATG
1 TAATTTTTGGAAGTTT-AAGGGTAAAAATA
* * *
36940188 GAATTTTTGGAAGTTTAGGGGTAAAAATG
1 TAATTTTTGGAAGTTTAAGGGTAAAAATA
* ** *
36940217 GAATTTTTGGAAGTTTCAAGATTAAAAATG
1 TAATTTTTGGAAGTTT-AAGGGTAAAAATA
*
36940247 TAATTTTTGGAAGTTTAAGGGTAAAAATG
1 TAATTTTTGGAAGTTTAAGGGTAAAAATA
* * *
36940276 TAATTTTTGGGAGTTTTAGGGTTAAAATCA
1 TAATTTTTGGAAGTTTAAGGGTAAAAAT-A
* * **
36940306 TAA-TTTTGGAAAAGTTTGAGGTTCGAAATA
1 TAATTTTTGG--AAGTTTAAGGGTAAAAATA
*
36940336 CAATTTTTGGATAGTTT
1 TAATTTTTGGA-AGTTT
36940353 GGGGACCTTC
Statistics
Matches: 181, Mismatches: 32, Indels: 20
0.78 0.14 0.09
Matches are distributed among these distances:
28 11 0.06
29 86 0.48
30 63 0.35
31 21 0.12
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (29 bp):
TAATTTTTGGAAGTTTAAGGGTAAAAATA
Found at i:36941481 original size:203 final size:203
Alignment explanation
Indices: 36941073--36941753 Score: 770
Period size: 203 Copynumber: 3.3 Consensus size: 203
36941063 TACTTTTTCT
* * * * ** * * * * *
36941073 TTCTCAATATCTCATCAGGAAGATGACCGTATCACTTGTTTTGATCC-ATTTTGCTGTGTTTGAA
1 TTCTCATTGTCTCATCAGGAAGATGATCGCATCACTTGTTTCAATCCGCTTTT-CTGTATCTCAT
* * *
36941137 CAGGAAGAC-AGATTTGGTTCACTTCTCTA-TGTCTCATCAGGAAGCTAACCACTTTATTACTTC
65 CAGGAAGACGA-ATTTGGTCCACTTCTC-AGTATCTCATCAGGAAGCTAACCA---TATTGCTTC
* *
36941200 GACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTACTCGCATCGAGCTTGGGT
125 GACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATCGAGCGTGGGT
36941265 TTGATTTGGTCTTC
190 TTGATTTGGTCTTC
* **
36941279 TTCTCATTGTCTCATCAAGAAGATGATCGCATCACTTGTTTCAATCCGCTGCTCTGTATCTCATC
1 TTCTCATTGTCTCATCAGGAAGATGATCGCATCACTTGTTTCAATCCGCTTTTCTGTATCTCATC
* *
36941344 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCATATTGCTTTGACCTG
66 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATATTGCTTCGACCTG
* * *
36941409 CTTCTCAGTATCTCATCAGGAAATTGGGGTTCGAAGATTTGCTCGTATTGAGCGTGGGTTTGATT
131 CTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATCGAGCGTGGGTTTGATT
36941474 TGGTCTTC
196 TGGTCTTC
* * * * * * *
36941482 TTCACAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTTTTCTATATCTCATT
1 TTCTCATTGTCTCATCAGGAAGATGATCGCATCACTTGTTTCAATCCGCTTTTCTGTATCTCATC
* ** * *
36941547 AGGAAGACGAATTTGCTCTGCTTCTCAGTAACTCATCAGGAAGCTAACCGCTTTATTGCTTCGAC
66 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAA-C-C-ATATTGCTTCGAC
* * ** *
36941612 CTGCTTCTCAGTGTCTCATCAGGAAGCTATGGTTCGAAGATTTGCTCGCATCGA--GT--G-CTG
128 CTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATCGAGCGTGGGTTTG
* * *
36941672 AGTTGGTATAC
193 ATTTGGTCTTC
* * *
36941683 TTCT--TTGTATCTCATCAGGAAGACGATCGCCTCACTTGTTTCAATTCGCTTTTCTGTATCTCA
1 TTCTCATTG--TCTCATCAGGAAGATGATCGCATCACTTGTTTCAATCCGCTTTTCTGTATCTCA
36941746 TCAGGAAG
64 TCAGGAAG
36941754 CTAGGGTTCG
Statistics
Matches: 405, Mismatches: 62, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
199 1 0.00
201 68 0.17
202 1 0.00
203 178 0.44
204 3 0.01
205 2 0.00
206 149 0.37
207 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (203 bp):
TTCTCATTGTCTCATCAGGAAGATGATCGCATCACTTGTTTCAATCCGCTTTTCTGTATCTCATC
AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATATTGCTTCGACCTG
CTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATCGAGCGTGGGTTTGATT
TGGTCTTC
Found at i:36941862 original size:121 final size:116
Alignment explanation
Indices: 36941625--36941874 Score: 297
Period size: 121 Copynumber: 2.1 Consensus size: 116
36941615 CTTCTCAGTG
* **
36941625 TCTCATCAGGAAGCTATGGTTCGAAGATTTGCTCGCATCGAGTGCTGAGTTGGTATACTTCTTTG
1 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGTGCTGAGTTGGTATACTTCTCGG
* * * *
36941690 TATCTCATCAGGAAGACGATCGCCTCACTTGTTTCAATTCGCTTTTCTGTA
66 TATCTCATCAGGAAGACGACCGCATCACTTGCTTCAATTCGCTCTTCTGTA
* * * *
36941741 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCTTGGGTTTGATTTGGTCTTCTT
1 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAG--T--G-CTGAGTTGGTATACTT
* *
36941806 CTCGGTGTCTCATCAGGAAGATGACCGCATCACTTGCTTCAA-TCTGCTGCTT-TGTA
61 CTCGGTATCTCATCAGGAAGACGACCGCATCACTTGCTTCAATTC-GCT-CTTCTGTA
*
36941862 TCTCATCAAGAAG
1 TCTCATCAGGAAG
36941875 ACGAATTTGG
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
116 41 0.36
118 1 0.01
120 3 0.03
121 66 0.58
122 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (116 bp):
TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGTGCTGAGTTGGTATACTTCTCGG
TATCTCATCAGGAAGACGACCGCATCACTTGCTTCAATTCGCTCTTCTGTA
Found at i:36942044 original size:205 final size:204
Alignment explanation
Indices: 36941741--36942317 Score: 838
Period size: 205 Copynumber: 2.8 Consensus size: 204
36941731 CTTTTCTGTA
*
36941741 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCTTGGGTTTGATTTGGTCTTCTT
1 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCGT-GGTTTGATTTGGTCTTCTT
* * * * * *
36941806 CTCGGTGTCTCATCAGGAAGATGACCGCATCACTTGCTTCAATCTGCTGCTTTGTATCTCATCAA
65 CTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCT-CTTCTCTATATCTCATCAA
* *
36941871 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATAAACATTTTATTGCTTCGACCT
129 GAAGACGAATTTGGTCCGCTTCTCAGTATCTCATCAGGAAGATAAACACTTTATTGCTTCGACCT
36941936 GCTTCTCAGTG
194 GCTTCTCAGTG
*
36941947 TCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATCGAGCGTGGTTTGATTTGGTCTTCTTC
1 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCGTGGTTTGATTTGGTCTTCTTC
* * *
36942012 TCAGTATCTCATTAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTATATCTCATCAGG
66 TCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT-CTCTTCTCTATATCTCATCAAG
* * * *
36942077 AAGACGAATTTGGTCCGCTTCTCAGTAGCTCATCAGGAAGCTAATCGCTTTATTGCTTCGACCTG
130 AAGACGAATTTGGTCCGCTTCTCAGTATCTCATCAGGAAGATAAACACTTTATTGCTTCGACCTG
36942142 CTTCTCAGTG
195 CTTCTCAGTG
* * * *
36942152 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGA--GT-G-CTGAGTTGGTATACTTC
1 TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCGTGGTTTGATTTGGTCTTCTTC
* * * *
36942213 TCTGTATCTTATCAGGAAGACGACCGCCTCACTTGTTTCAATTCTCTTCTCTATATCTCATCAAG
66 TCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAA-TCTCTTCTCTATATCTCATCAAG
* * *
36942278 AAGATGAATTTGGTTCGCTTCTCAGTGTCTCATCAGGAAG
130 AAGACGAATTTGGTCCGCTTCTCAGTATCTCATCAGGAAG
36942318 CTATGGTTCG
Statistics
Matches: 336, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
201 105 0.31
202 2 0.01
203 2 0.01
205 183 0.54
206 44 0.13
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (204 bp):
TCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCGTGGTTTGATTTGGTCTTCTTC
TCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTCTTCTCTATATCTCATCAAGA
AGACGAATTTGGTCCGCTTCTCAGTATCTCATCAGGAAGATAAACACTTTATTGCTTCGACCTGC
TTCTCAGTG
Found at i:36942204 original size:527 final size:527
Alignment explanation
Indices: 36941205--36942613 Score: 1898
Period size: 527 Copynumber: 2.6 Consensus size: 527
36941195 ACTTCGACCT
* * * *
36941205 GCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTACTCGCATCGAGCTTGGGTTTGAT
1 GCTTCTCTGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCTTGGGTTTGAT
* * * *
36941270 TTGGTCTTCTTCTCATTGTCTCATCAAGAAGATGATCGCATCACTTGTTTCAATCCGCTGCTCTG
66 TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTGCTCTG
*
36941335 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCA---TAT
131 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTAT
* * *
36941397 TGCTTTGACCTGCTTCTCAGTATCTCATCAGGAAATTGGGGTTCGAAGATTTGCTCGTATTGAGC
196 TGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATTGAGC
*
36941462 GTGGGTTTGATTTGGTCTTCTTCACAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
261 GT-GGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
** * * *
36941527 CTGCTTTTCTATATCTCATTAGGAAGACGAATTTGCTCTGCTTCTCAGTAACTCATCAGGAAGCT
325 CCACTTCTCTATATCTCATCAGGAAGACGAATTTGCTCCGCTTCTCAGTAACTCATCAGGAAGCT
*
36941592 AACCGCTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTATGGTTCGAAGATTTGC
390 AACCGCTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGC
* *
36941657 TCGCATCGAGTGCTGAGTTGGTATACTTCTTTGTATCTCATCAGGAAGACGATCGCCTCACTTGT
455 TCGCATCGAGTGCTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGACGACCGCCTCACTTGT
36941722 TTCAATTC
520 TTCAATTC
*
36941730 GCTTTTCTGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCTTGGGTTTGAT
1 GCTTCTCTGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCTTGGGTTTGAT
* * *
36941795 TTGGTCTTCTTCTCGGTGTCTCATCAGGAAGATGACCGCATCACTTGCTTCAATCTGCTGCTTTG
66 TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTGCTCTG
* * *
36941860 TATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATAAACATTTTAT
131 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTAT
* * *
36941925 TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATCGAGC
196 TGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATTGAGC
*
36941990 GTGGTTTGATTTGGTCTTCTTCTCAGTATCTCATTAGGAAGATGACCGCATCACTTGTTTCAATC
261 GTGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATC
* *
36942055 CACTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCGCTTCTCAGTAGCTCATCAGGAAGCTA
326 CACTTCTCTATATCTCATCAGGAAGACGAATTTGCTCCGCTTCTCAGTAACTCATCAGGAAGCTA
*
36942120 ATCGCTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCT
391 ACCGCTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCT
*
36942185 CGCATCGAGTGCTGAGTTGGTATACTTCTCTGTATCTTATCAGGAAGACGACCGCCTCACTTGTT
456 CGCATCGAGTGCTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGACGACCGCCTCACTTGTT
36942250 TCAATTC
521 TCAATTC
* *
36942257 TCTTCTCTATATCTCATCAAGAAGATGAATTTGGTTCGCTTCTCAGTGTCTCATCAGGAAGCTAT
1 GCTTCTCTGTATCTCATC----AG--G-A---------------A--G---C-T-----AG----
** * * *
36942322 GGTTCGAAGATTTGCTCATATTGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGG
29 GGTTCGAAGATTTGCTCGCATCGAGCTTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGG
** **
36942387 AAGATGACCGCATCGTTTGTTTCAAT-TCGCTTATCTGTATCTCATCAGGAAGACGAATTTGGTC
94 AAGATGACCGCATCACTTGTTTCAATCT-GCTGCTCTGTATCTCATCAGGAAGACGAATTTGGTC
36942451 CACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCA
158 CACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCA
* * * * * * * * *
36942516 TCAGGAAGTTGGGGTTCAAAGATTTGCTCACTTTAAGC----CTTGAGTTGGTATACTTCTCTGT
223 TCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATTGAGCGTGGTTTGATTTGGTCTTCTTCTCAGT
*
36942577 ATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAAT
288 ATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
36942614 AATCGTAATC
Statistics
Matches: 775, Mismatches: 68, Indels: 47
0.87 0.08 0.05
Matches are distributed among these distances:
525 173 0.22
527 266 0.34
528 64 0.08
531 2 0.00
533 1 0.00
534 1 0.00
549 1 0.00
551 1 0.00
554 1 0.00
555 1 0.00
560 55 0.07
563 1 0.00
564 208 0.27
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (527 bp):
GCTTCTCTGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGCTTGGGTTTGAT
TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTGCTCTG
TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTAT
TGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCATTGAGC
GTGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATC
CACTTCTCTATATCTCATCAGGAAGACGAATTTGCTCCGCTTCTCAGTAACTCATCAGGAAGCTA
ACCGCTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCT
CGCATCGAGTGCTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGACGACCGCCTCACTTGTT
TCAATTC
Found at i:36942333 original size:153 final size:156
Alignment explanation
Indices: 36942141--36942478 Score: 439
Period size: 158 Copynumber: 2.2 Consensus size: 156
36942131 GCTTCGACCT
*
36942141 GCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGA-GT-G-CTGAGTT
1 GCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGACGTGGTCTGAGTT
* * * * *
36942203 GGTATACTTCTCTGTATCTTATCAGGAAGACGACCGCCTCACTTGTTTCAATTCTCTTCTCTATA
66 GGTATACTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTTGTTTCAATTCGCTTATCTATA
* *
36942268 TCTCATCAAGAAGATGAATTTGGTTC
131 TCTCATCAAGAAGACGAATTTGGTCC
* * * * *
36942294 GCTTCTCAGTGTCTCATCAGGAAGCTATGGTTCGAAGATTTGCTCATATTGAGCGTGGGTTTGAT
1 GCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGA-CGT-GGTCTGAG
* * * ** *
36942359 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATTCGCTTATCTG
64 TTGGTATACTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTTGTTTCAATTCGCTTATCTA
*
36942424 TATCTCATCAGGAAGACGAATTTGGTCC
129 TATCTCATCAAGAAGACGAATTTGGTCC
* *
36942452 ACTTCTCAGTATCTCATCAGGAAGCTA
1 GCTTCTCAGTGTCTCATCAGGAAGCTA
36942479 ACCATTTTAT
Statistics
Matches: 158, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
153 48 0.30
155 2 0.01
157 1 0.01
158 107 0.68
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (156 bp):
GCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGACGTGGTCTGAGTT
GGTATACTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTTGTTTCAATTCGCTTATCTATA
TCTCATCAAGAAGACGAATTTGGTCC
Found at i:36942599 original size:359 final size:358
Alignment explanation
Indices: 36941936--36942613 Score: 1079
Period size: 359 Copynumber: 1.9 Consensus size: 358
36941926 GCTTCGACCT
* *
36941936 GCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATCGAGCGTGGTTTGATT
1 GCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGTTTGATT
* *
36942001 TGGTCTTCTTCTCAGTATCTCATTAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTAT
66 TGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTATCTAT
* * *
36942066 ATCTCATCAGGAAGACGAATTTGGTCCGCTTCTCAGTAGCTCATCAGGAAGCTAATCGCTTTATT
131 ATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAGCTCATCAGGAAGCTAACCACTTTATT
* * * * *
36942131 GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCGCATCGAGTG
196 GCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCAAAGATTTGCTCACATCAAGTC
*
36942196 CTGAGTTGGTATACTTCTCTGTATCTTATCAGGAAGACGACCGCCTCACTTGTTTCAATTCTCTT
261 CTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGACGACCGCCTCACTTGTTTCAATTCTCTT
36942261 CTCTATATCTCATCAAGAAGATGAATTTGGTTC
326 CTCTATATCTCATCAAGAAGATGAATTTGGTTC
* * *
36942294 GCTTCTCAGTGTCTCATCAGGAAGCTATGGTTCGAAGATTTGCTCATATTGAGCGTGGGTTTGAT
1 GCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGT-GGTTTGAT
** * * *
36942359 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATTCGCTTATCTG
65 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTATCTA
* *
36942424 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTAT
130 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAGCTCATCAGGAAGCTAACCACTTTAT
* * * *
36942489 TGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCAAAGATTTGCTCACTTTAAG-
195 TGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCAAAGATTTGCTCACATCAAGT
*
36942553 CCTTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAAT
260 CC-TGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGACGACCGCCTCACTTGTTTCAAT
36942614 AATCGTAATC
Statistics
Matches: 290, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
358 52 0.18
359 238 0.82
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (358 bp):
GCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGTTTGATT
TGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTATCTAT
ATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAGCTCATCAGGAAGCTAACCACTTTATT
GCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCAAAGATTTGCTCACATCAAGTC
CTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGACGACCGCCTCACTTGTTTCAATTCTCTT
CTCTATATCTCATCAAGAAGATGAATTTGGTTC
Found at i:36943046 original size:50 final size:49
Alignment explanation
Indices: 36942992--36943156 Score: 142
Period size: 49 Copynumber: 3.3 Consensus size: 49
36942982 GCCATTACGA
*
36942992 CTTAAACCTTTCCCTTTTGTATCTTTATGGTACTGGATCCGTCATTGCGG
1 CTTAAACCTTTCCCTTTTGTATCTTTATGGTACTGGATCCG-CGTTGCGG
* *
36943042 CTTAAATC-TTCCCTTTTG--TCTTCTGA-GGTACATGG-TCCGCTGTTGCGA
1 CTTAAACCTTTCCCTTTTGTATCTT-T-ATGGTAC-TGGATCCGC-GTTGCGG
* * * * *
36943090 CTTAGACCTTTCTCTTTTGTATCTTTGTGGTACTGAATCTGCCGTTGCGG
1 CTTAAACCTTTCCCTTTTGTATCTTTATGGTACTGGATCCG-CGTTGCGG
* *
36943140 TCTTAGATCTTTCCCTT
1 -CTTAAACCTTTCCCTT
36943157 CGTGTTTCTA
Statistics
Matches: 92, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
47 5 0.05
48 21 0.23
49 25 0.27
50 22 0.24
51 19 0.21
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (49 bp):
CTTAAACCTTTCCCTTTTGTATCTTTATGGTACTGGATCCGCGTTGCGG
Found at i:36944414 original size:24 final size:24
Alignment explanation
Indices: 36944370--36944515 Score: 129
Period size: 24 Copynumber: 5.9 Consensus size: 24
36944360 GACCTCTCCT
*
36944370 TTTTCTATTTTTATTTCTCTTTTTCC
1 TTTTCT-TTTTTCTTT-TCTTTTTCC
*
36944396 TTTTCTTTTTTCTTTTC-TTTTAC
1 TTTTCTTTTTTCTTTTCTTTTTCC
* *
36944419 TTTTC-TTCTTCTTTTCTTTTTTC
1 TTTTCTTTTTTCTTTTCTTTTTCC
*
36944442 TTCTT-TTTCTTCTTTTCTTTTTCC
1 TT-TTCTTTTTTCTTTTCTTTTTCC
* *
36944466 TTTT-TTTTCTTCTTTTTTCTTTTCT
1 TTTTCTTTT-TTCTTTTCT-TTTTCC
36944491 TCTTTCTTTTTTTCTTTTTCTTTTT
1 T-TTTC-TTTTTTC-TTTTCTTTTT
36944516 TTTTTTTTCT
Statistics
Matches: 102, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.10
23 22 0.22
24 31 0.30
25 14 0.14
26 9 0.09
27 7 0.07
28 9 0.09
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTCTTTTTTCTTTTCTTTTTCC
Found at i:36944437 original size:46 final size:47
Alignment explanation
Indices: 36944387--36944528 Score: 134
Period size: 46 Copynumber: 3.0 Consensus size: 47
36944377 TTTTTATTTC
36944387 TCTTTTTCCTTTTCTTTTTTCTTTTCTTTTAC-TTTTCTTCTTCTTT
1 TCTTTTTCCTTTTCTTTTTTCTTTTCTTTTACTTTTTCTTCTTCTTT
* * * *
36944433 TCTTTTTTCTTCTT-TTTCTTCTTTTCTTTTTCCTTTTTTTTCTTCTTT
1 TCTTTTTCCTT-TTCTTTTTTCTTTTC-TTTTACTTTTTCTTCTTCTTT
* *
36944481 TTTCTTTTCTTCTTTCTTTTTTTCTTTTTCTTTT--TTTTT-TT-TTCTTT
1 TCT-TTTTCCT-TTTC-TTTTTTC-TTTTCTTTTACTTTTTCTTCTTCTTT
36944528 T
1 T
36944529 ATTTATTGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 15
0.78 0.08 0.15
Matches are distributed among these distances:
46 21 0.26
47 14 0.17
48 17 0.21
49 12 0.15
50 1 0.01
51 10 0.12
52 5 0.06
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (47 bp):
TCTTTTTCCTTTTCTTTTTTCTTTTCTTTTACTTTTTCTTCTTCTTT
Found at i:36944479 original size:51 final size:51
Alignment explanation
Indices: 36944372--36944526 Score: 180
Period size: 52 Copynumber: 3.0 Consensus size: 51
36944362 CCTCTCCTTT
* *
36944372 TTCTATTTTTATTTCTCTT-TTTCCTTTTCTT-TTTTC-TTTTCTTTTACTTTTC
1 TTCT-TTTTTCTTT-TCTTCTTTCTTTTTCTTCTTTTCTTTTTCTTTT--TTTTC
36944424 TTCTTCTTTTCTTTT-TTC-TTCTTTTTCTTCTTTTCTTTTTCCTTTTTTTTC
1 TTCTT-TTTTCTTTTCTTCTTTCTTTTTCTTCTTTTCTTTTT-CTTTTTTTTC
36944475 TTCTTTTTTCTTTTCTTCTTTCTTTTT-TTCTTTTTCTTTTT-TTTTTTTTC
1 TTCTTTTTTCTTTTCTTCTTTCTTTTTCTTC-TTTTCTTTTTCTTTTTTTTC
36944525 TT
1 TT
36944527 TTATTTATTG
Statistics
Matches: 93, Mismatches: 2, Indels: 18
0.82 0.02 0.16
Matches are distributed among these distances:
50 32 0.34
51 23 0.25
52 33 0.35
53 5 0.05
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (51 bp):
TTCTTTTTTCTTTTCTTCTTTCTTTTTCTTCTTTTCTTTTTCTTTTTTTTC
Found at i:36944481 original size:70 final size:66
Alignment explanation
Indices: 36944368--36944528 Score: 186
Period size: 66 Copynumber: 2.4 Consensus size: 66
36944358 TCGACCTCTC
* *
36944368 CTTTTTCTATTT-TTATTTCTCTTTTTCCTTTTCTTTTTTCTTTTCTTTTACTTTTCTTC-TTCT
1 CTTTTTCTTTTTCTTCTTT-TCTTTTTCCTTTTCTTTTTTC--TT-TTTT-CTTTTCTTCTTTCT
36944431 TTTCTTT
61 TTT-TTT
36944438 -TTTCTTCTTTTTCTTCTTTTCTTTTTCCTTTT-TTTTCTTCTTTTTTCTTTTCTTCTTTCTTTT
1 CTTT-TTCTTTTTCTTCTTTTCTTTTTCCTTTTCTTTT-TTCTTTTTTCTTTTCTTCTTTCTTTT
36944501 TTT
64 TTT
* *
36944504 CTTTTTCTTTTTTTTTTTTTCTTTT
1 CTTTTTCTTTTTCTTCTTTTCTTTT
36944529 ATTTATTGAA
Statistics
Matches: 82, Mismatches: 4, Indels: 14
0.82 0.04 0.14
Matches are distributed among these distances:
66 31 0.38
67 14 0.17
68 2 0.02
69 7 0.09
70 23 0.28
71 5 0.06
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (66 bp):
CTTTTTCTTTTTCTTCTTTTCTTTTTCCTTTTCTTTTTTCTTTTTTCTTTTCTTCTTTCTTTTTT
T
Found at i:36944520 original size:12 final size:12
Alignment explanation
Indices: 36944369--36944528 Score: 108
Period size: 12 Copynumber: 12.8 Consensus size: 12
36944359 CGACCTCTCC
36944369 TTTTTCTATTTTT
1 TTTTTCT-TTTTT
* *
36944382 ATTTCTCTTTTTC
1 -TTTTTCTTTTTT
*
36944395 CTTTTCTTTTTT
1 TTTTTCTTTTTT
*
36944407 CTTTTCTTTTACTTT
1 TTTTTC-TTT--TTT
*
36944422 TCTTCTTCTTTTCT
1 T-TT-TTCTTTTTT
*
36944436 TTTTTCTTCTTT
1 TTTTTCTTTTTT
* *
36944448 TTCTTCTTTTCT
1 TTTTTCTTTTTT
*
36944460 TTTTCCTTTTTT
1 TTTTTCTTTTTT
*
36944472 TTCTTCTTTTTT
1 TTTTTCTTTTTT
* *
36944484 CTTTTCTTCTTTC
1 TTTTTCTT-TTTT
*
36944497 TTTTT-TTCTTT
1 TTTTTCTTTTTT
*
36944508 TTCTT-TTTTTT
1 TTTTTCTTTTTT
36944519 TTTTTCTTTT
1 TTTTTCTTTT
36944529 ATTTATTGAA
Statistics
Matches: 113, Mismatches: 26, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
11 15 0.13
12 62 0.55
13 16 0.14
14 9 0.08
15 3 0.03
16 5 0.04
17 3 0.03
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:36949740 original size:30 final size:29
Alignment explanation
Indices: 36949634--36949828 Score: 168
Period size: 29 Copynumber: 6.7 Consensus size: 29
36949624 TGGACTCTCG
*
36949634 AGGGTAAAAATGGAA-TTTTGAAAATTTT
1 AGGGTAAAAATGGAATTTTTGAAAGTTTT
* * * *
36949662 AGGGTTAAAGAT-GACATTTTAGACA-TTTG
1 AGGG-TAAAAATGGA-ATTTTTGAAAGTTTT
36949691 AGGGT-AAAATGGTAATTTTTGAAAGTTTTT
1 AGGGTAAAAATGG-AATTTTTGAAAG-TTTT
* **
36949721 A-GGTCAAAAATGGAATTTTTGGAAGTTCG
1 AGGGT-AAAAATGGAATTTTTGAAAGTTTT
*
36949750 AGGGTAAAAATGTAATTTTTGAAAGTTTT
1 AGGGTAAAAATGGAATTTTTGAAAGTTTT
* *
36949779 AGGGTTAAAAATGTAATTTTT-AGAAGTTTG
1 AGGG-TAAAAATGGAATTTTTGA-AAGTTTT
**
36949809 AGGGTAAAAATATAATTTTT
1 AGGGTAAAAATGGAATTTTT
36949829 AGGAGTTTCG
Statistics
Matches: 138, Mismatches: 17, Indels: 23
0.78 0.10 0.13
Matches are distributed among these distances:
27 4 0.03
28 16 0.12
29 61 0.44
30 50 0.36
31 7 0.05
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTTGAAAGTTTT
Found at i:36949836 original size:59 final size:59
Alignment explanation
Indices: 36949633--36949828 Score: 242
Period size: 59 Copynumber: 3.4 Consensus size: 59
36949623 TTGGACTCTC
* * *
36949633 GAGGGTAAAAATGGAA-TTTTGAAAATTTTAGGGTTAAAGATG-ACA-TTTTAGACA-TTT
1 GAGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTTAAAAATGTA-ATTTTTAGA-AGTTT
* * * *
36949690 GAGGGT-AAAATGGTAATTTTTGAAAGTTTTTA-GGTCAAAAATGGAATTTTTGGAAGTTC
1 GAGGGTAAAAAT-GTAATTTTTGAAAG-TTTTAGGGTTAAAAATGTAATTTTTAGAAGTTT
36949749 GAGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTTAAAAATGTAATTTTTAGAAGTTT
1 GAGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTTAAAAATGTAATTTTTAGAAGTTT
*
36949808 GAGGGTAAAAATATAATTTTT
1 GAGGGTAAAAATGTAATTTTT
36949829 AGGAGTTTCG
Statistics
Matches: 120, Mismatches: 11, Indels: 14
0.83 0.08 0.10
Matches are distributed among these distances:
56 5 0.04
57 9 0.08
58 24 0.20
59 77 0.64
60 5 0.04
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (59 bp):
GAGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTTAAAAATGTAATTTTTAGAAGTTT
Found at i:36951810 original size:24 final size:24
Alignment explanation
Indices: 36951755--36951831 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
36951745 GTATTGGACA
* *
36951755 TTAAATTTAAACTAAATTCAAACTT
1 TTAAATTTAAAATAAATTTAAA-TT
* *
36951780 AAATTAAATTTAAAATACATTTGAATT
1 ---TTAAATTTAAAATAAATTTAAATT
*
36951807 TTAAATTTTAAATAAATTTAAATT
1 TTAAATTTAAAATAAATTTAAATT
36951831 T
1 T
36951832 AGAATAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
24 22 0.52
27 2 0.05
28 18 0.43
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (24 bp):
TTAAATTTAAAATAAATTTAAATT
Found at i:36951826 original size:17 final size:17
Alignment explanation
Indices: 36951806--36951862 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
36951796 ACATTTGAAT
36951806 TTTAAATTTTAAATAAA
1 TTTAAATTTTAAATAAA
36951823 TTTAAA-TTTAGAATAAA
1 TTTAAATTTTA-AATAAA
36951840 TTT-AATTTTAAAATAAA
1 TTTAAATTTT-AAATAAA
36951857 TTTAAA
1 TTTAAA
36951863 ATGGTTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.17
17 27 0.75
18 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TTTAAATTTTAAATAAA
Found at i:36955063 original size:43 final size:44
Alignment explanation
Indices: 36954987--36955151 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 44
36954977 TGACATTGAA
* * * * *
36954987 AGGAACACTATTTCACAAAAATTGTAAGTATGTGA-CAGAACGAG
1 AGGAACACTGTTTC-CTAATATTGAAAGTATGTGATCAGAATGAG
* *
36955031 AGGAACACTGTTTCCTAATATTGAAAGTATGTGATC-GATTGTG
1 AGGAACACTGTTTCCTAATATTGAAAGTATGTGATCAGAATGAG
* * *
36955074 TGGAACATTGTTTCCTAATATTAAAAGTATGTGATCA-AATGA-
1 AGGAACACTGTTTCCTAATATTGAAAGTATGTGATCAGAATGAG
* * * *
36955116 ATGGAACATTGTTTCCTCATATTGATAGTATATGAT
1 A-GGAACACTGTTTCCTAATATTGAAAGTATGTGAT
36955152 TGATTGAGAG
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
43 87 0.86
44 14 0.14
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (44 bp):
AGGAACACTGTTTCCTAATATTGAAAGTATGTGATCAGAATGAG
Found at i:36957140 original size:20 final size:19
Alignment explanation
Indices: 36957117--36957167 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
36957107 AAATATTAAC
*
36957117 TTTTCCAAAAAAGTAACTAA
1 TTTTCCAAAAAA-TAAATAA
*
36957137 TTTTCCAGAAAAATAAATCA
1 TTTTCCA-AAAAATAAATAA
36957157 TTTTCCAAAAA
1 TTTTCCAAAAA
36957168 TCATTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 19 0.68
21 5 0.18
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (19 bp):
TTTTCCAAAAAATAAATAA
Found at i:36959699 original size:59 final size:60
Alignment explanation
Indices: 36959560--36959705 Score: 240
Period size: 60 Copynumber: 2.5 Consensus size: 60
36959550 TTAACATAAC
* * *
36959560 ATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTACCTAAACTTTTTTTTGACCCA
1 ATTTGGTACCTGAACTTGACATATTTTCCTAATTTGATACCTAAACTTTTTTTGGACCCA
*
36959620 ATTTGGTGCCTGAACTTGACATATTTTCCTAATTTGATACCTAAAC-TTTTTTGGACCCA
1 ATTTGGTACCTGAACTTGACATATTTTCCTAATTTGATACCTAAACTTTTTTTGGACCCA
*
36959679 ATTTGGTACCTGAACTTGACATTTTTT
1 ATTTGGTACCTGAACTTGACATATTTT
36959706 TAACATAACA
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
59 37 0.46
60 43 0.54
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (60 bp):
ATTTGGTACCTGAACTTGACATATTTTCCTAATTTGATACCTAAACTTTTTTTGGACCCA
Found at i:36959729 original size:95 final size:96
Alignment explanation
Indices: 36959620--36959802 Score: 305
Period size: 95 Copynumber: 1.9 Consensus size: 96
36959610 TTTTGACCCA
* *
36959620 ATTTGGTGCCTGAACTTGACATATTTTCCTAATTTGATACCTAAAC-TTTTTTGGACCCAATTTG
1 ATTTGGTACCTGAACTTGACACATTTTCCTAATTTGATACCTAAACTTTTTTTGGACCCAATTTG
*
36959684 GTACCTGAACTTGACATTTTTTTAACATAAC
66 GTACCTGAACTTGACATATTTTTAACATAAC
* *
36959715 ATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTACCTAAACTTTTTTTTGACCCAATTTG
1 ATTTGGTACCTGAACTTGACACATTTTCCTAATTTGATACCTAAACTTTTTTTGGACCCAATTTG
*
36959780 GTGCCTGAACTTGACATATTTTT
66 GTACCTGAACTTGACATATTTTT
36959803 CCTAATTTGA
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 43 0.53
96 38 0.47
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (96 bp):
ATTTGGTACCTGAACTTGACACATTTTCCTAATTTGATACCTAAACTTTTTTTGGACCCAATTTG
GTACCTGAACTTGACATATTTTTAACATAAC
Found at i:36959811 original size:61 final size:61
Alignment explanation
Indices: 36959715--36959907 Score: 282
Period size: 60 Copynumber: 3.2 Consensus size: 61
36959705 TTAACATAAC
*
36959715 ATTTGGTACCTGAACTTGACACA-TTTTCCTAATTTGGTACCTAAACTTTTTTTTGACCCA
1 ATTTGGTACCTGAACTTGACATATTTTTCCTAATTTGGTACCTAAACTTTTTTTTGACCCA
* * *
36959775 ATTTGGTGCCTGAACTTGACATATTTTTCCTAATTTGATACCTAAAC-TTTTTTGGACCCA
1 ATTTGGTACCTGAACTTGACATATTTTTCCTAATTTGGTACCTAAACTTTTTTTTGACCCA
* * **
36959835 ATTTGGTACCTGAACTTGACATTTTTTTCCTAATTTGGTACCTAATCTTTTTTTTAGATTCA
1 ATTTGGTACCTGAACTTGACATATTTTTCCTAATTTGGTACCTAAACTTTTTTTT-GACCCA
*
36959897 ATTTAGTACCT
1 ATTTGGTACCT
36959908 AAATTTATTA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
60 76 0.64
61 28 0.24
62 14 0.12
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (61 bp):
ATTTGGTACCTGAACTTGACATATTTTTCCTAATTTGGTACCTAAACTTTTTTTTGACCCA
Found at i:36959860 original size:155 final size:155
Alignment explanation
Indices: 36959549--36959862 Score: 619
Period size: 155 Copynumber: 2.0 Consensus size: 155
36959539 TAAAATAAGG
36959549 TTTAACATAACATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTACCTAAACTTTTTTTT
1 TTTAACATAACATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTACCTAAACTTTTTTTT
36959614 GACCCAATTTGGTGCCTGAACTTGACATATTTTCCTAATTTGATACCTAAACTTTTTTGGACCCA
66 GACCCAATTTGGTGCCTGAACTTGACATATTTTCCTAATTTGATACCTAAACTTTTTTGGACCCA
36959679 ATTTGGTACCTGAACTTGACATTTT
131 ATTTGGTACCTGAACTTGACATTTT
36959704 TTTAACATAACATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTACCTAAACTTTTTTTT
1 TTTAACATAACATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTACCTAAACTTTTTTTT
36959769 GACCCAATTTGGTGCCTGAACTTGACATATTTTTCCTAATTTGATACCTAAACTTTTTTGGACCC
66 GACCCAATTTGGTGCCTGAACTTGACATA-TTTTCCTAATTTGATACCTAAACTTTTTTGGACCC
36959834 AATTTGGTACCTGAACTTGACATTTT
130 AATTTGGTACCTGAACTTGACATTTT
36959860 TTT
1 TTT
36959863 CCTAATTTGG
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 94 0.59
156 64 0.41
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (155 bp):
TTTAACATAACATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTACCTAAACTTTTTTTT
GACCCAATTTGGTGCCTGAACTTGACATATTTTCCTAATTTGATACCTAAACTTTTTTGGACCCA
ATTTGGTACCTGAACTTGACATTTT
Found at i:36960474 original size:29 final size:28
Alignment explanation
Indices: 36960439--36960515 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 28
36960429 AATGATCATT
*
36960439 TTAATTCAAATTTCAAAAGTTTAGT-AAA
1 TTAATTCAAATTTCAAAAATTTA-TCAAA
*
36960467 TTACATTCAAAATTT-ATAAAATTTATCAAT
1 TTA-ATTC-AAATTTCA-AAAATTTATCAAA
36960497 TTAATTCAAATTTCAAAAA
1 TTAATTCAAATTTCAAAAA
36960516 CAAACGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
28 13 0.31
29 11 0.26
30 18 0.43
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (28 bp):
TTAATTCAAATTTCAAAAATTTATCAAA
Found at i:36961190 original size:3 final size:3
Alignment explanation
Indices: 36961184--36961208 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36961174 ATAAAGATTG
36961184 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
36961209 GATTAGCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36961316 original size:46 final size:46
Alignment explanation
Indices: 36961249--36961344 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
36961239 AAATTAGTCG
* * *
36961249 TACACCACATGATAACTACAATATTTTTCAAGTGCATAACTAGTAT
1 TACACCACATGATAACTACAATATTGTTCAAGCGCATAACTAATAT
36961295 TACACCACATGATAACTACAATATTGTTCAAGCGCATAACTAATAT
1 TACACCACATGATAACTACAATATTGTTCAAGCGCATAACTAATAT
36961341 TACA
1 TACA
36961345 AATTAGTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (46 bp):
TACACCACATGATAACTACAATATTGTTCAAGCGCATAACTAATAT
Found at i:36961391 original size:59 final size:59
Alignment explanation
Indices: 36961289--36961403 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 59
36961279 AGTGCATAAC
* *
36961289 TAGTATTACACCACATGATAACTACAATATTGTTCAAGCGCATAACTAATATTACAAAT
1 TAGTAGTACACCACATGATAACTACAATATTGTCCAAGCGCATAACTAATATTACAAAT
* * *
36961348 TAGTAGTACACCACATGATAACTATAATATTGTCCAAGTGCATAACTAGTATTACA
1 TAGTAGTACACCACATGATAACTACAATATTGTCCAAGCGCATAACTAATATTACA
36961404 CCATATAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (59 bp):
TAGTAGTACACCACATGATAACTACAATATTGTCCAAGCGCATAACTAATATTACAAAT
Found at i:36961416 original size:19 final size:19
Alignment explanation
Indices: 36961389--36961425 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36961379 GTCCAAGTGC
*
36961389 ATAACTAGTATTACACCAT
1 ATAACTAGTACTACACCAT
*
36961408 ATAATTAGTACTACACCA
1 ATAACTAGTACTACACCA
36961426 CATTAAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACTAGTACTACACCAT
Found at i:36962397 original size:14 final size:14
Alignment explanation
Indices: 36962378--36962404 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36962368 TCAATCATTT
36962378 CAATATCCAACAAG
1 CAATATCCAACAAG
36962392 CAATATCCAACAA
1 CAATATCCAACAA
36962405 CTTTAAAATA
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:0.52, C:0.30, G:0.04, T:0.15
Consensus pattern (14 bp):
CAATATCCAACAAG
Found at i:36967022 original size:43 final size:43
Alignment explanation
Indices: 36966961--36967144 Score: 253
Period size: 43 Copynumber: 4.3 Consensus size: 43
36966951 TCTGTTACTG
36966961 TTAGCGGCGTTTGTGGGGAAAGCACCACTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGGAAAGCACCACTAAAGACCATGTTCT
** ** *
36967004 TTAGCGATGTTTGTGGGGAAAGCGTCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGGAAAGCACCACTAAAGACCATGTTCT
* *
36967047 TTAGCGGCATTTGTGGGGAAAGC-GCAGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGGAAAGCACCA-CTAAAGACCATGTTCT
* *
36967090 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGGAAAGCACCACTAAAGACCATGTTCT
* *
36967133 ATAGTGGCGTTT
1 TTAGCGGCGTTT
36967145 TTCCTCATAA
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 121 0.98
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGGAAAGCACCACTAAAGACCATGTTCT
Found at i:36968397 original size:11 final size:12
Alignment explanation
Indices: 36968374--36968402 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
36968364 GTAAAACCTA
36968374 ATTTTTTCTTTT
1 ATTTTTTCTTTT
36968386 ATTTTTTC-TTT
1 ATTTTTTCTTTT
36968397 ATTTTT
1 ATTTTT
36968403 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTTCTTTT
Found at i:36968900 original size:20 final size:20
Alignment explanation
Indices: 36968872--36968928 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
36968862 CCACGTTAGC
*
36968872 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
36968892 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
36968912 AAATTA--TTAAAATTATT
1 AAATTATTTTAAAATTATT
36968929 TTTTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 1 0.03
20 13 0.41
21 2 0.06
22 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:36968923 original size:29 final size:31
Alignment explanation
Indices: 36968881--36968953 Score: 123
Period size: 29 Copynumber: 2.4 Consensus size: 31
36968871 CAAATGATTT
36968881 TAAAATTATTAAAATTA-TTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
*
36968910 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
36968941 TAAAATTATTAAA
1 TAAAATTATTAAA
36968954 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 17 0.41
30 10 0.24
31 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:36968960 original size:30 final size:29
Alignment explanation
Indices: 36968881--36968960 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
36968871 CAAATGATTT
*
36968881 TAAAATTATTAAA-ATTATTTTTTAAAATA
1 TAAAATTATTAAATAAT-TTTTTTAAAATA
* *
36968910 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATT-AAATAATTTTTTTAAAAT-A
36968941 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
36968961 AATTTTCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 10 0.23
30 22 0.50
31 12 0.27
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAATAATTTTTTTAAAATA
Found at i:36969956 original size:30 final size:28
Alignment explanation
Indices: 36969922--36970001 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 28
36969912 ATTGAAAATT
* *
36969922 AAAATTATTAAATAATTTTATTATTTCAAA
1 AAAATAATTTAATAATTTTA-TATTT-AAA
*
36969952 AAAATAATTTTAATAATTTTATATTTTAA
1 AAAATAA-TTTAATAATTTTATATTTAAA
36969981 AAAATAATTCTAATAATTTTA
1 AAAATAATT-TAATAATTTTA
36970002 AAATCATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.04
29 20 0.44
30 11 0.24
31 12 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAATAATTTAATAATTTTATATTTAAA
Found at i:36969994 original size:29 final size:31
Alignment explanation
Indices: 36969932--36970001 Score: 108
Period size: 29 Copynumber: 2.3 Consensus size: 31
36969922 AAAATTATTA
*
36969932 AATAATTTTATTATTTCAAAAAAATAATTTT
1 AATAATTTTATTATTTCAAAAAAATAATTCT
*
36969963 AATAATTTTA-TATTT-TAAAAAATAATTCT
1 AATAATTTTATTATTTCAAAAAAATAATTCT
36969992 AATAATTTTA
1 AATAATTTTA
36970002 AAATCATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 22 0.59
30 5 0.14
31 10 0.27
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
AATAATTTTATTATTTCAAAAAAATAATTCT
Found at i:36972291 original size:15 final size:15
Alignment explanation
Indices: 36972271--36972299 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36972261 CAACTACCGA
36972271 TACAACTCTTGGTTG
1 TACAACTCTTGGTTG
36972286 TACAACTCTTGGTT
1 TACAACTCTTGGTT
36972300 CTACTGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (15 bp):
TACAACTCTTGGTTG
Found at i:36978047 original size:80 final size:80
Alignment explanation
Indices: 36977914--36978072 Score: 318
Period size: 80 Copynumber: 2.0 Consensus size: 80
36977904 CGATGAACAA
36977914 ATCTAAAACACAAAATCAAAACCAAATGTCTAGAGATCTTAATTAATCAAAGATCAAACCATATT
1 ATCTAAAACACAAAATCAAAACCAAATGTCTAGAGATCTTAATTAATCAAAGATCAAACCATATT
36977979 ATTTGAAAGACCAAG
66 ATTTGAAAGACCAAG
36977994 ATCTAAAACACAAAATCAAAACCAAATGTCTAGAGATCTTAATTAATCAAAGATCAAACCATATT
1 ATCTAAAACACAAAATCAAAACCAAATGTCTAGAGATCTTAATTAATCAAAGATCAAACCATATT
36978059 ATTTGAAAGACCAA
66 ATTTGAAAGACCAA
36978073 TCTGAGTTCC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (80 bp):
ATCTAAAACACAAAATCAAAACCAAATGTCTAGAGATCTTAATTAATCAAAGATCAAACCATATT
ATTTGAAAGACCAAG
Found at i:36978054 original size:37 final size:38
Alignment explanation
Indices: 36977924--36978051 Score: 109
Period size: 38 Copynumber: 3.3 Consensus size: 38
36977914 ATCTAAAACA
36977924 CAAA-ATCAAAACCAAATGTCTAGAGATCTTAATTAAT
1 CAAAGATCAAAACCAAATGTCTAGAGATCTTAATTAAT
* * * * ** *
36977961 CAAAGATC-AAACCATATTATTTGAAAGA-CCAAGATCTAAAA
1 CAAAGATCAAAACCA-AATGTCT-AGAGATCTTA-AT-T-AAT
*
36978002 CACAAAATCAAAACCAAATGTCTAGAGATCTTAATTAAT
1 CA-AAGATCAAAACCAAATGTCTAGAGATCTTAATTAAT
36978041 CAAAGATCAAA
1 CAAAGATCAAA
36978052 CCATATTATT
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
37 10 0.15
38 17 0.26
39 10 0.15
40 2 0.03
41 10 0.15
42 11 0.17
43 6 0.09
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (38 bp):
CAAAGATCAAAACCAAATGTCTAGAGATCTTAATTAAT
Found at i:36986196 original size:155 final size:149
Alignment explanation
Indices: 36985876--36986189 Score: 463
Period size: 155 Copynumber: 2.1 Consensus size: 149
36985866 TTTGTCAAAA
* *
36985876 TGGTACAAAATAAATATTTATATATTAAATTGGTATATCCACCACATTTTCGTAATTAATGGTGT
1 TGGTAAAAAATAAATATTTATATATTAAATTGGTATATCCACCACATTTTCGTAATTAATGGTAT
* * * *
36985941 GTGGATACCATTTTGGTATATAAATATTTATTTTGTATCATTTTAGTAAATAACCCATTTTAGTA
66 GTGAATACCATTTTGGTATATAAATATTTACTTTCTATCATTTTAG---ATAA--CA-TTGAGTA
36986006 TTTAATTATTATTTTTGTATTATAT
125 TTTAATTATTATTTTTGTATTATAT
* * *
36986031 TGGTACAAAATATATATTTATATATTAAATTGGTATATCCACCACATTTTTGTAATTAATGGTAT
1 TGGTAAAAAATAAATATTTATATATTAAATTGGTATATCCACCACATTTTCGTAATTAATGGTAT
*
36986096 GTGAATATCATTTTGGTATATAAATATTTACTTTCTATCATTTTAG-TAA-A-TGAGTATTTAAT
66 GTGAATACCATTTTGGTATATAAATATTTACTTTCTATCATTTTAGATAACATTGAGTATTTAAT
36986158 TATTATTTTTGTATTATAT
131 TATTATTTTTGTATTATAT
36986177 TGGTAAAAAATAA
1 TGGTAAAAAATAA
36986190 TAAAAATTGT
Statistics
Matches: 149, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
146 41 0.28
148 1 0.01
151 3 0.02
155 104 0.70
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (149 bp):
TGGTAAAAAATAAATATTTATATATTAAATTGGTATATCCACCACATTTTCGTAATTAATGGTAT
GTGAATACCATTTTGGTATATAAATATTTACTTTCTATCATTTTAGATAACATTGAGTATTTAAT
TATTATTTTTGTATTATAT
Found at i:36987410 original size:43 final size:43
Alignment explanation
Indices: 36987328--36987412 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
36987318 ATTAACATGT
* *
36987328 TAAATTATATTACTGGACTCGTGCTAATATGGTTGCATGTTAC
1 TAAATTATATTACTGGACTCGTACTAATATGCTTGCATGTTAC
* * *
36987371 TAAATTATATTACTTGACTCTTATTAATAT-CTTGACATGTTA
1 TAAATTATATTACTGGACTCGTACTAATATGCTTG-CATGTTA
36987413 TTAATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (43 bp):
TAAATTATATTACTGGACTCGTACTAATATGCTTGCATGTTAC
Found at i:36988031 original size:21 final size:21
Alignment explanation
Indices: 36988005--36988050 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
36987995 ACAAGCCACC
* *
36988005 GCAATACTTTACTCCTCCTGG
1 GCAATACTCTACTCCTCCAGG
*
36988026 GCAATACTCTACTCCTTCAGG
1 GCAATACTCTACTCCTCCAGG
36988047 GCAA
1 GCAA
36988051 AGGGACCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (21 bp):
GCAATACTCTACTCCTCCAGG
Found at i:36988309 original size:14 final size:14
Alignment explanation
Indices: 36988292--36988424 Score: 90
Period size: 14 Copynumber: 9.3 Consensus size: 14
36988282 CATAAACCAT
36988292 AAACCTTAAATTTA
1 AAACCTTAAATTTA
*
36988306 AAACCTTAAACCTT-
1 AAACCTTAAA-TTTA
* ** *
36988320 ATACCCCAAATTCA
1 AAACCTTAAATTTA
* *
36988334 AAGCCCTAAATTTA
1 AAACCTTAAATTTA
* *
36988348 AAACCTTATATTCA
1 AAACCTTAAATTTA
*
36988362 AAACCCTAAATATT-
1 AAACCTTAAAT-TTA
*
36988376 AAACCTTAAAAATTCA
1 AAACCTT--AAATTTA
*
36988392 AAACCTTTAATTTA
1 AAACCTTAAATTTA
*
36988406 AAACCCTAAAATTTA
1 AAA-CCTTAAATTTA
36988421 AAAC
1 AAAC
36988425 ACTAAACCCT
Statistics
Matches: 89, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
13 1 0.01
14 61 0.69
15 16 0.18
16 11 0.12
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (14 bp):
AAACCTTAAATTTA
Found at i:36988361 original size:28 final size:29
Alignment explanation
Indices: 36988327--36988430 Score: 113
Period size: 28 Copynumber: 3.6 Consensus size: 29
36988317 CTTATACCCC
*
36988327 AAATTCAAAGCCCTAAATTTAAAACCTT-
1 AAATTCAAAACCCTAAATTTAAAACCTTA
*
36988355 ATATTCAAAACCCTAAATATT-AAACCTTAA
1 AAATTCAAAACCCTAAAT-TTAAAACCTT-A
* * *
36988385 AAATTCAAAACCTTTAATTTAAAACCCTA
1 AAATTCAAAACCCTAAATTTAAAACCTTA
* *
36988414 AAATTTAAAACACTAAA
1 AAATTCAAAACCCTAAA
36988431 CCCTTAAACC
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 23 0.37
29 18 0.29
30 21 0.34
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (29 bp):
AAATTCAAAACCCTAAATTTAAAACCTTA
Found at i:36990392 original size:27 final size:27
Alignment explanation
Indices: 36990326--36990386 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
36990316 CCTTCCGTCG
36990326 ACTTGATAACCCT-CATGAGTGTCGCC
1 ACTTGATAACCCTCCATGAGTGTCGCC
36990352 ACTTGATAACCCTCCATGAGTGTCGCC
1 ACTTGATAACCCTCCATGAGTGTCGCC
36990379 ACTTGATA
1 ACTTGATA
36990387 CTCCTCTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (27 bp):
ACTTGATAACCCTCCATGAGTGTCGCC
Found at i:37004885 original size:16 final size:17
Alignment explanation
Indices: 37004858--37004889 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37004848 GTTTTTTGTT
37004858 TTGTTAAAATTTGGGTC
1 TTGTTAAAATTTGGGTC
37004875 TTGTT-AAATTTGGGT
1 TTGTTAAAATTTGGGT
37004890 TAAGTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TTGTTAAAATTTGGGTC
Found at i:37011793 original size:21 final size:21
Alignment explanation
Indices: 37011767--37011806 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37011757 AAACGACGTA
*
37011767 GTTTTGCCTTTTAACTTAATG
1 GTTTTGACTTTTAACTTAATG
37011788 GTTTTGACTTTTAACTTAA
1 GTTTTGACTTTTAACTTAA
37011807 GAAAAGATAA
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:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
GTTTTGACTTTTAACTTAATG
Found at i:37013205 original size:47 final size:48
Alignment explanation
Indices: 37013121--37013219 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 48
37013111 CACCACCATC
* *
37013121 TTTTCCTAAGCCTCTCCCATGCATTTGGGAGAAAGGTCA-TCTTATTAT
1 TTTTCATAAGCCTCTCCCATGCATTTAGGAGAAAGGTCACT-TTATTAT
* *
37013169 TTTTCATAAGCC-C-CCTCATGCGTTTAGGAGCAAGGTCACTTTATTAT
1 TTTTCATAAGCCTCTCC-CATGCATTTAGGAGAAAGGTCACTTTATTAT
37013216 TTTT
1 TTTT
37013220 ATTATTCAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
46 2 0.04
47 31 0.69
48 12 0.27
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (48 bp):
TTTTCATAAGCCTCTCCCATGCATTTAGGAGAAAGGTCACTTTATTAT
Found at i:37013408 original size:58 final size:58
Alignment explanation
Indices: 37013261--37013507 Score: 225
Period size: 58 Copynumber: 4.2 Consensus size: 58
37013251 CTATCGGGGA
* * *
37013261 AGGTGAGGCATATCTTCTACATTCT-AGCCCCTCCGTGAACCCTTTTGGGTTCTCGGTAG
1 AGGTGAGGCATATCTTCTACATT-TGAGCCCCTCCGTGAACCCTTTT-GGCTCTCAGCAG
* * * * ** *
37013320 AGGTAAGCCATATTTTCTACATTTGGGCCCCTTTGTGAACCCTTTTGGCTCTTAGCAG
1 AGGTGAGGCATATCTTCTACATTTGAGCCCCTCCGTGAACCCTTTTGGCTCTCAGCAG
* * * *
37013378 AGGTGAGGCATATC-TCTTACATTAT-AGCCCCTTCGTGAATCCTTTGGGCT-T-ATGTCAA
1 AGGTGAGGCATATCTTC-TACATT-TGAGCCCCTCCGTGAACCCTTTTGGCTCTCA-G-CAG
* * * * *
37013436 AGGTGAGGTATATCTTCTACATTTGGGCCCCTCTGTGAATCCTTTGGGCTCTCAGCAG
1 AGGTGAGGCATATCTTCTACATTTGAGCCCCTCCGTGAACCCTTTTGGCTCTCAGCAG
*
37013494 TGGTGAGGCATATC
1 AGGTGAGGCATATC
37013508 ATATCGTAAA
Statistics
Matches: 154, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
56 1 0.01
57 5 0.03
58 104 0.68
59 43 0.28
60 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (58 bp):
AGGTGAGGCATATCTTCTACATTTGAGCCCCTCCGTGAACCCTTTTGGCTCTCAGCAG
Found at i:37013486 original size:116 final size:116
Alignment explanation
Indices: 37013261--37013507 Score: 311
Period size: 116 Copynumber: 2.1 Consensus size: 116
37013251 CTATCGGGGA
* * *
37013261 AGGTGAGGCATATCTTCTACATTCTAGCCCCTCCGTGAACCCTTTTGGGTTCTCGGTAGAGGTAA
1 AGGTGAGGCATATCTTCTACATTATAGCCCCTCCGTGAACCCTTTTGGGTTATC-GTAAAGGTAA
* * * *
37013326 GCCATATTTTCTACATTTGGGCCCCTTTGTGAACCCTTTTGGCTCTTAGCAG
65 GCCATATCTTCTACATTTGGGCCCCTCTGTGAACCCTTTGGGCTCTCAGCAG
* *
37013378 AGGTGAGGCATATC-TCTTACATTATAGCCCCTTCGTGAATCC-TTTGGGCTTAT-GTCAAAGGT
1 AGGTGAGGCATATCTTC-TACATTATAGCCCCTCCGTGAACCCTTTTGGG-TTATCGT-AAAGGT
* ** *
37013440 GAGGTATATCTTCTACATTTGGGCCCCTCTGTGAATCCTTTGGGCTCTCAGCAG
63 AAGCCATATCTTCTACATTTGGGCCCCTCTGTGAACCCTTTGGGCTCTCAGCAG
*
37013494 TGGTGAGGCATATC
1 AGGTGAGGCATATC
37013508 ATATCGTAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
115 2 0.02
116 72 0.64
117 39 0.35
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (116 bp):
AGGTGAGGCATATCTTCTACATTATAGCCCCTCCGTGAACCCTTTTGGGTTATCGTAAAGGTAAG
CCATATCTTCTACATTTGGGCCCCTCTGTGAACCCTTTGGGCTCTCAGCAG
Found at i:37019964 original size:14 final size:14
Alignment explanation
Indices: 37019945--37019974 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37019935 GGATCAATTG
37019945 CATTTAATTATAAT
1 CATTTAATTATAAT
*
37019959 CATTTAATTTTAAT
1 CATTTAATTATAAT
37019973 CA
1 CA
37019975 ACATCAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (14 bp):
CATTTAATTATAAT
Found at i:37037841 original size:11 final size:11
Alignment explanation
Indices: 37037825--37037850 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37037815 CATTTTATCA
37037825 TTTTTTAGCAT
1 TTTTTTAGCAT
37037836 TTTTTTAGCAT
1 TTTTTTAGCAT
37037847 TTTT
1 TTTT
37037851 AACTTAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTTTAGCAT
Done.